Citrus Sinensis ID: 042011

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-
Protein Sequence
MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGICKEYAKEFARNMPRICEEYAAYLNSTNMTLLLIFL
Secondary Structure (PSIPRED)
cccccEEEccccccEEEcccccccccccccEEEccccEEEEEccHHHHcccccccEEEccccEEEEEcccccccccccccccEEEccccccccccccHHHHccccccEEEcccccccccccHHHHHcccccccEEccccEEEEEccccccccccccEEEcccccccccccHHHHHccccccEEEcccccccccccccccccccccEEEcccccccccccHHHHHccccccEEEcccccccccccccccccccccEEEccccccEEcccccccccccccEEEccccccEEcccccccccccccEEEcccccccccccccccccHHHHHHHccccccccccHHHHHHHHHHHcccccEEEEEc
Secondary Structure Prediction (SSPRO)
ccccEEEEEccccccccccHHHHHccccccEEEcccccccccccHHHHcccccccEEEEccccccccccHHHcccccccccEEEEEccccccccccHHHHccccccEEEEcccccccccccHHHHHccccccEEEEccccccccccHHHccccccEEEEcccccccccccHHHHHHHHcccEEEcccccccccccHHHcccccccEEEEccccccccccHHHHHccHcccEEEcccccccccccHHHcccccccEEEcccccccccccHHHccccccEEEEcccccccccccHHHcccccccEEEcccccccccccHHHHccHHHHHHHccccccccccHHHHHHHHHEEcccccEEEEcc
Coil and Loop (DISEMBL)
mtslrildvssnqltgsisssplvhLTSIEELMlsnnhfqipisleplfnhsrlkifyadnnelnaeitqshsliapnfqlnslslssdygdgfifpkflyhqhdlalvdlshikmngefptwllenntkLETLFLVndsltgpfrlpihshrwlEFLDisnnnfrchipveigdilpslkFFNIsmnaldgsipssfgnmnFLRVLDlsnnqltgeipehlavGCVNLESLalsnnsleghmfsrnfnltnlewlqlggnrfvgeipqslskcssleglylnnnslsgnvnvpsspantlfnlsqnsrrftssisHSHLLNLHGICKEYAKEFARNMPRICEEYAAYLNSTNMTLLLIFL
Flexible Loop (DISEMBL)
mtslrildvssnqltgsisssPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGICKEYAKEFARNMPRICEEYAAYLNSTNMTLLLIFL
Low Complexity Region (SEG)
MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVnleslalsnnsleGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCssleglylnnnslsgnvnvpsspANTLFNLSQNSRRFTssishshllnlhGICKEYAKEFARNMPRICEEYAAYLNSTNMTLLLIFL
Disordered region (IsUnstruct)
**********************LVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNN*****************************SISHSHLLNLHGICKEYAKEFARNMPRICEEYAAYLNSTNMTLLLIF*
Disordered Region (DISOPRED)
MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGICKEYAKEFARNMPRICEEYAAYLNSTNMTLLLIFL
Disordered Region (DISEMBL)
MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGICKEYAKEFARNMPRICEEYAAYLNSTNMTLLLIFL
Disordered Region (DISPRO)
*TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGICKEYAKEFARNMPRICEEYAAYLNSTNMTLLLIFL
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGICKEYAKEFARNMPRICEEYAAYLNSTNMTLLLIFL
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	361	2.2.26 [Sep-21-2011]
Q9FZ59	1088	Leucine-rich repeat recep	no	no	0.855	0.284	0.346	1e-25
Q9SSL9	1123	Leucine-rich repeat recep	no	no	0.789	0.253	0.348	8e-24
Q9ZPS9	1143	Serine/threonine-protein	no	no	0.941	0.297	0.284	1e-23
O22476	1196	Protein BRASSINOSTEROID I	no	no	0.831	0.250	0.312	4e-23
C0LGQ5	1249	LRR receptor-like serine/	no	no	0.764	0.220	0.338	5e-23
Q9FIZ3	1252	LRR receptor-like serine/	no	no	0.847	0.244	0.326	2e-22
O80809	720	Leucine-rich repeat recep	no	no	0.756	0.379	0.312	8e-22
Q9LYN8	1192	Leucine-rich repeat recep	no	no	0.891	0.270	0.308	2e-21
C0LGV1	1135	LRR receptor-like serine/	no	no	0.783	0.249	0.331	2e-21
Q9LHP4	1141	Receptor-like protein kin	no	no	0.819	0.259	0.311	3e-21

>sp|Q9FZ59|PEPR2_ARATH Leucine-rich repeat receptor-like protein kinase PEPR2 OS=Arabidopsis thaliana GN=PEPR2 PE=1 SV=1

 Score =  117 bits (293), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 113/326 (34%), Positives = 170/326 (52%), Gaps = 17/326 (5%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHF--QIPISLEPLFNHSRLKIFY 58
           + SL  LD+S N  +G + S+ L + TS+E L LSNN F  ++P     L N   L   Y
Sbjct: 99  LKSLVTLDLSLNSFSGLLPST-LGNCTSLEYLDLSNNDFSGEVPDIFGSLQN---LTFLY 154

Query: 59  ADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG 118
            D N L+  I  S   +    +L  L +S +   G I P+ L +   L  + L++ K+NG
Sbjct: 155 LDRNNLSGLIPAS---VGGLIELVDLRMSYNNLSGTI-PELLGNCSKLEYLALNNNKLNG 210

Query: 119 EFPT--WLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI 176
             P   +LLEN   L  LF+ N+SL G       + + L  LD+S N+F+  +P EIG+ 
Sbjct: 211 SLPASLYLLEN---LGELFVSNNSLGGRLHFGSSNCKKLVSLDLSFNDFQGGVPPEIGNC 267

Query: 177 LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSN 236
             SL    +    L G+IPSS G +  + V+DLS+N+L+G IP+ L   C +LE+L L++
Sbjct: 268 -SSLHSLVMVKCNLTGTIPSSMGMLRKVSVIDLSDNRLSGNIPQELG-NCSSLETLKLND 325

Query: 237 NSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSS 296
           N L+G +      L  L+ L+L  N+  GEIP  + K  SL  + + NN+L+G + V  +
Sbjct: 326 NQLQGEIPPALSKLKKLQSLELFFNKLSGEIPIGIWKIQSLTQMLVYNNTLTGELPVEVT 385

Query: 297 PANTLFNLSQNSRRFTSSISHSHLLN 322
               L  L+  +  F   I  S  LN
Sbjct: 386 QLKHLKKLTLFNNGFYGDIPMSLGLN 411

Acts as a receptor for PEP defense peptides. Unlike typical immune receptors, senses an endogenous elicitor that potentiates PAMP-inducible plant responses.
Arabidopsis thaliana (taxid: 3702)
EC: 2EC: .EC: 7EC: .EC: 1EC: 1EC: .EC: 1

>sp|Q9SSL9|PEPR1_ARATH Leucine-rich repeat receptor-like protein kinase PEPR1 OS=Arabidopsis thaliana GN=PEPR1 PE=1 SV=1

 Score =  111 bits (278), Expect = 8e-24,   Method: Compositional matrix adjust.
 Identities = 110/316 (34%), Positives = 158/316 (50%), Gaps = 31/316 (9%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHF--QIPISL------------- 45
           + SL+ILD+S+N  +G+I S+ L + T +  L LS N F  +IP +L             
Sbjct: 98  LKSLQILDLSTNNFSGTIPST-LGNCTKLATLDLSENGFSDKIPDTLDSLKRLEVLYLYI 156

Query: 46  --------EPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFP 97
                   E LF   +L++ Y D N L   I QS   I    +L  LS+ ++   G I P
Sbjct: 157 NFLTGELPESLFRIPKLQVLYLDYNNLTGPIPQS---IGDAKELVELSMYANQFSGNI-P 212

Query: 98  KFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEF 157
           + + +   L ++ L   K+ G  P   L     L TLF+ N+SL GP R    + + L  
Sbjct: 213 ESIGNSSSLQILYLHRNKLVGSLPES-LNLLGNLTTLFVGNNSLQGPVRFGSPNCKNLLT 271

Query: 158 LDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGE 217
           LD+S N F   +P  +G+   SL    I    L G+IPSS G +  L +L+LS N+L+G 
Sbjct: 272 LDLSYNEFEGGVPPALGNC-SSLDALVIVSGNLSGTIPSSLGMLKNLTILNLSENRLSGS 330

Query: 218 IPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSL 277
           IP  L   C +L  L L++N L G + S    L  LE L+L  NRF GEIP  + K  SL
Sbjct: 331 IPAELG-NCSSLNLLKLNDNQLVGGIPSALGKLRKLESLELFENRFSGEIPIEIWKSQSL 389

Query: 278 EGLYLNNNSLSGNVNV 293
             L +  N+L+G + V
Sbjct: 390 TQLLVYQNNLTGELPV 405

Acts as a receptor for PEP defense peptides. Unlike typical immune receptors, senses an endogenous elicitor that potentiates PAMP-inducible plant responses.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

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

 Score =  110 bits (276), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 108/379 (28%), Positives = 166/379 (43%), Gaps = 39/379 (10%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHF--QIPISLEPLFNHSRLKIFYA 59
            S+  LD S N ++G IS S L++ T+++ L LS N+F  QIP S   L     L+    
Sbjct: 204 VSMTYLDFSGNSISGYISDS-LINCTNLKSLNLSYNNFDGQIPKSFGEL---KLLQSLDL 259

Query: 60  DNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGE 119
            +N L   I         + Q   LS ++  G   + P+ L     L  +DLS+  ++G 
Sbjct: 260 SHNRLTGWIPPEIGDTCRSLQNLRLSYNNFTG---VIPESLSSCSWLQSLDLSNNNISGP 316

Query: 120 FPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEI------ 173
           FP  +L +   L+ L L N+ ++G F   I + + L   D S+N F   IP ++      
Sbjct: 317 FPNTILRSFGSLQILLLSNNLISGDFPTSISACKSLRIADFSSNRFSGVIPPDLCPGAAS 376

Query: 174 ------------GDILPS------LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLT 215
                       G+I P+      L+  ++S+N L+G+IP   GN+  L       N + 
Sbjct: 377 LEELRLPDNLVTGEIPPAISQCSELRTIDLSLNYLNGTIPPEIGNLQKLEQFIAWYNNIA 436

Query: 216 GEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCS 275
           GEIP  +     NL+ L L+NN L G +    FN +N+EW+    NR  GE+P+     S
Sbjct: 437 GEIPPEIG-KLQNLKDLILNNNQLTGEIPPEFFNCSNIEWVSFTSNRLTGEVPKDFGILS 495

Query: 276 SLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSI-----SHSHLLNLHGICKEY 330
            L  L L NN+ +G +        TL  L  N+   T  I            L G+    
Sbjct: 496 RLAVLQLGNNNFTGEIPPELGKCTTLVWLDLNTNHLTGEIPPRLGRQPGSKALSGLLSGN 555

Query: 331 AKEFARNMPRICEEYAAYL 349
              F RN+   C+     +
Sbjct: 556 TMAFVRNVGNSCKGVGGLV 574

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

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|O22476|BRI1_ARATH Protein BRASSINOSTEROID INSENSITIVE 1 OS=Arabidopsis thaliana GN=BRI1 PE=1 SV=1

 Score =  108 bits (271), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 108/346 (31%), Positives = 159/346 (45%), Gaps = 46/346 (13%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
           ++L+ LD+S N+L+G  S + +   T ++ L +S+N F  PI   PL     L+      
Sbjct: 245 SALQHLDISGNKLSGDFSRA-ISTCTELKLLNISSNQFVGPIPPLPL---KSLQYLSLAE 300

Query: 62  NELNAEITQSHSLIAPNF------QLNSLSLSSDYGDGFIFPKF---------------- 99
           N+   EI        P+F       L  L LS ++  G + P F                
Sbjct: 301 NKFTGEI--------PDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNF 352

Query: 100 --------LYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPF--RLPI 149
                   L     L ++DLS  + +GE P  L   +  L TL L +++ +GP    L  
Sbjct: 353 SGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQ 412

Query: 150 HSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDL 209
           +    L+ L + NN F   IP  + +    L   ++S N L G+IPSS G+++ LR L L
Sbjct: 413 NPKNTLQELYLQNNGFTGKIPPTLSNC-SELVSLHLSFNYLSGTIPSSLGSLSKLRDLKL 471

Query: 210 SNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQ 269
             N L GEIP+ L      LE+L L  N L G + S   N TNL W+ L  NR  GEIP+
Sbjct: 472 WLNMLEGEIPQELMY-VKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPK 530

Query: 270 SLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSI 315
            + +  +L  L L+NNS SGN+        +L  L  N+  F  +I
Sbjct: 531 WIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTI 576

Receptor with a dual specificity kinase activity acting on both serine/threonine- and tyrosine-containing substrates. Regulates, in response to brassinosteroid binding, a signaling cascade involved in plant development, including expression of light- and stress-regulated genes, promotion of cell elongation, normal leaf and chloroplast senescence, and flowering. Binds brassinolide, and less effectively castasterone, but not 2,3,22,23-O-tetramethylbrassinolide or ecdysone. May be involved in a feedback regulation of brassinosteroid biosynthesis. Phosphorylates BRI1-associated receptor kinase 1 (BAK1), Transthyretin-Like protein (TTL) and SERK1 on 'Ser-299' and 'Thr-462' in vitro. May have a guanylyl cyclase activity.

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 =  108 bits (271), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 105/310 (33%), Positives = 150/310 (48%), Gaps = 34/310 (10%)

Query: 7   LDVSSNQLTGSISSSPLVHLTSIEELMLSNNHF--QIPISLEPLFNHSRLKIFYADNNEL 64
           LD+SSN L G I ++ L +LTS+E L L +N    +IP  L  L N   L+I    +NEL
Sbjct: 100 LDLSSNNLVGPIPTA-LSNLTSLESLFLFSNQLTGEIPSQLGSLVNIRSLRI---GDNEL 155

Query: 65  NAEITQ--------------SHSLIAPN-------FQLNSLSLSSDYGDGFIFPKFLYHQ 103
             +I +              S  L  P         ++ SL L  +Y +G I P  L + 
Sbjct: 156 VGDIPETLGNLVNLQMLALASCRLTGPIPSQLGRLVRVQSLILQDNYLEGPI-PAELGNC 214

Query: 104 HDLALVDLSHIKMNGEFPTWL--LENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDIS 161
            DL +   +   +NG  P  L  LEN   LE L L N+SLTG     +     L++L + 
Sbjct: 215 SDLTVFTAAENMLNGTIPAELGRLEN---LEILNLANNSLTGEIPSQLGEMSQLQYLSLM 271

Query: 162 NNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEH 221
            N  +  IP  + D L +L+  ++S N L G IP  F NM+ L  L L+NN L+G +P+ 
Sbjct: 272 ANQLQGLIPKSLAD-LGNLQTLDLSANNLTGEIPEEFWNMSQLLDLVLANNHLSGSLPKS 330

Query: 222 LAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLY 281
           +     NLE L LS   L G +        +L+ L L  N   G IP++L +   L  LY
Sbjct: 331 ICSNNTNLEQLVLSGTQLSGEIPVELSKCQSLKQLDLSNNSLAGSIPEALFELVELTDLY 390

Query: 282 LNNNSLSGNV 291
           L+NN+L G +
Sbjct: 391 LHNNTLEGTL 400

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|Q9FIZ3|GSO2_ARATH LRR receptor-like serine/threonine-protein kinase GSO2 OS=Arabidopsis thaliana GN=GSO2 PE=2 SV=2

 Score =  107 bits (267), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 105/322 (32%), Positives = 156/322 (48%), Gaps = 16/322 (4%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           + +L++L ++S +LTG I S     L  ++ L+L +N  + PI  E + N + L +F A 
Sbjct: 167 LVNLQMLALASCRLTGLIPSR-FGRLVQLQTLILQDNELEGPIPAE-IGNCTSLALFAAA 224

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            N LN  +    + +     L +L+L  +   G I P  L     +  ++L   ++ G  
Sbjct: 225 FNRLNGSLPAELNRLK---NLQTLNLGDNSFSGEI-PSQLGDLVSIQYLNLIGNQLQGLI 280

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRW----LEFLDISNNNFRCHIPVEIGDI 176
           P  L E    L+TL L +++LTG     IH   W    LEFL ++ N     +P  I   
Sbjct: 281 PKRLTEL-ANLQTLDLSSNNLTGV----IHEEFWRMNQLEFLVLAKNRLSGSLPKTICSN 335

Query: 177 LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSN 236
             SLK   +S   L G IP+   N   L++LDLSNN LTG+IP+ L    V L +L L+N
Sbjct: 336 NTSLKQLFLSETQLSGEIPAEISNCQSLKLLDLSNNTLTGQIPDSL-FQLVELTNLYLNN 394

Query: 237 NSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSS 296
           NSLEG + S   NLTNL+   L  N   G++P+ +     LE +YL  N  SG + V   
Sbjct: 395 NSLEGTLSSSISNLTNLQEFTLYHNNLEGKVPKEIGFLGKLEIMYLYENRFSGEMPVEIG 454

Query: 297 PANTLFNLSQNSRRFTSSISHS 318
               L  +     R +  I  S
Sbjct: 455 NCTRLQEIDWYGNRLSGEIPSS 476

Together with GSO1, receptor-like serine/threonine-kinase required during the development of the epidermal surface in embryos and cotyledons. Involved in the nuclear division phase of megagametogenesis.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|O80809|CLV2_ARATH Leucine-rich repeat receptor-like protein CLAVATA2 OS=Arabidopsis thaliana GN=CLV2 PE=1 SV=1

 Score =  104 bits (260), Expect = 8e-22,   Method: Compositional matrix adjust.
 Identities = 97/310 (31%), Positives = 160/310 (51%), Gaps = 37/310 (11%)

Query: 8   DVSSNQLTGSIS--SSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELN 65
           ++ SN +TG++     PLV L       L++N F   +   P F  SR  +   +  E N
Sbjct: 201 NLESNNMTGTLRDFQQPLVVLN------LASNQFSGTL---PCFYASRPSLSILNIAE-N 250

Query: 66  AEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLL 125
           + +    S +    +L+ L+LS +  +  I P+ ++ +  L ++DLSH   +G  P+ + 
Sbjct: 251 SLVGGLPSCLGSLKELSHLNLSFNGFNYEISPRLMFSEK-LVMLDLSHNGFSGRLPSRIS 309

Query: 126 ENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNI 185
           E   KL                       L  LD+S+N+F   IP+ I + L SL+   +
Sbjct: 310 ETTEKLG----------------------LVLLDLSHNSFSGDIPLRITE-LKSLQALRL 346

Query: 186 SMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFS 245
           S N L G IP+  GN+ +L+V+DLS+N LTG IP ++ VGC  L +L +SNN+L G +  
Sbjct: 347 SHNLLTGDIPARIGNLTYLQVIDLSHNALTGSIPLNI-VGCFQLLALMISNNNLSGEIQP 405

Query: 246 RNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLS 305
               L +L+ L +  N   GEIP +L+   SLE + +++N+LSGN+N   +  + L  LS
Sbjct: 406 ELDALDSLKILDISNNHISGEIPLTLAGLKSLEIVDISSNNLSGNLNEAITKWSNLKYLS 465

Query: 306 QNSRRFTSSI 315
               +F+ ++
Sbjct: 466 LARNKFSGTL 475

Involved in the perception of CLV3 and CLV3-like peptides, that act as extracellular signals regulating meristems maintenance. Involved in controlling the stem cell population size in shoot and root apical meristems, and during organ development. Promotes the formation of CLV1 multimers.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LYN8|EXS_ARATH Leucine-rich repeat receptor protein kinase EXS OS=Arabidopsis thaliana GN=EXS PE=1 SV=1

 Score =  103 bits (257), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 110/357 (30%), Positives = 168/357 (47%), Gaps = 35/357 (9%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
            SL+ L +S NQLTG I    +  LTS+  L L+ N FQ  I +E L + + L      +
Sbjct: 472 ASLKRLVLSDNQLTGEIPRE-IGKLTSLSVLNLNANMFQGKIPVE-LGDCTSLTTLDLGS 529

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFI--FPKFLYHQHDL---------ALVD 110
           N L  +I    + +A   QL  L LS +   G I   P   +HQ ++          + D
Sbjct: 530 NNLQGQIPDKITALA---QLQCLVLSYNNLSGSIPSKPSAYFHQIEMPDLSFLQHHGIFD 586

Query: 111 LSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIP 170
           LS+ +++G  P  L E    +E + L N+ L+G     +     L  LD+S N     IP
Sbjct: 587 LSYNRLSGPIPEELGECLVLVE-ISLSNNHLSGEIPASLSRLTNLTILDLSGNALTGSIP 645

Query: 171 VEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLE 230
            E+G+ L  L+  N++ N L+G IP SFG +  L  L+L+ N+L G +P  L     NL+
Sbjct: 646 KEMGNSL-KLQGLNLANNQLNGHIPESFGLLGSLVKLNLTKNKLDGPVPASLG----NLK 700

Query: 231 SLA---LSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSL 287
            L    LS N+L G + S    +  L  L +  N+F GEIP  L   + LE L ++ N L
Sbjct: 701 ELTHMDLSFNNLSGELSSELSTMEKLVGLYIEQNKFTGEIPSELGNLTQLEYLDVSENLL 760

Query: 288 SGNV--NVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGICKEYAKEFARNMPRIC 342
           SG +   +   P     NL++N+ R          +   G+C++ +K        +C
Sbjct: 761 SGEIPTKICGLPNLEFLNLAKNNLRGE--------VPSDGVCQDPSKALLSGNKELC 809

Receptor with a serine/threonine-protein kinase activity required for the specification of the correct number of male archesporial initials and for the subsequent specification of tapetal and middle cell layer identities. In seeds, required for enhancing cell size and the rate of embryonic development.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|C0LGV1|RCH1_ARATH LRR receptor-like serine/threonine-protein kinase RCH1 OS=Arabidopsis thaliana GN=RCH1 PE=2 SV=1

 Score =  103 bits (256), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 103/311 (33%), Positives = 154/311 (49%), Gaps = 28/311 (9%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           M SL  +D+S N  +G+I  S   +L++++ELMLS+N+    I    L N ++L  F  D
Sbjct: 322 MKSLNAIDLSMNYFSGTIPKS-FGNLSNLQELMLSSNNITGSIP-SILSNCTKLVQFQID 379

Query: 61  NNELNAEITQSHSLI---------------------APNFQLNSLSLSSDYGDGFIFPKF 99
            N+++  I     L+                     A    L +L LS +Y  G + P  
Sbjct: 380 ANQISGLIPPEIGLLKELNIFLGWQNKLEGNIPDELAGCQNLQALDLSQNYLTGSL-PAG 438

Query: 100 LYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLD 159
           L+   +L  + L    ++G  P  +  N T L  L LVN+ +TG     I   + L FLD
Sbjct: 439 LFQLRNLTKLLLISNAISGVIPLEI-GNCTSLVRLRLVNNRITGEIPKGIGFLQNLSFLD 497

Query: 160 ISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIP 219
           +S NN    +P+EI +    L+  N+S N L G +P S  ++  L+VLD+S+N LTG+IP
Sbjct: 498 LSENNLSGPVPLEISNCR-QLQMLNLSNNTLQGYLPLSLSSLTKLQVLDVSSNDLTGKIP 556

Query: 220 EHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLE- 278
           + L    ++L  L LS NS  G + S   + TNL+ L L  N   G IP+ L     L+ 
Sbjct: 557 DSLG-HLISLNRLILSKNSFNGEIPSSLGHCTNLQLLDLSSNNISGTIPEELFDIQDLDI 615

Query: 279 GLYLNNNSLSG 289
            L L+ NSL G
Sbjct: 616 ALNLSWNSLDG 626

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|Q9LHP4|RCH2_ARATH Receptor-like protein kinase 2 OS=Arabidopsis thaliana GN=RCH2 PE=1 SV=1

 Score =  103 bits (256), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 104/334 (31%), Positives = 168/334 (50%), Gaps = 38/334 (11%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ--IPISLE------------- 46
           ++L+++D+S N L+GSI SS +  L+ +EE M+S+N F   IP ++              
Sbjct: 322 SNLKMIDLSLNLLSGSIPSS-IGRLSFLEEFMISDNKFSGSIPTTISNCSSLVQLQLDKN 380

Query: 47  --------PLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPK 98
                    L   ++L +F+A +N+L   I      +A    L +L LS +   G I P 
Sbjct: 381 QISGLIPSELGTLTKLTLFFAWSNQLEGSIPPG---LADCTDLQALDLSRNSLTGTI-PS 436

Query: 99  FLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFL 158
            L+   +L  + L    ++G  P  +  N + L  L L  + +TG     I S + + FL
Sbjct: 437 GLFMLRNLTKLLLISNSLSGFIPQEI-GNCSSLVRLRLGFNRITGEIPSGIGSLKKINFL 495

Query: 159 DISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEI 218
           D S+N     +P EIG     L+  ++S N+L+GS+P+   +++ L+VLD+S NQ +G+I
Sbjct: 496 DFSSNRLHGKVPDEIGSC-SELQMIDLSNNSLEGSLPNPVSSLSGLQVLDVSANQFSGKI 554

Query: 219 PEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLE 278
           P  L    V+L  L LS N   G + +     + L+ L LG N   GEIP  L    +LE
Sbjct: 555 PASLGR-LVSLNKLILSKNLFSGSIPTSLGMCSGLQLLDLGSNELSGEIPSELGDIENLE 613

Query: 279 -GLYLNNNSLSGNVNVPSSPAN----TLFNLSQN 307
             L L++N L+G   +PS  A+    ++ +LS N
Sbjct: 614 IALNLSSNRLTG--KIPSKIASLNKLSILDLSHN 645

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	361
255581263	912	serine-threonine protein kinase, plant-t	0.792	0.313	0.587	1e-80
224158883	315	predicted protein [Populus trichocarpa]	0.795	0.911	0.570	1e-77
224102049	577	predicted protein [Populus trichocarpa]	0.800	0.500	0.553	5e-72
224142481	781	predicted protein [Populus trichocarpa]	0.800	0.370	0.542	5e-71
224120284	929	predicted protein [Populus trichocarpa]	0.795	0.308	0.471	1e-60
224144119	560	predicted protein [Populus trichocarpa]	0.814	0.525	0.439	2e-53
359484714	862	PREDICTED: probable LRR receptor-like se	0.803	0.336	0.461	1e-52
224112233	976	leucine rich repeat family protein with	0.783	0.289	0.472	1e-52
224112245	876	predicted protein [Populus trichocarpa]	0.792	0.326	0.434	1e-52
224124490	981	predicted protein [Populus trichocarpa]	0.795	0.292	0.457	3e-52

>gi|255581263|ref|XP_002531443.1| serine-threonine protein kinase, plant-type, putative [Ricinus communis] gi|223528936|gb|EEF30930.1| serine-threonine protein kinase, plant-type, putative [Ricinus communis]

 Score =  306 bits (784), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 171/291 (58%), Positives = 210/291 (72%), Gaps = 5/291 (1%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +TSL++LD+SSNQ  G IS+SPL  L S+ +L +SNNHFQ+P SL P FNHS LK     
Sbjct: 250 LTSLQLLDLSSNQFVGDISNSPLKILKSLVDLDVSNNHFQVPFSLGPFFNHSNLKHIRGQ 309

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           NN +  E  + HS  AP FQL S+ + S YG    FP FLYHQ++L  VDLSH+ + GEF
Sbjct: 310 NNAIYLE-AELHS--APRFQLISI-IFSGYGICGTFPNFLYHQNNLQFVDLSHLSLKGEF 365

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
           P WLL NNT+LE L LVN+SL+G  +LP+H H  L  LDISNN+   HIP+EIG  LP L
Sbjct: 366 PNWLLTNNTRLEILDLVNNSLSGHLQLPLHPHVNLLALDISNNHVHDHIPLEIGTFLPKL 425

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
           +  N+S N  DGSIPSSFGNMN LR+LDLSNNQL+G IPEHLA GC +L +L LSNNSL+
Sbjct: 426 ELLNMSSNGFDGSIPSSFGNMNSLRILDLSNNQLSGSIPEHLATGCFSLNTLILSNNSLQ 485

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV 291
           G MFS+ FNLTNL WL+L  N F G IP+SLSK S+L  + L++N LSG +
Sbjct: 486 GQMFSKQFNLTNLWWLELDKNHFSGRIPKSLSK-SALSIMDLSDNHLSGMI 535

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224158883|ref|XP_002338020.1| predicted protein [Populus trichocarpa] gi|222870336|gb|EEF07467.1| predicted protein [Populus trichocarpa]

 Score =  296 bits (758), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 165/289 (57%), Positives = 202/289 (69%), Gaps = 2/289 (0%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +T+L++LD+S N  TG+IS SP+  LTSI++L LS+NHF+IPISL P FN S+LK    D
Sbjct: 28  LTNLQVLDISFNDFTGNISLSPIGSLTSIQDLRLSHNHFKIPISLGPFFNLSKLKHLNGD 87

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           +NE+       H+LI P FQL  LSL    G G  FPK LY+QHDL  VDLSHIKM GEF
Sbjct: 88  HNEIYESTELVHNLI-PRFQLQWLSLECT-GSGGTFPKSLYYQHDLQFVDLSHIKMTGEF 145

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
           P+WLL+NNTKLE L+LVN+SL+G F+L  HS   L  LDIS N     IP EIG   P L
Sbjct: 146 PSWLLQNNTKLEGLYLVNNSLSGSFQLANHSLVRLSHLDISRNRIHNQIPTEIGACFPRL 205

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
            F N+S N  DGSIPSS  NM+ L+VLDLSNN L+G IPE L  GC++LE + LSNN  E
Sbjct: 206 VFLNLSRNDFDGSIPSSISNMSLLKVLDLSNNNLSGNIPEQLVEGCLSLEVIMLSNNYFE 265

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG 289
           G +F +NFNLT L  L L GN+  G +P SLS CS+LE L ++NN+LSG
Sbjct: 266 GQLFWKNFNLTYLTELILRGNQLTGILPNSLSSCSALEALDVSNNNLSG 314

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224102049|ref|XP_002334215.1| predicted protein [Populus trichocarpa] gi|222870030|gb|EEF07161.1| predicted protein [Populus trichocarpa]

 Score =  277 bits (709), Expect = 5e-72,   Method: Compositional matrix adjust.
 Identities = 161/291 (55%), Positives = 193/291 (66%), Gaps = 2/291 (0%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +T+L+ LD+S N  TG+IS SP+  LTSI +L LS+NHFQIPISL P FN S LK    D
Sbjct: 34  LTNLQALDISFNHFTGNISLSPIGSLTSIRDLNLSDNHFQIPISLGPFFNLSNLKNLNGD 93

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            NEL       H+LI P FQL  LSL+   G G  F K LY+QHDL  VDLSHIKM GEF
Sbjct: 94  RNELYESTELVHNLI-PRFQLQRLSLAYT-GSGGTFLKSLYYQHDLQFVDLSHIKMTGEF 151

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
           P+WLL+NNTKLE L+LVN+S +G F+L  HS   L  LDIS N+    IP EIG   P L
Sbjct: 152 PSWLLQNNTKLEELYLVNNSFSGSFQLANHSLDRLSHLDISRNHIHNQIPTEIGACFPRL 211

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
            F N+S N   GSIPSS  NM+ L +LDLSNN+L+G IPEHL   C++L  L LSNN L+
Sbjct: 212 VFLNLSRNDFGGSIPSSISNMSSLEILDLSNNELSGNIPEHLVEDCLSLRGLVLSNNHLK 271

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV 291
           G  F RNFNL  L  L L GN+  G +P SLS  S LE L ++ N+LSG +
Sbjct: 272 GQFFWRNFNLAYLTDLILSGNQLTGILPNSLSNGSRLEALDVSLNNLSGKI 322

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224142481|ref|XP_002324585.1| predicted protein [Populus trichocarpa] gi|222866019|gb|EEF03150.1| predicted protein [Populus trichocarpa]

 Score =  274 bits (700), Expect = 5e-71,   Method: Compositional matrix adjust.
 Identities = 158/291 (54%), Positives = 197/291 (67%), Gaps = 2/291 (0%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           + +L++LD+S N  +G+IS S +  LTSI +L LS+NHFQIPISL P FN S LK    D
Sbjct: 99  LNNLQVLDISFNNFSGNISLSRIGSLTSIRDLKLSDNHFQIPISLGPFFNLSNLKNLNGD 158

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           +NE+       H+LI P FQL  LSL+  +G G  FPKFLY+QHDL  VDLSHIK+ GEF
Sbjct: 159 HNEIYESTELVHNLI-PRFQLQRLSLAC-HGFGGTFPKFLYYQHDLQFVDLSHIKIIGEF 216

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
           P+WLL+NNTKLE L+LVN SL+G  +LP  SH  L  LDIS N+ +  IP +IG   P L
Sbjct: 217 PSWLLQNNTKLEALYLVNSSLSGSLQLPNDSHVNLSRLDISRNHIQNQIPTKIGAYFPWL 276

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
           +F N+S N   GSIPSS  NM+ L VLDLSNN L+G IPE L  GC++L  L LSNN L+
Sbjct: 277 EFLNLSRNYFSGSIPSSISNMSSLGVLDLSNNGLSGNIPEQLVEGCLSLRGLVLSNNHLK 336

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV 291
           G  F R+FNL  L  L L GN+  G +P SLS  S LE L ++ N+LSG +
Sbjct: 337 GQFFWRSFNLAYLTDLILSGNQLTGILPNSLSNGSRLEALDVSLNNLSGKI 387

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224120284|ref|XP_002331010.1| predicted protein [Populus trichocarpa] gi|222872940|gb|EEF10071.1| predicted protein [Populus trichocarpa]

 Score =  239 bits (611), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 149/316 (47%), Positives = 193/316 (61%), Gaps = 29/316 (9%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +TSL+ +D+SSN   G ISSSPL+ LTSI+EL LS+N+FQIPISL    NHS LK F+  
Sbjct: 359 LTSLKQIDLSSNHFGGDISSSPLITLTSIQELRLSDNNFQIPISLRSFSNHSELKFFFGY 418

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSD-YGDGFIFPKFLYHQHDLALVDLSHIKMNGE 119
           NNE+ AE+ + H+LI P FQL  L LS   YG    FPKFL++QH+L  +  S+++M G 
Sbjct: 419 NNEICAEL-EEHNLI-PKFQLQRLHLSGQAYGGALPFPKFLFYQHNLREIYFSNMRMRGG 476

Query: 120 FPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS 179
            P WLLENNT L  LFLVN+SL+GPF+LPIH H  L  LDIS+N+   HIP EIG   PS
Sbjct: 477 VPNWLLENNTNLHELFLVNNSLSGPFQLPIHPHVSLSQLDISDNHLDSHIPTEIGAYFPS 536

Query: 180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL 239
           L F ++S N  +G IPSSFG M+ L VLDLS N ++G++P       + L  + LS N L
Sbjct: 537 LTFLSMSKNHFNGIIPSSFGYMSSLLVLDLSENNISGKLPS--CFSSLPLVHVYLSQNKL 594

Query: 240 EGHM---FSRNFNLTNL------------EW---------LQLGGNRFVGEIPQSLSKCS 275
           +G +   F ++F L  L            EW         L LG N   G IP  L K  
Sbjct: 595 QGSLEDAFHKSFELITLDLSHNQLTGNISEWIGEFSHMSYLLLGYNNLEGRIPNQLCKLD 654

Query: 276 SLEGLYLNNNSLSGNV 291
            L  + L++N  SG++
Sbjct: 655 KLSFIDLSHNKFSGHI 670

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224144119|ref|XP_002325192.1| predicted protein [Populus trichocarpa] gi|222866626|gb|EEF03757.1| predicted protein [Populus trichocarpa]

 Score =  216 bits (550), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 137/312 (43%), Positives = 188/312 (60%), Gaps = 18/312 (5%)

Query: 4   LRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNE 63
           L++L++  N L+G +    L +LTS+++L LS NH +IPISL PL+N S+LK F   +NE
Sbjct: 30  LQVLNMYGNDLSGFLPPC-LANLTSLQQLNLSYNHLKIPISLSPLYNLSKLKYFDGSSNE 88

Query: 64  LNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTW 123
           + A+    H+L +P FQL  LSLS        FPKFLYHQ +L  VDL++I++ G+F  W
Sbjct: 89  IYAK-EDDHNL-SPKFQLEYLSLSGRRQGARAFPKFLYHQFNLQYVDLTNIQIKGKFLNW 146

Query: 124 LLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFF 183
           L+ENNT L+ L+L N SL+GPF LP +SH  L FL IS N F+  IP+EIG  LP L+  
Sbjct: 147 LIENNTYLQDLYLENCSLSGPFLLPKNSHVNLSFLSISMNYFQGQIPLEIGAYLPRLEVL 206

Query: 184 NISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHM 243
            +S N  +GSIPSS GN+N L+VLDLSNN LTG I               LSNNSL+  +
Sbjct: 207 LMSDNGFNGSIPSSLGNINSLQVLDLSNNVLTGRI---------------LSNNSLQRQI 251

Query: 244 FSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFN 303
                N+++LE+L L  N F G +P      S L  +YL+ N L G + +    ++ +F 
Sbjct: 252 PGWIGNMSSLEFLDLSRNNFSGPLPYRFGTSSKLRYVYLSRNKLQGPIAMAFYDSSKIFA 311

Query: 304 LSQNSRRFTSSI 315
           L  +    T  I
Sbjct: 312 LDLSHNDLTGRI 323

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359484714|ref|XP_002264041.2| PREDICTED: probable LRR receptor-like serine/threonine-protein kinase At4g36180-like [Vitis vinifera]

 Score =  213 bits (543), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 136/295 (46%), Positives = 187/295 (63%), Gaps = 5/295 (1%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIF-YA 59
           +TSLR+LD+S N  +G+I SS   +L S+E + LS+NHF+  I    LFNHSRL +F  A
Sbjct: 165 LTSLRLLDLSENDFSGTIPSSLFSNLKSLEYISLSDNHFEGSIHFGSLFNHSRLVVFDLA 224

Query: 60  DNNELNAEITQSHSLIAPNFQLNSLSLSSDY--GDGFIFPKFLYHQHDLALVDLSHIKMN 117
            NN+     T++     P FQL  L LS+       ++ P FL  Q+DL +VDLSH  + 
Sbjct: 225 SNNKYLKVETENPIWSFPLFQLKILRLSNCTLNWPSWVLPSFLPSQYDLRMVDLSHNNIT 284

Query: 118 GEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHS-HRWLEFLDISNNNFRCHIPVEIGDI 176
           G+ PTWLL+NNTKLE L   ++SLTG   LP +S H  +  LD S+N     +P  IG I
Sbjct: 285 GDIPTWLLDNNTKLEYLSFGSNSLTGVLDLPSNSKHSHMLLLDFSSNCIHGELPPFIGSI 344

Query: 177 LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSN 236
            P L+  N+S NAL G+IPSS G+M  L  LDLSNN L+G++PEH+ +GC++L  L LSN
Sbjct: 345 FPGLEVLNLSRNALQGNIPSSMGDMEQLVSLDLSNNNLSGQLPEHMMMGCISLLVLKLSN 404

Query: 237 NSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV 291
           NSL G + +++ NLT+L +L L  N F GEI +     SSL+ L +++NSL G +
Sbjct: 405 NSLHGTLPTKS-NLTDLFFLSLDNNNFSGEISRGFLNSSSLQALDISSNSLWGQI 458

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224112233|ref|XP_002332812.1| leucine rich repeat family protein with ABC domain [Populus trichocarpa] gi|222833206|gb|EEE71683.1| leucine rich repeat family protein with ABC domain [Populus trichocarpa]

 Score =  213 bits (542), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 136/288 (47%), Positives = 182/288 (63%), Gaps = 5/288 (1%)

Query: 4   LRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNE 63
           L+ LDVS N L+G + S  L +LTS+++L LS NH +IP+SL PL+N S+LK FY   NE
Sbjct: 393 LQELDVSDNDLSGVLPSC-LPNLTSLQQLSLSYNHLKIPMSLSPLYNLSKLKSFYGSGNE 451

Query: 64  LNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTW 123
           + AE    H+L +P FQL SL LS   G G  FPKFLYHQ +L  +DL++I++ GEFP W
Sbjct: 452 IFAE-EDDHNL-SPKFQLESLYLSG-IGQGGAFPKFLYHQFNLQSLDLTNIQIKGEFPNW 508

Query: 124 LLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFF 183
           L+ENNT L+ L L N SL GPF LP +SH  L FL IS N+F+  IP EIG  LP L+  
Sbjct: 509 LIENNTYLQELHLENCSLLGPFLLPDNSHVNLSFLSISMNHFQGQIPSEIGARLPGLEVL 568

Query: 184 NISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHM 243
            +S N  +GSIP S GN++ L VLDLSNN L G+IP  +     +LE L LS N+  G +
Sbjct: 569 FMSENGFNGSIPFSLGNISLLEVLDLSNNSLQGQIPGWIG-NMSSLEFLDLSRNNFSGLL 627

Query: 244 FSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV 291
             R  + + L+++ L  N   G I  +    S +  L L++N L+G +
Sbjct: 628 PPRFGSSSKLKFIYLSRNNLQGPIAMAFHDSSEIFALDLSHNDLTGRI 675

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224112245|ref|XP_002332815.1| predicted protein [Populus trichocarpa] gi|222833209|gb|EEE71686.1| predicted protein [Populus trichocarpa]

 Score =  213 bits (542), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 136/313 (43%), Positives = 189/313 (60%), Gaps = 27/313 (8%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           + +L+ LD+  N ++G +    L +LTS++ L LS+NH +IP+SL PL+N S+LK F+  
Sbjct: 268 LNNLQELDMRDNDISGFLIPC-LANLTSLQRLDLSSNHLKIPMSLSPLYNLSKLKSFHGL 326

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           +NE+ AE    H+L +P FQL SL LS+       FP+FLYHQ +L  +DL++I+M G+F
Sbjct: 327 DNEIYAE-EDDHNL-SPKFQLQSLYLSNHGQGARAFPRFLYHQLNLQSLDLTNIQMKGDF 384

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
           P WL+ENNT L+ L+L N SL+GPF LP +SH  L  L IS N  +  IP EIG  LP L
Sbjct: 385 PNWLIENNTYLKNLYLENCSLSGPFLLPKNSHMNLSILSISMNYLQGQIPSEIGAHLPRL 444

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
              ++S N  +GSIPSS  NM+ LR LDLSNN LTG IP+HL         L LSNNSL+
Sbjct: 445 TVLSMSHNGFNGSIPSSLSNMSLLRDLDLSNNVLTGRIPKHLTTSLCLFNFLILSNNSLQ 504

Query: 241 GHM--------------FSRN----------FNLTNLEWLQLGGNRFVGEIPQSLSKCSS 276
           G +               S N          ++++ L++L L  N F G +P ++S  S+
Sbjct: 505 GAIPDSMSNCSSLQLLDVSNNNLSPRIPGWIWSMSFLDFLDLSRNNFSGPLPPTISTSST 564

Query: 277 LEGLYLNNNSLSG 289
           L  +YL+ N L G
Sbjct: 565 LRYVYLSRNKLQG 577

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224124490|ref|XP_002330036.1| predicted protein [Populus trichocarpa] gi|222871461|gb|EEF08592.1| predicted protein [Populus trichocarpa]

 Score =  211 bits (538), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 134/293 (45%), Positives = 177/293 (60%), Gaps = 6/293 (2%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           ++SL+ILD+S NQL G+I+ S + HLT +E L +SNN+FQ+PIS     NHS LK F  D
Sbjct: 263 LSSLQILDLSYNQLEGNIAFSHISHLTQLEYLSVSNNYFQVPISFGSFMNHSNLKFFECD 322

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFI--FPKFLYHQHDLALVDLSHIKMNG 118
           NNEL A    S   + P F+L   S S+         FP FL  Q+DL  VDLSH K  G
Sbjct: 323 NNELIA--APSFQPLVPKFRLRVFSASNCTPKPLEAGFPNFLQSQYDLVFVDLSHNKFVG 380

Query: 119 E-FPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDIL 177
           E FP+WL ENNTKL  L+L + S  GP +LP H    L+ +D+S N+    I   I  I 
Sbjct: 381 ESFPSWLFENNTKLNRLYLRDTSFIGPLQLPQHPTPNLQTVDMSGNSIHGQIARNICSIF 440

Query: 178 PSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEH-LAVGCVNLESLALSN 236
           P LK F ++ N+L G IP  FGNM+ L  LDLSNN ++ E+ EH L     +L SL LSN
Sbjct: 441 PRLKNFMMANNSLTGCIPPCFGNMSSLEYLDLSNNHMSCELLEHNLPTVGSSLWSLKLSN 500

Query: 237 NSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG 289
           N+ +G +    FN+T+LE+L L GN+F G++  + S  SS     ++NN LSG
Sbjct: 501 NNFKGRLPLSVFNMTSLEYLFLDGNKFAGQVSGTFSLASSFSWFDISNNLLSG 553

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	361
TAIR|locus:2025012	1083	RLP1 "AT1G07390" [Arabidopsis	0.742	0.247	0.416	4.1e-46
TAIR|locus:2019662	965	RLP15 "AT1G74190" [Arabidopsis	0.734	0.274	0.387	8.5e-40
TAIR|locus:2037313	1000	RLP13 "AT1G74170" [Arabidopsis	0.720	0.26	0.402	1.2e-39
TAIR|locus:2037308	976	RLP14 "AT1G74180" [Arabidopsis	0.720	0.266	0.402	6.3e-39
TAIR|locus:2155909	908	RLP56 "AT5G49290" [Arabidopsis	0.722	0.287	0.393	8.1e-38
TAIR|locus:2101943	891	RLP45 "AT3G53240" [Arabidopsis	0.734	0.297	0.355	2.7e-34
TAIR|locus:2040075	935	RLP21 "AT2G25470" [Arabidopsis	0.720	0.278	0.333	1.9e-26
TAIR|locus:2122239	1136	AT4G36180 [Arabidopsis thalian	0.706	0.224	0.321	2e-22
TAIR|locus:2009288	966	AT1G34420 [Arabidopsis thalian	0.700	0.261	0.328	2.5e-22
TAIR|locus:2041150	1143	BRL2 "BRI1-like 2" [Arabidopsi	0.728	0.230	0.333	9.8e-22

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

 Score = 462 (167.7 bits), Expect = 4.1e-46, Sum P(2) = 4.1e-46
 Identities = 114/274 (41%), Positives = 156/274 (56%)

Query:     1 MTSLRILDVSSNQLTGSISSSPLVHLTSI-EELMLSNNHFQIPISLEPLFNHSRLKIFYA 59
             +T LR LD+S+NQL G++SS  +  L S+ E L L +N+F        L N +RL +F  
Sbjct:   380 LTHLRTLDLSNNQLNGNLSSF-VSGLPSVLEYLSLLDNNFDGSFLFNSLVNQTRLTVFKL 438

Query:    60 DNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGE 119
              ++++     Q+ S  AP FQL  L LS+    G     FL HQ DL  VDLSH K+ G 
Sbjct:   439 -SSKVGVIQVQTESSWAPLFQLKMLYLSN-CSLGSTMLGFLVHQRDLCFVDLSHNKLTGT 496

Query:   120 FPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS 179
             FPTWL++NNT+L+T+ L  +SLT   +LPI  H  L+ LDIS+N     I  +IG + P+
Sbjct:   497 FPTWLVKNNTRLQTILLSGNSLT-KLQLPILVHG-LQVLDISSNMIYDSIQEDIGMVFPN 554

Query:   180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVXXXXXXXXXXXX 239
             L+F N S N   G+IPSS G M  L+VLD+S+N L G++P     GC             
Sbjct:   555 LRFMNFSSNHFQGTIPSSIGEMKSLQVLDMSSNGLYGQLPIMFLSGCYSLRVLKLSNNQL 614

Query:   240 XGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSK 273
              G +FS++ NLT L  L L GN F G + + L K
Sbjct:   615 QGKIFSKHANLTGLVGLFLDGNNFTGSLEEGLLK 648

GO:0005575 "cellular_component" evidence=ND

GO:0007165 "signal transduction" evidence=IC

GO:0006457 "protein folding" evidence=RCA

GO:0006857 "oligopeptide transport" evidence=RCA

GO:0009408 "response to heat" evidence=RCA

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

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

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

TAIR|locus:2019662 RLP15 "AT1G74190" [Arabidopsis thaliana (taxid:3702)]

 Score = 434 (157.8 bits), Expect = 8.5e-40, P = 8.5e-40
 Identities = 105/271 (38%), Positives = 147/271 (54%)

Query:     1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
             +T LR+LD+SSN+LTG++ SS L  L S+E L L +N F+   S   L N S L +    
Sbjct:   267 LTGLRVLDLSSNKLTGTVPSS-LGSLQSLEYLSLFDNDFEGSFSFGSLANLSNLMVLKLC 325

Query:    61 NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
             +   + ++  S S   P FQL+ ++L S   +    P FL HQ DL  VDLS   ++G+ 
Sbjct:   326 SKSSSLQVL-SESSWKPKFQLSVIALRSCNMEKV--PHFLLHQKDLRHVDLSDNNISGKL 382

Query:   121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
             P+WLL NNTKL+ L L N+  T  F++P  +H  L FLD+S N+F    P  IG I P L
Sbjct:   383 PSWLLANNTKLKVLLLQNNLFTS-FQIPKSAHNLL-FLDVSANDFNHLFPENIGWIFPHL 440

Query:   181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVXXXXXXXXXXXXX 240
             ++ N S N    ++PSS GNMN ++ +DLS N   G +P     GC              
Sbjct:   441 RYLNTSKNNFQENLPSSLGNMNGIQYMDLSRNSFHGNLPRSFVNGCYSMAILKLSHNKLS 500

Query:   241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSL 271
             G +F  + N TN+  L +  N F G+I Q L
Sbjct:   501 GEIFPESTNFTNILGLFMDNNLFTGKIGQGL 531

GO:0007165 "signal transduction" evidence=IC

TAIR|locus:2037313 RLP13 "AT1G74170" [Arabidopsis thaliana (taxid:3702)]

 Score = 433 (157.5 bits), Expect = 1.2e-39, P = 1.2e-39
 Identities = 108/268 (40%), Positives = 150/268 (55%)

Query:     1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
             +T LR+LD+SSNQLTG++ S+ L +L S+E L L  N+F+   SL  L N S+LK+   D
Sbjct:   281 LTGLRVLDLSSNQLTGNVPSA-LANLESLEYLSLFGNNFEGFFSLGLLANLSKLKVLRLD 339

Query:    61 NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
             +   + E+    S   P FQL  ++L S   +    P FL HQ DL  VDLS  +++G F
Sbjct:   340 SQSNSLEVEFETSW-KPKFQLVVIALRSCNLEKV--PHFLLHQKDLHHVDLSDNQIHGNF 396

Query:   121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVE-IGDILPS 179
             P+WLLENNTKLE L L N+S T  F+LP  +H  L FL++S N F  H+ ++  G ILP 
Sbjct:   397 PSWLLENNTKLEVLLLQNNSFTS-FQLPKSAHNLL-FLNVSVNKFN-HLFLQNFGWILPH 453

Query:   180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVXXXXXXXXXXXX 239
             L   N++ N   G++PSS  NM  +  LDLS+N+  G++P     GC             
Sbjct:   454 LVCVNLAYNGFQGNLPSSLDNMKSIEFLDLSHNRFHGKLPRRFLKGCYNLTILKLSHNKL 513

Query:   240 XGHMFSRNFNLTNLEWLQLGGNRFVGEI 267
              G +F    N T L  + +  N F G I
Sbjct:   514 SGEVFPEAANFTRLWVMSMDNNLFTGNI 541

GO:0007165 "signal transduction" evidence=IC

TAIR|locus:2037308 RLP14 "AT1G74180" [Arabidopsis thaliana (taxid:3702)]

 Score = 426 (155.0 bits), Expect = 6.3e-39, P = 6.3e-39
 Identities = 108/268 (40%), Positives = 153/268 (57%)

Query:     1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIF-YA 59
             +  LR+LD+SSNQL+G++ +S    L S+E L LS+N+F+   SL PL N ++LK+F  +
Sbjct:   283 LNKLRVLDLSSNQLSGNLPAS-FNSLESLEYLSLSDNNFEGFFSLNPLANLTKLKVFRLS 341

Query:    60 DNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGE 119
               +E+    T+S+ L  P FQL   +L      G I P FL +Q +L LVDLS  +++G+
Sbjct:   342 STSEMLQVETESNWL--PKFQLTVAALPF-CSLGKI-PNFLVYQTNLRLVDLSSNRLSGD 397

Query:   120 FPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS 179
              PTWLLENN +L+ L L N+S T  F++P   H+ L+ LD S N+    +P  IG +LP 
Sbjct:   398 IPTWLLENNPELKVLQLKNNSFT-IFQIPTIVHK-LQVLDFSANDITGVLPDNIGHVLPR 455

Query:   180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVXXXXXXXXXXXX 239
             L   N S N   G++PSS G MN +  LDLS N  +GE+P  L  GC             
Sbjct:   456 LLHMNGSHNGFQGNLPSSMGEMNDISFLDLSYNNFSGELPRSLLTGCFSLITLQLSHNSF 515

Query:   240 XGHMFSRNFNLTNLEWLQLGGNRFVGEI 267
              G +      LT+L  L++  N F GEI
Sbjct:   516 SGPILPIQTRLTSLIVLRMHNNLFTGEI 543

GO:0007165 "signal transduction" evidence=IC

GO:0009507 "chloroplast" evidence=IDA

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

 Score = 415 (151.1 bits), Expect = 8.1e-38, P = 8.1e-38
 Identities = 105/267 (39%), Positives = 143/267 (53%)

Query:     1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
             +  LR LD+SSNQLTG+I  S    L S+E L LS+N F+   SL PL N ++LK+F   
Sbjct:   243 LNKLRFLDLSSNQLTGNIPPS-FSSLESLEYLSLSDNSFEGFFSLNPLTNLTKLKVFIFS 301

Query:    61 NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
             + +   ++ +  S   P FQL+ L L     +    P FL +Q +L +VDLS  +++G  
Sbjct:   302 SKDDMVQV-KIESTWQPLFQLSVLVLRLCSLEKI--PNFLMYQKNLHVVDLSGNRISGII 358

Query:   121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
             PTWLLENN +LE L L N+S T  F++P   H  L+ LD S NN     P   G +LP+L
Sbjct:   359 PTWLLENNPELEVLQLKNNSFT-IFQMPTSVHN-LQVLDFSENNIGGLFPDNFGRVLPNL 416

Query:   181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVXXXXXXXXXXXXX 240
                N S N   G+ PSS G M  +  LDLS N L+GE+P+     C              
Sbjct:   417 VHMNGSNNGFQGNFPSSMGEMYNISFLDLSYNNLSGELPQSFVSSCFSLSILQLSHNKFS 476

Query:   241 GHMFSRNFNLTNLEWLQLGGNRFVGEI 267
             GH   R  N T+L  L++  N F G+I
Sbjct:   477 GHFLPRQTNFTSLIVLRINNNLFTGKI 503

GO:0007165 "signal transduction" evidence=IC

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

 Score = 382 (139.5 bits), Expect = 2.7e-34, P = 2.7e-34
 Identities = 96/270 (35%), Positives = 150/270 (55%)

Query:     2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
             + LR+LD+SSN L+G I    +    S+E L L +N F+   SL  +   + LK+F   +
Sbjct:   202 SKLRVLDLSSNHLSGKIPYF-ISDFKSMEYLSLLDNDFEGLFSLGLITELTELKVFKLSS 260

Query:    62 NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
                  +I +++       QL+S+ LS     G I P FL++Q +L ++DLS+  ++G FP
Sbjct:   261 RSGMLQIVETNVSGGLQSQLSSIMLSH-CNLGKI-PGFLWYQQELRVIDLSNNILSGVFP 318

Query:   122 TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLK 181
             TWLLENNT+L+ L L N+S      LP  + R L+ LD+S NNF   +P ++G IL SL+
Sbjct:   319 TWLLENNTELQALLLQNNSFK-TLTLP-RTMRRLQILDLSVNNFNNQLPKDVGLILASLR 376

Query:   182 FFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVXXXXXXXXXXXXXG 241
               N+S N   G++PSS   M  +  +DLS N  +G++P +L  GC              G
Sbjct:   377 HLNLSNNEFLGNMPSSMARMENIEFMDLSYNNFSGKLPRNLFTGCYSLSWLKLSHNRFSG 436

Query:   242 HMFSRNFNLTNLEWLQLGGNRFVGEIPQSL 271
              +  ++ + T+L  L +  N F G+IP++L
Sbjct:   437 PIIRKSSDETSLITLIMDNNMFTGKIPRTL 466

GO:0007165 "signal transduction" evidence=IC

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

 Score = 288 (106.4 bits), Expect = 1.9e-26, Sum P(2) = 1.9e-26
 Identities = 92/276 (33%), Positives = 123/276 (44%)

Query:     1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ--IPISLEPLFNHSRLKIFY 58
             + +LR LD+  N   G I    L  L  +  L LS+N     +P S   L +   L +  
Sbjct:   245 LKNLRDLDLKGNHFVGQIPLC-LGSLKKLRVLDLSSNQLSGDLPSSFSSLESLEYLSL-- 301

Query:    59 ADNNELNAEITQSHSLIAPNFQLNSLS--LSSDYGDGFIFPKFLYHQHDLALVDLSHIKM 116
             +DNN        S SL  P   L +L   +   +      P FL +Q  L LVDLS   +
Sbjct:   302 SDNN-----FDGSFSL-NPLTNLTNLKFVVVLRFCSLEKIPSFLLYQKKLRLVDLSSNNL 355

Query:   117 NGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI 176
             +G  PTWLL NN +LE L L N+S T  F +P   H  L+  D S NN     P ++   
Sbjct:   356 SGNIPTWLLTNNPELEVLQLQNNSFT-IFPIPTMVHN-LQIFDFSANNIG-KFPDKMDHA 412

Query:   177 LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVXXXXXXXXX 236
             LP+L   N S N   G  P+S G M  +  LDLS N  +G++P     GCV         
Sbjct:   413 LPNLVRLNGSNNGFQGYFPTSIGEMKNISFLDLSYNNFSGKLPRSFVTGCVSIMFLKLSH 472

Query:   237 XXXXGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLS 272
                 G    R  N  +L+ L++  N F G I   LS
Sbjct:   473 NKFSGRFLPRETNFPSLDVLRMDNNLFTGNIGGGLS 508

GO:0007165 "signal transduction" evidence=IC

GO:0009507 "chloroplast" evidence=IDA

TAIR|locus:2122239 AT4G36180 [Arabidopsis thaliana (taxid:3702)]

 Score = 273 (101.2 bits), Expect = 2.0e-22, P = 2.0e-22
 Identities = 88/274 (32%), Positives = 138/274 (50%)

Query:     2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHF--QIPISLEPLFNHSRLKIFYA 59
             T L++LD+  N+++G      L ++ S++ L +S N F  +IP  +  L     LK+  A
Sbjct:   308 TGLQVLDLQENRISGRFPLW-LTNILSLKNLDVSGNLFSGEIPPDIGNLKRLEELKL--A 364

Query:    60 DNN---ELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKM 116
             +N+   E+  EI Q  SL   +F+ NSL        G I P+FL +   L ++ L     
Sbjct:   365 NNSLTGEIPVEIKQCGSLDVLDFEGNSLK-------GQI-PEFLGYMKALKVLSLGRNSF 416

Query:   117 NGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI 176
             +G  P+ ++ N  +LE L L  ++L G F + + +   L  LD+S N F   +PV I + 
Sbjct:   417 SGYVPSSMV-NLQQLERLNLGENNLNGSFPVELMALTSLSELDLSGNRFSGAVPVSISN- 474

Query:   177 LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVXXXXXXXXX 236
             L +L F N+S N   G IP+S GN+  L  LDLS   ++GE+P  L+ G           
Sbjct:   475 LSNLSFLNLSGNGFSGEIPASVGNLFKLTALDLSKQNMSGEVPVELS-GLPNVQVIALQG 533

Query:   237 XXXXGHMFSRNFNLTNLEWLQLGGNRFVGEIPQS 270
                 G +     +L +L ++ L  N F GEIPQ+
Sbjct:   534 NNFSGVVPEGFSSLVSLRYVNLSSNSFSGEIPQT 567

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: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:0000226 "microtubule cytoskeleton organization" evidence=RCA

GO:0000911 "cytokinesis by cell plate formation" evidence=RCA

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

GO:0006260 "DNA replication" evidence=RCA

GO:0006306 "DNA methylation" evidence=RCA

GO:0007165 "signal transduction" evidence=RCA

GO:0008283 "cell proliferation" evidence=RCA

GO:0009855 "determination of bilateral symmetry" evidence=RCA

GO:0010014 "meristem initiation" evidence=RCA

GO:0010073 "meristem maintenance" evidence=RCA

GO:0010075 "regulation of meristem growth" evidence=RCA

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

GO:0030244 "cellulose biosynthetic process" evidence=RCA

GO:0048443 "stamen development" evidence=RCA

GO:0051567 "histone H3-K9 methylation" evidence=RCA

TAIR|locus:2009288 AT1G34420 [Arabidopsis thaliana (taxid:3702)]

 Score = 271 (100.5 bits), Expect = 2.5e-22, P = 2.5e-22
 Identities = 89/271 (32%), Positives = 134/271 (49%)

Query:     4 LRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ--IPISLEPLFNHSRLKIFYADN 61
             L ++D+S NQL GSI SS L +L+ +E L+LSNN+    IP SL  +     L+ F A+ 
Sbjct:   229 LTLIDLSDNQLNGSIPSS-LGNLSKLESLLLSNNYLSGLIPESLSSI---QTLRRFAANR 284

Query:    62 NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
             N    EI    +    N  L+  SL+     G I P  L  Q  L  VDLS  ++ G  P
Sbjct:   285 NRFTGEIPSGLTKHLENLDLSFNSLA-----GSI-PGDLLSQLKLVSVDLSSNQLVGWIP 338

Query:   122 TWLLENNTKLETLFLVNDSLTGPF-RLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
               +   ++ L  L L ++ LTG    +   S + L +L++ NN+    IP   G+++ SL
Sbjct:   339 QSI---SSSLVRLRLGSNKLTGSVPSVAFESLQLLTYLEMDNNSLTGFIPPSFGNLV-SL 394

Query:   181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVXXXXXXXXXXXXX 240
                N++MN   G +P +FGN++ L+V+ L  N+LTGEIP+ +A                 
Sbjct:   395 NLLNLAMNEFTGILPPAFGNLSRLQVIKLQQNKLTGEIPDTIAF-LSNLLILNISCNSLS 453

Query:   241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSL 271
             G +      L  L  + L GN   G IP ++
Sbjct:   454 GSIPPSLSQLKRLSNMNLQGNNLNGTIPDNI 484

GO:0004672 "protein kinase activity" evidence=IEA;ISS

GO:0005524 "ATP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=ISM

GO:0006468 "protein phosphorylation" evidence=IEA

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

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

GO:0009627 "systemic acquired resistance" evidence=RCA

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

GO:0009863 "salicylic acid mediated signaling pathway" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0045087 "innate immune response" evidence=RCA

TAIR|locus:2041150 BRL2 "BRI1-like 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 255 (94.8 bits), Expect = 9.8e-22, Sum P(2) = 9.8e-22
 Identities = 91/273 (33%), Positives = 124/273 (45%)

Query:     4 LRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNE 63
             L+ LD+S N+LTG I         S++ L LS N+F   I  E L + S L+     NN 
Sbjct:   254 LQSLDLSHNRLTGWIPPEIGDTCRSLQNLRLSYNNFTGVIP-ESLSSCSWLQSLDLSNNN 312

Query:    64 LNAEITQSHSLIAPNF-QLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPT 122
             ++     +   I  +F  L  L LS++   G  FP  +     L + D S  + +G  P 
Sbjct:   313 ISGPFPNT---ILRSFGSLQILLLSNNLISGD-FPTSISACKSLRIADFSSNRFSGVIPP 368

Query:   123 WLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKF 182
              L      LE L L ++ +TG     I     L  +D+S N     IP EIG+ L  L+ 
Sbjct:   369 DLCPGAASLEELRLPDNLVTGEIPPAISQCSELRTIDLSLNYLNGTIPPEIGN-LQKLEQ 427

Query:   183 FNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVXXXXXXXXXXXXXGH 242
             F    N + G IP   G +  L+ L L+NNQLTGEIP      C              G 
Sbjct:   428 FIAWYNNIAGEIPPEIGKLQNLKDLILNNNQLTGEIPPEF-FNCSNIEWVSFTSNRLTGE 486

Query:   243 MFSRNFN-LTNLEWLQLGGNRFVGEIPQSLSKC 274
             +  ++F  L+ L  LQLG N F GEIP  L KC
Sbjct:   487 V-PKDFGILSRLAVLQLGNNNFTGEIPPELGKC 518

GO:0004672 "protein kinase activity" evidence=IEA

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

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

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

GO:0005886 "plasma membrane" evidence=ISM

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

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

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

GO:0004675 "transmembrane receptor protein serine/threonine kinase activity" evidence=ISS

GO:0010051 "xylem and phloem pattern formation" evidence=IMP

GO:0010233 "phloem transport" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0009734 "auxin mediated signaling pathway" evidence=RCA;IMP

GO:0009742 "brassinosteroid mediated signaling pathway" evidence=IMP

GO:0010305 "leaf vascular tissue pattern formation" evidence=IMP

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

GO:0007165 "signal transduction" evidence=RCA

GO:0010075 "regulation of meristem growth" evidence=RCA

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

GO:0048443 "stamen development" evidence=RCA

---

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	361
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	4e-26
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	1e-25
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	6e-24
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	4e-21
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	1e-19
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	5e-12
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	1e-10
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	2e-10
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	3e-10
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	4e-09
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	4e-04
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	4e-04
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	0.002
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	0.002

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

 Score =  109 bits (274), Expect = 4e-26
 Identities = 108/311 (34%), Positives = 157/311 (50%), Gaps = 15/311 (4%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHF--QIPISLEPLFNHSRLKIFYA 59
           +SL++LD+  N L G I +S L +LTS+E L L++N    QIP  L  + +   LK  Y 
Sbjct: 164 SSLKVLDLGGNVLVGKIPNS-LTNLTSLEFLTLASNQLVGQIPRELGQMKS---LKWIYL 219

Query: 60  DNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGE 119
             N L+ EI      I     LN L L  +   G I P  L +  +L  + L   K++G 
Sbjct: 220 GYNNLSGEIPYE---IGGLTSLNHLDLVYNNLTGPI-PSSLGNLKNLQYLFLYQNKLSGP 275

Query: 120 FPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS 179
            P  +  +  KL +L L ++SL+G     +   + LE L + +NNF   IPV +   LP 
Sbjct: 276 IPPSIF-SLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVALTS-LPR 333

Query: 180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL 239
           L+   +  N   G IP + G  N L VLDLS N LTGEIPE L     NL  L L +NSL
Sbjct: 334 LQVLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNNLTGEIPEGLC-SSGNLFKLILFSNSL 392

Query: 240 EGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPS--SP 297
           EG +        +L  ++L  N F GE+P   +K   +  L ++NN+L G +N      P
Sbjct: 393 EGEIPKSLGACRSLRRVRLQDNSFSGELPSEFTKLPLVYFLDISNNNLQGRINSRKWDMP 452

Query: 298 ANTLFNLSQNS 308
           +  + +L++N 
Sbjct: 453 SLQMLSLARNK 463

Length = 968

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

 Score =  108 bits (270), Expect = 1e-25
 Identities = 103/309 (33%), Positives = 150/309 (48%), Gaps = 34/309 (11%)

Query: 7   LDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNA 66
           +D+S   ++G ISS+ +  L  I+ + LSNN    PI  +     S L+     NN    
Sbjct: 74  IDLSGKNISGKISSA-IFRLPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNFTG 132

Query: 67  EITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLE 126
            I +      PN  L +L LS++   G I P  +     L ++DL    + G+ P   L 
Sbjct: 133 SIPRGS---IPN--LETLDLSNNMLSGEI-PNDIGSFSSLKVLDLGGNVLVGKIPNS-LT 185

Query: 127 NNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNIS 186
           N T LE L L ++ L G     +   + L+++ +  NN    IP EIG  L SL   ++ 
Sbjct: 186 NLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGG-LTSLNHLDLV 244

Query: 187 MNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEG----- 241
            N L G IPSS GN+  L+ L L  N+L+G IP  +      L SL LS+NSL G     
Sbjct: 245 YNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSI-FSLQKLISLDLSDNSLSGEIPEL 303

Query: 242 ----------HMFSRNF---------NLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYL 282
                     H+FS NF         +L  L+ LQL  N+F GEIP++L K ++L  L L
Sbjct: 304 VIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSNKFSGEIPKNLGKHNNLTVLDL 363

Query: 283 NNNSLSGNV 291
           + N+L+G +
Sbjct: 364 STNNLTGEI 372

Length = 968

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

 Score =  103 bits (257), Expect = 6e-24
 Identities = 108/332 (32%), Positives = 162/332 (48%), Gaps = 34/332 (10%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +TSL  LD+  N LTG I SS L +L +++ L L  N    PI    +F+  +L      
Sbjct: 235 LTSLNHLDLVYNNLTGPIPSS-LGNLKNLQYLFLYQNKLSGPIP-PSIFSLQKLISLDLS 292

Query: 61  NNELNAEITQ---------SHSLIAPNF------------QLNSLSLSSDYGDGFIFPKF 99
           +N L+ EI +            L + NF            +L  L L S+   G I PK 
Sbjct: 293 DNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSNKFSGEI-PKN 351

Query: 100 LYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLD 159
           L   ++L ++DLS   + GE P  L  ++  L  L L ++SL G     + + R L  + 
Sbjct: 352 LGKHNNLTVLDLSTNNLTGEIPEGLC-SSGNLFKLILFSNSLEGEIPKSLGACRSLRRVR 410

Query: 160 ISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIP 219
           + +N+F   +P E    LP + F +IS N L G I S   +M  L++L L+ N+  G +P
Sbjct: 411 LQDNSFSGELPSEFTK-LPLVYFLDISNNNLQGRINSRKWDMPSLQMLSLARNKFFGGLP 469

Query: 220 EHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEG 279
           +  + G   LE+L LS N   G +  +  +L+ L  L+L  N+  GEIP  LS C  L  
Sbjct: 470 D--SFGSKRLENLDLSRNQFSGAVPRKLGSLSELMQLKLSENKLSGEIPDELSSCKKLVS 527

Query: 280 LYLNNNSLSGNVNVPSS----PANTLFNLSQN 307
           L L++N LSG   +P+S    P  +  +LSQN
Sbjct: 528 LDLSHNQLSG--QIPASFSEMPVLSQLDLSQN 557

Length = 968

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

 Score = 94.9 bits (236), Expect = 4e-21
 Identities = 98/314 (31%), Positives = 153/314 (48%), Gaps = 30/314 (9%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHF--QIPISLEPLFNHSRLKIFY 58
           + +L IL + SN  TG I  + L  L  ++ L L +N F  +IP +L     H+ L +  
Sbjct: 307 LQNLEILHLFSNNFTGKIPVA-LTSLPRLQVLQLWSNKFSGEIPKNLG---KHNNLTVLD 362

Query: 59  ADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG 118
              N L  EI +    +  +  L  L L S+  +G I PK L     L  V L     +G
Sbjct: 363 LSTNNLTGEIPEG---LCSSGNLFKLILFSNSLEGEI-PKSLGACRSLRRVRLQDNSFSG 418

Query: 119 EFPTWLLENNTKLETLF---LVNDSLTGPFRLPIHSHRW----LEFLDISNNNFRCHIPV 171
           E P+      TKL  ++   + N++L G     I+S +W    L+ L ++ N F   +P 
Sbjct: 419 ELPSEF----TKLPLVYFLDISNNNLQGR----INSRKWDMPSLQMLSLARNKFFGGLPD 470

Query: 172 EIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLES 231
             G     L+  ++S N   G++P   G+++ L  L LS N+L+GEIP+ L+  C  L S
Sbjct: 471 SFGS--KRLENLDLSRNQFSGAVPRKLGSLSELMQLKLSENKLSGEIPDELS-SCKKLVS 527

Query: 232 LALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV 291
           L LS+N L G + +    +  L  L L  N+  GEIP++L    SL  + +++N L G  
Sbjct: 528 LDLSHNQLSGQIPASFSEMPVLSQLDLSQNQLSGEIPKNLGNVESLVQVNISHNHLHG-- 585

Query: 292 NVPSSPANTLFNLS 305
           ++PS+ A    N S
Sbjct: 586 SLPSTGAFLAINAS 599

Length = 968

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

 Score = 90.3 bits (224), Expect = 1e-19
 Identities = 65/194 (33%), Positives = 95/194 (48%), Gaps = 30/194 (15%)

Query: 106 LALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNF 165
           +  ++LS+ +++G  P  +   ++ L  L L N++ TG   +P  S   LE LD+SNN  
Sbjct: 95  IQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNFTGS--IPRGSIPNLETLDLSNNML 152

Query: 166 RCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVG 225
              IP +IG    SLK  ++  N L G IP+S  N+  L  L L++NQL G+IP  L   
Sbjct: 153 SGEIPNDIG-SFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPREL--- 208

Query: 226 CVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNN 285
                          G M        +L+W+ LG N   GEIP  +   +SL  L L  N
Sbjct: 209 ---------------GQM-------KSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYN 246

Query: 286 SLSGNVNVPSSPAN 299
           +L+G   +PSS  N
Sbjct: 247 NLTG--PIPSSLGN 258

Length = 968

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

 Score = 67.2 bits (164), Expect = 5e-12
 Identities = 42/128 (32%), Positives = 64/128 (50%), Gaps = 2/128 (1%)

Query: 190 LDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFN 249
           + G I S+   + +++ ++LSNNQL+G IP+ +     +L  L LSNN+  G +  R   
Sbjct: 81  ISGKISSAIFRLPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNFTGSI-PRGS- 138

Query: 250 LTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSR 309
           + NLE L L  N   GEIP  +   SSL+ L L  N L G +    +   +L  L+  S 
Sbjct: 139 IPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASN 198

Query: 310 RFTSSISH 317
           +    I  
Sbjct: 199 QLVGQIPR 206

Length = 968

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

 Score = 62.5 bits (152), Expect = 1e-10
 Identities = 38/89 (42%), Positives = 53/89 (59%), Gaps = 1/89 (1%)

Query: 203 FLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNR 262
           F+  L L N  L G IP  ++    +L+S+ LS NS+ G++     ++T+LE L L  N 
Sbjct: 419 FIDGLGLDNQGLRGFIPNDIS-KLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNS 477

Query: 263 FVGEIPQSLSKCSSLEGLYLNNNSLSGNV 291
           F G IP+SL + +SL  L LN NSLSG V
Sbjct: 478 FNGSIPESLGQLTSLRILNLNGNSLSGRV 506

Length = 623

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

 Score = 61.8 bits (150), Expect = 2e-10
 Identities = 34/89 (38%), Positives = 52/89 (58%), Gaps = 1/89 (1%)

Query: 134 LFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGS 193
           L L N  L G     I   R L+ +++S N+ R +IP  +G I  SL+  ++S N+ +GS
Sbjct: 423 LGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSI-TSLEVLDLSYNSFNGS 481

Query: 194 IPSSFGNMNFLRVLDLSNNQLTGEIPEHL 222
           IP S G +  LR+L+L+ N L+G +P  L
Sbjct: 482 IPESLGQLTSLRILNLNGNSLSGRVPAAL 510

Length = 623

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

 Score = 61.0 bits (148), Expect = 3e-10
 Identities = 38/114 (33%), Positives = 50/114 (43%), Gaps = 26/114 (22%)

Query: 158 LDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGE 217
           L + N   R  IP +I   L  L+  N+S N++ G+IP S G++  L VLDLS N   G 
Sbjct: 423 LGLDNQGLRGFIPNDISK-LRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGS 481

Query: 218 IPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSL 271
           IPE L                           LT+L  L L GN   G +P +L
Sbjct: 482 IPESLG-------------------------QLTSLRILNLNGNSLSGRVPAAL 510

Length = 623

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

 Score = 57.9 bits (140), Expect = 4e-09
 Identities = 73/265 (27%), Positives = 116/265 (43%), Gaps = 38/265 (14%)

Query: 3   SLRILDVSSNQLTGSI-----SSSPLVHL------------------TSIEELMLSNNHF 39
           +L +LD+S+N LTG I     SS  L  L                   S+  + L +N F
Sbjct: 357 NLTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRVRLQDNSF 416

Query: 40  QIPISLEPLFNHSRLKIFY---ADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIF 96
              +  E     ++L + Y     NN L   I  S     P+ Q+ SL+ +  +G     
Sbjct: 417 SGELPSE----FTKLPLVYFLDISNNNLQGRI-NSRKWDMPSLQMLSLARNKFFGG---L 468

Query: 97  PKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLE 156
           P   +    L  +DLS  + +G  P  L  + ++L  L L  + L+G     + S + L 
Sbjct: 469 PDS-FGSKRLENLDLSRNQFSGAVPRKLG-SLSELMQLKLSENKLSGEIPDELSSCKKLV 526

Query: 157 FLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTG 216
            LD+S+N     IP    + +P L   ++S N L G IP + GN+  L  +++S+N L G
Sbjct: 527 SLDLSHNQLSGQIPASFSE-MPVLSQLDLSQNQLSGEIPKNLGNVESLVQVNISHNHLHG 585

Query: 217 EIPEHLAVGCVNLESLALSNNSLEG 241
            +P   A   +N  ++A  N  L G
Sbjct: 586 SLPSTGAFLAINASAVA-GNIDLCG 609

Length = 968

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

 Score = 42.1 bits (99), Expect = 4e-04
 Identities = 24/70 (34%), Positives = 40/70 (57%), Gaps = 1/70 (1%)

Query: 130 KLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNA 189
            L+++ L  +S+ G     + S   LE LD+S N+F   IP  +G  L SL+  N++ N+
Sbjct: 443 HLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQ-LTSLRILNLNGNS 501

Query: 190 LDGSIPSSFG 199
           L G +P++ G
Sbjct: 502 LSGRVPAALG 511

Length = 623

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

 Score = 37.9 bits (89), Expect = 4e-04
 Identities = 24/61 (39%), Positives = 32/61 (52%), Gaps = 1/61 (1%)

Query: 179 SLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNS 238
           +LK  ++S N L      +F  +  L+VLDLS N LT  I      G  +L SL LS N+
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLT-SISPEAFSGLPSLRSLDLSGNN 59

Query: 239 L 239
           L
Sbjct: 60  L 60

Length = 60

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

 Score = 36.0 bits (84), Expect = 0.002
 Identities = 25/60 (41%), Positives = 32/60 (53%), Gaps = 1/60 (1%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQL 214
           L+ LD+SNN     IP      LP+LK  ++S N L    P +F  +  LR LDLS N L
Sbjct: 2   LKSLDLSNNRLT-VIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNNL 60

Length = 60

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

 Score = 35.6 bits (83), Expect = 0.002
 Identities = 27/63 (42%), Positives = 33/63 (52%), Gaps = 7/63 (11%)

Query: 204 LRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEG---HMFSRNFNLTNLEWLQLGG 260
           L+ LDLSNN+LT  IP+    G  NL+ L LS N+L       FS    L +L  L L G
Sbjct: 2   LKSLDLSNNRLT-VIPDGAFKGLPNLKVLDLSGNNLTSISPEAFS---GLPSLRSLDLSG 57

Query: 261 NRF 263
           N  
Sbjct: 58  NNL 60

Length = 60

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	361
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	100.0
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	100.0
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	100.0
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.95
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.95
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.94
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.93
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.92
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.91
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.9
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.9
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.89
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.87
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.86
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.85
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.85
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.84
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.83
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.81
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.74
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.71
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.49
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	99.37
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	99.34
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	99.34
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	99.32
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	99.32
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.32
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	99.32
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.3
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	99.25
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.25
PLN03150	623	hypothetical protein; Provisional	99.2
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	99.18
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	99.15
PLN03150	623	hypothetical protein; Provisional	99.1
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	99.09
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	99.01
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.98
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.83
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.82
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.78
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.76
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	98.73
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.71
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.66
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	98.6
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.59
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	98.53
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	98.48
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.38
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.35
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	98.28
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.21
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	98.12
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	98.09
KOG4341	483	consensus F-box protein containing LRR [General fu	98.08
PRK15386	426	type III secretion protein GogB; Provisional	98.05
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	98.04
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	98.0
KOG4341	483	consensus F-box protein containing LRR [General fu	97.99
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.86
PRK15386	426	type III secretion protein GogB; Provisional	97.81
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.34
KOG2123	388	consensus Uncharacterized conserved protein [Funct	97.31
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.29
KOG2123	388	consensus Uncharacterized conserved protein [Funct	97.28
KOG1947	482	consensus Leucine rich repeat proteins, some prote	96.94
KOG1947	482	consensus Leucine rich repeat proteins, some prote	96.59
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.91
smart00370	26	LRR Leucine-rich repeats, outliers.	95.76
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	95.76
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.64
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	95.42
KOG4308	478	consensus LRR-containing protein [Function unknown	95.01
smart00370	26	LRR Leucine-rich repeats, outliers.	94.08
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	94.08
KOG4308	478	consensus LRR-containing protein [Function unknown	93.86
KOG0473	326	consensus Leucine-rich repeat protein [Function un	93.16
KOG3864	221	consensus Uncharacterized conserved protein [Funct	92.08
PF13516	24	LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RI	91.57
KOG3864	221	consensus Uncharacterized conserved protein [Funct	91.38
TIGR00864	2740	PCC polycystin cation channel protein. Note: this	89.12
smart00365	26	LRR_SD22 Leucine-rich repeat, SDS22-like subfamily	88.41
KOG0473	326	consensus Leucine-rich repeat protein [Function un	87.94
smart00364	26	LRR_BAC Leucine-rich repeats, bacterial type.	84.33
KOG4242	553	consensus Predicted myosin-I-binding protein [Cell	82.92

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

Probab=100.00  E-value=2.9e-37  Score=315.71  Aligned_cols=304  Identities=29%  Similarity=0.389  Sum_probs=170.3

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      ++|++|++++|.+++.+|. .+..+++|++|++++|.+.+.+| ..+.++++|++|++++|.+.+..+..   +..+.+|
T Consensus       140 ~~L~~L~Ls~n~~~~~~p~-~~~~l~~L~~L~L~~n~l~~~~p-~~~~~l~~L~~L~L~~n~l~~~~p~~---l~~l~~L  214 (968)
T PLN00113        140 PNLETLDLSNNMLSGEIPN-DIGSFSSLKVLDLGGNVLVGKIP-NSLTNLTSLEFLTLASNQLVGQIPRE---LGQMKSL  214 (968)
T ss_pred             CCCCEEECcCCcccccCCh-HHhcCCCCCEEECccCcccccCC-hhhhhCcCCCeeeccCCCCcCcCChH---HcCcCCc
Confidence            4555556666655555555 56666666666666666655555 35666666666666666665444433   3444566


Q ss_pred             cEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEcc
Q 042011           82 NSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDIS  161 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  161 (361)
                      ++|++ ++|.+.+..|..+..+++|++|++++|.+++.+|.. ++++++|++|++++|.+.+..|..+..+++|++|+++
T Consensus       215 ~~L~L-~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls  292 (968)
T PLN00113        215 KWIYL-GYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSS-LGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLS  292 (968)
T ss_pred             cEEEC-cCCccCCcCChhHhcCCCCCEEECcCceeccccChh-HhCCCCCCEEECcCCeeeccCchhHhhccCcCEEECc
Confidence            66666 566665556666666666666666666665555554 5566666666666666655555555566666666666


Q ss_pred             CCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCC
Q 042011          162 NNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEG  241 (361)
Q Consensus       162 ~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~  241 (361)
                      +|.+.+.+|..+.. +++|+.|++++|.+.+..|..+..+++|+.|++++|.+.+.+|..+. .+++|+.|++++|++.+
T Consensus       293 ~n~l~~~~p~~~~~-l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~p~~l~-~~~~L~~L~Ls~n~l~~  370 (968)
T PLN00113        293 DNSLSGEIPELVIQ-LQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSNKFSGEIPKNLG-KHNNLTVLDLSTNNLTG  370 (968)
T ss_pred             CCeeccCCChhHcC-CCCCcEEECCCCccCCcCChhHhcCCCCCEEECcCCCCcCcCChHHh-CCCCCcEEECCCCeeEe
Confidence            66665455544443 55666666666665555555555566666666666665555555443 45555555555555554


Q ss_pred             cccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCC
Q 042011          242 HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSS  314 (361)
Q Consensus       242 ~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~  314 (361)
                      ..|..+..+++|+.|++++|.+.+..|..+..+++|+.|++++|++++..|..+..++.|+.+++++|.+++.
T Consensus       371 ~~p~~~~~~~~L~~L~l~~n~l~~~~p~~~~~~~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~  443 (968)
T PLN00113        371 EIPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRVRLQDNSFSGELPSEFTKLPLVYFLDISNNNLQGR  443 (968)
T ss_pred             eCChhHhCcCCCCEEECcCCEecccCCHHHhCCCCCCEEECcCCEeeeECChhHhcCCCCCEEECcCCcccCc
Confidence            4444444444444444444444444444444444555555555555444444444444444444444444443

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

Probab=100.00  E-value=9.7e-37  Score=311.82  Aligned_cols=307  Identities=34%  Similarity=0.429  Sum_probs=248.6

Q ss_pred             CCCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccc
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQ   80 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~   80 (361)
                      +++|++|++++|.+++.+|. .+.++++|++|++++|++++.+| ..+.++++|++|++++|.+.+..+..   +..+.+
T Consensus       163 l~~L~~L~L~~n~l~~~~p~-~~~~l~~L~~L~L~~n~l~~~~p-~~l~~l~~L~~L~L~~n~l~~~~p~~---l~~l~~  237 (968)
T PLN00113        163 FSSLKVLDLGGNVLVGKIPN-SLTNLTSLEFLTLASNQLVGQIP-RELGQMKSLKWIYLGYNNLSGEIPYE---IGGLTS  237 (968)
T ss_pred             CCCCCEEECccCcccccCCh-hhhhCcCCCeeeccCCCCcCcCC-hHHcCcCCccEEECcCCccCCcCChh---HhcCCC
Confidence            47899999999999878888 89999999999999999987777 67889999999999999988766655   456678


Q ss_pred             ccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEc
Q 042011           81 LNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDI  160 (361)
Q Consensus        81 L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l  160 (361)
                      |++|++ .+|.+.+..|..+..+++|++|++++|.+.+.+|.. +.++++|++|++++|.+.+..|..+..+++|+.|++
T Consensus       238 L~~L~L-~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l  315 (968)
T PLN00113        238 LNHLDL-VYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPS-IFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHL  315 (968)
T ss_pred             CCEEEC-cCceeccccChhHhCCCCCCEEECcCCeeeccCchh-HhhccCcCEEECcCCeeccCCChhHcCCCCCcEEEC
Confidence            999999 888888888888999999999999999988777777 678889999999999888888888888888999999


Q ss_pred             cCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCC
Q 042011          161 SNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE  240 (361)
Q Consensus       161 ~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~  240 (361)
                      ++|.+.+.+|..+.. +++|+.|++++|.+.+.+|..++.+++|+.|++++|.+.+.+|..+. .+++|+.|++++|.+.
T Consensus       316 ~~n~~~~~~~~~~~~-l~~L~~L~L~~n~l~~~~p~~l~~~~~L~~L~Ls~n~l~~~~p~~~~-~~~~L~~L~l~~n~l~  393 (968)
T PLN00113        316 FSNNFTGKIPVALTS-LPRLQVLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNNLTGEIPEGLC-SSGNLFKLILFSNSLE  393 (968)
T ss_pred             CCCccCCcCChhHhc-CCCCCEEECcCCCCcCcCChHHhCCCCCcEEECCCCeeEeeCChhHh-CcCCCCEEECcCCEec
Confidence            988888777766665 88888888888888878888888888888888888888777776665 5677777777777777


Q ss_pred             CcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcc
Q 042011          241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSIS  316 (361)
Q Consensus       241 ~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~  316 (361)
                      +..|..+..+++|+.|++++|++++..|..+..+++|+.+++++|.+++.+|..+..+++|+.|++++|++.+.+|
T Consensus       394 ~~~p~~~~~~~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~~~~~~p  469 (968)
T PLN00113        394 GEIPKSLGACRSLRRVRLQDNSFSGELPSEFTKLPLVYFLDISNNNLQGRINSRKWDMPSLQMLSLARNKFFGGLP  469 (968)
T ss_pred             ccCCHHHhCCCCCCEEECcCCEeeeECChhHhcCCCCCEEECcCCcccCccChhhccCCCCcEEECcCceeeeecC
Confidence            7677777777777777777777777777777777777777777777777666666666666666666666665554

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

Probab=100.00  E-value=7.6e-38  Score=280.03  Aligned_cols=330  Identities=22%  Similarity=0.217  Sum_probs=235.0

Q ss_pred             CCCCCeEeCCCccccCcCChhhhhc-cCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcc
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLVH-LTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNF   79 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~~-l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~   79 (361)
                      +++|+++++.+|.++ .||.  |.. ..+|+.|+|.+|.|+ ++..+++..++.|+.||||.|.+.......   +....
T Consensus       101 l~nLq~v~l~~N~Lt-~IP~--f~~~sghl~~L~L~~N~I~-sv~se~L~~l~alrslDLSrN~is~i~~~s---fp~~~  173 (873)
T KOG4194|consen  101 LPNLQEVNLNKNELT-RIPR--FGHESGHLEKLDLRHNLIS-SVTSEELSALPALRSLDLSRNLISEIPKPS---FPAKV  173 (873)
T ss_pred             CCcceeeeeccchhh-hccc--ccccccceeEEeeeccccc-cccHHHHHhHhhhhhhhhhhchhhcccCCC---CCCCC
Confidence            467777777777777 7776  444 345777777777776 555566777777777777777776543333   33334


Q ss_pred             cccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccC----------------
Q 042011           80 QLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTG----------------  143 (361)
Q Consensus        80 ~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~----------------  143 (361)
                      ++++|+| ++|.++......|..+.+|..|.|++|+++ .+|...|+++++|+.|+|..|++..                
T Consensus       174 ni~~L~L-a~N~It~l~~~~F~~lnsL~tlkLsrNrit-tLp~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~nlk  251 (873)
T KOG4194|consen  174 NIKKLNL-ASNRITTLETGHFDSLNSLLTLKLSRNRIT-TLPQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQNLK  251 (873)
T ss_pred             CceEEee-ccccccccccccccccchheeeecccCccc-ccCHHHhhhcchhhhhhccccceeeehhhhhcCchhhhhhh
Confidence            7777777 777777777777777777777777777776 6676667777777777777666543                


Q ss_pred             --------CCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCc
Q 042011          144 --------PFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLT  215 (361)
Q Consensus       144 --------~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~  215 (361)
                              .....|..+.++++|+++.|+++ .+.....-++..|+.|++|+|.|...-++....+++|++|++++|+++
T Consensus       252 lqrN~I~kL~DG~Fy~l~kme~l~L~~N~l~-~vn~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i~  330 (873)
T KOG4194|consen  252 LQRNDISKLDDGAFYGLEKMEHLNLETNRLQ-AVNEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNRIT  330 (873)
T ss_pred             hhhcCcccccCcceeeecccceeecccchhh-hhhcccccccchhhhhccchhhhheeecchhhhcccceeEeccccccc
Confidence                    23444555566677777777776 443332223777888888888877666777778888888888888888


Q ss_pred             cccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccc---hhhhhcCCCCCEEECcCCcccccCC
Q 042011          216 GEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEI---PQSLSKCSSLEGLYLNNNSLSGNVN  292 (361)
Q Consensus       216 ~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~---~~~~~~l~~L~~L~l~~N~l~~~~~  292 (361)
                       ++++..+..+..|++|+|++|+++......|..+++|+.|||++|.++..+   ...|.++++|+.|++.+|++..+.-
T Consensus       331 -~l~~~sf~~L~~Le~LnLs~Nsi~~l~e~af~~lssL~~LdLr~N~ls~~IEDaa~~f~gl~~LrkL~l~gNqlk~I~k  409 (873)
T KOG4194|consen  331 -RLDEGSFRVLSQLEELNLSHNSIDHLAEGAFVGLSSLHKLDLRSNELSWCIEDAAVAFNGLPSLRKLRLTGNQLKSIPK  409 (873)
T ss_pred             -cCChhHHHHHHHhhhhcccccchHHHHhhHHHHhhhhhhhcCcCCeEEEEEecchhhhccchhhhheeecCceeeecch
Confidence             787777777888888888888888877788888899999999999877543   3568888999999999999987666


Q ss_pred             CCCCCcCcceeeccccccccCCcccccccccccchhhhHHHhhccc-hHHHHHHHHH
Q 042011          293 VPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGICKEYAKEFARNM-PRICEEYAAY  348 (361)
Q Consensus       293 ~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~c~~~~~~  348 (361)
                      .+|.+++.|++|++.+|.+-+.-+. .|..+ .+     ++.+-+. ...|+|...|
T Consensus       410 rAfsgl~~LE~LdL~~NaiaSIq~n-AFe~m-~L-----k~Lv~nSssflCDCql~W  459 (873)
T KOG4194|consen  410 RAFSGLEALEHLDLGDNAIASIQPN-AFEPM-EL-----KELVMNSSSFLCDCQLKW  459 (873)
T ss_pred             hhhccCcccceecCCCCcceeeccc-ccccc-hh-----hhhhhcccceEEeccHHH
Confidence            7899999999999999998875553 44443 11     3333333 3458875444

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

Probab=100.00  E-value=4e-38  Score=281.81  Aligned_cols=312  Identities=22%  Similarity=0.213  Sum_probs=239.9

Q ss_pred             CCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccccc
Q 042011            3 SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLN   82 (361)
Q Consensus         3 ~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~   82 (361)
                      .|+.||||.|.|+ .||...|..-.++++|+|++|+|+ .+....|..+.+|..|.|++|+++...+..   |..+.+|+
T Consensus       150 alrslDLSrN~is-~i~~~sfp~~~ni~~L~La~N~It-~l~~~~F~~lnsL~tlkLsrNrittLp~r~---Fk~L~~L~  224 (873)
T KOG4194|consen  150 ALRSLDLSRNLIS-EIPKPSFPAKVNIKKLNLASNRIT-TLETGHFDSLNSLLTLKLSRNRITTLPQRS---FKRLPKLE  224 (873)
T ss_pred             hhhhhhhhhchhh-cccCCCCCCCCCceEEeecccccc-ccccccccccchheeeecccCcccccCHHH---hhhcchhh
Confidence            3445555555554 444444444455555555555554 333345555555555555555555443333   44455566


Q ss_pred             EEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccC
Q 042011           83 SLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISN  162 (361)
Q Consensus        83 ~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~  162 (361)
                      .|+| ..|.+.......|.++++|+.|.+.+|++. .+.++.|..+.++++|+|+.|++..+....+-++..|+.|++++
T Consensus       225 ~LdL-nrN~irive~ltFqgL~Sl~nlklqrN~I~-kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~  302 (873)
T KOG4194|consen  225 SLDL-NRNRIRIVEGLTFQGLPSLQNLKLQRNDIS-KLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSY  302 (873)
T ss_pred             hhhc-cccceeeehhhhhcCchhhhhhhhhhcCcc-cccCcceeeecccceeecccchhhhhhcccccccchhhhhccch
Confidence            6666 555555444445566666666666666665 55666688899999999999999988888899999999999999


Q ss_pred             CcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCc
Q 042011          163 NNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGH  242 (361)
Q Consensus       163 n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~  242 (361)
                      |.|. .+.....+..++|++|+|++|+++...+..|..+..|++|++++|.++ .+.+..|..+++|++|||++|.+...
T Consensus       303 NaI~-rih~d~WsftqkL~~LdLs~N~i~~l~~~sf~~L~~Le~LnLs~Nsi~-~l~e~af~~lssL~~LdLr~N~ls~~  380 (873)
T KOG4194|consen  303 NAIQ-RIHIDSWSFTQKLKELDLSSNRITRLDEGSFRVLSQLEELNLSHNSID-HLAEGAFVGLSSLHKLDLRSNELSWC  380 (873)
T ss_pred             hhhh-eeecchhhhcccceeEeccccccccCChhHHHHHHHhhhhcccccchH-HHHhhHHHHhhhhhhhcCcCCeEEEE
Confidence            9998 665554455789999999999999888889999999999999999999 88888888999999999999998753


Q ss_pred             ---ccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCccccc
Q 042011          243 ---MFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSH  319 (361)
Q Consensus       243 ---~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~  319 (361)
                         ....|.++++|+.|++.+|++......+|.++++|++|||.+|.|..+-|++|..+ .|++|-++.-.|.|+|...|
T Consensus       381 IEDaa~~f~gl~~LrkL~l~gNqlk~I~krAfsgl~~LE~LdL~~NaiaSIq~nAFe~m-~Lk~Lv~nSssflCDCql~W  459 (873)
T KOG4194|consen  381 IEDAAVAFNGLPSLRKLRLTGNQLKSIPKRAFSGLEALEHLDLGDNAIASIQPNAFEPM-ELKELVMNSSSFLCDCQLKW  459 (873)
T ss_pred             EecchhhhccchhhhheeecCceeeecchhhhccCcccceecCCCCcceeecccccccc-hhhhhhhcccceEEeccHHH
Confidence               34457789999999999999997777899999999999999999999999999999 99999999999999999888


Q ss_pred             ccccc
Q 042011          320 LLNLH  324 (361)
Q Consensus       320 ~~~~~  324 (361)
                      +.+|.
T Consensus       460 l~qWl  464 (873)
T KOG4194|consen  460 LAQWL  464 (873)
T ss_pred             HHHHH
Confidence            88773

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

Probab=99.95  E-value=9.3e-31  Score=236.74  Aligned_cols=300  Identities=26%  Similarity=0.292  Sum_probs=172.6

Q ss_pred             CCCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccc
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQ   80 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~   80 (361)
                      |++++-|.|...++. .+|+ .++.+.+|++|.+++|++. ++. ..+..+++|+.+++.+|++...  ..+..+..+..
T Consensus        31 Mt~~~WLkLnrt~L~-~vPe-EL~~lqkLEHLs~~HN~L~-~vh-GELs~Lp~LRsv~~R~N~LKns--GiP~diF~l~d  104 (1255)
T KOG0444|consen   31 MTQMTWLKLNRTKLE-QVPE-ELSRLQKLEHLSMAHNQLI-SVH-GELSDLPRLRSVIVRDNNLKNS--GIPTDIFRLKD  104 (1255)
T ss_pred             hhheeEEEechhhhh-hChH-HHHHHhhhhhhhhhhhhhH-hhh-hhhccchhhHHHhhhccccccC--CCCchhccccc
Confidence            345556666666665 6776 6777777777777777776 444 4566777777777777766421  12222455667


Q ss_pred             ccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEc
Q 042011           81 LNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDI  160 (361)
Q Consensus        81 L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l  160 (361)
                      |..|+| ++|++. ..|..+...+++-.|++|+|.|. ++|..+|-+++.|-.||+++|++. ..|..+..+..|++|++
T Consensus       105 Lt~lDL-ShNqL~-EvP~~LE~AKn~iVLNLS~N~Ie-tIPn~lfinLtDLLfLDLS~NrLe-~LPPQ~RRL~~LqtL~L  180 (1255)
T KOG0444|consen  105 LTILDL-SHNQLR-EVPTNLEYAKNSIVLNLSYNNIE-TIPNSLFINLTDLLFLDLSNNRLE-MLPPQIRRLSMLQTLKL  180 (1255)
T ss_pred             ceeeec-chhhhh-hcchhhhhhcCcEEEEcccCccc-cCCchHHHhhHhHhhhccccchhh-hcCHHHHHHhhhhhhhc
Confidence            777888 777776 45667777777778888888876 777777777777778888888776 45666666777777777


Q ss_pred             cCCcCCccCChhhhccCCCccEEEecCCccc-cccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCC
Q 042011          161 SNNNFRCHIPVEIGDILPSLKFFNISMNALD-GSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL  239 (361)
Q Consensus       161 ~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l  239 (361)
                      ++|++. .+.-.-...+.+|+.|.+++.+-+ ..+|..+..+.+|+.++++.|.+. .+|.++. .+++|+.|+|++|+|
T Consensus       181 s~NPL~-hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvDlS~N~Lp-~vPecly-~l~~LrrLNLS~N~i  257 (1255)
T KOG0444|consen  181 SNNPLN-HFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVDLSENNLP-IVPECLY-KLRNLRRLNLSGNKI  257 (1255)
T ss_pred             CCChhh-HHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhhccccccCCC-cchHHHh-hhhhhheeccCcCce
Confidence            777654 211111111223333333333221 123334444444444444444444 4444443 344444444444444


Q ss_pred             CC----------------------cccccccCCCCCCEEeccCCcCCc-cchhhhhcCCCCCEEECcCCcccccCCCCCC
Q 042011          240 EG----------------------HMFSRNFNLTNLEWLQLGGNRFVG-EIPQSLSKCSSLEGLYLNNNSLSGNVNVPSS  296 (361)
Q Consensus       240 ~~----------------------~~~~~~~~~~~L~~L~L~~n~l~~-~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~  296 (361)
                      +.                      ..|..++.+++|+.|++.+|+++- -+|..++++..|+.+..++|.+. .+|+.++
T Consensus       258 teL~~~~~~W~~lEtLNlSrNQLt~LP~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aanN~LE-lVPEglc  336 (1255)
T KOG0444|consen  258 TELNMTEGEWENLETLNLSRNQLTVLPDAVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAANNKLE-LVPEGLC  336 (1255)
T ss_pred             eeeeccHHHHhhhhhhccccchhccchHHHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhccccc-cCchhhh
Confidence            32                      144445555555555555554431 14455555555555555555554 5666667


Q ss_pred             CcCcceeeccccccccCC
Q 042011          297 PANTLFNLSQNSRRFTSS  314 (361)
Q Consensus       297 ~~~~L~~l~l~~N~~~~~  314 (361)
                      .+..|+.|.++.|++.+.
T Consensus       337 RC~kL~kL~L~~NrLiTL  354 (1255)
T KOG0444|consen  337 RCVKLQKLKLDHNRLITL  354 (1255)
T ss_pred             hhHHHHHhcccccceeec
Confidence            777777777777776643

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

Probab=99.95  E-value=4.3e-30  Score=232.47  Aligned_cols=297  Identities=24%  Similarity=0.259  Sum_probs=198.8

Q ss_pred             CCCeEeCCCccccC-cCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            3 SLRILDVSSNQLTG-SISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         3 ~L~~L~L~~n~i~~-~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      .|+.+++..|++.. .||. .+.++..|..||||+|+++ ..| ..+...+++-.|+||+|+|..+....   +..++.|
T Consensus        79 ~LRsv~~R~N~LKnsGiP~-diF~l~dLt~lDLShNqL~-EvP-~~LE~AKn~iVLNLS~N~IetIPn~l---finLtDL  152 (1255)
T KOG0444|consen   79 RLRSVIVRDNNLKNSGIPT-DIFRLKDLTILDLSHNQLR-EVP-TNLEYAKNSIVLNLSYNNIETIPNSL---FINLTDL  152 (1255)
T ss_pred             hhHHHhhhccccccCCCCc-hhcccccceeeecchhhhh-hcc-hhhhhhcCcEEEEcccCccccCCchH---HHhhHhH
Confidence            34444444444321 2444 3344455555555555554 444 34444455555555555554332222   3444444


Q ss_pred             cEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCccc-CCCCCCcCCCCCcCEEEc
Q 042011           82 NSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLT-GPFRLPIHSHRWLEFLDI  160 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l  160 (361)
                      -+|+| ++|.+. ..|..+..+..|++|++++|.+. .+--..+-.+++|+.|.+++.+-+ .-+|.++..+.+|..+|+
T Consensus       153 LfLDL-S~NrLe-~LPPQ~RRL~~LqtL~Ls~NPL~-hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvDl  229 (1255)
T KOG0444|consen  153 LFLDL-SNNRLE-MLPPQIRRLSMLQTLKLSNNPLN-HFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVDL  229 (1255)
T ss_pred             hhhcc-ccchhh-hcCHHHHHHhhhhhhhcCCChhh-HHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhhccc
Confidence            45555 444444 23334444555555555555433 111000112334444444443322 246778888889999999


Q ss_pred             cCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCC
Q 042011          161 SNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE  240 (361)
Q Consensus       161 ~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~  240 (361)
                      +.|.+. .+|+.++. +++|+.|+||+|.++ .+........+|++|++++|.++ .+|..+. .+++|+.|.+.+|+++
T Consensus       230 S~N~Lp-~vPecly~-l~~LrrLNLS~N~it-eL~~~~~~W~~lEtLNlSrNQLt-~LP~avc-KL~kL~kLy~n~NkL~  304 (1255)
T KOG0444|consen  230 SENNLP-IVPECLYK-LRNLRRLNLSGNKIT-ELNMTEGEWENLETLNLSRNQLT-VLPDAVC-KLTKLTKLYANNNKLT  304 (1255)
T ss_pred             cccCCC-cchHHHhh-hhhhheeccCcCcee-eeeccHHHHhhhhhhccccchhc-cchHHHh-hhHHHHHHHhccCccc
Confidence            999998 88988887 899999999999998 56666677788999999999999 9999988 7999999999999876


Q ss_pred             C-cccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCc
Q 042011          241 G-HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSI  315 (361)
Q Consensus       241 ~-~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~  315 (361)
                      - .+|+.++.+..|+.+..++|.+. .+|+.++.|.+|+.|.++.|++- ..|+++--++-|..|++..|+-.-.+
T Consensus       305 FeGiPSGIGKL~~Levf~aanN~LE-lVPEglcRC~kL~kL~L~~NrLi-TLPeaIHlL~~l~vLDlreNpnLVMP  378 (1255)
T KOG0444|consen  305 FEGIPSGIGKLIQLEVFHAANNKLE-LVPEGLCRCVKLQKLKLDHNRLI-TLPEAIHLLPDLKVLDLRENPNLVMP  378 (1255)
T ss_pred             ccCCccchhhhhhhHHHHhhccccc-cCchhhhhhHHHHHhccccccee-echhhhhhcCCcceeeccCCcCccCC
Confidence            3 37888999999999999999998 88999999999999999999987 57888888999999999998754333

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

Probab=99.94  E-value=9.2e-30  Score=219.10  Aligned_cols=290  Identities=27%  Similarity=0.317  Sum_probs=190.8

Q ss_pred             CCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccE
Q 042011            4 LRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNS   83 (361)
Q Consensus         4 L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~   83 (361)
                      ++.++.++|.+. .+|+ .+..+-.|+.++..+|+++ +.| ..+..+.+|..+++.+|.+....+..    ..+..|++
T Consensus       116 l~~l~~s~n~~~-el~~-~i~~~~~l~dl~~~~N~i~-slp-~~~~~~~~l~~l~~~~n~l~~l~~~~----i~m~~L~~  187 (565)
T KOG0472|consen  116 LVKLDCSSNELK-ELPD-SIGRLLDLEDLDATNNQIS-SLP-EDMVNLSKLSKLDLEGNKLKALPENH----IAMKRLKH  187 (565)
T ss_pred             hhhhhcccccee-ecCc-hHHHHhhhhhhhccccccc-cCc-hHHHHHHHHHHhhccccchhhCCHHH----HHHHHHHh
Confidence            444555555554 4444 4555555555555555554 444 34555555555555555555443332    33557777


Q ss_pred             EeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCC
Q 042011           84 LSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNN  163 (361)
Q Consensus        84 L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n  163 (361)
                      ++. ..|.++ ..|..++.+.+|+.|++.+|++. .+|+  |.++..|++++++.|.+.....+....++++..||+..|
T Consensus       188 ld~-~~N~L~-tlP~~lg~l~~L~~LyL~~Nki~-~lPe--f~gcs~L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRdN  262 (565)
T KOG0472|consen  188 LDC-NSNLLE-TLPPELGGLESLELLYLRRNKIR-FLPE--FPGCSLLKELHVGENQIEMLPAEHLKHLNSLLVLDLRDN  262 (565)
T ss_pred             ccc-chhhhh-cCChhhcchhhhHHHHhhhcccc-cCCC--CCccHHHHHHHhcccHHHhhHHHHhcccccceeeecccc
Confidence            777 666665 46667777777777788888776 6664  667777777777777776333333447777788888888


Q ss_pred             cCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCc----------------------------
Q 042011          164 NFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLT----------------------------  215 (361)
Q Consensus       164 ~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~----------------------------  215 (361)
                      +++ +.|+++.- +.+|++||+|+|.++ ..|..++++ +|+.|.+.+|.+.                            
T Consensus       263 klk-e~Pde~cl-LrsL~rLDlSNN~is-~Lp~sLgnl-hL~~L~leGNPlrTiRr~ii~~gT~~vLKyLrs~~~~dglS  338 (565)
T KOG0472|consen  263 KLK-EVPDEICL-LRSLERLDLSNNDIS-SLPYSLGNL-HLKFLALEGNPLRTIRREIISKGTQEVLKYLRSKIKDDGLS  338 (565)
T ss_pred             ccc-cCchHHHH-hhhhhhhcccCCccc-cCCcccccc-eeeehhhcCCchHHHHHHHHcccHHHHHHHHHHhhccCCCC
Confidence            887 77877765 677888888888877 566666666 5666666666554                            


Q ss_pred             ------------------------------------cccchhhh------------------------------------
Q 042011          216 ------------------------------------GEIPEHLA------------------------------------  223 (361)
Q Consensus       216 ------------------------------------~~~~~~~~------------------------------------  223 (361)
                                                          ..+|..+|                                    
T Consensus       339 ~se~~~e~~~t~~~~~~~~~~~~i~tkiL~~s~~qlt~VPdEVfea~~~~~Vt~VnfskNqL~elPk~L~~lkelvT~l~  418 (565)
T KOG0472|consen  339 QSEGGTETAMTLPSESFPDIYAIITTKILDVSDKQLTLVPDEVFEAAKSEIVTSVNFSKNQLCELPKRLVELKELVTDLV  418 (565)
T ss_pred             CCcccccccCCCCCCcccchhhhhhhhhhcccccccccCCHHHHHHhhhcceEEEecccchHhhhhhhhHHHHHHHHHHH
Confidence                                                01111111                                    


Q ss_pred             -------------hCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCc-----------------------cc
Q 042011          224 -------------VGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVG-----------------------EI  267 (361)
Q Consensus       224 -------------~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~-----------------------~~  267 (361)
                                   ..+++|..|++++|-+.+ .|..++.+..|+.|+++.|++..                       ..
T Consensus       419 lsnn~isfv~~~l~~l~kLt~L~L~NN~Ln~-LP~e~~~lv~Lq~LnlS~NrFr~lP~~~y~lq~lEtllas~nqi~~vd  497 (565)
T KOG0472|consen  419 LSNNKISFVPLELSQLQKLTFLDLSNNLLND-LPEEMGSLVRLQTLNLSFNRFRMLPECLYELQTLETLLASNNQIGSVD  497 (565)
T ss_pred             hhcCccccchHHHHhhhcceeeecccchhhh-cchhhhhhhhhheecccccccccchHHHhhHHHHHHHHhccccccccC
Confidence                         145677788888877766 56666677778888888776542                       23


Q ss_pred             hhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeecccccccc
Q 042011          268 PQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFT  312 (361)
Q Consensus       268 ~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~  312 (361)
                      ++.+.++.+|..||+.+|.+. .+|..+.++.+|++|++.||+|.
T Consensus       498 ~~~l~nm~nL~tLDL~nNdlq-~IPp~LgnmtnL~hLeL~gNpfr  541 (565)
T KOG0472|consen  498 PSGLKNMRNLTTLDLQNNDLQ-QIPPILGNMTNLRHLELDGNPFR  541 (565)
T ss_pred             hHHhhhhhhcceeccCCCchh-hCChhhccccceeEEEecCCccC
Confidence            445777889999999999997 57778899999999999999998

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

Probab=99.93  E-value=3.7e-28  Score=209.28  Aligned_cols=126  Identities=31%  Similarity=0.359  Sum_probs=78.8

Q ss_pred             CCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEE
Q 042011          177 LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWL  256 (361)
Q Consensus       177 l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L  256 (361)
                      +++|..|++++|.+. .+|..++.+..|+.++++.|++. .+|..+- .+..++.+-.++|++....++.+.++..|..|
T Consensus       434 l~kLt~L~L~NN~Ln-~LP~e~~~lv~Lq~LnlS~NrFr-~lP~~~y-~lq~lEtllas~nqi~~vd~~~l~nm~nL~tL  510 (565)
T KOG0472|consen  434 LQKLTFLDLSNNLLN-DLPEEMGSLVRLQTLNLSFNRFR-MLPECLY-ELQTLETLLASNNQIGSVDPSGLKNMRNLTTL  510 (565)
T ss_pred             hhcceeeecccchhh-hcchhhhhhhhhheecccccccc-cchHHHh-hHHHHHHHHhccccccccChHHhhhhhhccee
Confidence            344444444444444 44444444444555555555444 4444433 33344444444455556666678899999999


Q ss_pred             eccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccc
Q 042011          257 QLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQN  307 (361)
Q Consensus       257 ~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~  307 (361)
                      |+.+|.+. .+|..++++++|++|++++|.|+ .++...-.-.+...+..-
T Consensus       511 DL~nNdlq-~IPp~LgnmtnL~hLeL~gNpfr-~Pr~~iLmkgT~aiL~yl  559 (565)
T KOG0472|consen  511 DLQNNDLQ-QIPPILGNMTNLRHLELDGNPFR-QPRHQILMKGTAAILSYL  559 (565)
T ss_pred             ccCCCchh-hCChhhccccceeEEEecCCccC-CCHHHHhccChHHHHHHh
Confidence            99999999 78999999999999999999998 444443333333333333

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

Probab=99.92  E-value=1.4e-27  Score=205.29  Aligned_cols=294  Identities=16%  Similarity=0.073  Sum_probs=194.2

Q ss_pred             CCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCcc
Q 042011           28 SIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLA  107 (361)
Q Consensus        28 ~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~  107 (361)
                      .-..|+|..|+|+ .+|..+|..+++|+.|||++|.|+.+.+..   |..+..+.+|.+-++|.|.......|.++..++
T Consensus        68 ~tveirLdqN~I~-~iP~~aF~~l~~LRrLdLS~N~Is~I~p~A---F~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slq  143 (498)
T KOG4237|consen   68 ETVEIRLDQNQIS-SIPPGAFKTLHRLRRLDLSKNNISFIAPDA---FKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQ  143 (498)
T ss_pred             cceEEEeccCCcc-cCChhhccchhhhceecccccchhhcChHh---hhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHH
Confidence            4555666666665 555556666666666666666665555544   334444444444244666555555666666666


Q ss_pred             EEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCcc--CC---------hhhhcc
Q 042011          108 LVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCH--IP---------VEIGDI  176 (361)
Q Consensus       108 ~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~--~~---------~~~~~~  176 (361)
                      .|.+.-|++. .++...|..++++..|.+..|.+...-..+|..+..++++.+..|.+...  +|         ...+.+
T Consensus       144 rLllNan~i~-Cir~~al~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~ietsg  222 (498)
T KOG4237|consen  144 RLLLNANHIN-CIRQDALRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPIETSG  222 (498)
T ss_pred             HHhcChhhhc-chhHHHHHHhhhcchhcccchhhhhhccccccchhccchHhhhcCccccccccchhhhHHhhchhhccc
Confidence            6666666665 45555566666666666666666544444566666666666665553210  00         000111


Q ss_pred             CCCccEEEecCCccccccCccccCC-CCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCE
Q 042011          177 LPSLKFFNISMNALDGSIPSSFGNM-NFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEW  255 (361)
Q Consensus       177 l~~L~~L~L~~n~l~~~~~~~l~~~-~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~  255 (361)
                      ..-.....+.+.++....+..|... ..+..--.+.+...+..|...|..+++|+.|++++|+++++.+.+|.+..++++
T Consensus       223 arc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~i~~~aFe~~a~l~e  302 (498)
T KOG4237|consen  223 ARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITRIEDGAFEGAAELQE  302 (498)
T ss_pred             ceecchHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccchhhhhhhcchhhhhh
Confidence            1222222333333332223323221 122222233444555778888889999999999999999999999999999999


Q ss_pred             EeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcccccccccccc
Q 042011          256 LQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGI  326 (361)
Q Consensus       256 L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~~~~  326 (361)
                      |.|..|++...-...|.++..|+.|++.+|+|+...|.+|..+.+|.+|.+-+|+|.|.+-..|+..|.+-
T Consensus       303 L~L~~N~l~~v~~~~f~~ls~L~tL~L~~N~it~~~~~aF~~~~~l~~l~l~~Np~~CnC~l~wl~~Wlr~  373 (498)
T KOG4237|consen  303 LYLTRNKLEFVSSGMFQGLSGLKTLSLYDNQITTVAPGAFQTLFSLSTLNLLSNPFNCNCRLAWLGEWLRK  373 (498)
T ss_pred             hhcCcchHHHHHHHhhhccccceeeeecCCeeEEEecccccccceeeeeehccCcccCccchHHHHHHHhh
Confidence            99999999977778899999999999999999999999999999999999999999999999999888553

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

Probab=99.91  E-value=1.2e-25  Score=211.72  Aligned_cols=291  Identities=24%  Similarity=0.292  Sum_probs=228.9

Q ss_pred             EeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEec
Q 042011            7 LDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSL   86 (361)
Q Consensus         7 L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l   86 (361)
                      |||++|+++  +-  ....+++|+.|....|++. .+    -...++|+.|+.++|.++...+..    . -.+|+++++
T Consensus       183 ldLr~N~~~--~~--dls~~~~l~~l~c~rn~ls-~l----~~~g~~l~~L~a~~n~l~~~~~~p----~-p~nl~~~di  248 (1081)
T KOG0618|consen  183 LDLRYNEME--VL--DLSNLANLEVLHCERNQLS-EL----EISGPSLTALYADHNPLTTLDVHP----V-PLNLQYLDI  248 (1081)
T ss_pred             eecccchhh--hh--hhhhccchhhhhhhhcccc-eE----EecCcchheeeeccCcceeecccc----c-cccceeeec
Confidence            777777664  22  3566777777777777765 22    234578888999999887332221    1 228999999


Q ss_pred             cCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCC
Q 042011           87 SSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFR  166 (361)
Q Consensus        87 ~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~  166 (361)
                       +.+.++. .|.++..+.+|+.++..+|.++ .+|.. ....++|+.+.+.+|++.. +|....+.++|++|++..|.+.
T Consensus       249 -s~n~l~~-lp~wi~~~~nle~l~~n~N~l~-~lp~r-i~~~~~L~~l~~~~nel~y-ip~~le~~~sL~tLdL~~N~L~  323 (1081)
T KOG0618|consen  249 -SHNNLSN-LPEWIGACANLEALNANHNRLV-ALPLR-ISRITSLVSLSAAYNELEY-IPPFLEGLKSLRTLDLQSNNLP  323 (1081)
T ss_pred             -chhhhhc-chHHHHhcccceEecccchhHH-hhHHH-HhhhhhHHHHHhhhhhhhh-CCCcccccceeeeeeehhcccc
Confidence             8888885 5589999999999999999997 78877 4567889999999998874 5666777888999999999887


Q ss_pred             ccCChhhhcc-------------------------CCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchh
Q 042011          167 CHIPVEIGDI-------------------------LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEH  221 (361)
Q Consensus       167 ~~~~~~~~~~-------------------------l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~  221 (361)
                       .+|+.++..                         .+.|+.|++.+|.++..+...+.++.+|+.|+|++|++. ++|..
T Consensus       324 -~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~-~fpas  401 (1081)
T KOG0618|consen  324 -SLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLN-SFPAS  401 (1081)
T ss_pred             -ccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeecccccc-cCCHH
Confidence             777654432                         235778888999998888788999999999999999998 99999


Q ss_pred             hhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcc
Q 042011          222 LAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTL  301 (361)
Q Consensus       222 ~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L  301 (361)
                      ...+++.|++|+|++|+++. +|..+..++.|++|...+|++. ..| .+..++.|+.+|++.|.++...-......++|
T Consensus       402 ~~~kle~LeeL~LSGNkL~~-Lp~tva~~~~L~tL~ahsN~l~-~fP-e~~~l~qL~~lDlS~N~L~~~~l~~~~p~p~L  478 (1081)
T KOG0618|consen  402 KLRKLEELEELNLSGNKLTT-LPDTVANLGRLHTLRAHSNQLL-SFP-ELAQLPQLKVLDLSCNNLSEVTLPEALPSPNL  478 (1081)
T ss_pred             HHhchHHhHHHhcccchhhh-hhHHHHhhhhhHHHhhcCCcee-ech-hhhhcCcceEEecccchhhhhhhhhhCCCccc
Confidence            88899999999999999988 6788999999999999999998 667 78899999999999999986433333344899


Q ss_pred             eeeccccccccCCcccccccc
Q 042011          302 FNLSQNSRRFTSSISHSHLLN  322 (361)
Q Consensus       302 ~~l~l~~N~~~~~~~~~~~~~  322 (361)
                      ++||+.||... ......|+.
T Consensus       479 kyLdlSGN~~l-~~d~~~l~~  498 (1081)
T KOG0618|consen  479 KYLDLSGNTRL-VFDHKTLKV  498 (1081)
T ss_pred             ceeeccCCccc-ccchhhhHH
Confidence            99999999853 233334443

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.90  E-value=4.5e-23  Score=199.07  Aligned_cols=261  Identities=21%  Similarity=0.226  Sum_probs=206.3

Q ss_pred             CCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccE
Q 042011            4 LRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNS   83 (361)
Q Consensus         4 L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~   83 (361)
                      -..|+++++.++ .+|. .+.  ++|+.|++++|+++ .+|.    .+++|++|++++|+++.. +..      ..+|+.
T Consensus       203 ~~~LdLs~~~Lt-sLP~-~l~--~~L~~L~L~~N~Lt-~LP~----lp~~Lk~LdLs~N~LtsL-P~l------p~sL~~  266 (788)
T PRK15387        203 NAVLNVGESGLT-TLPD-CLP--AHITTLVIPDNNLT-SLPA----LPPELRTLEVSGNQLTSL-PVL------PPGLLE  266 (788)
T ss_pred             CcEEEcCCCCCC-cCCc-chh--cCCCEEEccCCcCC-CCCC----CCCCCcEEEecCCccCcc-cCc------ccccce
Confidence            468999999998 8998 453  48999999999998 6772    368999999999999854 322      238999


Q ss_pred             EeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCC
Q 042011           84 LSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNN  163 (361)
Q Consensus        84 L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n  163 (361)
                      |++ .+|.+.. +|..   ...|+.|++++|+++ .+|..    .++|+.|++++|++.+ +|..   ...|+.|++++|
T Consensus       267 L~L-s~N~L~~-Lp~l---p~~L~~L~Ls~N~Lt-~LP~~----p~~L~~LdLS~N~L~~-Lp~l---p~~L~~L~Ls~N  332 (788)
T PRK15387        267 LSI-FSNPLTH-LPAL---PSGLCKLWIFGNQLT-SLPVL----PPGLQELSVSDNQLAS-LPAL---PSELCKLWAYNN  332 (788)
T ss_pred             eec-cCCchhh-hhhc---hhhcCEEECcCCccc-ccccc----ccccceeECCCCcccc-CCCC---cccccccccccC
Confidence            999 8888774 3332   357889999999998 66653    4789999999999986 3432   246888999999


Q ss_pred             cCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcc
Q 042011          164 NFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHM  243 (361)
Q Consensus       164 ~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~  243 (361)
                      .++ .+|..    .++|+.|++++|.++ .+|..   .++|+.|++++|.+. .+|.    ...+|+.|++++|.+++ .
T Consensus       333 ~L~-~LP~l----p~~Lq~LdLS~N~Ls-~LP~l---p~~L~~L~Ls~N~L~-~LP~----l~~~L~~LdLs~N~Lt~-L  397 (788)
T PRK15387        333 QLT-SLPTL----PSGLQELSVSDNQLA-SLPTL---PSELYKLWAYNNRLT-SLPA----LPSGLKELIVSGNRLTS-L  397 (788)
T ss_pred             ccc-ccccc----ccccceEecCCCccC-CCCCC---Ccccceehhhccccc-cCcc----cccccceEEecCCcccC-C
Confidence            998 67742    358999999999998 56653   357888999999998 6775    24579999999999987 3


Q ss_pred             cccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCccc
Q 042011          244 FSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISH  317 (361)
Q Consensus       244 ~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~  317 (361)
                      |..   .++|+.|++++|++++ +|..+   .+|+.|++++|+++ .+|..+..++.|..|++++|+|++..+.
T Consensus       398 P~l---~s~L~~LdLS~N~Lss-IP~l~---~~L~~L~Ls~NqLt-~LP~sl~~L~~L~~LdLs~N~Ls~~~~~  463 (788)
T PRK15387        398 PVL---PSELKELMVSGNRLTS-LPMLP---SGLLSLSVYRNQLT-RLPESLIHLSSETTVNLEGNPLSERTLQ  463 (788)
T ss_pred             CCc---ccCCCEEEccCCcCCC-CCcch---hhhhhhhhccCccc-ccChHHhhccCCCeEECCCCCCCchHHH
Confidence            432   3689999999999984 66533   47889999999998 5788888999999999999999987554

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

Probab=99.90  E-value=4.5e-26  Score=196.02  Aligned_cols=301  Identities=17%  Similarity=0.141  Sum_probs=226.3

Q ss_pred             eCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCccEEEec
Q 042011           33 MLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLS  112 (361)
Q Consensus        33 ~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~  112 (361)
                      +-++-.++ .+|. .+  .+.-..++|..|.|+.+.+..   |..+.+|+.|+| ++|.|+.+.|++|..++++..|-+.
T Consensus        52 dCr~~GL~-eVP~-~L--P~~tveirLdqN~I~~iP~~a---F~~l~~LRrLdL-S~N~Is~I~p~AF~GL~~l~~Lvly  123 (498)
T KOG4237|consen   52 DCRGKGLT-EVPA-NL--PPETVEIRLDQNQISSIPPGA---FKTLHRLRRLDL-SKNNISFIAPDAFKGLASLLSLVLY  123 (498)
T ss_pred             EccCCCcc-cCcc-cC--CCcceEEEeccCCcccCChhh---ccchhhhceecc-cccchhhcChHhhhhhHhhhHHHhh
Confidence            34444454 5562 12  356789999999999877766   677779999999 9999999999999999988888777


Q ss_pred             C-CcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccc
Q 042011          113 H-IKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALD  191 (361)
Q Consensus       113 ~-n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~  191 (361)
                      + |+|+ .+|...|+++..++.|.+.-|++.-.....|..++++..|.+..|.+. .++...+..+..++.+.+..|.+-
T Consensus       124 g~NkI~-~l~k~~F~gL~slqrLllNan~i~Cir~~al~dL~~l~lLslyDn~~q-~i~~~tf~~l~~i~tlhlA~np~i  201 (498)
T KOG4237|consen  124 GNNKIT-DLPKGAFGGLSSLQRLLLNANHINCIRQDALRDLPSLSLLSLYDNKIQ-SICKGTFQGLAAIKTLHLAQNPFI  201 (498)
T ss_pred             cCCchh-hhhhhHhhhHHHHHHHhcChhhhcchhHHHHHHhhhcchhcccchhhh-hhccccccchhccchHhhhcCccc
Confidence            7 8898 888888999999999999999988777888999999999999999998 788766766888888888877632


Q ss_pred             ------------cccCccccCCCCCCEEeccCCcCccccchhhhhCCC--CCcEEEeecCCCCC-cccccccCCCCCCEE
Q 042011          192 ------------GSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCV--NLESLALSNNSLEG-HMFSRNFNLTNLEWL  256 (361)
Q Consensus       192 ------------~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~--~L~~L~L~~n~l~~-~~~~~~~~~~~L~~L  256 (361)
                                  ...|..+++.....-..+.+.++. .++..-| .+.  .+..--.+.+.... .....|+.+++|+.|
T Consensus       202 cdCnL~wla~~~a~~~ietsgarc~~p~rl~~~Ri~-q~~a~kf-~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~l  279 (498)
T KOG4237|consen  202 CDCNLPWLADDLAMNPIETSGARCVSPYRLYYKRIN-QEDARKF-LCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKL  279 (498)
T ss_pred             cccccchhhhHHhhchhhcccceecchHHHHHHHhc-ccchhhh-hhhHHhHHHhhccccCcCCcChHHHHhhcccceEe
Confidence                        122334455555555556666665 5554444 222  22211122232333 344568899999999


Q ss_pred             eccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcccccccccccchhhhHHHhhc
Q 042011          257 QLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGICKEYAKEFAR  336 (361)
Q Consensus       257 ~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~~~~~~~~~~~~~~  336 (361)
                      ++++|++++.-+.+|.+..++++|.+..|++.......|.++..|+.|++++|++++.-|. .|..+..+    .....-
T Consensus       280 nlsnN~i~~i~~~aFe~~a~l~eL~L~~N~l~~v~~~~f~~ls~L~tL~L~~N~it~~~~~-aF~~~~~l----~~l~l~  354 (498)
T KOG4237|consen  280 NLSNNKITRIEDGAFEGAAELQELYLTRNKLEFVSSGMFQGLSGLKTLSLYDNQITTVAPG-AFQTLFSL----STLNLL  354 (498)
T ss_pred             ccCCCccchhhhhhhcchhhhhhhhcCcchHHHHHHHhhhccccceeeeecCCeeEEEecc-ccccccee----eeeehc
Confidence            9999999998999999999999999999999877777899999999999999999987664 33333222    122345


Q ss_pred             cchHHHHHHHHHhh
Q 042011          337 NMPRICEEYAAYLN  350 (361)
Q Consensus       337 ~~~~~c~~~~~~~~  350 (361)
                      .+|++|+|+.+|+.
T Consensus       355 ~Np~~CnC~l~wl~  368 (498)
T KOG4237|consen  355 SNPFNCNCRLAWLG  368 (498)
T ss_pred             cCcccCccchHHHH
Confidence            68999999877764

>PLN03210 Resistant to P

Probab=99.89  E-value=7.3e-22  Score=203.51  Aligned_cols=286  Identities=22%  Similarity=0.207  Sum_probs=187.3

Q ss_pred             CCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccccc
Q 042011            3 SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLN   82 (361)
Q Consensus         3 ~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~   82 (361)
                      +|+.|++.++.++ .+|. .| ...+|++|++++|++. .++ ..+..+++|+.|+++++......+.    +..+.+|+
T Consensus       590 ~Lr~L~~~~~~l~-~lP~-~f-~~~~L~~L~L~~s~l~-~L~-~~~~~l~~Lk~L~Ls~~~~l~~ip~----ls~l~~Le  660 (1153)
T PLN03210        590 KLRLLRWDKYPLR-CMPS-NF-RPENLVKLQMQGSKLE-KLW-DGVHSLTGLRNIDLRGSKNLKEIPD----LSMATNLE  660 (1153)
T ss_pred             ccEEEEecCCCCC-CCCC-cC-CccCCcEEECcCcccc-ccc-cccccCCCCCEEECCCCCCcCcCCc----cccCCccc
Confidence            3666666666665 6666 34 4577788888877776 555 4566777888888877653333332    34456788


Q ss_pred             EEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccC
Q 042011           83 SLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISN  162 (361)
Q Consensus        83 ~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~  162 (361)
                      +|++ .+|......|..+..+++|+.|++++|.....+|...  ++++|++|++++|.....+|..   ..+|+.|++++
T Consensus       661 ~L~L-~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~i--~l~sL~~L~Lsgc~~L~~~p~~---~~nL~~L~L~~  734 (1153)
T PLN03210        661 TLKL-SDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTGI--NLKSLYRLNLSGCSRLKSFPDI---STNISWLDLDE  734 (1153)
T ss_pred             EEEe-cCCCCccccchhhhccCCCCEEeCCCCCCcCccCCcC--CCCCCCEEeCCCCCCccccccc---cCCcCeeecCC
Confidence            8888 6555545667777778888888888765333666542  5777777877777544333322   34677777777


Q ss_pred             CcCCccCChhh-----------------------------hccCCCccEEEecCCccccccCccccCCCCCCEEeccCCc
Q 042011          163 NNFRCHIPVEI-----------------------------GDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQ  213 (361)
Q Consensus       163 n~l~~~~~~~~-----------------------------~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~  213 (361)
                      |.+. .+|..+                             ....++|+.|++++|...+.+|..++++++|+.|++++|.
T Consensus       735 n~i~-~lP~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~  813 (1153)
T PLN03210        735 TAIE-EFPSNLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCI  813 (1153)
T ss_pred             Cccc-cccccccccccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccChhhhCCCCCCEEECCCCC
Confidence            7765 555432                             1112466777777776555677777777788888887764


Q ss_pred             CccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCC
Q 042011          214 LTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNV  293 (361)
Q Consensus       214 l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~  293 (361)
                      ..+.+|...  .+++|+.|++++|..-...|.   ..++|+.|++++|.++ .+|..+..+++|+.|++++|.--..+|.
T Consensus       814 ~L~~LP~~~--~L~sL~~L~Ls~c~~L~~~p~---~~~nL~~L~Ls~n~i~-~iP~si~~l~~L~~L~L~~C~~L~~l~~  887 (1153)
T PLN03210        814 NLETLPTGI--NLESLESLDLSGCSRLRTFPD---ISTNISDLNLSRTGIE-EVPWWIEKFSNLSFLDMNGCNNLQRVSL  887 (1153)
T ss_pred             CcCeeCCCC--CccccCEEECCCCCccccccc---cccccCEeECCCCCCc-cChHHHhcCCCCCEEECCCCCCcCccCc
Confidence            333666654  577788888877654333333   2357788888888887 5777788888888888887443334666


Q ss_pred             CCCCcCcceeecccccc
Q 042011          294 PSSPANTLFNLSQNSRR  310 (361)
Q Consensus       294 ~~~~~~~L~~l~l~~N~  310 (361)
                      .+..+++|+.++++++.
T Consensus       888 ~~~~L~~L~~L~l~~C~  904 (1153)
T PLN03210        888 NISKLKHLETVDFSDCG  904 (1153)
T ss_pred             ccccccCCCeeecCCCc
Confidence            66777777777777764

syringae 6; Provisional

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.87  E-value=6.8e-22  Score=190.92  Aligned_cols=244  Identities=23%  Similarity=0.218  Sum_probs=196.1

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      ++|+.|++++|+++ .+|.    ..++|++|++++|+++ .+|.    ..++|+.|++++|.+.... ..      ..+|
T Consensus       222 ~~L~~L~L~~N~Lt-~LP~----lp~~Lk~LdLs~N~Lt-sLP~----lp~sL~~L~Ls~N~L~~Lp-~l------p~~L  284 (788)
T PRK15387        222 AHITTLVIPDNNLT-SLPA----LPPELRTLEVSGNQLT-SLPV----LPPGLLELSIFSNPLTHLP-AL------PSGL  284 (788)
T ss_pred             cCCCEEEccCCcCC-CCCC----CCCCCcEEEecCCccC-cccC----cccccceeeccCCchhhhh-hc------hhhc
Confidence            36899999999998 8887    2689999999999998 6772    2478999999999987532 22      1378


Q ss_pred             cEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEcc
Q 042011           82 NSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDIS  161 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  161 (361)
                      +.|++ .+|.++.. |.   ..++|+.|++++|+++ .+|..    ...|+.|++++|.+++ +|..   ..+|+.|+++
T Consensus       285 ~~L~L-s~N~Lt~L-P~---~p~~L~~LdLS~N~L~-~Lp~l----p~~L~~L~Ls~N~L~~-LP~l---p~~Lq~LdLS  350 (788)
T PRK15387        285 CKLWI-FGNQLTSL-PV---LPPGLQELSVSDNQLA-SLPAL----PSELCKLWAYNNQLTS-LPTL---PSGLQELSVS  350 (788)
T ss_pred             CEEEC-cCCccccc-cc---cccccceeECCCCccc-cCCCC----cccccccccccCcccc-cccc---ccccceEecC
Confidence            99999 88888753 43   2478999999999998 56642    3468899999999975 4431   2479999999


Q ss_pred             CCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCC
Q 042011          162 NNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEG  241 (361)
Q Consensus       162 ~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~  241 (361)
                      +|+++ .+|..    .++|+.|++++|.++ .+|..   ..+|+.|++++|.++ .+|.    ..++|+.|++++|++++
T Consensus       351 ~N~Ls-~LP~l----p~~L~~L~Ls~N~L~-~LP~l---~~~L~~LdLs~N~Lt-~LP~----l~s~L~~LdLS~N~Lss  416 (788)
T PRK15387        351 DNQLA-SLPTL----PSELYKLWAYNNRLT-SLPAL---PSGLKELIVSGNRLT-SLPV----LPSELKELMVSGNRLTS  416 (788)
T ss_pred             CCccC-CCCCC----Ccccceehhhccccc-cCccc---ccccceEEecCCccc-CCCC----cccCCCEEEccCCcCCC
Confidence            99998 77753    358999999999998 56653   357999999999998 7775    34689999999999987


Q ss_pred             cccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCC
Q 042011          242 HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPS  295 (361)
Q Consensus       242 ~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~  295 (361)
                       +|..   ..+|+.|++++|+++ .+|..+..+++|+.+++++|.+++..+..+
T Consensus       417 -IP~l---~~~L~~L~Ls~NqLt-~LP~sl~~L~~L~~LdLs~N~Ls~~~~~~L  465 (788)
T PRK15387        417 -LPML---PSGLLSLSVYRNQLT-RLPESLIHLSSETTVNLEGNPLSERTLQAL  465 (788)
T ss_pred             -CCcc---hhhhhhhhhccCccc-ccChHHhhccCCCeEECCCCCCCchHHHHH
Confidence             4443   357889999999999 789999999999999999999998765544

>PLN03210 Resistant to P

Probab=99.86  E-value=6.1e-20  Score=189.34  Aligned_cols=290  Identities=18%  Similarity=0.149  Sum_probs=197.0

Q ss_pred             CCCCCeEeCCCcc------ccCcCChhhhhccC-CCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccc
Q 042011            1 MTSLRILDVSSNQ------LTGSISSSPLVHLT-SIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHS   73 (361)
Q Consensus         1 l~~L~~L~L~~n~------i~~~i~~~~~~~l~-~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~   73 (361)
                      |++|+.|.+.++.      +...+|. .|..++ +|+.|++.++.++ .+|. .| ...+|++|++++|.+... +.   
T Consensus       557 m~~L~~L~~~~~~~~~~~~~~~~lp~-~~~~lp~~Lr~L~~~~~~l~-~lP~-~f-~~~~L~~L~L~~s~l~~L-~~---  628 (1153)
T PLN03210        557 MRNLLFLKFYTKKWDQKKEVRWHLPE-GFDYLPPKLRLLRWDKYPLR-CMPS-NF-RPENLVKLQMQGSKLEKL-WD---  628 (1153)
T ss_pred             CccccEEEEecccccccccceeecCc-chhhcCcccEEEEecCCCCC-CCCC-cC-CccCCcEEECcCcccccc-cc---
Confidence            4567777775442      2224555 455553 5888888887776 6663 34 567888888888877643 22   


Q ss_pred             cccCcccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCC
Q 042011           74 LIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHR  153 (361)
Q Consensus        74 ~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~  153 (361)
                      ....+.+|+.+++ +++......| .++.+++|++|++++|.....+|.. ++.+++|+.|++++|.....+|..+ .++
T Consensus       629 ~~~~l~~Lk~L~L-s~~~~l~~ip-~ls~l~~Le~L~L~~c~~L~~lp~s-i~~L~~L~~L~L~~c~~L~~Lp~~i-~l~  704 (1153)
T PLN03210        629 GVHSLTGLRNIDL-RGSKNLKEIP-DLSMATNLETLKLSDCSSLVELPSS-IQYLNKLEDLDMSRCENLEILPTGI-NLK  704 (1153)
T ss_pred             ccccCCCCCEEEC-CCCCCcCcCC-ccccCCcccEEEecCCCCccccchh-hhccCCCCEEeCCCCCCcCccCCcC-CCC
Confidence            2355668888888 5443333444 3777888999999887654577776 6788889999998875444556554 678


Q ss_pred             CcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccc------------------------------cCCCC
Q 042011          154 WLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSF------------------------------GNMNF  203 (361)
Q Consensus       154 ~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l------------------------------~~~~~  203 (361)
                      +|+.|++++|.....+|..    .++|+.|++++|.+. .+|..+                              ..+++
T Consensus       705 sL~~L~Lsgc~~L~~~p~~----~~nL~~L~L~~n~i~-~lP~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~s  779 (1153)
T PLN03210        705 SLYRLNLSGCSRLKSFPDI----STNISWLDLDETAIE-EFPSNLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPS  779 (1153)
T ss_pred             CCCEEeCCCCCCccccccc----cCCcCeeecCCCccc-cccccccccccccccccccchhhccccccccchhhhhcccc
Confidence            8889999888654345432    457888888888876 444322                              11246


Q ss_pred             CCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECc
Q 042011          204 LRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLN  283 (361)
Q Consensus       204 L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~  283 (361)
                      |+.|++++|...+.+|..+. .+++|+.|++++|..-+..|... .+++|+.|++++|......|..   .++|+.|+++
T Consensus       780 L~~L~Ls~n~~l~~lP~si~-~L~~L~~L~Ls~C~~L~~LP~~~-~L~sL~~L~Ls~c~~L~~~p~~---~~nL~~L~Ls  854 (1153)
T PLN03210        780 LTRLFLSDIPSLVELPSSIQ-NLHKLEHLEIENCINLETLPTGI-NLESLESLDLSGCSRLRTFPDI---STNISDLNLS  854 (1153)
T ss_pred             chheeCCCCCCccccChhhh-CCCCCCEEECCCCCCcCeeCCCC-CccccCEEECCCCCcccccccc---ccccCEeECC
Confidence            77777777765556777665 78888888888765433345444 6778888888887544444432   3678899999


Q ss_pred             CCcccccCCCCCCCcCcceeeccccc-cccC
Q 042011          284 NNSLSGNVNVPSSPANTLFNLSQNSR-RFTS  313 (361)
Q Consensus       284 ~N~l~~~~~~~~~~~~~L~~l~l~~N-~~~~  313 (361)
                      +|.++ .+|.++..+++|+.|++.++ .+.+
T Consensus       855 ~n~i~-~iP~si~~l~~L~~L~L~~C~~L~~  884 (1153)
T PLN03210        855 RTGIE-EVPWWIEKFSNLSFLDMNGCNNLQR  884 (1153)
T ss_pred             CCCCc-cChHHHhcCCCCCEEECCCCCCcCc
Confidence            99887 57888888999999999984 4443

syringae 6; Provisional

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.85  E-value=2.3e-21  Score=188.23  Aligned_cols=246  Identities=26%  Similarity=0.372  Sum_probs=175.2

Q ss_pred             CCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccccc
Q 042011            3 SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLN   82 (361)
Q Consensus         3 ~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~   82 (361)
                      +.+.|++++++++ .+|. .+  .++|+.|+|++|+++ .+|.. +  ..+|++|++++|.++.. +..   +.  .+|+
T Consensus       179 ~~~~L~L~~~~Lt-sLP~-~I--p~~L~~L~Ls~N~Lt-sLP~~-l--~~nL~~L~Ls~N~LtsL-P~~---l~--~~L~  244 (754)
T PRK15370        179 NKTELRLKILGLT-TIPA-CI--PEQITTLILDNNELK-SLPEN-L--QGNIKTLYANSNQLTSI-PAT---LP--DTIQ  244 (754)
T ss_pred             CceEEEeCCCCcC-cCCc-cc--ccCCcEEEecCCCCC-cCChh-h--ccCCCEEECCCCccccC-Chh---hh--cccc
Confidence            4578888888887 7886 33  357889999999888 67743 3  25789999999888743 222   11  2788


Q ss_pred             EEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccC
Q 042011           83 SLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISN  162 (361)
Q Consensus        83 ~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~  162 (361)
                      .|++ ++|.+.. +|..+.  ..|+.|++++|+++ .+|..+   .++|+.|++++|+++. +|..+.  ++|+.|++++
T Consensus       245 ~L~L-s~N~L~~-LP~~l~--s~L~~L~Ls~N~L~-~LP~~l---~~sL~~L~Ls~N~Lt~-LP~~lp--~sL~~L~Ls~  313 (754)
T PRK15370        245 EMEL-SINRITE-LPERLP--SALQSLDLFHNKIS-CLPENL---PEELRYLSVYDNSIRT-LPAHLP--SGITHLNVQS  313 (754)
T ss_pred             EEEC-cCCccCc-CChhHh--CCCCEEECcCCccC-cccccc---CCCCcEEECCCCcccc-Ccccch--hhHHHHHhcC
Confidence            8888 7777773 454443  47888888888887 677653   2578888888888874 344332  4688888888


Q ss_pred             CcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCc
Q 042011          163 NNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGH  242 (361)
Q Consensus       163 n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~  242 (361)
                      |.++ .+|..+.   ++|+.|++++|.++ .+|..+.  ++|+.|++++|.+. .+|..+   .++|+.|++++|+++..
T Consensus       314 N~Lt-~LP~~l~---~sL~~L~Ls~N~Lt-~LP~~l~--~sL~~L~Ls~N~L~-~LP~~l---p~~L~~LdLs~N~Lt~L  382 (754)
T PRK15370        314 NSLT-ALPETLP---PGLKTLEAGENALT-SLPASLP--PELQVLDVSKNQIT-VLPETL---PPTITTLDVSRNALTNL  382 (754)
T ss_pred             Cccc-cCCcccc---ccceeccccCCccc-cCChhhc--CcccEEECCCCCCC-cCChhh---cCCcCEEECCCCcCCCC
Confidence            8887 6765543   57888888888887 4665543  67888888888887 677644   36788888888888763


Q ss_pred             ccccccCCCCCCEEeccCCcCCccchhhh----hcCCCCCEEECcCCccc
Q 042011          243 MFSRNFNLTNLEWLQLGGNRFVGEIPQSL----SKCSSLEGLYLNNNSLS  288 (361)
Q Consensus       243 ~~~~~~~~~~L~~L~L~~n~l~~~~~~~~----~~l~~L~~L~l~~N~l~  288 (361)
                       |..+.  ..|+.|++++|++. .+|..+    ..++.+..+++.+|.++
T Consensus       383 -P~~l~--~sL~~LdLs~N~L~-~LP~sl~~~~~~~~~l~~L~L~~Npls  428 (754)
T PRK15370        383 -PENLP--AALQIMQASRNNLV-RLPESLPHFRGEGPQPTRIIVEYNPFS  428 (754)
T ss_pred             -CHhHH--HHHHHHhhccCCcc-cCchhHHHHhhcCCCccEEEeeCCCcc
Confidence             44432  36888888888887 445443    33477888888888876

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

Probab=99.85  E-value=4.2e-23  Score=194.71  Aligned_cols=267  Identities=25%  Similarity=0.258  Sum_probs=147.1

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      ++++.|+.++|.++ .+-.  -..-.+|+++++++|+++ .+| .-...+.+|+.+++.+|+++.....    ..+..+|
T Consensus       219 ~~l~~L~a~~n~l~-~~~~--~p~p~nl~~~dis~n~l~-~lp-~wi~~~~nle~l~~n~N~l~~lp~r----i~~~~~L  289 (1081)
T KOG0618|consen  219 PSLTALYADHNPLT-TLDV--HPVPLNLQYLDISHNNLS-NLP-EWIGACANLEALNANHNRLVALPLR----ISRITSL  289 (1081)
T ss_pred             cchheeeeccCcce-eecc--ccccccceeeecchhhhh-cch-HHHHhcccceEecccchhHHhhHHH----HhhhhhH
Confidence            35566666666665 2221  112346777777777766 566 4566677777777777766433222    3445566


Q ss_pred             cEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCC-CcEEEecCCcccCCCCCCcCCCCCcCEEEc
Q 042011           82 NSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTK-LETLFLVNDSLTGPFRLPIHSHRWLEFLDI  160 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~-L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l  160 (361)
                      +.|.+ ..|.+. ..|....+.+.|++|++..|.+. .+|+.++..... +..+..+.|++.......=..++.|+.|.+
T Consensus       290 ~~l~~-~~nel~-yip~~le~~~sL~tLdL~~N~L~-~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~Lyl  366 (1081)
T KOG0618|consen  290 VSLSA-AYNELE-YIPPFLEGLKSLRTLDLQSNNLP-SLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYL  366 (1081)
T ss_pred             HHHHh-hhhhhh-hCCCcccccceeeeeeehhcccc-ccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHH
Confidence            66666 666665 34555666677777777777765 566554444443 555555555554322222223344666666


Q ss_pred             cCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCC
Q 042011          161 SNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE  240 (361)
Q Consensus       161 ~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~  240 (361)
                      .+|.+++..-..+ .++++|+.|+|++|.+.......+.++..|++|++++|+++ .+|..+. .++.|++|....|++.
T Consensus       367 anN~Ltd~c~p~l-~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSGNkL~-~Lp~tva-~~~~L~tL~ahsN~l~  443 (1081)
T KOG0618|consen  367 ANNHLTDSCFPVL-VNFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSGNKLT-TLPDTVA-NLGRLHTLRAHSNQLL  443 (1081)
T ss_pred             hcCcccccchhhh-ccccceeeeeecccccccCCHHHHhchHHhHHHhcccchhh-hhhHHHH-hhhhhHHHhhcCCcee
Confidence            6666653332222 23556666666666665333334555566666666666666 5665554 5666666666666655


Q ss_pred             CcccccccCCCCCCEEeccCCcCCccc-hhhhhcCCCCCEEECcCCc
Q 042011          241 GHMFSRNFNLTNLEWLQLGGNRFVGEI-PQSLSKCSSLEGLYLNNNS  286 (361)
Q Consensus       241 ~~~~~~~~~~~~L~~L~L~~n~l~~~~-~~~~~~l~~L~~L~l~~N~  286 (361)
                      . .| .+..++.|+.+|++.|.++... +... ..++|++||+++|.
T Consensus       444 ~-fP-e~~~l~qL~~lDlS~N~L~~~~l~~~~-p~p~LkyLdlSGN~  487 (1081)
T KOG0618|consen  444 S-FP-ELAQLPQLKVLDLSCNNLSEVTLPEAL-PSPNLKYLDLSGNT  487 (1081)
T ss_pred             e-ch-hhhhcCcceEEecccchhhhhhhhhhC-CCcccceeeccCCc
Confidence            4 23 5555666666666666655322 2222 12566666666664

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

Probab=99.84  E-value=1.2e-21  Score=176.03  Aligned_cols=283  Identities=21%  Similarity=0.136  Sum_probs=137.6

Q ss_pred             eEeCCCccccCcCChhhhhccCCCCeEeCcCCccccc----CCcccccCCCCCcEEEccCCCcccccc---cccccccCc
Q 042011            6 ILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIP----ISLEPLFNHSRLKIFYADNNELNAEIT---QSHSLIAPN   78 (361)
Q Consensus         6 ~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~----~~~~~~~~l~~L~~L~l~~n~~~~~~~---~~~~~~~~~   78 (361)
                      .|+|.++.+++.-....|..+++|+.|+++++.++..    ++ ..+...+.+++++++++.+.....   .....+..+
T Consensus         2 ~l~L~~~~l~~~~~~~~~~~l~~L~~l~l~~~~l~~~~~~~i~-~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~   80 (319)
T cd00116           2 QLSLKGELLKTERATELLPKLLCLQVLRLEGNTLGEEAAKALA-SALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKG   80 (319)
T ss_pred             ccccccCcccccchHHHHHHHhhccEEeecCCCCcHHHHHHHH-HHHhhCCCceEEeccccccCCcchHHHHHHHHHHhc
Confidence            5788888887433333778888999999999988521    33 345677889999999887652000   000112223


Q ss_pred             ccccEEeccCCCCCCCCCchhhcCCCC---ccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCC-CC
Q 042011           79 FQLNSLSLSSDYGDGFIFPKFLYHQHD---LALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSH-RW  154 (361)
Q Consensus        79 ~~L~~L~l~~~~~~~~~~~~~l~~l~~---L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l-~~  154 (361)
                      .+|++|++ +++.+....+..+..+.+   |++|++++|.+++....                     .....+..+ ++
T Consensus        81 ~~L~~L~l-~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~---------------------~l~~~l~~~~~~  138 (319)
T cd00116          81 CGLQELDL-SDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLR---------------------LLAKGLKDLPPA  138 (319)
T ss_pred             CceeEEEc-cCCCCChhHHHHHHHHhccCcccEEEeeCCccchHHHH---------------------HHHHHHHhCCCC
Confidence            35555555 444443333333333332   55555555444321111                     111122233 44


Q ss_pred             cCEEEccCCcCCccCChh---hhccCCCccEEEecCCcccc----ccCccccCCCCCCEEeccCCcCccccchh---hhh
Q 042011          155 LEFLDISNNNFRCHIPVE---IGDILPSLKFFNISMNALDG----SIPSSFGNMNFLRVLDLSNNQLTGEIPEH---LAV  224 (361)
Q Consensus       155 L~~L~l~~n~l~~~~~~~---~~~~l~~L~~L~L~~n~l~~----~~~~~l~~~~~L~~L~l~~n~l~~~~~~~---~~~  224 (361)
                      |+.|++++|.+++.....   .+..+++|++|++++|.+++    .++..+...++|++|++++|.+++.....   .+.
T Consensus       139 L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~  218 (319)
T cd00116         139 LEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAETLA  218 (319)
T ss_pred             ceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHHHhc
Confidence            555555555544211111   11123455555555555542    11222333445555555555554221111   112


Q ss_pred             CCCCCcEEEeecCCCCCccccccc-----CCCCCCEEeccCCcCCc----cchhhhhcCCCCCEEECcCCccccc----C
Q 042011          225 GCVNLESLALSNNSLEGHMFSRNF-----NLTNLEWLQLGGNRFVG----EIPQSLSKCSSLEGLYLNNNSLSGN----V  291 (361)
Q Consensus       225 ~~~~L~~L~L~~n~l~~~~~~~~~-----~~~~L~~L~L~~n~l~~----~~~~~~~~l~~L~~L~l~~N~l~~~----~  291 (361)
                      .+++|++|++++|.+++.....+.     ..+.|+.|++++|.+++    .+...+..+++|+.+++++|.+++.    .
T Consensus       219 ~~~~L~~L~ls~n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~~~~~~~~L~~l~l~~N~l~~~~~~~~  298 (319)
T cd00116         219 SLKSLEVLNLGDNNLTDAGAAALASALLSPNISLLTLSLSCNDITDDGAKDLAEVLAEKESLLELDLRGNKFGEEGAQLL  298 (319)
T ss_pred             ccCCCCEEecCCCcCchHHHHHHHHHHhccCCCceEEEccCCCCCcHHHHHHHHHHhcCCCccEEECCCCCCcHHHHHHH
Confidence            345566666666655532111111     13566666666666652    1233444556666666666666643    2


Q ss_pred             CCCCCCc-Ccceeeccccccc
Q 042011          292 NVPSSPA-NTLFNLSQNSRRF  311 (361)
Q Consensus       292 ~~~~~~~-~~L~~l~l~~N~~  311 (361)
                      ...+... +.++++++.+|+|
T Consensus       299 ~~~~~~~~~~~~~~~~~~~~~  319 (319)
T cd00116         299 AESLLEPGNELESLWVKDDSF  319 (319)
T ss_pred             HHHHhhcCCchhhcccCCCCC
Confidence            2222222 5566666666554

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).

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.83  E-value=3e-20  Score=180.46  Aligned_cols=247  Identities=19%  Similarity=0.292  Sum_probs=196.0

Q ss_pred             CCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCc
Q 042011           27 TSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDL  106 (361)
Q Consensus        27 ~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L  106 (361)
                      .+...|++++++++ .+|. .+  .+.|+.|++++|.++......    .  .+|++|++ ++|.++. +|..+  ...|
T Consensus       178 ~~~~~L~L~~~~Lt-sLP~-~I--p~~L~~L~Ls~N~LtsLP~~l----~--~nL~~L~L-s~N~Lts-LP~~l--~~~L  243 (754)
T PRK15370        178 NNKTELRLKILGLT-TIPA-CI--PEQITTLILDNNELKSLPENL----Q--GNIKTLYA-NSNQLTS-IPATL--PDTI  243 (754)
T ss_pred             cCceEEEeCCCCcC-cCCc-cc--ccCCcEEEecCCCCCcCChhh----c--cCCCEEEC-CCCcccc-CChhh--hccc
Confidence            56889999999998 6773 23  358999999999998543222    1  38999999 8888874 45544  3479


Q ss_pred             cEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEec
Q 042011          107 ALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNIS  186 (361)
Q Consensus       107 ~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~  186 (361)
                      +.|++++|.+. .+|..+.   .+|+.|++++|++.. +|..+.  ++|+.|++++|+++ .+|..+.   ++|+.|+++
T Consensus       244 ~~L~Ls~N~L~-~LP~~l~---s~L~~L~Ls~N~L~~-LP~~l~--~sL~~L~Ls~N~Lt-~LP~~lp---~sL~~L~Ls  312 (754)
T PRK15370        244 QEMELSINRIT-ELPERLP---SALQSLDLFHNKISC-LPENLP--EELRYLSVYDNSIR-TLPAHLP---SGITHLNVQ  312 (754)
T ss_pred             cEEECcCCccC-cCChhHh---CCCCEEECcCCccCc-cccccC--CCCcEEECCCCccc-cCcccch---hhHHHHHhc
Confidence            99999999998 8887643   589999999999984 565543  58999999999998 7876543   479999999


Q ss_pred             CCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCcc
Q 042011          187 MNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGE  266 (361)
Q Consensus       187 ~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~  266 (361)
                      +|.++ .+|..+  .++|++|++++|.++ .+|..+   .++|+.|++++|+++. .|..+  .++|+.|++++|+++ .
T Consensus       313 ~N~Lt-~LP~~l--~~sL~~L~Ls~N~Lt-~LP~~l---~~sL~~L~Ls~N~L~~-LP~~l--p~~L~~LdLs~N~Lt-~  381 (754)
T PRK15370        313 SNSLT-ALPETL--PPGLKTLEAGENALT-SLPASL---PPELQVLDVSKNQITV-LPETL--PPTITTLDVSRNALT-N  381 (754)
T ss_pred             CCccc-cCCccc--cccceeccccCCccc-cCChhh---cCcccEEECCCCCCCc-CChhh--cCCcCEEECCCCcCC-C
Confidence            99998 566544  368999999999998 788654   4789999999999986 45544  368999999999999 5


Q ss_pred             chhhhhcCCCCCEEECcCCcccccCCCCC----CCcCcceeecccccccc
Q 042011          267 IPQSLSKCSSLEGLYLNNNSLSGNVNVPS----SPANTLFNLSQNSRRFT  312 (361)
Q Consensus       267 ~~~~~~~l~~L~~L~l~~N~l~~~~~~~~----~~~~~L~~l~l~~N~~~  312 (361)
                      +|..+.  .+|+.|++++|++++ +|..+    ...+.+..+++.+|+++
T Consensus       382 LP~~l~--~sL~~LdLs~N~L~~-LP~sl~~~~~~~~~l~~L~L~~Npls  428 (754)
T PRK15370        382 LPENLP--AALQIMQASRNNLVR-LPESLPHFRGEGPQPTRIIVEYNPFS  428 (754)
T ss_pred             CCHhHH--HHHHHHhhccCCccc-CchhHHHHhhcCCCccEEEeeCCCcc
Confidence            666654  479999999999984 45443    44578899999999986

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

Probab=99.81  E-value=4.6e-21  Score=172.31  Aligned_cols=258  Identities=24%  Similarity=0.261  Sum_probs=170.3

Q ss_pred             eEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCccEEE
Q 042011           31 ELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVD  110 (361)
Q Consensus        31 ~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~  110 (361)
                      .|+|.++.+++.-....+..+..|+.++++++.+++....                        .++..+...+.+++++
T Consensus         2 ~l~L~~~~l~~~~~~~~~~~l~~L~~l~l~~~~l~~~~~~------------------------~i~~~l~~~~~l~~l~   57 (319)
T cd00116           2 QLSLKGELLKTERATELLPKLLCLQVLRLEGNTLGEEAAK------------------------ALASALRPQPSLKELC   57 (319)
T ss_pred             ccccccCcccccchHHHHHHHhhccEEeecCCCCcHHHHH------------------------HHHHHHhhCCCceEEe
Confidence            4667777665332224456666777888877776532111                        1223344455566666


Q ss_pred             ecCCcccC------CcChHHHhcCCCCcEEEecCCcccCCCCCCcCCC---CCcCEEEccCCcCCcc----CChhhhccC
Q 042011          111 LSHIKMNG------EFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSH---RWLEFLDISNNNFRCH----IPVEIGDIL  177 (361)
Q Consensus       111 l~~n~l~~------~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l---~~L~~L~l~~n~l~~~----~~~~~~~~l  177 (361)
                      ++++.+.+      .++.. +..+++|++|++++|.+....+..+..+   ++|++|++++|++.+.    +...+.. +
T Consensus        58 l~~~~~~~~~~~~~~~~~~-l~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~-~  135 (319)
T cd00116          58 LSLNETGRIPRGLQSLLQG-LTKGCGLQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKD-L  135 (319)
T ss_pred             ccccccCCcchHHHHHHHH-HHhcCceeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCccchHHHHHHHHHHHh-C
Confidence            66655541      12222 4556777777777777764334333333   3488888888887632    2223333 4


Q ss_pred             -CCccEEEecCCcccc----ccCccccCCCCCCEEeccCCcCccccchhhh---hCCCCCcEEEeecCCCCCc----ccc
Q 042011          178 -PSLKFFNISMNALDG----SIPSSFGNMNFLRVLDLSNNQLTGEIPEHLA---VGCVNLESLALSNNSLEGH----MFS  245 (361)
Q Consensus       178 -~~L~~L~L~~n~l~~----~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~---~~~~~L~~L~L~~n~l~~~----~~~  245 (361)
                       ++|+.|++++|.+++    .++..+..+++|++|++++|.+++.....+.   ...++|++|++++|.+++.    ...
T Consensus       136 ~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~  215 (319)
T cd00116         136 PPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAE  215 (319)
T ss_pred             CCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHH
Confidence             899999999999883    2344567788999999999999843222221   2457999999999998753    334


Q ss_pred             cccCCCCCCEEeccCCcCCccchhhhhc-----CCCCCEEECcCCcccc----cCCCCCCCcCcceeeccccccccCC
Q 042011          246 RNFNLTNLEWLQLGGNRFVGEIPQSLSK-----CSSLEGLYLNNNSLSG----NVNVPSSPANTLFNLSQNSRRFTSS  314 (361)
Q Consensus       246 ~~~~~~~L~~L~L~~n~l~~~~~~~~~~-----l~~L~~L~l~~N~l~~----~~~~~~~~~~~L~~l~l~~N~~~~~  314 (361)
                      .+..+++|+.|++++|++++.....+..     .+.|++|++++|.+++    .+...+...++|+++++++|.++..
T Consensus       216 ~~~~~~~L~~L~ls~n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~~~~~~~~L~~l~l~~N~l~~~  293 (319)
T cd00116         216 TLASLKSLEVLNLGDNNLTDAGAAALASALLSPNISLLTLSLSCNDITDDGAKDLAEVLAEKESLLELDLRGNKFGEE  293 (319)
T ss_pred             HhcccCCCCEEecCCCcCchHHHHHHHHHHhccCCCceEEEccCCCCCcHHHHHHHHHHhcCCCccEEECCCCCCcHH
Confidence            5667899999999999998644433322     3799999999999973    2223455668999999999999864

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=99.74  E-value=2.1e-20  Score=143.95  Aligned_cols=186  Identities=27%  Similarity=0.420  Sum_probs=148.5

Q ss_pred             cCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCE
Q 042011          127 NNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRV  206 (361)
Q Consensus       127 ~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~  206 (361)
                      .+..++.|.+++|+++ ++|..+..+.+|+.|++++|++. ++|..+.+ +++|+.|+++.|.+. ..|..|+.+|.|+.
T Consensus        31 ~~s~ITrLtLSHNKl~-~vppnia~l~nlevln~~nnqie-~lp~~iss-l~klr~lnvgmnrl~-~lprgfgs~p~lev  106 (264)
T KOG0617|consen   31 NMSNITRLTLSHNKLT-VVPPNIAELKNLEVLNLSNNQIE-ELPTSISS-LPKLRILNVGMNRLN-ILPRGFGSFPALEV  106 (264)
T ss_pred             chhhhhhhhcccCcee-ecCCcHHHhhhhhhhhcccchhh-hcChhhhh-chhhhheecchhhhh-cCccccCCCchhhh
Confidence            4556677788888887 46667788888888899999888 88888877 889999999988887 88888999999999


Q ss_pred             EeccCCcCc-cccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCC
Q 042011          207 LDLSNNQLT-GEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNN  285 (361)
Q Consensus       207 L~l~~n~l~-~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N  285 (361)
                      |++.+|++. ..+|..+| .++.|+.|++++|.+.- .|...+.+++|+.|.++.|.+. ..|..++.++.|++|++.+|
T Consensus       107 ldltynnl~e~~lpgnff-~m~tlralyl~dndfe~-lp~dvg~lt~lqil~lrdndll-~lpkeig~lt~lrelhiqgn  183 (264)
T KOG0617|consen  107 LDLTYNNLNENSLPGNFF-YMTTLRALYLGDNDFEI-LPPDVGKLTNLQILSLRDNDLL-SLPKEIGDLTRLRELHIQGN  183 (264)
T ss_pred             hhccccccccccCCcchh-HHHHHHHHHhcCCCccc-CChhhhhhcceeEEeeccCchh-hCcHHHHHHHHHHHHhcccc
Confidence            999888875 35677777 68889999999998854 7888889999999999999888 68899999999999999999


Q ss_pred             cccccCCCCCCCc---CcceeeccccccccCCcccccc
Q 042011          286 SLSGNVNVPSSPA---NTLFNLSQNSRRFTSSISHSHL  320 (361)
Q Consensus       286 ~l~~~~~~~~~~~---~~L~~l~l~~N~~~~~~~~~~~  320 (361)
                      +++-..| .+..+   .+=+.+.+..|+|...+...+.
T Consensus       184 rl~vlpp-el~~l~l~~~k~v~r~E~NPwv~pIaeQf~  220 (264)
T KOG0617|consen  184 RLTVLPP-ELANLDLVGNKQVMRMEENPWVNPIAEQFL  220 (264)
T ss_pred             eeeecCh-hhhhhhhhhhHHHHhhhhCCCCChHHHHHH
Confidence            9985444 34333   2334567778888776655443

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

Probab=99.71  E-value=2.7e-19  Score=137.77  Aligned_cols=161  Identities=27%  Similarity=0.402  Sum_probs=147.0

Q ss_pred             CCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCC
Q 042011          150 HSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNL  229 (361)
Q Consensus       150 ~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L  229 (361)
                      -.+..++.|.+++|+++ .+|..+.. +.+|+.|++++|.++ ..|..++.+++|+.|+++-|++. .+|..++ .++-|
T Consensus        30 f~~s~ITrLtLSHNKl~-~vppnia~-l~nlevln~~nnqie-~lp~~issl~klr~lnvgmnrl~-~lprgfg-s~p~l  104 (264)
T KOG0617|consen   30 FNMSNITRLTLSHNKLT-VVPPNIAE-LKNLEVLNLSNNQIE-ELPTSISSLPKLRILNVGMNRLN-ILPRGFG-SFPAL  104 (264)
T ss_pred             cchhhhhhhhcccCcee-ecCCcHHH-hhhhhhhhcccchhh-hcChhhhhchhhhheecchhhhh-cCccccC-CCchh
Confidence            35677899999999999 89999988 899999999999998 88999999999999999999998 8999887 79999


Q ss_pred             cEEEeecCCCCC-cccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeecccc
Q 042011          230 ESLALSNNSLEG-HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNS  308 (361)
Q Consensus       230 ~~L~L~~n~l~~-~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~  308 (361)
                      +.||+.+|++.+ ..|+.|..++.|+.|+++.|.+. .+|..++++++|+.|.+++|.+- ..|..+..+.+|++|.++|
T Consensus       105 evldltynnl~e~~lpgnff~m~tlralyl~dndfe-~lp~dvg~lt~lqil~lrdndll-~lpkeig~lt~lrelhiqg  182 (264)
T KOG0617|consen  105 EVLDLTYNNLNENSLPGNFFYMTTLRALYLGDNDFE-ILPPDVGKLTNLQILSLRDNDLL-SLPKEIGDLTRLRELHIQG  182 (264)
T ss_pred             hhhhccccccccccCCcchhHHHHHHHHHhcCCCcc-cCChhhhhhcceeEEeeccCchh-hCcHHHHHHHHHHHHhccc
Confidence            999999999875 57888889999999999999998 88999999999999999999987 5788889999999999999


Q ss_pred             ccccCCccc
Q 042011          309 RRFTSSISH  317 (361)
Q Consensus       309 N~~~~~~~~  317 (361)
                      |+++-..|.
T Consensus       183 nrl~vlppe  191 (264)
T KOG0617|consen  183 NRLTVLPPE  191 (264)
T ss_pred             ceeeecChh
Confidence            999865553

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

Probab=99.49  E-value=5.2e-16  Score=140.23  Aligned_cols=170  Identities=30%  Similarity=0.428  Sum_probs=82.6

Q ss_pred             cEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEec
Q 042011          107 ALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNIS  186 (361)
Q Consensus       107 ~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~  186 (361)
                      ...|++.|++. .+|.. ++.+-.|+.+.+..|.+. .+|.++.++..|+.++++.|+++ .+|..++. + -|+.|-++
T Consensus        78 ~~aDlsrNR~~-elp~~-~~~f~~Le~liLy~n~~r-~ip~~i~~L~~lt~l~ls~NqlS-~lp~~lC~-l-pLkvli~s  151 (722)
T KOG0532|consen   78 VFADLSRNRFS-ELPEE-ACAFVSLESLILYHNCIR-TIPEAICNLEALTFLDLSSNQLS-HLPDGLCD-L-PLKVLIVS  151 (722)
T ss_pred             hhhhccccccc-cCchH-HHHHHHHHHHHHHhccce-ecchhhhhhhHHHHhhhccchhh-cCChhhhc-C-cceeEEEe
Confidence            34455555554 44444 334444444455544444 24444555555555555555554 45555443 2 35555555


Q ss_pred             CCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCcc
Q 042011          187 MNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGE  266 (361)
Q Consensus       187 ~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~  266 (361)
                      +|.++ .+|..++..+.|..|+.+.|.+. .+|..++ .+.+|+.|.+..|++.. .|..+. .-.|..||++.|++. .
T Consensus       152 NNkl~-~lp~~ig~~~tl~~ld~s~nei~-slpsql~-~l~slr~l~vrRn~l~~-lp~El~-~LpLi~lDfScNkis-~  225 (722)
T KOG0532|consen  152 NNKLT-SLPEEIGLLPTLAHLDVSKNEIQ-SLPSQLG-YLTSLRDLNVRRNHLED-LPEELC-SLPLIRLDFSCNKIS-Y  225 (722)
T ss_pred             cCccc-cCCcccccchhHHHhhhhhhhhh-hchHHhh-hHHHHHHHHHhhhhhhh-CCHHHh-CCceeeeecccCcee-e
Confidence            55554 44444454455555555555554 4454444 44555555555555444 333333 223445555555554 4


Q ss_pred             chhhhhcCCCCCEEECcCCccc
Q 042011          267 IPQSLSKCSSLEGLYLNNNSLS  288 (361)
Q Consensus       267 ~~~~~~~l~~L~~L~l~~N~l~  288 (361)
                      +|-.|..+..|++|-|.+|.+.
T Consensus       226 iPv~fr~m~~Lq~l~LenNPLq  247 (722)
T KOG0532|consen  226 LPVDFRKMRHLQVLQLENNPLQ  247 (722)
T ss_pred             cchhhhhhhhheeeeeccCCCC
Confidence            4445555555555555555554

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

Probab=99.37  E-value=8.8e-13  Score=122.05  Aligned_cols=176  Identities=30%  Similarity=0.422  Sum_probs=77.1

Q ss_pred             CCCccEEEecCCcccCCcChHHHhcCC-CCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCcc
Q 042011          103 QHDLALVDLSHIKMNGEFPTWLLENNT-KLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLK  181 (361)
Q Consensus       103 l~~L~~L~l~~n~l~~~~~~~~~~~~~-~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~  181 (361)
                      .+.++.|++.+|.++ .++.. ..... +|+.|++++|++.. .+..+..++.|+.|++++|+++ .+|..... .+.|+
T Consensus       115 ~~~l~~L~l~~n~i~-~i~~~-~~~~~~nL~~L~l~~N~i~~-l~~~~~~l~~L~~L~l~~N~l~-~l~~~~~~-~~~L~  189 (394)
T COG4886         115 LTNLTSLDLDNNNIT-DIPPL-IGLLKSNLKELDLSDNKIES-LPSPLRNLPNLKNLDLSFNDLS-DLPKLLSN-LSNLN  189 (394)
T ss_pred             ccceeEEecCCcccc-cCccc-cccchhhcccccccccchhh-hhhhhhccccccccccCCchhh-hhhhhhhh-hhhhh
Confidence            344555555555554 33332 22221 45555555555442 2233444455555555555554 44433322 34455


Q ss_pred             EEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCC
Q 042011          182 FFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGN  261 (361)
Q Consensus       182 ~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n  261 (361)
                      .|++++|.+. .+|........|+++.+++|.+. ..+.... .+.++..+.+.+|++.. .+..+..++.++.|++++|
T Consensus       190 ~L~ls~N~i~-~l~~~~~~~~~L~~l~~~~N~~~-~~~~~~~-~~~~l~~l~l~~n~~~~-~~~~~~~l~~l~~L~~s~n  265 (394)
T COG4886         190 NLDLSGNKIS-DLPPEIELLSALEELDLSNNSII-ELLSSLS-NLKNLSGLELSNNKLED-LPESIGNLSNLETLDLSNN  265 (394)
T ss_pred             heeccCCccc-cCchhhhhhhhhhhhhhcCCcce-ecchhhh-hcccccccccCCceeee-ccchhccccccceeccccc
Confidence            5555555544 33333333334455555554332 2333332 34444444444444433 1333444444555555555


Q ss_pred             cCCccchhhhhcCCCCCEEECcCCcccc
Q 042011          262 RFVGEIPQSLSKCSSLEGLYLNNNSLSG  289 (361)
Q Consensus       262 ~l~~~~~~~~~~l~~L~~L~l~~N~l~~  289 (361)
                      +++.. +. ++.+.+++.+++++|.+..
T Consensus       266 ~i~~i-~~-~~~~~~l~~L~~s~n~~~~  291 (394)
T COG4886         266 QISSI-SS-LGSLTNLRELDLSGNSLSN  291 (394)
T ss_pred             ccccc-cc-ccccCccCEEeccCccccc
Confidence            54422 11 4444455555555554443

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

Probab=99.34  E-value=3.3e-13  Score=113.41  Aligned_cols=132  Identities=26%  Similarity=0.237  Sum_probs=100.9

Q ss_pred             CCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEe
Q 042011          178 PSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQ  257 (361)
Q Consensus       178 ~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~  257 (361)
                      ..|+++|+|+|.|+ .+.....-.|.++.|++++|.+. ++.. +. .+++|..||+++|.++. ..++-..+-+++.|.
T Consensus       284 q~LtelDLS~N~I~-~iDESvKL~Pkir~L~lS~N~i~-~v~n-La-~L~~L~~LDLS~N~Ls~-~~Gwh~KLGNIKtL~  358 (490)
T KOG1259|consen  284 QELTELDLSGNLIT-QIDESVKLAPKLRRLILSQNRIR-TVQN-LA-ELPQLQLLDLSGNLLAE-CVGWHLKLGNIKTLK  358 (490)
T ss_pred             hhhhhccccccchh-hhhhhhhhccceeEEecccccee-eehh-hh-hcccceEeecccchhHh-hhhhHhhhcCEeeee
Confidence            46888888888887 66667777788888888888887 6655 32 58888888888888876 445555677888888


Q ss_pred             ccCCcCCccchhhhhcCCCCCEEECcCCcccccC-CCCCCCcCcceeeccccccccCCcc
Q 042011          258 LGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV-NVPSSPANTLFNLSQNSRRFTSSIS  316 (361)
Q Consensus       258 L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~-~~~~~~~~~L~~l~l~~N~~~~~~~  316 (361)
                      +++|.|.+.  ..+..+-+|..||+++|+|.... ...++++|.|+.+.+.+|++.+...
T Consensus       359 La~N~iE~L--SGL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~NPl~~~vd  416 (490)
T KOG1259|consen  359 LAQNKIETL--SGLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTGNPLAGSVD  416 (490)
T ss_pred             hhhhhHhhh--hhhHhhhhheeccccccchhhHHHhcccccccHHHHHhhcCCCccccch
Confidence            888888732  45677788888999999887532 2467888999999999998886543

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

Probab=99.34  E-value=1.5e-13  Score=117.58  Aligned_cols=173  Identities=24%  Similarity=0.251  Sum_probs=87.4

Q ss_pred             hhccCCCCeEeCcCCccccc----CCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCch
Q 042011           23 LVHLTSIEELMLSNNHFQIP----ISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPK   98 (361)
Q Consensus        23 ~~~l~~L~~L~Ls~n~l~~~----~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~   98 (361)
                      ...+..++.|+||+|.+...    +. ..+.+.+.|+..++++- +++....-+        .+.|.         .+..
T Consensus        26 ~~~~~s~~~l~lsgnt~G~EAa~~i~-~~L~~~~~L~~v~~sd~-ftGR~~~Ei--------~e~L~---------~l~~   86 (382)
T KOG1909|consen   26 LEPMDSLTKLDLSGNTFGTEAARAIA-KVLASKKELREVNLSDM-FTGRLKDEI--------PEALK---------MLSK   86 (382)
T ss_pred             hcccCceEEEeccCCchhHHHHHHHH-HHHhhcccceeeehHhh-hcCCcHHHH--------HHHHH---------HHHH
Confidence            44567788888888877411    11 23556667777777742 222111110        00000         1234


Q ss_pred             hhcCCCCccEEEecCCcccCCcCh---HHHhcCCCCcEEEecCCcccCCC-------------CCCcCCCCCcCEEEccC
Q 042011           99 FLYHQHDLALVDLSHIKMNGEFPT---WLLENNTKLETLFLVNDSLTGPF-------------RLPIHSHRWLEFLDISN  162 (361)
Q Consensus        99 ~l~~l~~L~~L~l~~n~l~~~~~~---~~~~~~~~L~~L~l~~n~l~~~~-------------~~~~~~l~~L~~L~l~~  162 (361)
                      .+..+++|++||||.|-+....+.   .++..+..|++|++.+|.+...-             ......-+.|+.+....
T Consensus        87 aL~~~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~r  166 (382)
T KOG1909|consen   87 ALLGCPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGR  166 (382)
T ss_pred             HHhcCCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeec
Confidence            455677888888888877533332   33566778888888888765211             11122334455666655


Q ss_pred             CcCCccCCh----hhhccCCCccEEEecCCcccc----ccCccccCCCCCCEEeccCCcCc
Q 042011          163 NNFRCHIPV----EIGDILPSLKFFNISMNALDG----SIPSSFGNMNFLRVLDLSNNQLT  215 (361)
Q Consensus       163 n~l~~~~~~----~~~~~l~~L~~L~L~~n~l~~----~~~~~l~~~~~L~~L~l~~n~l~  215 (361)
                      |++. ..+.    ..++..+.|+.+.++.|.|..    .....|..+++|+.|++.+|.++
T Consensus       167 Nrle-n~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft  226 (382)
T KOG1909|consen  167 NRLE-NGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFT  226 (382)
T ss_pred             cccc-cccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhh
Confidence            5554 2221    112223455555555555431    11223444555555555555444

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

Probab=99.32  E-value=5.1e-13  Score=117.52  Aligned_cols=209  Identities=21%  Similarity=0.166  Sum_probs=126.3

Q ss_pred             cccEEeccCCCCCCCCCc-hhhcCCCCccEEEecCCcccCCcC-hHHHhcCCCCcEEEecCCcccCCCC-CCcCCCCCcC
Q 042011           80 QLNSLSLSSDYGDGFIFP-KFLYHQHDLALVDLSHIKMNGEFP-TWLLENNTKLETLFLVNDSLTGPFR-LPIHSHRWLE  156 (361)
Q Consensus        80 ~L~~L~l~~~~~~~~~~~-~~l~~l~~L~~L~l~~n~l~~~~~-~~~~~~~~~L~~L~l~~n~l~~~~~-~~~~~l~~L~  156 (361)
                      +|+++.| .+..+..... .....|+.++.||+|+|-+....+ ..+...+++|+.|+++.|++..... ..-..+++|+
T Consensus       122 kL~~IsL-dn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK  200 (505)
T KOG3207|consen  122 KLREISL-DNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSHLK  200 (505)
T ss_pred             hhhheee-cCccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhhhh
Confidence            6666666 6555543221 345667888888888877664322 2335677888888888887753211 1122456778


Q ss_pred             EEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccc-hhhhhCCCCCcEEEee
Q 042011          157 FLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIP-EHLAVGCVNLESLALS  235 (361)
Q Consensus       157 ~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~-~~~~~~~~~L~~L~L~  235 (361)
                      .|.++.|+++..--.+....+|+|+.|++..|..-........-+..|++|++++|.+- ..+ ......++.|+.|+++
T Consensus       201 ~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li-~~~~~~~~~~l~~L~~Lnls  279 (505)
T KOG3207|consen  201 QLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLI-DFDQGYKVGTLPGLNQLNLS  279 (505)
T ss_pred             eEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHhhccccCCccc-ccccccccccccchhhhhcc
Confidence            88888887774433444455788888888877422122333344567778888888776 333 1122267778888888


Q ss_pred             cCCCCCcccccc------cCCCCCCEEeccCCcCCccc-hhhhhcCCCCCEEECcCCccccc
Q 042011          236 NNSLEGHMFSRN------FNLTNLEWLQLGGNRFVGEI-PQSLSKCSSLEGLYLNNNSLSGN  290 (361)
Q Consensus       236 ~n~l~~~~~~~~------~~~~~L~~L~L~~n~l~~~~-~~~~~~l~~L~~L~l~~N~l~~~  290 (361)
                      .+.+.++.....      ...++|+.|+++.|+|.+.- -..+..+++|+.+.+..|.++.+
T Consensus       280 ~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I~~w~sl~~l~~l~nlk~l~~~~n~ln~e  341 (505)
T KOG3207|consen  280 STGIASIAEPDVESLDKTHTFPKLEYLNISENNIRDWRSLNHLRTLENLKHLRITLNYLNKE  341 (505)
T ss_pred             ccCcchhcCCCccchhhhcccccceeeecccCccccccccchhhccchhhhhhccccccccc
Confidence            777765422222      35677778888777775321 12344456777777777777643

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

Probab=99.32  E-value=1.9e-13  Score=120.19  Aligned_cols=215  Identities=18%  Similarity=0.099  Sum_probs=158.3

Q ss_pred             hcCCCCccEEEecCCcccCCcCh-HHHhcCCCCcEEEecCCcccCC--CCCCcCCCCCcCEEEccCCcCCccCChhhhcc
Q 042011          100 LYHQHDLALVDLSHIKMNGEFPT-WLLENNTKLETLFLVNDSLTGP--FRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI  176 (361)
Q Consensus       100 l~~l~~L~~L~l~~n~l~~~~~~-~~~~~~~~L~~L~l~~n~l~~~--~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~  176 (361)
                      -+++.+|+.+.+.++.+. ..+. .....++.++.|+++.|-+..-  +..-...+|+|+.|+++.|++..-........
T Consensus       117 Qsn~kkL~~IsLdn~~V~-~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~  195 (505)
T KOG3207|consen  117 QSNLKKLREISLDNYRVE-DAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLL  195 (505)
T ss_pred             hhhHHhhhheeecCcccc-ccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhh
Confidence            346889999999998876 3332 3478899999999999977642  23345678999999999999874333333344


Q ss_pred             CCCccEEEecCCcccc-ccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcc-cccccCCCCCC
Q 042011          177 LPSLKFFNISMNALDG-SIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHM-FSRNFNLTNLE  254 (361)
Q Consensus       177 l~~L~~L~L~~n~l~~-~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~-~~~~~~~~~L~  254 (361)
                      +++|+.|.++.|.++. .+...+..+|+|+.|++.+|... .+...-...+..|++|+|++|++-... ....+.++.|+
T Consensus       196 l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~-~~~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~  274 (505)
T KOG3207|consen  196 LSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEII-LIKATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPGLN  274 (505)
T ss_pred             hhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhccccc-ceecchhhhhhHHhhccccCCcccccccccccccccchh
Confidence            7899999999999972 22334567899999999999532 122222235678999999999876532 24566889999


Q ss_pred             EEeccCCcCCcc-chhh-----hhcCCCCCEEECcCCcccccC-CCCCCCcCcceeeccccccccCCcc
Q 042011          255 WLQLGGNRFVGE-IPQS-----LSKCSSLEGLYLNNNSLSGNV-NVPSSPANTLFNLSQNSRRFTSSIS  316 (361)
Q Consensus       255 ~L~L~~n~l~~~-~~~~-----~~~l~~L~~L~l~~N~l~~~~-~~~~~~~~~L~~l~l~~N~~~~~~~  316 (361)
                      .|+++.+.+.+. .|++     ....++|+.|+++.|++.+.. -..+..+++|+.+.+..|+++..-.
T Consensus       275 ~Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I~~w~sl~~l~~l~nlk~l~~~~n~ln~e~~  343 (505)
T KOG3207|consen  275 QLNLSSTGIASIAEPDVESLDKTHTFPKLEYLNISENNIRDWRSLNHLRTLENLKHLRITLNYLNKETD  343 (505)
T ss_pred             hhhccccCcchhcCCCccchhhhcccccceeeecccCccccccccchhhccchhhhhhccccccccccc
Confidence            999999998854 2332     345789999999999997522 2346778899999999999986554

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

Probab=99.32  E-value=2.5e-12  Score=103.08  Aligned_cols=125  Identities=29%  Similarity=0.353  Sum_probs=41.6

Q ss_pred             CCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcE
Q 042011          152 HRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLES  231 (361)
Q Consensus       152 l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~  231 (361)
                      ..++++|++.+|.|+ .+. .+...+.+|+.|++++|.++ .+. .+..++.|++|++++|.++ .++..+...+++|++
T Consensus        18 ~~~~~~L~L~~n~I~-~Ie-~L~~~l~~L~~L~Ls~N~I~-~l~-~l~~L~~L~~L~L~~N~I~-~i~~~l~~~lp~L~~   92 (175)
T PF14580_consen   18 PVKLRELNLRGNQIS-TIE-NLGATLDKLEVLDLSNNQIT-KLE-GLPGLPRLKTLDLSNNRIS-SISEGLDKNLPNLQE   92 (175)
T ss_dssp             --------------------S--TT-TT--EEE-TTS--S---T-T----TT--EEE--SS----S-CHHHHHH-TT--E
T ss_pred             ccccccccccccccc-ccc-chhhhhcCCCEEECCCCCCc-ccc-CccChhhhhhcccCCCCCC-ccccchHHhCCcCCE
Confidence            345666777777765 442 33333566777777777776 332 3566677777777777776 565444334677777


Q ss_pred             EEeecCCCCCc-ccccccCCCCCCEEeccCCcCCccc---hhhhhcCCCCCEEE
Q 042011          232 LALSNNSLEGH-MFSRNFNLTNLEWLQLGGNRFVGEI---PQSLSKCSSLEGLY  281 (361)
Q Consensus       232 L~L~~n~l~~~-~~~~~~~~~~L~~L~L~~n~l~~~~---~~~~~~l~~L~~L~  281 (361)
                      |++++|+|... ....+..+++|+.|++.+|+++...   ...+..+|+|+.||
T Consensus        93 L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD  146 (175)
T PF14580_consen   93 LYLSNNKISDLNELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLD  146 (175)
T ss_dssp             EE-TTS---SCCCCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEET
T ss_pred             EECcCCcCCChHHhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeC
Confidence            77777777652 1234556677777777777766331   23455667777765

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

Probab=99.32  E-value=2.6e-12  Score=118.90  Aligned_cols=177  Identities=32%  Similarity=0.465  Sum_probs=84.7

Q ss_pred             cCCCCcEEEecCCcccCCCCCCcCCCC-CcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCC
Q 042011          127 NNTKLETLFLVNDSLTGPFRLPIHSHR-WLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLR  205 (361)
Q Consensus       127 ~~~~L~~L~l~~n~l~~~~~~~~~~l~-~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~  205 (361)
                      ..+.++.+++.+|.++. ++....... +|+.|++++|.+. .+|..+.. +++|+.|++++|.++ .++...+..+.|+
T Consensus       114 ~~~~l~~L~l~~n~i~~-i~~~~~~~~~nL~~L~l~~N~i~-~l~~~~~~-l~~L~~L~l~~N~l~-~l~~~~~~~~~L~  189 (394)
T COG4886         114 ELTNLTSLDLDNNNITD-IPPLIGLLKSNLKELDLSDNKIE-SLPSPLRN-LPNLKNLDLSFNDLS-DLPKLLSNLSNLN  189 (394)
T ss_pred             cccceeEEecCCccccc-Cccccccchhhcccccccccchh-hhhhhhhc-cccccccccCCchhh-hhhhhhhhhhhhh
Confidence            33455555555555542 233333332 4555555555554 44433333 455555555555555 3443333445555


Q ss_pred             EEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCC
Q 042011          206 VLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNN  285 (361)
Q Consensus       206 ~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N  285 (361)
                      .|++++|++. .+|.... ....|+++.+++|++.. .+..+..+..+..+.+.+|++. ..+..++.+++++.|++++|
T Consensus       190 ~L~ls~N~i~-~l~~~~~-~~~~L~~l~~~~N~~~~-~~~~~~~~~~l~~l~l~~n~~~-~~~~~~~~l~~l~~L~~s~n  265 (394)
T COG4886         190 NLDLSGNKIS-DLPPEIE-LLSALEELDLSNNSIIE-LLSSLSNLKNLSGLELSNNKLE-DLPESIGNLSNLETLDLSNN  265 (394)
T ss_pred             heeccCCccc-cCchhhh-hhhhhhhhhhcCCccee-cchhhhhcccccccccCCceee-eccchhccccccceeccccc
Confidence            5555555555 5554332 23335555555553222 3334444555555555555554 22344444555555555555


Q ss_pred             cccccCCCCCCCcCcceeeccccccccC
Q 042011          286 SLSGNVNVPSSPANTLFNLSQNSRRFTS  313 (361)
Q Consensus       286 ~l~~~~~~~~~~~~~L~~l~l~~N~~~~  313 (361)
                      +++....  +....+++.+++++|.++.
T Consensus       266 ~i~~i~~--~~~~~~l~~L~~s~n~~~~  291 (394)
T COG4886         266 QISSISS--LGSLTNLRELDLSGNSLSN  291 (394)
T ss_pred             ccccccc--ccccCccCEEeccCccccc
Confidence            5553222  4455555555555555543

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

Probab=99.30  E-value=1e-13  Score=125.59  Aligned_cols=193  Identities=25%  Similarity=0.318  Sum_probs=137.5

Q ss_pred             cccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEE
Q 042011           80 QLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLD  159 (361)
Q Consensus        80 ~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~  159 (361)
                      --...++ +.|.+. .+|..+..+..|+.+.++.|.+- .+|.. .+++..|++++++.|+++ ..|..+..++ |+.|.
T Consensus        76 dt~~aDl-srNR~~-elp~~~~~f~~Le~liLy~n~~r-~ip~~-i~~L~~lt~l~ls~NqlS-~lp~~lC~lp-Lkvli  149 (722)
T KOG0532|consen   76 DTVFADL-SRNRFS-ELPEEACAFVSLESLILYHNCIR-TIPEA-ICNLEALTFLDLSSNQLS-HLPDGLCDLP-LKVLI  149 (722)
T ss_pred             chhhhhc-cccccc-cCchHHHHHHHHHHHHHHhccce-ecchh-hhhhhHHHHhhhccchhh-cCChhhhcCc-ceeEE
Confidence            3345666 666665 45666777777888888888876 67766 567778888888888877 3566666666 77888


Q ss_pred             ccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCC
Q 042011          160 ISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL  239 (361)
Q Consensus       160 l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l  239 (361)
                      +++|+++ .+|..+. ..+.|..||.+.|.+. .+|..++++.+|+.|.+..|.+. .+|+...  .-.|..||++.|++
T Consensus       150 ~sNNkl~-~lp~~ig-~~~tl~~ld~s~nei~-slpsql~~l~slr~l~vrRn~l~-~lp~El~--~LpLi~lDfScNki  223 (722)
T KOG0532|consen  150 VSNNKLT-SLPEEIG-LLPTLAHLDVSKNEIQ-SLPSQLGYLTSLRDLNVRRNHLE-DLPEELC--SLPLIRLDFSCNKI  223 (722)
T ss_pred             EecCccc-cCCcccc-cchhHHHhhhhhhhhh-hchHHhhhHHHHHHHHHhhhhhh-hCCHHHh--CCceeeeecccCce
Confidence            8888887 7777777 5778888888888877 66777777888888888888877 7777765  34577788888888


Q ss_pred             CCcccccccCCCCCCEEeccCCcCCccchhhhhc---CCCCCEEECcCCc
Q 042011          240 EGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSK---CSSLEGLYLNNNS  286 (361)
Q Consensus       240 ~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~---l~~L~~L~l~~N~  286 (361)
                      .. +|..|..|+.|++|-|.+|.+. ..|..+..   ..--++|+..-++
T Consensus       224 s~-iPv~fr~m~~Lq~l~LenNPLq-SPPAqIC~kGkVHIFKyL~~qA~q  271 (722)
T KOG0532|consen  224 SY-LPVDFRKMRHLQVLQLENNPLQ-SPPAQICEKGKVHIFKYLSTQACQ  271 (722)
T ss_pred             ee-cchhhhhhhhheeeeeccCCCC-CChHHHHhccceeeeeeecchhcc
Confidence            66 6777888888888888888887 44443322   2233556666553

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

Probab=99.25  E-value=1.1e-12  Score=112.29  Aligned_cols=214  Identities=23%  Similarity=0.220  Sum_probs=151.2

Q ss_pred             hhhcCCCCccEEEecCCcc---cCCcChH------HHhcCCCCcEEEecCCcccCCCCCC----cCCCCCcCEEEccCCc
Q 042011           98 KFLYHQHDLALVDLSHIKM---NGEFPTW------LLENNTKLETLFLVNDSLTGPFRLP----IHSHRWLEFLDISNNN  164 (361)
Q Consensus        98 ~~l~~l~~L~~L~l~~n~l---~~~~~~~------~~~~~~~L~~L~l~~n~l~~~~~~~----~~~l~~L~~L~l~~n~  164 (361)
                      ..++..++|+..+++.-..   ...+|+.      .+.++++|++++||.|-+....+..    +..+..|++|.+.+|.
T Consensus        52 ~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~G  131 (382)
T KOG1909|consen   52 KVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCG  131 (382)
T ss_pred             HHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCC
Confidence            3455566777777765321   1123322      1556789999999999987544433    3456789999999998


Q ss_pred             CCccCChhh-------------hccCCCccEEEecCCcccc----ccCccccCCCCCCEEeccCCcCcccc---chhhhh
Q 042011          165 FRCHIPVEI-------------GDILPSLKFFNISMNALDG----SIPSSFGNMNFLRVLDLSNNQLTGEI---PEHLAV  224 (361)
Q Consensus       165 l~~~~~~~~-------------~~~l~~L~~L~L~~n~l~~----~~~~~l~~~~~L~~L~l~~n~l~~~~---~~~~~~  224 (361)
                      +. ......             ...-+.|+.+...+|++..    .+...|...+.|+.+.+..|.|...-   -...+.
T Consensus       132 lg-~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~  210 (382)
T KOG1909|consen  132 LG-PEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALE  210 (382)
T ss_pred             CC-hhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHH
Confidence            86 222111             1114689999999999862    23446777899999999999986221   122334


Q ss_pred             CCCCCcEEEeecCCCCC----cccccccCCCCCCEEeccCCcCCccchhhhh-----cCCCCCEEECcCCccccc----C
Q 042011          225 GCVNLESLALSNNSLEG----HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLS-----KCSSLEGLYLNNNSLSGN----V  291 (361)
Q Consensus       225 ~~~~L~~L~L~~n~l~~----~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~-----~l~~L~~L~l~~N~l~~~----~  291 (361)
                      .+++|+.|||..|-++.    .....++.+++|+.+++++|.+......+|.     ..|+|+.+.+.+|.|+..    +
T Consensus       211 ~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dcll~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~da~~~l  290 (382)
T KOG1909|consen  211 HCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDCLLENEGAIAFVDALKESAPSLEVLELAGNEITRDAALAL  290 (382)
T ss_pred             hCCcceeeecccchhhhHHHHHHHHHhcccchheeecccccccccccHHHHHHHHhccCCCCceeccCcchhHHHHHHHH
Confidence            79999999999998874    2455677889999999999999876544332     268999999999999752    2


Q ss_pred             CCCCCCcCcceeecccccccc
Q 042011          292 NVPSSPANTLFNLSQNSRRFT  312 (361)
Q Consensus       292 ~~~~~~~~~L~~l~l~~N~~~  312 (361)
                      ...+...+.|..|++++|++.
T Consensus       291 a~~~~ek~dL~kLnLngN~l~  311 (382)
T KOG1909|consen  291 AACMAEKPDLEKLNLNGNRLG  311 (382)
T ss_pred             HHHHhcchhhHHhcCCccccc
Confidence            223455789999999999993

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

Probab=99.25  E-value=5.1e-12  Score=101.32  Aligned_cols=139  Identities=23%  Similarity=0.258  Sum_probs=43.4

Q ss_pred             CCCccccCcCChhhhhccCCCCeEeCcCCcccccCCccccc-CCCCCcEEEccCCCcccccccccccccCcccccEEecc
Q 042011            9 VSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLF-NHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLS   87 (361)
Q Consensus         9 L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~-~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~   87 (361)
                      |+.+.|. .++.  +.+..++++|+|++|+|+ .+.  .+. .+.+|+.|++++|.++..                    
T Consensus         4 lt~~~i~-~~~~--~~n~~~~~~L~L~~n~I~-~Ie--~L~~~l~~L~~L~Ls~N~I~~l--------------------   57 (175)
T PF14580_consen    4 LTANMIE-QIAQ--YNNPVKLRELNLRGNQIS-TIE--NLGATLDKLEVLDLSNNQITKL--------------------   57 (175)
T ss_dssp             --------------------------------------S--TT-TT--EEE-TTS--S----------------------
T ss_pred             ccccccc-cccc--cccccccccccccccccc-ccc--chhhhhcCCCEEECCCCCCccc--------------------
Confidence            4455555 5555  556667788888888877 443  343 467777777777776531                    


Q ss_pred             CCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCC-CCCcCCCCCcCEEEccCCcCC
Q 042011           88 SDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPF-RLPIHSHRWLEFLDISNNNFR  166 (361)
Q Consensus        88 ~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~-~~~~~~l~~L~~L~l~~n~l~  166 (361)
                                ..+..++.|++|++++|.|+ .+...+...+++|++|++++|++.... -..+..+++|+.|++.+|++.
T Consensus        58 ----------~~l~~L~~L~~L~L~~N~I~-~i~~~l~~~lp~L~~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~  126 (175)
T PF14580_consen   58 ----------EGLPGLPRLKTLDLSNNRIS-SISEGLDKNLPNLQELYLSNNKISDLNELEPLSSLPKLRVLSLEGNPVC  126 (175)
T ss_dssp             ----------TT----TT--EEE--SS----S-CHHHHHH-TT--EEE-TTS---SCCCCGGGGG-TT--EEE-TT-GGG
T ss_pred             ----------cCccChhhhhhcccCCCCCC-ccccchHHhCCcCCEEECcCCcCCChHHhHHHHcCCCcceeeccCCccc
Confidence                      12445677777777777776 555443446777777777777776421 234556777888888888776


Q ss_pred             ccCCh---hhhccCCCccEEEe
Q 042011          167 CHIPV---EIGDILPSLKFFNI  185 (361)
Q Consensus       167 ~~~~~---~~~~~l~~L~~L~L  185 (361)
                       ..+.   .+...+|+|+.||-
T Consensus       127 -~~~~YR~~vi~~lP~Lk~LD~  147 (175)
T PF14580_consen  127 -EKKNYRLFVIYKLPSLKVLDG  147 (175)
T ss_dssp             -GSTTHHHHHHHH-TT-SEETT
T ss_pred             -chhhHHHHHHHHcChhheeCC
Confidence             3332   23334788888764

>PLN03150 hypothetical protein; Provisional

Probab=99.20  E-value=4e-11  Score=116.45  Aligned_cols=112  Identities=34%  Similarity=0.398  Sum_probs=99.2

Q ss_pred             CCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECc
Q 042011          204 LRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLN  283 (361)
Q Consensus       204 L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~  283 (361)
                      ++.|++++|.+.|.+|..+. .+++|+.|+|++|.+.+..|..+..+++|+.|++++|++++.+|+.++.+++|+.|+++
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 IDGLGLDNQGLRGFIPNDIS-KLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLN  498 (623)
T ss_pred             EEEEECCCCCccccCCHHHh-CCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECc
Confidence            77899999999988998876 89999999999999998888889999999999999999999999999999999999999


Q ss_pred             CCcccccCCCCCCCc-CcceeeccccccccCCcc
Q 042011          284 NNSLSGNVNVPSSPA-NTLFNLSQNSRRFTSSIS  316 (361)
Q Consensus       284 ~N~l~~~~~~~~~~~-~~L~~l~l~~N~~~~~~~  316 (361)
                      +|++++.+|..+... .++..+++.+|+..|..|
T Consensus       499 ~N~l~g~iP~~l~~~~~~~~~l~~~~N~~lc~~p  532 (623)
T PLN03150        499 GNSLSGRVPAALGGRLLHRASFNFTDNAGLCGIP  532 (623)
T ss_pred             CCcccccCChHHhhccccCceEEecCCccccCCC
Confidence            999999999877653 466788999998777655

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

Probab=99.18  E-value=7e-12  Score=105.56  Aligned_cols=227  Identities=22%  Similarity=0.188  Sum_probs=137.1

Q ss_pred             hhccCCCCeEeCcCCc--------ccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCC
Q 042011           23 LVHLTSIEELMLSNNH--------FQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGF   94 (361)
Q Consensus        23 ~~~l~~L~~L~Ls~n~--------l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~   94 (361)
                      +.-+.+|..|.+++..        +...+| ..+..+.+|+.+.++.+.-..+..  +  ....+.|+++.. .+..+..
T Consensus       178 ldf~~~l~~l~vs~~~~p~~~sni~~~~l~-f~l~~f~~l~~~~~s~~~~~~i~~--~--~~~kptl~t~~v-~~s~~~~  251 (490)
T KOG1259|consen  178 LDFCTQLVALVVTPVKDPIDRSNIIPNRLS-FNLNAFRNLKTLKFSALSTENIVD--I--ELLKPTLQTICV-HNTTIQD  251 (490)
T ss_pred             HHhhhheeEEEecCCCCCCccccccccccc-cchHHhhhhheeeeeccchhheec--e--eecCchhheeee-ecccccc
Confidence            3446677777777532        111222 124455677777777775332111  1  122236777777 5544432


Q ss_pred             CCchhhcCCCCccEEEecCCc-ccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhh
Q 042011           95 IFPKFLYHQHDLALVDLSHIK-MNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEI  173 (361)
Q Consensus        95 ~~~~~l~~l~~L~~L~l~~n~-l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~  173 (361)
                      . | .+-....+.......-. .+|..... ...-..|+++|+++|.++ .+..+..-.|.++.|++++|++. .+.. +
T Consensus       252 ~-~-~l~pe~~~~D~~~~E~~t~~G~~~~~-~dTWq~LtelDLS~N~I~-~iDESvKL~Pkir~L~lS~N~i~-~v~n-L  325 (490)
T KOG1259|consen  252 V-P-SLLPETILADPSGSEPSTSNGSALVS-ADTWQELTELDLSGNLIT-QIDESVKLAPKLRRLILSQNRIR-TVQN-L  325 (490)
T ss_pred             c-c-cccchhhhcCccCCCCCccCCceEEe-cchHhhhhhccccccchh-hhhhhhhhccceeEEecccccee-eehh-h
Confidence            1 1 11111122111111111 11111111 111246788888888887 35566667788899999999887 5544 3


Q ss_pred             hccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCc-ccccccCCCC
Q 042011          174 GDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGH-MFSRNFNLTN  252 (361)
Q Consensus       174 ~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~-~~~~~~~~~~  252 (361)
                      . .+++|+.||+|+|.++ .+...=..+.++++|.+++|.+. .+. .+. .+.+|..||+++|+|... ....++++|.
T Consensus       326 a-~L~~L~~LDLS~N~Ls-~~~Gwh~KLGNIKtL~La~N~iE-~LS-GL~-KLYSLvnLDl~~N~Ie~ldeV~~IG~LPC  400 (490)
T KOG1259|consen  326 A-ELPQLQLLDLSGNLLA-ECVGWHLKLGNIKTLKLAQNKIE-TLS-GLR-KLYSLVNLDLSSNQIEELDEVNHIGNLPC  400 (490)
T ss_pred             h-hcccceEeecccchhH-hhhhhHhhhcCEeeeehhhhhHh-hhh-hhH-hhhhheeccccccchhhHHHhcccccccH
Confidence            3 3789999999999887 45555556778889999999887 443 333 677889999999988763 2345778999


Q ss_pred             CCEEeccCCcCCcc
Q 042011          253 LEWLQLGGNRFVGE  266 (361)
Q Consensus       253 L~~L~L~~n~l~~~  266 (361)
                      |+++.+.+|++.+.
T Consensus       401 LE~l~L~~NPl~~~  414 (490)
T KOG1259|consen  401 LETLRLTGNPLAGS  414 (490)
T ss_pred             HHHHhhcCCCcccc
Confidence            99999999998854

>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=99.15  E-value=2e-11  Score=80.76  Aligned_cols=61  Identities=34%  Similarity=0.496  Sum_probs=56.1

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNEL   64 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~   64 (361)
                      |+|++|++++|+++ .+|...|.++++|++|++++|+++ .++..+|.++++|++|++++|++
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 PNLESLDLSNNKLT-EIPPDSFSNLPNLETLDLSNNNLT-SIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTES-EECTTTTTTGTTESEEEETSSSES-EEETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCC-ccCHHHHcCCCCCCEeEccCCccC-ccCHHHHcCCCCCCEEeCcCCcC
Confidence            68999999999998 889879999999999999999998 67768999999999999999975

...

>PLN03150 hypothetical protein; Provisional

Probab=99.10  E-value=3.1e-10  Score=110.28  Aligned_cols=113  Identities=27%  Similarity=0.424  Sum_probs=101.0

Q ss_pred             CccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEec
Q 042011          179 SLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQL  258 (361)
Q Consensus       179 ~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L  258 (361)
                      .++.|+|++|.+.+.+|..+..+++|+.|++++|.+.|.+|..+. .+++|+.|++++|++.+..|..++.+++|+.|++
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~-~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~L  497 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLG-SITSLEVLDLSYNSFNGSIPESLGQLTSLRILNL  497 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHh-CCCCCCEEECCCCCCCCCCchHHhcCCCCCEEEC
Confidence            378899999999999999999999999999999999989998876 8999999999999999999999999999999999


Q ss_pred             cCCcCCccchhhhhcC-CCCCEEECcCCcccccCC
Q 042011          259 GGNRFVGEIPQSLSKC-SSLEGLYLNNNSLSGNVN  292 (361)
Q Consensus       259 ~~n~l~~~~~~~~~~l-~~L~~L~l~~N~l~~~~~  292 (361)
                      ++|++++.+|..+... .++..+++.+|......|
T Consensus       498 s~N~l~g~iP~~l~~~~~~~~~l~~~~N~~lc~~p  532 (623)
T PLN03150        498 NGNSLSGRVPAALGGRLLHRASFNFTDNAGLCGIP  532 (623)
T ss_pred             cCCcccccCChHHhhccccCceEEecCCccccCCC
Confidence            9999999999988764 467889999987554333

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

Probab=99.09  E-value=7.5e-12  Score=116.22  Aligned_cols=130  Identities=23%  Similarity=0.151  Sum_probs=61.6

Q ss_pred             hccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCC
Q 042011           24 VHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQ  103 (361)
Q Consensus        24 ~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l  103 (361)
                      ..+..++.+++..|.+. .+. ..+..+.+|+.+++.+|.+......    ...+.+|++|++ +.|.++...  .+..+
T Consensus        69 ~~l~~l~~l~l~~n~i~-~~~-~~l~~~~~l~~l~l~~n~i~~i~~~----l~~~~~L~~L~l-s~N~I~~i~--~l~~l  139 (414)
T KOG0531|consen   69 ESLTSLKELNLRQNLIA-KIL-NHLSKLKSLEALDLYDNKIEKIENL----LSSLVNLQVLDL-SFNKITKLE--GLSTL  139 (414)
T ss_pred             HHhHhHHhhccchhhhh-hhh-cccccccceeeeeccccchhhcccc----hhhhhcchheec-ccccccccc--chhhc
Confidence            35566666667777665 322 2356667777777777766542210    122234444444 444443321  23334


Q ss_pred             CCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCC-CCcCCCCCcCEEEccCCcCC
Q 042011          104 HDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFR-LPIHSHRWLEFLDISNNNFR  166 (361)
Q Consensus       104 ~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~-~~~~~l~~L~~L~l~~n~l~  166 (361)
                      +.|+.|++++|.+. .+..  +..+..|+.+++++|.+....+ . ...+.+++.+++.+|.+.
T Consensus       140 ~~L~~L~l~~N~i~-~~~~--~~~l~~L~~l~l~~n~i~~ie~~~-~~~~~~l~~l~l~~n~i~  199 (414)
T KOG0531|consen  140 TLLKELNLSGNLIS-DISG--LESLKSLKLLDLSYNRIVDIENDE-LSELISLEELDLGGNSIR  199 (414)
T ss_pred             cchhhheeccCcch-hccC--CccchhhhcccCCcchhhhhhhhh-hhhccchHHHhccCCchh
Confidence            44555555555554 2222  2334445555555554443222 1 233444445555555443

>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=99.01  E-value=2.5e-10  Score=75.44  Aligned_cols=59  Identities=32%  Similarity=0.319  Sum_probs=30.5

Q ss_pred             CCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeecccccc
Q 042011          252 NLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRR  310 (361)
Q Consensus       252 ~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~  310 (361)
                      +|+.|++++|+++...+.+|.++++|++|++++|+++...+.+|..+++|++|++++|+
T Consensus         2 ~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    2 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            44555555555554444455555555555555555554444555555555555555554

...

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

Probab=98.98  E-value=9.2e-11  Score=108.98  Aligned_cols=243  Identities=24%  Similarity=0.211  Sum_probs=168.1

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      ..++.+++..|.|. .+.. .+..+++|+.+++.+|+|. .+. ..+..+++|++|++++|.|+....     +..+..|
T Consensus        72 ~~l~~l~l~~n~i~-~~~~-~l~~~~~l~~l~l~~n~i~-~i~-~~l~~~~~L~~L~ls~N~I~~i~~-----l~~l~~L  142 (414)
T KOG0531|consen   72 TSLKELNLRQNLIA-KILN-HLSKLKSLEALDLYDNKIE-KIE-NLLSSLVNLQVLDLSFNKITKLEG-----LSTLTLL  142 (414)
T ss_pred             HhHHhhccchhhhh-hhhc-ccccccceeeeeccccchh-hcc-cchhhhhcchheeccccccccccc-----hhhccch
Confidence            34566778888887 4333 4788899999999999998 444 127788999999999999876432     3445568


Q ss_pred             cEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcCh-HHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEc
Q 042011           82 NSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPT-WLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDI  160 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~-~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l  160 (361)
                      +.|++ .+|.++..  ..+..++.|+.+++++|.+. .+.. . ...+.+++.+++++|.+..  ...+..+..+..+++
T Consensus       143 ~~L~l-~~N~i~~~--~~~~~l~~L~~l~l~~n~i~-~ie~~~-~~~~~~l~~l~l~~n~i~~--i~~~~~~~~l~~~~l  215 (414)
T KOG0531|consen  143 KELNL-SGNLISDI--SGLESLKSLKLLDLSYNRIV-DIENDE-LSELISLEELDLGGNSIRE--IEGLDLLKKLVLLSL  215 (414)
T ss_pred             hhhee-ccCcchhc--cCCccchhhhcccCCcchhh-hhhhhh-hhhccchHHHhccCCchhc--ccchHHHHHHHHhhc
Confidence            99999 88888754  44566889999999999987 4443 2 3678899999999998864  333444455556688


Q ss_pred             cCCcCCccCChhhhccCCC--ccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCC
Q 042011          161 SNNNFRCHIPVEIGDILPS--LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNS  238 (361)
Q Consensus       161 ~~n~l~~~~~~~~~~~l~~--L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~  238 (361)
                      ..|.++ .+.... . ++.  |+.+++++|.+. ..+..+..+..+..+++..|.+. .....  ...+.+..+....+.
T Consensus       216 ~~n~i~-~~~~l~-~-~~~~~L~~l~l~~n~i~-~~~~~~~~~~~l~~l~~~~n~~~-~~~~~--~~~~~~~~~~~~~~~  288 (414)
T KOG0531|consen  216 LDNKIS-KLEGLN-E-LVMLHLRELYLSGNRIS-RSPEGLENLKNLPVLDLSSNRIS-NLEGL--ERLPKLSELWLNDNK  288 (414)
T ss_pred             ccccce-eccCcc-c-chhHHHHHHhcccCccc-cccccccccccccccchhhcccc-ccccc--cccchHHHhccCcch
Confidence            888887 432211 1 233  889999999887 44466777888889999988887 33221  135556666677776


Q ss_pred             CCCc---ccc-cccCCCCCCEEeccCCcCCccc
Q 042011          239 LEGH---MFS-RNFNLTNLEWLQLGGNRFVGEI  267 (361)
Q Consensus       239 l~~~---~~~-~~~~~~~L~~L~L~~n~l~~~~  267 (361)
                      +...   ... .....+.++...+..|.+....
T Consensus       289 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  321 (414)
T KOG0531|consen  289 LALSEAISQEYITSAAPTLVTLTLELNPIRKIS  321 (414)
T ss_pred             hcchhhhhccccccccccccccccccCcccccc
Confidence            5521   111 1445677888888888776543

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.83  E-value=3.4e-09  Score=105.63  Aligned_cols=125  Identities=22%  Similarity=0.234  Sum_probs=67.7

Q ss_pred             CeEeCCCccccCcCChhhhhccCCCCeEeCcCCc--ccccCCcccccCCCCCcEEEccCCCcccccccccccccCccccc
Q 042011            5 RILDVSSNQLTGSISSSPLVHLTSIEELMLSNNH--FQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLN   82 (361)
Q Consensus         5 ~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~--l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~   82 (361)
                      +...+-+|.+. .++.  -..+++|++|-+.+|.  +. .++.+.|..++.|++|||++|.--+..|..   ...+-+|+
T Consensus       526 rr~s~~~~~~~-~~~~--~~~~~~L~tLll~~n~~~l~-~is~~ff~~m~~LrVLDLs~~~~l~~LP~~---I~~Li~Lr  598 (889)
T KOG4658|consen  526 RRMSLMNNKIE-HIAG--SSENPKLRTLLLQRNSDWLL-EISGEFFRSLPLLRVLDLSGNSSLSKLPSS---IGELVHLR  598 (889)
T ss_pred             eEEEEeccchh-hccC--CCCCCccceEEEeecchhhh-hcCHHHHhhCcceEEEECCCCCccCcCChH---Hhhhhhhh
Confidence            44445555554 4443  2234456666666664  33 444344666666777777665543344443   23333666


Q ss_pred             EEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCC
Q 042011           83 SLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVND  139 (361)
Q Consensus        83 ~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n  139 (361)
                      +|++ ....+. ..|..+..++.|.+|++..+.....++ .....+++|++|.+...
T Consensus       599 yL~L-~~t~I~-~LP~~l~~Lk~L~~Lnl~~~~~l~~~~-~i~~~L~~Lr~L~l~~s  652 (889)
T KOG4658|consen  599 YLDL-SDTGIS-HLPSGLGNLKKLIYLNLEVTGRLESIP-GILLELQSLRVLRLPRS  652 (889)
T ss_pred             cccc-cCCCcc-ccchHHHHHHhhheecccccccccccc-chhhhcccccEEEeecc
Confidence            6666 655555 456666666666666666655432332 22455666666666543

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

Probab=98.82  E-value=1.4e-10  Score=108.41  Aligned_cols=130  Identities=25%  Similarity=0.240  Sum_probs=90.4

Q ss_pred             CccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEec
Q 042011          179 SLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQL  258 (361)
Q Consensus       179 ~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L  258 (361)
                      .|...+.+.|.+. .+...+.-++.++.|++++|++. .+. .+. .++.|++||+++|++.........++. |..|.+
T Consensus       165 ~L~~a~fsyN~L~-~mD~SLqll~ale~LnLshNk~~-~v~-~Lr-~l~~LkhLDlsyN~L~~vp~l~~~gc~-L~~L~l  239 (1096)
T KOG1859|consen  165 KLATASFSYNRLV-LMDESLQLLPALESLNLSHNKFT-KVD-NLR-RLPKLKHLDLSYNCLRHVPQLSMVGCK-LQLLNL  239 (1096)
T ss_pred             hHhhhhcchhhHH-hHHHHHHHHHHhhhhccchhhhh-hhH-HHH-hcccccccccccchhccccccchhhhh-heeeee
Confidence            5667777777776 55666777788888888888887 444 333 688888888888888764333333444 888888


Q ss_pred             cCCcCCccchhhhhcCCCCCEEECcCCcccccCC-CCCCCcCcceeeccccccccCCc
Q 042011          259 GGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVN-VPSSPANTLFNLSQNSRRFTSSI  315 (361)
Q Consensus       259 ~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~-~~~~~~~~L~~l~l~~N~~~~~~  315 (361)
                      ++|.++..  ..+.++.+|+.||++.|-+.+-.. ..+..+..|..|.|.||++.|..
T Consensus       240 rnN~l~tL--~gie~LksL~~LDlsyNll~~hseL~pLwsLs~L~~L~LeGNPl~c~p  295 (1096)
T KOG1859|consen  240 RNNALTTL--RGIENLKSLYGLDLSYNLLSEHSELEPLWSLSSLIVLWLEGNPLCCAP  295 (1096)
T ss_pred             cccHHHhh--hhHHhhhhhhccchhHhhhhcchhhhHHHHHHHHHHHhhcCCccccCH
Confidence            88887733  446777888888888887765221 23456677888888888887643

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.78  E-value=7.6e-09  Score=103.19  Aligned_cols=269  Identities=20%  Similarity=0.152  Sum_probs=153.9

Q ss_pred             CCCCeEeCCCcc--ccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcc
Q 042011            2 TSLRILDVSSNQ--LTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNF   79 (361)
Q Consensus         2 ~~L~~L~L~~n~--i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~   79 (361)
                      +.|++|-+..|.  +. .++...|..++.|+.|||++|.--+.+| ..+..+-+||+|+++++.+.. .|..   +..+.
T Consensus       545 ~~L~tLll~~n~~~l~-~is~~ff~~m~~LrVLDLs~~~~l~~LP-~~I~~Li~LryL~L~~t~I~~-LP~~---l~~Lk  618 (889)
T KOG4658|consen  545 PKLRTLLLQRNSDWLL-EISGEFFRSLPLLRVLDLSGNSSLSKLP-SSIGELVHLRYLDLSDTGISH-LPSG---LGNLK  618 (889)
T ss_pred             CccceEEEeecchhhh-hcCHHHHhhCcceEEEECCCCCccCcCC-hHHhhhhhhhcccccCCCccc-cchH---HHHHH
Confidence            568888888886  55 7777678999999999999886555788 688999999999999999873 3333   56666


Q ss_pred             cccEEeccCCCCCCCCCchhhcCCCCccEEEecCCccc--CCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcC-
Q 042011           80 QLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMN--GEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLE-  156 (361)
Q Consensus        80 ~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~--~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~-  156 (361)
                      .|.+|++ .........+.....+++|++|.+..-...  ...-.. +..+..|+.+.......  ..-..+..+..|. 
T Consensus       619 ~L~~Lnl-~~~~~l~~~~~i~~~L~~Lr~L~l~~s~~~~~~~~l~e-l~~Le~L~~ls~~~~s~--~~~e~l~~~~~L~~  694 (889)
T KOG4658|consen  619 KLIYLNL-EVTGRLESIPGILLELQSLRVLRLPRSALSNDKLLLKE-LENLEHLENLSITISSV--LLLEDLLGMTRLRS  694 (889)
T ss_pred             hhheecc-ccccccccccchhhhcccccEEEeeccccccchhhHHh-hhcccchhhheeecchh--HhHhhhhhhHHHHH
Confidence            9999999 655544445667777999999998775422  111111 34455555555533322  0111122222222 


Q ss_pred             ---EEEccCCcCCccCChhhhccCCCccEEEecCCccccccCcccc-----C-CCCCCEEeccCCcCccccchhhhhCCC
Q 042011          157 ---FLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFG-----N-MNFLRVLDLSNNQLTGEIPEHLAVGCV  227 (361)
Q Consensus       157 ---~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~-----~-~~~L~~L~l~~n~l~~~~~~~~~~~~~  227 (361)
                         .+.+.++... ..+..... +.+|+.|.+.++.+.........     . ++++..+...++..-.......  ..+
T Consensus       695 ~~~~l~~~~~~~~-~~~~~~~~-l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~~~~~~r~l~~~~--f~~  770 (889)
T KOG4658|consen  695 LLQSLSIEGCSKR-TLISSLGS-LGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSILNCHMLRDLTWLL--FAP  770 (889)
T ss_pred             HhHhhhhcccccc-eeeccccc-ccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhhccccccccchhh--ccC
Confidence               2332233322 23333333 67888888888777522211111     1 2233333333332221221222  367


Q ss_pred             CCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCcc-chhhhhcCCCCCEEECcC
Q 042011          228 NLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGE-IPQSLSKCSSLEGLYLNN  284 (361)
Q Consensus       228 ~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L~l~~  284 (361)
                      +|+.|.+..++..+.+.+....+..++.+.+..+.+.+. .-...++++++..+.+..
T Consensus       771 ~L~~l~l~~~~~~e~~i~~~k~~~~l~~~i~~f~~~~~l~~~~~l~~l~~i~~~~l~~  828 (889)
T KOG4658|consen  771 HLTSLSLVSCRLLEDIIPKLKALLELKELILPFNKLEGLRMLCSLGGLPQLYWLPLSF  828 (889)
T ss_pred             cccEEEEecccccccCCCHHHHhhhcccEEecccccccceeeecCCCCceeEecccCc
Confidence            788888877766555555555555555555555555543 233344444444444443

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

Probab=98.76  E-value=2.1e-10  Score=96.59  Aligned_cols=176  Identities=20%  Similarity=0.123  Sum_probs=89.5

Q ss_pred             CCcEEEecCCcccC-CCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCc-ccc-ccCccccCCCCCCE
Q 042011          130 KLETLFLVNDSLTG-PFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNA-LDG-SIPSSFGNMNFLRV  206 (361)
Q Consensus       130 ~L~~L~l~~n~l~~-~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~-l~~-~~~~~l~~~~~L~~  206 (361)
                      .++++|++...++. ..-..+..+.+|+.|.+.++++.+.+...+.. -.+|+.++++++. ++. ...-.+..+..|..
T Consensus       186 Rlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAk-N~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~  264 (419)
T KOG2120|consen  186 RLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAK-NSNLVRLNLSMCSGFTENALQLLLSSCSRLDE  264 (419)
T ss_pred             hhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhc-cccceeeccccccccchhHHHHHHHhhhhHhh
Confidence            45666666555442 11122344455666666666665555444444 3556666666543 221 11123455666666


Q ss_pred             EeccCCcCccccch-hhhhCCCCCcEEEeecCCCC---CcccccccCCCCCCEEeccCC-cCCccchhhhhcCCCCCEEE
Q 042011          207 LDLSNNQLTGEIPE-HLAVGCVNLESLALSNNSLE---GHMFSRNFNLTNLEWLQLGGN-RFVGEIPQSLSKCSSLEGLY  281 (361)
Q Consensus       207 L~l~~n~l~~~~~~-~~~~~~~~L~~L~L~~n~l~---~~~~~~~~~~~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~  281 (361)
                      |++++|.+..+... .+..--++|+.|+++++.-.   .....-...+++|.+|||+.| .++.....+|.+++-|++|.
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            66666655422211 11112345666666665311   112222345667777777665 34433445566667777777


Q ss_pred             CcCCcccccCCCC---CCCcCcceeecccc
Q 042011          282 LNNNSLSGNVNVP---SSPANTLFNLSQNS  308 (361)
Q Consensus       282 l~~N~l~~~~~~~---~~~~~~L~~l~l~~  308 (361)
                      ++.|..  .+|+.   +...++|.+|++.|
T Consensus       345 lsRCY~--i~p~~~~~l~s~psl~yLdv~g  372 (419)
T KOG2120|consen  345 LSRCYD--IIPETLLELNSKPSLVYLDVFG  372 (419)
T ss_pred             hhhhcC--CChHHeeeeccCcceEEEEecc
Confidence            776643  34443   35556777776665

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

Probab=98.73  E-value=4.7e-10  Score=83.81  Aligned_cols=133  Identities=17%  Similarity=0.203  Sum_probs=103.4

Q ss_pred             CccEEEecCCccccccCcc---ccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCE
Q 042011          179 SLKFFNISMNALDGSIPSS---FGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEW  255 (361)
Q Consensus       179 ~L~~L~L~~n~l~~~~~~~---l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~  255 (361)
                      .+..++|+.|.+. .+++.   +.....|+..++++|.+. ..|..+....+..+.+++++|.+.+ .|..+..++.|+.
T Consensus        28 E~h~ldLssc~lm-~i~davy~l~~~~el~~i~ls~N~fk-~fp~kft~kf~t~t~lNl~~neisd-vPeE~Aam~aLr~  104 (177)
T KOG4579|consen   28 ELHFLDLSSCQLM-YIADAVYMLSKGYELTKISLSDNGFK-KFPKKFTIKFPTATTLNLANNEISD-VPEELAAMPALRS  104 (177)
T ss_pred             Hhhhcccccchhh-HHHHHHHHHhCCceEEEEecccchhh-hCCHHHhhccchhhhhhcchhhhhh-chHHHhhhHHhhh
Confidence            4567788888775 44443   344556777899999998 8888887778899999999999988 5667999999999


Q ss_pred             EeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcc
Q 042011          256 LQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSIS  316 (361)
Q Consensus       256 L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~  316 (361)
                      |+++.|++. ..|..+..+.++-.||..+|++. ++|..+......-...+.++++.+.++
T Consensus       105 lNl~~N~l~-~~p~vi~~L~~l~~Lds~~na~~-eid~dl~~s~~~al~~lgnepl~~~~~  163 (177)
T KOG4579|consen  105 LNLRFNPLN-AEPRVIAPLIKLDMLDSPENARA-EIDVDLFYSSLPALIKLGNEPLGDETK  163 (177)
T ss_pred             cccccCccc-cchHHHHHHHhHHHhcCCCCccc-cCcHHHhccccHHHHHhcCCcccccCc
Confidence            999999998 67888888999999999999987 455555444444555667788887665

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

Probab=98.71  E-value=2.4e-10  Score=96.32  Aligned_cols=203  Identities=21%  Similarity=0.107  Sum_probs=133.4

Q ss_pred             CCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCC-chhhcCCCCc
Q 042011           28 SIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIF-PKFLYHQHDL  106 (361)
Q Consensus        28 ~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~~~l~~l~~L  106 (361)
                      .||++|||+..|+-+--...+..|.+|+.|.+.++++.+.+...   +....+|+.++++..++++... .-.++.|+.|
T Consensus       186 Rlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~---iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L  262 (419)
T KOG2120|consen  186 RLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNT---IAKNSNLVRLNLSMCSGFTENALQLLLSSCSRL  262 (419)
T ss_pred             hhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHH---HhccccceeeccccccccchhHHHHHHHhhhhH
Confidence            58888888877762222234677888888888888887655443   4556688888887777776543 2346789999


Q ss_pred             cEEEecCCcccCCcCh-HHHhcCCCCcEEEecCCccc---CCCCCCcCCCCCcCEEEccCCc-CCccCChhhhccCCCcc
Q 042011          107 ALVDLSHIKMNGEFPT-WLLENNTKLETLFLVNDSLT---GPFRLPIHSHRWLEFLDISNNN-FRCHIPVEIGDILPSLK  181 (361)
Q Consensus       107 ~~L~l~~n~l~~~~~~-~~~~~~~~L~~L~l~~n~l~---~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~~l~~L~  181 (361)
                      +.|++++|.+....-. .+-.--++|+.|+++++.-.   ..+..-...++++.+||++.+. ++...-..++. ++.|+
T Consensus       263 ~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~k-f~~L~  341 (419)
T KOG2120|consen  263 DELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFK-FNYLQ  341 (419)
T ss_pred             hhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccCchHHHHHHh-cchhe
Confidence            9999999987643322 22233468889999886421   1122223577899999999864 55333445555 89999


Q ss_pred             EEEecCCccccccCc---cccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecC
Q 042011          182 FFNISMNALDGSIPS---SFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN  237 (361)
Q Consensus       182 ~L~L~~n~l~~~~~~---~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n  237 (361)
                      +|.++.|..  .+|.   .+...|+|.+|++-++--.+.. +.+...+++|+.-.-..|
T Consensus       342 ~lSlsRCY~--i~p~~~~~l~s~psl~yLdv~g~vsdt~m-el~~e~~~~lkin~q~~~  397 (419)
T KOG2120|consen  342 HLSLSRCYD--IIPETLLELNSKPSLVYLDVFGCVSDTTM-ELLKEMLSHLKINCQHFN  397 (419)
T ss_pred             eeehhhhcC--CChHHeeeeccCcceEEEEeccccCchHH-HHHHHhCccccccceeee
Confidence            999999863  3444   4567899999999876544222 233335666665443333

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

Probab=98.66  E-value=2.8e-09  Score=99.95  Aligned_cols=210  Identities=25%  Similarity=0.298  Sum_probs=137.9

Q ss_pred             cCCCCcEEEecCCcccCCC-CCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccc----------cccC
Q 042011          127 NNTKLETLFLVNDSLTGPF-RLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALD----------GSIP  195 (361)
Q Consensus       127 ~~~~L~~L~l~~n~l~~~~-~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~----------~~~~  195 (361)
                      -+++++.+.+-.-.-.+.. |..+..+.+|+.|.+.++.+. . ...+......|++|- ..|.++          +.+.
T Consensus        82 ~lqkt~~lkl~~~pa~~pt~pi~ifpF~sLr~LElrg~~L~-~-~~GL~~lr~qLe~LI-C~~Sl~Al~~v~ascggd~~  158 (1096)
T KOG1859|consen   82 FLQKTKVLKLLPSPARDPTEPISIFPFRSLRVLELRGCDLS-T-AKGLQELRHQLEKLI-CHNSLDALRHVFASCGGDIS  158 (1096)
T ss_pred             HHhhheeeeecccCCCCCCCCceeccccceeeEEecCcchh-h-hhhhHHHHHhhhhhh-hhccHHHHHHHHHHhccccc
Confidence            3455555555443322222 556667788999999999886 3 122222123455553 233332          1111


Q ss_pred             ccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchh-hhhcC
Q 042011          196 SSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQ-SLSKC  274 (361)
Q Consensus       196 ~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~-~~~~l  274 (361)
                      ..+ ....|.+.+.+.|.+. .++..+. -++.++.|+|++|+++..  ..+..+++|++|||++|++. .+|. ...++
T Consensus       159 ns~-~Wn~L~~a~fsyN~L~-~mD~SLq-ll~ale~LnLshNk~~~v--~~Lr~l~~LkhLDlsyN~L~-~vp~l~~~gc  232 (1096)
T KOG1859|consen  159 NSP-VWNKLATASFSYNRLV-LMDESLQ-LLPALESLNLSHNKFTKV--DNLRRLPKLKHLDLSYNCLR-HVPQLSMVGC  232 (1096)
T ss_pred             cch-hhhhHhhhhcchhhHH-hHHHHHH-HHHHhhhhccchhhhhhh--HHHHhcccccccccccchhc-cccccchhhh
Confidence            111 1235788889999998 7777765 688999999999999874  37889999999999999998 4442 23334


Q ss_pred             CCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcccccccccccchhhhHHHhhccchHHHH-----HHHHHh
Q 042011          275 SSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGICKEYAKEFARNMPRICE-----EYAAYL  349 (361)
Q Consensus       275 ~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~-----~~~~~~  349 (361)
                       +|+.|.+++|.++..-  .+.++.+|..||++.|-+.+.--...+..+..    ...-+-+++|-+|.     +-++|+
T Consensus       233 -~L~~L~lrnN~l~tL~--gie~LksL~~LDlsyNll~~hseL~pLwsLs~----L~~L~LeGNPl~c~p~hRaataqYl  305 (1096)
T KOG1859|consen  233 -KLQLLNLRNNALTTLR--GIENLKSLYGLDLSYNLLSEHSELEPLWSLSS----LIVLWLEGNPLCCAPWHRAATAQYL  305 (1096)
T ss_pred             -hheeeeecccHHHhhh--hHHhhhhhhccchhHhhhhcchhhhHHHHHHH----HHHHhhcCCccccCHHHHHHHHhHh
Confidence             4999999999998643  57889999999999999987544333333322    23445567777673     456777


Q ss_pred             hcc
Q 042011          350 NST  352 (361)
Q Consensus       350 ~~~  352 (361)
                      ...
T Consensus       306 ~~~  308 (1096)
T KOG1859|consen  306 HKN  308 (1096)
T ss_pred             ccc
Confidence            643

>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=4.5e-09  Score=87.65  Aligned_cols=213  Identities=20%  Similarity=0.194  Sum_probs=113.2

Q ss_pred             cCCCCeEeCcCCcccccCCc---ccccCCCCCcEEEccCCCcc---cccc----cccccccCcccccEEeccCCCCCCCC
Q 042011           26 LTSIEELMLSNNHFQIPISL---EPLFNHSRLKIFYADNNELN---AEIT----QSHSLIAPNFQLNSLSLSSDYGDGFI   95 (361)
Q Consensus        26 l~~L~~L~Ls~n~l~~~~~~---~~~~~l~~L~~L~l~~n~~~---~~~~----~~~~~~~~~~~L~~L~l~~~~~~~~~   95 (361)
                      +..+..++||+|.|...-..   ..+.+-.+|+..+++.-...   +..+    .....+..|++|+..+| ++|.+...
T Consensus        29 ~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~L-SDNAfg~~  107 (388)
T COG5238          29 MDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDL-SDNAFGSE  107 (388)
T ss_pred             hcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeec-cccccCcc
Confidence            45666666666665411110   11233345555555542111   0000    11222345556666666 66665554


Q ss_pred             Cch----hhcCCCCccEEEecCCcccCCcCh-----HH--------HhcCCCCcEEEecCCcccCCC----CCCcCCCCC
Q 042011           96 FPK----FLYHQHDLALVDLSHIKMNGEFPT-----WL--------LENNTKLETLFLVNDSLTGPF----RLPIHSHRW  154 (361)
Q Consensus        96 ~~~----~l~~l~~L~~L~l~~n~l~~~~~~-----~~--------~~~~~~L~~L~l~~n~l~~~~----~~~~~~l~~  154 (361)
                      .|.    .++....|.+|.+++|.+. .+..     ++        ..+-|.|+.+....|++..-.    ...+.....
T Consensus       108 ~~e~L~d~is~~t~l~HL~l~NnGlG-p~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRlengs~~~~a~~l~sh~~  186 (388)
T COG5238         108 FPEELGDLISSSTDLVHLKLNNNGLG-PIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENGSKELSAALLESHEN  186 (388)
T ss_pred             cchHHHHHHhcCCCceeEEeecCCCC-ccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhccCcHHHHHHHHHhhcC
Confidence            443    3455677777777777654 2211     11        123466777777777764211    112333356


Q ss_pred             cCEEEccCCcCCccCC-----hhhhccCCCccEEEecCCcccc----ccCccccCCCCCCEEeccCCcCccccchhhhh-
Q 042011          155 LEFLDISNNNFRCHIP-----VEIGDILPSLKFFNISMNALDG----SIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAV-  224 (361)
Q Consensus       155 L~~L~l~~n~l~~~~~-----~~~~~~l~~L~~L~L~~n~l~~----~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~-  224 (361)
                      |+.+.+..|.|...-.     ..++. +.+|+.||+..|.++.    .+...+...+.|++|.+..|-++..-...++. 
T Consensus       187 lk~vki~qNgIrpegv~~L~~~gl~y-~~~LevLDlqDNtft~~gS~~La~al~~W~~lrEL~lnDClls~~G~~~v~~~  265 (388)
T COG5238         187 LKEVKIQQNGIRPEGVTMLAFLGLFY-SHSLEVLDLQDNTFTLEGSRYLADALCEWNLLRELRLNDCLLSNEGVKSVLRR  265 (388)
T ss_pred             ceeEEeeecCcCcchhHHHHHHHHHH-hCcceeeeccccchhhhhHHHHHHHhcccchhhhccccchhhccccHHHHHHH
Confidence            7788888887763211     11222 5678888888887762    22344556667788888888776443333321 


Q ss_pred             ----CCCCCcEEEeecCCCCC
Q 042011          225 ----GCVNLESLALSNNSLEG  241 (361)
Q Consensus       225 ----~~~~L~~L~L~~n~l~~  241 (361)
                          ..|+|..|...+|.+.+
T Consensus       266 f~e~~~p~l~~L~~~Yne~~~  286 (388)
T COG5238         266 FNEKFVPNLMPLPGDYNERRG  286 (388)
T ss_pred             hhhhcCCCccccccchhhhcC
Confidence                35677777777776654

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.59  E-value=4.5e-08  Score=82.83  Aligned_cols=206  Identities=17%  Similarity=0.105  Sum_probs=140.4

Q ss_pred             CCCCccEEEecCCcccCCcC-hHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCc
Q 042011          102 HQHDLALVDLSHIKMNGEFP-TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL  180 (361)
Q Consensus       102 ~l~~L~~L~l~~n~l~~~~~-~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L  180 (361)
                      .++.++.+|+.+|.|++.-. ..+++.+|.|+.|+++.|.+...+...-...++|+.|-+.+..+.+.-.......+|.+
T Consensus        69 ~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~v  148 (418)
T KOG2982|consen   69 SVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLPKV  148 (418)
T ss_pred             HhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcchhh
Confidence            47789999999999884311 23478899999999999998754433224567899999999888766556666668999


Q ss_pred             cEEEecCCccccc--cCccccCC-CCCCEEeccCCcCccccc-hhhhhCCCCCcEEEeecCCCCCc-ccccccCCCCCCE
Q 042011          181 KFFNISMNALDGS--IPSSFGNM-NFLRVLDLSNNQLTGEIP-EHLAVGCVNLESLALSNNSLEGH-MFSRNFNLTNLEW  255 (361)
Q Consensus       181 ~~L~L~~n~l~~~--~~~~l~~~-~~L~~L~l~~n~l~~~~~-~~~~~~~~~L~~L~L~~n~l~~~-~~~~~~~~~~L~~  255 (361)
                      ++|.++.|++...  ........ +.++++....|....... -.+.+.+|++..+-+..|.+... ....+...+.+..
T Consensus       149 telHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~~w~~~~~l~r~Fpnv~sv~v~e~PlK~~s~ek~se~~p~~~~  228 (418)
T KOG2982|consen  149 TELHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQLWLNKNKLSRIFPNVNSVFVCEGPLKTESSEKGSEPFPSLSC  228 (418)
T ss_pred             hhhhhccchhhhhccccccccccchhhhhhhcCCcHHHHHHHHHhHHhhcccchheeeecCcccchhhcccCCCCCcchh
Confidence            9999999965411  11112222 356677766665431111 12233578888888999877653 2334556677889


Q ss_pred             EeccCCcCCccc-hhhhhcCCCCCEEECcCCcccccCCCC------CCCcCcceeeccc
Q 042011          256 LQLGGNRFVGEI-PQSLSKCSSLEGLYLNNNSLSGNVNVP------SSPANTLFNLSQN  307 (361)
Q Consensus       256 L~L~~n~l~~~~-~~~~~~l~~L~~L~l~~N~l~~~~~~~------~~~~~~L~~l~l~  307 (361)
                      |+|+.|+|.+.. .+++.++++|..|.+++|.+.+.....      ++.+++++.|+-+
T Consensus       229 LnL~~~~idswasvD~Ln~f~~l~dlRv~~~Pl~d~l~~~err~llIaRL~~v~vLNGs  287 (418)
T KOG2982|consen  229 LNLGANNIDSWASVDALNGFPQLVDLRVSENPLSDPLRGGERRFLLIARLTKVQVLNGS  287 (418)
T ss_pred             hhhcccccccHHHHHHHcCCchhheeeccCCcccccccCCcceEEEEeeccceEEecCc
Confidence            999999998542 367888899999999999987644321      3566777766544

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

Probab=98.53  E-value=5.5e-09  Score=78.21  Aligned_cols=113  Identities=22%  Similarity=0.331  Sum_probs=53.3

Q ss_pred             CccEEEecCCcccCCcChHH--HhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccE
Q 042011          105 DLALVDLSHIKMNGEFPTWL--LENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKF  182 (361)
Q Consensus       105 ~L~~L~l~~n~l~~~~~~~~--~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~  182 (361)
                      .+..++++.|.+. .+++..  +.+...|+..++++|.+....+.....++.++.+++++|.++ .+|.++.. +|.|+.
T Consensus        28 E~h~ldLssc~lm-~i~davy~l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neis-dvPeE~Aa-m~aLr~  104 (177)
T KOG4579|consen   28 ELHFLDLSSCQLM-YIADAVYMLSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEIS-DVPEELAA-MPALRS  104 (177)
T ss_pred             Hhhhcccccchhh-HHHHHHHHHhCCceEEEEecccchhhhCCHHHhhccchhhhhhcchhhhh-hchHHHhh-hHHhhh
Confidence            3444555555543 333321  223334444455555554322222223334555555555555 55555433 555555


Q ss_pred             EEecCCccccccCccccCCCCCCEEeccCCcCccccchhh
Q 042011          183 FNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHL  222 (361)
Q Consensus       183 L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~  222 (361)
                      |+++.|.+. ..|..+..+.++-.|+..+|.+. ++|..+
T Consensus       105 lNl~~N~l~-~~p~vi~~L~~l~~Lds~~na~~-eid~dl  142 (177)
T KOG4579|consen  105 LNLRFNPLN-AEPRVIAPLIKLDMLDSPENARA-EIDVDL  142 (177)
T ss_pred             cccccCccc-cchHHHHHHHhHHHhcCCCCccc-cCcHHH
Confidence            555555555 44444444555555555555554 555443

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

Probab=98.48  E-value=5.9e-08  Score=81.12  Aligned_cols=253  Identities=23%  Similarity=0.170  Sum_probs=126.4

Q ss_pred             cccCCCCCcEEEccCCCccccccccccc-ccCcccccEEeccCCCCCC---CC-------CchhhcCCCCccEEEecCCc
Q 042011           47 PLFNHSRLKIFYADNNELNAEITQSHSL-IAPNFQLNSLSLSSDYGDG---FI-------FPKFLYHQHDLALVDLSHIK  115 (361)
Q Consensus        47 ~~~~l~~L~~L~l~~n~~~~~~~~~~~~-~~~~~~L~~L~l~~~~~~~---~~-------~~~~l~~l~~L~~L~l~~n~  115 (361)
                      .+..+..+..++||+|.|.......+.. +..-.+|+..++ ++-...   ..       ....+..|+.|++.++|.|.
T Consensus        25 el~~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnf-sd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNA  103 (388)
T COG5238          25 ELEMMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNF-SDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNA  103 (388)
T ss_pred             HHHhhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeeh-hhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccc
Confidence            3455788999999999887543332111 112225555555 332211   11       11234557777777777777


Q ss_pred             ccCCcChH---HHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCcccc
Q 042011          116 MNGEFPTW---LLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDG  192 (361)
Q Consensus       116 l~~~~~~~---~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~  192 (361)
                      +....|..   +.+..+.|++|.+++|.+...--..++  +.|.+  +..|+       ...+ -|.|+.+....|++..
T Consensus       104 fg~~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rig--kal~~--la~nK-------Kaa~-kp~Le~vicgrNRlen  171 (388)
T COG5238         104 FGSEFPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIG--KALFH--LAYNK-------KAAD-KPKLEVVICGRNRLEN  171 (388)
T ss_pred             cCcccchHHHHHHhcCCCceeEEeecCCCCccchhHHH--HHHHH--HHHHh-------hhcc-CCCceEEEeccchhcc
Confidence            66555432   244556677777777655421111010  00000  00000       0011 2445555555555431


Q ss_pred             c----cCccccCCCCCCEEeccCCcCcccc-----chhhhhCCCCCcEEEeecCCCCC----cccccccCCCCCCEEecc
Q 042011          193 S----IPSSFGNMNFLRVLDLSNNQLTGEI-----PEHLAVGCVNLESLALSNNSLEG----HMFSRNFNLTNLEWLQLG  259 (361)
Q Consensus       193 ~----~~~~l~~~~~L~~L~l~~n~l~~~~-----~~~~~~~~~~L~~L~L~~n~l~~----~~~~~~~~~~~L~~L~L~  259 (361)
                      .    ....+..-..|+++.+..|.|.-+-     -..++ -+.+|+.||+..|-++.    .....++.|+.|+.|.+.
T Consensus       172 gs~~~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~-y~~~LevLDlqDNtft~~gS~~La~al~~W~~lrEL~ln  250 (388)
T COG5238         172 GSKELSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLF-YSHSLEVLDLQDNTFTLEGSRYLADALCEWNLLRELRLN  250 (388)
T ss_pred             CcHHHHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHH-HhCcceeeeccccchhhhhHHHHHHHhcccchhhhcccc
Confidence            0    0111222245566666666554211     01122 35566666666665543    233445566667777777


Q ss_pred             CCcCCccchhhh----h--cCCCCCEEECcCCcccccCCCC-----C--CCcCcceeeccccccccC
Q 042011          260 GNRFVGEIPQSL----S--KCSSLEGLYLNNNSLSGNVNVP-----S--SPANTLFNLSQNSRRFTS  313 (361)
Q Consensus       260 ~n~l~~~~~~~~----~--~l~~L~~L~l~~N~l~~~~~~~-----~--~~~~~L~~l~l~~N~~~~  313 (361)
                      .|-++.....++    .  ..|+|+.|-...|.+.+.+...     +  ..++-|..+.++||+|..
T Consensus       251 DClls~~G~~~v~~~f~e~~~p~l~~L~~~Yne~~~~~i~~~~l~~~e~~~~p~L~~le~ngNr~~E  317 (388)
T COG5238         251 DCLLSNEGVKSVLRRFNEKFVPNLMPLPGDYNERRGGIILDISLNEFEQDAVPLLVDLERNGNRIKE  317 (388)
T ss_pred             chhhccccHHHHHHHhhhhcCCCccccccchhhhcCceeeeechhhhhhcccHHHHHHHHccCcchh
Confidence            776664433221    1  1367777777777665432221     1  456778888888888864

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.38  E-value=1.3e-07  Score=80.10  Aligned_cols=64  Identities=19%  Similarity=0.207  Sum_probs=31.3

Q ss_pred             CCCccEEEecCCccccc-cCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCC
Q 042011          177 LPSLKFFNISMNALDGS-IPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE  240 (361)
Q Consensus       177 l~~L~~L~L~~n~l~~~-~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~  240 (361)
                      +|++..+.+..|.+... ....+..+|.+-.|+++.+.+..-..-....+++.|..|.++++.+.
T Consensus       198 Fpnv~sv~v~e~PlK~~s~ek~se~~p~~~~LnL~~~~idswasvD~Ln~f~~l~dlRv~~~Pl~  262 (418)
T KOG2982|consen  198 FPNVNSVFVCEGPLKTESSEKGSEPFPSLSCLNLGANNIDSWASVDALNGFPQLVDLRVSENPLS  262 (418)
T ss_pred             cccchheeeecCcccchhhcccCCCCCcchhhhhcccccccHHHHHHHcCCchhheeeccCCccc
Confidence            45666666666655321 12234444555556666666552211111225566666666666554

>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=98.35  E-value=3.7e-07  Score=55.32  Aligned_cols=37  Identities=41%  Similarity=0.567  Sum_probs=24.4

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ   40 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~   40 (361)
                      ++|++|++++|+|+ .+|. .++++++|++|++++|+++
T Consensus         1 ~~L~~L~l~~N~i~-~l~~-~l~~l~~L~~L~l~~N~i~   37 (44)
T PF12799_consen    1 KNLEELDLSNNQIT-DLPP-ELSNLPNLETLNLSNNPIS   37 (44)
T ss_dssp             TT-SEEEETSSS-S-SHGG-HGTTCTTSSEEEETSSCCS
T ss_pred             CcceEEEccCCCCc-ccCc-hHhCCCCCCEEEecCCCCC
Confidence            46677777777776 6665 5677777777777777766

...

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

Probab=98.28  E-value=1.6e-06  Score=69.58  Aligned_cols=125  Identities=26%  Similarity=0.300  Sum_probs=77.5

Q ss_pred             CEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEee
Q 042011          156 EFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALS  235 (361)
Q Consensus       156 ~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~  235 (361)
                      +++++.+.++. .+. ..+........+|+++|.+. .+ ..|..++.|.+|.+++|+|+ .+...+...+++|..|.+.
T Consensus        22 ~e~~LR~lkip-~ie-nlg~~~d~~d~iDLtdNdl~-~l-~~lp~l~rL~tLll~nNrIt-~I~p~L~~~~p~l~~L~Lt   96 (233)
T KOG1644|consen   22 RELDLRGLKIP-VIE-NLGATLDQFDAIDLTDNDLR-KL-DNLPHLPRLHTLLLNNNRIT-RIDPDLDTFLPNLKTLILT   96 (233)
T ss_pred             ccccccccccc-chh-hccccccccceecccccchh-hc-ccCCCccccceEEecCCcce-eeccchhhhccccceEEec
Confidence            44555555543 222 23333456677777777775 22 24566777777777777777 6666666667777777777


Q ss_pred             cCCCCCc-ccccccCCCCCCEEeccCCcCCccc---hhhhhcCCCCCEEECcCC
Q 042011          236 NNSLEGH-MFSRNFNLTNLEWLQLGGNRFVGEI---PQSLSKCSSLEGLYLNNN  285 (361)
Q Consensus       236 ~n~l~~~-~~~~~~~~~~L~~L~L~~n~l~~~~---~~~~~~l~~L~~L~l~~N  285 (361)
                      +|++... ....+..+++|+.|.+-+|+++..-   .-.+..+|+|+.||.++=
T Consensus        97 nNsi~~l~dl~pLa~~p~L~~Ltll~Npv~~k~~YR~yvl~klp~l~~LDF~kV  150 (233)
T KOG1644|consen   97 NNSIQELGDLDPLASCPKLEYLTLLGNPVEHKKNYRLYVLYKLPSLRTLDFQKV  150 (233)
T ss_pred             CcchhhhhhcchhccCCccceeeecCCchhcccCceeEEEEecCcceEeehhhh
Confidence            7777642 2234556777777777777766421   133555677777777653

>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=98.21  E-value=1.8e-06  Score=52.28  Aligned_cols=37  Identities=43%  Similarity=0.632  Sum_probs=20.8

Q ss_pred             CCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccc
Q 042011          252 NLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG  289 (361)
Q Consensus       252 ~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~  289 (361)
                      +|++|++++|+|+ .+|..++++++|+.|++++|+|++
T Consensus         2 ~L~~L~l~~N~i~-~l~~~l~~l~~L~~L~l~~N~i~~   38 (44)
T PF12799_consen    2 NLEELDLSNNQIT-DLPPELSNLPNLETLNLSNNPISD   38 (44)
T ss_dssp             T-SEEEETSSS-S-SHGGHGTTCTTSSEEEETSSCCSB
T ss_pred             cceEEEccCCCCc-ccCchHhCCCCCCEEEecCCCCCC
Confidence            4566666666666 344445666666666666666653

...

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

Probab=98.12  E-value=8.6e-06  Score=62.58  Aligned_cols=37  Identities=16%  Similarity=0.086  Sum_probs=12.5

Q ss_pred             CCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEe
Q 042011          147 LPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNI  185 (361)
Q Consensus       147 ~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L  185 (361)
                      ..|..+++++.+.+.++ +. .++...+..+++++.+.+
T Consensus        29 ~~F~~~~~l~~i~~~~~-~~-~i~~~~F~~~~~l~~i~~   65 (129)
T PF13306_consen   29 NAFSNCTSLKSINFPNN-LT-SIGDNAFSNCKSLESITF   65 (129)
T ss_dssp             TTTTT-TT-SEEEESST-TS-CE-TTTTTT-TT-EEEEE
T ss_pred             hhccccccccccccccc-cc-ccceeeeecccccccccc
Confidence            33444444444444332 32 333333333334444444

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

Probab=98.09  E-value=4.4e-06  Score=67.07  Aligned_cols=124  Identities=19%  Similarity=0.205  Sum_probs=63.2

Q ss_pred             CeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEE
Q 042011            5 RILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSL   84 (361)
Q Consensus         5 ~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L   84 (361)
                      +.++|.+.++. .+.. .=....+...+||++|.+. .++  .|..+++|.+|.+.+|.|+.+.+..             
T Consensus        22 ~e~~LR~lkip-~ien-lg~~~d~~d~iDLtdNdl~-~l~--~lp~l~rL~tLll~nNrIt~I~p~L-------------   83 (233)
T KOG1644|consen   22 RELDLRGLKIP-VIEN-LGATLDQFDAIDLTDNDLR-KLD--NLPHLPRLHTLLLNNNRITRIDPDL-------------   83 (233)
T ss_pred             ccccccccccc-chhh-ccccccccceecccccchh-hcc--cCCCccccceEEecCCcceeeccch-------------
Confidence            34555555554 3332 1122456667777777665 333  4666677777777777666543332             


Q ss_pred             eccCCCCCCCCCchhhcCCCCccEEEecCCcccC--CcChHHHhcCCCCcEEEecCCcccCCC---CCCcCCCCCcCEEE
Q 042011           85 SLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG--EFPTWLLENNTKLETLFLVNDSLTGPF---RLPIHSHRWLEFLD  159 (361)
Q Consensus        85 ~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~--~~~~~~~~~~~~L~~L~l~~n~l~~~~---~~~~~~l~~L~~L~  159 (361)
                                     -..++.|+.|.+.+|.|..  .+..  +..+++|++|.+-+|.++..-   ...+..+|+|+.||
T Consensus        84 ---------------~~~~p~l~~L~LtnNsi~~l~dl~p--La~~p~L~~Ltll~Npv~~k~~YR~yvl~klp~l~~LD  146 (233)
T KOG1644|consen   84 ---------------DTFLPNLKTLILTNNSIQELGDLDP--LASCPKLEYLTLLGNPVEHKKNYRLYVLYKLPSLRTLD  146 (233)
T ss_pred             ---------------hhhccccceEEecCcchhhhhhcch--hccCCccceeeecCCchhcccCceeEEEEecCcceEee
Confidence                           2223445555555554431  1111  334555666666555544211   12345566677776


Q ss_pred             ccCC
Q 042011          160 ISNN  163 (361)
Q Consensus       160 l~~n  163 (361)
                      +..-
T Consensus       147 F~kV  150 (233)
T KOG1644|consen  147 FQKV  150 (233)
T ss_pred             hhhh
Confidence            6543

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

Probab=98.08  E-value=1.8e-07  Score=82.65  Aligned_cols=110  Identities=25%  Similarity=0.190  Sum_probs=46.3

Q ss_pred             CCCCCCEEeccCCc-CccccchhhhhCCCCCcEEEeecCCCCC--cccccccCCCCCCEEeccCCcCC-ccc----hhhh
Q 042011          200 NMNFLRVLDLSNNQ-LTGEIPEHLAVGCVNLESLALSNNSLEG--HMFSRNFNLTNLEWLQLGGNRFV-GEI----PQSL  271 (361)
Q Consensus       200 ~~~~L~~L~l~~n~-l~~~~~~~~~~~~~~L~~L~L~~n~l~~--~~~~~~~~~~~L~~L~L~~n~l~-~~~----~~~~  271 (361)
                      ++++|+.+.+++++ +++.--..+..+++.|+.+++..+....  .....-.+++.|+.+.++++... +..    ...-
T Consensus       318 ~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~sls~~C~~lr~lslshce~itD~gi~~l~~~~  397 (483)
T KOG4341|consen  318 HCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDGTLASLSRNCPRLRVLSLSHCELITDEGIRHLSSSS  397 (483)
T ss_pred             CCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhhhHhhhccCCchhccCChhhhhhhhhhhhhhhhhcc
Confidence            34555555555553 2211122333345555555555543221  12222234555555555555322 110    1111


Q ss_pred             hcCCCCCEEECcCCcccc-cCCCCCCCcCcceeeccccc
Q 042011          272 SKCSSLEGLYLNNNSLSG-NVNVPSSPANTLFNLSQNSR  309 (361)
Q Consensus       272 ~~l~~L~~L~l~~N~l~~-~~~~~~~~~~~L~~l~l~~N  309 (361)
                      .....|+.+.++++.... ..-+.+..++.|+++++.+.
T Consensus       398 c~~~~l~~lEL~n~p~i~d~~Le~l~~c~~Leri~l~~~  436 (483)
T KOG4341|consen  398 CSLEGLEVLELDNCPLITDATLEHLSICRNLERIELIDC  436 (483)
T ss_pred             ccccccceeeecCCCCchHHHHHHHhhCcccceeeeech
Confidence            223455555555554322 22223344555555555543

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.05  E-value=3.2e-05  Score=70.10  Aligned_cols=136  Identities=18%  Similarity=0.175  Sum_probs=74.1

Q ss_pred             hcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCC-cCCccCChhhhccCC
Q 042011          100 LYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNN-NFRCHIPVEIGDILP  178 (361)
Q Consensus       100 l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~~l~  178 (361)
                      +..+.+++.|++++|.++ .+|.    -.++|++|.+++|.--...|..+  .++|++|++++| .+. .+|       +
T Consensus        48 ~~~~~~l~~L~Is~c~L~-sLP~----LP~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~-sLP-------~  112 (426)
T PRK15386         48 IEEARASGRLYIKDCDIE-SLPV----LPNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEIS-GLP-------E  112 (426)
T ss_pred             HHHhcCCCEEEeCCCCCc-ccCC----CCCCCcEEEccCCCCcccCCchh--hhhhhheEccCccccc-ccc-------c
Confidence            445678888888888776 6662    13468888887744323344433  246777887776 443 333       3


Q ss_pred             CccEEEecCCccccccCccccCC-CCCCEEeccCCcCc--cccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCE
Q 042011          179 SLKFFNISMNALDGSIPSSFGNM-NFLRVLDLSNNQLT--GEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEW  255 (361)
Q Consensus       179 ~L~~L~L~~n~l~~~~~~~l~~~-~~L~~L~l~~n~l~--~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~  255 (361)
                      +|+.|+++.+... .    +..+ ++|+.|.+.++...  ..+|. .  -.++|++|++++|.... .|..+  ..+|+.
T Consensus       113 sLe~L~L~~n~~~-~----L~~LPssLk~L~I~~~n~~~~~~lp~-~--LPsSLk~L~Is~c~~i~-LP~~L--P~SLk~  181 (426)
T PRK15386        113 SVRSLEIKGSATD-S----IKNVPNGLTSLSINSYNPENQARIDN-L--ISPSLKTLSLTGCSNII-LPEKL--PESLQS  181 (426)
T ss_pred             ccceEEeCCCCCc-c----cccCcchHhheecccccccccccccc-c--cCCcccEEEecCCCccc-Ccccc--cccCcE
Confidence            5666777655443 1    1122 24566666433211  01121 0  23567777777766543 23322  256777


Q ss_pred             EeccCC
Q 042011          256 LQLGGN  261 (361)
Q Consensus       256 L~L~~n  261 (361)
                      |+++.+
T Consensus       182 L~ls~n  187 (426)
T PRK15386        182 ITLHIE  187 (426)
T ss_pred             EEeccc
Confidence            777665

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

Probab=98.04  E-value=2e-06  Score=83.96  Aligned_cols=151  Identities=21%  Similarity=0.189  Sum_probs=96.3

Q ss_pred             cccEEeccCCCCCCCCCchhhc-CCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEE
Q 042011           80 QLNSLSLSSDYGDGFIFPKFLY-HQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFL  158 (361)
Q Consensus        80 ~L~~L~l~~~~~~~~~~~~~l~-~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L  158 (361)
                      +|++|++++...+....+..++ .+|.|++|.+++-.+...-...++.++++|..||+++.+++..  ..+..+++|+.|
T Consensus       123 nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl--~GIS~LknLq~L  200 (699)
T KOG3665|consen  123 NLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNL--SGISRLKNLQVL  200 (699)
T ss_pred             hhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCc--HHHhccccHHHH
Confidence            7888888554444444555554 3788888888887665333334477888888888888887753  567778888888


Q ss_pred             EccCCcCCc-cCChhhhccCCCccEEEecCCcccccc------CccccCCCCCCEEeccCCcCccccchhhhhCCCCCcE
Q 042011          159 DISNNNFRC-HIPVEIGDILPSLKFFNISMNALDGSI------PSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLES  231 (361)
Q Consensus       159 ~l~~n~l~~-~~~~~~~~~l~~L~~L~L~~n~l~~~~------~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~  231 (361)
                      .+.+=.+.. .--..+|. +.+|+.||+|........      -+.-..+|.|+.||.+++.+...+-+.+...-++|+.
T Consensus       201 ~mrnLe~e~~~~l~~LF~-L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi~~~~le~ll~sH~~L~~  279 (699)
T KOG3665|consen  201 SMRNLEFESYQDLIDLFN-LKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDINEEILEELLNSHPNLQQ  279 (699)
T ss_pred             hccCCCCCchhhHHHHhc-ccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcchhHHHHHHHHHhCccHhh
Confidence            777766552 11235666 788888888876543111      1122347788888888887775554444434444544


Q ss_pred             EE
Q 042011          232 LA  233 (361)
Q Consensus       232 L~  233 (361)
                      +.
T Consensus       280 i~  281 (699)
T KOG3665|consen  280 IA  281 (699)
T ss_pred             hh
Confidence            43

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

Probab=98.00  E-value=1.9e-05  Score=60.70  Aligned_cols=14  Identities=29%  Similarity=0.207  Sum_probs=5.3

Q ss_pred             cccCCCCCCEEecc
Q 042011          246 RNFNLTNLEWLQLG  259 (361)
Q Consensus       246 ~~~~~~~L~~L~L~  259 (361)
                      .|..++.++.+++.
T Consensus        76 ~F~~~~~l~~i~~~   89 (129)
T PF13306_consen   76 AFSNCTNLKNIDIP   89 (129)
T ss_dssp             TTTT-TTECEEEET
T ss_pred             cccccccccccccC
Confidence            33334444444443

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

Probab=97.99  E-value=9.2e-08  Score=84.51  Aligned_cols=303  Identities=18%  Similarity=0.050  Sum_probs=167.8

Q ss_pred             CCCeEeCCCccccCcCChh-hhhccCCCCeEeCcCCcc-cccCCcccccCCCCCcEEEccCC-CcccccccccccccCcc
Q 042011            3 SLRILDVSSNQLTGSISSS-PLVHLTSIEELMLSNNHF-QIPISLEPLFNHSRLKIFYADNN-ELNAEITQSHSLIAPNF   79 (361)
Q Consensus         3 ~L~~L~L~~n~i~~~i~~~-~~~~l~~L~~L~Ls~n~l-~~~~~~~~~~~l~~L~~L~l~~n-~~~~~~~~~~~~~~~~~   79 (361)
                      .|+.|.+++++=.+.-+-. ....++++++|++.++.- +...-...-..+++|++|++..| .++...-..  ....+.
T Consensus       139 ~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~--la~gC~  216 (483)
T KOG4341|consen  139 FLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKY--LAEGCR  216 (483)
T ss_pred             ccccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHH--HHHhhh
Confidence            3566777766433222211 344677888887777742 21111112245777888888775 333222111  123455


Q ss_pred             cccEEeccCCCCCCCCCc-hhhcCCCCccEEEecCCc-ccCCcChHHHhcCCCCcEEEecCCc-ccCCC-CCCcCCCCCc
Q 042011           80 QLNSLSLSSDYGDGFIFP-KFLYHQHDLALVDLSHIK-MNGEFPTWLLENNTKLETLFLVNDS-LTGPF-RLPIHSHRWL  155 (361)
Q Consensus        80 ~L~~L~l~~~~~~~~~~~-~~l~~l~~L~~L~l~~n~-l~~~~~~~~~~~~~~L~~L~l~~n~-l~~~~-~~~~~~l~~L  155 (361)
                      +|+++++++...+++... ..+.+++.++.+.+.+|. +....-...-..+..+..+++..|. ++... ...-..+..|
T Consensus       217 kL~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC~e~~le~l~~~~~~~~~i~~lnl~~c~~lTD~~~~~i~~~c~~l  296 (483)
T KOG4341|consen  217 KLKYLNLSWCPQISGNGVQALQRGCKELEKLSLKGCLELELEALLKAAAYCLEILKLNLQHCNQLTDEDLWLIACGCHAL  296 (483)
T ss_pred             hHHHhhhccCchhhcCcchHHhccchhhhhhhhcccccccHHHHHHHhccChHhhccchhhhccccchHHHHHhhhhhHh
Confidence            777777766666665322 234456666666666543 1101111112234456666665553 22211 1111234668


Q ss_pred             CEEEccCCc-CCccCChhhhccCCCccEEEecCCccc-cccCcc-ccCCCCCCEEeccCCcCcccc-chhhhhCCCCCcE
Q 042011          156 EFLDISNNN-FRCHIPVEIGDILPSLKFFNISMNALD-GSIPSS-FGNMNFLRVLDLSNNQLTGEI-PEHLAVGCVNLES  231 (361)
Q Consensus       156 ~~L~l~~n~-l~~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~~-l~~~~~L~~L~l~~n~l~~~~-~~~~~~~~~~L~~  231 (361)
                      +.++.+++. +++..-..+....++|+.+.++.+..- ..-... -.+++.|+.+++.++...... -.....+++.|+.
T Consensus       297 q~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~sls~~C~~lr~  376 (483)
T KOG4341|consen  297 QVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDGTLASLSRNCPRLRV  376 (483)
T ss_pred             hhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhhhHhhhccCCchhcc
Confidence            888887753 333333455666789999999888632 111111 246788999999888654121 1233347889999


Q ss_pred             EEeecCCCC-Cc----ccccccCCCCCCEEeccCCcCC-ccchhhhhcCCCCCEEECcCCcccc-cCCCCC-CCcCccee
Q 042011          232 LALSNNSLE-GH----MFSRNFNLTNLEWLQLGGNRFV-GEIPQSLSKCSSLEGLYLNNNSLSG-NVNVPS-SPANTLFN  303 (361)
Q Consensus       232 L~L~~n~l~-~~----~~~~~~~~~~L~~L~L~~n~l~-~~~~~~~~~l~~L~~L~l~~N~l~~-~~~~~~-~~~~~L~~  303 (361)
                      +.++++... +.    ....-..+..|+.+.+++++.. +...+.+..+++|+.+++-+++-.. .....| ..+++++.
T Consensus       377 lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~Le~l~~c~~Leri~l~~~q~vtk~~i~~~~~~lp~i~v  456 (483)
T KOG4341|consen  377 LSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDATLEHLSICRNLERIELIDCQDVTKEAISRFATHLPNIKV  456 (483)
T ss_pred             CChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHHHHHHHhhCcccceeeeechhhhhhhhhHHHHhhCcccee
Confidence            999988643 21    1223346678999999998654 3445667778999999988876432 211222 45566665


Q ss_pred             eccc
Q 042011          304 LSQN  307 (361)
Q Consensus       304 l~l~  307 (361)
                      .-+-
T Consensus       457 ~a~~  460 (483)
T KOG4341|consen  457 HAYF  460 (483)
T ss_pred             hhhc
Confidence            4443

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

Probab=97.86  E-value=1.1e-05  Score=79.05  Aligned_cols=135  Identities=20%  Similarity=0.241  Sum_probs=73.2

Q ss_pred             CCCcEEEecCCccc-CCCCCCc-CCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCE
Q 042011          129 TKLETLFLVNDSLT-GPFRLPI-HSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRV  206 (361)
Q Consensus       129 ~~L~~L~l~~n~l~-~~~~~~~-~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~  206 (361)
                      .+|++|++++...- ..-+..+ ..+|+|++|.+++-.+...--..++..+|+|..||+|+.+++. + ..++.+++|+.
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~n-l-~GIS~LknLq~  199 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISN-L-SGISRLKNLQV  199 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccC-c-HHHhccccHHH
Confidence            46777777664322 1111111 2457777777776555322122344456777777777777762 2 45666777777


Q ss_pred             EeccCCcCcc-ccchhhhhCCCCCcEEEeecCCCCCcc------cccccCCCCCCEEeccCCcCCcc
Q 042011          207 LDLSNNQLTG-EIPEHLAVGCVNLESLALSNNSLEGHM------FSRNFNLTNLEWLQLGGNRFVGE  266 (361)
Q Consensus       207 L~l~~n~l~~-~~~~~~~~~~~~L~~L~L~~n~l~~~~------~~~~~~~~~L~~L~L~~n~l~~~  266 (361)
                      |.+.+=.+.. ..-..+| .+++|+.||+|........      .+.-..+|.|+.||.+++.+...
T Consensus       200 L~mrnLe~e~~~~l~~LF-~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi~~~  265 (699)
T KOG3665|consen  200 LSMRNLEFESYQDLIDLF-NLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDINEE  265 (699)
T ss_pred             HhccCCCCCchhhHHHHh-cccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcchhHH
Confidence            7766655542 1123445 6777777777765433211      11122456666666666655543

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.81  E-value=0.00014  Score=66.10  Aligned_cols=134  Identities=11%  Similarity=0.119  Sum_probs=66.0

Q ss_pred             hccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCC-CCCCCCchhhcC
Q 042011           24 VHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDY-GDGFIFPKFLYH  102 (361)
Q Consensus        24 ~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~-~~~~~~~~~l~~  102 (361)
                      ..+.++++|++++|.++ .+| .   -..+|++|.+++|.--...+..    . ..+|++|.+ .+| .+. .+|     
T Consensus        49 ~~~~~l~~L~Is~c~L~-sLP-~---LP~sLtsL~Lsnc~nLtsLP~~----L-P~nLe~L~L-s~Cs~L~-sLP-----  111 (426)
T PRK15386         49 EEARASGRLYIKDCDIE-SLP-V---LPNELTEITIENCNNLTTLPGS----I-PEGLEKLTV-CHCPEIS-GLP-----  111 (426)
T ss_pred             HHhcCCCEEEeCCCCCc-ccC-C---CCCCCcEEEccCCCCcccCCch----h-hhhhhheEc-cCccccc-ccc-----
Confidence            34677888888888776 555 1   2345788888775432222221    1 126777777 444 332 222     


Q ss_pred             CCCccEEEecCCccc--CCcChHHHhcCCCCcEEEecCCcccC--CCCCCcCCCCCcCEEEccCCcCCccCChhhhccCC
Q 042011          103 QHDLALVDLSHIKMN--GEFPTWLLENNTKLETLFLVNDSLTG--PFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILP  178 (361)
Q Consensus       103 l~~L~~L~l~~n~l~--~~~~~~~~~~~~~L~~L~l~~n~l~~--~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~  178 (361)
                       ..|+.|+++.+...  ..+|       ++|+.|.+.+++...  ..+..  -.++|++|++++|... ..|..+.   .
T Consensus       112 -~sLe~L~L~~n~~~~L~~LP-------ssLk~L~I~~~n~~~~~~lp~~--LPsSLk~L~Is~c~~i-~LP~~LP---~  177 (426)
T PRK15386        112 -ESVRSLEIKGSATDSIKNVP-------NGLTSLSINSYNPENQARIDNL--ISPSLKTLSLTGCSNI-ILPEKLP---E  177 (426)
T ss_pred             -cccceEEeCCCCCcccccCc-------chHhheeccccccccccccccc--cCCcccEEEecCCCcc-cCccccc---c
Confidence             34566666554432  1222       234455553322110  01100  1135666777666654 4443332   3


Q ss_pred             CccEEEecCC
Q 042011          179 SLKFFNISMN  188 (361)
Q Consensus       179 ~L~~L~L~~n  188 (361)
                      +|+.|+++.+
T Consensus       178 SLk~L~ls~n  187 (426)
T PRK15386        178 SLQSITLHIE  187 (426)
T ss_pred             cCcEEEeccc
Confidence            6666666654

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

Probab=97.34  E-value=7.1e-05  Score=62.74  Aligned_cols=107  Identities=19%  Similarity=0.205  Sum_probs=73.6

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCC--cccccCCcccccCCCCCcEEEccCCCcccccccccccccCcc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNN--HFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNF   79 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n--~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~   79 (361)
                      ..|+.|++.+..++ .+..  |-.+++|++|.+|.|  ++.+.++ .....+++|+++++++|++..  ...+.....+.
T Consensus        43 ~~le~ls~~n~glt-t~~~--~P~Lp~LkkL~lsdn~~~~~~~l~-vl~e~~P~l~~l~ls~Nki~~--lstl~pl~~l~  116 (260)
T KOG2739|consen   43 VELELLSVINVGLT-TLTN--FPKLPKLKKLELSDNYRRVSGGLE-VLAEKAPNLKVLNLSGNKIKD--LSTLRPLKELE  116 (260)
T ss_pred             cchhhhhhhcccee-eccc--CCCcchhhhhcccCCcccccccce-ehhhhCCceeEEeecCCcccc--ccccchhhhhc
Confidence            45677777777776 5544  666889999999999  5554444 245667999999999999874  22223344555


Q ss_pred             cccEEeccCCCCCCCCC---chhhcCCCCccEEEecCCc
Q 042011           80 QLNSLSLSSDYGDGFIF---PKFLYHQHDLALVDLSHIK  115 (361)
Q Consensus        80 ~L~~L~l~~~~~~~~~~---~~~l~~l~~L~~L~l~~n~  115 (361)
                      +|..|++ .+|..+...   ...|.-+++|++||-....
T Consensus       117 nL~~Ldl-~n~~~~~l~dyre~vf~ll~~L~~LD~~dv~  154 (260)
T KOG2739|consen  117 NLKSLDL-FNCSVTNLDDYREKVFLLLPSLKYLDGCDVD  154 (260)
T ss_pred             chhhhhc-ccCCccccccHHHHHHHHhhhhccccccccC
Confidence            7889999 777766521   2346668888888765443

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.31  E-value=1.2e-05  Score=67.76  Aligned_cols=81  Identities=31%  Similarity=0.340  Sum_probs=35.0

Q ss_pred             CccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCc-ccccccCCCCCCEEe
Q 042011          179 SLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGH-MFSRNFNLTNLEWLQ  257 (361)
Q Consensus       179 ~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~-~~~~~~~~~~L~~L~  257 (361)
                      +.+.|+.++|.++. + .....++.|+.|.++-|+|+ .+...  ..|++|++|+|..|.|.+. ....+.++++|+.|.
T Consensus        20 ~vkKLNcwg~~L~D-I-sic~kMp~lEVLsLSvNkIs-sL~pl--~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LW   94 (388)
T KOG2123|consen   20 NVKKLNCWGCGLDD-I-SICEKMPLLEVLSLSVNKIS-SLAPL--QRCTRLKELYLRKNCIESLDELEYLKNLPSLRTLW   94 (388)
T ss_pred             HhhhhcccCCCccH-H-HHHHhcccceeEEeeccccc-cchhH--HHHHHHHHHHHHhcccccHHHHHHHhcCchhhhHh
Confidence            44445555555441 1 12234445555555555554 33221  1344555555555554432 112233445555555


Q ss_pred             ccCCcCC
Q 042011          258 LGGNRFV  264 (361)
Q Consensus       258 L~~n~l~  264 (361)
                      |..|.-.
T Consensus        95 L~ENPCc  101 (388)
T KOG2123|consen   95 LDENPCC  101 (388)
T ss_pred             hccCCcc
Confidence            5544433

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

Probab=97.29  E-value=0.00011  Score=61.71  Aligned_cols=113  Identities=14%  Similarity=0.079  Sum_probs=79.2

Q ss_pred             CChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCC--CcccccccccccccCcccccEEeccCCCCCCCC
Q 042011           18 ISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNN--ELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFI   95 (361)
Q Consensus        18 i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n--~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~   95 (361)
                      +.. ....+..|+.+++.+..++ ++  ..|-.+++|++|.++.|  ++.+.....   ...+.+|+++++ +.|.+...
T Consensus        35 ~~g-l~d~~~~le~ls~~n~glt-t~--~~~P~Lp~LkkL~lsdn~~~~~~~l~vl---~e~~P~l~~l~l-s~Nki~~l  106 (260)
T KOG2739|consen   35 LGG-LTDEFVELELLSVINVGLT-TL--TNFPKLPKLKKLELSDNYRRVSGGLEVL---AEKAPNLKVLNL-SGNKIKDL  106 (260)
T ss_pred             ccc-ccccccchhhhhhhcccee-ec--ccCCCcchhhhhcccCCcccccccceeh---hhhCCceeEEee-cCCccccc
Confidence            554 5667788999999998887 33  36788999999999999  444333322   344479999999 99988742


Q ss_pred             -CchhhcCCCCccEEEecCCcccCC--cChHHHhcCCCCcEEEecC
Q 042011           96 -FPKFLYHQHDLALVDLSHIKMNGE--FPTWLLENNTKLETLFLVN  138 (361)
Q Consensus        96 -~~~~l~~l~~L~~L~l~~n~l~~~--~~~~~~~~~~~L~~L~l~~  138 (361)
                       --..+..+.+|..|++..|..+..  --...|.-+++|++|+-..
T Consensus       107 stl~pl~~l~nL~~Ldl~n~~~~~l~dyre~vf~ll~~L~~LD~~d  152 (260)
T KOG2739|consen  107 STLRPLKELENLKSLDLFNCSVTNLDDYREKVFLLLPSLKYLDGCD  152 (260)
T ss_pred             cccchhhhhcchhhhhcccCCccccccHHHHHHHHhhhhccccccc
Confidence             112355677888999999887631  1123467788888876543

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.28  E-value=1.1e-05  Score=68.12  Aligned_cols=99  Identities=23%  Similarity=0.191  Sum_probs=66.4

Q ss_pred             CCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccccc
Q 042011            3 SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLN   82 (361)
Q Consensus         3 ~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~   82 (361)
                      +.++|+..++.++ +|.-  ..+++.|+.|.||-|.|+ ++.  .+..|++|++|+|..|.|.+...  +..+..+++|+
T Consensus        20 ~vkKLNcwg~~L~-DIsi--c~kMp~lEVLsLSvNkIs-sL~--pl~rCtrLkElYLRkN~I~sldE--L~YLknlpsLr   91 (388)
T KOG2123|consen   20 NVKKLNCWGCGLD-DISI--CEKMPLLEVLSLSVNKIS-SLA--PLQRCTRLKELYLRKNCIESLDE--LEYLKNLPSLR   91 (388)
T ss_pred             HhhhhcccCCCcc-HHHH--HHhcccceeEEeeccccc-cch--hHHHHHHHHHHHHHhcccccHHH--HHHHhcCchhh
Confidence            4577888888887 6653  678888999999988887 443  57888888999988888865322  22245556777


Q ss_pred             EEeccCCCCCCCCCc-----hhhcCCCCccEEE
Q 042011           83 SLSLSSDYGDGFIFP-----KFLYHQHDLALVD  110 (361)
Q Consensus        83 ~L~l~~~~~~~~~~~-----~~l~~l~~L~~L~  110 (361)
                      .|.| ..|.-.+..+     ..+..+++|+.||
T Consensus        92 ~LWL-~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   92 TLWL-DENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             hHhh-ccCCcccccchhHHHHHHHHcccchhcc
Confidence            7777 5444433322     2345566666664

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

Probab=96.94  E-value=9.2e-05  Score=70.39  Aligned_cols=62  Identities=29%  Similarity=0.153  Sum_probs=26.1

Q ss_pred             CCCccEEEecCCc-ccCCcChHHHhcCCCCcEEEecCCc-ccCC-CCCCcCCCCCcCEEEccCCc
Q 042011          103 QHDLALVDLSHIK-MNGEFPTWLLENNTKLETLFLVNDS-LTGP-FRLPIHSHRWLEFLDISNNN  164 (361)
Q Consensus       103 l~~L~~L~l~~n~-l~~~~~~~~~~~~~~L~~L~l~~n~-l~~~-~~~~~~~l~~L~~L~l~~n~  164 (361)
                      +.+|+.|+++++. +++..-..+...+++|++|.+.++. ++.. +......++.|++|+++++.
T Consensus       242 ~~~L~~l~l~~~~~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~  306 (482)
T KOG1947|consen  242 CRKLKSLDLSGCGLVTDIGLSALASRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCH  306 (482)
T ss_pred             cCCcCccchhhhhccCchhHHHHHhhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCc
Confidence            4555555555554 3322222323335555555544443 2211 11112234445555555443

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

Probab=96.59  E-value=0.00023  Score=67.72  Aligned_cols=112  Identities=23%  Similarity=0.101  Sum_probs=49.2

Q ss_pred             CCCccEEEecCCc-ccCCcChHHHhcCCCCcEEEecCC-cccCCC----CCCcCCCCCcCEEEccCCc-CCccCChhhhc
Q 042011          103 QHDLALVDLSHIK-MNGEFPTWLLENNTKLETLFLVND-SLTGPF----RLPIHSHRWLEFLDISNNN-FRCHIPVEIGD  175 (361)
Q Consensus       103 l~~L~~L~l~~n~-l~~~~~~~~~~~~~~L~~L~l~~n-~l~~~~----~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~  175 (361)
                      ++.|+.+.+..+. ++..--..+...++.|+.|+++++ ......    ......+++|+.++++++. +++..-..+..
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~~  266 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALAS  266 (482)
T ss_pred             CchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHHh
Confidence            4555555555543 221111222445556666666542 111100    1122233555666666555 44333333333


Q ss_pred             cCCCccEEEecCCc-cccc-cCccccCCCCCCEEeccCCcC
Q 042011          176 ILPSLKFFNISMNA-LDGS-IPSSFGNMNFLRVLDLSNNQL  214 (361)
Q Consensus       176 ~l~~L~~L~L~~n~-l~~~-~~~~l~~~~~L~~L~l~~n~l  214 (361)
                      .+++|+.|.+.++. ++.. +......++.|++|+++++..
T Consensus       267 ~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~  307 (482)
T KOG1947|consen  267 RCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHG  307 (482)
T ss_pred             hCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCcc
Confidence            35566666655554 3311 122233455566666665543

>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=95.91  E-value=0.0022  Score=32.21  Aligned_cols=16  Identities=63%  Similarity=0.762  Sum_probs=8.5

Q ss_pred             CCeEeCCCccccCcCCh
Q 042011            4 LRILDVSSNQLTGSISS   20 (361)
Q Consensus         4 L~~L~L~~n~i~~~i~~   20 (361)
                      |++||+++|+++ .+|.
T Consensus         2 L~~Ldls~n~l~-~ip~   17 (22)
T PF00560_consen    2 LEYLDLSGNNLT-SIPS   17 (22)
T ss_dssp             ESEEEETSSEES-EEGT
T ss_pred             ccEEECCCCcCE-eCCh
Confidence            455555555555 5554

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 ....

>smart00370 LRR Leucine-rich repeats, outliers

Probab=95.76  E-value=0.0095  Score=31.24  Aligned_cols=23  Identities=39%  Similarity=0.615  Sum_probs=14.8

Q ss_pred             CCCCCeEeCCCccccCcCChhhhh
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLV   24 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~   24 (361)
                      |++|+.|+|++|+|+ .+|...|.
T Consensus         1 L~~L~~L~L~~N~l~-~lp~~~f~   23 (26)
T smart00370        1 LPNLRELDLSNNQLS-SLPPGAFQ   23 (26)
T ss_pred             CCCCCEEECCCCcCC-cCCHHHcc
Confidence            456777777777776 66665553

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

Probab=95.76  E-value=0.0095  Score=31.24  Aligned_cols=23  Identities=39%  Similarity=0.615  Sum_probs=14.8

Q ss_pred             CCCCCeEeCCCccccCcCChhhhh
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLV   24 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~   24 (361)
                      |++|+.|+|++|+|+ .+|...|.
T Consensus         1 L~~L~~L~L~~N~l~-~lp~~~f~   23 (26)
T smart00369        1 LPNLRELDLSNNQLS-SLPPGAFQ   23 (26)
T ss_pred             CCCCCEEECCCCcCC-cCCHHHcc
Confidence            456777777777776 66665553

>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=0.0061  Score=30.57  Aligned_cols=12  Identities=50%  Similarity=0.564  Sum_probs=5.7

Q ss_pred             CCEEECcCCccc
Q 042011          277 LEGLYLNNNSLS  288 (361)
Q Consensus       277 L~~L~l~~N~l~  288 (361)
                      |++||+++|+++
T Consensus         2 L~~Ldls~n~l~   13 (22)
T PF00560_consen    2 LEYLDLSGNNLT   13 (22)
T ss_dssp             ESEEEETSSEES
T ss_pred             ccEEECCCCcCE
Confidence            444444444444

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 ....

>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=95.42  E-value=0.0084  Score=27.92  Aligned_cols=13  Identities=62%  Similarity=0.882  Sum_probs=5.1

Q ss_pred             CCCeEeCCCcccc
Q 042011            3 SLRILDVSSNQLT   15 (361)
Q Consensus         3 ~L~~L~L~~n~i~   15 (361)
                      +|+.|++++|+++
T Consensus         2 ~L~~L~l~~n~L~   14 (17)
T PF13504_consen    2 NLRTLDLSNNRLT   14 (17)
T ss_dssp             T-SEEEETSS--S
T ss_pred             ccCEEECCCCCCC
Confidence            4555555555544

...

>KOG4308 consensus LRR-containing protein [Function unknown]

Probab=95.01  E-value=0.00013  Score=68.41  Aligned_cols=182  Identities=23%  Similarity=0.231  Sum_probs=108.1

Q ss_pred             ccEEEecCCcccCCcChHH---HhcCCCCcEEEecCCcccCCC----CCCcCCC-CCcCEEEccCCcCCccC----Chhh
Q 042011          106 LALVDLSHIKMNGEFPTWL---LENNTKLETLFLVNDSLTGPF----RLPIHSH-RWLEFLDISNNNFRCHI----PVEI  173 (361)
Q Consensus       106 L~~L~l~~n~l~~~~~~~~---~~~~~~L~~L~l~~n~l~~~~----~~~~~~l-~~L~~L~l~~n~l~~~~----~~~~  173 (361)
                      +..+.+.+|.+.......+   +...+.|+.|++++|.+....    ...+... +.+++|++..+.+++..    ...+
T Consensus        89 l~~L~L~~~~l~~~~~~~l~~~l~t~~~L~~L~l~~n~l~~~g~~~l~~~l~~~~~~l~~L~l~~c~l~~~g~~~l~~~L  168 (478)
T KOG4308|consen   89 LLHLSLANNRLGDRGAEELAQALKTLPTLGQLDLSGNNLGDEGARLLCEGLRLPQCLLQTLELVSCSLTSEGAAPLAAVL  168 (478)
T ss_pred             HHHhhhhhCccccchHHHHHHHhcccccHhHhhcccCCCccHhHHHHHhhcccchHHHHHHHhhcccccccchHHHHHHH
Confidence            7788888888874333222   455678888888888876321    1222222 45677777777776432    2333


Q ss_pred             hccCCCccEEEecCCcccc----ccCcc----ccCCCCCCEEeccCCcCcccc----chhhhhCCCC-CcEEEeecCCCC
Q 042011          174 GDILPSLKFFNISMNALDG----SIPSS----FGNMNFLRVLDLSNNQLTGEI----PEHLAVGCVN-LESLALSNNSLE  240 (361)
Q Consensus       174 ~~~l~~L~~L~L~~n~l~~----~~~~~----l~~~~~L~~L~l~~n~l~~~~----~~~~~~~~~~-L~~L~L~~n~l~  240 (361)
                      .. .+.++.++++.|.+..    .++..    +....++++|.+.+|.++...    ...+. ..+. +..+++..|.+.
T Consensus       169 ~~-~~~l~~l~l~~n~l~~~g~~~l~~~l~~~~~~~~~le~L~L~~~~~t~~~c~~l~~~l~-~~~~~~~el~l~~n~l~  246 (478)
T KOG4308|consen  169 EK-NEHLTELDLSLNGLIELGLLVLSQALESAASPLSSLETLKLSRCGVTSSSCALLDEVLA-SGESLLRELDLASNKLG  246 (478)
T ss_pred             hc-ccchhHHHHHhcccchhhhHHHhhhhhhhhcccccHHHHhhhhcCcChHHHHHHHHHHh-ccchhhHHHHHHhcCcc
Confidence            33 5677788888887741    12222    234667788888888776211    11121 2333 566778888776


Q ss_pred             Cc----ccccccCC-CCCCEEeccCCcCCccc----hhhhhcCCCCCEEECcCCcccc
Q 042011          241 GH----MFSRNFNL-TNLEWLQLGGNRFVGEI----PQSLSKCSSLEGLYLNNNSLSG  289 (361)
Q Consensus       241 ~~----~~~~~~~~-~~L~~L~L~~n~l~~~~----~~~~~~l~~L~~L~l~~N~l~~  289 (361)
                      +.    ....+..+ ..++.++++.|.|+...    ...+..++.++.+.++.|.+.+
T Consensus       247 d~g~~~L~~~l~~~~~~l~~l~l~~nsi~~~~~~~L~~~l~~~~~l~~l~l~~n~l~~  304 (478)
T KOG4308|consen  247 DVGVEKLLPCLSVLSETLRVLDLSRNSITEKGVRDLAEVLVSCRQLEELSLSNNPLTD  304 (478)
T ss_pred             hHHHHHHHHHhcccchhhhhhhhhcCCccccchHHHHHHHhhhHHHHHhhcccCcccc
Confidence            43    22233334 56677888888777543    3445556777788888777765

>smart00370 LRR Leucine-rich repeats, outliers

Probab=94.08  E-value=0.041  Score=28.74  Aligned_cols=22  Identities=32%  Similarity=0.498  Sum_probs=15.4

Q ss_pred             cCCCCeEeCcCCcccccCCcccc
Q 042011           26 LTSIEELMLSNNHFQIPISLEPL   48 (361)
Q Consensus        26 l~~L~~L~Ls~n~l~~~~~~~~~   48 (361)
                      +++|++|+|++|+++ .+|...|
T Consensus         1 L~~L~~L~L~~N~l~-~lp~~~f   22 (26)
T smart00370        1 LPNLRELDLSNNQLS-SLPPGAF   22 (26)
T ss_pred             CCCCCEEECCCCcCC-cCCHHHc
Confidence            457788888888887 6665544

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

Probab=94.08  E-value=0.041  Score=28.74  Aligned_cols=22  Identities=32%  Similarity=0.498  Sum_probs=15.4

Q ss_pred             cCCCCeEeCcCCcccccCCcccc
Q 042011           26 LTSIEELMLSNNHFQIPISLEPL   48 (361)
Q Consensus        26 l~~L~~L~Ls~n~l~~~~~~~~~   48 (361)
                      +++|++|+|++|+++ .+|...|
T Consensus         1 L~~L~~L~L~~N~l~-~lp~~~f   22 (26)
T smart00369        1 LPNLRELDLSNNQLS-SLPPGAF   22 (26)
T ss_pred             CCCCCEEECCCCcCC-cCCHHHc
Confidence            457788888888887 6665544

>KOG4308 consensus LRR-containing protein [Function unknown]

Probab=93.86  E-value=0.00056  Score=64.28  Aligned_cols=39  Identities=23%  Similarity=0.161  Sum_probs=17.1

Q ss_pred             CcEEEccCCCccccccccc-ccccCcccccEEeccCCCCCC
Q 042011           54 LKIFYADNNELNAEITQSH-SLIAPNFQLNSLSLSSDYGDG   93 (361)
Q Consensus        54 L~~L~l~~n~~~~~~~~~~-~~~~~~~~L~~L~l~~~~~~~   93 (361)
                      +..+.+.+|.+.......+ ..+.....|+.|++ +.|.+.
T Consensus        89 l~~L~L~~~~l~~~~~~~l~~~l~t~~~L~~L~l-~~n~l~  128 (478)
T KOG4308|consen   89 LLHLSLANNRLGDRGAEELAQALKTLPTLGQLDL-SGNNLG  128 (478)
T ss_pred             HHHhhhhhCccccchHHHHHHHhcccccHhHhhc-ccCCCc
Confidence            5556666665543221111 11222335555555 444444

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

Probab=93.16  E-value=0.002  Score=53.39  Aligned_cols=85  Identities=19%  Similarity=0.108  Sum_probs=67.1

Q ss_pred             CCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceee
Q 042011          225 GCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNL  304 (361)
Q Consensus       225 ~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l  304 (361)
                      .....+.||++.|++.. ....|..++.+..++++.|++. ..|+.+++...++.+++..|..+ ..|.++...++++++
T Consensus        40 ~~kr~tvld~~s~r~vn-~~~n~s~~t~~~rl~~sknq~~-~~~~d~~q~~e~~~~~~~~n~~~-~~p~s~~k~~~~k~~  116 (326)
T KOG0473|consen   40 SFKRVTVLDLSSNRLVN-LGKNFSILTRLVRLDLSKNQIK-FLPKDAKQQRETVNAASHKNNHS-QQPKSQKKEPHPKKN  116 (326)
T ss_pred             ccceeeeehhhhhHHHh-hccchHHHHHHHHHhccHhhHh-hChhhHHHHHHHHHHHhhccchh-hCCccccccCCcchh
Confidence            45667788888887754 3445556677888888888888 78888888888888888888887 577788888999999


Q ss_pred             cccccccc
Q 042011          305 SQNSRRFT  312 (361)
Q Consensus       305 ~l~~N~~~  312 (361)
                      ++.+|.|.
T Consensus       117 e~k~~~~~  124 (326)
T KOG0473|consen  117 EQKKTEFF  124 (326)
T ss_pred             hhccCcch
Confidence            88888764

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.08  E-value=0.041  Score=44.78  Aligned_cols=34  Identities=12%  Similarity=0.132  Sum_probs=16.2

Q ss_pred             CccEEEecCCccccccCccccCCCCCCEEeccCC
Q 042011          179 SLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNN  212 (361)
Q Consensus       179 ~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n  212 (361)
                      .++.++-++..|...--..+.+++.++.|.+.+|
T Consensus       102 ~IeaVDAsds~I~~eGle~L~~l~~i~~l~l~~c  135 (221)
T KOG3864|consen  102 KIEAVDASDSSIMYEGLEHLRDLRSIKSLSLANC  135 (221)
T ss_pred             eEEEEecCCchHHHHHHHHHhccchhhhheeccc
Confidence            3455555555554333334444455555555444

>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=91.57  E-value=0.067  Score=27.31  Aligned_cols=18  Identities=39%  Similarity=0.436  Sum_probs=8.0

Q ss_pred             CCCCEEeccCCcCCccch
Q 042011          251 TNLEWLQLGGNRFVGEIP  268 (361)
Q Consensus       251 ~~L~~L~L~~n~l~~~~~  268 (361)
                      ++|+.|++++|+|++...
T Consensus         2 ~~L~~L~l~~n~i~~~g~   19 (24)
T PF13516_consen    2 PNLETLDLSNNQITDEGA   19 (24)
T ss_dssp             TT-SEEE-TSSBEHHHHH
T ss_pred             CCCCEEEccCCcCCHHHH
Confidence            445555555555544333

...

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.38  E-value=0.024  Score=46.04  Aligned_cols=81  Identities=26%  Similarity=0.243  Sum_probs=39.5

Q ss_pred             CCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCC-CCccccccc-CCCCCCEEeccCC-cCCccchhhhhcCCCCCE
Q 042011          203 FLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL-EGHMFSRNF-NLTNLEWLQLGGN-RFVGEIPQSLSKCSSLEG  279 (361)
Q Consensus       203 ~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l-~~~~~~~~~-~~~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~  279 (361)
                      .++.++.++..|..+--..+. +++.++.|.+.+|.- .....+.++ -.++|+.|++++| +|++..-..+..+++|+.
T Consensus       102 ~IeaVDAsds~I~~eGle~L~-~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~  180 (221)
T KOG3864|consen  102 KIEAVDASDSSIMYEGLEHLR-DLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGLACLLKLKNLRR  180 (221)
T ss_pred             eEEEEecCCchHHHHHHHHHh-ccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHHHHHHHhhhhHH
Confidence            355556665555433333333 555556665555531 111111111 2356666666655 455555555555666666


Q ss_pred             EECcC
Q 042011          280 LYLNN  284 (361)
Q Consensus       280 L~l~~  284 (361)
                      |++.+
T Consensus       181 L~l~~  185 (221)
T KOG3864|consen  181 LHLYD  185 (221)
T ss_pred             HHhcC
Confidence            65554

>TIGR00864 PCC polycystin cation channel protein

Probab=89.12  E-value=0.16  Score=56.55  Aligned_cols=45  Identities=13%  Similarity=0.087  Sum_probs=36.4

Q ss_pred             ECcCCcccccCCCCCCCcCcceeeccccccccCCccccccccccc
Q 042011          281 YLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHG  325 (361)
Q Consensus       281 ~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~~~  325 (361)
                      ||++|+|+...+..|..+++|+.|+|.+|+|.|+|...+|..|..
T Consensus         1 DLSnN~LstLp~g~F~~L~sL~~LdLsgNPw~CDC~L~WL~~WL~   45 (2740)
T TIGR00864         1 DISNNKISTIEEGICANLCNLSEIDLSGNPFECDCGLARLPRWAE   45 (2740)
T ss_pred             CCCCCcCCccChHHhccCCCceEEEeeCCccccccccHHHHHHHH
Confidence            578888887777778888888888888899988888877777643

Note: this model has been restricted to the amino half because for technical reasons.

>smart00365 LRR_SD22 Leucine-rich repeat, SDS22-like subfamily

Probab=88.41  E-value=0.37  Score=25.18  Aligned_cols=14  Identities=43%  Similarity=0.624  Sum_probs=7.4

Q ss_pred             CCCCeEeCCCcccc
Q 042011            2 TSLRILDVSSNQLT   15 (361)
Q Consensus         2 ~~L~~L~L~~n~i~   15 (361)
                      ++|+.|+++.|+|+
T Consensus         2 ~~L~~L~L~~NkI~   15 (26)
T smart00365        2 TNLEELDLSQNKIK   15 (26)
T ss_pred             CccCEEECCCCccc
Confidence            44555555555554

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

Probab=87.94  E-value=0.015  Score=48.32  Aligned_cols=85  Identities=15%  Similarity=0.080  Sum_probs=37.1

Q ss_pred             hcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCC
Q 042011          100 LYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS  179 (361)
Q Consensus       100 l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~  179 (361)
                      +....+.+.||++.|++. ..... |+.++.+..|+++.|.+. ..|..+.....++.++...|..+ ..|..... .|.
T Consensus        38 i~~~kr~tvld~~s~r~v-n~~~n-~s~~t~~~rl~~sknq~~-~~~~d~~q~~e~~~~~~~~n~~~-~~p~s~~k-~~~  112 (326)
T KOG0473|consen   38 IASFKRVTVLDLSSNRLV-NLGKN-FSILTRLVRLDLSKNQIK-FLPKDAKQQRETVNAASHKNNHS-QQPKSQKK-EPH  112 (326)
T ss_pred             hhccceeeeehhhhhHHH-hhccc-hHHHHHHHHHhccHhhHh-hChhhHHHHHHHHHHHhhccchh-hCCccccc-cCC
Confidence            444455555555555543 22222 333444444444444443 23444444444444444444443 44444333 444


Q ss_pred             ccEEEecCCc
Q 042011          180 LKFFNISMNA  189 (361)
Q Consensus       180 L~~L~L~~n~  189 (361)
                      ++.+++-.+.
T Consensus       113 ~k~~e~k~~~  122 (326)
T KOG0473|consen  113 PKKNEQKKTE  122 (326)
T ss_pred             cchhhhccCc
Confidence            4444444443

>smart00364 LRR_BAC Leucine-rich repeats, bacterial type

Probab=84.33  E-value=0.68  Score=24.12  Aligned_cols=17  Identities=59%  Similarity=0.735  Sum_probs=9.1

Q ss_pred             CCCeEeCCCccccCcCCh
Q 042011            3 SLRILDVSSNQLTGSISS   20 (361)
Q Consensus         3 ~L~~L~L~~n~i~~~i~~   20 (361)
                      +|+.|++++|+++ .+|+
T Consensus         3 ~L~~L~vs~N~Lt-~LPe   19 (26)
T smart00364        3 SLKELNVSNNQLT-SLPE   19 (26)
T ss_pred             ccceeecCCCccc-cCcc
Confidence            4555555555555 5554

>KOG4242 consensus Predicted myosin-I-binding protein [Cell motility]

Probab=82.92  E-value=9.5  Score=35.64  Aligned_cols=58  Identities=14%  Similarity=0.139  Sum_probs=30.7

Q ss_pred             CCEEeccCCcCCccch---hhhhcCCCCCEEECcCCcccc----cCCCCCCCcCcceeecccccc
Q 042011          253 LEWLQLGGNRFVGEIP---QSLSKCSSLEGLYLNNNSLSG----NVNVPSSPANTLFNLSQNSRR  310 (361)
Q Consensus       253 L~~L~L~~n~l~~~~~---~~~~~l~~L~~L~l~~N~l~~----~~~~~~~~~~~L~~l~l~~N~  310 (361)
                      +..+.++.|.+....-   .....-+.+.++++++|...+    .+|.......++..+..+.|.
T Consensus       415 l~el~ls~~~lka~l~s~in~l~stqtl~kldisgn~mgd~gap~lpkalq~n~rlr~ipds~n~  479 (553)
T KOG4242|consen  415 LAELSLSPGPLKAGLESAINKLLSTQTLAKLDISGNGMGDGGAPPLPKALQSNCRLRPIPDSLNL  479 (553)
T ss_pred             ccCcccCCCcccccHHHHHHhhccCcccccccccCCCcccCCCCcCccccCCCCccCCCCCCCCC
Confidence            5566666666652211   122334567777777776543    334444445555555555443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	361
3riz_A	772	Crystal Structure Of The Plant Steroid Receptor Bri		8e-16
3riz_A	772	Crystal Structure Of The Plant Steroid Receptor Bri		3e-08
3rgx_A	768	Structural Insight Into Brassinosteroid Perception		1e-15
3rgx_A	768	Structural Insight Into Brassinosteroid Perception		4e-08
1ogq_A	313	The Crystal Structure Of Pgip (Polygalacturonase In		1e-04

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

Iteration: 1
 Score = 81.3 bits (199), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 88/304 (28%), Positives = 132/304 (43%), Gaps = 46/304 (15%)
Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
           ++L+ LD+S N+L+G  S + +   T ++ L +S+N F  PI   PL     L+      
Sbjct: 220 SALQHLDISGNKLSGDFSRA-ISTCTELKLLNISSNQFVGPIPPLPL---KSLQYLSLAE 275
Query: 62  NELNAEITQSHSLIAPNF------QLNSLSLSSDYGDGFIFPKF---------------- 99
           N+   EI        P+F       L  L LS ++  G + P F                
Sbjct: 276 NKFTGEI--------PDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNF 327
Query: 100 --------LYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPF--RLPI 149
                   L     L ++DLS  + +GE P  L   +  L TL L +++ +GP    L  
Sbjct: 328 SGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQ 387
Query: 150 HSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDL 209
           +    L+ L + NN F   IP  + +    L   ++S N L G+IPSS G+++ LR L L
Sbjct: 388 NPKNTLQELYLQNNGFTGKIPPTLSNC-SELVSLHLSFNYLSGTIPSSLGSLSKLRDLKL 446
Query: 210 SNNQLTGEIPEHLAVGCVXXXXXXXXXXXXXGHMFSRNFNLTNLEWLQLGGNRFVGEIPQ 269
             N L GEIP+ L                  G + S   N TNL W+ L  NR  GEIP+
Sbjct: 447 WLNMLEGEIPQELMY-VKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPK 505
Query: 270 SLSK 273
            + +
Sbjct: 506 WIGR 509

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

Iteration: 1
 Score = 56.2 bits (134), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 37/100 (37%), Positives = 55/100 (55%), Gaps = 3/100 (3%)
Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
           PT+  +NN  +  L +  + L+G     I S  +L  L++ +N+    IP E+GD L  L
Sbjct: 623 PTF--DNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGD-LRGL 679
Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPE 220
              ++S N LDG IP +   +  L  +DLSNN L+G IPE
Sbjct: 680 NILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPE 719

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

Iteration: 1
 Score = 80.9 bits (198), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 88/304 (28%), Positives = 132/304 (43%), Gaps = 46/304 (15%)
Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
           ++L+ LD+S N+L+G  S + +   T ++ L +S+N F  PI   PL     L+      
Sbjct: 223 SALQHLDISGNKLSGDFSRA-ISTCTELKLLNISSNQFVGPIPPLPL---KSLQYLSLAE 278
Query: 62  NELNAEITQSHSLIAPNF------QLNSLSLSSDYGDGFIFPKF---------------- 99
           N+   EI        P+F       L  L LS ++  G + P F                
Sbjct: 279 NKFTGEI--------PDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNF 330
Query: 100 --------LYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPF--RLPI 149
                   L     L ++DLS  + +GE P  L   +  L TL L +++ +GP    L  
Sbjct: 331 SGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQ 390
Query: 150 HSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDL 209
           +    L+ L + NN F   IP  + +    L   ++S N L G+IPSS G+++ LR L L
Sbjct: 391 NPKNTLQELYLQNNGFTGKIPPTLSNC-SELVSLHLSFNYLSGTIPSSLGSLSKLRDLKL 449
Query: 210 SNNQLTGEIPEHLAVGCVXXXXXXXXXXXXXGHMFSRNFNLTNLEWLQLGGNRFVGEIPQ 269
             N L GEIP+ L                  G + S   N TNL W+ L  NR  GEIP+
Sbjct: 450 WLNMLEGEIPQELMY-VKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPK 508
Query: 270 SLSK 273
            + +
Sbjct: 509 WIGR 512

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

Iteration: 1
 Score = 55.8 bits (133), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 37/100 (37%), Positives = 55/100 (55%), Gaps = 3/100 (3%)
Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
           PT+  +NN  +  L +  + L+G     I S  +L  L++ +N+    IP E+GD L  L
Sbjct: 626 PTF--DNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGD-LRGL 682
Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPE 220
              ++S N LDG IP +   +  L  +DLSNN L+G IPE
Sbjct: 683 NILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPE 722

>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 = 43.9 bits (102), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 45/163 (27%), Positives = 64/163 (39%), Gaps = 4/163 (2%)
Query: 111 LSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIP 170
           ++H  ++G  P +L +  T L TL    ++L+G     I S   L  +    N     IP
Sbjct: 108 ITHTNVSGAIPDFLSQIKT-LVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIP 166
Query: 171 VEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVXXX 230
              G          IS N L G IP +F N+N L  +DLS N L G+    +  G     
Sbjct: 167 DSYGSFSKLFTSMTISRNRLTGKIPPTFANLN-LAFVDLSRNMLEGD--ASVLFGSDKNT 223
Query: 231 XXXXXXXXXXGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSK 273
                          +     NL  L L  NR  G +PQ L++
Sbjct: 224 QKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQ 266

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	361
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-54
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-50
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-49
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-46
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-31
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-25
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	2e-37
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	4e-26
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	1e-19
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-29
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-27
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	6e-27
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-26
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-26
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-24
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	5e-20
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	9e-15
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-29
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-20
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	8e-17
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-16
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-29
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	8e-28
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-26
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-23
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-21
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	8e-10
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-27
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-27
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-23
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-19
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-17
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-16
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-26
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	6e-26
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-25
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-25
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	8e-25
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-13
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	8e-10
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-25
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-24
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-19
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	4e-17
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-16
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	4e-15
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	2e-06
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	9e-21
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-19
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	7e-17
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-09
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-20
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	5e-15
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-10
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	9e-07
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	4e-20
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	5e-18
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-12
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-19
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	3e-18
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	7e-14
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-12
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	8e-12
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	9e-04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-19
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	8e-17
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	9e-15
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	9e-14
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-19
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	6e-18
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-17
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-12
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-12
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-11
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	4e-10
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-08
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-19
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	8e-16
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	5e-13
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	9e-13
1o6v_A	466	Internalin A; bacterial infection, extracellular r	3e-19
1o6v_A	466	Internalin A; bacterial infection, extracellular r	4e-17
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-16
1o6v_A	466	Internalin A; bacterial infection, extracellular r	3e-13
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-12
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-12
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	6e-19
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	1e-17
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	3e-15
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-13
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	3e-13
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	5e-17
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	6e-16
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-10
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	9e-17
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-16
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-14
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-13
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-10
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	5e-10
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	5e-09
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-08
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	2e-16
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	6e-13
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-12
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	6e-12
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	3e-11
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	6e-16
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	3e-13
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	7e-12
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	5e-11
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	5e-10
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	6e-16
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-14
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-12
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-10
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	8e-16
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	7e-15
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	6e-13
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	6e-10
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	9e-16
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	2e-13
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-12
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-11
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	2e-10
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	1e-15
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	3e-13
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-11
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	1e-09
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	3e-07
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	3e-15
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	2e-12
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-09
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	2e-09
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	3e-15
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	2e-07
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	6e-07
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	7e-15
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	2e-14
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	9e-13
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-11
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-10
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	2e-04
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-14
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	4e-08
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	9e-07
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	3e-04
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	5e-14
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	3e-13
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	1e-11
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	4e-06
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	7e-06
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	2e-04
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	4e-13
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	3e-11
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-10
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	1e-09
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	4e-13
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	6e-10
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	6e-13
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	4e-12
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	9e-12
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	8e-05
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	7e-13
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-11
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-10
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	7e-07
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	1e-12
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	2e-08
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-12
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-12
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-10
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	8e-10
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-04
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	7e-12
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	6e-11
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	6e-09
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	8e-09
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	4e-07
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	7e-12
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	1e-11
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	2e-07
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	5e-05
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	5e-11
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	5e-09
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	4e-06
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	6e-11
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	3e-10
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	1e-06
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	2e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	7e-11
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-08
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	4e-06
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	2e-10
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	9e-09
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	1e-09
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	2e-08
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	2e-05
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-09
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-08
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	1e-07
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	3e-09
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	5e-09
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	3e-08
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	3e-08
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-06
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	5e-09
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	9e-06
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	1e-04
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	6e-09
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	2e-04
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	6e-09
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	4e-05
3e6j_A	229	Variable lymphocyte receptor diversity region; var	3e-08
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	3e-08
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-07
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-07
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	1e-06
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	2e-07
3m19_A	251	Variable lymphocyte receptor A diversity region; a	3e-07
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	5e-07
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	7e-07
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	3e-04
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-06
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	4e-06
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	3e-05
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-06
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	9e-06
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	2e-05
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	1e-06
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	7e-06
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	2e-06
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	8e-05
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	9e-06
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	6e-04
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	2e-05
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	1e-04
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	4e-05
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	5e-05
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	1e-04
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	4e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	2e-04
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	2e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	7e-04

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score =  189 bits (483), Expect = 3e-54
 Identities = 88/293 (30%), Positives = 129/293 (44%), Gaps = 10/293 (3%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
            ++L+ LD+S N+L+G  S + +   T ++ L +S+N F  PI   P      L+     
Sbjct: 222 CSALQHLDISGNKLSGDFSRA-ISTCTELKLLNISSNQFVGPI---PPLPLKSLQYLSLA 277

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            N+   EI    S       L  L LS ++  G + P F      L  + LS    +GE 
Sbjct: 278 ENKFTGEIPDFLSGACDT--LTGLDLSGNHFYGAV-PPFFGSCSLLESLALSSNNFSGEL 334

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHS-HRWLEFLDISNNNFRCHIPVEIGDI-LP 178
           P   L     L+ L L  +  +G     + +    L  LD+S+NNF   I   +      
Sbjct: 335 PMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKN 394

Query: 179 SLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNS 238
           +L+   +  N   G IP +  N + L  L LS N L+G IP  L      L  L L  N 
Sbjct: 395 TLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLG-SLSKLRDLKLWLNM 453

Query: 239 LEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV 291
           LEG +      +  LE L L  N   GEIP  LS C++L  + L+NN L+G +
Sbjct: 454 LEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEI 506

>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 =  179 bits (456), Expect = 1e-50
 Identities = 88/317 (27%), Positives = 145/317 (45%), Gaps = 21/317 (6%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHF--QIPISLEPLFNHSRLKIFY 58
            + L+ L+VSSN L      S  + L S+E L LS N       +          LK   
Sbjct: 125 CSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLA 184

Query: 59  ADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG 118
              N+++ ++  S  +      L  L +SS+     I P FL     L  +D+S  K++G
Sbjct: 185 ISGNKISGDVDVSRCV-----NLEFLDVSSNNFSTGI-P-FLGDCSALQHLDISGNKLSG 237

Query: 119 EFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILP 178
           +F   +    T+L+ L + ++   GP  +P    + L++L ++ N F   IP  +     
Sbjct: 238 DFSRAIS-TCTELKLLNISSNQFVGP--IPPLPLKSLQYLSLAENKFTGEIPDFLSGACD 294

Query: 179 SLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNS 238
           +L   ++S N   G++P  FG+ + L  L LS+N  +GE+P    +    L+ L LS N 
Sbjct: 295 TLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNE 354

Query: 239 LEGHMFSRNFNLT-NLEWLQLGGNRFVGEIPQSLSKC--SSLEGLYLNNNSLSGNVNVPS 295
             G +     NL+ +L  L L  N F G I  +L +   ++L+ LYL NN  +G   +P 
Sbjct: 355 FSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTG--KIPP 412

Query: 296 SPAN----TLFNLSQNS 308
           + +N       +LS N 
Sbjct: 413 TLSNCSELVSLHLSFNY 429

>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 =  176 bits (448), Expect = 2e-49
 Identities = 89/321 (27%), Positives = 145/321 (45%), Gaps = 13/321 (4%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
             +L  LD+S N   G++        + +E L LS+N+F   + ++ L     LK+    
Sbjct: 293 CDTLTGLDLSGNHFYGAVPPF-FGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLS 351

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFL-YHQHDLALVDLSHIKMNGE 119
            NE + E+ +S + ++ +  L +L LSS+   G I P      ++ L  + L +    G+
Sbjct: 352 FNEFSGELPESLTNLSAS--LLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGK 409

Query: 120 FPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS 179
            P  L  N ++L +L L  + L+G     + S   L  L +  N     IP E+   + +
Sbjct: 410 IPPTL-SNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMY-VKT 467

Query: 180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL 239
           L+   +  N L G IPS   N   L  + LSNN+LTGEIP+ +     NL  L LSNNS 
Sbjct: 468 LETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGR-LENLAILKLSNNSF 526

Query: 240 EGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV--NVPSSP 297
            G++ +   +  +L WL L  N F G IP ++ K S      +  N ++G     + +  
Sbjct: 527 SGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGK----IAANFIAGKRYVYIKNDG 582

Query: 298 ANTLFNLSQNSRRFTSSISHS 318
                + + N   F    S  
Sbjct: 583 MKKECHGAGNLLEFQGIRSEQ 603

>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 =  168 bits (427), Expect = 1e-46
 Identities = 85/310 (27%), Positives = 141/310 (45%), Gaps = 20/310 (6%)

Query: 2   TSLRILDVSSNQLTGSISSSP--LVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYA 59
             +  +D+SS  L    S+    L+ LT +E L LSN+H    +S       + L     
Sbjct: 50  DKVTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVS--GFKCSASLTSLDL 107

Query: 60  DNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGE 119
             N L+  +T   S +     L  L++SS+  D           + L ++DLS   ++G 
Sbjct: 108 SRNSLSGPVTTLTS-LGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGA 166

Query: 120 FPTWLLENN--TKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDIL 177
                + ++   +L+ L +  + ++G   + +     LEFLD+S+NNF   IP  +GD  
Sbjct: 167 NVVGWVLSDGCGELKHLAISGNKISGD--VDVSRCVNLEFLDVSSNNFSTGIP-FLGD-C 222

Query: 178 PSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN 237
            +L+  +IS N L G    +      L++L++S+NQ  G IP        +L+ L+L+ N
Sbjct: 223 SALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLP---LKSLQYLSLAEN 279

Query: 238 SLEGHM-FSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSS 296
              G +    +     L  L L GN F G +P     CS LE L L++N+ SG +     
Sbjct: 280 KFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGEL----- 334

Query: 297 PANTLFNLSQ 306
           P +TL  +  
Sbjct: 335 PMDTLLKMRG 344

>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 =  125 bits (315), Expect = 1e-31
 Identities = 63/242 (26%), Positives = 104/242 (42%), Gaps = 13/242 (5%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
            T+L  + +S+N+LTG I    +  L ++  L LSNN F   I  E L +   L     +
Sbjct: 489 CTNLNWISLSNNRLTGEIPKW-IGRLENLAILKLSNNSFSGNIPAE-LGDCRSLIWLDLN 546

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLAL-VDLSHIKMNGE 119
            N  N  I  +           S  +++++  G  +                + ++  G 
Sbjct: 547 TNLFNGTIPAA-------MFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGI 599

Query: 120 FPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS 179
               L    +      + +    G       ++  + FLD+S N    +IP EIG  +P 
Sbjct: 600 RSEQLN-RLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGS-MPY 657

Query: 180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL 239
           L   N+  N + GSIP   G++  L +LDLS+N+L G IP+ ++     L  + LSNN+L
Sbjct: 658 LFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMS-ALTMLTEIDLSNNNL 716

Query: 240 EG 241
            G
Sbjct: 717 SG 718

>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 =  107 bits (269), Expect = 1e-25
 Identities = 51/230 (22%), Positives = 95/230 (41%), Gaps = 39/230 (16%)

Query: 127 NNTKLETLFLVNDSLTGPFRL---PIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFF 183
            + K+ ++ L +  L   F      + S   LE L +SN++    +         SL   
Sbjct: 48  RDDKVTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVS-GFKC-SASLTSL 105

Query: 184 NISMNALDGSIPS--SFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEG 241
           ++S N+L G + +  S G+ + L+ L++S+N L         +   +LE L LS NS+ G
Sbjct: 106 DLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISG 165

Query: 242 HM---FSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV------- 291
                +  +     L+ L + GN+  G++   +S+C +LE L +++N+ S  +       
Sbjct: 166 ANVVGWVLSDGCGELKHLAISGNKISGDVD--VSRCVNLEFLDVSSNNFSTGIPFLGDCS 223

Query: 292 --------------NVPSSPAN----TLFNLSQNSRRFTSSISHSHLLNL 323
                         +   + +      L N+S N   F   I    L +L
Sbjct: 224 ALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQ--FVGPIPPLPLKSL 271

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

 Score =  135 bits (343), Expect = 2e-37
 Identities = 69/288 (23%), Positives = 100/288 (34%), Gaps = 37/288 (12%)

Query: 7   LDVSSNQLTGSISSSPLVHLTSIEELMLSNNHF--QIPISLEPLFNHSRLKIFY-ADNNE 63
            D  +    G +          +  L LS  +     PI    L N   L   Y    N 
Sbjct: 31  TDCCNRTWLG-VLCDTDTQTYRVNNLDLSGLNLPKPYPIPSS-LANLPYLNFLYIGGINN 88

Query: 64  LNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTW 123
           L   I                            P  +     L  + ++H  ++G  P +
Sbjct: 89  LVGPI----------------------------PPAIAKLTQLHYLYITHTNVSGAIPDF 120

Query: 124 LLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFF 183
           L      L TL    ++L+G     I S   L  +    N     IP   G         
Sbjct: 121 L-SQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSM 179

Query: 184 NISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHM 243
            IS N L G IP +F N+N L  +DLS N L G+          N + + L+ NSL   +
Sbjct: 180 TISRNRLTGKIPPTFANLN-LAFVDLSRNMLEGDASVLFG-SDKNTQKIHLAKNSLAFDL 237

Query: 244 FSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV 291
             +     NL  L L  NR  G +PQ L++   L  L ++ N+L G +
Sbjct: 238 -GKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEI 284

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

 Score =  105 bits (264), Expect = 4e-26
 Identities = 48/241 (19%), Positives = 94/241 (39%), Gaps = 16/241 (6%)

Query: 1   MTSLRILDVSS-NQLTGSISSSPLVHLTSIEELMLSNNHF--QIPISLEPLFNHSRLKIF 57
           +  L  L +   N L G I  + +  LT +  L +++ +    IP  L  +     L   
Sbjct: 75  LPYLNFLYIGGINNLVGPIPPA-IAKLTQLHYLYITHTNVSGAIPDFLSQI---KTLVTL 130

Query: 58  YADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMN 117
               N L+  +  S S +     L  ++   +   G I   +         + +S  ++ 
Sbjct: 131 DFSYNALSGTLPPSISSLP---NLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLT 187

Query: 118 GEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDIL 177
           G+ P      N  L  + L  + L G   +   S +  + + ++ N+    +  ++G   
Sbjct: 188 GKIPPTF--ANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLG-KVGL-S 243

Query: 178 PSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN 237
            +L   ++  N + G++P     + FL  L++S N L GEIP+         +  A +NN
Sbjct: 244 KNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGN--LQRFDVSAYANN 301

Query: 238 S 238
            
Sbjct: 302 K 302

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

 Score = 86.8 bits (216), Expect = 1e-19
 Identities = 39/169 (23%), Positives = 59/169 (34%), Gaps = 37/169 (21%)

Query: 154 WLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGS--IPSSFGNMNFLRVLDLSN 211
           WL   D  N  +   +          +   ++S   L     IPSS  N+ +L  L +  
Sbjct: 27  WLPTTDCCNRTWLGVLCDTDTQ-TYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGG 85

Query: 212 -NQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQS 270
            N L G IP  +A                          LT L +L +      G IP  
Sbjct: 86  INNLVGPIPPAIA-------------------------KLTQLHYLYITHTNVSGAIPDF 120

Query: 271 LSKCSSLEGLYLNNNSLSGNVNVPSSPAN----TLFNLSQNSRRFTSSI 315
           LS+  +L  L  + N+LSG   +P S ++           N  R + +I
Sbjct: 121 LSQIKTLVTLDFSYNALSG--TLPPSISSLPNLVGITFDGN--RISGAI 165

>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 =  118 bits (299), Expect = 1e-29
 Identities = 65/309 (21%), Positives = 119/309 (38%), Gaps = 23/309 (7%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ-IPISLEPLFNHSRLKIFYA 59
             +L  LD+S N L+ +   +  V L +++EL+LSNN  Q +      +F +S LK    
Sbjct: 120 QKNLITLDLSHNGLSSTKLGT-QVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLEL 178

Query: 60  DNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALV--DLSHIKMN 117
            +N++               +L  L L++      +  K      + ++    LS+ +++
Sbjct: 179 SSNQIKEFSPGC---FHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLS 235

Query: 118 GEFPTWLLE-NNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI 176
               T  L    T L  L L  ++L             LE+  +  NN +      +   
Sbjct: 236 TTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHG- 294

Query: 177 LPSLKFFN---------ISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCV 227
           L ++++ N         IS+ +L      SF  +  L  L++ +N + G        G +
Sbjct: 295 LFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFT-GLI 353

Query: 228 NLESLALSNNSLEGHMFS----RNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLN 283
           NL+ L+LSN+       +     +   + L  L L  N+       + S    LE L L 
Sbjct: 354 NLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLG 413

Query: 284 NNSLSGNVN 292
            N +   + 
Sbjct: 414 LNEIGQELT 422

>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 =  113 bits (284), Expect = 1e-27
 Identities = 58/306 (18%), Positives = 104/306 (33%), Gaps = 22/306 (7%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLV--HLTSIEELMLSNNHFQ-IPISLEPLFNHSRLKIF 57
           +  L  L +++ QL  S++    +    TSI  L LSN+       +       + L + 
Sbjct: 194 IGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTML 253

Query: 58  YADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKF--------LYHQHDLALV 109
               N LN     S    A   QL    L  +                  L  +      
Sbjct: 254 DLSYNNLNVVGNDS---FAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQ 310

Query: 110 DLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNF---R 166
            +S   +      +  +    LE L + ++ + G           L++L +SN+      
Sbjct: 311 SISLASLPK-IDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRT 369

Query: 167 CHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGC 226
                 +      L   N++ N +      +F  +  L VLDL  N++  E+      G 
Sbjct: 370 LTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGL 429

Query: 227 VNLESLALSNNSLEGHMFSRNF-NLTNLEWLQLGGNRF--VGEIPQSLSKCSSLEGLYLN 283
            N+  + LS N     +   +F  + +L+ L L       V   P       +L  L L+
Sbjct: 430 ENIFEIYLSYNKYLQ-LTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLS 488

Query: 284 NNSLSG 289
           NN+++ 
Sbjct: 489 NNNIAN 494

>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 =  110 bits (278), Expect = 6e-27
 Identities = 59/304 (19%), Positives = 105/304 (34%), Gaps = 21/304 (6%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLF---NHSRLKIF 57
           +  L  L++  N + G  S+     L +++ L LSN+   +       F    HS L I 
Sbjct: 328 LKCLEHLNMEDNDIPGIKSNM-FTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHIL 386

Query: 58  YADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMN 117
               N+++   + +    +    L  L L  +     +  +      ++  + LS+ K  
Sbjct: 387 NLTKNKISKIESDA---FSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYL 443

Query: 118 GEFPTWLLENNTKLETLFLVNDSLTGPFRLP--IHSHRWLEFLDISNNNFRCHIPVEIGD 175
                        L+ L L   +L      P      R L  LD+SNNN   +I  ++ +
Sbjct: 444 QLTRNSF-ALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIA-NINDDMLE 501

Query: 176 ILPSLKFFNISMN--------ALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCV 227
            L  L+  ++  N        A  G        ++ L +L+L +N       E       
Sbjct: 502 GLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFK-DLF 560

Query: 228 NLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKC-SSLEGLYLNNNS 286
            L+ + L  N+L     S   N  +L+ L L  N       +       +L  L +  N 
Sbjct: 561 ELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVEKKVFGPAFRNLTELDMRFNP 620

Query: 287 LSGN 290
               
Sbjct: 621 FDCT 624

>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 =  110 bits (277), Expect = 1e-26
 Identities = 58/322 (18%), Positives = 111/322 (34%), Gaps = 25/322 (7%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +  L++L++  N+L+     +     T++ EL L +N  Q   +  P      L      
Sbjct: 72  LPMLKVLNLQHNELSQLSDKT-FAFCTNLTELHLMSNSIQKIKN-NPFVKQKNLITLDLS 129

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKF-LYHQHDLALVDLSHIKMNGE 119
           +N L++    +         L  L LS++        +  ++    L  ++LS  ++   
Sbjct: 130 HNGLSSTKLGT---QVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEF 186

Query: 120 FPTWLLENNTKLETLFLVNDSLTG---PFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI 176
            P        +L  LFL N  L            ++  +  L +SN+            +
Sbjct: 187 SPGC-FHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGL 245

Query: 177 -LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALS 235
              +L   ++S N L+     SF  +  L    L  N +       L  G  N+  L L 
Sbjct: 246 KWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLH-GLFNVRYLNLK 304

Query: 236 NNSLEGHMFSRNF---------NLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNS 286
            +  +  +   +           L  LE L +  N   G      +   +L+ L L+N+ 
Sbjct: 305 RSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSNSF 364

Query: 287 LSGNVNVPSSPANTLFNLSQNS 308
            S      +    T  +L+ + 
Sbjct: 365 TSLR----TLTNETFVSLAHSP 382

>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 =  109 bits (274), Expect = 2e-26
 Identities = 68/328 (20%), Positives = 113/328 (34%), Gaps = 36/328 (10%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
           T++ +L+++ NQL    +++     + +  L +  N     +  E       LK+    +
Sbjct: 25  TNITVLNLTHNQLRRLPAAN-FTRYSQLTSLDVGFNTISK-LEPELCQKLPMLKVLNLQH 82

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
           NEL+     S    A    L  L L S+                     +  I       
Sbjct: 83  NELS---QLSDKTFAFCTNLTELHLMSNS--------------------IQKI------K 113

Query: 122 TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI-LPSL 180
                    L TL L ++ L+            L+ L +SNN  +     E+      SL
Sbjct: 114 NNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSL 173

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVN--LESLALSNNS 238
           K   +S N +    P  F  +  L  L L+N QL   + E L +   N  + +L+LSN+ 
Sbjct: 174 KKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQ 233

Query: 239 LEG--HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSS 296
           L    +        TNL  L L  N        S +    LE  +L  N++    +    
Sbjct: 234 LSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLH 293

Query: 297 PANTLFNLSQNSRRFTSSISHSHLLNLH 324
               +  L+        SIS + L  + 
Sbjct: 294 GLFNVRYLNLKRSFTKQSISLASLPKID 321

>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 =  104 bits (261), Expect = 1e-24
 Identities = 47/299 (15%), Positives = 93/299 (31%), Gaps = 29/299 (9%)

Query: 1   MTSLRILDVSSNQLTGSIS--------SSPLVHLTSIEELMLSNNHFQIPISLEPLFNHS 52
           + ++R L++  +    SIS              L  +E L + +N     I         
Sbjct: 295 LFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPG-IKSNMFTGLI 353

Query: 53  RLKIFYADNNELNAEITQSHSLIA-PNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDL 111
            LK     N+  +     + + ++  +  L+ L+L+       I          L ++DL
Sbjct: 354 NLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLT-KNKISKIESDAFSWLGHLEVLDL 412

Query: 112 SHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFR-CHIP 170
              ++  E           +  ++L  +      R        L+ L +     +     
Sbjct: 413 GLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSS 472

Query: 171 VEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLE 230
                 L +L   ++S N +          +  L +LDL +N L                
Sbjct: 473 PSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLA--------------- 517

Query: 231 SLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG 289
              L  ++  G        L++L  L L  N F     +       L+ + L  N+L+ 
Sbjct: 518 --RLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNT 574

>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 = 90.4 bits (225), Expect = 5e-20
 Identities = 40/200 (20%), Positives = 77/200 (38%), Gaps = 9/200 (4%)

Query: 131 LETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNAL 190
            E     +  LT   ++P      +  L++++N  R             L   ++  N +
Sbjct: 6   HEVADCSHLKLT---QVPDDLPTNITVLNLTHNQLRRLPAANFTR-YSQLTSLDVGFNTI 61

Query: 191 DGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNL 250
               P     +  L+VL+L +N+L+    +  A  C NL  L L +NS++    +     
Sbjct: 62  SKLEPELCQKLPMLKVLNLQHNELSQLSDKTFA-FCTNLTELHLMSNSIQKIKNNPFVKQ 120

Query: 251 TNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG----NVNVPSSPANTLFNLSQ 306
            NL  L L  N        +  +  +L+ L L+NN +       +++ ++ +     LS 
Sbjct: 121 KNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSS 180

Query: 307 NSRRFTSSISHSHLLNLHGI 326
           N  +  S      +  L G+
Sbjct: 181 NQIKEFSPGCFHAIGRLFGL 200

>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 = 74.7 bits (184), Expect = 9e-15
 Identities = 34/221 (15%), Positives = 81/221 (36%), Gaps = 10/221 (4%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ-IPISLEPLFNHSRLKIFYA 59
           + ++  + +S N+      +S    + S++ LML     + +  S  P      L I   
Sbjct: 429 LENIFEIYLSYNKYLQLTRNS-FALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDL 487

Query: 60  DNNEL----NAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIK 115
            NN +    +  +     L   + Q N+L+    + +      FL     L +++L    
Sbjct: 488 SNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNG 547

Query: 116 MNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGD 175
            +   P  + ++  +L+ + L  ++L        ++   L+ L++  N          G 
Sbjct: 548 FDEI-PVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVEKKVFGP 606

Query: 176 ILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTG 216
              +L   ++  N  D +  S      F+  ++ ++  +  
Sbjct: 607 AFRNLTELDMRFNPFDCTCESIAW---FVNWINETHTNIPE 644

>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 =  117 bits (295), Expect = 3e-29
 Identities = 55/324 (16%), Positives = 106/324 (32%), Gaps = 19/324 (5%)

Query: 3   SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNN 62
           ++    ++               LT++    L +   +    ++    +   +     N 
Sbjct: 258 TIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIE---RVKDFSYNFGWQHLELVNC 314

Query: 63  ELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG-EFP 121
           +     T           L  L+ +S+ G        L     L  +DLS   ++     
Sbjct: 315 KFGQFPTLK------LKSLKRLTFTSNKGGNAFSEVDL---PSLEFLDLSRNGLSFKGCC 365

Query: 122 TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLK 181
           +      T L+ L L  + +       +   + LE LD  ++N +      +   L +L 
Sbjct: 366 SQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQ-LEHLDFQHSNLKQMSEFSVFLSLRNLI 424

Query: 182 FFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEG 241
           + +IS      +    F  ++ L VL ++ N         +     NL  L LS   LE 
Sbjct: 425 YLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQ 484

Query: 242 HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG---NVNVPSSPA 298
              +   +L++L+ L +  N F           +SL+ L  + N +             +
Sbjct: 485 LSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSS 544

Query: 299 NTLFNLSQNSRRFTSSISHSHLLN 322
               NL+QN   F  +  H   L 
Sbjct: 545 LAFLNLTQN--DFACTCEHQSFLQ 566

>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 = 90.9 bits (226), Expect = 3e-20
 Identities = 56/335 (16%), Positives = 116/335 (34%), Gaps = 23/335 (6%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           ++SL+ L      L    +   + HL +++EL +++N  Q     E   N + L+     
Sbjct: 99  LSSLQKLVAVETNLASLENFP-IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLS 157

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           +N++ +       ++     L +LSL              + +  L  + L +   +   
Sbjct: 158 SNKIQSIYCTDLRVL-HQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNV 216

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLE--------FLDISNNNFRCHIPVE 172
               ++    LE   LV         L       LE           ++  ++     ++
Sbjct: 217 MKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIID 276

Query: 173 IGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESL 232
           + + L ++  F++    ++     S+      + L+L N +        L     +L+ L
Sbjct: 277 LFNCLTNVSSFSLVSVTIERVKDFSY--NFGWQHLELVNCKFGQFPTLKLK----SLKRL 330

Query: 233 ALSNNSLEGHMFSRNFNLTNLEWLQLGGNR--FVGEIPQSLSKCSSLEGLYLNNNSLSG- 289
             ++N           +L +LE+L L  N   F G   QS    +SL+ L L+ N +   
Sbjct: 331 TFTSNKGGN--AFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITM 388

Query: 290 NVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLH 324
           + N          +   +          S  L+L 
Sbjct: 389 SSNFLGLEQLEHLDFQHS--NLKQMSEFSVFLSLR 421

>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 = 88.2 bits (219), Expect = 3e-19
 Identities = 38/223 (17%), Positives = 70/223 (31%), Gaps = 14/223 (6%)

Query: 109 VDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCH 168
                +    + P  L  +    + L L  + L         S   L+ LD+S    +  
Sbjct: 12  YQCMELNFY-KIPDNLPFS---TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTI 67

Query: 169 IPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVN 228
                   L  L    ++ N +      +F  ++ L+ L      L       +      
Sbjct: 68  EDGAYQS-LSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIG-HLKT 125

Query: 229 LESLALSNNSLEGHMFSRNF-NLTNLEWLQLGGNRFVGEIPQSLSKCSSLE----GLYLN 283
           L+ L +++N ++       F NLTNLE L L  N+        L     +      L L+
Sbjct: 126 LKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLS 185

Query: 284 NNSLSG-NVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHG 325
            N ++                L  N    + ++  + +  L G
Sbjct: 186 LNPMNFIQPGAFKEIRLHKLTLRNN--FDSLNVMKTCIQGLAG 226

>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 = 80.5 bits (199), Expect = 8e-17
 Identities = 45/322 (13%), Positives = 98/322 (30%), Gaps = 22/322 (6%)

Query: 17  SISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIA 76
           +    P     S + L LS N  +   S    F+   L++      E+      +     
Sbjct: 18  NFYKIPDNLPFSTKNLDLSFNPLRHLGS-YSFFSFPELQVLDLSRCEIQTIEDGA---YQ 73

Query: 77  PNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFL 136
               L++L L+ +                L  +      +        + +   L+ L +
Sbjct: 74  SLSHLSTLILTGNPIQSLA-LGAFSGLSSLQKLVAVETNLASLENF-PIGHLKTLKELNV 131

Query: 137 VNDSLTG-PFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFF----NISMNALD 191
            ++ +          +   LE LD+S+N  +     ++   L  +       ++S+N ++
Sbjct: 132 AHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRV-LHQMPLLNLSLDLSLNPMN 190

Query: 192 GSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHM---FSRNF 248
              P +F  +  L  L L NN  +  + +    G   LE   L                 
Sbjct: 191 FIQPGAFKEIR-LHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKS 249

Query: 249 NLTNLEWLQLGGNR------FVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLF 302
            L  L  L +   R      ++ +I    +  +++    L + ++    +   +      
Sbjct: 250 ALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHL 309

Query: 303 NLSQNSRRFTSSISHSHLLNLH 324
            L         ++    L  L 
Sbjct: 310 ELVNCKFGQFPTLKLKSLKRLT 331

>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 = 79.3 bits (196), Expect = 2e-16
 Identities = 44/226 (19%), Positives = 72/226 (31%), Gaps = 10/226 (4%)

Query: 110 DLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHI 169
           DLS   +          +  +L+ L L    +         S   L  L ++ N  +   
Sbjct: 34  DLSFNPLRHLGSY-SFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLA 92

Query: 170 PVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNL 229
                  L SL+        L        G++  L+ L++++N +             NL
Sbjct: 93  LGAFSG-LSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNL 151

Query: 230 ESLALSNNSLEGHMFSRNFNLTNLE----WLQLGGNRFVGEIPQSLSKCSSLEGLYLNNN 285
           E L LS+N ++    +    L  +      L L  N      P +  K   L  L L NN
Sbjct: 152 EHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAF-KEIRLHKLTLRNN 210

Query: 286 SLSGNVN---VPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGICK 328
             S NV    +       +  L     R   ++       L G+C 
Sbjct: 211 FDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCN 256

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

 Score =  117 bits (295), Expect = 5e-29
 Identities = 48/327 (14%), Positives = 104/327 (31%), Gaps = 56/327 (17%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
              ++I  +  N L    +S+ L  +  +  L   +N  +    LE    + +L     D
Sbjct: 547 GPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHNKVR---HLEAFGTNVKLTDLKLD 603

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            N++                              I   F      +  +  SH K+    
Sbjct: 604 YNQIEE----------------------------IPEDFCAFTDQVEGLGFSHNKLKYIP 635

Query: 121 PTWLLENNTKLETLFLVNDSLTG-----PFRLPIHSHRWLEFLDISNNNFRCHIPVEIGD 175
             +  ++   + ++    + +          +  +       + +S N  +   P E+  
Sbjct: 636 NIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQ-KFPTELFA 694

Query: 176 ILPSLKFFNISMNALD-------GSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVN 228
               +    +S N +             ++ N   L  +DL  N+LT    +  A     
Sbjct: 695 TGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPY 754

Query: 229 LESLALSNNSLEGHMFSRNFNLTNLEWLQL------GGNRFVGEIPQSLSKCSSLEGLYL 282
           L ++ +S N       ++  N + L+   +       GNR + + P  ++ C SL  L +
Sbjct: 755 LSNMDVSYNCFS-SFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQI 813

Query: 283 NNNSLSGNVNVPSSPANTL--FNLSQN 307
            +N +     V       L   +++ N
Sbjct: 814 GSNDIR---KVDEKLTPQLYILDIADN 837

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

 Score =  113 bits (285), Expect = 8e-28
 Identities = 34/298 (11%), Positives = 88/298 (29%), Gaps = 19/298 (6%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
              +  L ++     G +  + +  LT ++ L    +   +   L      +   +    
Sbjct: 322 NGRVTGLSLAGFGAKGRVPDA-IGQLTELKVLSFGTHSETVSGRLFGDEELT-PDMSEER 379

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            + +     +          L+ L   +   +  + P     +  L    + ++     F
Sbjct: 380 KHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNRITF 439

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
            +  ++  TKL+ ++  N   T       +     E  +        +  +   + L  L
Sbjct: 440 ISKAIQRLTKLQIIYFANSPFTY-----DNIAVDWEDANSDYAKQYENEELSWSN-LKDL 493

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAV--------GCVNLESL 232
               +        +P    ++  L+ L+++ N+                       ++  
Sbjct: 494 TDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIF 553

Query: 233 ALSNNSLEGHMFSRNF-NLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG 289
            +  N+LE    S +   +  L  L    N+      ++      L  L L+ N +  
Sbjct: 554 YMGYNNLEEFPASASLQKMVKLGLLDCVHNKV--RHLEAFGTNVKLTDLKLDYNQIEE 609

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

 Score =  108 bits (270), Expect = 7e-26
 Identities = 43/301 (14%), Positives = 91/301 (30%), Gaps = 25/301 (8%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +T L++L   ++  T S        L + +      +  ++      L    RL +    
Sbjct: 346 LTELKVLSFGTHSETVSGRLFGDEEL-TPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLL 404

Query: 61  NNELNA--EITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG 118
            + +N   E+         + +   +   ++        K +     L ++  ++     
Sbjct: 405 QDAINRNPEMKPIKKDSRISLKDTQIGNLTNRITF--ISKAIQRLTKLQIIYFANSPFTY 462

Query: 119 EFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILP 178
           +            E              L   + + L  +++ N      +P  + D LP
Sbjct: 463 DNIA------VDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYD-LP 515

Query: 179 SLKFFNISMNALDG---------SIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNL 229
            L+  NI+ N              +         +++  +  N L            V L
Sbjct: 516 ELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKL 575

Query: 230 ESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSL-SKCSSLEGLYLNNNSLS 288
             L   +N +             L  L+L  N+   EIP+   +    +EGL  ++N L 
Sbjct: 576 GLLDCVHNKVRH--LEAFGTNVKLTDLKLDYNQIE-EIPEDFCAFTDQVEGLGFSHNKLK 632

Query: 289 G 289
            
Sbjct: 633 Y 633

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

 Score = 99.2 bits (247), Expect = 7e-23
 Identities = 51/367 (13%), Positives = 108/367 (29%), Gaps = 52/367 (14%)

Query: 2   TSLRILDVSSNQLT-----GSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKI 56
             L + D+  + +        I     + L   +   L+N    I  +++ L   ++L+I
Sbjct: 396 QRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNRITFISKAIQRL---TKLQI 452

Query: 57  FYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGF---------------IFPKFLY 101
            Y  N+    +        A +                                 P FLY
Sbjct: 453 IYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLY 512

Query: 102 HQHDLALVDLSHIKMNGEFPTWL--------LENNTKLETLFLVNDSLTG-PFRLPIHSH 152
              +L  ++++  +                  +   K++  ++  ++L   P    +   
Sbjct: 513 DLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKM 572

Query: 153 RWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNN 212
             L  LD  +N  R H+    G     L    +  N ++          + +  L  S+N
Sbjct: 573 VKLGLLDCVHNKVR-HLE-AFGT-NVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHN 629

Query: 213 QLTGEIPEHLAVG-CVNLESLALSNNSLEGH-----MFSRNFNLTNLEWLQLGGNRFVGE 266
           +L   IP          + S+  S N +            ++   N   + L  N     
Sbjct: 630 KLK-YIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKF 688

Query: 267 IPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLF---------NLSQNS-RRFTSSIS 316
             +  +  S +  + L+NN ++        P +  +         +L  N     +    
Sbjct: 689 PTELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFR 748

Query: 317 HSHLLNL 323
            + L  L
Sbjct: 749 ATTLPYL 755

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

 Score = 94.6 bits (235), Expect = 2e-21
 Identities = 49/309 (15%), Positives = 102/309 (33%), Gaps = 37/309 (11%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ-IPISLEPLFNHSRLKIFYA 59
           M  L +LD   N++              + +L L  N  + IP          +++    
Sbjct: 572 MVKLGLLDCVHNKVR---HLEAFGTNVKLTDLKLDYNQIEEIPEDF--CAFTDQVEGLGF 626

Query: 60  DNNELN-----AEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHI 114
            +N+L            + + + +F  N +   S+  +           +  + V LS+ 
Sbjct: 627 SHNKLKYIPNIFNAKSVYVMGSVDFSYNKIG--SEGRNISCSMDDYKGIN-ASTVTLSYN 683

Query: 115 KMNGEFPTWLLENNTKLETLFLVNDSLT-------GPFRLPIHSHRWLEFLDISNNNFRC 167
           ++   FPT L    + + T+ L N+ +T        P      +   L  +D+  N    
Sbjct: 684 EIQK-FPTELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKLT- 741

Query: 168 HIPVEIGDI-LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDL------SNNQLTGEIPE 220
            +  +     LP L   ++S N    S P+   N + L+   +        N++  + P 
Sbjct: 742 SLSDDFRATTLPYLSNMDVSYNCFS-SFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPT 800

Query: 221 HLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRF-VGEIPQSLSKCSS-LE 278
            +   C +L  L + +N +             L  L +  N     ++        + + 
Sbjct: 801 GIT-TCPSLIQLQIGSNDIRK--VDEKL-TPQLYILDIADNPNISIDVTSVCPYIEAGMY 856

Query: 279 GLYLNNNSL 287
            L  +    
Sbjct: 857 VLLYDKTQD 865

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

 Score = 59.5 bits (144), Expect = 8e-10
 Identities = 24/194 (12%), Positives = 61/194 (31%), Gaps = 34/194 (17%)

Query: 161 SNNNFRCHIPVEIGDILPS---LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTG- 216
           + N        + G  L +   +   +++     G +P + G +  L+VL    +  T  
Sbjct: 303 NFNKELDMWGDQPGVDLDNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVS 362

Query: 217 -----------------------EIPEHLAVGCVNLESLALSNNSLEGH---MFSRNFNL 250
                                     +        L    L  +++  +      +  + 
Sbjct: 363 GRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSR 422

Query: 251 TNLEWLQLGG-NRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSR 309
            +L+  Q+G     +  I +++ + + L+ +Y  N+  +       +      N     +
Sbjct: 423 ISLKDTQIGNLTNRITFISKAIQRLTKLQIIYFANSPFTY---DNIAVDWEDANSDYAKQ 479

Query: 310 RFTSSISHSHLLNL 323
                +S S+L +L
Sbjct: 480 YENEELSWSNLKDL 493

>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 =  112 bits (281), Expect = 3e-27
 Identities = 56/295 (18%), Positives = 93/295 (31%), Gaps = 14/295 (4%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ--IPISLEPLFNHSRLKIFY 58
             +L  L + SN ++ SI          ++ L   NN         +  L   + L +  
Sbjct: 128 QKTLESLYLGSNHIS-SIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLSLNL 186

Query: 59  ADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQ-HDLALVDLSHIKMN 117
             N+     I         +    SL+         IF          L L     +   
Sbjct: 187 NGND-----IAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDE 241

Query: 118 GEFPTWLLEN-NTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI 176
              P          +E++ L             H    L+ LD++  +    +P  +   
Sbjct: 242 DISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLS-ELPSGLVG- 299

Query: 177 LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSN 236
           L +LK   +S N  +     S  N   L  L +  N    E+         NL  L LS+
Sbjct: 300 LSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSH 359

Query: 237 NSLEGHMFSRN--FNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG 289
           + +E          NL++L+ L L  N  +    ++  +C  LE L L    L  
Sbjct: 360 DDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKV 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 =  110 bits (278), Expect = 6e-27
 Identities = 69/315 (21%), Positives = 115/315 (36%), Gaps = 20/315 (6%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHF-QIPISLEPLFNHSRLKIFYAD 60
            S+  +++  +    +ISS+     + ++EL L+  H  ++P     L   S LK     
Sbjct: 254 MSVESINLQKHYFF-NISSNTFHCFSGLQELDLTATHLSELP---SGLVGLSTLKKLVLS 309

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG-E 119
            N+       S    +    L  LS+  +     +    L +  +L  +DLSH  +   +
Sbjct: 310 ANKFENLCQIS---ASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSD 366

Query: 120 FPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS 179
                L N + L++L L  +               LE LD++    +          L  
Sbjct: 367 CCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHL 426

Query: 180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAV--GCVNLESLALSNN 237
           LK  N+S + LD S    F  +  L+ L+L  N       +          LE L LS  
Sbjct: 427 LKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFC 486

Query: 238 SLEG---HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG--NVN 292
            L     H F+   +L  +  + L  NR      ++LS    +  L L +N +S      
Sbjct: 487 DLSSIDQHAFT---SLKMMNHVDLSHNRLTSSSIEALSHLKGIY-LNLASNHISIILPSL 542

Query: 293 VPSSPANTLFNLSQN 307
           +P        NL QN
Sbjct: 543 LPILSQQRTINLRQN 557

>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 =  100 bits (251), Expect = 2e-23
 Identities = 56/318 (17%), Positives = 104/318 (32%), Gaps = 36/318 (11%)

Query: 1   MTSLRILDVSSNQLTG-----------------------SISSSPLVHLTSIEELMLSNN 37
              L  L +++N L                         SI   PL +  ++E L L +N
Sbjct: 80  QHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSN 139

Query: 38  HFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFP 97
           H    I L   F   +LK+    NN ++     S   ++   Q  +LSL+ +  D     
Sbjct: 140 HISS-IKLPKGFPTEKLKVLDFQNNAIH---YLSKEDMSSLQQATNLSLNLNGNDIAGIE 195

Query: 98  KFLYHQHDLALVDLSHIKMNGEFPTWLLENN-TKLETLFLVNDSLTGPFRLPI--HSHRW 154
              +       ++    +        L  +    L      +                  
Sbjct: 196 PGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMS 255

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQL 214
           +E +++  + F  +I          L+  +++   L   +PS    ++ L+ L LS N+ 
Sbjct: 256 VESINLQKHYFF-NISSNTFHCFSGLQELDLTATHL-SELPSGLVGLSTLKKLVLSANKF 313

Query: 215 TGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNF-NLTNLEWLQLGGNR--FVGEIPQSL 271
              + +  A    +L  L++  N+    + +    NL NL  L L  +           L
Sbjct: 314 EN-LCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQL 372

Query: 272 SKCSSLEGLYLNNNSLSG 289
              S L+ L L+ N    
Sbjct: 373 RNLSHLQSLNLSYNEPLS 390

>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 = 88.9 bits (221), Expect = 1e-19
 Identities = 47/296 (15%), Positives = 96/296 (32%), Gaps = 13/296 (4%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           + +L  LD++  Q+   I          ++ L+L+ N     ++   L     LK  +  
Sbjct: 56  LINLTFLDLTRCQIY-WIHEDTFQSQHRLDTLVLTANPLIF-MAETALSGPKALKHLFFI 113

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
              +++        +     L SL L S++      PK    +  L ++D  +  ++   
Sbjct: 114 QTGISSIDFIP---LHNQKTLESLYLGSNHISSIKLPKGFPTEK-LKVLDFQNNAIH-YL 168

Query: 121 PTWLLENNTKLETLFL-VNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEI-GDILP 178
               + +  +   L L +N +               + L+         I   +    + 
Sbjct: 169 SKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQ 228

Query: 179 SLKFFNISMNALDGSIPSSFGNMNF--LRVLDLSNNQLTGEIPEHLAVGCVNLESLALSN 236
           SL          +   P+ F  +    +  ++L  +                L+ L L+ 
Sbjct: 229 SLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNISSNTFH-CFSGLQELDLTA 287

Query: 237 NSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVN 292
             L   + S    L+ L+ L L  N+F      S S   SL  L +  N+    + 
Sbjct: 288 THLS-ELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELG 342

>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 = 82.8 bits (205), Expect = 2e-17
 Identities = 39/229 (17%), Positives = 71/229 (31%), Gaps = 11/229 (4%)

Query: 101 YHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDI 160
             +      +  ++ +N E P  L  +    E L    + L             L FLD+
Sbjct: 9   IEKEVNKTYNCENLGLN-EIPGTLPNS---TECLEFSFNVLPTIQNTTFSRLINLTFLDL 64

Query: 161 SNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPE 220
           +       I  +       L    ++ N L     ++      L+ L      ++     
Sbjct: 65  TRCQIY-WIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFI 123

Query: 221 HLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGL 280
            L      LESL L +N +      + F    L+ L    N       + +S       L
Sbjct: 124 PLH-NQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNL 182

Query: 281 YL--NNNSLSG---NVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLH 324
            L  N N ++G        +   +  F  +QN       + +S + +L 
Sbjct: 183 SLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLW 231

>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 = 80.1 bits (198), Expect = 1e-16
 Identities = 46/291 (15%), Positives = 85/291 (29%), Gaps = 36/291 (12%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
            S   L+ S N L  +I ++    L ++  L L+       I  +   +  RL       
Sbjct: 33  NSTECLEFSFNVLP-TIQNTTFSRLINLTFLDLTRCQIYW-IHEDTFQSQHRLDTLVLTA 90

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
           N L         +             +                 L  +      ++    
Sbjct: 91  NPL-------IFMAETALS----GPKA-----------------LKHLFFIQTGISSIDF 122

Query: 122 TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLK 181
              L N   LE+L+L ++ ++            L+ LD  NN    ++  E    L    
Sbjct: 123 I-PLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNAIH-YLSKEDMSSLQQAT 180

Query: 182 FFNISMNALD-GSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLA-VGCVNLESLALSNNSL 239
             ++++N  D   I     +    + L+    Q    I + L      +L      +   
Sbjct: 181 NLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDD 240

Query: 240 EG--HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
           E             ++E + L  + F      +    S L+ L L    LS
Sbjct: 241 EDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLS 291

>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 =  109 bits (274), Expect = 2e-26
 Identities = 50/308 (16%), Positives = 106/308 (34%), Gaps = 32/308 (10%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ-IPISLEPLFNHSRLKIFYA 59
           M  L +L+   NQL G + +        +  L L+ N    IP +        +++    
Sbjct: 329 MKKLGMLECLYNQLEGKLPA--FGSEIKLASLNLAYNQITEIPANF--CGFTEQVENLSF 384

Query: 60  DNNEL-----NAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHI 114
            +N+L       +      + A +F  N +          +     +   +++ ++LS+ 
Sbjct: 385 AHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPL-DPTPFKGINVSSINLSNN 443

Query: 115 KMNGEFPTWLLENNTKLETLFLVNDSLTG-------PFRLPIHSHRWLEFLDISNNNFRC 167
           +++  FP  L    + L ++ L+ + LT               +   L  +D+  N    
Sbjct: 444 QISK-FPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNKLT- 501

Query: 168 HIPVEIGDI-LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSN------NQLTGEIPE 220
            +  +     LP L   ++S N+     P+   N + L+   + N      N+   E PE
Sbjct: 502 KLSDDFRATTLPYLVGIDLSYNSFSK-FPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPE 560

Query: 221 HLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGL 280
            +   C +L  L + +N +     +      N+  L +  N  +      +         
Sbjct: 561 GIT-LCPSLTQLQIGSNDIRK--VNEKI-TPNISVLDIKDNPNISIDLSYVCPYIEAGMY 616

Query: 281 YLNNNSLS 288
            L  +   
Sbjct: 617 MLFYDKTQ 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 =  107 bits (270), Expect = 6e-26
 Identities = 34/299 (11%), Positives = 84/299 (28%), Gaps = 21/299 (7%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
              +  L +     +G +  + +  LT +E L L ++  ++   L      S        
Sbjct: 80  NGRVTGLSLEGFGASGRVPDA-IGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQK 138

Query: 61  NNELNAEITQSHSLIAPN--FQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG 118
                                 L    ++SD     I  K          +      +  
Sbjct: 139 QKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSI-KKSSRITLKDTQIGQLSNNITF 197

Query: 119 EFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILP 178
                 +   TKL   ++ N             +   E+             ++  + L 
Sbjct: 198 VSKA--VMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKT-----EDLKWDN-LK 249

Query: 179 SLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVG-------CVNLES 231
            L    +        +P+    +  +++++++ N+                      ++ 
Sbjct: 250 DLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQI 309

Query: 232 LALSNNSL-EGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG 289
           + +  N+L    + +    +  L  L+   N+  G++P +      L  L L  N ++ 
Sbjct: 310 IYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLP-AFGSEIKLASLNLAYNQITE 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 =  107 bits (269), Expect = 1e-25
 Identities = 52/320 (16%), Positives = 108/320 (33%), Gaps = 42/320 (13%)

Query: 1   MTSLRILDVSSNQLTGSISS-------SPLVHLTSIEELMLSNNHFQ-IPISLEPLFNHS 52
           +  +++++V+ N+              +       I+ + +  N+ +  P+    L    
Sbjct: 272 LPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETS-LQKMK 330

Query: 53  RLKIFYADNNELNA---EITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALV 109
           +L +     N+L            L + N   N ++         I   F      +  +
Sbjct: 331 KLGMLECLYNQLEGKLPAFGSEIKLASLNLAYNQIT--------EIPANFCGFTEQVENL 382

Query: 110 DLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTG-------PFRLPIHSHRWLEFLDISN 162
             +H K+      +  ++ + +  +    + +         P          +  +++SN
Sbjct: 383 SFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSN 442

Query: 163 NNFRCHIPVEIGDILPSLKFFNISMNALDG-------SIPSSFGNMNFLRVLDLSNNQLT 215
           N      P E+      L   N+  N L             +F N   L  +DL  N+LT
Sbjct: 443 NQIS-KFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNKLT 501

Query: 216 GEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLG------GNRFVGEIPQ 269
               +  A     L  + LS NS      ++  N + L+   +       GNR + E P+
Sbjct: 502 KLSDDFRATTLPYLVGIDLSYNSFSK-FPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPE 560

Query: 270 SLSKCSSLEGLYLNNNSLSG 289
            ++ C SL  L + +N +  
Sbjct: 561 GITLCPSLTQLQIGSNDIRK 580

>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 =  106 bits (266), Expect = 3e-25
 Identities = 47/304 (15%), Positives = 91/304 (29%), Gaps = 31/304 (10%)

Query: 1   MTSLRILDVSSNQLTGSISSSP---LVHLTSIEELMLSNNHFQ-IPISLEPLFNHSRLKI 56
           +T L +L + S+    +        +    S E+      H+Q   +  +P  + S L  
Sbjct: 104 LTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSDLIK 163

Query: 57  FYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKM 116
              +++     I +S  +      L    +     +     K +     L    + +   
Sbjct: 164 DCINSDPQQKSIKKSSRI-----TLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNSPF 218

Query: 117 NGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI 176
             E      EN                   L   + + L  +++ N      +P  +   
Sbjct: 219 VAENICEAWENEN------SEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKA- 271

Query: 177 LPSLKFFNISMNAL--------DGSIPSSFGNMNFLRVLDLSNNQL-TGEIPEHLAVGCV 227
           LP ++  N++ N          D    +       ++++ +  N L T  +   L     
Sbjct: 272 LPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQ-KMK 330

Query: 228 NLESLALSNNSLEGHM--FSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNN 285
            L  L    N LEG +  F    +   L  L L  N+              +E L   +N
Sbjct: 331 KLGMLECLYNQLEGKLPAFG---SEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHN 387

Query: 286 SLSG 289
            L  
Sbjct: 388 KLKY 391

>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 =  104 bits (262), Expect = 8e-25
 Identities = 45/306 (14%), Positives = 103/306 (33%), Gaps = 33/306 (10%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
                 +   SN +T  +S + ++ LT + +  + N+ F      E  + +        +
Sbjct: 182 TLKDTQIGQLSNNIT-FVSKA-VMRLTKLRQFYMGNSPFVAENICE-AWENENS-----E 233

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSH------- 113
             +           +     L  + + +      + P FL    ++ L++++        
Sbjct: 234 YAQQYKTEDLKWDNLK---DLTDVEVYNCPNLTKL-PTFLKALPEMQLINVACNRGISGE 289

Query: 114 -IKMNGEFPTWLLENNTKLETLFLVNDSL-TGPFRLPIHSHRWLEFLDISNNNFRCHIPV 171
            +K + +          K++ +++  ++L T P    +   + L  L+   N     +P 
Sbjct: 290 QLKDDWQALADA-PVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLP- 347

Query: 172 EIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVG-CVNLE 230
             G     L   N++ N +     +  G    +  L  ++N+L   IP          + 
Sbjct: 348 AFGS-EIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLK-YIPNIFDAKSVSVMS 405

Query: 231 SLALSNNSLEG-------HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLN 283
           ++  S N +          +    F   N+  + L  N+      +  S  S L  + L 
Sbjct: 406 AIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLM 465

Query: 284 NNSLSG 289
            N L+ 
Sbjct: 466 GNMLTE 471

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

 Score = 71.2 bits (175), Expect = 1e-13
 Identities = 23/213 (10%), Positives = 56/213 (26%), Gaps = 26/213 (12%)

Query: 112 SHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPV 171
             + M G  P   L +N ++  L L     +G     I     LE L + ++  + +   
Sbjct: 64  KELDMWGAQPGVSLNSNGRVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNER- 122

Query: 172 EIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLA-VGCVNLE 230
                                  P                        ++       +L 
Sbjct: 123 --------------------LFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSDLI 162

Query: 231 SLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGN 290
              ++++  +  +   +        +    N     + +++ + + L   Y+ N+     
Sbjct: 163 KDCINSDPQQKSIKKSSRITLKDTQIGQLSNNI-TFVSKAVMRLTKLRQFYMGNSPFVA- 220

Query: 291 VNVPSSPANTLFNLSQNSRRFTSSISHSHLLNL 323
                  A    N     +  T  +   +L +L
Sbjct: 221 --ENICEAWENENSEYAQQYKTEDLKWDNLKDL 251

>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 = 59.3 bits (144), Expect = 8e-10
 Identities = 19/127 (14%), Positives = 39/127 (30%), Gaps = 5/127 (3%)

Query: 183 FNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGH 242
           FN  ++        S  +   +  L L     +G +P+ +      LE LAL ++  + +
Sbjct: 62  FNKELDMWGAQPGVSLNSNGRVTGLSLEGFGASGRVPDAIG-QLTELEVLALGSHGEKVN 120

Query: 243 MFSRNF----NLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPA 298
                        + E  Q     +         +    + +    NS     ++  S  
Sbjct: 121 ERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSR 180

Query: 299 NTLFNLS 305
            TL +  
Sbjct: 181 ITLKDTQ 187

>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 =  106 bits (266), Expect = 2e-25
 Identities = 52/309 (16%), Positives = 98/309 (31%), Gaps = 17/309 (5%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
            ++    ++      S        L ++  + L+    +    LE +  H + +      
Sbjct: 261 VTIDEFRLTYTNDF-SDDIVKFHCLANVSAMSLAGVSIK---YLEDVPKHFKWQSLSIIR 316

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
            +L    T           L SL+L+ + G        L     L+ +DLS   ++    
Sbjct: 317 CQLKQFPTLDLP------FLKSLTLTMNKGSISFKKVALPS---LSYLDLSRNALSFSGC 367

Query: 122 -TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
            ++       L  L L  +               L+ LD  ++  +          L  L
Sbjct: 368 CSYSDLGTNSLRHLDLSFNGAIIMSA-NFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKL 426

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
            + +IS           F  +  L  L ++ N        ++     NL  L LS   LE
Sbjct: 427 LYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLE 486

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANT 300
              +     L  L+ L +  N  +       ++  SL  L  + N +  +  +      +
Sbjct: 487 QISWGVFDTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFNRIETSKGILQHFPKS 546

Query: 301 L--FNLSQN 307
           L  FNL+ N
Sbjct: 547 LAFFNLTNN 555

>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 =  103 bits (258), Expect = 3e-24
 Identities = 50/263 (19%), Positives = 88/263 (33%), Gaps = 11/263 (4%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
               + L +   QL       P + L  ++ L L+ N   I            L      
Sbjct: 306 HFKWQSLSIIRCQLK----QFPTLDLPFLKSLTLTMNKGSIS---FKKVALPSLSYLDLS 358

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            N L+     S+S +  N  L  L LS +     I         +L  +D  H  +    
Sbjct: 359 RNALSFSGCCSYSDLGTN-SLRHLDLSFN--GAIIMSANFMGLEELQHLDFQHSTLKRVT 415

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
                 +  KL  L +   +    F         L  L ++ N+F+ +    +     +L
Sbjct: 416 EFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNL 475

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
            F ++S   L+      F  ++ L++L++S+N L      H      +L +L  S N +E
Sbjct: 476 TFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHYN-QLYSLSTLDCSFNRIE 534

Query: 241 GHMFSRNFNLTNLEWLQLGGNRF 263
                      +L +  L  N  
Sbjct: 535 TSKGILQHFPKSLAFFNLTNNSV 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 = 88.9 bits (221), Expect = 1e-19
 Identities = 47/298 (15%), Positives = 103/298 (34%), Gaps = 20/298 (6%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           + +L+ L+V+ N +      +   +LT++  + LS N+ Q  I++  L            
Sbjct: 127 LITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQT-ITVNDLQFLRENPQVNLS 185

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            +     I           +L+ L+L  ++    I    L +   L +  L   +   E 
Sbjct: 186 LDMSLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDER 245

Query: 121 PTWLLENNT-------KLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEI 173
              + E +         ++   L   +      +  H    +  + ++  + +    +E 
Sbjct: 246 NLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIK---YLED 302

Query: 174 GDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLA 233
                  +  +I    L         ++ FL+ L L+ N+ +    +   V   +L  L 
Sbjct: 303 VPKHFKWQSLSIIRCQLKQ---FPTLDLPFLKSLTLTMNKGSISFKK---VALPSLSYLD 356

Query: 234 LSNNSLE--GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG 289
           LS N+L   G     +    +L  L L  N  +  +  +      L+ L   +++L  
Sbjct: 357 LSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAI-IMSANFMGLEELQHLDFQHSTLKR 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 = 81.6 bits (202), Expect = 4e-17
 Identities = 44/336 (13%), Positives = 99/336 (29%), Gaps = 46/336 (13%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
           +S + +D+S N L   + S    + + ++ L LS    +  I  +       L       
Sbjct: 32  SSTKNIDLSFNPLK-ILKSYSFSNFSELQWLDLSRCEIET-IEDKAWHGLHHLSNLILTG 89

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
           N +    + S    +    L +L                           + +       
Sbjct: 90  NPIQ---SFSPGSFSGLTSLENLVAVE-----------------------TKLA---SLE 120

Query: 122 TWLLENNTKLETLFLVNDSLTG-PFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
           ++ +     L+ L + ++ +          +   L  +D+S N  +  I V     L   
Sbjct: 121 SFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQ-TITVNDLQFLREN 179

Query: 181 KFF----NISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSN 236
                  ++S+N +D     +F  +  L  L L  N  +  I +        L    L  
Sbjct: 180 PQVNLSLDMSLNPIDFIQDQAFQGIK-LHELTLRGNFNSSNIMKTCLQNLAGLHVHRLIL 238

Query: 237 NSLEGHMFSRNFNLTNLE--------WLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
              +       F  + +E          +L       +        +++  + L   S+ 
Sbjct: 239 GEFKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIK 298

Query: 289 GNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLH 324
              +VP        ++ +   +   ++    L +L 
Sbjct: 299 YLEDVPKHFKWQSLSIIRCQLKQFPTLDLPFLKSLT 334

>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 = 79.7 bits (197), Expect = 2e-16
 Identities = 53/335 (15%), Positives = 112/335 (33%), Gaps = 23/335 (6%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
            + L+ LD+S  ++      +    L  +  L+L+ N  Q   S       + L+   A 
Sbjct: 55  FSELQWLDLSRCEIETIEDKA-WHGLHHLSNLILTGNPIQS-FSPGSFSGLTSLENLVAV 112

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG-- 118
             +L +  +     I     L  L+++ ++      P +  +  +L  VDLS+  +    
Sbjct: 113 ETKLASLESFP---IGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTIT 169

Query: 119 -EFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDIL 177
                +L EN     +L +  + +           + L  L +  N    +I       L
Sbjct: 170 VNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIK-LHELTLRGNFNSSNIMKTCLQNL 228

Query: 178 PSLKFFNISMNALDGSI------PSSFGNMNFLRV--LDLSNNQLTGEIPEHLAVGCVNL 229
             L    + +             PS    +  + +    L+      +          N+
Sbjct: 229 AGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFH-CLANV 287

Query: 230 ESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG 289
            +++L+  S++             + L +   +        L     L+ L L  N  S 
Sbjct: 288 SAMSLAGVSIKY--LEDVPKHFKWQSLSIIRCQLKQFPTLDLP---FLKSLTLTMNKGSI 342

Query: 290 NVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLH 324
           +    + P+ +  +LS+N+  F+   S+S L    
Sbjct: 343 SFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNS 377

>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 = 75.5 bits (186), Expect = 4e-15
 Identities = 31/135 (22%), Positives = 54/135 (40%), Gaps = 11/135 (8%)

Query: 158 LDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGE 217
               +      +P    DI  S K  ++S N L      SF N + L+ LDLS  ++   
Sbjct: 16  YQCMDQKLS-KVP---DDIPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETI 71

Query: 218 IPEHLAVGCVNLESLALSNNSLEG---HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKC 274
             +    G  +L +L L+ N ++      FS    LT+LE L     +        + + 
Sbjct: 72  EDKAWH-GLHHLSNLILTGNPIQSFSPGSFS---GLTSLENLVAVETKLASLESFPIGQL 127

Query: 275 SSLEGLYLNNNSLSG 289
            +L+ L + +N +  
Sbjct: 128 ITLKKLNVAHNFIHS 142

>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 = 35/226 (15%), Positives = 65/226 (28%), Gaps = 9/226 (3%)

Query: 119 EFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILP 178
              ++   N ++L+ L L    +        H    L  L ++ N  +          L 
Sbjct: 46  ILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQ-SFSPGSFSGLT 104

Query: 179 SLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNS 238
           SL+        L        G +  L+ L++++N +             NL  + LS N 
Sbjct: 105 SLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNY 164

Query: 239 LEG---HMFSRNFNLT-NLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVP 294
           ++    +              L +  N     I     +   L  L L  N  S N+   
Sbjct: 165 IQTITVNDLQFLRENPQVNLSLDMSLNPI-DFIQDQAFQGIKLHELTLRGNFNSSNIMKT 223

Query: 295 SS---PANTLFNLSQNSRRFTSSISHSHLLNLHGICKEYAKEFARN 337
                    +  L     +   ++       + G+C     EF   
Sbjct: 224 CLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLT 269

>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 = 48.5 bits (116), Expect = 2e-06
 Identities = 19/101 (18%), Positives = 40/101 (39%), Gaps = 11/101 (10%)

Query: 192 GSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEG---HMFSRNF 248
           GS+      +  +      + +L+ ++P+ +     + +++ LS N L+    + FS   
Sbjct: 2   GSLNPCIEVVPNITY-QCMDQKLS-KVPDDIP---SSTKNIDLSFNPLKILKSYSFS--- 53

Query: 249 NLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG 289
           N + L+WL L          ++      L  L L  N +  
Sbjct: 54  NFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQS 94

>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 = 91.1 bits (227), Expect = 9e-21
 Identities = 62/307 (20%), Positives = 125/307 (40%), Gaps = 28/307 (9%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +T+L  L+++ NQ+T     SPL +L  +  L +  N      +L+ L N   L+  Y +
Sbjct: 65  LTNLEYLNLNGNQIT---DISPLSNLVKLTNLYIGTNKITDISALQNLTN---LRELYLN 118

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            + ++ +I+   +L     ++ SL+L +++    +    L +   L  + ++  K+    
Sbjct: 119 EDNIS-DISPLANLT----KMYSLNLGANHNLSDL--SPLSNMTGLNYLTVTESKVKDVT 171

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
           P   + N T L +L L  + +      P+ S   L +     N      PV     +  L
Sbjct: 172 P---IANLTDLYSLSLNYNQIEDI--SPLASLTSLHYFTAYVNQITDITPVA---NMTRL 223

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
               I  N +    P    N++ L  L++  NQ++      +      L+ L + +N + 
Sbjct: 224 NSLKIGNNKITDLSP--LANLSQLTWLEIGTNQISD--INAVK-DLTKLKMLNVGSNQIS 278

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANT 300
               S   NL+ L  L L  N+   E  + +   ++L  L+L+ N ++    + S     
Sbjct: 279 D--ISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNHITDIRPLASLSKMD 336

Query: 301 LFNLSQN 307
             + +  
Sbjct: 337 SADFANQ 343

>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 = 86.8 bits (216), Expect = 3e-19
 Identities = 61/288 (21%), Positives = 116/288 (40%), Gaps = 28/288 (9%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +  L  L + +N++T     S L +LT++ EL L+ ++      + PL N +++      
Sbjct: 87  LVKLTNLYIGTNKIT---DISALQNLTNLRELYLNEDNIS---DISPLANLTKMYSLNLG 140

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            N   ++++   ++      LN L+++            + +  DL  + L++ ++    
Sbjct: 141 ANHNLSDLSPLSNMT----GLNYLTVTESKVKDVTP---IANLTDLYSLSLNYNQIEDIS 193

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
           P   L + T L       + +T     P+ +   L  L I NN      P+     L  L
Sbjct: 194 P---LASLTSLHYFTAYVNQITDI--TPVANMTRLNSLKIGNNKITDLSPLAN---LSQL 245

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
            +  I  N +  S  ++  ++  L++L++ +NQ++      L      L SL L+NN L 
Sbjct: 246 TWLEIGTNQI--SDINAVKDLTKLKMLNVGSNQISD--ISVLN-NLSQLNSLFLNNNQLG 300

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
                    LTNL  L L  N      P  L+  S ++     N  + 
Sbjct: 301 NEDMEVIGGLTNLTTLFLSQNHITDIRP--LASLSKMDSADFANQVIK 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 = 79.5 bits (197), Expect = 7e-17
 Identities = 49/289 (16%), Positives = 107/289 (37%), Gaps = 52/289 (17%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +       +    +T  +       L SI +L+++        S++ +   + L+    +
Sbjct: 21  LAEGIRAVLQKASVTDVV---TQEELESITKLVVAGEKVA---SIQGIEYLTNLEYLNLN 74

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            N++        S ++   +L +L + ++                  + D+S        
Sbjct: 75  GNQIT-----DISPLSNLVKLTNLYIGTNK-----------------ITDISA------- 105

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
               L+N T L  L+L  D+++     P+ +   +  L++  N+    +   + + +  L
Sbjct: 106 ----LQNLTNLRELYLNEDNISDI--SPLANLTKMYSLNLGANHNLSDLS-PLSN-MTGL 157

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
            +  ++ + +    P    N+  L  L L+ NQ+    P  LA    +L       N + 
Sbjct: 158 NYLTVTESKVKDVTP--IANLTDLYSLSLNYNQIEDISP--LA-SLTSLHYFTAYVNQIT 212

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG 289
               +   N+T L  L++G N+     P  L+  S L  L +  N +S 
Sbjct: 213 D--ITPVANMTRLNSLKIGNNKITDLSP--LANLSQLTWLEIGTNQISD 257

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 57.9 bits (141), Expect = 1e-09
 Identities = 32/189 (16%), Positives = 65/189 (34%), Gaps = 29/189 (15%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQL 214
                +   +    +  E    L S+    ++   +  +       +  L  L+L+ NQ+
Sbjct: 24  GIRAVLQKASVTDVVTQEE---LESITKLVVAGEKV--ASIQGIEYLTNLEYLNLNGNQI 78

Query: 215 TGEIP-------EHLAV------------GCVNLESLALSNNSLEGHMFSRNFNLTNLEW 255
           T   P        +L +               NL  L L+ +++     S   NLT +  
Sbjct: 79  TDISPLSNLVKLTNLYIGTNKITDISALQNLTNLRELYLNEDNISD--ISPLANLTKMYS 136

Query: 256 LQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSI 315
           L LG N  + ++   LS  + L  L +  + +     + +       +L+ N  +     
Sbjct: 137 LNLGANHNLSDLS-PLSNMTGLNYLTVTESKVKDVTPIANLTDLYSLSLNYN--QIEDIS 193

Query: 316 SHSHLLNLH 324
             + L +LH
Sbjct: 194 PLASLTSLH 202

>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 = 90.5 bits (225), Expect = 4e-20
 Identities = 55/295 (18%), Positives = 115/295 (38%), Gaps = 23/295 (7%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
              L  L+++ N ++ ++      +L ++  L L +N  ++ I L      S L      
Sbjct: 55  FPHLEELELNENIVS-AVEPGAFNNLFNLRTLGLRSNRLKL-IPLGVFTGLSNLTKLDIS 112

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            N++         +    + L SL +  +    +I  +     + L  + L    +    
Sbjct: 113 ENKIV---ILLDYMFQDLYNLKSLEVGDN-DLVYISHRAFSGLNSLEQLTLEKCNLT-SI 167

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRW---LEFLDISNNNFRCHIPVEIGDIL 177
           PT  L +   L  L L + ++     +  +S +    L+ L+IS+  +   +        
Sbjct: 168 PTEALSHLHGLIVLRLRHLNIN---AIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLY-G 223

Query: 178 PSLKFFNISMNALDGSIPS-SFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSN 236
            +L   +I+   L  ++P  +  ++ +LR L+LS N ++  I   +    + L+ + L  
Sbjct: 224 LNLTSLSITHCNLT-AVPYLAVRHLVYLRFLNLSYNPIS-TIEGSMLHELLRLQEIQLVG 281

Query: 237 N---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
                +E + F     L  L  L + GN+             +LE L L++N L+
Sbjct: 282 GQLAVVEPYAFR---GLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILDSNPLA 333

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 84.0 bits (208), Expect = 5e-18
 Identities = 51/290 (17%), Positives = 99/290 (34%), Gaps = 39/290 (13%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
           T  R+LD+  N++  +++         +EEL L+ N     +      N   L+     +
Sbjct: 32  TETRLLDLGKNRIK-TLNQDEFASFPHLEELELNENIVSA-VEPGAFNNLFNLRTLGLRS 89

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
           N L                              I         +L  +D+S  K+     
Sbjct: 90  NRLKL----------------------------IPLGVFTGLSNLTKLDISENKIV-ILL 120

Query: 122 TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLK 181
            ++ ++   L++L + ++ L             LE L +   N    IP E    L  L 
Sbjct: 121 DYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLT-SIPTEALSHLHGLI 179

Query: 182 FFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---S 238
              +    ++     SF  +  L+VL++S+      +  +   G  NL SL++++    +
Sbjct: 180 VLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGL-NLTSLSITHCNLTA 238

Query: 239 LEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
           +         +L  L +L L  N         L +   L+ + L    L+
Sbjct: 239 VPYLAVR---HLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLA 285

>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 = 23/117 (19%), Positives = 46/117 (39%), Gaps = 7/117 (5%)

Query: 175 DILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLAL 234
            I    +  ++  N +       F +   L  L+L+ N ++  +         NL +L L
Sbjct: 29  GIPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVS-AVEPGAFNNLFNLRTLGL 87

Query: 235 SNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
            +N    +   +F+    L+NL  L +  N+ V  +        +L+ L + +N L 
Sbjct: 88  RSNRLKLIPLGVFT---GLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLV 141

>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 = 41.2 bits (97), Expect = 3e-04
 Identities = 27/167 (16%), Positives = 54/167 (32%), Gaps = 7/167 (4%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +  L +L +    +  +I       L  ++ L +S+  +   ++         L      
Sbjct: 175 LHGLIVLRLRHLNIN-AIRDYSFKRLYRLKVLEISHWPYLDTMT-PNCLYGLNLTSLSIT 232

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           +  L   +   +  +     L  L+LS +     I    L+    L  + L   ++    
Sbjct: 233 HCNLT-AV--PYLAVRHLVYLRFLNLSYNPIS-TIEGSMLHELLRLQEIQLVGGQLA-VV 287

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRC 167
             +       L  L +  + LT       HS   LE L + +N   C
Sbjct: 288 EPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILDSNPLAC 334

>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 = 89.9 bits (223), Expect = 1e-19
 Identities = 60/332 (18%), Positives = 119/332 (35%), Gaps = 28/332 (8%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHL--TSIEELMLSNNHFQIPISLEPLFNHSRLKIFY 58
              +       + +      +    L  +S+  L LS+      ++         LK+  
Sbjct: 239 AHHIMGAGFGFHNIK-DPDQNTFAGLARSSVRHLDLSHGFVFS-LNSRVFETLKDLKVLN 296

Query: 59  ADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG 118
              N++N     +         L  L+LS +     ++    Y    +A +DL    +  
Sbjct: 297 LAYNKIN---KIADEAFYGLDNLQVLNLSYNLLG-ELYSSNFYGLPKVAYIDLQKNHIA- 351

Query: 119 EFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILP 178
                  +   KL+TL L +++LT      IH    +  + +S N         +  I  
Sbjct: 352 IIQDQTFKFLEKLQTLDLRDNALTT-----IHFIPSIPDIFLSGNKLVT-----LPKINL 401

Query: 179 SLKFFNISMNALDG-SIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN 237
           +    ++S N L+   I      +  L++L L+ N+ +    +       +LE L L  N
Sbjct: 402 TANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGEN 461

Query: 238 SLEGHMFSRN-----FNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVN 292
            L+    +         L++L+ L L  N      P   S  ++L GL LN+N L+   +
Sbjct: 462 MLQLAWETELCWDVFEGLSHLQVLYLNHNYLNSLPPGVFSHLTALRGLSLNSNRLTVLSH 521

Query: 293 VPSSPANTLFNLSQNSRRFTSSISHSHLLNLH 324
                   + ++S+N      + +    ++L 
Sbjct: 522 NDLPANLEILDISRNQL---LAPNPDVFVSLS 550

>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 = 85.2 bits (211), Expect = 3e-18
 Identities = 54/350 (15%), Positives = 117/350 (33%), Gaps = 33/350 (9%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           + +   L +S N +  ++++S    L  ++ L L + +  + I  E   N   L+I    
Sbjct: 23  LNTTERLLLSFNYIR-TVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLG 81

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSS-DYGDGFIFPKFLYHQHDLALVDLSHIKMNGE 119
           ++++              F L  L L      D  +   +  +   L  +DLS  ++   
Sbjct: 82  SSKIY---FLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSL 138

Query: 120 FPTWLLENNTKLETLFLVNDSLTGPFRLPIHS--HRWLEFLDISNNNFRCHIPVEIGDIL 177
           +          L+++   ++ +       +     + L F  ++ N+    + V+ G  +
Sbjct: 139 YLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAANSLYSRVSVDWGKCM 198

Query: 178 PSLKFFNISM-----------------NALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPE 220
              +   + +                 NA+  S   S    + +       + +      
Sbjct: 199 NPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQN 258

Query: 221 HLAVGC-VNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSS 276
             A     ++  L LS+    SL   +F     L +L+ L L  N+      ++     +
Sbjct: 259 TFAGLARSSVRHLDLSHGFVFSLNSRVFE---TLKDLKVLNLAYNKINKIADEAFYGLDN 315

Query: 277 LEGLYLNNNSLS--GNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLH 324
           L+ L L+ N L    + N    P     +L +N        +   L  L 
Sbjct: 316 LQVLNLSYNLLGELYSSNFYGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQ 365

>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 = 71.8 bits (176), Expect = 7e-14
 Identities = 36/206 (17%), Positives = 67/206 (32%), Gaps = 7/206 (3%)

Query: 122 TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLK 181
           T + +     E L L  + +             L+ L++ +      I  E    LP+L+
Sbjct: 17  TQVPQVLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLR 76

Query: 182 FFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGE-IPEHLAVGCVNLESLALSNNSLE 240
             ++  + +    P +F  +  L  L L    L+   + +        L  L LS N + 
Sbjct: 77  ILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIR 136

Query: 241 GHMFSRNF-NLTNLEWLQLGGNRFVGEIPQSLS--KCSSLEGLYLNNNSLSGNVNVPSSP 297
                 +F  L +L+ +    N+        L   +  +L    L  NSL    +  S  
Sbjct: 137 SLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAANSLY---SRVSVD 193

Query: 298 ANTLFNLSQNSRRFTSSISHSHLLNL 323
                N  +N       +S +     
Sbjct: 194 WGKCMNPFRNMVLEILDVSGNGWTVD 219

>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 = 67.5 bits (165), Expect = 2e-12
 Identities = 37/223 (16%), Positives = 66/223 (29%), Gaps = 10/223 (4%)

Query: 110 DLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPF-RLPIHSHRWLEFLDISNNNFRCH 168
            LS   +             +L+ L L +        +    +   L  LD+ ++     
Sbjct: 30  LLSFNYIR-TVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIY-F 87

Query: 169 IPVEIGDILPSLKFFNISMNALDGSI--PSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGC 226
           +  +    L  L    +    L  ++     F N+  L  LDLS NQ+            
Sbjct: 88  LHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKL 147

Query: 227 VNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKC-SSLEGLYL 282
            +L+S+  S+N    +  H          L +  L  N     +     KC +    + L
Sbjct: 148 NSLKSIDFSSNQIFLVCEHELE-PLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVL 206

Query: 283 NNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHG 325
               +SGN        N    +S++         H        
Sbjct: 207 EILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGF 249

>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 = 65.6 bits (160), Expect = 8e-12
 Identities = 26/136 (19%), Positives = 46/136 (33%), Gaps = 13/136 (9%)

Query: 158 LDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGE 217
                 N    +P     +L + +   +S N +     SSF  +  L++L+L +      
Sbjct: 9   AFYRFCNLT-QVP----QVLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLT 63

Query: 218 IPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEI--PQSLS 272
           I +       NL  L L ++    L    F     L +L  L+L        +       
Sbjct: 64  IDKEAFRNLPNLRILDLGSSKIYFLHPDAFQ---GLFHLFELRLYFCGLSDAVLKDGYFR 120

Query: 273 KCSSLEGLYLNNNSLS 288
              +L  L L+ N + 
Sbjct: 121 NLKALTRLDLSKNQIR 136

>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 = 40.2 bits (94), Expect = 9e-04
 Identities = 40/236 (16%), Positives = 80/236 (33%), Gaps = 14/236 (5%)

Query: 3   SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNH-SRLKIFYADN 61
           +  ++ +S N+L        L+ +  ++ L+L+ N F    S +   +    L+  +   
Sbjct: 402 TANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSS-CSGDQTPSENPSLEQLFLGE 460

Query: 62  NELNAEITQS--HSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGE 119
           N L           +      L  L L+ +Y +  + P    H   L  + L+  ++   
Sbjct: 461 NMLQLAWETELCWDVFEGLSHLQVLYLNHNYLN-SLPPGVFSHLTALRGLSLNSNRLT-V 518

Query: 120 FPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS 179
                L  N  LE L +  + L             L  LDI++N F C    E+   +  
Sbjct: 519 LSHNDLPAN--LEILDISRNQLL---APNPDVFVSLSVLDITHNKFICEC--ELSTFINW 571

Query: 180 LKFFNISMNALDGSIPSSF-GNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLAL 234
           L   N+++      I   +  + + + +  LS      E         + +     
Sbjct: 572 LNHTNVTIAGPPADIYCVYPDSFSGVSLFSLSTEGCDEEEVLKSLKFSLFIVCTVT 627

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 87.4 bits (217), Expect = 2e-19
 Identities = 63/305 (20%), Positives = 123/305 (40%), Gaps = 29/305 (9%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
              + +L+++  Q+   I +    +  +I++L +  N  +  +      N   L +   +
Sbjct: 68  FRQVELLNLNDLQIE-EIDTYAFAYAHTIQKLYMGFNAIRY-LPPHVFQNVPLLTVLVLE 125

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            N+L+   +    +     +L +LS+S++  +  I          L  + LS  ++    
Sbjct: 126 RNDLS---SLPRGIFHNTPKLTTLSMSNNNLE-RIEDDTFQATTSLQNLQLSSNRLT-HV 180

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
              L+ +   L    +  + L+      +     +E LD S+N+    +    G +   L
Sbjct: 181 DLSLIPS---LFHANVSYNLLST-----LAIPIAVEELDASHNSIN-VVR---GPVNVEL 228

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
               +  N L  +  +   N   L  +DLS N+L  +I  H  V    LE L +SNN L 
Sbjct: 229 TILKLQHNNL--TDTAWLLNYPGLVEVDLSYNELE-KIMYHPFVKMQRLERLYISNNRLV 285

Query: 241 GHMFSRNF-NLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPAN 299
               +     +  L+ L L  N  +  + ++  +   LE LYL++NS+     +  S  +
Sbjct: 286 --ALNLYGQPIPTLKVLDLSHNHLL-HVERNQPQFDRLENLYLDHNSIV---TLKLSTHH 339

Query: 300 TLFNL 304
           TL NL
Sbjct: 340 TLKNL 344

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 80.1 bits (198), Expect = 8e-17
 Identities = 59/290 (20%), Positives = 102/290 (35%), Gaps = 27/290 (9%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
             +++ L +  N +   +      ++  +  L+L  N     +      N  +L      
Sbjct: 92  AHTIQKLYMGFNAIR-YLPPHVFQNVPLLTVLVLERNDLSS-LPRGIFHNTPKLTTLSMS 149

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           NN L                L +L LSS+          L H     +  L H  ++   
Sbjct: 150 NNNLE---RIEDDTFQATTSLQNLQLSSN---------RLTHVDLSLIPSLFHANVSYNL 197

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
            +  L     +E L   ++S+     +    +  L  L + +NN        +    P L
Sbjct: 198 LS-TLAIPIAVEELDASHNSIN---VVRGPVNVELTILKLQHNNLT-DTAWLLN--YPGL 250

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
              ++S N L+  +   F  M  L  L +SNN+L   +  +       L+ L LS+N L 
Sbjct: 251 VEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLV-ALNLYGQ-PIPTLKVLDLSHNHLL 308

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGN 290
            H+         LE L L  N  V  +  S     +L+ L L++N    N
Sbjct: 309 -HVERNQPQFDRLENLYLDHNSIV-TLKLST--HHTLKNLTLSHNDWDCN 354

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 73.9 bits (182), Expect = 9e-15
 Identities = 34/203 (16%), Positives = 75/203 (36%), Gaps = 11/203 (5%)

Query: 125 LENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFN 184
           L+ +     + +   +    F     +    + +   N+  R  +P  + D    ++  N
Sbjct: 17  LQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMR-KLPAALLDSFRQVELLN 75

Query: 185 ISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---SLEG 241
           ++   ++     +F   + ++ L +  N +   +P H+      L  L L  N   SL  
Sbjct: 76  LNDLQIEEIDTYAFAYAHTIQKLYMGFNAIR-YLPPHVFQNVPLLTVLVLERNDLSSLPR 134

Query: 242 HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTL 301
            +F    N   L  L +  N        +    +SL+ L L++N L+   +V  S   +L
Sbjct: 135 GIFH---NTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLT---HVDLSLIPSL 188

Query: 302 FNLSQNSRRFTSSISHSHLLNLH 324
           F+ + +    ++      +  L 
Sbjct: 189 FHANVSYNLLSTLAIPIAVEELD 211

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 70.8 bits (174), Expect = 9e-14
 Identities = 54/286 (18%), Positives = 108/286 (37%), Gaps = 22/286 (7%)

Query: 4   LRILDVSSNQLTGSISSSP-LVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNN 62
               DV  +  T  +      + L + + +   N+  +  +    L +  ++++   ++ 
Sbjct: 21  CVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRK-LPAALLDSFRQVELLNLNDL 79

Query: 63  ELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPT 122
           ++           A    +  L +  +    ++ P    +   L ++ L    ++   P 
Sbjct: 80  QIE---EIDTYAFAYAHTIQKLYMGFNAIR-YLPPHVFQNVPLLTVLVLERNDLS-SLPR 134

Query: 123 WLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKF 182
            +  N  KL TL + N++L         +   L+ L +S+N    H+ +    ++PSL  
Sbjct: 135 GIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLT-HVDL---SLIPSLFH 190

Query: 183 FNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGH 242
            N+S N L     S+      +  LD S+N +   +   +    V L  L L +N+L   
Sbjct: 191 ANVSYNLL-----STLAIPIAVEELDASHNSIN-VVRGPV---NVELTILKLQHNNLTD- 240

Query: 243 MFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
             +   N   L  + L  N     +     K   LE LY++NN L 
Sbjct: 241 -TAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLV 285

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 88.2 bits (219), Expect = 2e-19
 Identities = 47/289 (16%), Positives = 97/289 (33%), Gaps = 14/289 (4%)

Query: 3   SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNN 62
           ++    ++               LT++    L +   +    ++    +   +     N 
Sbjct: 258 TIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIE---RVKDFSYNFGWQHLELVNC 314

Query: 63  ELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG-EFP 121
           +     T           L  L+ +S+ G        L     L  +DLS   ++     
Sbjct: 315 KFGQFPTLKLK------SLKRLTFTSNKGGNAFSEVDLPS---LEFLDLSRNGLSFKGCC 365

Query: 122 TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLK 181
           +      T L+ L L  + +             LE LD  ++N +      +   L +L 
Sbjct: 366 SQSDFGTTSLKYLDLSFNGVIT-MSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLI 424

Query: 182 FFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEG 241
           + +IS      +    F  ++ L VL ++ N         +     NL  L LS   LE 
Sbjct: 425 YLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQ 484

Query: 242 HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGN 290
              +   +L++L+ L +  N+          + +SL+ ++L+ N    +
Sbjct: 485 LSPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLHTNPWDCS 533

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 84.0 bits (208), Expect = 6e-18
 Identities = 59/294 (20%), Positives = 104/294 (35%), Gaps = 23/294 (7%)

Query: 7   LDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELN- 65
           LD+S N +   I       +  + +L L NN   + +    +   + L++      E   
Sbjct: 182 LDLSLNPMN-FIQPGAFKEI-RLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRN 239

Query: 66  ----AEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
                +  +S      N  +    L+                 +++   L  + +     
Sbjct: 240 EGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKD 299

Query: 122 TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLK 181
                 N   + L LVN       + P    + L+ L  ++N    +   E+   LPSL+
Sbjct: 300 ---FSYNFGWQHLELVNCKFG---QFPTLKLKSLKRLTFTSNKGG-NAFSEVD--LPSLE 350

Query: 182 FFNISMNALD--GSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL 239
           F ++S N L   G    S      L+ LDLS N +   +  +   G   LE L   +++L
Sbjct: 351 FLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVI-TMSSNFL-GLEQLEHLDFQHSNL 408

Query: 240 EGHMFSRNF--NLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV 291
           +  M   +   +L NL +L +             +  SSLE L +  NS   N 
Sbjct: 409 K-QMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENF 461

>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 = 82.1 bits (203), Expect = 3e-17
 Identities = 50/298 (16%), Positives = 95/298 (31%), Gaps = 21/298 (7%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           + +L+ L+V+ N +          +LT++E L LS+N  Q  I    L    ++ +    
Sbjct: 123 LKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS-IYCTDLRVLHQMPLLNLS 181

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG-- 118
            +     +           +L+ L+L +++    +    +     L +  L   +     
Sbjct: 182 LDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEG 241

Query: 119 ---EFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFL---DISNNNFRCHIPVE 172
              +F    LE    L         L       I     L  +    + +          
Sbjct: 242 NLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFS 301

Query: 173 IGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESL 232
                  L+  N                +  L+ L  ++N+      E   V   +LE L
Sbjct: 302 YNFGWQHLELVNCKFGQF------PTLKLKSLKRLTFTSNKGGNAFSE---VDLPSLEFL 352

Query: 233 ALSNNSLEGHMFSRN--FNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
            LS N L          F  T+L++L L  N  +  +  +      LE L   +++L 
Sbjct: 353 DLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVI-TMSSNFLGLEQLEHLDFQHSNLK 409

>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 = 68.2 bits (167), Expect = 1e-12
 Identities = 50/337 (14%), Positives = 101/337 (29%), Gaps = 47/337 (13%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
            S + LD+S N L   + S        ++ L LS    Q  I      + S L       
Sbjct: 28  FSTKNLDLSFNPLR-HLGSYSFFSFPELQVLDLSRCEIQT-IEDGAYQSLSHLSTLILTG 85

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
           N +                              +          L  +      +     
Sbjct: 86  NPIQ----------------------------SLALGAFSGLSSLQKLVAVETNLA-SLE 116

Query: 122 TWLLENNTKLETLFLVNDSLT-GPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
            + + +   L+ L + ++ +          +   LE LD+S+N  +  I      +L  +
Sbjct: 117 NFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS-IYCTDLRVLHQM 175

Query: 181 KFF----NISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLAL-- 234
                  ++S+N ++   P +F  +  L  L L NN  +  + +    G   LE   L  
Sbjct: 176 PLLNLSLDLSLNPMNFIQPGAFKEIR-LHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVL 234

Query: 235 ----SNNSLEGHMFSRNFNLTNLEWLQLGGNR---FVGEIPQSLSKCSSLEGLYLNNNSL 287
               +  +LE    S    L NL   +        ++ +I    +  +++    L + ++
Sbjct: 235 GEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTI 294

Query: 288 SGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLH 324
               +   +       L         ++    L  L 
Sbjct: 295 ERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLT 331

>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 = 66.7 bits (163), Expect = 3e-12
 Identities = 44/223 (19%), Positives = 73/223 (32%), Gaps = 9/223 (4%)

Query: 119 EFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILP 178
              ++   +  +L+ L L    +         S   L  L ++ N  +  + +     L 
Sbjct: 42  HLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQ-SLALGAFSGLS 100

Query: 179 SLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN- 237
           SL+        L        G++  L+ L++++N +             NLE L LS+N 
Sbjct: 101 SLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNK 160

Query: 238 --SLEGHMFSRNFNLTNLEW-LQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVN-- 292
             S+          +  L   L L  N     I     K   L  L L NN  S NV   
Sbjct: 161 IQSIYCTDLRVLHQMPLLNLSLDLSLNPM-NFIQPGAFKEIRLHKLTLRNNFDSLNVMKT 219

Query: 293 -VPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGICKEYAKEF 334
            +       +  L     R   ++       L G+C    +EF
Sbjct: 220 CIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEF 262

>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 = 64.4 bits (157), Expect = 1e-11
 Identities = 30/133 (22%), Positives = 53/133 (39%), Gaps = 11/133 (8%)

Query: 159 DISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEI 218
                NF   IP    ++  S K  ++S N L      SF +   L+VLDLS  ++   I
Sbjct: 13  QCMELNFY-KIP---DNLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQ-TI 67

Query: 219 PEHLAVGCVNLESLALSNNSLEG---HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCS 275
            +       +L +L L+ N ++      FS    L++L+ L              +    
Sbjct: 68  EDGAYQSLSHLSTLILTGNPIQSLALGAFS---GLSSLQKLVAVETNLASLENFPIGHLK 124

Query: 276 SLEGLYLNNNSLS 288
           +L+ L + +N + 
Sbjct: 125 TLKELNVAHNLIQ 137

>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 = 60.1 bits (146), Expect = 4e-10
 Identities = 62/335 (18%), Positives = 121/335 (36%), Gaps = 34/335 (10%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
              L++LD+S  ++  +I       L+ +  L+L+ N  Q  ++L      S L+   A 
Sbjct: 51  FPELQVLDLSRCEIQ-TIEDGAYQSLSHLSTLILTGNPIQS-LALGAFSGLSSLQKLVAV 108

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
              L +     +  I     L  L+++ +    F  P++  +  +L  +DLS  K+    
Sbjct: 109 ETNLASL---ENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQ-SI 164

Query: 121 PTWLLENNTKLE----TLFLVNDSLT----GPFRLPIHSHRWLEFLDISNNNFRCHIPVE 172
               L    ++     +L L  + +     G F+        L  L + NN    ++   
Sbjct: 165 YCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEI-----RLHKLTLRNNFDSLNVMKT 219

Query: 173 IGDILPSLKFFNISMNALDGSI------PSSFGNMNFLRVLDLSNNQLTGEIPEHLAV-- 224
               L  L+   + +              S+   +  L + +     L   + + + +  
Sbjct: 220 CIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFN 279

Query: 225 GCVNLESLALSNNSLEG-HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLN 283
              N+ S +L + ++E    FS NF   +LE +     +F         K  SL+ L   
Sbjct: 280 CLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQF------PTLKLKSLKRLTFT 333

Query: 284 NNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHS 318
           +N      +    P+    +LS+N   F    S S
Sbjct: 334 SNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQS 368

>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 = 55.1 bits (133), Expect = 2e-08
 Identities = 42/198 (21%), Positives = 71/198 (35%), Gaps = 9/198 (4%)

Query: 1   MTSLRILDVSSNQLTG-SISSSPLVHLTSIEELMLSNNHFQIPISLEPLF-NHSRLKIFY 58
           + SL  LD+S N L+     S      TS++ L LS N      ++   F    +L+   
Sbjct: 346 LPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVI---TMSSNFLGLEQLEHLD 402

Query: 59  ADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG 118
             ++ L        S+      L  L +S  +     F         L ++ ++      
Sbjct: 403 FQHSNLK--QMSEFSVFLSLRNLIYLDISHTHTR-VAFNGIFNGLSSLEVLKMAGNSFQE 459

Query: 119 EFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILP 178
            F   +      L  L L    L        +S   L+ L++++N  +  +P  I D L 
Sbjct: 460 NFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLK-SVPDGIFDRLT 518

Query: 179 SLKFFNISMNALDGSIPS 196
           SL+   +  N  D S P 
Sbjct: 519 SLQKIWLHTNPWDCSCPR 536

>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 = 88.0 bits (218), Expect = 3e-19
 Identities = 65/288 (22%), Positives = 104/288 (36%), Gaps = 52/288 (18%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ-IPISLEPLFNHSRLKIFYAD 60
             +  L +  N LT S+ +        +  L +S N    +P+    L     L IF   
Sbjct: 61  AHITTLVIPDNNLT-SLPAL----PPELRTLEVSGNQLTSLPVLPPGL---LELSIFSNP 112

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
              L A  +    L     QL SL            P       +L    +S  ++    
Sbjct: 113 LTHLPALPSGLCKLWIFGNQLTSL------------PVLPPGLQEL---SVSDNQLA-SL 156

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
           P       ++L  L+  N+ LT    LP+     L+ L +S+N     +P    + L  L
Sbjct: 157 PALP----SELCKLWAYNNQLT---SLPMLPSG-LQELSVSDNQLA-SLPTLPSE-LYKL 206

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
             +N  + +L             L+ L +S N+LT  +P   +     L+ L +S N L 
Sbjct: 207 WAYNNRLTSLPALPSG-------LKELIVSGNRLT-SLPVLPS----ELKELMVSGNRLT 254

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
               S     + L  L +  N+    +P+SL   SS   + L  N LS
Sbjct: 255 ----SLPMLPSGLLSLSVYRNQLT-RLPESLIHLSSETTVNLEGNPLS 297

>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 = 77.6 bits (191), Expect = 8e-16
 Identities = 57/291 (19%), Positives = 95/291 (32%), Gaps = 60/291 (20%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ-IPISLEPLFNHSRLKIFYAD 60
               +L+V  + LT    + P      I  L++ +N+   +P           L+     
Sbjct: 40  NGNAVLNVGESGLT----TLPDCLPAHITTLVIPDNNLTSLPALP------PELRTLEVS 89

Query: 61  NNELN---AEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMN 117
            N+L            L   +  L  L                     L  + +   ++ 
Sbjct: 90  GNQLTSLPVLPPGLLELSIFSNPLTHLPALPS---------------GLCKLWIFGNQLT 134

Query: 118 GEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDIL 177
              P         L+ L + ++ L     LP      L  L   NN     +P+      
Sbjct: 135 -SLPVLP----PGLQELSVSDNQLASLPALPSE----LCKLWAYNNQLT-SLPMLPS--- 181

Query: 178 PSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN 237
             L+  ++S N L  S+P+       L  L   NN+LT  +P   +     L+ L +S N
Sbjct: 182 -GLQELSVSDNQL-ASLPTLPSE---LYKLWAYNNRLT-SLPALPS----GLKELIVSGN 231

Query: 238 SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
            L     S     + L+ L + GNR    +P      S L  L +  N L+
Sbjct: 232 RLT----SLPVLPSELKELMVSGNRLT-SLPMLP---SGLLSLSVYRNQLT 274

>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 = 69.2 bits (169), Expect = 5e-13
 Identities = 66/322 (20%), Positives = 105/322 (32%), Gaps = 55/322 (17%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +  L I       L            + + +L +  N      SL  L     L+     
Sbjct: 103 LLELSIFSNPLTHLPAL--------PSGLCKLWIFGNQLT---SLPVLPPG--LQELSVS 149

Query: 61  NNELN---AEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMN 117
           +N+L    A  ++   L A N QL SL            P       +L    +S  ++ 
Sbjct: 150 DNQLASLPALPSELCKLWAYNNQLTSL------------PMLPSGLQEL---SVSDNQLA 194

Query: 118 GEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDIL 177
              PT      ++L  L+  N+ LT    LP      L+ L +S N     +PV      
Sbjct: 195 -SLPTLP----SELYKLWAYNNRLT---SLPALPSG-LKELIVSGNRLT-SLPVLPS--- 241

Query: 178 PSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN 237
             LK   +S N L  S+P        L  L +  NQLT  +PE L     +  ++ L  N
Sbjct: 242 -ELKELMVSGNRLT-SLPMLPSG---LLSLSVYRNQLT-RLPESLI-HLSSETTVNLEGN 294

Query: 238 SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSP 297
            L          +T+         RF      +  +  +L       + L        +P
Sbjct: 295 PLSERTLQALREITSAPGYSGPIIRFDMAGASAPRETRALH--LAAADWLVPAREGEPAP 352

Query: 298 ANTLFNLSQ--NSRRFTSSISH 317
           A+      Q  N+  F+  +  
Sbjct: 353 ADRWHMFGQEDNADAFSLFLDR 374

>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 = 68.4 bits (167), Expect = 9e-13
 Identities = 38/181 (20%), Positives = 59/181 (32%), Gaps = 29/181 (16%)

Query: 128 NTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISM 187
           N     L +    LT    LP      +  L I +NN    +P         L+   +S 
Sbjct: 39  NNGNAVLNVGESGLT---TLPDCLPAHITTLVIPDNNLT-SLPALPP----ELRTLEVSG 90

Query: 188 NALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRN 247
           N L  S+P     +  L +       L              L  L +  N L     S  
Sbjct: 91  NQLT-SLPVLPPGLLELSIFSNPLTHLPALPS--------GLCKLWIFGNQLT----SLP 137

Query: 248 FNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPAN-TLFNLSQ 306
                L+ L +  N+    +P      S L  L+  NN L+   ++P  P+     ++S 
Sbjct: 138 VLPPGLQELSVSDNQL-ASLPALP---SELCKLWAYNNQLT---SLPMLPSGLQELSVSD 190

Query: 307 N 307
           N
Sbjct: 191 N 191

>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 = 87.3 bits (217), Expect = 3e-19
 Identities = 77/323 (23%), Positives = 130/323 (40%), Gaps = 34/323 (10%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           + +L  ++ S+NQLT     +PL +LT + +++++NN       + PL N + L      
Sbjct: 67  LNNLTQINFSNNQLT---DITPLKNLTKLVDILMNNNQIA---DITPLANLTNLTGLTLF 120

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           NN++          +     LN L LSS+          L     L  +   + ++    
Sbjct: 121 NNQIT-----DIDPLKNLTNLNRLELSSN---TISDISALSGLTSLQQLSFGN-QVTDLK 171

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
           P   L N T LE L + ++ ++      +     LE L  +NN      P+ I   L +L
Sbjct: 172 P---LANLTTLERLDISSNKVSDI--SVLAKLTNLESLIATNNQISDITPLGI---LTNL 223

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
              +++ N L      +  ++  L  LDL+NNQ++   P     G   L  L L  N + 
Sbjct: 224 DELSLNGNQLKD--IGTLASLTNLTDLDLANNQISNLAPLS---GLTKLTELKLGANQIS 278

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANT 300
               S    LT L  L+L  N+     P  +S   +L  L L  N++S    V S     
Sbjct: 279 N--ISPLAGLTALTNLELNENQLEDISP--ISNLKNLTYLTLYFNNISDISPVSSLTKLQ 334

Query: 301 LFNLSQNSRRFTSSISHSHLLNL 323
                 N  + +   S ++L N+
Sbjct: 335 RLFFYNN--KVSDVSSLANLTNI 355

>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 = 81.5 bits (202), Expect = 4e-17
 Identities = 69/323 (21%), Positives = 127/323 (39%), Gaps = 32/323 (9%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +T+L  L++SSN ++     S L  LTS+++L   N        L+PL N + L+     
Sbjct: 133 LTNLNRLELSSNTIS---DISALSGLTSLQQLSFGNQV----TDLKPLANLTTLERLDIS 185

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           +N+++       S++A    L SL  +++          L    +L  + L+  ++  + 
Sbjct: 186 SNKVSDI-----SVLAKLTNLESLIATNNQISDITPLGIL---TNLDELSLNGNQLK-DI 236

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
            T  L + T L  L L N+ ++     P+     L  L +  N      P+     L +L
Sbjct: 237 GT--LASLTNLTDLDLANNQISNL--APLSGLTKLTELKLGANQISNISPLAG---LTAL 289

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
               ++ N L+   P    N+  L  L L  N ++   P         L+ L   NN + 
Sbjct: 290 TNLELNENQLEDISP--ISNLKNLTYLTLYFNNISDISPVS---SLTKLQRLFFYNNKVS 344

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANT 300
               S   NLTN+ WL  G N+     P  L+  + +  L LN+ + +       +  + 
Sbjct: 345 D--VSSLANLTNINWLSAGHNQISDLTP--LANLTRITQLGLNDQAWTNAPVNYKANVSI 400

Query: 301 LFNLSQNSRRFTSSISHSHLLNL 323
              +   +    +  + S   + 
Sbjct: 401 PNTVKNVTGALIAPATISDGGSY 423

>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 = 79.6 bits (197), Expect = 1e-16
 Identities = 64/323 (19%), Positives = 120/323 (37%), Gaps = 34/323 (10%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +       +    +T ++       L  +  L       +   S++ +   + L      
Sbjct: 23  LAEKMKTVLGKTNVTDTV---SQTDLDQVTTLQADRLGIK---SIDGVEYLNNLTQINFS 76

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           NN+L        + +    +L  + ++++          L +   L  + L + ++    
Sbjct: 77  NNQL-----TDITPLKNLTKLVDILMNNNQIADITPLANLTN---LTGLTLFNNQITDID 128

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
           P   L+N T L  L L +++++      +     L+ L   N          + + L +L
Sbjct: 129 P---LKNLTNLNRLELSSNTISDI--SALSGLTSLQQLSFGNQV---TDLKPLAN-LTTL 179

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
           +  +IS N +  S  S    +  L  L  +NNQ++   P        NL+ L+L+ N L+
Sbjct: 180 ERLDISSNKV--SDISVLAKLTNLESLIATNNQISDITPLG---ILTNLDELSLNGNQLK 234

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANT 300
                   +LTNL  L L  N+     P  LS  + L  L L  N +S    +    A T
Sbjct: 235 D--IGTLASLTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQISNISPLAGLTALT 290

Query: 301 LFNLSQNSRRFTSSISHSHLLNL 323
              L++N  +       S+L NL
Sbjct: 291 NLELNEN--QLEDISPISNLKNL 311

>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 = 69.6 bits (171), Expect = 3e-13
 Identities = 68/321 (21%), Positives = 119/321 (37%), Gaps = 33/321 (10%)

Query: 3   SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNN 62
            L    ++ +     I       L    + +L   +    +S   L    ++    AD  
Sbjct: 2   PLGSATITQDTPINQIF--TDTALAEKMKTVLGKTNVTDTVSQTDL---DQVTTLQADRL 56

Query: 63  ELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPT 122
            +   I     L      L  ++ S++        K L     L  + +++ ++    P 
Sbjct: 57  GIK-SIDGVEYLN----NLTQINFSNNQLTDITPLKNL---TKLVDILMNNNQIADITP- 107

Query: 123 WLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKF 182
             L N T L  L L N+ +T     P+ +   L  L++S+N       +     L SL+ 
Sbjct: 108 --LANLTNLTGLTLFNNQITDID--PLKNLTNLNRLELSSNTISDISALS---GLTSLQQ 160

Query: 183 FNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGH 242
            +      D        N+  L  LD+S+N+++      LA    NLESL  +NN +   
Sbjct: 161 LSFGNQVTD---LKPLANLTTLERLDISSNKVSD--ISVLA-KLTNLESLIATNNQISD- 213

Query: 243 MFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLF 302
             +    LTNL+ L L GN+       +L+  ++L  L L NN +S    +      T  
Sbjct: 214 -ITPLGILTNLDELSLNGNQLKD--IGTLASLTNLTDLDLANNQISNLAPLSGLTKLTEL 270

Query: 303 NLSQNSRRFTSSISHSHLLNL 323
            L  N  + ++    + L  L
Sbjct: 271 KLGAN--QISNISPLAGLTAL 289

>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 = 67.3 bits (165), Expect = 1e-12
 Identities = 49/294 (16%), Positives = 106/294 (36%), Gaps = 28/294 (9%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +T+L  L  ++NQ++     +PL  LT+++EL L+ N  +    +  L + + L      
Sbjct: 198 LTNLESLIATNNQIS---DITPLGILTNLDELSLNGNQLK---DIGTLASLTNLTDLDLA 251

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           NN+++         ++   +L  L L ++          L     L  ++L+  ++    
Sbjct: 252 NNQISNLAP-----LSGLTKLTELKLGANQISNISPLAGLTA---LTNLELNENQLEDIS 303

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
           P   + N   L  L L  ++++     P+ S   L+ L   NN         + + L ++
Sbjct: 304 P---ISNLKNLTYLTLYFNNISDI--SPVSSLTKLQRLFFYNNKVS--DVSSLAN-LTNI 355

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
            + +   N +    P    N+  +  L L++   T     + A   +      ++   + 
Sbjct: 356 NWLSAGHNQISDLTP--LANLTRITQLGLNDQAWTNAPVNYKANVSIPNTVKNVTGALIA 413

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVP 294
               S   +  +     +  N       +     S    +     + SG V  P
Sbjct: 414 PATIS---DGGSYTEPDITWN-LPSYTNEVSYTFSQPVTIGKGTTTFSGTVTQP 463

>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 = 66.9 bits (164), Expect = 2e-12
 Identities = 46/271 (16%), Positives = 101/271 (37%), Gaps = 26/271 (9%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +T+L  L ++ NQL        L  LT++ +L L+NN      +L PL   ++L      
Sbjct: 220 LTNLDELSLNGNQLK---DIGTLASLTNLTDLDLANNQIS---NLAPLSGLTKLTELKLG 273

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            N+++     + S +A    L +L L+    +       + +  +L  + L    ++   
Sbjct: 274 ANQIS-----NISPLAGLTALTNLELN---ENQLEDISPISNLKNLTYLTLYFNNISDIS 325

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
           P   + + TKL+ LF  N+ ++      + +   + +L   +N      P+     L  +
Sbjct: 326 P---VSSLTKLQRLFFYNNKVSDV--SSLANLTNINWLSAGHNQISDLTPLAN---LTRI 377

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
               ++  A   +  +   N++    +      L    P  ++    +     ++ N   
Sbjct: 378 TQLGLNDQAWTNAPVNYKANVSIPNTVKNVTGALI--APATIS-DGGSYTEPDITWNLPS 434

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSL 271
                 ++  +    +  G   F G + Q L
Sbjct: 435 YTN-EVSYTFSQPVTIGKGTTTFSGTVTQPL 464

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 85.4 bits (212), Expect = 6e-19
 Identities = 59/358 (16%), Positives = 126/358 (35%), Gaps = 61/358 (17%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
               +I  V+ + L     +S      +++EL LS N     IS   L   ++L++    
Sbjct: 9   GNRYKIEKVTDSSLK-QALASLRQSAWNVKELDLSGNPLSQ-ISAADLAPFTKLELLNLS 66

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           +N L                L++L                        +DL++  +    
Sbjct: 67  SNVLYE--------TLDLESLSTL----------------------RTLDLNNNYVQ--- 93

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
               L     +ETL   N++++   R+     +  + + ++NN       ++ G     +
Sbjct: 94  ---ELLVGPSIETLHAANNNIS---RVSCSRGQGKKNIYLANNKITMLRDLDEGC-RSRV 146

Query: 181 KFFNISMNALDG-SIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL 239
           ++ ++ +N +D  +      + + L  L+L  N +  ++   +      L++L LS+N L
Sbjct: 147 QYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIY-DVKGQV--VFAKLKTLDLSSNKL 203

Query: 240 EGHMFSRNF-NLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS---------G 289
                   F +   + W+ L  N+ V  I ++L    +LE   L  N             
Sbjct: 204 A--FMGPEFQSAAGVTWISLRNNKLV-LIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSK 260

Query: 290 NVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGICKEYAKEFARNMPRICEEYAA 347
           N  V +    T+  L+  +    +  +  H       C++    FA  +  +   +  
Sbjct: 261 NQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAY--CCEDLPAPFADRLIALGHHHHH 316

>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 = 83.1 bits (205), Expect = 1e-17
 Identities = 58/289 (20%), Positives = 116/289 (40%), Gaps = 26/289 (8%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
              + +L+++  Q+   I +    +  +I++L +  N  +  +      N   L +   +
Sbjct: 74  FRQVELLNLNDLQIE-EIDTYAFAYAHTIQKLYMGFNAIRY-LPPHVFQNVPLLTVLVLE 131

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            N+L+   +    +     +L +LS+S++  +  I          L  + LS  ++    
Sbjct: 132 RNDLS---SLPRGIFHNTPKLTTLSMSNNNLE-RIEDDTFQATTSLQNLQLSSNRLT-HV 186

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
              L+ +   L    +  + L+      +     +E LD S+N+    +    G +   L
Sbjct: 187 DLSLIPS---LFHANVSYNLLST-----LAIPIAVEELDASHNSIN-VVR---GPVNVEL 234

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
               +  N L  +  +   N   L  +DLS N+L  +I  H  V    LE L +SNN L 
Sbjct: 235 TILKLQHNNL--TDTAWLLNYPGLVEVDLSYNELE-KIMYHPFVKMQRLERLYISNNRLV 291

Query: 241 GHMFSRNF-NLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
               +     +  L+ L L  N  +  + ++  +   LE LYL++NS+ 
Sbjct: 292 --ALNLYGQPIPTLKVLDLSHNHLL-HVERNQPQFDRLENLYLDHNSIV 337

>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 = 75.7 bits (186), Expect = 3e-15
 Identities = 60/290 (20%), Positives = 103/290 (35%), Gaps = 27/290 (9%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
             +++ L +  N +   +      ++  +  L+L  N     +      N  +L      
Sbjct: 98  AHTIQKLYMGFNAIR-YLPPHVFQNVPLLTVLVLERNDLSS-LPRGIFHNTPKLTTLSMS 155

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           NN L                L +L LSS+          L H     +  L H  ++   
Sbjct: 156 NNNLE---RIEDDTFQATTSLQNLQLSSN---------RLTHVDLSLIPSLFHANVSYNL 203

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
            +  L     +E L   ++S+     +    +  L  L + +NN        +    P L
Sbjct: 204 LS-TLAIPIAVEELDASHNSIN---VVRGPVNVELTILKLQHNNLT-DTAWLLN--YPGL 256

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
              ++S N L+  +   F  M  L  L +SNN+L   +  +       L+ L LS+N L 
Sbjct: 257 VEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLV-ALNLYGQ-PIPTLKVLDLSHNHLL 314

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGN 290
            H+         LE L L  N  V  +   LS   +L+ L L++N    N
Sbjct: 315 -HVERNQPQFDRLENLYLDHNSIV-TLK--LSTHHTLKNLTLSHNDWDCN 360

>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 = 70.7 bits (173), Expect = 2e-13
 Identities = 34/203 (16%), Positives = 75/203 (36%), Gaps = 11/203 (5%)

Query: 125 LENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFN 184
           L+ +     + +   +    F     +    + +   N+  R  +P  + D    ++  N
Sbjct: 23  LQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMR-KLPAALLDSFRQVELLN 81

Query: 185 ISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---SLEG 241
           ++   ++     +F   + ++ L +  N +   +P H+      L  L L  N   SL  
Sbjct: 82  LNDLQIEEIDTYAFAYAHTIQKLYMGFNAIR-YLPPHVFQNVPLLTVLVLERNDLSSLPR 140

Query: 242 HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTL 301
            +F    N   L  L +  N        +    +SL+ L L++N L+   +V  S   +L
Sbjct: 141 GIFH---NTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLT---HVDLSLIPSL 194

Query: 302 FNLSQNSRRFTSSISHSHLLNLH 324
           F+ + +    ++      +  L 
Sbjct: 195 FHANVSYNLLSTLAIPIAVEELD 217

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 69.6 bits (170), Expect = 3e-13
 Identities = 54/286 (18%), Positives = 108/286 (37%), Gaps = 22/286 (7%)

Query: 4   LRILDVSSNQLTGSISSSP-LVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNN 62
               DV  +  T  +      + L + + +   N+  +  +    L +  ++++   ++ 
Sbjct: 27  CVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRK-LPAALLDSFRQVELLNLNDL 85

Query: 63  ELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPT 122
           ++           A    +  L +  +    ++ P    +   L ++ L    ++   P 
Sbjct: 86  QIE---EIDTYAFAYAHTIQKLYMGFNAIR-YLPPHVFQNVPLLTVLVLERNDLS-SLPR 140

Query: 123 WLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKF 182
            +  N  KL TL + N++L         +   L+ L +S+N    H+ +    ++PSL  
Sbjct: 141 GIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLT-HVDL---SLIPSLFH 196

Query: 183 FNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGH 242
            N+S N L     S+      +  LD S+N +   +   +    V L  L L +N+L   
Sbjct: 197 ANVSYNLL-----STLAIPIAVEELDASHNSIN-VVRGPV---NVELTILKLQHNNLT-- 245

Query: 243 MFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
             +   N   L  + L  N     +     K   LE LY++NN L 
Sbjct: 246 DTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLV 291

>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 = 81.0 bits (200), Expect = 5e-17
 Identities = 63/315 (20%), Positives = 116/315 (36%), Gaps = 30/315 (9%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
             +++ LD+S N L+  IS++ L   T +E L LS+N          L + S L+    +
Sbjct: 33  AWNVKELDLSGNPLS-QISAADLAPFTKLELLNLSSNVLY---ETLDLESLSTLRTLDLN 88

Query: 61  NNELNAEITQSHSLIAPNFQLNSLS-LSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGE 119
           NN +  E+    S+   +   N++S +S   G G               + L++ K+   
Sbjct: 89  NNYVQ-ELLVGPSIETLHAANNNISRVSCSRGQG------------KKNIYLANNKIT-M 134

Query: 120 FPTWLLENNTKLETLFLVNDSLTG-PFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILP 178
                    ++++ L L  + +    F     S   LE L++  N     +  ++     
Sbjct: 135 LRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIY-DVKGQVV--FA 191

Query: 179 SLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNS 238
            LK  ++S N L   +   F +   +  + L NN+L   I + L     NLE   L  N 
Sbjct: 192 KLKTLDLSSNKLA-FMGPEFQSAAGVTWISLRNNKLV-LIEKALR-FSQNLEHFDLRGNG 248

Query: 239 LEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPA 298
                  R+F   N     +          Q+  +C+     +          ++P+  A
Sbjct: 249 FH-CGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCE---DLPAPFA 304

Query: 299 NTLFNLSQNSRRFTS 313
           + L  L +      S
Sbjct: 305 DRLIALKRKEHALLS 319

>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 = 78.0 bits (192), Expect = 6e-16
 Identities = 51/290 (17%), Positives = 107/290 (36%), Gaps = 50/290 (17%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
               +I  V+ + L     +S      +++EL LS N     IS   L   ++L++    
Sbjct: 9   GNRYKIEKVTDSSLK-QALASLRQSAWNVKELDLSGNPLSQ-ISAADLAPFTKLELLNLS 66

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           +N L                L++L                        +DL++  +    
Sbjct: 67  SNVL--------YETLDLESLSTLR----------------------TLDLNNNYVQE-- 94

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
               L     +ETL   N++++   R+     +  + + ++NN       ++ G     +
Sbjct: 95  ----LLVGPSIETLHAANNNIS---RVSCSRGQGKKNIYLANNKITMLRDLDEGC-RSRV 146

Query: 181 KFFNISMNALDG-SIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL 239
           ++ ++ +N +D  +      + + L  L+L  N +  ++   +      L++L LS+N L
Sbjct: 147 QYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIY-DVKGQV--VFAKLKTLDLSSNKL 203

Query: 240 EGHMFSRNF-NLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
                   F +   + W+ L  N+ V  I ++L    +LE   L  N   
Sbjct: 204 A--FMGPEFQSAAGVTWISLRNNKLV-LIEKALRFSQNLEHFDLRGNGFH 250

>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 = 60.6 bits (147), Expect = 2e-10
 Identities = 41/359 (11%), Positives = 99/359 (27%), Gaps = 50/359 (13%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNH-SRLKIFYA 59
               + + +++N++T  +        + ++ L L  N     ++   L      L+    
Sbjct: 119 GQGKKNIYLANNKIT-MLRDLDEGCRSRVQYLDLKLNEIDT-VNFAELAASSDTLEHLNL 176

Query: 60  DNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGE 119
             N +  ++           +L +L LSS+                     L+ +     
Sbjct: 177 QYNFI-YDVKGQVVFA----KLKTLDLSSNK--------------------LAFMGPE-- 209

Query: 120 FPTWLLENNTKLETLFLVNDSLTGPFRLP--IHSHRWLEFLDISNNNFRCHIPVEIGDIL 177
                 ++   +  + L N+ L     +   +   + LE  D+  N F C    +     
Sbjct: 210 -----FQSAAGVTWISLRNNKLV---LIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKN 261

Query: 178 PSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN 237
             ++   ++   +      +        +          ++P   A   + L+    +  
Sbjct: 262 QRVQ--TVAKQTVKKLTGQNEEECTVPTLGHYGAYCCE-DLPAPFADRLIALKRKEHALL 318

Query: 238 SLEGHMFSR----NFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNV 293
           S +G    R      N      +     ++   I Q   +  +   L     +L      
Sbjct: 319 SGQGSETERLECERENQARQREIDALKEQYRTVIDQVTLRKQAKITLEQKKKALD---EQ 375

Query: 294 PSSPANTLFNLSQNSRRFTSSISHSHLLNLHGICKEYAKEFARNMPRICEEYAAYLNST 352
            S+       L    ++    I   H        +       R      E+ +   N+ 
Sbjct: 376 VSNGRRAHAELDGTLQQAVGQIELQHATEEQSPLQLLRAIVKRYEEMYVEQQSVQNNAI 434

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

 Score = 79.2 bits (196), Expect = 9e-17
 Identities = 51/292 (17%), Positives = 88/292 (30%), Gaps = 36/292 (12%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ-IPISLEPLFNHSRLKIFYA 59
             + +I   +   L  +              L L +      P   +  F  S L+    
Sbjct: 55  SNNPQIETRTGRALKATADLLEDATQPGRVALELRSVPLPQFP---DQAFRLSHLQHMTI 111

Query: 60  DNNELN---AEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKM 116
           D   L      + Q   L       N L            P  +   + L  + +     
Sbjct: 112 DAAGLMELPDTMQQFAGLETLTLARNPLR---------ALPASIASLNRLRELSIRACPE 162

Query: 117 NGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI 176
             E P  L   +   E   LVN                L+ L +     R  +P  I + 
Sbjct: 163 LTELPEPLASTDASGEHQGLVN----------------LQSLRLEWTGIR-SLPASIAN- 204

Query: 177 LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSN 236
           L +LK   I  + L  ++  +  ++  L  LDL         P     G   L+ L L +
Sbjct: 205 LQNLKSLKIRNSPLS-ALGPAIHHLPKLEELDLRGCTALRNYPPIFG-GRAPLKRLILKD 262

Query: 237 NSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
            S    +      LT LE L L G   +  +P  +++  +   + +  +  +
Sbjct: 263 CSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQA 314

>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 = 79.1 bits (195), Expect = 2e-16
 Identities = 60/321 (18%), Positives = 116/321 (36%), Gaps = 17/321 (5%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFN--HSRLKIFY 58
           M+ L+ L +S+  L    S  P+ HL   + L++    +      E L +     L I +
Sbjct: 114 MSQLKFLGLSTTHLE-KSSVLPIAHLNISKVLLVLGETYGEKEDPEGLQDFNTESLHIVF 172

Query: 59  ADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG 118
             N E +  +  S   +A     N   +  D    +        Q +  L +L+   +  
Sbjct: 173 PTNKEFHFILDVSVKTVANLELSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIET 232

Query: 119 EFPTWL----LENNTKLETLFLVNDSLTGP-----FRLPIHSHRWLEFLDISNNNFRCHI 169
            + +++    L  +T +    + N  L G      F     S + L    + ++ F    
Sbjct: 233 TWNSFIRILQLVWHTTVWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDVFG-FP 291

Query: 170 PVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNL 229
              I +I  ++   N +++            ++    LD SNN LT +           L
Sbjct: 292 QSYIYEIFSNMNIKNFTVSGTRMVHMLCPSKISPFLHLDFSNNLLT-DTVFENCGHLTEL 350

Query: 230 ESLALSNNSLE--GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSL-SKCSSLEGLYLNNNS 286
           E+L L  N L+    +      + +L+ L +  N    +  +   S   SL  L +++N 
Sbjct: 351 ETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSNI 410

Query: 287 LSGNVNVPSSPANTLFNLSQN 307
           L+  +     P   + +L  N
Sbjct: 411 LTDTIFRCLPPRIKVLDLHSN 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 = 74.1 bits (182), Expect = 1e-14
 Identities = 60/340 (17%), Positives = 120/340 (35%), Gaps = 22/340 (6%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
            +L+ LD+S N            +++ ++ L LS  H +   S+ P+ + +  K+     
Sbjct: 90  VNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEK-SSVLPIAHLNISKVLLVLG 148

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
                +      L   N +   +   ++    FI    +    +L L ++  +  + +  
Sbjct: 149 ETYGEKE-DPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIKCVLEDNKCS 207

Query: 122 TWL-----LENNTKLETLFLVNDSLTGPFRLPIHSHRW---LEFLDISNNNFRCHIPVEI 173
            +L     L+ N KL  L L N   T    + I    W   + +  ISN   +  +    
Sbjct: 208 YFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYFSISNVKLQGQLDFRD 267

Query: 174 GDI----LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNL 229
            D     L +L    +  +         +   + + + + + +     +           
Sbjct: 268 FDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTR-MVHMLCPSKISPF 326

Query: 230 ESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRF--VGEIPQSLSKCSSLEGLYLNNNSL 287
             L  SNN L   +F    +LT LE L L  N+   + +I +  ++  SL+ L ++ NS+
Sbjct: 327 LHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSV 386

Query: 288 --SGNVNVPSSPAN-TLFNLSQNSRRFTSSISHSHLLNLH 324
                    S   +    N+S N    T +I       + 
Sbjct: 387 SYDEKKGDCSWTKSLLSLNMSSN--ILTDTIFRCLPPRIK 424

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 70.7 bits (173), Expect = 2e-13
 Identities = 54/291 (18%), Positives = 100/291 (34%), Gaps = 9/291 (3%)

Query: 3   SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNN 62
                      L  S+ +   + L++I+ ++  N        L  L  + +L     +N 
Sbjct: 171 VFPTNKEFHFILDVSVKTVANLELSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNI 230

Query: 63  ELNAEITQSHSLIAPNFQLNSLSLSS-DYGDGFIFPKFLYHQHDLALVDLSHIKMN--GE 119
           E           +  +  +   S+S+        F  F Y    L  + +  +  +  G 
Sbjct: 231 ETTWNSFIRILQLVWHTTVWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDVFGF 290

Query: 120 FPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS 179
             +++ E  + +               L          LD SNN        E    L  
Sbjct: 291 PQSYIYEIFSNMNIKNFTVSGTRMVHMLCPSKISPFLHLDFSNNLLT-DTVFENCGHLTE 349

Query: 180 LKFFNISMNALD--GSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN 237
           L+   + MN L     I      M  L+ LD+S N ++ +  +       +L SL +S+N
Sbjct: 350 LETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSN 409

Query: 238 SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
            L   +F        ++ L L  N+    IP+ + K  +L+ L + +N L 
Sbjct: 410 ILTDTIFRC--LPPRIKVLDLHSNKIK-SIPKQVVKLEALQELNVASNQLK 457

>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 = 61.0 bits (148), Expect = 2e-10
 Identities = 39/169 (23%), Positives = 64/169 (37%), Gaps = 9/169 (5%)

Query: 157 FLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTG 216
            +D S N    H+P    D+       NIS N +     S   +++ LR+L +S+N++  
Sbjct: 4   LVDRSKNGLI-HVP---KDLSQKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQ- 58

Query: 217 EIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRF-VGEIPQSLSKCS 275
            +   +      LE L LS+N L            NL+ L L  N F    I +     S
Sbjct: 59  YLDISVFKFNQELEYLDLSHNKLVKISCHP---TVNLKHLDLSFNAFDALPICKEFGNMS 115

Query: 276 SLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLH 324
            L+ L L+   L  +  +P +  N    L      +        L + +
Sbjct: 116 QLKFLGLSTTHLEKSSVLPIAHLNISKVLLVLGETYGEKEDPEGLQDFN 164

>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 = 5e-10
 Identities = 50/264 (18%), Positives = 98/264 (37%), Gaps = 12/264 (4%)

Query: 3   SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPL-FNHSRLKIFYADN 61
           +L  ++ + N          LV  T++    +SN   Q  +      ++ + LK      
Sbjct: 226 TLNNIETTWNSFI---RILQLVWHTTVWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQ 282

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
              +        +      +N  + +   G   +             +D S+  +  +  
Sbjct: 283 VVSDVFGFPQSYIYEIFSNMNIKNFTV-SGTRMVHMLCPSKISPFLHLDFSNNLL-TDTV 340

Query: 122 TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRW--LEFLDISNNNFRCHIPVEIGDILPS 179
                + T+LETL L  + L    ++   + +   L+ LDIS N+              S
Sbjct: 341 FENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKS 400

Query: 180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL 239
           L   N+S N L  +I         ++VLDL +N++   IP+ +      L+ L +++N L
Sbjct: 401 LLSLNMSSNILTDTIFRCL--PPRIKVLDLHSNKIK-SIPKQVV-KLEALQELNVASNQL 456

Query: 240 EGHMFSRNFNLTNLEWLQLGGNRF 263
           +         LT+L+ + L  N +
Sbjct: 457 KSVPDGIFDRLTSLQKIWLHTNPW 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 = 56.8 bits (137), Expect = 5e-09
 Identities = 56/301 (18%), Positives = 98/301 (32%), Gaps = 20/301 (6%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           ++ LRIL +S N++   +  S       +E L LS+N     IS  P  N   LK     
Sbjct: 44  LSKLRILIISHNRIQ-YLDISVFKFNQELEYLDLSHNKLVK-ISCHPTVN---LKHLDLS 98

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            N  +A             QL  L LS+ + +        +      L+ L       E 
Sbjct: 99  FNAFDA--LPICKEFGNMSQLKFLGLSTTHLEKSSVLPIAHLNISKVLLVLGETYGEKED 156

Query: 121 PTWLLE-NNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIP--------V 171
           P  L + N   L  +F  N        + + +   LE  +I                  +
Sbjct: 157 PEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIKCVLEDNKCSYFLSILAKL 216

Query: 172 EIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIP-EHLAVGCVNLE 230
           +    L +L   NI                  +    +SN +L G++          +L+
Sbjct: 217 QTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYFSISNVKLQGQLDFRDFDYSGTSLK 276

Query: 231 SLALSNNSLEGHMFSRNF---NLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSL 287
           +L++     +   F +++     +N+       +          SK S    L  +NN L
Sbjct: 277 ALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMVHMLCPSKISPFLHLDFSNNLL 336

Query: 288 S 288
           +
Sbjct: 337 T 337

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 55.3 bits (133), Expect = 1e-08
 Identities = 35/169 (20%), Positives = 56/169 (33%), Gaps = 9/169 (5%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQL 214
              L+IS N     +       L  L+   IS N +     S F     L  LDLS+N+L
Sbjct: 23  TTILNISQNYIS-ELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNKL 81

Query: 215 TGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNF-NLTNLEWLQLGGNRFVGEIPQSLSK 273
                       VNL+ L LS N+ +     + F N++ L++L L            +  
Sbjct: 82  VKISCHPT----VNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEKSSVLPI-- 135

Query: 274 CSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLN 322
            + L    +                   FN       F ++     +L+
Sbjct: 136 -AHLNISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILD 183

>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 = 79.0 bits (195), Expect = 2e-16
 Identities = 55/294 (18%), Positives = 96/294 (32%), Gaps = 74/294 (25%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
           ++ R L++  N +   I +    HL  +E L L  N  +  I +      + L      +
Sbjct: 75  SNTRYLNLMENNIQ-MIQADTFRHLHHLEVLQLGRNSIRQ-IEVGAFNGLASLNTLELFD 132

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
           N                                                L+ I      P
Sbjct: 133 NW-----------------------------------------------LTVI------P 139

Query: 122 TWLLENNTKLETLFLVNDSLT----GPFR-LPIHSHRWLEFLDISNNNFRCHIPVEIGDI 176
           +   E  +KL  L+L N+ +       F  +P      L  LD+       +I     + 
Sbjct: 140 SGAFEYLSKLRELWLRNNPIESIPSYAFNRVP-----SLMRLDLGELKKLEYISEGAFEG 194

Query: 177 LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSN 236
           L +LK+ N+ M  +   +P+    +  L  L++S N    EI      G  +L+ L + N
Sbjct: 195 LFNLKYLNLGMCNIK-DMPN-LTPLVGLEELEMSGNHFP-EIRPGSFHGLSSLKKLWVMN 251

Query: 237 N---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSL 287
           +    +E + F     L +L  L L  N          +    L  L+L++N  
Sbjct: 252 SQVSLIERNAFD---GLASLVELNLAHNNLSSLPHDLFTPLRYLVELHLHHNPW 302

>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 = 68.6 bits (168), Expect = 6e-13
 Identities = 36/136 (26%), Positives = 59/136 (43%), Gaps = 7/136 (5%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSN-NQ 213
           L  L++ +N     IP    + L  L+   +  N ++     +F  +  L  LDL    +
Sbjct: 125 LNTLELFDNWLT-VIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKK 183

Query: 214 LTGEIPEHLAVGCVNLESLALSNNSLEG-HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLS 272
           L   I E    G  NL+ L L   +++     +    L  LE L++ GN F    P S  
Sbjct: 184 LE-YISEGAFEGLFNLKYLNLGMCNIKDMPNLT---PLVGLEELEMSGNHFPEIRPGSFH 239

Query: 273 KCSSLEGLYLNNNSLS 288
             SSL+ L++ N+ +S
Sbjct: 240 GLSSLKKLWVMNSQVS 255

>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 = 67.5 bits (165), Expect = 1e-12
 Identities = 39/169 (23%), Positives = 69/169 (40%), Gaps = 13/169 (7%)

Query: 125 LENNTKLETLFLVNDSLTG-PFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFF 183
                 L TL L ++ LT  P     +  + L  L + NN     IP    + +PSL   
Sbjct: 119 FNGLASLNTLELFDNWLTVIPSGAFEYLSK-LRELWLRNNPIE-SIPSYAFNRVPSLMRL 176

Query: 184 NIS-MNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---SL 239
           ++  +  L+     +F  +  L+ L+L    +  ++P       V LE L +S N    +
Sbjct: 177 DLGELKKLEYISEGAFEGLFNLKYLNLGMCNIK-DMPNL--TPLVGLEELEMSGNHFPEI 233

Query: 240 EGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
               F     L++L+ L +  ++       +    +SL  L L +N+LS
Sbjct: 234 RPGSFH---GLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNLS 279

>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 = 65.5 bits (160), Expect = 6e-12
 Identities = 47/240 (19%), Positives = 82/240 (34%), Gaps = 36/240 (15%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +  L +L +  N +   I       L S+  L L +N   + I        S+L+  +  
Sbjct: 98  LHHLEVLQLGRNSIR-QIEVGAFNGLASLNTLELFDNWLTV-IPSGAFEYLSKLRELWLR 155

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           NN +          I                    F   +     L L +L  ++     
Sbjct: 156 NNPI--------ESIPSY----------------AF-NRVPSLMRLDLGELKKLE---YI 187

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSH-RWLEFLDISNNNFRCHIPVEIGDILPS 179
                E    L+ L L   ++     +P  +    LE L++S N+F   I       L S
Sbjct: 188 SEGAFEGLFNLKYLNLGMCNIK---DMPNLTPLVGLEELEMSGNHFP-EIRPGSFHGLSS 243

Query: 180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL 239
           LK   +  + +     ++F  +  L  L+L++N L+  +P  L      L  L L +N  
Sbjct: 244 LKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNLS-SLPHDLFTPLRYLVELHLHHNPW 302

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A Length = 452

 Score = 63.2 bits (154), Expect = 3e-11
 Identities = 27/135 (20%), Positives = 49/135 (36%), Gaps = 12/135 (8%)

Query: 158 LDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGE 217
           +  +       +P     I  + ++ N+  N +      +F +++ L VL L  N +  +
Sbjct: 59  VVCTRRGLS-EVP---QGIPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIR-Q 113

Query: 218 IPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKC 274
           I      G  +L +L L +N    +    F     L+ L  L L  N        + ++ 
Sbjct: 114 IEVGAFNGLASLNTLELFDNWLTVIPSGAFE---YLSKLRELWLRNNPIESIPSYAFNRV 170

Query: 275 SSLEGLYL-NNNSLS 288
            SL  L L     L 
Sbjct: 171 PSLMRLDLGELKKLE 185

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 77.9 bits (192), Expect = 6e-16
 Identities = 59/292 (20%), Positives = 103/292 (35%), Gaps = 70/292 (23%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
           T+ R+L++  NQ+   I  +   HL  +E L LS NH +  I +      + L      +
Sbjct: 64  TNTRLLNLHENQIQ-IIKVNSFKHLRHLEILQLSRNHIRT-IEIGAFNGLANLNTLELFD 121

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
           N                                                L+ I      P
Sbjct: 122 NR-----------------------------------------------LTTI------P 128

Query: 122 TWLLENNTKLETLFLVNDSLTGPFRLPI---HSHRWLEFLDISNNNFRCHIPVEIGDILP 178
                  +KL+ L+L N+ +     +P    +    L  LD+       +I     + L 
Sbjct: 129 NGAFVYLSKLKELWLRNNPIE---SIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLS 185

Query: 179 SLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN- 237
           +L++ N++M  L   IP+    +  L  LDLS N L+  I      G ++L+ L +  + 
Sbjct: 186 NLRYLNLAMCNLR-EIPN-LTPLIKLDELDLSGNHLS-AIRPGSFQGLMHLQKLWMIQSQ 242

Query: 238 --SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSL 287
              +E + F    NL +L  + L  N          +    LE ++L++N  
Sbjct: 243 IQVIERNAFD---NLQSLVEINLAHNNLTLLPHDLFTPLHHLERIHLHHNPW 291

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 69.4 bits (170), Expect = 3e-13
 Identities = 38/166 (22%), Positives = 62/166 (37%), Gaps = 7/166 (4%)

Query: 125 LENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFN 184
            ++   LE L L  + +        +    L  L++ +N     IP      L  LK   
Sbjct: 84  FKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLT-TIPNGAFVYLSKLKELW 142

Query: 185 ISMNALDGSIPSSFGNMNFLRVLDLS-NNQLTGEIPEHLAVGCVNLESLALSNNSLEG-H 242
           +  N ++     +F  +  LR LDL    +L+  I E    G  NL  L L+  +L    
Sbjct: 143 LRNNPIESIPSYAFNRIPSLRRLDLGELKRLS-YISEGAFEGLSNLRYLNLAMCNLREIP 201

Query: 243 MFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
             +    L  L+ L L GN      P S      L+ L++  + + 
Sbjct: 202 NLT---PLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQ 244

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 65.2 bits (159), Expect = 7e-12
 Identities = 33/138 (23%), Positives = 60/138 (43%), Gaps = 11/138 (7%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNIS-MNALDGSIPSSFGNMNFLRVLDLSNNQ 213
           L+ L + NN     IP    + +PSL+  ++  +  L      +F  ++ LR L+L+   
Sbjct: 138 LKELWLRNNPIE-SIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCN 196

Query: 214 LTGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQS 270
           L  EIP       + L+ L LS N   ++    F     L +L+ L +  ++       +
Sbjct: 197 LR-EIPNLT--PLIKLDELDLSGNHLSAIRPGSFQ---GLMHLQKLWMIQSQIQVIERNA 250

Query: 271 LSKCSSLEGLYLNNNSLS 288
                SL  + L +N+L+
Sbjct: 251 FDNLQSLVEINLAHNNLT 268

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 62.5 bits (152), Expect = 5e-11
 Identities = 32/135 (23%), Positives = 52/135 (38%), Gaps = 12/135 (8%)

Query: 158 LDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGE 217
           +     N R  +P     I  + +  N+  N +     +SF ++  L +L LS N +   
Sbjct: 48  VICVRKNLR-EVP---DGISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIR-T 102

Query: 218 IPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKC 274
           I      G  NL +L L +N   ++    F     L+ L+ L L  N        + ++ 
Sbjct: 103 IEIGAFNGLANLNTLELFDNRLTTIPNGAFV---YLSKLKELWLRNNPIESIPSYAFNRI 159

Query: 275 SSLEGLYL-NNNSLS 288
            SL  L L     LS
Sbjct: 160 PSLRRLDLGELKRLS 174

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 59.4 bits (144), Expect = 5e-10
 Identities = 49/242 (20%), Positives = 88/242 (36%), Gaps = 64/242 (26%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ-IPISL-EPLFNHSRLKIFY 58
           + +L  L++  N+LT +I +   V+L+ ++EL L NN  + IP      + +  RL +  
Sbjct: 111 LANLNTLELFDNRLT-TIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDL-- 167

Query: 59  ADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG 118
            +   L        S I+                              A   LS+     
Sbjct: 168 GELKRL--------SYISEG----------------------------AFEGLSN----- 186

Query: 119 EFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSH-RWLEFLDISNNNFRCHIPVEIGDIL 177
                       L  L L   +L     +P  +    L+ LD+S N+    I       L
Sbjct: 187 ------------LRYLNLAMCNLR---EIPNLTPLIKLDELDLSGNHLS-AIRPGSFQGL 230

Query: 178 PSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN 237
             L+   +  + +     ++F N+  L  ++L++N LT  +P  L     +LE + L +N
Sbjct: 231 MHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHNNLT-LLPHDLFTPLHHLERIHLHHN 289

Query: 238 SL 239
             
Sbjct: 290 PW 291

>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 = 77.8 bits (192), Expect = 6e-16
 Identities = 48/321 (14%), Positives = 100/321 (31%), Gaps = 23/321 (7%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
             +L++L + S+++  +I       L S+E L LS+NH    +S       S LK     
Sbjct: 49  CANLQVLILKSSRIN-TIEGDAFYSLGSLEHLDLSDNHLSS-LSSSWFGPLSSLKYLNLM 106

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            N          SL      L +L + +      I          L  +++  + +   +
Sbjct: 107 GNPYQTL--GVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLR-NY 163

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEI------- 173
            +  L++   +  L L          +       + +L++ + N        +       
Sbjct: 164 QSQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSS 223

Query: 174 ---GDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLT-------GEIPEHLA 223
                        + S N L   +      ++ +   D + N L          + E   
Sbjct: 224 PMKKLAFRGSVLTDESFNELL-KLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGK 282

Query: 224 VGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLN 283
           V  V +  L +    L   + +    L  ++ + +  ++             SLE L L+
Sbjct: 283 VETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLS 342

Query: 284 NNSLSGNVNVPSSPANTLFNL 304
            N +       S+      +L
Sbjct: 343 ENLMVEEYLKNSACKGAWPSL 363

>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 = 73.6 bits (181), Expect = 1e-14
 Identities = 49/325 (15%), Positives = 95/325 (29%), Gaps = 40/325 (12%)

Query: 3   SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNN 62
           +  + D  S   T    S P     +++ L LS N     I    L   + L++    ++
Sbjct: 6   ASGVCDGRSRSFT----SIPSGLTAAMKSLDLSFNKITY-IGHGDLRACANLQVLILKSS 60

Query: 63  ELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPT 122
            +N                             I     Y    L  +DLS   ++    +
Sbjct: 61  RIN----------------------------TIEGDAFYSLGSLEHLDLSDNHLS-SLSS 91

Query: 123 WLLENNTKLETLFLVNDSLTG-PFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLK 181
                 + L+ L L+ +            +   L+ L I N      I       L SL 
Sbjct: 92  SWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLN 151

Query: 182 FFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEG 241
              I   +L      S  ++  +  L L  ++    + E  A    ++  L L + +L  
Sbjct: 152 ELEIKALSLRNYQSQSLKSIRDIHHLTLHLSESA-FLLEIFADILSSVRYLELRDTNLAR 210

Query: 242 HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTL 301
             FS          ++    R      +S ++   L    L  + +           N L
Sbjct: 211 FQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVE----FDDCTLNGL 266

Query: 302 FNLSQNSRRFTSSISHSHLLNLHGI 326
            + + +     S +     + +  +
Sbjct: 267 GDFNPSESDVVSELGKVETVTIRRL 291

>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 = 67.8 bits (166), Expect = 1e-12
 Identities = 51/306 (16%), Positives = 107/306 (34%), Gaps = 32/306 (10%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNH---------FQIPISLEPLFNH 51
           ++S+R L++    L      SPL        +                ++   L  +   
Sbjct: 195 LSSVRYLELRDTNLA-RFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILEL 253

Query: 52  SRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLS----SDYGDGFIFPKFLYHQHDLA 107
           S ++      N L         +++   ++ ++++       +   +           + 
Sbjct: 254 SEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVK 313

Query: 108 LVDLSHIKMNGEFPTWLLENNTKLETLFL-VNDSLTGPFRLPIHSHRW--LEFLDISNNN 164
            + + + K+    P    ++   LE L L  N  +    +       W  L+ L +S N+
Sbjct: 314 RITVENSKVF-LVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNH 372

Query: 165 FRCHIPVEIGDI--LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHL 222
            R  +      +  L +L   +IS N     +P S      +R L+LS+  +   +   +
Sbjct: 373 LR-SMQKTGEILLTLKNLTSLDISRNTF-HPMPDSCQWPEKMRFLNLSSTGIR-VVKTCI 429

Query: 223 AVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYL 282
                 LE L +SNN+L+    S +  L  L+ L +  N+   +     S    L  + +
Sbjct: 430 ---PQTLEVLDVSNNNLD----SFSLFLPRLQELYISRNKL--KTLPDASLFPVLLVMKI 480

Query: 283 NNNSLS 288
           + N L 
Sbjct: 481 SRNQLK 486

>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 = 1e-10
 Identities = 47/266 (17%), Positives = 92/266 (34%), Gaps = 42/266 (15%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
             ++R L +    L     S+    L  ++ + + N+   + +      +   L+     
Sbjct: 285 TVTIRRLHIPQFYLF-YDLSTVYSLLEKVKRITVENSKVFL-VPCSFSQHLKSLEFLDLS 342

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            N +  E  ++ +       L +L LS                       L  ++  GE 
Sbjct: 343 ENLMVEEYLKNSACKGAWPSLQTLVLSQ--------------------NHLRSMQKTGE- 381

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
              +L     L +L +  ++   P          + FL++S+   R  +      I  +L
Sbjct: 382 ---ILLTLKNLTSLDISRNTFH-PMPDSCQWPEKMRFLNLSSTGIR-VVK---TCIPQTL 433

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
           +  ++S N LD S          L+ L +S N+L   +P+  A     L  + +S N L 
Sbjct: 434 EVLDVSNNNLD-SFSLFLPR---LQELYISRNKLK-TLPD--ASLFPVLLVMKISRNQL- 485

Query: 241 GHMFSRNF--NLTNLEWLQLGGNRFV 264
                      LT+L+ + L  N + 
Sbjct: 486 -KSVPDGIFDRLTSLQKIWLHTNPWD 510

>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 = 76.2 bits (188), Expect = 8e-16
 Identities = 57/295 (19%), Positives = 106/295 (35%), Gaps = 28/295 (9%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
               +LD+ +N++T  I      +L ++  L+L NN     IS        +L+  Y   
Sbjct: 52  PDTALLDLQNNKIT-EIKDGDFKNLKNLHTLILINNKISK-ISPGAFAPLVKLERLYLSK 109

Query: 62  NELNAEITQSHSLIAPNFQ-LNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSH--IKMNG 118
           N+L         L     + L  L +  +     +        + + +V+L    +K + 
Sbjct: 110 NQL-------KELPEKMPKTLQELRVHENEI-TKVRKSVFNGLNQMIVVELGTNPLK-SS 160

Query: 119 EFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILP 178
                  +   KL  + + + ++T    +P      L  L +  N     +       L 
Sbjct: 161 GIENGAFQGMKKLSYIRIADTNIT---TIPQGLPPSLTELHLDGNKIT-KVDAASLKGLN 216

Query: 179 SLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN- 237
           +L    +S N++      S  N   LR L L+NN+L  ++P  LA     ++ + L NN 
Sbjct: 217 NLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLV-KVPGGLA-DHKYIQVVYLHNNN 274

Query: 238 --SLEGHMFSRNF---NLTNLEWLQLGGNRF-VGEIPQSLSKC-SSLEGLYLNNN 285
             ++  + F          +   + L  N     EI  S  +C      + L N 
Sbjct: 275 ISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAVQLGNY 329

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 73.5 bits (181), Expect = 7e-15
 Identities = 46/271 (16%), Positives = 97/271 (35%), Gaps = 24/271 (8%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHF-QIPISLEPLFNHSRLKIFYA 59
           + +L  L + +N+++  IS      L  +E L LS N   ++P   E +     L+    
Sbjct: 75  LKNLHTLILINNKIS-KISPGAFAPLVKLERLYLSKNQLKELP---EKMP--KTLQELRV 128

Query: 60  DNNELNAEITQSHSLIAPNFQLNSLSLSS-DYGDGFIFPKFLYHQHDLALVDLSHIKMNG 118
             NE+        S+     Q+  + L +       I          L+ + ++   +  
Sbjct: 129 HENEIT---KVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNIT- 184

Query: 119 EFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILP 178
             P  L  +   L  L L  + +T      +     L  L +S N+    +        P
Sbjct: 185 TIPQGLPPS---LTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISA-VDNGSLANTP 240

Query: 179 SLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLT-----GEIPEHLAVGCVNLESLA 233
            L+  +++ N L   +P    +  +++V+ L NN ++        P        +   ++
Sbjct: 241 HLRELHLNNNKLV-KVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVS 299

Query: 234 LSNNSLEGHMFSRN--FNLTNLEWLQLGGNR 262
           L +N ++      +    +     +QLG  +
Sbjct: 300 LFSNPVQYWEIQPSTFRCVYVRAAVQLGNYK 330

>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 = 67.7 bits (166), Expect = 6e-13
 Identities = 39/189 (20%), Positives = 72/189 (38%), Gaps = 33/189 (17%)

Query: 125 LENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFN 184
                KLE L+L  + L     LP    + L+ L +  N     +   + + L  +    
Sbjct: 96  FAPLVKLERLYLSKNQLK---ELPEKMPKTLQELRVHENEITK-VRKSVFNGLNQMIVVE 151

Query: 185 ISMNALDGSI--PSSFGNMNFLRVLDLSNNQLTG--------------------EIPEHL 222
           +  N L  S     +F  M  L  + +++  +T                     ++    
Sbjct: 152 LGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLPPSLTELHLDGNKITKVDAAS 211

Query: 223 AVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEG 279
             G  NL  L LS N   +++    +   N  +L  L L  N+ V ++P  L+    ++ 
Sbjct: 212 LKGLNNLAKLGLSFNSISAVDNGSLA---NTPHLRELHLNNNKLV-KVPGGLADHKYIQV 267

Query: 280 LYLNNNSLS 288
           +YL+NN++S
Sbjct: 268 VYLHNNNIS 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 = 58.9 bits (143), Expect = 6e-10
 Identities = 29/137 (21%), Positives = 48/137 (35%), Gaps = 14/137 (10%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQL 214
           L  +  S+      +P    D+ P     ++  N +       F N+  L  L L NN++
Sbjct: 33  LRVVQCSDLGLE-KVP---KDLPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKI 88

Query: 215 TGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSL 271
           + +I        V LE L LS N    L   M         L+ L++  N          
Sbjct: 89  S-KISPGAFAPLVKLERLYLSKNQLKELPEKMPK------TLQELRVHENEITKVRKSVF 141

Query: 272 SKCSSLEGLYLNNNSLS 288
           +  + +  + L  N L 
Sbjct: 142 NGLNQMIVVELGTNPLK 158

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 75.8 bits (187), Expect = 9e-16
 Identities = 42/172 (24%), Positives = 61/172 (35%), Gaps = 9/172 (5%)

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
           P         L  L+L ++ L             LE LD+S+N     +       L  L
Sbjct: 48  PAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRL 107

Query: 181 KFFNISMNALDGSIPS-SFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN-- 237
              ++    L   +    F  +  L+ L L +N L   +P+       NL  L L  N  
Sbjct: 108 HTLHLDRCGL-QELGPGLFRGLAALQYLYLQDNALQ-ALPDDTFRDLGNLTHLFLHGNRI 165

Query: 238 -SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
            S+    F     L +L+ L L  NR     P +      L  LYL  N+LS
Sbjct: 166 SSVPERAFR---GLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLS 214

>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 = 68.9 bits (169), Expect = 2e-13
 Identities = 30/138 (21%), Positives = 51/138 (36%), Gaps = 9/138 (6%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQL 214
            + + +  N    H+P        +L    +  N L     ++F  +  L  LDLS+N  
Sbjct: 34  SQRIFLHGNRIS-HVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQ 92

Query: 215 TGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIP-QS 270
              +      G   L +L L       L   +F     L  L++L L  N     +P  +
Sbjct: 93  LRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFR---GLAALQYLYLQDNALQ-ALPDDT 148

Query: 271 LSKCSSLEGLYLNNNSLS 288
                +L  L+L+ N +S
Sbjct: 149 FRDLGNLTHLFLHGNRIS 166

>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 = 66.9 bits (164), Expect = 1e-12
 Identities = 33/137 (24%), Positives = 60/137 (43%), Gaps = 10/137 (7%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPS-SFGNMNFLRVLDLSNNQ 213
           L  L +     +  +   +   L +L++  +  NAL  ++P  +F ++  L  L L  N+
Sbjct: 107 LHTLHLDRCGLQ-ELGPGLFRGLAALQYLYLQDNALQ-ALPDDTFRDLGNLTHLFLHGNR 164

Query: 214 LTGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQS 270
           ++  +PE    G  +L+ L L  N    +  H F    +L  L  L L  N       ++
Sbjct: 165 IS-SVPERAFRGLHSLDRLLLHQNRVAHVHPHAFR---DLGRLMTLYLFANNLSALPTEA 220

Query: 271 LSKCSSLEGLYLNNNSL 287
           L+   +L+ L LN+N  
Sbjct: 221 LAPLRALQYLRLNDNPW 237

>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 = 63.9 bits (156), Expect = 1e-11
 Identities = 31/143 (21%), Positives = 50/143 (34%), Gaps = 14/143 (9%)

Query: 151 SHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLS 210
            +             +  +P     I  + +   +  N +     +SF     L +L L 
Sbjct: 9   YNEPKVTTSCPQQGLQ-AVP---VGIPAASQRIFLHGNRISHVPAASFRACRNLTILWLH 64

Query: 211 NNQLTGEIPEHLAVGCVNLESLALSNN----SLEGHMFSRNFNLTNLEWLQLGGNRFVGE 266
           +N L   I      G   LE L LS+N    S++   F     L  L  L L       E
Sbjct: 65  SNVLA-RIDAAAFTGLALLEQLDLSDNAQLRSVDPATFH---GLGRLHTLHLDRCGLQ-E 119

Query: 267 IPQ-SLSKCSSLEGLYLNNNSLS 288
           +        ++L+ LYL +N+L 
Sbjct: 120 LGPGLFRGLAALQYLYLQDNALQ 142

>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 = 60.0 bits (146), Expect = 2e-10
 Identities = 41/242 (16%), Positives = 79/242 (32%), Gaps = 40/242 (16%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
            + + + +  N+++  + ++      ++  L L +N     I        + L+     +
Sbjct: 32  AASQRIFLHGNRIS-HVPAASFRACRNLTILWLHSNVLAR-IDAAAFTGLALLEQLDLSD 89

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
           N                 QL S+            P   +    L  + L    +  E  
Sbjct: 90  NA----------------QLRSVD-----------PATFHGLGRLHTLHLDRCGLQ-ELG 121

Query: 122 TWLLENNTKLETLFLVNDSLT----GPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDIL 177
             L      L+ L+L +++L       FR   +    L  L +  N     +P      L
Sbjct: 122 PGLFRGLAALQYLYLQDNALQALPDDTFRDLGN----LTHLFLHGNRIS-SVPERAFRGL 176

Query: 178 PSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN 237
            SL    +  N +    P +F ++  L  L L  N L+  +P         L+ L L++N
Sbjct: 177 HSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLS-ALPTEALAPLRALQYLRLNDN 235

Query: 238 SL 239
             
Sbjct: 236 PW 237

>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 = 76.7 bits (189), Expect = 1e-15
 Identities = 57/321 (17%), Positives = 102/321 (31%), Gaps = 46/321 (14%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEP-LFNH-SRLKIFY 58
           +  L+ L V        I ++    L+S+  L L  N F     LE   FN  + L++  
Sbjct: 53  LQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFL---QLETGAFNGLANLEVLT 109

Query: 59  ADNNELNAEITQSHSLIAPNFQLNSLSLS----SDYGDGFIFPKFLYHQHDLALVD--LS 112
                L+  +   +    P   L  L L             F   +   H L L    + 
Sbjct: 110 LTQCNLDGAVLSGNFF-KPLTSLEMLVLRDNNIKKIQPASFFLN-MRRFHVLDLTFNKVK 167

Query: 113 HIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHR--------WLEFLDISNNN 164
            I         L         L L + +L       +   +         +  LD+S N 
Sbjct: 168 SICEE----DLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNG 223

Query: 165 FRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGN--------------MNFLRVLDLS 210
           F+  +     D +   K  ++ ++       S                   + ++  DLS
Sbjct: 224 FKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLS 283

Query: 211 NNQLTGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEI 267
            +++   + + +     +LE L L+ N    ++ + F     LT+L  L L  N      
Sbjct: 284 KSKIF-ALLKSVFSHFTDLEQLTLAQNEINKIDDNAFW---GLTHLLKLNLSQNFLGSID 339

Query: 268 PQSLSKCSSLEGLYLNNNSLS 288
            +       LE L L+ N + 
Sbjct: 340 SRMFENLDKLEVLDLSYNHIR 360

>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 = 69.8 bits (171), Expect = 3e-13
 Identities = 60/289 (20%), Positives = 99/289 (34%), Gaps = 35/289 (12%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ-IPISLEPLFNHSRLKIFYA 59
           +TSL +L +  N +     +S  +++     L L+ N  + I       F      +   
Sbjct: 128 LTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRL 187

Query: 60  DNNELNA-EITQSHSLIAPNF----QLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHI 114
            +  L              N      + +L LS +     +  +F        +  L   
Sbjct: 188 SSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILS 247

Query: 115 KMNGEFP-------------TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRW---LEFL 158
                               T+     + ++T  L    +     L          LE L
Sbjct: 248 NSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIF---ALLKSVFSHFTDLEQL 304

Query: 159 DISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPS-SFGNMNFLRVLDLSNNQLTGE 217
            ++ N     I       L  L   N+S N L GSI S  F N++ L VLDLS N +   
Sbjct: 305 TLAQNEIN-KIDDNAFWGLTHLLKLNLSQNFL-GSIDSRMFENLDKLEVLDLSYNHIR-A 361

Query: 218 IPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRF 263
           + +   +G  NL+ LAL  N   S+   +F     LT+L+ + L  N +
Sbjct: 362 LGDQSFLGLPNLKELALDTNQLKSVPDGIFD---RLTSLQKIWLHTNPW 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 = 64.0 bits (156), Expect = 2e-11
 Identities = 28/122 (22%), Positives = 51/122 (41%), Gaps = 8/122 (6%)

Query: 172 EIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLES 231
           ++ ++   + + ++S+N++     +SF  +  L+ L +        I  +   G  +L  
Sbjct: 24  QVPELPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLII 83

Query: 232 LALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEI--PQSLSKCSSLEGLYLNNNS 286
           L L  N    LE   F+    L NLE L L      G +         +SLE L L +N+
Sbjct: 84  LKLDYNQFLQLETGAFN---GLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNN 140

Query: 287 LS 288
           + 
Sbjct: 141 IK 142

>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 = 58.6 bits (142), Expect = 1e-09
 Identities = 50/313 (15%), Positives = 98/313 (31%), Gaps = 56/313 (17%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
             +  +D+S N +   ++ +    L  ++ L +      + I        S L I   D 
Sbjct: 30  AHVNYVDLSLNSIA-ELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDY 88

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF- 120
           N+          L       N L+                   +L ++ L+   ++G   
Sbjct: 89  NQF-------LQL--ETGAFNGLA-------------------NLEVLTLTQCNLDGAVL 120

Query: 121 PTWLLENNTKLETLFLVNDSLTG-PFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS 179
                +  T LE L L ++++          + R    LD++ N  +  I  E       
Sbjct: 121 SGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKS-ICEEDLLNFQG 179

Query: 180 LKF----------FNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHL--AVGCV 227
             F           +++   L      +      +  LDLS N     + +    A+   
Sbjct: 180 KHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGT 239

Query: 228 NLESLALSNNSLEGHMFSRN------------FNLTNLEWLQLGGNRFVGEIPQSLSKCS 275
            ++SL LSN+   G  F                  + ++   L  ++    +    S  +
Sbjct: 240 KIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHFT 299

Query: 276 SLEGLYLNNNSLS 288
            LE L L  N ++
Sbjct: 300 DLEQLTLAQNEIN 312

>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 = 50.9 bits (122), Expect = 3e-07
 Identities = 23/100 (23%), Positives = 45/100 (45%), Gaps = 8/100 (8%)

Query: 193 SIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNF-NLT 251
            +P+       +  +DLS N +  E+ E       +L+ L +   +    + +  F  L+
Sbjct: 27  ELPAH------VNYVDLSLNSIA-ELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLS 79

Query: 252 NLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV 291
           +L  L+L  N+F+     + +  ++LE L L   +L G V
Sbjct: 80  SLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAV 119

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 74.7 bits (184), Expect = 3e-15
 Identities = 50/294 (17%), Positives = 94/294 (31%), Gaps = 27/294 (9%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
               +LD+ +N ++  +       L  +  L+L NN     I  +      +L+  Y   
Sbjct: 54  PDTTLLDLQNNDIS-ELRKDDFKGLQHLYALVLVNNKISK-IHEKAFSPLRKLQKLYISK 111

Query: 62  NELNAEITQS--HSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGE 119
           N L  EI  +   SL+      N +          +         ++  +++    +   
Sbjct: 112 NHL-VEIPPNLPSSLVELRIHDNRIR--------KVPKGVFSGLRNMNCIEMGGNPLENS 162

Query: 120 FPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS 179
                  +  KL  L +    LT    +P      L  L + +N  +  I +E       
Sbjct: 163 GFEPGAFDGLKLNYLRISEAKLT---GIPKDLPETLNELHLDHNKIQ-AIELEDLLRYSK 218

Query: 180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN-- 237
           L    +  N +      S   +  LR L L NN+L+  +P  L      L+ + L  N  
Sbjct: 219 LYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNKLS-RVPAGLP-DLKLLQVVYLHTNNI 276

Query: 238 -SLEGHMFS---RNFNLTNLEWLQLGGNRF-VGEIPQSLSKC-SSLEGLYLNNN 285
             +  + F              + L  N     E+  +  +C +    +   N 
Sbjct: 277 TKVGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEVQPATFRCVTDRLAIQFGNY 330

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 66.6 bits (163), Expect = 2e-12
 Identities = 49/271 (18%), Positives = 100/271 (36%), Gaps = 25/271 (9%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHF-QIPISLEPLFNHSRLKIFYA 59
           +  L  L + +N+++  I       L  +++L +S NH  +IP     L   S L     
Sbjct: 77  LQHLYALVLVNNKIS-KIHEKAFSPLRKLQKLYISKNHLVEIP---PNLP--SSLVELRI 130

Query: 60  DNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGE 119
            +N +         + +    +N + +  +  +   F    +    L  + +S  K+   
Sbjct: 131 HDNRIR---KVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKLNYLRISEAKLT-G 186

Query: 120 FPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS 179
            P  L E    L  L L ++ +       +  +  L  L + +N  R  I       LP+
Sbjct: 187 IPKDLPET---LNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRM-IENGSLSFLPT 242

Query: 180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPE------HLAVGCVNLESLA 233
           L+  ++  N L   +P+   ++  L+V+ L  N +T ++           V       ++
Sbjct: 243 LRELHLDNNKLS-RVPAGLPDLKLLQVVYLHTNNIT-KVGVNDFCPVGFGVKRAYYNGIS 300

Query: 234 LSNNSLEGHMFSRN--FNLTNLEWLQLGGNR 262
           L NN +            +T+   +Q G  +
Sbjct: 301 LFNNPVPYWEVQPATFRCVTDRLAIQFGNYK 331

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 58.1 bits (141), Expect = 1e-09
 Identities = 26/137 (18%), Positives = 51/137 (37%), Gaps = 14/137 (10%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQL 214
           L  +  S+   +  +P    +I P     ++  N +       F  +  L  L L NN++
Sbjct: 35  LRVVQCSDLGLK-AVPK---EISPDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKI 90

Query: 215 TGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSL 271
           + +I E        L+ L +S N    +  ++ S      +L  L++  NR         
Sbjct: 91  S-KIHEKAFSPLRKLQKLYISKNHLVEIPPNLPS------SLVELRIHDNRIRKVPKGVF 143

Query: 272 SKCSSLEGLYLNNNSLS 288
           S   ++  + +  N L 
Sbjct: 144 SGLRNMNCIEMGGNPLE 160

>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 = 31/135 (22%), Positives = 48/135 (35%), Gaps = 9/135 (6%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQL 214
           L+ L IS N+    IP    ++  SL    I  N +       F  +  +  +++  N L
Sbjct: 104 LQKLYISKNHLV-EIP---PNLPSSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPL 159

Query: 215 TGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQ-SLSK 273
                E  A   + L  L +S   L   +         L  L L  N+    I    L +
Sbjct: 160 ENSGFEPGAFDGLKLNYLRISEAKLT-GIPKDLP--ETLNELHLDHNKIQ-AIELEDLLR 215

Query: 274 CSSLEGLYLNNNSLS 288
            S L  L L +N + 
Sbjct: 216 YSKLYRLGLGHNQIR 230

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 74.5 bits (183), Expect = 3e-15
 Identities = 49/290 (16%), Positives = 79/290 (27%), Gaps = 15/290 (5%)

Query: 10  SSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEIT 69
           S+    G+          S+E L+   +          +     LK        + + I 
Sbjct: 26  SAFNCLGAADVELYGGGRSLEYLLKRVDTEADLGQFTDIIKSLSLKRLTVRAARIPSRIL 85

Query: 70  QSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQH----DLALVDLSHIKMNGEFPTWLL 125
                +     L  L+L +    G   P  L         L L ++S    +        
Sbjct: 86  FGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATRDAWLAELQQ 145

Query: 126 ENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVE---IGDILPSLKF 182
                L+ L +            +     L  LD+S+N       +         P+L+ 
Sbjct: 146 WLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQV 205

Query: 183 FNISMN---ALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL 239
             +         G   +       L+ LDLS+N L              L SL LS   L
Sbjct: 206 LALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSFTGL 265

Query: 240 EGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG 289
           +  +         L  L L  NR     P    +   +  L L  N    
Sbjct: 266 K-QVPKGLP--AKLSVLDLSYNRL-DRNPSPD-ELPQVGNLSLKGNPFLD 310

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 50.7 bits (121), Expect = 2e-07
 Identities = 43/242 (17%), Positives = 67/242 (27%), Gaps = 55/242 (22%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +  L + +VS       ++         ++ L ++  H     S E +     L      
Sbjct: 123 LNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLN-FSCEQVRVFPALSTLDLS 181

Query: 61  NNELNAEITQSHSLIAPNF-QLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGE 119
           +N    E     +L    F  L  L+L                                 
Sbjct: 182 DNPELGERGLISALCPLKFPTLQVLALR-------------------------------- 209

Query: 120 FPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS 179
                   N  +ET   V  +L             L+ LD+S+N+ R        D    
Sbjct: 210 --------NAGMETPSGVCSALAAARVQ-------LQGLDLSHNSLRDAAGAPSCDWPSQ 254

Query: 180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL 239
           L   N+S   L             L VLDLS N+L    P         + +L+L  N  
Sbjct: 255 LNSLNLSFTGLKQVPKGLPAK---LSVLDLSYNRLD-RNPSPD--ELPQVGNLSLKGNPF 308

Query: 240 EG 241
             
Sbjct: 309 LD 310

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 49.5 bits (118), Expect = 6e-07
 Identities = 26/158 (16%), Positives = 48/158 (30%), Gaps = 11/158 (6%)

Query: 177 LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCV-NLESLALS 235
           L  L      + +           ++ L+ L L N ++TG  P  L      +L  L L 
Sbjct: 70  LKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLR 129

Query: 236 NNSLEGHMFS----RNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV 291
           N S           + +    L+ L +     +    + +    +L  L L++N   G  
Sbjct: 130 NVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGER 189

Query: 292 NVPSSPANTLF------NLSQNSRRFTSSISHSHLLNL 323
            + S+     F       L        S +  +     
Sbjct: 190 GLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAAR 227

>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 = 73.5 bits (181), Expect = 7e-15
 Identities = 32/156 (20%), Positives = 58/156 (37%), Gaps = 12/156 (7%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQL 214
           LE LD  ++N +      +   L +L + +IS      +    F  ++ L VL ++ N  
Sbjct: 103 LEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSF 162

Query: 215 TGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSL 271
                  +     NL  L LS      L    F+   +L++L+ L +  N F        
Sbjct: 163 QENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFN---SLSSLQVLNMSHNNFFSLDTFPY 219

Query: 272 SKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQN 307
              +SL+ L  + N +       +S    L +   +
Sbjct: 220 KCLNSLQVLDYSLNHIM------TSKKQELQHFPSS 249

>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 = 72.0 bits (177), Expect = 2e-14
 Identities = 53/270 (19%), Positives = 99/270 (36%), Gaps = 45/270 (16%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ-IPISLEPLFNHSRLKIFYAD 60
           +S   L++ SN+L  S+       LT + +L LS+N         +  F  + LK     
Sbjct: 28  SSATRLELESNKLQ-SLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLS 86

Query: 61  NNELNAEITQSHSLIAPNF----QLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKM 116
            N +          ++ NF    QL  L                         +L  +  
Sbjct: 87  FNGV--------ITMSSNFLGLEQLEHLDFQH--------------------SNLKQMSE 118

Query: 117 NGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI 176
              F      +   L  L + +      F    +    LE L ++ N+F+ +   +I   
Sbjct: 119 FSVF-----LSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTE 173

Query: 177 LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSN 236
           L +L F ++S   L+   P++F +++ L+VL++S+N     +         +L+ L  S 
Sbjct: 174 LRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFF-SLDTFPYKCLNSLQVLDYSL 232

Query: 237 N---SLEGHMFSRNFNLTNLEWLQLGGNRF 263
           N   + +          ++L +L L  N F
Sbjct: 233 NHIMTSKKQELQH--FPSSLAFLNLTQNDF 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 = 67.3 bits (165), Expect = 9e-13
 Identities = 41/167 (24%), Positives = 67/167 (40%), Gaps = 13/167 (7%)

Query: 129 TKLETLFLVNDSLTG-PFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISM 187
            +LE L   + +L          S R L +LDIS+ + R      I + L SL+   ++ 
Sbjct: 101 EQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTR-VAFNGIFNGLSSLEVLKMAG 159

Query: 188 NALDGSIPS-SFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---SLEGHM 243
           N+   +     F  +  L  LDLS  QL  ++         +L+ L +S+N   SL+   
Sbjct: 160 NSFQENFLPDIFTELRNLTFLDLSQCQLE-QLSPTAFNSLSSLQVLNMSHNNFFSLDTFP 218

Query: 244 FSRNFNLTNLEWLQLGGNRFVGEIPQSL--SKCSSLEGLYLNNNSLS 288
           +     L +L+ L    N  +    +       SSL  L L  N  +
Sbjct: 219 YK---CLNSLQVLDYSLNHIM-TSKKQELQHFPSSLAFLNLTQNDFA 261

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 63.5 bits (155), Expect = 1e-11
 Identities = 30/154 (19%), Positives = 48/154 (31%), Gaps = 15/154 (9%)

Query: 156 EFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLT 215
             +  ++      +P     I  S     +  N L       F  +  L  L LS+N L+
Sbjct: 10  TEIRCNSKGLT-SVP---TGIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLS 65

Query: 216 -GEIPEHLAVGCVNLESLALSNNSLEGHMFSRNF-NLTNLEWLQLGGNRFVGEIPQSL-S 272
                     G  +L+ L LS N +     S NF  L  LE L    +        S+  
Sbjct: 66  FKGCCSQSDFGTTSLKYLDLSFNGVI--TMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFL 123

Query: 273 KCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQ 306
              +L  L +++           +       LS 
Sbjct: 124 SLRNLIYLDISHTHTR------VAFNGIFNGLSS 151

>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 = 61.2 bits (149), Expect = 1e-10
 Identities = 49/242 (20%), Positives = 77/242 (31%), Gaps = 35/242 (14%)

Query: 1   MTSLRILDVSSNQLT-GSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNH-SRLKIFY 58
           +T L  L +SSN L+     S      TS++ L LS N      ++   F    +L+   
Sbjct: 51  LTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVI---TMSSNFLGLEQLEHLD 107

Query: 59  ADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG 118
             ++ L        S+      L  L +S                               
Sbjct: 108 FQHSNLKQ--MSEFSVFLSLRNLIYLDISHT--------------------HTRVA---- 141

Query: 119 EFPTWLLENNTKLETLFLV-NDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDIL 177
                +    + LE L +  N              R L FLD+S       +     + L
Sbjct: 142 --FNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLE-QLSPTAFNSL 198

Query: 178 PSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN 237
            SL+  N+S N         +  +N L+VLD S N +     + L     +L  L L+ N
Sbjct: 199 SSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQN 258

Query: 238 SL 239
             
Sbjct: 259 DF 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 = 41.5 bits (98), Expect = 2e-04
 Identities = 30/168 (17%), Positives = 58/168 (34%), Gaps = 6/168 (3%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +  L  LD   + L      S  + L ++  L +S+ H ++          S L++    
Sbjct: 100 LEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRV-AFNGIFNGLSSLEVLKMA 158

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            N           +      L  L LS    +  + P        L ++++SH       
Sbjct: 159 GNSFQENF--LPDIFTELRNLTFLDLSQCQLE-QLSPTAFNSLSSLQVLNMSHNNFF-SL 214

Query: 121 PTWLLENNTKLETLFLVNDSLTG-PFRLPIHSHRWLEFLDISNNNFRC 167
            T+  +    L+ L    + +     +   H    L FL+++ N+F C
Sbjct: 215 DTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFAC 262

>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 = 72.4 bits (178), Expect = 1e-14
 Identities = 43/164 (26%), Positives = 64/164 (39%), Gaps = 13/164 (7%)

Query: 129 TKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMN 188
                L L  + L       +  +  L  L++        + V     LP L   ++S N
Sbjct: 31  KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELT-KLQV--DGTLPVLGTLDLSHN 87

Query: 189 ALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---SLEGHMFS 245
            L  S+P     +  L VLD+S N+LT  +P     G   L+ L L  N   +L   + +
Sbjct: 88  QLQ-SLPLLGQTLPALTVLDVSFNRLT-SLPLGALRGLGELQELYLKGNELKTLPPGLLT 145

Query: 246 RNFNLTNLEWLQLGGNRFVGEIPQSL-SKCSSLEGLYLNNNSLS 288
                  LE L L  N    E+P  L +   +L+ L L  NSL 
Sbjct: 146 P---TPKLEKLSLANNNLT-ELPAGLLNGLENLDTLLLQENSLY 185

>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 = 52.8 bits (127), Expect = 4e-08
 Identities = 41/137 (29%), Positives = 57/137 (41%), Gaps = 12/137 (8%)

Query: 129 TKLETLFLVNDSLTGPFRLP--IHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNIS 186
             L TL L ++ L     LP    +   L  LD+S N     +P+     L  L+   + 
Sbjct: 77  PVLGTLDLSHNQLQ---SLPLLGQTLPALTVLDVSFNRLT-SLPLGALRGLGELQELYLK 132

Query: 187 MNALDGSIPSS-FGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFS 245
            N L  ++P         L  L L+NN LT E+P  L  G  NL++L L  NSL      
Sbjct: 133 GNELK-TLPPGLLTPTPKLEKLSLANNNLT-ELPAGLLNGLENLDTLLLQENSLY--TIP 188

Query: 246 RN-FNLTNLEWLQLGGN 261
           +  F    L +  L GN
Sbjct: 189 KGFFGSHLLPFAFLHGN 205

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 48.9 bits (117), Expect = 9e-07
 Identities = 27/115 (23%), Positives = 42/115 (36%), Gaps = 6/115 (5%)

Query: 175 DILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLAL 234
           D+       ++S N L     ++      L  L+L   +LT ++   +      L +L L
Sbjct: 28  DLPKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELT-KLQ--VDGTLPVLGTLDL 84

Query: 235 SNNSLEGHMFSRNF-NLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
           S+N L           L  L  L +  NR       +L     L+ LYL  N L 
Sbjct: 85  SHNQL--QSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELK 137

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 40.9 bits (96), Expect = 3e-04
 Identities = 42/237 (17%), Positives = 69/237 (29%), Gaps = 63/237 (26%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
               IL +S N L  + S + L+  T + +L L          L+       L      +
Sbjct: 31  KDTTILHLSENLLY-TFSLATLMPYTRLTQLNLDRAELT---KLQVDGTLPVLGTLDLSH 86

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
           N+L         L      L  L +S +                     L+ +      P
Sbjct: 87  NQL----QSLPLLGQTLPALTVLDVSFN--------------------RLTSL------P 116

Query: 122 TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLK 181
              L    +L+ L+L  + L                           +P  +    P L+
Sbjct: 117 LGALRGLGELQELYLKGNELK-------------------------TLPPGLLTPTPKLE 151

Query: 182 FFNISMNALDGSIPSS-FGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN 237
             +++ N L   +P+     +  L  L L  N L   IP+    G   L    L  N
Sbjct: 152 KLSLANNNLT-ELPAGLLNGLENLDTLLLQENSLYT-IPKG-FFGSHLLPFAFLHGN 205

>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 = 72.2 bits (177), Expect = 5e-14
 Identities = 53/292 (18%), Positives = 102/292 (34%), Gaps = 15/292 (5%)

Query: 3   SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNN 62
                 + S Q+  S+++   + L++I+      N  ++   L  L     L      + 
Sbjct: 202 VFHPNSLFSVQVNMSVNALGHLQLSNIKLND--ENCQRLMTFLSELTRGPTLLNVTLQHI 259

Query: 63  ELNAEITQSHSLIAPNFQLNSLSLSS-DYGDGFIFPKFLYHQHDLALVDLSHIKMNG--E 119
           E   + +           +  L++ +    +     +F Y +  L  + + H+K      
Sbjct: 260 ETTWKCSVKLFQFFWPRPVEYLNIYNLTITERIDREEFTYSETALKSLMIEHVKNQVFLF 319

Query: 120 FPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS 179
               L     ++    L          +   S     FL+ + N F      +    L  
Sbjct: 320 SKEALYSVFAEMNIKMLSISDTPFIHMVCPPSPSSFTFLNFTQNVFT-DSVFQGCSTLKR 378

Query: 180 LKFFNISMNALDGSIPSSFG---NMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSN 236
           L+   +  N L  +         NM+ L  LD+S N L     +       ++  L LS+
Sbjct: 379 LQTLILQRNGLK-NFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSS 437

Query: 237 NSLEGHMFSRNFNLT-NLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSL 287
           N L G +F     L   ++ L L  NR    IP+ ++   +L+ L + +N L
Sbjct: 438 NMLTGSVFRC---LPPKVKVLDLHNNRI-MSIPKDVTHLQALQELNVASNQL 485

>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 = 69.9 bits (171), Expect = 3e-13
 Identities = 58/328 (17%), Positives = 108/328 (32%), Gaps = 42/328 (12%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPL-FNHSRLKIFYAD 60
            SLR LD+S N            +LT +  L LS   F+    L+ L   H  L     D
Sbjct: 121 ASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFR---QLDLLPVAHLHLSCILLD 177

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
               + +  ++ SL  PN  +  L    +          +     L L ++     N + 
Sbjct: 178 LVSYHIKGGETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQR 237

Query: 121 PTWLLENNTK------------------------------LETLFLVNDSLTGP--FRLP 148
               L   T+                              +E L + N ++T        
Sbjct: 238 LMTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRPVEYLNIYNLTITERIDREEF 297

Query: 149 IHSHRWLEFLDISN--NNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRV 206
            +S   L+ L I +  N         +  +   +    +S++           + +    
Sbjct: 298 TYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPFIHMVCPPSPSSFTF 357

Query: 207 LDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE--GHMFSRNFNLTNLEWLQLGGNRF- 263
           L+ + N  T +           L++L L  N L+    +     N+++LE L +  N   
Sbjct: 358 LNFTQNVFT-DSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLN 416

Query: 264 VGEIPQSLSKCSSLEGLYLNNNSLSGNV 291
                ++ +   S+  L L++N L+G+V
Sbjct: 417 SHAYDRTCAWAESILVLNLSSNMLTGSV 444

>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 = 64.9 bits (158), Expect = 1e-11
 Identities = 54/361 (14%), Positives = 105/361 (29%), Gaps = 62/361 (17%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ--------------------- 40
           + LR+L +S N++  S+     +    +E L +S+N  Q                     
Sbjct: 76  SELRVLRLSHNRIR-SLDFHVFLFNQDLEYLDVSHNRLQNISCCPMASLRHLDLSFNDFD 134

Query: 41  -IPI--------SLEPL--------------FNHSRLKIFYADNNELNAEITQSHSLIAP 77
            +P+         L  L                H  L     D    + +  ++ SL  P
Sbjct: 135 VLPVCKEFGNLTKLTFLGLSAAKFRQLDLLPVAHLHLSCILLDLVSYHIKGGETESLQIP 194

Query: 78  NFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLEN---NTKLETL 134
           N  +  L    +          +     L L ++     N +     L        L  +
Sbjct: 195 NTTVLHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQRLMTFLSELTRGPTLLNV 254

Query: 135 FLVNDSLTGPFRLPIHSHRW---LEFLDISNNNFRCHIPVEIGDI----LPSLKFFNISM 187
            L +   T    + +    W   +E+L+I N      I  E        L SL   ++  
Sbjct: 255 TLQHIETTWKCSVKLFQFFWPRPVEYLNIYNLTITERIDREEFTYSETALKSLMIEHVKN 314

Query: 188 NALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRN 247
                S  + +     + +  LS +     I         +   L  + N        + 
Sbjct: 315 QVFLFSKEALYSVFAEMNIKMLSISDTP-FIHMVCPPSPSSFTFLNFTQNVFT-DSVFQG 372

Query: 248 F-NLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQ 306
              L  L+ L L  N       +      ++  L   + SL+   ++ S   +     ++
Sbjct: 373 CSTLKRLQTLILQRNGLK-NFFKVALMTKNMSSLETLDVSLN---SLNSHAYDRTCAWAE 428

Query: 307 N 307
           +
Sbjct: 429 S 429

>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 = 31/152 (20%), Positives = 57/152 (37%), Gaps = 7/152 (4%)

Query: 175 DILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLAL 234
           D+ P  K  ++S N++          ++ LRVL LS+N++   +  H+ +   +LE L +
Sbjct: 49  DLPPRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIR-SLDFHVFLFNQDLEYLDV 107

Query: 235 SNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQS--LSKCSSLEGLYLNNNSLSGNVN 292
           S+N L+         + +L  L L  N F   +P        + L  L L+         
Sbjct: 108 SHNRLQNISCC---PMASLRHLDLSFNDFD-VLPVCKEFGNLTKLTFLGLSAAKFRQLDL 163

Query: 293 VPSSPANTLFNLSQNSRRFTSSISHSHLLNLH 324
           +P +  +    L               L   +
Sbjct: 164 LPVAHLHLSCILLDLVSYHIKGGETESLQIPN 195

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 47.6 bits (113), Expect = 4e-06
 Identities = 37/169 (21%), Positives = 65/169 (38%), Gaps = 10/169 (5%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSS--FGNMNFLRVLDLSNN 212
           LE+LD+S+N  + +I       + SL+  ++S N  D  +P    FGN+  L  L LS  
Sbjct: 102 LEYLDVSHNRLQ-NISC---CPMASLRHLDLSFNDFD-VLPVCKEFGNLTKLTFLGLSAA 156

Query: 213 QLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLS 272
           +        +A   ++   L L +  ++G     +  + N   L L  +       Q   
Sbjct: 157 KFRQLDLLPVAHLHLSCILLDLVSYHIKGGET-ESLQIPNTTVLHLVFHPNSLFSVQVNM 215

Query: 273 KCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLL 321
             ++L  L L+N  L  N          L  L++       ++ H    
Sbjct: 216 SVNALGHLQLSNIKL--NDENCQRLMTFLSELTRGPTLLNVTLQHIETT 262

>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 = 46.8 bits (111), Expect = 7e-06
 Identities = 51/268 (19%), Positives = 100/268 (37%), Gaps = 20/268 (7%)

Query: 3   SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPL-FNHSRLKIFYADN 61
           +L+ ++ +                  +E L + N      I  E   ++ + LK    ++
Sbjct: 255 TLQHIETTWKCSVKLFQ---FFWPRPVEYLNIYNLTITERIDREEFTYSETALKSLMIEH 311

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
            +    +    +L +   ++N   LS      FI             ++ +      +  
Sbjct: 312 VKNQVFLFSKEALYSVFAEMNIKMLS-ISDTPFIHMVCPPSPSSFTFLNFTQNVF-TDSV 369

Query: 122 TWLLENNTKLETLFLVNDSLT---GPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILP 178
                   +L+TL L  + L        +  +    LE LD+S N+   H          
Sbjct: 370 FQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSS-LETLDVSLNSLNSHAYDRTCAWAE 428

Query: 179 SLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN- 237
           S+   N+S N L GS+         ++VLDL NN++   IP+ +      L+ L +++N 
Sbjct: 429 SILVLNLSSNMLTGSVFRCLPPK--VKVLDLHNNRIM-SIPKDVT-HLQALQELNVASNQ 484

Query: 238 --SLEGHMFSRNFNLTNLEWLQLGGNRF 263
             S+   +F     LT+L+++ L  N +
Sbjct: 485 LKSVPDGVFD---RLTSLQYIWLHDNPW 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 = 42.2 bits (99), Expect = 2e-04
 Identities = 41/266 (15%), Positives = 79/266 (29%), Gaps = 57/266 (21%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNH-SRLKIFYA 59
           + SL I  V +         +       +   MLS +    P          S       
Sbjct: 304 LKSLMIEHVKNQVFL-FSKEALYSVFAEMNIKMLSIS--DTPFIHMVCPPSPSSFTFLNF 360

Query: 60  DNNELNAEI-------TQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLS 112
             N     +        +  +LI     L +    +             +   L  +D+S
Sbjct: 361 TQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVAL---------MTKNMSSLETLDVS 411

Query: 113 HIKMNGEFPTWLLENNTKLETLFLVNDSLT-GPF-RLPIHSHRWLEFLDISNNNFRCHIP 170
              +N             +  L L ++ LT   F  LP      ++ LD+ NN       
Sbjct: 412 LNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLPPK----VKVLDLHNNRIM---- 463

Query: 171 VEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLE 230
                                 SIP    ++  L+ L++++NQL   +P+ +     +L+
Sbjct: 464 ----------------------SIPKDVTHLQALQELNVASNQLK-SVPDGVFDRLTSLQ 500

Query: 231 SLALSNN----SLEGHMFSRNFNLTN 252
            + L +N    +  G  +   +   +
Sbjct: 501 YIWLHDNPWDCTCPGIRYLSEWINKH 526

>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 = 68.6 bits (168), Expect = 4e-13
 Identities = 52/281 (18%), Positives = 96/281 (34%), Gaps = 38/281 (13%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEP-LFNH-SRLKIFYA 59
            +++ LD+S+N++T  IS+S L    +++ L+L++N      ++E   F+    L+    
Sbjct: 52  EAVKSLDLSNNRIT-YISNSDLQRCVNLQALVLTSNGIN---TIEEDSFSSLGSLEHLDL 107

Query: 60  DNNELNAEITQSHSLIAPNFQLNSLSLSS------DYGDGFIFPKFLYHQHDLALVDLSH 113
             N L+     S S   P   L  L+L             F     L       +   + 
Sbjct: 108 SYNYLS---NLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTK 164

Query: 114 IKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEI 173
           I              T LE L +    L       + S + +  L +        +    
Sbjct: 165 I------QRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHI-LLLEIF 217

Query: 174 GDILPSLKFFNISMNALDG----SIPS----SFGNMNFLRVLDLSNNQLTGEIPEHLAVG 225
            D+  S++   +    LD      + +    S       R + +++  L       L   
Sbjct: 218 VDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQ--VMKLLNQ 275

Query: 226 CVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRF 263
              L  L  S N   S+   +F     LT+L+ + L  N +
Sbjct: 276 ISGLLELEFSRNQLKSVPDGIFD---RLTSLQKIWLHTNPW 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 = 62.8 bits (153), Expect = 3e-11
 Identities = 32/136 (23%), Positives = 57/136 (41%), Gaps = 4/136 (2%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSS-FGNMNFLRVLDLSNNQ 213
           L+ L +++N     I  +    L SL+  ++S N L  ++ SS F  ++ L  L+L  N 
Sbjct: 78  LQALVLTSNGIN-TIEEDSFSSLGSLEHLDLSYNYL-SNLSSSWFKPLSSLTFLNLLGNP 135

Query: 214 LTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNF-NLTNLEWLQLGGNRFVGEIPQSLS 272
                   L      L+ L + N      +  ++F  LT LE L++  +      P+SL 
Sbjct: 136 YKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLK 195

Query: 273 KCSSLEGLYLNNNSLS 288
              ++  L L+     
Sbjct: 196 SIQNVSHLILHMKQHI 211

>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 = 60.5 bits (147), Expect = 2e-10
 Identities = 36/176 (20%), Positives = 64/176 (36%), Gaps = 9/176 (5%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSS-FGNMNFLRVLDLSNNQ 213
           LE LD+S N    ++       L SL F N+  N       +S F ++  L++L + N  
Sbjct: 102 LEHLDLSYNYLS-NLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMD 160

Query: 214 LTGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQS 270
              +I      G   LE L +  +   S E        ++ N+  L L   + +  +   
Sbjct: 161 TFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLK---SIQNVSHLILHMKQHILLLEIF 217

Query: 271 LSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGI 326
           +   SS+E L L +  L    +          +L +        I+   L  +  +
Sbjct: 218 VDVTSSVECLELRDTDLDTF-HFSELSTGETNSLIKKFTFRNVKITDESLFQVMKL 272

>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 = 57.8 bits (140), Expect = 1e-09
 Identities = 41/246 (16%), Positives = 79/246 (32%), Gaps = 14/246 (5%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
             +L+ L ++SN +  +I       L S+E L LS N+    +S       S L      
Sbjct: 75  CVNLQALVLTSNGIN-TIEEDSFSSLGSLEHLDLSYNYLSN-LSSSWFKPLSSLTFLNLL 132

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            N    +     SL +   +L  L + +      I  K       L  +++    +   +
Sbjct: 133 GNPY--KTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQ-SY 189

Query: 121 PTWLLENNTKLETLFLVNDSLT----GPF-RLPIHSHRWLEFLDISNNNFR--CHIPVEI 173
               L++   +  L L                       L   D+   +F          
Sbjct: 190 EPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNS 249

Query: 174 GDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLA 233
                + +   I+  +L   +      ++ L  L+ S NQL   +P+ +     +L+ + 
Sbjct: 250 LIKKFTFRNVKITDESL-FQVMKLLNQISGLLELEFSRNQLKS-VPDGIFDRLTSLQKIW 307

Query: 234 LSNNSL 239
           L  N  
Sbjct: 308 LHTNPW 313

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 68.7 bits (168), Expect = 4e-13
 Identities = 44/167 (26%), Positives = 68/167 (40%), Gaps = 17/167 (10%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPS-SFGNMNFLRVLDLSNNQ 213
              LD+S+NN            L +L    +S N L+  I S +F  +  LR LDLS+N 
Sbjct: 41  TALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLN-FISSEAFVPVPNLRYLDLSSNH 99

Query: 214 LTGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIP-- 268
           L   + E L      LE L L NN    ++ + F    ++  L+ L L  N+     P  
Sbjct: 100 LH-TLDEFLFSDLQALEVLLLYNNHIVVVDRNAFE---DMAQLQKLYLSQNQIS-RFPVE 154

Query: 269 --QSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTS 313
             +  +K   L  L L++N L     +P +    L    +N     +
Sbjct: 155 LIKDGNKLPKLMLLDLSSNKLK---KLPLTDLQKLPAWVKNGLYLHN 198

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 59.1 bits (143), Expect = 6e-10
 Identities = 38/175 (21%), Positives = 62/175 (35%), Gaps = 37/175 (21%)

Query: 121 PTWLLENNTKLETLFLVNDSLT----GPFR-LPIHSHRWLEFLDISNNNFRCHIPVEIGD 175
             W     T L +L L ++ L       F  +P      L +LD+S+N+    +   +  
Sbjct: 56  AEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPN-----LRYLDLSSNHLH-TLDEFLFS 109

Query: 176 ILPSLKFFNISMNALDGSIPS-SFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLAL 234
            L +L+   +  N +   +   +F +M  L+ L LS NQ++                   
Sbjct: 110 DLQALEVLLLYNNHIV-VVDRNAFEDMAQLQKLYLSQNQIS------------------- 149

Query: 235 SNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSL--EGLYLNNNSL 287
                   +      L  L  L L  N+        L K  +    GLYL+NN L
Sbjct: 150 ---RFPVELIKDGNKLPKLMLLDLSSNKLKKLPLTDLQKLPAWVKNGLYLHNNPL 201

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 68.8 bits (168), Expect = 6e-13
 Identities = 49/200 (24%), Positives = 78/200 (39%), Gaps = 22/200 (11%)

Query: 129 TKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMN 188
             LE L   ++ L+    LP      L+ LD+ NN     +P         L++ N   N
Sbjct: 100 ASLEYLDACDNRLS---TLPELPAS-LKHLDVDNNQLT-MLPELPA----LLEYINADNN 150

Query: 189 ALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEG--HMFSR 246
            L   +P    +   L VL + NNQLT  +PE       +LE+L +S N LE    +  R
Sbjct: 151 QL-TMLPELPTS---LEVLSVRNNQLT-FLPELPE----SLEALDVSTNLLESLPAVPVR 201

Query: 247 NFNLTNLE-WLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLS 305
           N +    E + +   NR    IP+++        + L +N LS  +    S      +  
Sbjct: 202 NHHSEETEIFFRCRENRIT-HIPENILSLDPTCTIILEDNPLSSRIRESLSQQTAQPDYH 260

Query: 306 QNSRRFTSSISHSHLLNLHG 325
                F+ S    + L+   
Sbjct: 261 GPRIYFSMSDGQQNTLHRPL 280

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 66.1 bits (161), Expect = 4e-12
 Identities = 52/315 (16%), Positives = 100/315 (31%), Gaps = 69/315 (21%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ-IPISLEPLFNHSRLKIFYAD 60
                  +       ++S      +    EL L+  +   +P +L P     ++ +    
Sbjct: 34  DKWEKQALPGENRNEAVSLLKECLINQFSELQLNRLNLSSLPDNLPP-----QITVLEIT 88

Query: 61  NNELN---AEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMN 117
            N L            L A + +L++L            P+       L   D+ + ++ 
Sbjct: 89  QNALISLPELPASLEYLDACDNRLSTL------------PELPASLKHL---DVDNNQL- 132

Query: 118 GEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDIL 177
               T L E    LE +   N+ LT    LP      LE L + NN         + ++ 
Sbjct: 133 ----TMLPELPALLEYINADNNQLTMLPELPTS----LEVLSVRNNQLT-----FLPELP 179

Query: 178 PSLKFFNISMNALDGSIPSSFGNMNFLR----VLDLSNNQLTGEIPEHLAVGCVNLESLA 233
            SL+  ++S N L+ S+P+     +             N++T  IPE++           
Sbjct: 180 ESLEALDVSTNLLE-SLPAVPVRNHHSEETEIFFRCRENRIT-HIPENI----------- 226

Query: 234 LSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNV 293
                          +L     + L  N     I +SLS+ ++    +      S +   
Sbjct: 227 --------------LSLDPTCTIILEDNPLSSRIRESLSQQTAQPDYHGPRIYFSMSDGQ 272

Query: 294 PSSPANTLFNLSQNS 308
            ++    L +     
Sbjct: 273 QNTLHRPLADAVTAW 287

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 65.4 bits (159), Expect = 9e-12
 Identities = 53/325 (16%), Positives = 102/325 (31%), Gaps = 50/325 (15%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ-IPISLEPLFNHSRLKIFYA 59
                +   + N+    +       +    EL L+  +   +P +L P     ++ +   
Sbjct: 36  WEKQALPGENRNEAVSLL---KECLINQFSELQLNRLNLSSLPDNLPP-----QITVLEI 87

Query: 60  DNNELN---AEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKM 116
             N L            L A + +L++L            P+       L   D+ + ++
Sbjct: 88  TQNALISLPELPASLEYLDACDNRLSTL------------PELPASLKHL---DVDNNQL 132

Query: 117 NGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI 176
                T L E    LE +   N+ LT    LP      LE L + NN         + ++
Sbjct: 133 -----TMLPELPALLEYINADNNQLTMLPELPTS----LEVLSVRNNQLT-----FLPEL 178

Query: 177 LPSLKFFNISMNALDGSIPSSFGNMNFLR----VLDLSNNQLTGEIPEHLAVGCVNLESL 232
             SL+  ++S N L+ S+P+     +             N++T  IPE++        ++
Sbjct: 179 PESLEALDVSTNLLE-SLPAVPVRNHHSEETEIFFRCRENRIT-HIPENIL-SLDPTCTI 235

Query: 233 ALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVN 292
            L +N L   +       T        G R    +                      N  
Sbjct: 236 ILEDNPLSSRIRESLSQQTAQPDYH--GPRIYFSMSDGQQNTLHRPLADAVTAWFPENKQ 293

Query: 293 VPSSPANTLFNLSQNSRRFTSSISH 317
              S     F   +++  F++ +  
Sbjct: 294 SDVSQIWHAFEHEEHANTFSAFLDR 318

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 43.4 bits (102), Expect = 8e-05
 Identities = 20/129 (15%), Positives = 39/129 (30%), Gaps = 10/129 (7%)

Query: 200 NMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHM-FSRNFNLTNLEWLQL 258
           N NF    +   N ++              E  AL   +    +   +   +     LQL
Sbjct: 8   NNNFSLSQNSFYNTIS-GTYADYFSAWDKWEKQALPGENRNEAVSLLKECLINQFSELQL 66

Query: 259 GGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPAN-TLFNLSQNS-RRFTSSIS 316
                   +P +L     +  L +  N+L    ++P  PA+    +   N         +
Sbjct: 67  NRLNLS-SLPDNL--PPQITVLEITQNALI---SLPELPASLEYLDACDNRLSTLPELPA 120

Query: 317 HSHLLNLHG 325
               L++  
Sbjct: 121 SLKHLDVDN 129

>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 = 68.6 bits (168), Expect = 7e-13
 Identities = 57/311 (18%), Positives = 105/311 (33%), Gaps = 49/311 (15%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +T L  L  +SN +T    +  L   T++  L   +N     ++   +   ++L     D
Sbjct: 63  LTGLTKLICTSNNIT----TLDLSQNTNLTYLACDSNK----LTNLDVTPLTKLTYLNCD 114

Query: 61  NNELN----AEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKM 116
            N+L     ++      L      L  + +S              H   L  +D    K 
Sbjct: 115 TNKLTKLDVSQNPLLTYLNCARNTLTEIDVS--------------HNTQLTELDCHLNKK 160

Query: 117 NGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI 176
             +     +   T+L TL    + +T    L +  ++ L  L+   NN    + +     
Sbjct: 161 ITKLD---VTPQTQLTTLDCSFNKITE---LDVSQNKLLNRLNCDTNNIT-KLDLN---Q 210

Query: 177 LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSN 236
              L F + S N L   I      +  L   D S N LT E+          L +L    
Sbjct: 211 NIQLTFLDCSSNKLT-EID--VTPLTQLTYFDCSVNPLT-ELDVS---TLSKLTTLHCIQ 263

Query: 237 NSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSS 296
             L     +   + T L + Q  G R + E+   ++  + L  L      ++  +++  +
Sbjct: 264 TDLLEIDLT---HNTQLIYFQAEGCRKIKELD--VTHNTQLYLLDCQAAGIT-ELDLSQN 317

Query: 297 PANTLFNLSQN 307
           P      L+  
Sbjct: 318 PKLVYLYLNNT 328

>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 = 63.9 bits (156), Expect = 2e-11
 Identities = 46/312 (14%), Positives = 95/312 (30%), Gaps = 46/312 (14%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
            T L  LD   N+    I+   +   T +  L  S N     I+   +  +  L     D
Sbjct: 147 NTQLTELDCHLNKK---ITKLDVTPQTQLTTLDCSFNK----ITELDVSQNKLLNRLNCD 199

Query: 61  NNELNA-EITQSHSLI---APNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKM 116
            N +   ++ Q+  L      + +L  + ++                    L  L++   
Sbjct: 200 TNNITKLDLNQNIQLTFLDCSSNKLTEIDVTP-------------------LTQLTYFDC 240

Query: 117 NG-EFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGD 175
           +        +   +KL TL  +   L     + +  +  L +           + V    
Sbjct: 241 SVNPLTELDVSTLSKLTTLHCIQTDLL---EIDLTHNTQLIYFQAEGCRKIKELDVT--- 294

Query: 176 ILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALS 235
               L   +     +   +         L  L L+N +LT E+          L+SL+  
Sbjct: 295 HNTQLYLLDCQAAGIT-ELD--LSQNPKLVYLYLNNTELT-ELD---VSHNTKLKSLSCV 347

Query: 236 NNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPS 295
           N  ++   FS    +  L        + +    ++L+  S    +  +     GN     
Sbjct: 348 NAHIQD--FSSVGKIPALNNNFEAEGQTITMPKETLTNNSLTIAVSPDLLDQFGNPMNIE 405

Query: 296 SPANTLFNLSQN 307
                +++ + N
Sbjct: 406 PGDGGVYDQATN 417

>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 = 61.2 bits (149), Expect = 2e-10
 Identities = 46/308 (14%), Positives = 89/308 (28%), Gaps = 41/308 (13%)

Query: 17  SISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNA-EITQSHSLI 75
           +  +     L ++  L   N+       +  +   + L      +N +   +++Q+ +L 
Sbjct: 32  ATDTISEEQLATLTSLDCHNSSIT---DMTGIEKLTGLTKLICTSNNITTLDLSQNTNLT 88

Query: 76  APNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLF 135
                 N L+              +     L  ++    K+     +     N  L  L 
Sbjct: 89  YLACDSNKLTNLD-----------VTPLTKLTYLNCDTNKLTKLDVS----QNPLLTYLN 133

Query: 136 LVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIP 195
              ++LT    + +  +  L  LD   N     + V        L   + S N +     
Sbjct: 134 CARNTLT---EIDVSHNTQLTELDCHLNKKITKLDVT---PQTQLTTLDCSFNKITE--- 184

Query: 196 SSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEW 255
                   L  L+   N +T ++        + L  L  S+N L     +    LT L +
Sbjct: 185 LDVSQNKLLNRLNCDTNNIT-KLD---LNQNIQLTFLDCSSNKLTEIDVT---PLTQLTY 237

Query: 256 LQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSI 315
                N         +S  S L  L+     L     +  +    L        R    +
Sbjct: 238 FDCSVNPL---TELDVSTLSKLTTLHCIQTDLL---EIDLTHNTQLIYFQAEGCRKIKEL 291

Query: 316 SHSHLLNL 323
             +H   L
Sbjct: 292 DVTHNTQL 299

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 49.7 bits (119), Expect = 7e-07
 Identities = 31/177 (17%), Positives = 51/177 (28%), Gaps = 16/177 (9%)

Query: 131 LETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNAL 190
             +       +     +       L  LD  N++      +E    L  L     + N +
Sbjct: 20  FASEVAAAFEMQATDTISEEQLATLTSLDCHNSSITDMTGIEK---LTGLTKLICTSNNI 76

Query: 191 DGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNL 250
             ++         L  L   +N+LT  +          L  L    N L     S     
Sbjct: 77  T-TLD--LSQNTNLTYLACDSNKLT-NLD---VTPLTKLTYLNCDTNKLTKLDVS---QN 126

Query: 251 TNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQN 307
             L +L    N    EI   +S  + L  L  + N     ++V      T  + S N
Sbjct: 127 PLLTYLNCARNTLT-EID--VSHNTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFN 180

>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 = 68.2 bits (166), Expect = 1e-12
 Identities = 53/320 (16%), Positives = 106/320 (33%), Gaps = 75/320 (23%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
                  ++    +T    +     L SI++++ +N+  +   S++ +     +   + +
Sbjct: 20  FAETIKDNLKKKSVT---DAVTQNELNSIDQIIANNSDIK---SVQGIQYLPNVTKLFLN 73

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            N+L  +I    +L      L  L L  +                  + DLS        
Sbjct: 74  GNKLT-DIKPLTNLK----NLGWLFLDEN-----------------KIKDLSS------- 104

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRL-PIHSHRWLEFLDISNNNFRCHIPVEIGDILPS 179
               L++  KL++L L ++ ++    +  +     LE L + NN         I DI   
Sbjct: 105 ----LKDLKKLKSLSLEHNGIS---DINGLVHLPQLESLYLGNNK--------ITDI--- 146

Query: 180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL 239
                           +    +  L  L L +NQ++ +I      G   L++L LS N +
Sbjct: 147 ----------------TVLSRLTKLDTLSLEDNQIS-DIVPL--AGLTKLQNLYLSKNHI 187

Query: 240 EGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPAN 299
                     L NL+ L+L     + +     S       +   + SL     +      
Sbjct: 188 S--DLRALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKNTDGSLVTPEIISDDGDY 245

Query: 300 TLFNLSQNSRRFTSSISHSH 319
              N+  +   FT+ +S   
Sbjct: 246 EKPNVKWHLPEFTNEVSFIF 265

>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 = 54.7 bits (131), Expect = 2e-08
 Identities = 50/317 (15%), Positives = 98/317 (30%), Gaps = 96/317 (30%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           + ++  L ++ N+LT      PL +L ++  L L  N  +I   L  L +  +LK    +
Sbjct: 64  LPNVTKLFLNGNKLT---DIKPLTNLKNLGWLFLDEN--KI-KDLSSLKDLKKLKSLSLE 117

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           +N ++                                            D++ +      
Sbjct: 118 HNGIS--------------------------------------------DINGLV----- 128

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
                 +  +LE+L+L N+ +T      +     L+ L + +N         I DI    
Sbjct: 129 ------HLPQLESLYLGNNKITDI--TVLSRLTKLDTLSLEDNQ--------ISDI---- 168

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
                               +  L+ L LS N ++ ++   LA G  NL+ L L +    
Sbjct: 169 ---------------VPLAGLTKLQNLYLSKNHIS-DLRA-LA-GLKNLDVLELFSQECL 210

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANT 300
               +   NL     ++          P+ +S     E   +  +       V S     
Sbjct: 211 NKPINHQSNLVVPNTVKNTDGSL--VTPEIISDDGDYEKPNVKWHLPEFTNEV-SFIFYQ 267

Query: 301 LFNLSQNSRRFTSSISH 317
              + +   RF   ++ 
Sbjct: 268 PVTIGKAKARFHGRVTQ 284

>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 = 66.6 bits (163), Expect = 3e-12
 Identities = 62/315 (19%), Positives = 100/315 (31%), Gaps = 58/315 (18%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +  L  +   +N L             S+E ++  NN  +    L+ L     L   YAD
Sbjct: 194 LPFLTAIYADNNSLKKLPDL-----PLSLESIVAGNNILEELPELQNLPF---LTTIYAD 245

Query: 61  NN---ELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMN 117
           NN    L        +L   +  L  L                     L  +D+S    +
Sbjct: 246 NNLLKTLPDLPPSLEALNVRDNYLTDLPELPQ---------------SLTFLDVSENIFS 290

Query: 118 GEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDIL 177
           G     L E    L  L   ++ +     LP      LE L++SNN     +P       
Sbjct: 291 G-----LSELPPNLYYLNASSNEIRSLCDLPPS----LEELNVSNNKLI-ELPALPP--- 337

Query: 178 PSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN 237
             L+    S N L   +P    N   L+ L +  N L  E P+       ++E L ++++
Sbjct: 338 -RLERLIASFNHL-AEVPELPQN---LKQLHVEYNPLR-EFPDIPE----SVEDLRMNSH 387

Query: 238 SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSP 297
             E           NL+ L +  N    E P       S+E L +N+  +          
Sbjct: 388 LAEVPEL-----PQNLKQLHVETNPLR-EFPDIPE---SVEDLRMNSERVVDPYEFAHET 438

Query: 298 ANTLFNLSQNSRRFT 312
            + L +         
Sbjct: 439 TDKLEDDVFEHHHHH 453

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 66.2 bits (162), Expect = 3e-12
 Identities = 77/308 (25%), Positives = 114/308 (37%), Gaps = 54/308 (17%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
            + L+I+DV +N L             S+E +   NN  +    L  L N   L   YAD
Sbjct: 152 SSFLKIIDVDNNSLKKLPDL-----PPSLEFIAAGNNQLE---ELPELQNLPFLTAIYAD 203

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           NN L        SL +     N L    +  +               L  L+ I  +   
Sbjct: 204 NNSLKKLPDLPLSLESIVAGNNILEELPELQN---------------LPFLTTIYADNNL 248

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
              L +    LE L + ++ LT    LP      L FLD+S N F       + ++ P+L
Sbjct: 249 LKTLPDLPPSLEALNVRDNYLTDLPELPQS----LTFLDVSENIFS-----GLSELPPNL 299

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
            + N S N +  S+     +   L  L++SNN+L  E+P         LE L  S N L 
Sbjct: 300 YYLNASSNEI-RSLCDLPPS---LEELNVSNNKLI-ELPALPP----RLERLIASFNHLA 350

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPAN- 299
                      NL+ L +  N    E P       S+E L +N++       VP  P N 
Sbjct: 351 ----EVPELPQNLKQLHVEYNPLR-EFPDIP---ESVEDLRMNSHLAE----VPELPQNL 398

Query: 300 TLFNLSQN 307
              ++  N
Sbjct: 399 KQLHVETN 406

>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 = 60.8 bits (148), Expect = 2e-10
 Identities = 48/195 (24%), Positives = 71/195 (36%), Gaps = 32/195 (16%)

Query: 128 NTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISM 187
           + +   L L N  L+    LP      LE L  S N+    +P      L SL   N ++
Sbjct: 70  DRQAHELELNNLGLS---SLP-ELPPHLESLVASCNSLT-ELPELPQS-LKSLLVDNNNL 123

Query: 188 NALDGSIPS---------------SFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESL 232
            AL    P                   N +FL+++D+ NN L  ++P+       +LE +
Sbjct: 124 KALSDLPPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLK-KLPDLPP----SLEFI 178

Query: 233 ALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVN 292
           A  NN LE        NL  L  +    N    ++P       SLE +   NN L     
Sbjct: 179 AAGNNQLEE--LPELQNLPFLTAIYADNNSLK-KLPDLP---LSLESIVAGNNILEELPE 232

Query: 293 VPSSPANTLFNLSQN 307
           + + P  T      N
Sbjct: 233 LQNLPFLTTIYADNN 247

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 58.9 bits (143), Expect = 8e-10
 Identities = 67/308 (21%), Positives = 111/308 (36%), Gaps = 54/308 (17%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           + SL + + +   L+             +E L +SNN  +    L  L N S LKI   D
Sbjct: 113 LKSLLVDNNNLKALSDLPP--------LLEYLGVSNNQLE---KLPELQNSSFLKIIDVD 161

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           NN L         L      L  ++  ++          L +   L  +   +  +    
Sbjct: 162 NNSLK-------KLPDLPPSLEFIAAGNNQ---LEELPELQNLPFLTAIYADNNSL---- 207

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
              L +    LE++   N+ L     L       L  +   NN  +      + D+ PSL
Sbjct: 208 -KKLPDLPLSLESIVAGNNILEELPELQNLPF--LTTIYADNNLLK-----TLPDLPPSL 259

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
           +  N+  N L   +P    ++ FL V +   + L+   P        NL  L  S+N + 
Sbjct: 260 EALNVRDNYLT-DLPELPQSLTFLDVSENIFSGLSELPP--------NLYYLNASSNEIR 310

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPAN- 299
               S      +LE L +  N+ + E+P    +   LE L  + N L+    VP  P N 
Sbjct: 311 ----SLCDLPPSLEELNVSNNKLI-ELPALPPR---LERLIASFNHLA---EVPELPQNL 359

Query: 300 TLFNLSQN 307
              ++  N
Sbjct: 360 KQLHVEYN 367

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 58.5 bits (142), Expect = 1e-09
 Identities = 56/327 (17%), Positives = 110/327 (33%), Gaps = 54/327 (16%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQ-IPISLEPLFNHSRLKIFYAD 60
                L++++  L+ S+          +E L+ S N    +P   + L     L +   +
Sbjct: 71  RQAHELELNNLGLS-SLPEL----PPHLESLVASCNSLTELPELPQSL---KSLLVDNNN 122

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
              L+        L   N QL  L               L +   L ++D+ +  +  + 
Sbjct: 123 LKALSDLPPLLEYLGVSNNQLEKLP-------------ELQNSSFLKIIDVDNNSLK-KL 168

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
           P         LE +   N+ L       + +  +L  +   NN+ +     ++ D+  SL
Sbjct: 169 PDLP----PSLEFIAAGNNQLEELP--ELQNLPFLTAIYADNNSLK-----KLPDLPLSL 217

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
           +      N L         N+ FL  +   NN L   +P+       +LE+L + +N L 
Sbjct: 218 ESIVAGNNIL--EELPELQNLPFLTTIYADNNLLK-TLPDLPP----SLEALNVRDNYLT 270

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPAN- 299
             +     +LT L+  +   +      P       +L  L  ++N +    ++   P + 
Sbjct: 271 -DLPELPQSLTFLDVSENIFSGLSELPP-------NLYYLNASSNEIR---SLCDLPPSL 319

Query: 300 TLFNLSQNS-RRFTSSISHSHLLNLHG 325
              N+S N      +       L    
Sbjct: 320 EELNVSNNKLIELPALPPRLERLIASF 346

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 58.1 bits (141), Expect = 1e-09
 Identities = 71/330 (21%), Positives = 110/330 (33%), Gaps = 58/330 (17%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHF-QIPISLEPLFNHSRLKIFYA 59
              L  L  S N LT  +       L S+     +      +P  LE L           
Sbjct: 90  PPHLESLVASCNSLT-ELPEL-PQSLKSLLVDNNNLKALSDLPPLLEYL---------GV 138

Query: 60  DNNELNA--EITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMN 117
            NN+L    E+  S  L   +   NSL            P        L  +   + ++ 
Sbjct: 139 SNNQLEKLPELQNSSFLKIIDVDNNSLK---------KLPDLPPS---LEFIAAGNNQLE 186

Query: 118 GEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDIL 177
            E P   L+N   L  ++  N+SL     LP+     LE +   NN        E+ + L
Sbjct: 187 -ELPE--LQNLPFLTAIYADNNSLKKLPDLPLS----LESIVAGNNIL--EELPELQN-L 236

Query: 178 PSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN 237
           P L       N L  ++P    +   L  L++ +N LT ++PE       +L  L +S N
Sbjct: 237 PFLTTIYADNNLL-KTLPDLPPS---LEALNVRDNYLT-DLPELPQ----SLTFLDVSEN 287

Query: 238 SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSP 297
                    +    NL +L    N     +        SLE L ++NN L     +P+ P
Sbjct: 288 IFS----GLSELPPNLYYLNASSNEIR-SLCDLP---PSLEELNVSNNKLI---ELPALP 336

Query: 298 AN-TLFNLSQNS-RRFTSSISHSHLLNLHG 325
                   S N          +   L++  
Sbjct: 337 PRLERLIASFNHLAEVPELPQNLKQLHVEY 366

>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 = 57.7 bits (140), Expect = 2e-09
 Identities = 61/304 (20%), Positives = 106/304 (34%), Gaps = 59/304 (19%)

Query: 1   MTSLRILDVSSNQLTGSISSS------------PLVHLTSIEELMLSNNHFQ-IPISLEP 47
           + S      + ++   +                         EL L+N     +P     
Sbjct: 33  VKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHELELNNLGLSSLPELP-- 90

Query: 48  LFNHSRLKIFYADNN---ELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQH 104
                 L+   A  N   EL        SL+  N  L +LS           P  L +  
Sbjct: 91  ----PHLESLVASCNSLTELPELPQSLKSLLVDNNNLKALS---------DLPPLLEY-- 135

Query: 105 DLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNN 164
               + +S+ ++  + P   L+N++ L+ + + N+SL     LP      LEF+   NN 
Sbjct: 136 ----LGVSNNQLE-KLPE--LQNSSFLKIIDVDNNSLKKLPDLPPS----LEFIAAGNNQ 184

Query: 165 FRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAV 224
               +P E+ + LP L       N+L   +P    +   L  +   NN L  E+PE    
Sbjct: 185 LE-ELP-ELQN-LPFLTAIYADNNSLK-KLPDLPLS---LESIVAGNNILE-ELPELQ-- 234

Query: 225 GCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNN 284
               L ++   NN L+    +      +LE L +  N    ++P+     + L+      
Sbjct: 235 NLPFLTTIYADNNLLK----TLPDLPPSLEALNVRDNYLT-DLPELPQSLTFLDVSENIF 289

Query: 285 NSLS 288
           + LS
Sbjct: 290 SGLS 293

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 42.7 bits (101), Expect = 1e-04
 Identities = 19/109 (17%), Positives = 29/109 (26%), Gaps = 17/109 (15%)

Query: 193 SIPSSFGNMNFLRVLDLSNNQLTGEIPEHLA------------VGCVNLESLALSNNSLE 240
            +P    N+        + ++     P                        L L+N  L 
Sbjct: 25  EMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHELELNNLGLS 84

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG 289
               S      +LE L    N    E+P+      SL     N  +LS 
Sbjct: 85  ----SLPELPPHLESLVASCNSLT-ELPELPQSLKSLLVDNNNLKALSD 128

>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 = 64.2 bits (157), Expect = 7e-12
 Identities = 35/157 (22%), Positives = 63/157 (40%), Gaps = 17/157 (10%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSS-FGNMNFLRVLDLSNNQ 213
            + LD+S N  R H+        P L+  ++S   +  +I    + +++ L  L L+ N 
Sbjct: 30  TKNLDLSFNPLR-HLGSYSFFSFPELQVLDLSRCEIQ-TIEDGAYQSLSHLSTLILTGNP 87

Query: 214 LTGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRF-VGEIPQ 269
           +   +      G  +L+ L        SLE        +L  L+ L +  N     ++P+
Sbjct: 88  IQ-SLALGAFSGLSSLQKLVAVETNLASLENFPIG---HLKTLKELNVAHNLIQSFKLPE 143

Query: 270 SLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQ 306
             S  ++LE L L++N +       S     L  L Q
Sbjct: 144 YFSNLTNLEHLDLSSNKIQ------SIYCTDLRVLHQ 174

>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 = 61.5 bits (150), Expect = 6e-11
 Identities = 35/171 (20%), Positives = 62/171 (36%), Gaps = 16/171 (9%)

Query: 127 NNTKLETLFLVNDSLTGPFRLPI---HSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFF 183
           +  +L+ L L    +     +      S   L  L ++ N  +  + +     L SL+  
Sbjct: 50  SFPELQVLDLSRCEIQ---TIEDGAYQSLSHLSTLILTGNPIQ-SLALGAFSGLSSLQKL 105

Query: 184 NISMNALDGSIPS-SFGNMNFLRVLDLSNNQLTGEIPEHLA-VGCVNLESLALSNN---S 238
                 L  S+ +   G++  L+ L++++N +              NLE L LS+N   S
Sbjct: 106 VAVETNLA-SLENFPIGHLKTLKELNVAHNLIQ-SFKLPEYFSNLTNLEHLDLSSNKIQS 163

Query: 239 LEGHMFSRNFNLTNLEW-LQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
           +          +  L   L L  N  +  I     K   L+ L L+ N L 
Sbjct: 164 IYCTDLRVLHQMPLLNLSLDLSLNP-MNFIQPGAFKEIRLKELALDTNQLK 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 = 55.4 bits (134), Expect = 6e-09
 Identities = 28/117 (23%), Positives = 49/117 (41%), Gaps = 7/117 (5%)

Query: 175 DILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLAL 234
           ++  S K  ++S N L      SF +   L+VLDLS  ++   I +       +L +L L
Sbjct: 25  NLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQ-TIEDGAYQSLSHLSTLIL 83

Query: 235 SNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
           + N   SL    FS    L++L+ L              +    +L+ L + +N + 
Sbjct: 84  TGNPIQSLALGAFS---GLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQ 137

>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 = 8e-09
 Identities = 38/170 (22%), Positives = 63/170 (37%), Gaps = 20/170 (11%)

Query: 127 NNTKLETLFLVNDSLT----GPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKF 182
           + + L TL L  + +     G F         L+ L     N    +       L +LK 
Sbjct: 74  SLSHLSTLILTGNPIQSLALGAFSGLSS----LQKLVAVETNLA-SLENFPIGHLKTLKE 128

Query: 183 FNISMNALDGSIPSS--FGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLE----SLALSN 236
            N++ N +  S      F N+  L  LDLS+N++   I          +     SL LS 
Sbjct: 129 LNVAHNLIQ-SFKLPEYFSNLTNLEHLDLSSNKIQ-SIYCTDLRVLHQMPLLNLSLDLSL 186

Query: 237 NSLEGHMFSRN-FNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNN 285
           N +  +      F    L+ L L  N+          + +SL+ ++L+ N
Sbjct: 187 NPM--NFIQPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTN 234

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 49.6 bits (119), Expect = 4e-07
 Identities = 53/268 (19%), Positives = 89/268 (33%), Gaps = 69/268 (25%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEP-LFNH-SRLKIFYA 59
            S + LD+S N L   + S        ++ L LS    Q   ++E   +   S L     
Sbjct: 28  FSTKNLDLSFNPLR-HLGSYSFFSFPELQVLDLSRCEIQ---TIEDGAYQSLSHLSTLIL 83

Query: 60  DNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVD--LSHIKMN 117
             N                  + SL+L         F   L     L  V+  L+ +   
Sbjct: 84  TGN-----------------PIQSLALG-------AFSG-LSSLQKLVAVETNLASL--- 115

Query: 118 GEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSH----RWLEFLDISNNNFRCHIPVEI 173
                + + +   L+ L + ++ +       +  +      LE LD+S+N  +  I    
Sbjct: 116 ---ENFPIGHLKTLKELNVAHNLIQ---SFKLPEYFSNLTNLEHLDLSSNKIQ-SIYCTD 168

Query: 174 GDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLA 233
             +L  +   N+S                    LDLS N +   I    A   + L+ LA
Sbjct: 169 LRVLHQMPLLNLS--------------------LDLSLNPMN-FIQPG-AFKEIRLKELA 206

Query: 234 LSNNSLEGHMFSRNFNLTNLEWLQLGGN 261
           L  N L+         LT+L+ + L  N
Sbjct: 207 LDTNQLKSVPDGIFDRLTSLQKIWLHTN 234

>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 = 65.4 bits (160), Expect = 7e-12
 Identities = 61/328 (18%), Positives = 108/328 (32%), Gaps = 42/328 (12%)

Query: 2   TSLRILDVSSNQLT----GSISSSPLVHLTSIEELMLSNNHFQIP----ISLEPLFNHSR 53
             ++ L + +  LT    G +SS+ L  L +++EL LS+N         +    L    R
Sbjct: 85  CKIQKLSLQNCCLTGAGCGVLSST-LRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCR 143

Query: 54  LKIFYADNNELNAEITQS-HSLIAPNFQLNSLSLS----SDYGDGFIFPKFLYHQHDLAL 108
           L+    +   L+A   +   S++        L++S    ++ G   +          L  
Sbjct: 144 LEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEA 203

Query: 109 VDLSHIKMNGEFPTWL---LENNTKLETLFLVNDSLTGP-----FRLPIHSHRWLEFLDI 160
           + L    +  +    L   + +   L  L L ++ L            +H    L  L I
Sbjct: 204 LKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWI 263

Query: 161 SNNNFRCHIPVEIGDIL---PSLKFFNISMNALDGS----IPSSFGNMNF-LRVLDLSNN 212
                      ++  +L    SLK  +++ N L       +  +       L  L + + 
Sbjct: 264 WECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSC 323

Query: 213 QLTGEIPEHLAVG---CVNLESLALSNNSLEG---HMFSR--NFNLTNLEWLQLGGNRF- 263
             T     H +        L  L +SNN LE        +      + L  L L      
Sbjct: 324 SFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVS 383

Query: 264 ---VGEIPQSLSKCSSLEGLYLNNNSLS 288
                 +  +L    SL  L L+NN L 
Sbjct: 384 DSSCSSLAATLLANHSLRELDLSNNCLG 411

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I Length = 461

 Score = 64.6 bits (158), Expect = 1e-11
 Identities = 57/329 (17%), Positives = 106/329 (32%), Gaps = 47/329 (14%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLF----NHSRLKIF 57
             ++ LD+   +L+ +  +  L  L   + + L +         + +      +  L   
Sbjct: 3   LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLT-EARCKDISSALRVNPALAEL 61

Query: 58  YADNNELNAEITQ--SHSLIAPNFQLNSLSLS----SDYGDGFIFPKFLYHQHDLALVDL 111
              +NEL           L  P+ ++  LSL     +  G G +    L     L  + L
Sbjct: 62  NLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLS-STLRTLPTLQELHL 120

Query: 112 SHIKMNGE----FPTWLLENNTKLETLFLVNDSLT----GPFRLPIHSHRWLEFLDISNN 163
           S   +           LL+   +LE L L   SL+     P    + +    + L +SNN
Sbjct: 121 SDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNN 180

Query: 164 NFRCHIPVEIGDILP----SLKFFNISMNALD----GSIPSSFGNMNFLRVLDLSNNQLT 215
           +        +   L      L+   +    +       +     +   LR L L +N+L 
Sbjct: 181 DINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLG 240

Query: 216 GEIPEHLAVG----CVNLESLALSNNSLE-------GHMFSRNFNLTNLEWLQLGGNRFV 264
                 L  G       L +L +    +          +        +L+ L L GN   
Sbjct: 241 DVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAK---ESLKELSLAGNELG 297

Query: 265 GEIPQSLSK-----CSSLEGLYLNNNSLS 288
            E  + L +        LE L++ + S +
Sbjct: 298 DEGARLLCETLLEPGCQLESLWVKSCSFT 326

>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 = 51.5 bits (124), Expect = 2e-07
 Identities = 61/323 (18%), Positives = 107/323 (33%), Gaps = 44/323 (13%)

Query: 2   TSLRILDVSSNQLT----GSISSSPLVHLTSIEELMLSNNHFQ----IPISLEPLFNHSR 53
             L  L +    L+      ++S  L      +EL +SNN         +      +  +
Sbjct: 142 CRLEKLQLEYCSLSAASCEPLASV-LRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQ 200

Query: 54  LKIFYADNNELNAEITQS-HSLIAPNFQLNSLSLSS----DYGDGFIFPKFLYHQHDLAL 108
           L+    ++  + ++  +    ++A    L  L+L S    D G   + P  L+    L  
Sbjct: 201 LEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRT 260

Query: 109 VDLSHIKMNGEFPTWL---LENNTKLETLFLVNDSLTGP-----FRLPIHSHRWLEFLDI 160
           + +    +  +    L   L     L+ L L  + L            +     LE L +
Sbjct: 261 LWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWV 320

Query: 161 SNNNFRCHIPVEIGDIL---PSLKFFNISMNALDGS----IPSSFGNMNF-LRVLDLSNN 212
            + +F          +L     L    IS N L+ +    +    G     LRVL L++ 
Sbjct: 321 KSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADC 380

Query: 213 QLTGEIPEHLA---VGCVNLESLALSNNSLE---GHMFSRNF--NLTNLEWLQLGGNRFV 264
            ++      LA   +   +L  L LSNN L          +       LE L L    + 
Sbjct: 381 DVSDSSCSSLAATLLANHSLRELDLSNNCLGDAGILQLVESVRQPGCLLEQLVLYDIYWS 440

Query: 265 GEIPQSLSKCSSLEGLYLNNNSL 287
            E+         L+ L  +  SL
Sbjct: 441 EEM------EDRLQALEKDKPSL 457

>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 = 43.8 bits (104), Expect = 5e-05
 Identities = 45/266 (16%), Positives = 79/266 (29%), Gaps = 35/266 (13%)

Query: 3   SLRILDVSSNQLTG---SISSSPLVHLTSIEELMLSNNHFQ----IPISLEPLFNHSRLK 55
            L  L + S  +T          +    S+ EL L +N         +    L   SRL+
Sbjct: 200 QLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLR 259

Query: 56  IFYADNNELNAEITQS-HSLIAPNFQLNSLSLS----SDYGDGFIFPKFLYHQHDLALVD 110
             +     + A+       ++     L  LSL+     D G   +    L     L  + 
Sbjct: 260 TLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLW 319

Query: 111 LSHIKMNGEFPTWL---LENNTKLETLFLVNDSLTGP-----FRLPIHSHRWLEFLDISN 162
           +          +     L  N  L  L + N+ L         +        L  L +++
Sbjct: 320 VKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLAD 379

Query: 163 NNFRCHIPVEIGDIL---PSLKFFNISMNALDGS----IPSSFGNMNF-LRVLDLSNNQL 214
            +        +   L    SL+  ++S N L  +    +  S       L  L L +   
Sbjct: 380 CDVSDSSCSSLAATLLANHSLRELDLSNNCLGDAGILQLVESVRQPGCLLEQLVLYDIYW 439

Query: 215 TGEIPEHLAVGCVNLESLALSNNSLE 240
           + E           L++L     SL 
Sbjct: 440 SEE-------MEDRLQALEKDKPSLR 458

>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 = 60.8 bits (148), Expect = 5e-11
 Identities = 31/131 (23%), Positives = 54/131 (41%), Gaps = 7/131 (5%)

Query: 158 LDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGE 217
           L ++NN F       I   LP L+  N S N +      +F   + +  + L++N+L   
Sbjct: 37  LRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLE-N 95

Query: 218 IPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKC 274
           +   +  G  +L++L L +N    +    F     L+++  L L  N+     P +    
Sbjct: 96  VQHKMFKGLESLKTLMLRSNRITCVGNDSFI---GLSSVRLLSLYDNQITTVAPGAFDTL 152

Query: 275 SSLEGLYLNNN 285
            SL  L L  N
Sbjct: 153 HSLSTLNLLAN 163

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens} Length = 220

 Score = 55.0 bits (133), Expect = 5e-09
 Identities = 31/113 (27%), Positives = 52/113 (46%), Gaps = 10/113 (8%)

Query: 196 SSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTN 252
             F  +  LR ++ SNN++T +I E    G   +  + L++N   +++  MF     L +
Sbjct: 51  GIFKKLPQLRKINFSNNKIT-DIEEGAFEGASGVNEILLTSNRLENVQHKMFKG---LES 106

Query: 253 LEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLS 305
           L+ L L  NR       S    SS+  L L +N ++    V     +TL +LS
Sbjct: 107 LKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQIT---TVAPGAFDTLHSLS 156

>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 = 46.2 bits (110), Expect = 4e-06
 Identities = 19/87 (21%), Positives = 32/87 (36%), Gaps = 6/87 (6%)

Query: 205 RVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGN 261
             L L+NN+ T      +      L  +  SNN    +E   F      + +  + L  N
Sbjct: 35  AELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEG---ASGVNEILLTSN 91

Query: 262 RFVGEIPQSLSKCSSLEGLYLNNNSLS 288
           R      +      SL+ L L +N ++
Sbjct: 92  RLENVQHKMFKGLESLKTLMLRSNRIT 118

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 61.1 bits (149), Expect = 6e-11
 Identities = 43/165 (26%), Positives = 71/165 (43%), Gaps = 18/165 (10%)

Query: 129 TKLETLFLVNDSLT----GPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFN 184
           TKL  L+L ++ L     G F       + LE L +++N  +  +P+ + D L +L    
Sbjct: 61  TKLRLLYLNDNKLQTLPAGIF----KELKNLETLWVTDNKLQ-ALPIGVFDQLVNLAELR 115

Query: 185 ISMNALDGSIPSS-FGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---SLE 240
           +  N L  S+P   F ++  L  L L  N+L   +P+ +     +L+ L L NN    + 
Sbjct: 116 LDRNQLK-SLPPRVFDSLTKLTYLSLGYNELQ-SLPKGVFDKLTSLKELRLYNNQLKRVP 173

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNN 285
              F     LT L+ L+L  N+       +      L+ L L  N
Sbjct: 174 EGAFD---KLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQEN 215

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 59.6 bits (145), Expect = 3e-10
 Identities = 40/155 (25%), Positives = 66/155 (42%), Gaps = 16/155 (10%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSS-FGNMNFLRVLDLSNNQ 213
           L  L +++N  +  +P  I   L +L+   ++ N L  ++P   F  +  L  L L  NQ
Sbjct: 63  LRLLYLNDNKLQ-TLPAGIFKELKNLETLWVTDNKLQ-ALPIGVFDQLVNLAELRLDRNQ 120

Query: 214 LTGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQS 270
           L   +P  +      L  L+L  N   SL   +F +   LT+L+ L+L  N+       +
Sbjct: 121 LK-SLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDK---LTSLKELRLYNNQLKRVPEGA 176

Query: 271 LSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLS 305
             K + L+ L L+NN L         P     +L 
Sbjct: 177 FDKLTELKTLKLDNNQLK------RVPEGAFDSLE 205

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 48.1 bits (115), Expect = 1e-06
 Identities = 32/121 (26%), Positives = 52/121 (42%), Gaps = 17/121 (14%)

Query: 176 ILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALS 235
           I    K  ++  N L      +F  +  LR+L L++N+L   +P  +     NLE+L ++
Sbjct: 35  IPADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQ-TLPAGIFKELKNLETLWVT 93

Query: 236 NN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLS-----KCSSLEGLYLNNNSL 287
           +N   +L   +F     L NL  L+L  N+      +SL        + L  L L  N L
Sbjct: 94  DNKLQALPIGVFD---QLVNLAELRLDRNQL-----KSLPPRVFDSLTKLTYLSLGYNEL 145

Query: 288 S 288
            
Sbjct: 146 Q 146

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 57/243 (23%), Positives = 91/243 (37%), Gaps = 71/243 (29%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEP-LFNH-SRLKIFYA 59
              + LD+ SN+L+ S+ S     LT +  L L++N  Q   +L   +F     L+  + 
Sbjct: 37  ADTKKLDLQSNKLS-SLPSKAFHRLTKLRLLYLNDNKLQ---TLPAGIFKELKNLETLWV 92

Query: 60  DNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGE 119
            +N                 +L +L +        +F +         LV+L        
Sbjct: 93  TDN-----------------KLQALPIG-------VFDQ---------LVNL-------- 111

Query: 120 FPTWLLENNTKLETL----FLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGD 175
               L  +  +L++L    F   DSLT            L +L +  N  +  +P  + D
Sbjct: 112 --AELRLDRNQLKSLPPRVF---DSLTK-----------LTYLSLGYNELQ-SLPKGVFD 154

Query: 176 ILPSLKFFNISMNALDGSIPSS-FGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLAL 234
            L SLK   +  N L   +P   F  +  L+ L L NNQL   +PE        L+ L L
Sbjct: 155 KLTSLKELRLYNNQL-KRVPEGAFDKLTELKTLKLDNNQLK-RVPEGAFDSLEKLKMLQL 212

Query: 235 SNN 237
             N
Sbjct: 213 QEN 215

>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 = 60.0 bits (146), Expect = 7e-11
 Identities = 22/140 (15%), Positives = 47/140 (33%), Gaps = 17/140 (12%)

Query: 155 LEFLDISNNNFRCHIPVEIGDI-----LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDL 209
           ++ L I+N +          +      L +L+   I    +      +   +  L +LD+
Sbjct: 68  IKDLTINNIH--------ATNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDI 119

Query: 210 SNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQ 269
           S++     I   +      + S+ LS N     +      L  L+ L +  +        
Sbjct: 120 SHSAHDDSILTKIN-TLPKVNSIDLSYNGAITDI-MPLKTLPELKSLNIQFDGVHDYRG- 176

Query: 270 SLSKCSSLEGLYLNNNSLSG 289
            +     L  LY  + ++ G
Sbjct: 177 -IEDFPKLNQLYAFSQTIGG 195

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 53.0 bits (128), Expect = 2e-08
 Identities = 17/111 (15%), Positives = 41/111 (36%), Gaps = 5/111 (4%)

Query: 177 LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSN 236
           + SL +  ++   +   + +     + ++ L ++N   T      ++ G  NLE L +  
Sbjct: 43  MNSLTYITLANINVT-DL-TGIEYAHNIKDLTINNIHATN--YNPIS-GLSNLERLRIMG 97

Query: 237 NSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSL 287
             +          LT+L  L +  +     I   ++    +  + L+ N  
Sbjct: 98  KDVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGA 148

>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 = 45.7 bits (109), Expect = 4e-06
 Identities = 32/222 (14%), Positives = 65/222 (29%), Gaps = 73/222 (32%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           M SL  + +++  +T     + + +  +I++L ++N H     +  P+   S L+     
Sbjct: 43  MNSLTYITLANINVT---DLTGIEYAHNIKDLTINNIHAT---NYNPISGLSNLERLRIM 96

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
                               + S  + +                                
Sbjct: 97  GK-----------------DVTSDKIPN-------------------------------- 107

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI---- 176
               L   T L  L + + +        I++   +  +D+S N         I DI    
Sbjct: 108 ----LSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNG-------AITDIMPLK 156

Query: 177 -LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGE 217
            LP LK  NI  + +         +   L  L   +  + G+
Sbjct: 157 TLPELKSLNIQFDGVHDY--RGIEDFPKLNQLYAFSQTIGGK 196

>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 = 59.2 bits (144), Expect = 2e-10
 Identities = 31/139 (22%), Positives = 57/139 (41%), Gaps = 7/139 (5%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIP--SSFGNMNFLRVLDLSNN 212
           +  ++I N     +I  +    LP LKF  I    L    P  +   + +   +L++++N
Sbjct: 82  VTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGL-KMFPDLTKVYSTDIFFILEITDN 140

Query: 213 QLTGEIPEHLAVGCVN-LESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSL 271
                IP +   G  N   +L L NN     +    FN T L+ + L  N+++  I +  
Sbjct: 141 PYMTSIPVNAFQGLCNETLTLKLYNNGFT-SVQGYAFNGTKLDAVYLNKNKYLTVIDKDA 199

Query: 272 --SKCSSLEGLYLNNNSLS 288
                S    L ++  S++
Sbjct: 200 FGGVYSGPSLLDVSQTSVT 218

>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 = 54.6 bits (132), Expect = 9e-09
 Identities = 26/138 (18%), Positives = 56/138 (40%), Gaps = 5/138 (3%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPS-SFGNMNFLRVLDLSNNQ 213
            + L +   + R  IP      LP++    +S++     + S SF N++ +  +++ N +
Sbjct: 33  TQTLKLIETHLR-TIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTR 91

Query: 214 LTGEIPEHLAVGCVNLESLALSNNSLEG-HMFSRNFNLTNLEWLQLGGNRFVGEIPQSL- 271
               I          L+ L + N  L+     ++ ++      L++  N ++  IP +  
Sbjct: 92  NLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNAF 151

Query: 272 -SKCSSLEGLYLNNNSLS 288
              C+    L L NN  +
Sbjct: 152 QGLCNETLTLKLYNNGFT 169

>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 = 56.6 bits (137), Expect = 1e-09
 Identities = 30/115 (26%), Positives = 46/115 (40%), Gaps = 10/115 (8%)

Query: 195 PSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLT 251
           P +F     LR +DLSNNQ++ E+      G  +L SL L  N    L   +F     L 
Sbjct: 49  PGAFSPYKKLRRIDLSNNQIS-ELAPDAFQGLRSLNSLVLYGNKITELPKSLFEG---LF 104

Query: 252 NLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQ 306
           +L+ L L  N+       +     +L  L L +N L     +     + L  +  
Sbjct: 105 SLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNKLQ---TIAKGTFSPLRAIQT 156

>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 = 53.1 bits (128), Expect = 2e-08
 Identities = 31/132 (23%), Positives = 56/132 (42%), Gaps = 10/132 (7%)

Query: 158 LDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPS-SFGNMNFLRVLDLSNNQLTG 216
           + +  N  +  IP         L+  ++S N +   +   +F  +  L  L L  N++T 
Sbjct: 37  IRLEQNTIK-VIPPGAFSPYKKLRRIDLSNNQIS-ELAPDAFQGLRSLNSLVLYGNKIT- 93

Query: 217 EIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSK 273
           E+P+ L  G  +L+ L L+ N    L    F    +L NL  L L  N+       + S 
Sbjct: 94  ELPKSLFEGLFSLQLLLLNANKINCLRVDAFQ---DLHNLNLLSLYDNKLQTIAKGTFSP 150

Query: 274 CSSLEGLYLNNN 285
             +++ ++L  N
Sbjct: 151 LRAIQTMHLAQN 162

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A Length = 220

 Score = 43.9 bits (104), Expect = 2e-05
 Identities = 23/87 (26%), Positives = 31/87 (35%), Gaps = 7/87 (8%)

Query: 205 RVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGN 261
             + L  N +   IP         L  + LSNN    L    F     L +L  L L GN
Sbjct: 35  TEIRLEQNTIK-VIPPGAFSPYKKLRRIDLSNNQISELAPDAFQG---LRSLNSLVLYGN 90

Query: 262 RFVGEIPQSLSKCSSLEGLYLNNNSLS 288
           +             SL+ L LN N ++
Sbjct: 91  KITELPKSLFEGLFSLQLLLLNANKIN 117

>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 = 29/161 (18%), Positives = 48/161 (29%), Gaps = 9/161 (5%)

Query: 132 ETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALD 191
                    +T    +P    R    L       R  I          L+   IS N + 
Sbjct: 12  RVFLCQESKVT---EIPSDLPRNAIELRFVLTKLR-VIQKGAFSGFGDLEKIEISQNDVL 67

Query: 192 GSIPSS-FGNMNFLRVLDLSN-NQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFN 249
             I +  F N+  L  + +   N L   I         NL+ L +SN  ++        +
Sbjct: 68  EVIEADVFSNLPKLHEIRIEKANNLL-YINPEAFQNLPNLQYLLISNTGIKHLPDVHKIH 126

Query: 250 LTNLEWLQLGGNRFVGEIPQSLSK--CSSLEGLYLNNNSLS 288
                 L +  N  +  I ++           L+LN N + 
Sbjct: 127 SLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQ 167

>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 = 54.4 bits (131), Expect = 2e-08
 Identities = 27/156 (17%), Positives = 53/156 (33%), Gaps = 16/156 (10%)

Query: 158 LDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGE 217
                +     IP    D+  +       +  L      +F     L  +++S N +   
Sbjct: 14  FLCQESKVT-EIP---SDLPRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEV 69

Query: 218 IPEHLAVGCVNLESLALSNN----SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSK 273
           I   +      L  + +        +    F    NL NL++L +        +P  + K
Sbjct: 70  IEADVFSNLPKLHEIRIEKANNLLYINPEAFQ---NLPNLQYLLISNTGIK-HLP-DVHK 124

Query: 274 CSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSR 309
             SL+ + L+   +  N+N+ +   N+   LS  S 
Sbjct: 125 IHSLQKVLLD---IQDNINIHTIERNSFVGLSFESV 157

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 51.8 bits (124), Expect = 1e-07
 Identities = 33/263 (12%), Positives = 73/263 (27%), Gaps = 37/263 (14%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
            +   L     +L   I          +E++ +S N     I  +   N  +L     + 
Sbjct: 30  RNAIELRFVLTKLR-VIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEK 88

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
                               N+L         +I P+   +  +L  + +S+  +    P
Sbjct: 89  A-------------------NNLL--------YINPEAFQNLPNLQYLLISNTGIK-HLP 120

Query: 122 TWLLENNTKLETLFLV-NDSLTG-PFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS 179
                ++ +   L +  N ++        +        L ++ N  +  I     +    
Sbjct: 121 DVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQE-IHNSAFNGTQL 179

Query: 180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL 239
            +      N L+      F   +   +LD+S  ++   +P +       L + +  N   
Sbjct: 180 DELNLSDNNNLEELPNDVFHGASGPVILDISRTRIH-SLPSYGLENLKKLRARSTYNLK- 237

Query: 240 EGHMFSRNFNLTNLEWLQLGGNR 262
                     L  L    L    
Sbjct: 238 ---KLPTLEKLVALMEASLTYPS 257

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A Length = 386

 Score = 57.0 bits (138), Expect = 3e-09
 Identities = 58/337 (17%), Positives = 103/337 (30%), Gaps = 76/337 (22%)

Query: 3   SLRILDVSSNQLTG---SISSSPLVHLTSIEELMLSNNHF------QIPISLEPLFNHSR 53
           S+    +  + +T        + L+   S++E++LS N         +  ++    +   
Sbjct: 5   SIEGKSLKLDAITTEDEKSVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEI 64

Query: 54  LKIFYADNNELNAEITQSHSLIAP----NFQLNSLSLSSDY-GDGFIFPKFLYHQHDLAL 108
            +        +  EI ++  L+        +L+++ LS +  G                L
Sbjct: 65  AEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQ----------EPL 114

Query: 109 VDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLT-------------GPFRLPIHSHRWL 155
           +D              L  +T LE L+L N+ L                      +   L
Sbjct: 115 ID-------------FLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPL 161

Query: 156 EFLDISNNNFRCHIPVEIGDIL---PSLKFFNISMNAL-----DGSIPSSFGNMNFLRVL 207
             +    N        E          L    +  N +     +  +         L+VL
Sbjct: 162 RSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVL 221

Query: 208 DLSNNQLTGE----IPEHLAVGCVNLESLALSNNSLE-------GHMFSRNFNLTNLEWL 256
           DL +N  T      +   L     NL  L L++  L           FS+  N+  L+ L
Sbjct: 222 DLQDNTFTHLGSSALAIALKS-WPNLRELGLNDCLLSARGAAAVVDAFSKLENIG-LQTL 279

Query: 257 QLGGNRF----VGEIPQSL-SKCSSLEGLYLNNNSLS 288
           +L  N      V  +   +  K   L  L LN N  S
Sbjct: 280 RLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFS 316

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 55.8 bits (135), Expect = 5e-09
 Identities = 40/289 (13%), Positives = 91/289 (31%), Gaps = 55/289 (19%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           + +   +    + +T    +     L  I  L           ++E +   + L      
Sbjct: 18  LANAIKIAAGKSNVT---DTVTQADLDGITTLSAFGTGVT---TIEGVQYLNNLIGLELK 71

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           +N++        + +    ++  L LS +                     L ++      
Sbjct: 72  DNQI-----TDLAPLKNLTKITELELSGNP--------------------LKNVSA---- 102

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI--LP 178
               +     ++TL L +  +T    L   S+  L+ L +  N         I  +  L 
Sbjct: 103 ----IAGLQSIKTLDLTSTQITDVTPLAGLSN--LQVLYLDLNQIT-----NISPLAGLT 151

Query: 179 SLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNS 238
           +L++ +I    +  S  +   N++ L  L   +N+++ +I         NL  + L NN 
Sbjct: 152 NLQYLSIGNAQV--SDLTPLANLSKLTTLKADDNKIS-DISPL--ASLPNLIEVHLKNNQ 206

Query: 239 LEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSL 287
           +     S   N +NL  + L       +     +       +   + + 
Sbjct: 207 IS--DVSPLANTSNLFIVTLTNQTITNQPVFYNNNLVVPNVVKGPSGAP 253

>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 = 53.5 bits (129), Expect = 3e-08
 Identities = 40/158 (25%), Positives = 65/158 (41%), Gaps = 22/158 (13%)

Query: 155 LEFLDISNNNFRCHIPVEIGDI-----LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDL 209
           L  L++ +N         I D+     L  +    +S N L     S+   +  ++ LDL
Sbjct: 65  LIGLELKDNQ--------ITDLAPLKNLTKITELELSGNPL--KNVSAIAGLQSIKTLDL 114

Query: 210 SNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQ 269
           ++ Q+T   P     G  NL+ L L  N +     S    LTNL++L +G  +     P 
Sbjct: 115 TSTQITDVTPLA---GLSNLQVLYLDLNQIT--NISPLAGLTNLQYLSIGNAQVSDLTP- 168

Query: 270 SLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQN 307
            L+  S L  L  ++N +S    + S P     +L  N
Sbjct: 169 -LANLSKLTTLKADDNKISDISPLASLPNLIEVHLKNN 205

>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 = 53.5 bits (129), Expect = 3e-08
 Identities = 45/303 (14%), Positives = 96/303 (31%), Gaps = 50/303 (16%)

Query: 21  SPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQ 80
            P   L +  ++    ++           +   +    A    +      +   +     
Sbjct: 13  FPDPALANAIKIAAGKSNV---TDTVTQADLDGITTLSAFGTGVT-----TIEGVQYLNN 64

Query: 81  LNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDS 140
           L  L L  +                  + DL+            L+N TK+  L L  + 
Sbjct: 65  LIGLELKDNQ-----------------ITDLAP-----------LKNLTKITELELSGNP 96

Query: 141 LTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGN 200
           L       I   + ++ LD+++       P+     L +L+   + +N +  +  S    
Sbjct: 97  LKNVS--AIAGLQSIKTLDLTSTQITDVTPLA---GLSNLQVLYLDLNQI--TNISPLAG 149

Query: 201 MNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGG 260
           +  L+ L + N Q++   P         L +L   +N +     S   +L NL  + L  
Sbjct: 150 LTNLQYLSIGNAQVSDLTPLA---NLSKLTTLKADDNKIS--DISPLASLPNLIEVHLKN 204

Query: 261 NRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHL 320
           N+     P  L+  S+L  + L N +++      ++       +   S    +  + S  
Sbjct: 205 NQISDVSP--LANTSNLFIVTLTNQTITNQPVFYNNNLVVPNVVKGPSGAPIAPATISDN 262

Query: 321 LNL 323
              
Sbjct: 263 GTY 265

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 47.8 bits (114), Expect = 2e-06
 Identities = 47/254 (18%), Positives = 89/254 (35%), Gaps = 46/254 (18%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           + +L  L++  NQ+T     +PL +LT I EL LS N  +   ++  +     +K     
Sbjct: 62  LNNLIGLELKDNQIT---DLAPLKNLTKITELELSGNPLK---NVSAIAGLQSIKTLDLT 115

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           + ++  ++T    L      L  L L  +                  + ++S        
Sbjct: 116 STQIT-DVTPLAGLS----NLQVLYLDLN-----------------QITNISP------- 146

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
               L   T L+ L + N  ++     P+ +   L  L   +N      P+     LP+L
Sbjct: 147 ----LAGLTNLQYLSIGNAQVSDL--TPLANLSKLTTLKADDNKISDISPLA---SLPNL 197

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
              ++  N +  S  S   N + L ++ L+N  +T +   +     V       S   + 
Sbjct: 198 IEVHLKNNQI--SDVSPLANTSNLFIVTLTNQTITNQPVFYNNNLVVPNVVKGPSGAPIA 255

Query: 241 GHMFSRNFNLTNLE 254
               S N    +  
Sbjct: 256 PATISDNGTYASPN 269

>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 = 56.3 bits (135), Expect = 5e-09
 Identities = 18/98 (18%), Positives = 28/98 (28%), Gaps = 7/98 (7%)

Query: 193 SIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFN 249
                      L  L + N Q    +      G   L +L +  +    +    F     
Sbjct: 22  DSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFH---F 78

Query: 250 LTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSL 287
              L  L L  N     +     +  SL+ L L+ N L
Sbjct: 79  TPRLSRLNLSFNALE-SLSWKTVQGLSLQELVLSGNPL 115

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7 Length = 347

 Score = 46.3 bits (109), Expect = 9e-06
 Identities = 24/85 (28%), Positives = 34/85 (40%), Gaps = 2/85 (2%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQL 214
           L  L I N     H+ +     L  L+   I  + L    P +F     L  L+LS N L
Sbjct: 33  LTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNAL 92

Query: 215 TGEIPEHLAVGCVNLESLALSNNSL 239
              +      G ++L+ L LS N L
Sbjct: 93  E-SLSWKTVQG-LSLQELVLSGNPL 115

>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 = 42.8 bits (100), Expect = 1e-04
 Identities = 22/99 (22%), Positives = 30/99 (30%), Gaps = 14/99 (14%)

Query: 211 NNQLTGEIPEHLAVGCVNLESLALSNN----SLEGHMFSRNFNLTNLEWLQLGGNRFVGE 266
                 +   HL  G  NL  L + N      LE         L  L  L +  +     
Sbjct: 16  TRDGALDSLHHLP-GAENLTELYIENQQHLQHLELRDLR---GLGELRNLTIVKSGLRFV 71

Query: 267 IPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLS 305
            P +      L  L L+ N+L       S    T+  LS
Sbjct: 72  APDAFHFTPRLSRLNLSFNALE------SLSWKTVQGLS 104

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A* Length = 567

 Score = 56.3 bits (135), Expect = 6e-09
 Identities = 38/272 (13%), Positives = 74/272 (27%), Gaps = 43/272 (15%)

Query: 29  IEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSS 88
              L          +      +     +          +      L      +   ++  
Sbjct: 306 AASLNDQLPQHTFRVIWTGSDSQKECVLLKDRPECWCRDSATDEQLFRCELSVEKSTVLQ 365

Query: 89  DYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLP 148
              +     + L  ++   L+ +  +    +   +  E      TL  V+          
Sbjct: 366 SELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDL 425

Query: 149 IHSHRW-----------LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSS 197
                            +  L +++ +      +   + L  +   ++S N L  ++P +
Sbjct: 426 RSKFLLENSVLKMEYADVRVLHLAHKDLTV---LCHLEQLLLVTHLDLSHNRLR-ALPPA 481

Query: 198 FGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQ 257
              +  L VL  S+N L             N++ +A               NL  L+ L 
Sbjct: 482 LAALRCLEVLQASDNALE------------NVDGVA---------------NLPRLQELL 514

Query: 258 LGGNRFVG-EIPQSLSKCSSLEGLYLNNNSLS 288
           L  NR       Q L  C  L  L L  NSL 
Sbjct: 515 LCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLC 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 = 18/64 (28%), Positives = 31/64 (48%), Gaps = 3/64 (4%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +  L +L  S N L    +   + +L  ++EL+L NN  Q   +++PL +  RL +    
Sbjct: 485 LRCLEVLQASDNALE---NVDGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQ 541

Query: 61  NNEL 64
            N L
Sbjct: 542 GNSL 545

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 53.9 bits (130), Expect = 6e-09
 Identities = 22/94 (23%), Positives = 35/94 (37%), Gaps = 6/94 (6%)

Query: 196 SSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNF-NLTNLE 254
           + + N    R LDL   ++   + E+L       +++  S+N +        F  L  L+
Sbjct: 13  AQYTNAVRDRELDLRGYKIP--VIENLGATLDQFDAIDFSDNEIRKL---DGFPLLRRLK 67

Query: 255 WLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
            L +  NR              L  L L NNSL 
Sbjct: 68  TLLVNNNRICRIGEGLDQALPDLTELILTNNSLV 101

>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 = 24/115 (20%), Positives = 43/115 (37%), Gaps = 8/115 (6%)

Query: 125 LENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFN 184
             N  +   L L    +     L     +  + +D S+N  R    ++   +L  LK   
Sbjct: 15  YTNAVRDRELDLRGYKIPVIENLGATLDQ-FDAIDFSDNEIR---KLDGFPLLRRLKTLL 70

Query: 185 ISMNALDGSIPSSFGNMNFLRVLDLSNNQLT--GEIPEHLAVGCVNLESLALSNN 237
           ++ N +          +  L  L L+NN L   G++ + LA    +L  L +  N
Sbjct: 71  VNNNRICRIGEGLDQALPDLTELILTNNSLVELGDL-DPLA-SLKSLTYLCILRN 123

>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 = 52.8 bits (127), Expect = 3e-08
 Identities = 28/106 (26%), Positives = 46/106 (43%), Gaps = 14/106 (13%)

Query: 188 NALDGSIPSSFGNMNFLRVLDLSNNQLT---GEIPEHLAVGCVNLESLALSNN---SLEG 241
           N +    P  F ++  L+ L L +NQL      + + L      L  L L  N    L  
Sbjct: 50  NQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSL----TQLTVLDLGTNQLTVLPS 105

Query: 242 HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSL 287
            +F R   L +L+ L +  N+   E+P+ + + + L  L L+ N L
Sbjct: 106 AVFDR---LVHLKELFMCCNKL-TELPRGIERLTHLTHLALDQNQL 147

>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 = 51.9 bits (125), Expect = 3e-08
 Identities = 25/97 (25%), Positives = 42/97 (43%), Gaps = 9/97 (9%)

Query: 193 SIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFN 249
            +P    N   L ++DLSNN+++  +          L +L LS N    +    F     
Sbjct: 45  LVPKELSNYKHLTLIDLSNNRIS-TLSNQSFSNMTQLLTLILSYNRLRCIPPRTFDG--- 100

Query: 250 LTNLEWLQLGGNRFVGEIPQ-SLSKCSSLEGLYLNNN 285
           L +L  L L GN  +  +P+ + +  S+L  L +  N
Sbjct: 101 LKSLRLLSLHGND-ISVVPEGAFNDLSALSHLAIGAN 136

>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 = 51.2 bits (123), Expect = 2e-07
 Identities = 45/297 (15%), Positives = 96/297 (32%), Gaps = 59/297 (19%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
                  ++    +T    +     L SI++++ +N+  +   S++ +     +   + +
Sbjct: 23  FAETIKDNLKKKSVT---DAVTQNELNSIDQIIANNSDIK---SVQGIQYLPNVTKLFLN 76

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            N+L  +I    +L      L  L L  +                     +  +      
Sbjct: 77  GNKLT-DIKPLANLK----NLGWLFLDEN--------------------KVKDLSS---- 107

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI---- 176
               L++  KL++L L ++ ++      +     LE L + NN         I DI    
Sbjct: 108 ----LKDLKKLKSLSLEHNGISDIN--GLVHLPQLESLYLGNNK--------ITDITVLS 153

Query: 177 -LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALS 235
            L  L   ++  N +  S       +  L+ L LS N ++ ++      G  NL+ L L 
Sbjct: 154 RLTKLDTLSLEDNQI--SDIVPLAGLTKLQNLYLSKNHIS-DLRA--LAGLKNLDVLELF 208

Query: 236 NNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVN 292
           +        +   NL     ++      V     S         +  +    +  V+
Sbjct: 209 SQECLNKPINHQSNLVVPNTVKNTDGSLVTPEIISDDGDYEKPNVKWHLPEFTNEVS 265

>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 = 50.8 bits (122), Expect = 2e-07
 Identities = 41/269 (15%), Positives = 83/269 (30%), Gaps = 52/269 (19%)

Query: 21  SPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQ 80
                     +  L                 + +    A+N+                  
Sbjct: 18  FSDDAFAETIKDNLKKKSVT---DAVTQNELNSIDQIIANNS-----------------D 57

Query: 81  LNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDS 140
           + S+               + +  ++  + L+  K+    P   L N   L  LFL  + 
Sbjct: 58  IKSVQ-------------GIQYLPNVTKLFLNGNKLTDIKP---LANLKNLGWLFLDENK 101

Query: 141 LTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI--LPSLKFFNISMNALDGSIPSSF 198
           +       +   + L+ L + +N        +I  +  LP L+   +  N +  +  +  
Sbjct: 102 VKDLS--SLKDLKKLKSLSLEHNGIS-----DINGLVHLPQLESLYLGNNKI--TDITVL 152

Query: 199 GNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQL 258
             +  L  L L +NQ++ +I      G   L++L LS N +          L NL+ L+L
Sbjct: 153 SRLTKLDTLSLEDNQIS-DIVPL--AGLTKLQNLYLSKNHIS--DLRALAGLKNLDVLEL 207

Query: 259 GGNRFVGEIPQSLSKCSSLEGLYLNNNSL 287
                + +     S       +   + SL
Sbjct: 208 FSQECLNKPINHQSNLVVPNTVKNTDGSL 236

>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 = 48.9 bits (117), Expect = 1e-06
 Identities = 38/204 (18%), Positives = 76/204 (37%), Gaps = 24/204 (11%)

Query: 125 LENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI-----LPS 179
           ++    +  LFL  + LT     P+ + + L +L +  N         + D+     L  
Sbjct: 64  IQYLPNVTKLFLNGNKLTDIK--PLANLKNLGWLFLDENK--------VKDLSSLKDLKK 113

Query: 180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL 239
           LK  ++  N +  S  +   ++  L  L L NN++T      L+     L++L+L +N +
Sbjct: 114 LKSLSLEHNGI--SDINGLVHLPQLESLYLGNNKIT--DITVLS-RLTKLDTLSLEDNQI 168

Query: 240 EGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPAN 299
                     LT L+ L L  N  + ++ ++L+   +L+ L L +           S   
Sbjct: 169 S--DIVPLAGLTKLQNLYLSKNH-ISDL-RALAGLKNLDVLELFSQECLNKPINHQSNLV 224

Query: 300 TLFNLSQNSRRFTSSISHSHLLNL 323
               +        +    S   + 
Sbjct: 225 VPNTVKNTDGSLVTPEIISDDGDY 248

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 50.4 bits (121), Expect = 2e-07
 Identities = 43/168 (25%), Positives = 68/168 (40%), Gaps = 24/168 (14%)

Query: 129 TKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMN 188
             ++ +   N  +       I     + +L +  N     I       L +L +  ++ N
Sbjct: 41  NSIDQIIANNSDIKSV--QGIQYLPNVRYLALGGNKLH-DISA--LKELTNLTYLILTGN 95

Query: 189 ALDGSIPSS-FGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---SLEGHMF 244
            L  S+P+  F  +  L+ L L  NQL   +P+ +     NL  L L++N   SL   +F
Sbjct: 96  QL-QSLPNGVFDKLTNLKELVLVENQLQ-SLPDGVFDKLTNLTYLNLAHNQLQSLPKGVF 153

Query: 245 SRNFNLTNLEWLQLGGNRFVGEIPQSLS-----KCSSLEGLYLNNNSL 287
            +   LTNL  L L  N+      QSL      K + L+ L L  N L
Sbjct: 154 DK---LTNLTELDLSYNQL-----QSLPEGVFDKLTQLKDLRLYQNQL 193

>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 = 50.1 bits (120), Expect = 3e-07
 Identities = 32/109 (29%), Positives = 47/109 (43%), Gaps = 17/109 (15%)

Query: 188 NALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---SLEGHMF 244
             L     ++F  +  L  L+L  NQL   +   +      L +L L+NN   SL   +F
Sbjct: 45  TGLATLSDATFRGLTKLTWLNLDYNQLQT-LSAGVFDDLTELGTLGLANNQLASLPLGVF 103

Query: 245 SRNFNLTNLEWLQLGGNRFVGEIPQSLS-----KCSSLEGLYLNNNSLS 288
                LT L+ L LGGN+      +SL      + + L+ L LN N L 
Sbjct: 104 DH---LTQLDKLYLGGNQL-----KSLPSGVFDRLTKLKELRLNTNQLQ 144

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri} Length = 208

 Score = 48.9 bits (117), Expect = 5e-07
 Identities = 33/120 (27%), Positives = 48/120 (40%), Gaps = 17/120 (14%)

Query: 176 ILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALS 235
           I     + ++  N+L       F  +  L  L L  N+L   +P  +     +L  L LS
Sbjct: 26  IPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQ-SLPNGVFNKLTSLTYLNLS 84

Query: 236 NN---SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLS-----KCSSLEGLYLNNNSL 287
            N   SL   +F +   LT L+ L L  N+      QSL      K + L+ L L  N L
Sbjct: 85  TNQLQSLPNGVFDK---LTQLKELALNTNQL-----QSLPDGVFDKLTQLKDLRLYQNQL 136

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 49.5 bits (118), Expect = 7e-07
 Identities = 44/212 (20%), Positives = 74/212 (34%), Gaps = 11/212 (5%)

Query: 110 DLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISN-NNFRCH 168
           DLS+  +       +L   +KL+ L L    L+ P    +  +  L  L++S  + F   
Sbjct: 99  DLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEF 158

Query: 169 IPVEIGDILPSLKFFNIS--MNALDGSIPSSFG-NMNFLRVLDLS--NNQLTGEIPEHLA 223
               +      L   N+S   +  +  +  +       +  L+LS     L       L 
Sbjct: 159 ALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLV 218

Query: 224 VGCVNLESLALSN-NSLEGHMFSRNFNLTNLEWLQLGGNRFVGEI-PQSLSKCSSLEGLY 281
             C NL  L LS+   L+   F   F L  L+ L L     +       L +  +L+ L 
Sbjct: 219 RRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQ 278

Query: 282 LNNNSLSGNVNVPSSPANTLFNLSQNSRRFTS 313
           +      G +         L +L  N   FT+
Sbjct: 279 VFGIVPDGTL---QLLKEALPHLQINCSHFTT 307

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 41.4 bits (97), Expect = 3e-04
 Identities = 29/143 (20%), Positives = 50/143 (34%), Gaps = 10/143 (6%)

Query: 151 SHRWLEFL-------DISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNF 203
             RW            +       H  V    +   +  F    + +D  +   F     
Sbjct: 36  CKRWYRLASDESLWQTLDLTGKNLHPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFR- 94

Query: 204 LRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRF 263
           ++ +DLSN+ +       +   C  L++L+L    L   + +     +NL  L L G   
Sbjct: 95  VQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSG 154

Query: 264 VGE--IPQSLSKCSSLEGLYLNN 284
             E  +   LS CS L+ L L+ 
Sbjct: 155 FSEFALQTLLSSCSRLDELNLSW 177

>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 = 47.0 bits (112), Expect = 1e-06
 Identities = 28/85 (32%), Positives = 36/85 (42%), Gaps = 2/85 (2%)

Query: 204 LRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRF 263
           +R L L N +      E L    VNLE L+L N  L     S    L  L+ L+L  NR 
Sbjct: 26  VRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLIS--VSNLPKLPKLKKLELSENRI 83

Query: 264 VGEIPQSLSKCSSLEGLYLNNNSLS 288
            G +     K  +L  L L+ N L 
Sbjct: 84  FGGLDMLAEKLPNLTHLNLSGNKLK 108

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A Length = 168

 Score = 45.5 bits (108), Expect = 4e-06
 Identities = 30/134 (22%), Positives = 52/134 (38%), Gaps = 26/134 (19%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQL 214
           +  L + N          +     +L+F ++    L  S+ S+   +  L+ L+LS N++
Sbjct: 26  VRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLI-SV-SNLPKLPKLKKLELSENRI 83

Query: 215 TGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKC 274
            G   + LA    NL  L LS N L+        +++ LE                L K 
Sbjct: 84  FG-GLDMLAEKLPNLTHLNLSGNKLK--------DISTLE---------------PLKKL 119

Query: 275 SSLEGLYLNNNSLS 288
             L+ L L N  ++
Sbjct: 120 ECLKSLDLFNCEVT 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 = 43.2 bits (102), Expect = 3e-05
 Identities = 29/113 (25%), Positives = 40/113 (35%), Gaps = 6/113 (5%)

Query: 127 NNTKLETLFLVNDSLTGPFRLPIHSHRW-LEFLDISNNNFRCHIPVEIGDILPSLKFFNI 185
               +  L L N          + +    LEFL + N        V     LP LK   +
Sbjct: 22  TPAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLIS---VSNLPKLPKLKKLEL 78

Query: 186 SMNALDGSIPSSFGNMNFLRVLDLSNNQLTG-EIPEHLAVGCVNLESLALSNN 237
           S N + G +      +  L  L+LS N+L      E L      L+SL L N 
Sbjct: 79  SENRIFGGLDMLAEKLPNLTHLNLSGNKLKDISTLEPLK-KLECLKSLDLFNC 130

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 46.6 bits (111), Expect = 1e-06
 Identities = 23/88 (26%), Positives = 35/88 (39%), Gaps = 8/88 (9%)

Query: 204 LRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGG 260
           ++ L L N++      E L      LE L+  N    S+          L  L+ L+L  
Sbjct: 19  VKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIAN--LP---KLNKLKKLELSD 73

Query: 261 NRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
           NR  G +     KC +L  L L+ N + 
Sbjct: 74  NRVSGGLEVLAEKCPNLTHLNLSGNKIK 101

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 44.3 bits (105), Expect = 9e-06
 Identities = 26/96 (27%), Positives = 37/96 (38%), Gaps = 4/96 (4%)

Query: 191 DGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNL 250
           +G +         L  L   N  LT  I  +L      L+ L LS+N + G +       
Sbjct: 31  EGKLEGLTDEFEELEFLSTINVGLT-SI-ANLP-KLNKLKKLELSDNRVSGGLEVLAEKC 87

Query: 251 TNLEWLQLGGNRFVG-EIPQSLSKCSSLEGLYLNNN 285
            NL  L L GN+       + L K  +L+ L L N 
Sbjct: 88  PNLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNC 123

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 43.1 bits (102), Expect = 2e-05
 Identities = 24/84 (28%), Positives = 32/84 (38%), Gaps = 5/84 (5%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQL 214
           LEFL   N        +     L  LK   +S N + G +         L  L+LS N++
Sbjct: 44  LEFLSTINVGLTS---IANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGNKI 100

Query: 215 TG-EIPEHLAVGCVNLESLALSNN 237
                 E L     NL+SL L N 
Sbjct: 101 KDLSTIEPLK-KLENLKSLDLFNC 123

>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 = 47.3 bits (113), Expect = 1e-06
 Identities = 22/92 (23%), Positives = 39/92 (42%), Gaps = 16/92 (17%)

Query: 205 RVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGN 261
             L L++N+L     + L     +L  L L  N    +E + F      ++++ LQLG N
Sbjct: 32  TELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEG---ASHIQELQLGEN 88

Query: 262 RFVGEIPQSLS-----KCSSLEGLYLNNNSLS 288
           +      + +S         L+ L L +N +S
Sbjct: 89  KI-----KEISNKMFLGLHQLKTLNLYDNQIS 115

>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 = 45.4 bits (108), Expect = 7e-06
 Identities = 27/92 (29%), Positives = 40/92 (43%), Gaps = 9/92 (9%)

Query: 198 FGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLE 254
           FG +  L  L+L  NQLT  I  +   G  +++ L L  N    +   MF     L  L+
Sbjct: 50  FGRLPHLVKLELKRNQLT-GIEPNAFEGASHIQELQLGENKIKEISNKMFLG---LHQLK 105

Query: 255 WLQLGGNRFVGEIPQ-SLSKCSSLEGLYLNNN 285
            L L  N+ +  +   S    +SL  L L +N
Sbjct: 106 TLNLYDNQ-ISCVMPGSFEHLNSLTSLNLASN 136

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp} Length = 362

 Score = 48.5 bits (116), Expect = 2e-06
 Identities = 28/276 (10%), Positives = 80/276 (28%), Gaps = 37/276 (13%)

Query: 1   MTSLRILDVSSNQLT----GSISSSPLVHLTSIEELMLSNNHFQ----IPISLEPLFNHS 52
             S+  L++S N L       +         ++  L LS N         +         
Sbjct: 50  PASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDELVKTLAAIPF 109

Query: 53  RLKIFYADNNELNAEITQ--SHSLIAPNFQLNSLSLS----SDYGDGFIFPKFLYHQHDL 106
            + +     N+ +++ +     +       + SL+L            +         ++
Sbjct: 110 TITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANV 169

Query: 107 ALVDLSHIKMNGEFPTWLLE----NNTKLETLFLVNDSLTGPFRLPI-----HSHRWLEF 157
             ++L    +  +    L +        + +L L  + L       +          +  
Sbjct: 170 NSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNHVVS 229

Query: 158 LDISNNNFRCHIPVEIGDIL---PSLKFFNISMNALDG-------SIPSSFGNMNFLRVL 207
           L++  N         +  +      L+   +  + +         ++ ++F N+  + ++
Sbjct: 230 LNLCLNCLHGPSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILV 289

Query: 208 DLSNNQLTGE----IPEHLAVGCVNLESLALSNNSL 239
           D +  ++       I   +       +  +L N  L
Sbjct: 290 DKNGKEIHPSHSIPISNLIRELSGKADVPSLLNQCL 325

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp} Length = 362

 Score = 43.2 bits (102), Expect = 8e-05
 Identities = 47/325 (14%), Positives = 91/325 (28%), Gaps = 58/325 (17%)

Query: 2   TSLRILDVSSNQLTGS----ISSSPLVHLTSIEELMLSNNHFQ----IPISLEPLFNHSR 53
             +  LD+S N L       +  +      S+  L LS N         +        + 
Sbjct: 22  HGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPAN 81

Query: 54  LKIFYADNNELNAEITQ--SHSLIAPNFQLNSLSLS----SDYGDGFIFPKFLYHQHDLA 107
           +       N L+ + +     +L A  F +  L L     S          F      + 
Sbjct: 82  VTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASIT 141

Query: 108 LVDLSHIKMNGE----FPTWLLENNTKLETLFLVNDSLTGPFRLPI-----HSHRWLEFL 158
            ++L    +  +        L      + +L L  ++L       +          +  L
Sbjct: 142 SLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGNNLASKNCAELAKFLASIPASVTSL 201

Query: 159 DISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEI 218
           D+S N        E+  I  S                      N +  L+L  N L G  
Sbjct: 202 DLSANLLGLKSYAELAYIFSS--------------------IPNHVVSLNLCLNCLHGPS 241

Query: 219 PEHLAVG---CVNLESLALSNNSLEG-------HMFSRNFNLTNLEWLQLGGNRFVGEIP 268
            E+L +      +L+++ L  + ++         + +   N+  +  +   G        
Sbjct: 242 LENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDKNGKEIHPSHS 301

Query: 269 QSLSK-----CSSLEGLYLNNNSLS 288
             +S          +   L N  L 
Sbjct: 302 IPISNLIRELSGKADVPSLLNQCLI 326

>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 = 46.1 bits (108), Expect = 9e-06
 Identities = 26/168 (15%), Positives = 59/168 (35%), Gaps = 19/168 (11%)

Query: 122 TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGD-ILPSL 180
           + +L+    L  L +     T    +       L+ L+I +      +  +I    LP+L
Sbjct: 165 SPVLDAMPLLNNLKI---KGTNNLSIGKKPRPNLKSLEIISGGLPDSVVEDILGSDLPNL 221

Query: 181 K----FFNISMNALDGSIPS-----SFGNMNFLRVLDLSNNQLTGEIPEHLAVGCV--NL 229
           +    +  +     DG +       S      L+ L + + +    + E      +   L
Sbjct: 222 EKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQL 281

Query: 230 ESLALSNNSLEG----HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSK 273
           E++ +S   L       +      + +L+++ +  N    E+ + L K
Sbjct: 282 ETMDISAGVLTDEGARLLLDHVDKIKHLKFINMKYNYLSDEMKKELQK 329

>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 = 40.3 bits (93), Expect = 6e-04
 Identities = 17/104 (16%), Positives = 38/104 (36%), Gaps = 6/104 (5%)

Query: 147 LPIHSHRWLEFLDISNNNFRCHIPVEIG--DILPSLKFFNISMNALDGS----IPSSFGN 200
                   L++L I +   +  +       DILP L+  +IS   L       +      
Sbjct: 246 FSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLTDEGARLLLDHVDK 305

Query: 201 MNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMF 244
           +  L+ +++  N L+ E+ + L         ++ S    + + +
Sbjct: 306 IKHLKFINMKYNYLSDEMKKELQKSLPMKIDVSDSQEYDDDYSY 349

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A Length = 198

 Score = 43.9 bits (104), Expect = 2e-05
 Identities = 22/95 (23%), Positives = 44/95 (46%), Gaps = 6/95 (6%)

Query: 194 IPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNL 253
           + ++   +   + L LS N +  +I   L+ G  NL  L+L  N ++  + + +     L
Sbjct: 40  MDATLSTLKACKHLALSTNNIE-KI-SSLS-GMENLRILSLGRNLIK-KIENLDAVADTL 95

Query: 254 EWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
           E L +  N+        + K  +L  LY++NN ++
Sbjct: 96  EELWISYNQI--ASLSGIEKLVNLRVLYMSNNKIT 128

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A Length = 198

 Score = 42.0 bits (99), Expect = 1e-04
 Identities = 26/119 (21%), Positives = 48/119 (40%), Gaps = 8/119 (6%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQL 214
            + L +S NN      +     + +L+  ++  N +   I +     + L  L +S NQ+
Sbjct: 50  CKHLALSTNNIEK---ISSLSGMENLRILSLGRNLIK-KIENLDAVADTLEELWISYNQI 105

Query: 215 TGEIPEHLAVGCVNLESLALSNNSLEG-HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLS 272
              +   +    VNL  L +SNN +       +   L  LE L L GN    +  ++ +
Sbjct: 106 A-SL-SGIE-KLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNA 161

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 43.9 bits (104), Expect = 4e-05
 Identities = 35/254 (13%), Positives = 85/254 (33%), Gaps = 47/254 (18%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           + +    ++    +T          L+ ++     N++ Q   SL  +   + LK  +  
Sbjct: 18  LANAVKQNLGKQSVT---DLVSQKELSGVQNFNGDNSNIQ---SLAGMQFFTNLKELHLS 71

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           +N+++ +++    L     +L  LS++ +                  L +L+ I      
Sbjct: 72  HNQIS-DLSPLKDLT----KLEELSVNRNR-----------------LKNLNGIP----- 104

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
                  +  L  LFL N+ L       +   + LE L I NN  +    + +   L  L
Sbjct: 105 -------SACLSRLFLDNNELRDT--DSLIHLKNLEILSIRNNKLKS---IVMLGFLSKL 152

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
           +  ++  N +  +       +  +  +DL+  +   E  ++     +           + 
Sbjct: 153 EVLDLHGNEI--TNTGGLTRLKKVNWIDLTGQKCVNEPVKYQPELYITNTVKDPDGRWIS 210

Query: 241 GHMFSRNFNLTNLE 254
            +  S   +  +  
Sbjct: 211 PYYISNGGSYVDGC 224

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 43.5 bits (103), Expect = 5e-05
 Identities = 30/167 (17%), Positives = 57/167 (34%), Gaps = 21/167 (12%)

Query: 125 LENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI----LPSL 180
           ++  T L+ L L ++ ++     P+     LE L ++ N         + ++       L
Sbjct: 59  MQFFTNLKELHLSHNQISDLS--PLKDLTKLEELSVNRNR--------LKNLNGIPSACL 108

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
               +  N L      S  ++  L +L + NN+L   I          LE L L  N + 
Sbjct: 109 SRLFLDNNEL--RDTDSLIHLKNLEILSIRNNKLK-SIVM--LGFLSKLEVLDLHGNEIT 163

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSL 287
                    L  + W+ L G + V E  +   +      +   +   
Sbjct: 164 N--TGGLTRLKKVNWIDLTGQKCVNEPVKYQPELYITNTVKDPDGRW 208

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 41.9 bits (99), Expect = 1e-04
 Identities = 55/297 (18%), Positives = 90/297 (30%), Gaps = 60/297 (20%)

Query: 21  SPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQ 80
            P   L +  +  L          L      S ++ F  DN+ +     QS + +     
Sbjct: 13  FPDPGLANAVKQNLGKQSVT---DLVSQKELSGVQNFNGDNSNI-----QSLAGMQFFTN 64

Query: 81  LNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDS 140
           L  L LS +                  + DLS            L++ TKLE L +  + 
Sbjct: 65  LKELHLSHNQ-----------------ISDLSP-----------LKDLTKLEELSVNRNR 96

Query: 141 LTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI-----LPSLKFFNISMNALDGSIP 195
           L     L       L  L + NN         + D      L +L+  +I  N L  SI 
Sbjct: 97  LK---NLNGIPSACLSRLFLDNNE--------LRDTDSLIHLKNLEILSIRNNKLK-SI- 143

Query: 196 SSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEW 255
              G ++ L VLDL  N++T             +  + L+              L     
Sbjct: 144 VMLGFLSKLEVLDLHGNEITNTGGLT---RLKKVNWIDLTGQKCVNEPVKYQPELYITNT 200

Query: 256 LQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFT 312
           ++    R++   P  +S   S     +          V S   +   N+ +    F 
Sbjct: 201 VKDPDGRWIS--PYYISNGGSYVDGCVLWELPVYTDEV-SYKFSEYINVGETEAIFD 254

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri} Length = 177

 Score = 42.6 bits (101), Expect = 4e-05
 Identities = 28/91 (30%), Positives = 40/91 (43%), Gaps = 17/91 (18%)

Query: 205 RVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN---SLEGHMFSRNFNLTNLEWLQLGGN 261
             L+L +N+L   +P  +      L  L+LS N   SL   +F +   LT L  L L  N
Sbjct: 31  TRLELESNKLQ-SLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDK---LTKLTILYLHEN 86

Query: 262 RFVGEIPQSLS-----KCSSLEGLYLNNNSL 287
           +      QSL      K + L+ L L+ N L
Sbjct: 87  KL-----QSLPNGVFDKLTQLKELALDTNQL 112

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

 Score = 44.1 bits (103), Expect = 7e-05
 Identities = 43/251 (17%), Positives = 79/251 (31%), Gaps = 70/251 (27%)

Query: 3   SLRILDVSSNQLTGSISSSPLVHL---TSIEELMLSNNHFQIPISLEPLFNHSRLKI--F 57
            L +   S++     I +  L  +       ++M+  N       +E     S + I   
Sbjct: 377 RLSVFPPSAH-----IPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI 431

Query: 58  YADNNELNAEITQSHSLIAPNFQL----NSLSLSSDYGDGFIFPKFLYHQHDLALVDLSH 113
           Y +           H  I  ++ +    +S  L   Y D + +    +H     L ++ H
Sbjct: 432 YLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHH-----LKNIEH 486

Query: 114 IKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEI 173
            +    F    L+        F                 R+LE   I +++   +    I
Sbjct: 487 PERMTLFRMVFLD--------F-----------------RFLE-QKIRHDSTAWNASGSI 520

Query: 174 GDILPSLKFFN--ISMN-----ALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVG- 225
            + L  LKF+   I  N      L  +I      ++FL            +I E+L    
Sbjct: 521 LNTLQQLKFYKPYICDNDPKYERLVNAI------LDFLP-----------KIEENLICSK 563

Query: 226 CVNLESLALSN 236
             +L  +AL  
Sbjct: 564 YTDLLRIALMA 574

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

 Score = 41.8 bits (97), Expect = 3e-04
 Identities = 64/395 (16%), Positives = 106/395 (26%), Gaps = 147/395 (37%)

Query: 5   RILDVSSN-QLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNE 63
           +IL  +   Q+T  +S++   H++     M              L     LK       +
Sbjct: 267 KILLTTRFKQVTDFLSAATTTHISLDHHSMT----LTPDEVKS-LL----LKYLDCRPQD 317

Query: 64  LNAEITQSH----SLIAPNFQ------------------------LNSLS---LSSDYGD 92
           L  E+  ++    S+IA + +                        LN L        +  
Sbjct: 318 LPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDR 377

Query: 93  GFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLE---NNTKLETLFLVNDSLTGPFRLPI 149
             +FP              +HI      PT LL     +     + +V + L        
Sbjct: 378 LSVFPP------S------AHI------PTILLSLIWFDVIKSDVMVVVNKL-------- 411

Query: 150 HSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVL-- 207
             H++   ++         IP     I   LK    +  AL  SI   +   N  +    
Sbjct: 412 --HKYS-LVEKQPKESTISIP----SIYLELKVKLENEYALHRSIVDHY---NIPKTFDS 461

Query: 208 -DLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGE 266
            DL    L      H+         L    +     +F   F   +  +L+         
Sbjct: 462 DDLIPPYLDQYFYSHIG------HHLKNIEHPERMTLFRMVF--LDFRFLE--------- 504

Query: 267 IPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGI 326
                 K        + ++S     N   S  NTL  L                      
Sbjct: 505 -----QK--------IRHDST--AWNASGSILNTLQQL---------------------- 527

Query: 327 CKEYAKEFARNMPRICEEYAAYLNSTNMTLLLIFL 361
            K Y      N P    +Y   +N+     +L FL
Sbjct: 528 -KFYKPYICDNDP----KYERLVNA-----ILDFL 552

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 42.2 bits (99), Expect = 2e-04
 Identities = 39/303 (12%), Positives = 85/303 (28%), Gaps = 39/303 (12%)

Query: 2   TSLRILDVSSNQLT-GSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSR-LKIFYA 59
             L+ +      ++   +          +E L L          L  +  H R +K    
Sbjct: 112 RQLKSVHFRRMIVSDLDLDRLAKARADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLM 171

Query: 60  DNNELNAEITQSHSLIAPNF-QLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG 118
           + +  + +  +    +A +   L  L+                      L          
Sbjct: 172 EESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKI---------SPKDL---------- 212

Query: 119 EFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILP 178
                +  N   L ++ + +  +         +   LE     + N    +P +  +++ 
Sbjct: 213 ---ETIARNCRSLVSVKVGDFEILELVGF-FKAAANLEEFCGGSLNEDIGMPEKYMNLVF 268

Query: 179 SLKFFNISMNAL-DGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN 237
             K   + ++ +    +P  F     +R LDL    L  E    L   C NLE L   N 
Sbjct: 269 PRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNV 328

Query: 238 SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSK------------CSSLEGLYLNNN 285
             +  +         L+ L++        +                  C  LE + +  +
Sbjct: 329 IGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVS 388

Query: 286 SLS 288
            ++
Sbjct: 389 DIT 391

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens} Length = 372

 Score = 41.6 bits (98), Expect = 2e-04
 Identities = 25/148 (16%), Positives = 50/148 (33%), Gaps = 26/148 (17%)

Query: 163 NNFRCHIPVEIGD------ILPSLKFFNISMNALDGSIPSSFG-----NMNFLRVLDLSN 211
           ++   H   E  +      +L SL+  N++   +     +          + L  ++L++
Sbjct: 53  DHLFFHY--EFQNQRFSAEVLSSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLAS 110

Query: 212 NQLTGEIPEHLAVGCVNLESLALSNNSLE-------GHMFSRNFNLTNLEWLQLGGNRF- 263
            QL       L    +    L L  NSL          +     +   +  L+L  N   
Sbjct: 111 CQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLLH--DQCQITTLRLSNNPLT 168

Query: 264 ---VGEIPQSLSKCSSLEGLYLNNNSLS 288
              V  + + L+  +S+  L L +  L 
Sbjct: 169 AAGVAVLMEGLAGNTSVTHLSLLHTGLG 196

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 40.7 bits (95), Expect = 7e-04
 Identities = 22/144 (15%), Positives = 45/144 (31%), Gaps = 5/144 (3%)

Query: 124 LLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI-----LP 178
           L+     L++L L            +     LE L            V  G         
Sbjct: 206 LVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCK 265

Query: 179 SLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNS 238
            L+  +   +A+   +P+ +   + L  L+LS   +       L   C  L+ L + +  
Sbjct: 266 ELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDYI 325

Query: 239 LEGHMFSRNFNLTNLEWLQLGGNR 262
            +  +        +L  L++  + 
Sbjct: 326 EDAGLEVLASTCKDLRELRVFPSE 349

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	361
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	100.0
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	100.0
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	100.0
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	100.0
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	100.0
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	100.0
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	100.0
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	100.0
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	100.0
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	100.0
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	100.0
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	100.0
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	100.0
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	100.0
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	100.0
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	100.0
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	100.0
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	100.0
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	100.0
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	100.0
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	100.0
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	100.0
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	100.0
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	100.0
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	100.0
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	100.0
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	100.0
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	100.0
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	100.0
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	100.0
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	100.0
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	100.0
1o6v_A	466	Internalin A; bacterial infection, extracellular r	100.0
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	100.0
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	100.0
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	100.0
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	100.0
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	100.0
1o6v_A	466	Internalin A; bacterial infection, extracellular r	100.0
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	100.0
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	100.0
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	100.0
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	100.0
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	100.0
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.98
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.97
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.97
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.97
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.97
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.97
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.97
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.97
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.97
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.97
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.97
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.97
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.96
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.96
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.96
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.96
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.96
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.96
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.96
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.96
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.96
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.96
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.95
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.95
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.95
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.95
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.95
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.94
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.93
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.93
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.93
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.92
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.92
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.92
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.92
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.92
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.92
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.92
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.91
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.91
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.91
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.91
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.91
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.91
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.91
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.9
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.9
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.9
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.89
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.89
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.88
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.88
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.88
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.88
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.87
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.86
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.85
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.84
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.84
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.84
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.84
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.83
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.83
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.83
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.83
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.82
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.81
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.81
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.81
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.81
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.81
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.8
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.8
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.79
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	99.78
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.78
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.78
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.78
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	99.77
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.76
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.73
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.72
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.72
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.71
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.7
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.7
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.69
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.69
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.68
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	99.68
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.67
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.65
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.64
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.61
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.6
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.6
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.6
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	99.58
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	99.58
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.5
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	99.49
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.48
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.46
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.46
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	99.36
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.36
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	99.31
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.29
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	99.13
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.98
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.74
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.6
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.43
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.38
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.32
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.24
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	97.95
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	97.74
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	97.53
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	96.88
2lz0_A	100	Uncharacterized protein; hypothetical leucine rich	89.06

>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=5e-42  Score=341.33  Aligned_cols=311  Identities=28%  Similarity=0.359  Sum_probs=255.8

Q ss_pred             CCCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccC---------------------------CCC
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFN---------------------------HSR   53 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~---------------------------l~~   53 (361)
                      +++|++|++++|++++.+|...+.++++|++|++++|++++.+| ..+..                           +++
T Consensus       317 l~~L~~L~L~~n~l~~~ip~~~l~~l~~L~~L~Ls~n~l~~~~p-~~l~~l~~~L~~L~Ls~N~l~~~~~~~~~~~~~~~  395 (768)
T 3rgz_A          317 CSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELP-ESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNT  395 (768)
T ss_dssp             CTTCCEEECCSSEEEEECCHHHHTTCTTCCEEECCSSEEEECCC-TTHHHHTTTCSEEECCSSEEEEECCTTTTCSTTCC
T ss_pred             CCCccEEECCCCcccCcCCHHHHhcCCCCCEEeCcCCccCcccc-HHHHhhhcCCcEEEccCCCcCCCcChhhhhcccCC
Confidence            35666777777766666666456666666666666666665555 23433                           344


Q ss_pred             CcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcE
Q 042011           54 LKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLET  133 (361)
Q Consensus        54 L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~  133 (361)
                      |++|++++|.+++..+..   +..+.+|++|++ ++|.+.+..|..+..+++|+.|++++|.+++.+|.. +..+++|++
T Consensus       396 L~~L~L~~n~l~~~~p~~---l~~l~~L~~L~L-s~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~-~~~l~~L~~  470 (768)
T 3rgz_A          396 LQELYLQNNGFTGKIPPT---LSNCSELVSLHL-SFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQE-LMYVKTLET  470 (768)
T ss_dssp             CCEEECCSSEEEEECCGG---GGGCTTCCEEEC-CSSEEESCCCGGGGGCTTCCEEECCSSCCCSCCCGG-GGGCTTCCE
T ss_pred             ccEEECCCCccccccCHH---HhcCCCCCEEEC-cCCcccCcccHHHhcCCCCCEEECCCCcccCcCCHH-HcCCCCceE
Confidence            555555555555444333   455668888888 888888788888888888888888888888778777 778899999


Q ss_pred             EEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCc
Q 042011          134 LFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQ  213 (361)
Q Consensus       134 L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~  213 (361)
                      |++++|++.+..|..+..+++|++|++++|++++.+|.++.. +++|++|++++|.+++.+|..+..+++|++|++++|.
T Consensus       471 L~L~~N~l~~~~p~~l~~l~~L~~L~L~~N~l~~~~p~~~~~-l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~  549 (768)
T 3rgz_A          471 LILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGR-LENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNL  549 (768)
T ss_dssp             EECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGG-CTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSSE
T ss_pred             EEecCCcccCcCCHHHhcCCCCCEEEccCCccCCcCChHHhc-CCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCCc
Confidence            999999998888888999999999999999998888888776 8999999999999998999999999999999999999


Q ss_pred             Cccccchhhhh---------------------------------------------------------------------
Q 042011          214 LTGEIPEHLAV---------------------------------------------------------------------  224 (361)
Q Consensus       214 l~~~~~~~~~~---------------------------------------------------------------------  224 (361)
                      +.|.+|..++.                                                                     
T Consensus       550 l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~  629 (768)
T 3rgz_A          550 FNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFD  629 (768)
T ss_dssp             EESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCS
T ss_pred             cCCcCChHHhcccchhhhhccccccccccccccccccccccccccccccccchhhhccccccccccccceecccCchhhh
Confidence            98888866542                                                                     


Q ss_pred             CCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceee
Q 042011          225 GCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNL  304 (361)
Q Consensus       225 ~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l  304 (361)
                      .+++|+.|++++|++++.+|..++.+++|+.|++++|++++.+|..++.+++|+.||+++|++++.+|..+..++.|++|
T Consensus       630 ~l~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~Ls~N~l~g~ip~~l~~L~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L  709 (768)
T 3rgz_A          630 NNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEI  709 (768)
T ss_dssp             SSBCCCEEECCSSCCBSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEECCCGGGGGCCCCSEE
T ss_pred             ccccccEEECcCCcccccCCHHHhccccCCEEeCcCCccCCCCChHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEE
Confidence            23578999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccCCcccc
Q 042011          305 SQNSRRFTSSISHS  318 (361)
Q Consensus       305 ~l~~N~~~~~~~~~  318 (361)
                      ++++|+++|.+|..
T Consensus       710 ~ls~N~l~g~iP~~  723 (768)
T 3rgz_A          710 DLSNNNLSGPIPEM  723 (768)
T ss_dssp             ECCSSEEEEECCSS
T ss_pred             ECcCCcccccCCCc
Confidence            99999999999854

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=100.00  E-value=1e-41  Score=320.00  Aligned_cols=316  Identities=19%  Similarity=0.152  Sum_probs=268.4

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      ++|++|+|++|.+++..|. .|.++++|++|++++|.+.+.++...|.++++|++|++++|.+++..+..   +..+.+|
T Consensus        30 ~~l~~L~Ls~n~i~~~~~~-~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~---~~~l~~L  105 (455)
T 3v47_A           30 AHVNYVDLSLNSIAELNET-SFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGA---FNGLANL  105 (455)
T ss_dssp             TTCCEEECCSSCCCEECTT-TTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCTTCEECTTT---TTTCTTC
T ss_pred             CccCEEEecCCccCcCChh-HhccCccccEEECcCCcccceECcccccccccCCEEeCCCCccCccChhh---ccCcccC
Confidence            5789999999999844455 89999999999999999976776678999999999999999998776655   5667799


Q ss_pred             cEEeccCCCCCCCCCchh--hcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCC-------
Q 042011           82 NSLSLSSDYGDGFIFPKF--LYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSH-------  152 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~~~~--l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l-------  152 (361)
                      ++|++ ++|.+++..+..  +..+++|++|++++|.+++..|..++.++++|++|++++|.+.+..+..+..+       
T Consensus       106 ~~L~L-~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~~~L~~  184 (455)
T 3v47_A          106 EVLTL-TQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTL  184 (455)
T ss_dssp             CEEEC-TTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCCBSCCCTTTSGGGTTCEEEE
T ss_pred             CEEeC-CCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCcccccChhhhhccccccccc
Confidence            99999 999988754444  88999999999999999976677668899999999999999987766655443       


Q ss_pred             ---------------------------CCcCEEEccCCcCCccCChhhhcc-----------------------------
Q 042011          153 ---------------------------RWLEFLDISNNNFRCHIPVEIGDI-----------------------------  176 (361)
Q Consensus       153 ---------------------------~~L~~L~l~~n~l~~~~~~~~~~~-----------------------------  176 (361)
                                                 ++|++|++++|++++..|..+...                             
T Consensus       185 L~l~~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~  264 (455)
T 3v47_A          185 LRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDP  264 (455)
T ss_dssp             EECTTCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHHHHTTTCCEEEEECTTCTTTSCCTTCCSSCCC
T ss_pred             cccccCcccccchhhccccccccccccceeeeEecCCCcccccchhhhhccccccceeeEeeccccccccccchhhhccC
Confidence                                       578888888888765444433221                             


Q ss_pred             ---------CCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccc
Q 042011          177 ---------LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRN  247 (361)
Q Consensus       177 ---------l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~  247 (361)
                               .++|++|++++|.+++..+..+..+++|++|++++|.+. .++...+..+++|++|++++|.+++..+..+
T Consensus       265 ~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~-~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~  343 (455)
T 3v47_A          265 DNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEIN-KIDDNAFWGLTHLLKLNLSQNFLGSIDSRMF  343 (455)
T ss_dssp             CTTTTGGGTTSCCCEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCC-EECTTTTTTCTTCCEEECCSSCCCEECGGGG
T ss_pred             cccccccccccCceEEEecCccccccchhhcccCCCCCEEECCCCccc-ccChhHhcCcccCCEEECCCCccCCcChhHh
Confidence                     257899999999998888889999999999999999999 5544444489999999999999999888899


Q ss_pred             cCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcc-ccccccc
Q 042011          248 FNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSIS-HSHLLNL  323 (361)
Q Consensus       248 ~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~-~~~~~~~  323 (361)
                      ..+++|+.|++++|++++..|..|..+++|++|++++|++++..+..+..+++|++|++++|+++|.+| ..++..|
T Consensus       344 ~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~l~~~  420 (455)
T 3v47_A          344 ENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRIDYLSRW  420 (455)
T ss_dssp             TTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCCCTTTTHHHHHH
T ss_pred             cCcccCCEEECCCCcccccChhhccccccccEEECCCCccccCCHhHhccCCcccEEEccCCCcccCCCcchHHHHH
Confidence            999999999999999998889999999999999999999998777788999999999999999999998 3445444

>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=3e-41  Score=335.75  Aligned_cols=325  Identities=26%  Similarity=0.353  Sum_probs=276.6

Q ss_pred             CCCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCccccccccccccc----
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIA----   76 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~----   76 (361)
                      +++|++|++++|++++.+|. .|.++++|++|++++|++++.+|...+.++++|++|++++|.+++..+..+....    
T Consensus       293 ~~~L~~L~Ls~n~l~~~~p~-~~~~l~~L~~L~L~~n~l~~~ip~~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~~L~  371 (768)
T 3rgz_A          293 CDTLTGLDLSGNHFYGAVPP-FFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLL  371 (768)
T ss_dssp             CTTCSEEECCSSEEEECCCG-GGGGCTTCCEEECCSSEEEEECCHHHHTTCTTCCEEECCSSEEEECCCTTHHHHTTTCS
T ss_pred             cCcCCEEECcCCcCCCccch-HHhcCCCccEEECCCCcccCcCCHHHHhcCCCCCEEeCcCCccCccccHHHHhhhcCCc
Confidence            37889999999999877887 8999999999999999998788865688999999999999988765554322111    


Q ss_pred             ------------------C--cccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEe
Q 042011           77 ------------------P--NFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFL  136 (361)
Q Consensus        77 ------------------~--~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l  136 (361)
                                        .  ..+|++|++ ++|.+++..|..+..+++|++|++++|.+++.+|.. +..+++|++|++
T Consensus       372 ~L~Ls~N~l~~~~~~~~~~~~~~~L~~L~L-~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~-l~~l~~L~~L~L  449 (768)
T 3rgz_A          372 TLDLSSNNFSGPILPNLCQNPKNTLQELYL-QNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSS-LGSLSKLRDLKL  449 (768)
T ss_dssp             EEECCSSEEEEECCTTTTCSTTCCCCEEEC-CSSEEEEECCGGGGGCTTCCEEECCSSEEESCCCGG-GGGCTTCCEEEC
T ss_pred             EEEccCCCcCCCcChhhhhcccCCccEEEC-CCCccccccCHHHhcCCCCCEEECcCCcccCcccHH-HhcCCCCCEEEC
Confidence                              1  346778888 777777778888999999999999999998888877 788999999999


Q ss_pred             cCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCcc
Q 042011          137 VNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTG  216 (361)
Q Consensus       137 ~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~  216 (361)
                      ++|.+.+..|..+..+++|++|++++|++++.+|..+.. +++|++|++++|.+++.+|..++.+++|++|++++|.+.+
T Consensus       450 ~~n~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~-l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~  528 (768)
T 3rgz_A          450 WLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSN-CTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSG  528 (768)
T ss_dssp             CSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGG-CTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEE
T ss_pred             CCCcccCcCCHHHcCCCCceEEEecCCcccCcCCHHHhc-CCCCCEEEccCCccCCcCChHHhcCCCCCEEECCCCcccC
Confidence            999999888999999999999999999999788877766 8999999999999998999999999999999999999998


Q ss_pred             ccchhhhhCCCCCcEEEeecCCCCCccccc--------------------------------------------------
Q 042011          217 EIPEHLAVGCVNLESLALSNNSLEGHMFSR--------------------------------------------------  246 (361)
Q Consensus       217 ~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~--------------------------------------------------  246 (361)
                      .+|..+. .+++|++|++++|++.+..|..                                                  
T Consensus       529 ~~p~~l~-~l~~L~~L~Ls~N~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  607 (768)
T 3rgz_A          529 NIPAELG-DCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRL  607 (768)
T ss_dssp             ECCGGGG-GCTTCCEEECCSSEEESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGG
T ss_pred             cCCHHHc-CCCCCCEEECCCCccCCcCChHHhcccchhhhhccccccccccccccccccccccccccccccccchhhhcc
Confidence            8888876 7999999999999887554433                                                  


Q ss_pred             --------------------ccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeecc
Q 042011          247 --------------------NFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQ  306 (361)
Q Consensus       247 --------------------~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l  306 (361)
                                          +..+++|+.|++++|++++.+|..++.+++|+.|++++|++++.+|..+..+++|+.|++
T Consensus       608 ~~~~~~~l~~~~~~g~~~~~~~~l~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~Ls~N~l~g~ip~~l~~L~~L~~LdL  687 (768)
T 3rgz_A          608 STRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDL  687 (768)
T ss_dssp             GGTCCSCTTSCEEEEECCCSCSSSBCCCEEECCSSCCBSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEEC
T ss_pred             ccccccccccceecccCchhhhccccccEEECcCCcccccCCHHHhccccCCEEeCcCCccCCCCChHHhCCCCCCEEEC
Confidence                                334578999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccCCcccc--cccccccchhhh
Q 042011          307 NSRRFTSSISHS--HLLNLHGICKEY  330 (361)
Q Consensus       307 ~~N~~~~~~~~~--~~~~~~~~~~~~  330 (361)
                      ++|++++.+|..  .+..+..+...+
T Consensus       688 s~N~l~g~ip~~l~~l~~L~~L~ls~  713 (768)
T 3rgz_A          688 SSNKLDGRIPQAMSALTMLTEIDLSN  713 (768)
T ss_dssp             CSSCCEECCCGGGGGCCCCSEEECCS
T ss_pred             CCCcccCcCChHHhCCCCCCEEECcC
Confidence            999999999853  334444444333

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=100.00  E-value=9.3e-40  Score=308.47  Aligned_cols=312  Identities=19%  Similarity=0.119  Sum_probs=270.9

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      ++++.|+|++|+++ .++...|.++++|++|+|++|.+++..+ .+|.++++|++|++++|.++...+..   +..+.+|
T Consensus        32 ~~l~~L~L~~n~l~-~~~~~~~~~l~~L~~L~L~~n~i~~~~~-~~~~~l~~L~~L~L~~n~l~~~~~~~---~~~l~~L  106 (477)
T 2id5_A           32 TETRLLDLGKNRIK-TLNQDEFASFPHLEELELNENIVSAVEP-GAFNNLFNLRTLGLRSNRLKLIPLGV---FTGLSNL  106 (477)
T ss_dssp             TTCSEEECCSSCCC-EECTTTTTTCTTCCEEECTTSCCCEECT-TTTTTCTTCCEEECCSSCCCSCCTTS---STTCTTC
T ss_pred             CCCcEEECCCCccc-eECHhHccCCCCCCEEECCCCccCEeCh-hhhhCCccCCEEECCCCcCCccCccc---ccCCCCC
Confidence            46899999999998 5544489999999999999999984445 68999999999999999988655444   4567799


Q ss_pred             cEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEcc
Q 042011           82 NSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDIS  161 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  161 (361)
                      ++|++ ++|.+....+..|..+++|++|++++|.+++..+.. +.++++|++|++++|++.+..+..+..+++|+.|+++
T Consensus       107 ~~L~L-s~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~-~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~  184 (477)
T 2id5_A          107 TKLDI-SENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRA-FSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLR  184 (477)
T ss_dssp             CEEEC-TTSCCCEECTTTTTTCTTCCEEEECCTTCCEECTTS-STTCTTCCEEEEESCCCSSCCHHHHTTCTTCCEEEEE
T ss_pred             CEEEC-CCCccccCChhHccccccCCEEECCCCccceeChhh-ccCCCCCCEEECCCCcCcccChhHhcccCCCcEEeCC
Confidence            99999 999998888888999999999999999998444444 7889999999999999987767778899999999999


Q ss_pred             CCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCC
Q 042011          162 NNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEG  241 (361)
Q Consensus       162 ~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~  241 (361)
                      +|.+. .++...+..+++|+.|++++|...+.++.......+|++|++++|.++ .+|...+..+++|+.|++++|.+++
T Consensus       185 ~n~i~-~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~Ls~n~l~~  262 (477)
T 2id5_A          185 HLNIN-AIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLT-AVPYLAVRHLVYLRFLNLSYNPIST  262 (477)
T ss_dssp             SCCCC-EECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESSCCC-SCCHHHHTTCTTCCEEECCSSCCCE
T ss_pred             CCcCc-EeChhhcccCcccceeeCCCCccccccCcccccCccccEEECcCCccc-ccCHHHhcCccccCeeECCCCcCCc
Confidence            99998 555555556899999999998877677776667779999999999999 8887666789999999999999999


Q ss_pred             cccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCccccccc
Q 042011          242 HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLL  321 (361)
Q Consensus       242 ~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~  321 (361)
                      ..+..+..+++|+.|++++|++++..+..|..+++|+.|++++|++++..+..|..+++|++|++++|++.|+++..|+.
T Consensus       263 ~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~c~c~~~~~~  342 (477)
T 2id5_A          263 IEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILDSNPLACDCRLLWVF  342 (477)
T ss_dssp             ECTTSCTTCTTCCEEECCSSCCSEECTTTBTTCTTCCEEECCSSCCSCCCGGGBSCGGGCCEEECCSSCEECSGGGHHHH
T ss_pred             cChhhccccccCCEEECCCCccceECHHHhcCcccCCEEECCCCcCceeCHhHcCCCcccCEEEccCCCccCccchHhHH
Confidence            88888999999999999999999888999999999999999999999887788899999999999999999998876654


Q ss_pred             c
Q 042011          322 N  322 (361)
Q Consensus       322 ~  322 (361)
                      .
T Consensus       343 ~  343 (477)
T 2id5_A          343 R  343 (477)
T ss_dssp             T
T ss_pred             h
Confidence            4

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=100.00  E-value=2.3e-38  Score=307.53  Aligned_cols=313  Identities=20%  Similarity=0.178  Sum_probs=275.0

Q ss_pred             CCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccccc
Q 042011            3 SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLN   82 (361)
Q Consensus         3 ~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~   82 (361)
                      +|+.|++++|.++ .++...|..+++|++|++++|+++ .+| ..+.++++|++|++++|.+.+..+..   +..+.+|+
T Consensus       255 ~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~-~lp-~~l~~l~~L~~L~l~~n~l~~~~~~~---~~~l~~L~  328 (606)
T 3t6q_A          255 SVESINLQKHYFF-NISSNTFHCFSGLQELDLTATHLS-ELP-SGLVGLSTLKKLVLSANKFENLCQIS---ASNFPSLT  328 (606)
T ss_dssp             EEEEEECTTCCCS-SCCTTTTTTCTTCSEEECTTSCCS-CCC-SSCCSCTTCCEEECTTCCCSBGGGGC---GGGCTTCS
T ss_pred             ceeEEEeecCccC-ccCHHHhccccCCCEEeccCCccC-CCC-hhhcccccCCEEECccCCcCcCchhh---hhccCcCC
Confidence            5789999999998 666658999999999999999998 788 57899999999999999998766654   56677999


Q ss_pred             EEeccCCCCCCCCC-chhhcCCCCccEEEecCCcccCCc--ChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEE
Q 042011           83 SLSLSSDYGDGFIF-PKFLYHQHDLALVDLSHIKMNGEF--PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLD  159 (361)
Q Consensus        83 ~L~l~~~~~~~~~~-~~~l~~l~~L~~L~l~~n~l~~~~--~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~  159 (361)
                      +|++ ++|.+.+.. +..+..+++|++|++++|.+++..  +.. +..+++|++|++++|++.+..+..+..+++|++|+
T Consensus       329 ~L~l-~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~-~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~  406 (606)
T 3t6q_A          329 HLSI-KGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQ-LRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLD  406 (606)
T ss_dssp             EEEC-CSCSSCCBCCSSTTTTCTTCCEEECCSSCCCEEEESTTT-TTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEE
T ss_pred             EEEC-CCCCcccccchhhhhccCcCCEEECCCCccccccCcchh-cccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEE
Confidence            9999 888877544 445899999999999999998443  444 78999999999999999988889999999999999


Q ss_pred             ccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccc-cch-hhhhCCCCCcEEEeecC
Q 042011          160 ISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGE-IPE-HLAVGCVNLESLALSNN  237 (361)
Q Consensus       160 l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~-~~~-~~~~~~~~L~~L~L~~n  237 (361)
                      +++|++++..+...+..+++|++|++++|.+++..+..+..+++|++|++++|.+.+. ++. ..+..+++|++|++++|
T Consensus       407 l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n  486 (606)
T 3t6q_A          407 LAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFC  486 (606)
T ss_dssp             CTTCCEECCTTCCTTTTCTTCCEEECTTCCCBTTCTTTTTTCTTCCEEECTTCBCGGGEECSSCGGGGCTTCCEEECTTS
T ss_pred             CCCCcCCCcccchhhhCcccCCEEECCCCccCCcCHHHHhCCCCCCEEECCCCCCCccccccchhhccCCCccEEECCCC
Confidence            9999998665656555689999999999999988888999999999999999999852 221 23447999999999999


Q ss_pred             CCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCccc
Q 042011          238 SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISH  317 (361)
Q Consensus       238 ~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~  317 (361)
                      ++++..+..+..+++|+.|++++|++++..|+.+..+++| .|++++|++++.+|..+..+++|+.+++++|++.|.++.
T Consensus       487 ~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~l~~L-~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~c~c~~  565 (606)
T 3t6q_A          487 DLSSIDQHAFTSLKMMNHVDLSHNRLTSSSIEALSHLKGI-YLNLASNHISIILPSLLPILSQQRTINLRQNPLDCTCSN  565 (606)
T ss_dssp             CCCEECTTTTTTCTTCCEEECCSSCCCGGGGGGGTTCCSC-EEECCSSCCCCCCGGGHHHHHTSSEEECTTCCEECSGGG
T ss_pred             ccCccChhhhccccCCCEEECCCCccCcCChhHhCccccc-EEECcCCcccccCHhhcccCCCCCEEeCCCCCccccCCc
Confidence            9999888999999999999999999999999999999999 999999999998888889999999999999999999997


Q ss_pred             ccccccc
Q 042011          318 SHLLNLH  324 (361)
Q Consensus       318 ~~~~~~~  324 (361)
                      .++..|.
T Consensus       566 ~~~~~w~  572 (606)
T 3t6q_A          566 IYFLEWY  572 (606)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7776654

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=100.00  E-value=2.4e-37  Score=295.09  Aligned_cols=294  Identities=19%  Similarity=0.193  Sum_probs=189.5

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      ++|++|++++|+++ .++...|.++++|++|+|++|++++..| ..|.++++|++|++++|.++.. +..     .+.+|
T Consensus        21 ~~L~~L~Ls~n~i~-~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~~~l~~L~~L~Ls~N~l~~l-p~~-----~l~~L   92 (520)
T 2z7x_B           21 QKTTILNISQNYIS-ELWTSDILSLSKLRILIISHNRIQYLDI-SVFKFNQELEYLDLSHNKLVKI-SCH-----PTVNL   92 (520)
T ss_dssp             TTCSEEECCSSCCC-CCCHHHHTTCTTCCEEECCSSCCCEEEG-GGGTTCTTCCEEECCSSCCCEE-ECC-----CCCCC
T ss_pred             ccccEEECCCCccc-ccChhhccccccccEEecCCCccCCcCh-HHhhcccCCCEEecCCCceeec-Ccc-----ccCCc
Confidence            57899999999998 6665589999999999999999984445 6899999999999999999853 222     56799


Q ss_pred             cEEeccCCCCCCC-CCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCC--cEEEecCCcc--cCCCCCCcCCCC---
Q 042011           82 NSLSLSSDYGDGF-IFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKL--ETLFLVNDSL--TGPFRLPIHSHR---  153 (361)
Q Consensus        82 ~~L~l~~~~~~~~-~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L--~~L~l~~n~l--~~~~~~~~~~l~---  153 (361)
                      ++|++ ++|.+++ ..|..++.+++|++|++++|.+++.   . +..+++|  ++|++++|.+  .+..|..+..+.   
T Consensus        93 ~~L~L-~~N~l~~~~~p~~~~~l~~L~~L~L~~n~l~~~---~-~~~l~~L~L~~L~l~~n~l~~~~~~~~~l~~l~~~~  167 (520)
T 2z7x_B           93 KHLDL-SFNAFDALPICKEFGNMSQLKFLGLSTTHLEKS---S-VLPIAHLNISKVLLVLGETYGEKEDPEGLQDFNTES  167 (520)
T ss_dssp             SEEEC-CSSCCSSCCCCGGGGGCTTCCEEEEEESSCCGG---G-GGGGTTSCEEEEEEEECTTTTSSCCTTTTTTCCEEE
T ss_pred             cEEec-cCCccccccchhhhccCCcceEEEecCcccchh---h-ccccccceeeEEEeecccccccccccccccccccce
Confidence            99999 8888886 4678899999999999999887631   1 3444444  5555555554  222222222211   


Q ss_pred             --------------------------------------------------------------------------------
Q 042011          154 --------------------------------------------------------------------------------  153 (361)
Q Consensus       154 --------------------------------------------------------------------------------  153 (361)
                                                                                                      
T Consensus       168 l~l~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~~~~~~~~  247 (520)
T 2z7x_B          168 LHIVFPTNKEFHFILDVSVKTVANLELSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHT  247 (520)
T ss_dssp             EEEECCSSSCCCCCCCCCCTTCSEEEECCEEECCSTTTTHHHHHHHHGGGGCTTCCEEEEEEEEEEHHHHHHHHHHHHTS
T ss_pred             EEEEeccCcchhhhhhhhhhcccceeeccccccccccccceeecchhhhccccchhhccccccccCHHHHHHHHHHhhhC
Confidence                                                                                            


Q ss_pred             CcCEEEccCCcCCccCChhh----------------------------------------------------hccCCCcc
Q 042011          154 WLEFLDISNNNFRCHIPVEI----------------------------------------------------GDILPSLK  181 (361)
Q Consensus       154 ~L~~L~l~~n~l~~~~~~~~----------------------------------------------------~~~l~~L~  181 (361)
                      +|++|++++|++++.+|..+                                                    ...+++|+
T Consensus       248 ~L~~L~l~~n~l~~~~p~~~~~~~~~~l~~L~~l~l~~n~~~~p~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~l~~L~  327 (520)
T 2z7x_B          248 TVWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMVHMLCPSKISPFL  327 (520)
T ss_dssp             SCSEEEEEEEEEESCCCCCCCCCCSCCCCEEEEEEEEECCCCSCTHHHHHHHHTCCCSEEEEESSCCCCCCCCSSCCCCC
T ss_pred             cccEEEeecccccCccccchhhcccccCceeEeccccccceecchhhhhcccccCceeEEEcCCCccccccchhhCCccc
Confidence            34444444444433333222                                                    03356777


Q ss_pred             EEEecCCccccccCccccCCCCCCEEeccCCcCcc--ccchhhhhCCCCCcEEEeecCCCCC-cccccccCCCCCCEEec
Q 042011          182 FFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTG--EIPEHLAVGCVNLESLALSNNSLEG-HMFSRNFNLTNLEWLQL  258 (361)
Q Consensus       182 ~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~--~~~~~~~~~~~~L~~L~L~~n~l~~-~~~~~~~~~~~L~~L~L  258 (361)
                      +|++++|.+++..|..+..+++|++|++++|.+++  .+|..+ ..+++|++|++++|.+.+ .....+..+++|+.|++
T Consensus       328 ~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~-~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~L~~L~L  406 (520)
T 2z7x_B          328 HLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMT-TQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNM  406 (520)
T ss_dssp             EEECCSSCCCTTTTTTCCCCSSCCEEECCSSCCCBHHHHHHHH-TTCTTCCEEECCSSCCBCCGGGCSCCCCTTCCEEEC
T ss_pred             EEEeECCccChhhhhhhccCCCCCEEEccCCccCccccchHHH-hhCCCCCEEECCCCcCCcccccchhccCccCCEEEC
Confidence            77777777776667777777777777777777763  223333 367777777777777766 33333555666666666


Q ss_pred             cCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeecccccccc
Q 042011          259 GGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFT  312 (361)
Q Consensus       259 ~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~  312 (361)
                      ++|++++..|..+.  ++|+.|++++|+++ .+|..+..+++|++|++++|+++
T Consensus       407 s~N~l~~~~~~~l~--~~L~~L~Ls~N~l~-~ip~~~~~l~~L~~L~L~~N~l~  457 (520)
T 2z7x_B          407 SSNILTDTIFRCLP--PRIKVLDLHSNKIK-SIPKQVVKLEALQELNVASNQLK  457 (520)
T ss_dssp             CSSCCCGGGGGSCC--TTCCEEECCSSCCC-CCCGGGGGCTTCCEEECCSSCCC
T ss_pred             cCCCCCcchhhhhc--ccCCEEECCCCccc-ccchhhhcCCCCCEEECCCCcCC
Confidence            66666544443332  45555555555555 34443445555555555555555

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=100.00  E-value=1.2e-37  Score=293.93  Aligned_cols=330  Identities=17%  Similarity=0.151  Sum_probs=282.9

Q ss_pred             CeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEE
Q 042011            5 RILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSL   84 (361)
Q Consensus         5 ~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L   84 (361)
                      +.++.++++++ .+|. .+  .+++++|+|++|+++ .++...|.++++|++|++++|.+++..+..   +..+.+|++|
T Consensus        14 ~~v~c~~~~l~-~ip~-~~--~~~l~~L~L~~n~l~-~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~---~~~l~~L~~L   85 (477)
T 2id5_A           14 RAVLCHRKRFV-AVPE-GI--PTETRLLDLGKNRIK-TLNQDEFASFPHLEELELNENIVSAVEPGA---FNNLFNLRTL   85 (477)
T ss_dssp             TEEECCSCCCS-SCCS-CC--CTTCSEEECCSSCCC-EECTTTTTTCTTCCEEECTTSCCCEECTTT---TTTCTTCCEE
T ss_pred             CEEEeCCCCcC-cCCC-CC--CCCCcEEECCCCccc-eECHhHccCCCCCCEEECCCCccCEeChhh---hhCCccCCEE
Confidence            57888899998 8887 33  368999999999998 454478999999999999999998776655   5677899999


Q ss_pred             eccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCc
Q 042011           85 SLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNN  164 (361)
Q Consensus        85 ~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~  164 (361)
                      ++ ++|.+....+..|..+++|++|++++|.+.+..+.. +.++++|++|++++|.+.+..+..|..+++|++|++++|+
T Consensus        86 ~L-~~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~-~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~  163 (477)
T 2id5_A           86 GL-RSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYM-FQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCN  163 (477)
T ss_dssp             EC-CSSCCCSCCTTSSTTCTTCCEEECTTSCCCEECTTT-TTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCC
T ss_pred             EC-CCCcCCccCcccccCCCCCCEEECCCCccccCChhH-ccccccCCEEECCCCccceeChhhccCCCCCCEEECCCCc
Confidence            99 999999877778999999999999999998544544 8899999999999999998888899999999999999999


Q ss_pred             CCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCccc
Q 042011          165 FRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMF  244 (361)
Q Consensus       165 l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~  244 (361)
                      ++ .++...+..+++|+.|++++|.+.+..+..|..+++|++|++++|...+.++...+ ...+|++|++++|++++..+
T Consensus       164 l~-~~~~~~l~~l~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~-~~~~L~~L~l~~n~l~~~~~  241 (477)
T 2id5_A          164 LT-SIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCL-YGLNLTSLSITHCNLTAVPY  241 (477)
T ss_dssp             CS-SCCHHHHTTCTTCCEEEEESCCCCEECTTCSCSCTTCCEEEEECCTTCCEECTTTT-TTCCCSEEEEESSCCCSCCH
T ss_pred             Cc-ccChhHhcccCCCcEEeCCCCcCcEeChhhcccCcccceeeCCCCccccccCcccc-cCccccEEECcCCcccccCH
Confidence            98 77776666699999999999999987788899999999999999988778888777 56699999999999998777


Q ss_pred             ccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcccccccccc
Q 042011          245 SRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLH  324 (361)
Q Consensus       245 ~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~~  324 (361)
                      ..+..+++|+.|++++|++++..+..|..+++|+.|++++|++++..|..|..+++|++|++++|.+++..+ ..|..+.
T Consensus       242 ~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~-~~~~~l~  320 (477)
T 2id5_A          242 LAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEE-SVFHSVG  320 (477)
T ss_dssp             HHHTTCTTCCEEECCSSCCCEECTTSCTTCTTCCEEECCSSCCSEECTTTBTTCTTCCEEECCSSCCSCCCG-GGBSCGG
T ss_pred             HHhcCccccCeeECCCCcCCccChhhccccccCCEEECCCCccceECHHHhcCcccCCEEECCCCcCceeCH-hHcCCCc
Confidence            789999999999999999998888889999999999999999999989999999999999999999997544 3444332


Q ss_pred             cchhhhHHHhhccchHHHHHHHHHhhc
Q 042011          325 GICKEYAKEFARNMPRICEEYAAYLNS  351 (361)
Q Consensus       325 ~~~~~~~~~~~~~~~~~c~~~~~~~~~  351 (361)
                      .+.    .-...++|+.|+|...|+..
T Consensus       321 ~L~----~L~l~~N~l~c~c~~~~~~~  343 (477)
T 2id5_A          321 NLE----TLILDSNPLACDCRLLWVFR  343 (477)
T ss_dssp             GCC----EEECCSSCEECSGGGHHHHT
T ss_pred             ccC----EEEccCCCccCccchHhHHh
Confidence            221    12235667778777666643

>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=2.6e-38  Score=308.06  Aligned_cols=320  Identities=17%  Similarity=0.202  Sum_probs=225.5

Q ss_pred             CCCCCeEeCCCccccCc-----------------CChhhhh--ccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccC
Q 042011            1 MTSLRILDVSSNQLTGS-----------------ISSSPLV--HLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN   61 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~-----------------i~~~~~~--~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~   61 (361)
                      +++|++|+|++|.+++.                 +|. .+.  ++++|++|++++|++.+.+| ..+.++++|++|++++
T Consensus       205 l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~-~l~~~~l~~L~~L~L~~n~l~~~~p-~~l~~l~~L~~L~Ls~  282 (636)
T 4eco_A          205 LTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTE-DLKWDNLKDLTDVEVYNCPNLTKLP-TFLKALPEMQLINVAC  282 (636)
T ss_dssp             CTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTS-CCCGGGCTTCCEEEEECCTTCSSCC-TTTTTCSSCCEEECTT
T ss_pred             ccCCCEEECcCCccccccccccccccccchhcccCch-hhhhcccCCCCEEEecCCcCCccCh-HHHhcCCCCCEEECcC
Confidence            57899999999999964                 888 777  99999999999999988888 6899999999999999


Q ss_pred             CC-ccc-ccccccccc---cCcccccEEeccCCCCCCCCCch--hhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEE
Q 042011           62 NE-LNA-EITQSHSLI---APNFQLNSLSLSSDYGDGFIFPK--FLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETL  134 (361)
Q Consensus        62 n~-~~~-~~~~~~~~~---~~~~~L~~L~l~~~~~~~~~~~~--~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L  134 (361)
                      |. +++ ..|..+..+   ..+.+|++|++ ++|.++ .+|.  .+..+++|++|++++|.+++.+| . +..+++|++|
T Consensus       283 n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L-~~n~l~-~ip~~~~l~~l~~L~~L~L~~N~l~g~ip-~-~~~l~~L~~L  358 (636)
T 4eco_A          283 NRGISGEQLKDDWQALADAPVGEKIQIIYI-GYNNLK-TFPVETSLQKMKKLGMLECLYNQLEGKLP-A-FGSEIKLASL  358 (636)
T ss_dssp             CTTSCHHHHHHHHHHHHHSGGGGTCCEEEC-CSSCCS-SCCCHHHHTTCTTCCEEECCSCCCEEECC-C-CEEEEEESEE
T ss_pred             CCCCccccchHHHHhhhccccCCCCCEEEC-CCCcCC-ccCchhhhccCCCCCEEeCcCCcCccchh-h-hCCCCCCCEE
Confidence            98 876 555543221   22368999999 888888 6676  78888899999999998887777 3 6777788888


Q ss_pred             EecCCcccCCCCCCcCCCCC-cCEEEccCCcCCccCChhhhcc-CCCccEEEecCCccccccCcccc-------CCCCCC
Q 042011          135 FLVNDSLTGPFRLPIHSHRW-LEFLDISNNNFRCHIPVEIGDI-LPSLKFFNISMNALDGSIPSSFG-------NMNFLR  205 (361)
Q Consensus       135 ~l~~n~l~~~~~~~~~~l~~-L~~L~l~~n~l~~~~~~~~~~~-l~~L~~L~L~~n~l~~~~~~~l~-------~~~~L~  205 (361)
                      ++++|++. .+|..+..+++ |++|++++|+++ .+|..+... +++|++|++++|.+++..|..+.       .+++|+
T Consensus       359 ~L~~N~l~-~lp~~l~~l~~~L~~L~Ls~N~l~-~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~  436 (636)
T 4eco_A          359 NLAYNQIT-EIPANFCGFTEQVENLSFAHNKLK-YIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVS  436 (636)
T ss_dssp             ECCSSEEE-ECCTTSEEECTTCCEEECCSSCCS-SCCSCCCTTCSSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEE
T ss_pred             ECCCCccc-cccHhhhhhcccCcEEEccCCcCc-ccchhhhhcccCccCEEECcCCcCCCcchhhhcccccccccCCCCC
Confidence            88888777 56666777777 777777777776 666554331 23566666666666655555554       444555


Q ss_pred             EEeccCCcCccccchhhhhCCC-------------------------------CCcEEEeecCCCCCccccccc--CCCC
Q 042011          206 VLDLSNNQLTGEIPEHLAVGCV-------------------------------NLESLALSNNSLEGHMFSRNF--NLTN  252 (361)
Q Consensus       206 ~L~l~~n~l~~~~~~~~~~~~~-------------------------------~L~~L~L~~n~l~~~~~~~~~--~~~~  252 (361)
                      +|++++|.++ .+|..++..++                               +|++|++++|+++. +|..+.  .+++
T Consensus       437 ~L~Ls~N~l~-~lp~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~-lp~~~~~~~l~~  514 (636)
T 4eco_A          437 SINLSNNQIS-KFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNKLTK-LSDDFRATTLPY  514 (636)
T ss_dssp             EEECCSSCCC-SCCTHHHHTTCCCSEEECCSSCCSBCCSSSSEETTEECTTGGGCCEEECCSSCCCB-CCGGGSTTTCTT
T ss_pred             EEECcCCccC-cCCHHHHccCCCCCEEECCCCCCCCcCHHHhccccccccccCCccEEECcCCcCCc-cChhhhhccCCC
Confidence            5555555555 44444443344                               45555555555553 344444  6677


Q ss_pred             CCEEeccCCcCCccchhhhhcCCCCCEEEC------cCCcccccCCCCCCCcCcceeeccccccccCCcccccccccccc
Q 042011          253 LEWLQLGGNRFVGEIPQSLSKCSSLEGLYL------NNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGI  326 (361)
Q Consensus       253 L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l------~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~~~~  326 (361)
                      |+.|++++|++++ +|..+..+++|+.|++      ++|++.+.+|..+..+++|++|++++|++ +.+|...+..++.+
T Consensus       515 L~~L~Ls~N~l~~-ip~~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l-~~ip~~~~~~L~~L  592 (636)
T 4eco_A          515 LVGIDLSYNSFSK-FPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSNDI-RKVNEKITPNISVL  592 (636)
T ss_dssp             CCEEECCSSCCSS-CCCGGGGCSSCCEEECCSCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSCC-CBCCSCCCTTCCEE
T ss_pred             cCEEECCCCCCCC-cChhhhcCCCCCEEECCCCcccccCcccccChHHHhcCCCCCEEECCCCcC-CccCHhHhCcCCEE
Confidence            7777777777775 6666777777777777      44666667777777777788888888877 45665555555555


Q ss_pred             hhhhHH
Q 042011          327 CKEYAK  332 (361)
Q Consensus       327 ~~~~~~  332 (361)
                      ....++
T Consensus       593 ~Ls~N~  598 (636)
T 4eco_A          593 DIKDNP  598 (636)
T ss_dssp             ECCSCT
T ss_pred             ECcCCC
Confidence            554443

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=100.00  E-value=8.9e-37  Score=296.42  Aligned_cols=305  Identities=19%  Similarity=0.165  Sum_probs=162.5

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      ++|++|++++|++++..|. .|.++++|++|+|++|++++..+ ..|.++++|++|++++|.+++..+..   +..+.+|
T Consensus        57 ~~L~~L~Ls~n~i~~~~~~-~~~~l~~L~~L~Ls~n~l~~~~~-~~~~~l~~L~~L~L~~n~i~~l~~~~---~~~l~~L  131 (606)
T 3t6q_A           57 INLTFLDLTRCQIYWIHED-TFQSQHRLDTLVLTANPLIFMAE-TALSGPKALKHLFFIQTGISSIDFIP---LHNQKTL  131 (606)
T ss_dssp             TTCSEEECTTCCCCEECTT-TTTTCTTCCEEECTTCCCSEECT-TTTSSCTTCCEEECTTSCCSCGGGSC---CTTCTTC
T ss_pred             ccceEEECCCCccceeChh-hccCccccCeeeCCCCcccccCh-hhhcccccccEeeccccCcccCCcch---hccCCcc
Confidence            4555555555555532233 55555555666665555553223 44555555555555555555433222   3444456


Q ss_pred             cEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCc--EEEecCCcccCC---------------
Q 042011           82 NSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLE--TLFLVNDSLTGP---------------  144 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~--~L~l~~n~l~~~---------------  144 (361)
                      ++|++ ++|.+.+.....+..+++|++|++++|.++ .++...+..+++|+  +|++++|.+.+.               
T Consensus       132 ~~L~L-~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~~~l~~L~~l~L~l~~n~l~~~~~~~~~~~~L~~L~l  209 (606)
T 3t6q_A          132 ESLYL-GSNHISSIKLPKGFPTEKLKVLDFQNNAIH-YLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNF  209 (606)
T ss_dssp             CEEEC-CSSCCCCCCCCTTCCCTTCCEEECCSSCCC-EECHHHHHTTTTCCSEEEECTTCCCCEECTTTTTTCEEEEEEC
T ss_pred             cEEEC-CCCcccccCcccccCCcccCEEEcccCccc-ccChhhhhhhcccceeEEecCCCccCccChhHhhhcccccccc
Confidence            66666 555555433233334566666666666655 23222255555555  455555544332               


Q ss_pred             ------------------------------------------------------------CCCCcCCCCCcCEEEccCCc
Q 042011          145 ------------------------------------------------------------FRLPIHSHRWLEFLDISNNN  164 (361)
Q Consensus       145 ------------------------------------------------------------~~~~~~~l~~L~~L~l~~n~  164 (361)
                                                                                  .+..|..+++|++|++++|.
T Consensus       210 ~~~~~~~~~~~~l~~~~l~~l~~~~~~~~~~~~i~~~~~~~l~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~  289 (606)
T 3t6q_A          210 GGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATH  289 (606)
T ss_dssp             TTCSCHHHHHHHTTTCEEEEEECCCCTTSCCCCCCGGGGGGGGGSEEEEEECTTCCCSSCCTTTTTTCTTCSEEECTTSC
T ss_pred             CCchhHHHHhhhccccchhheechhhccccccccChhHhchhhcCceeEEEeecCccCccCHHHhccccCCCEEeccCCc
Confidence                                                                        22234455566666666666


Q ss_pred             CCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcc-
Q 042011          165 FRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHM-  243 (361)
Q Consensus       165 l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~-  243 (361)
                      ++ .+|..+.. +++|++|++++|.+++..+..+..+++|++|++++|.+.+.++...+..+++|++|++++|.+++.. 
T Consensus       290 l~-~lp~~l~~-l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~  367 (606)
T 3t6q_A          290 LS-ELPSGLVG-LSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDC  367 (606)
T ss_dssp             CS-CCCSSCCS-CTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCCSSTTTTCTTCCEEECCSSCCCEEEE
T ss_pred             cC-CCChhhcc-cccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccccchhhhhccCcCCEEECCCCccccccC
Confidence            65 55555443 5666666666666654445555555566666666655554454443335556666666666555433 


Q ss_pred             -cccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCC-CCCCcCcceeeccccccccCCc
Q 042011          244 -FSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNV-PSSPANTLFNLSQNSRRFTSSI  315 (361)
Q Consensus       244 -~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~-~~~~~~~L~~l~l~~N~~~~~~  315 (361)
                       +..+..+++|+.|++++|++.+..+..+..+++|++|++++|++++..+. .+..+++|++|++++|.+++..
T Consensus       368 ~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~  441 (606)
T 3t6q_A          368 CNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISS  441 (606)
T ss_dssp             STTTTTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTTCCTTTTCTTCCEEECTTCCCBTTC
T ss_pred             cchhcccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcccchhhhCcccCCEEECCCCccCCcC
Confidence             44455555666666666655555555555555555555555555544332 2455555555555555554433

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=100.00  E-value=6.1e-37  Score=297.58  Aligned_cols=176  Identities=16%  Similarity=0.141  Sum_probs=119.4

Q ss_pred             CCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccc-cchhhhhC
Q 042011          147 LPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGE-IPEHLAVG  225 (361)
Q Consensus       147 ~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~-~~~~~~~~  225 (361)
                      ..+..+++|++|++++|++.+..+...+..+++|++|++++|.+++..|..+..+++|++|++++|.+.+. +|..+ ..
T Consensus       393 ~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~-~~  471 (606)
T 3vq2_A          393 ANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVF-AN  471 (606)
T ss_dssp             CCCTTCTTCCEEECTTSEEESTTTTTTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCC-TT
T ss_pred             hhccCCCCCCeeECCCCccCCccChhhhhccccCCEEECcCCCCCccchhhhcCCCCCCEEECCCCcCCCcchHHhh-cc
Confidence            34445555666666666655333323333466777777777777666666677777777777777777643 34433 36


Q ss_pred             CCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcC-cceee
Q 042011          226 CVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPAN-TLFNL  304 (361)
Q Consensus       226 ~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~-~L~~l  304 (361)
                      +++|++|++++|++++..+..+..+++|+.|++++|++++..|..+..+++|+.|++++|+++ .+|..+..++ +|++|
T Consensus       472 l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~l~~N~l~-~~p~~~~~l~~~L~~l  550 (606)
T 3vq2_A          472 TTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFNRIE-TSKGILQHFPKSLAFF  550 (606)
T ss_dssp             CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCEEGGGTTTCTTCCEEECTTSCCC-CEESCGGGSCTTCCEE
T ss_pred             CCCCCEEECCCCcCCccChhhhcccccCCEEECCCCcCCCcCHHHccCCCcCCEEECCCCcCc-ccCHhHhhhcccCcEE
Confidence            777777788777777777777777778888888888877777777777778888888888877 3555566665 47888


Q ss_pred             ccccccccCCcccccccccc
Q 042011          305 SQNSRRFTSSISHSHLLNLH  324 (361)
Q Consensus       305 ~l~~N~~~~~~~~~~~~~~~  324 (361)
                      ++++|++.|.++..++..|.
T Consensus       551 ~l~~N~~~c~c~~~~~~~~l  570 (606)
T 3vq2_A          551 NLTNNSVACICEHQKFLQWV  570 (606)
T ss_dssp             ECCSCCCCCSSTTHHHHTTT
T ss_pred             EccCCCcccCCccHHHHHHH
Confidence            88888888777766665553

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=100.00  E-value=1.4e-37  Score=302.07  Aligned_cols=188  Identities=20%  Similarity=0.141  Sum_probs=104.5

Q ss_pred             CCCcCEEEccCCcCCcc--CChhhhccCCCccEEEecCCccc-----------------------cccC-ccccCCCCCC
Q 042011          152 HRWLEFLDISNNNFRCH--IPVEIGDILPSLKFFNISMNALD-----------------------GSIP-SSFGNMNFLR  205 (361)
Q Consensus       152 l~~L~~L~l~~n~l~~~--~~~~~~~~l~~L~~L~L~~n~l~-----------------------~~~~-~~l~~~~~L~  205 (361)
                      +++|++|++++|.+++.  ++..+.. +++|++|++++|.++                       +..+ ..+..+++|+
T Consensus       349 l~~L~~L~ls~n~l~~~~~~~~~~~~-~~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~  427 (606)
T 3vq2_A          349 LPSLSYLDLSRNALSFSGCCSYSDLG-TNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLL  427 (606)
T ss_dssp             CTTCCEEECCSSCEEEEEECCHHHHC-CSCCCEEECCSCSEEEECCCCTTCTTCCEEECTTSEEESTTTTTTTTTCTTCC
T ss_pred             CCCCCEEECcCCccCCCcchhhhhcc-CCcccEeECCCCccccchhhccCCCCCCeeECCCCccCCccChhhhhccccCC
Confidence            34555555555555422  1333332 555556666555554                       3333 3444455555


Q ss_pred             EEeccCCcCccccchhhhhCCCCCcEEEeecCCCCC-cccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcC
Q 042011          206 VLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEG-HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNN  284 (361)
Q Consensus       206 ~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~-~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~  284 (361)
                      +|++++|.+.+..|..+. .+++|++|++++|++.+ ..+..+..+++|+.|++++|++++..|..+..+++|++|++++
T Consensus       428 ~L~l~~n~l~~~~~~~~~-~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~  506 (606)
T 3vq2_A          428 YLDISYTNTKIDFDGIFL-GLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSH  506 (606)
T ss_dssp             EEECTTSCCEECCTTTTT-TCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             EEECcCCCCCccchhhhc-CCCCCCEEECCCCcCCCcchHHhhccCCCCCEEECCCCcCCccChhhhcccccCCEEECCC
Confidence            555555555533333332 55666666666666655 3455666667777777777777766666677777777777777


Q ss_pred             CcccccCCCCCCCcCcceeeccccccccCCcccccccccccchhhhHHHhhccchHHHHHHH
Q 042011          285 NSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGICKEYAKEFARNMPRICEEYA  346 (361)
Q Consensus       285 N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~  346 (361)
                      |++++..|..+..+++|++|++++|++++ +|.. +..+..   ....-...++|+.|+|..
T Consensus       507 N~l~~~~~~~~~~l~~L~~L~l~~N~l~~-~p~~-~~~l~~---~L~~l~l~~N~~~c~c~~  563 (606)
T 3vq2_A          507 NNLLFLDSSHYNQLYSLSTLDCSFNRIET-SKGI-LQHFPK---SLAFFNLTNNSVACICEH  563 (606)
T ss_dssp             SCCSCEEGGGTTTCTTCCEEECTTSCCCC-EESC-GGGSCT---TCCEEECCSCCCCCSSTT
T ss_pred             CcCCCcCHHHccCCCcCCEEECCCCcCcc-cCHh-Hhhhcc---cCcEEEccCCCcccCCcc
Confidence            77776666677777777777777777763 3332 222210   011123355677676643

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=100.00  E-value=1.5e-36  Score=292.16  Aligned_cols=295  Identities=21%  Similarity=0.218  Sum_probs=200.2

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      ++|++|++++|.++ .++...|.++++|++|+|++|++++ ++..+|.++++|++|++++|.++... ..     .+.+|
T Consensus        52 ~~L~~L~Ls~N~i~-~~~~~~~~~l~~L~~L~Ls~N~l~~-~~~~~~~~l~~L~~L~Ls~N~l~~lp-~~-----~l~~L  123 (562)
T 3a79_B           52 PRTKALSLSQNSIS-ELRMPDISFLSELRVLRLSHNRIRS-LDFHVFLFNQDLEYLDVSHNRLQNIS-CC-----PMASL  123 (562)
T ss_dssp             TTCCEEECCSSCCC-CCCGGGTTTCTTCCEEECCSCCCCE-ECTTTTTTCTTCCEEECTTSCCCEEC-SC-----CCTTC
T ss_pred             CCcCEEECCCCCcc-ccChhhhccCCCccEEECCCCCCCc-CCHHHhCCCCCCCEEECCCCcCCccC-cc-----ccccC
Confidence            57899999999998 6665589999999999999999984 44368999999999999999998532 22     56799


Q ss_pred             cEEeccCCCCCCCC-CchhhcCCCCccEEEecCCcccCCcChHHHhcCCCC--cEEEecCCcc--cCCCCCCcCCCC---
Q 042011           82 NSLSLSSDYGDGFI-FPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKL--ETLFLVNDSL--TGPFRLPIHSHR---  153 (361)
Q Consensus        82 ~~L~l~~~~~~~~~-~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L--~~L~l~~n~l--~~~~~~~~~~l~---  153 (361)
                      ++|++ ++|.+... .|..|..+++|++|++++|.+++. .   +..+++|  ++|++++|.+  .+..+..+..+.   
T Consensus       124 ~~L~L-s~N~l~~l~~p~~~~~l~~L~~L~L~~n~l~~~-~---~~~l~~L~L~~L~L~~n~l~~~~~~~~~l~~l~~~~  198 (562)
T 3a79_B          124 RHLDL-SFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQL-D---LLPVAHLHLSCILLDLVSYHIKGGETESLQIPNTTV  198 (562)
T ss_dssp             SEEEC-CSSCCSBCCCCGGGGGCTTCCEEEEECSBCCTT-T---TGGGTTSCEEEEEEEESSCCCCSSSCCEEEECCEEE
T ss_pred             CEEEC-CCCCccccCchHhhcccCcccEEecCCCccccC-c---hhhhhhceeeEEEeecccccccccCcccccccCcce
Confidence            99999 88888864 467899999999999999988742 1   3444455  7777777766  433333332211   


Q ss_pred             ------------------------------------------------------------------------------Cc
Q 042011          154 ------------------------------------------------------------------------------WL  155 (361)
Q Consensus       154 ------------------------------------------------------------------------------~L  155 (361)
                                                                                                    +|
T Consensus       199 l~l~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~l~~~~~~l~~l~~L~~L~L~~~~l~~~~~~~~~~~~~~~~L  278 (562)
T 3a79_B          199 LHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQRLMTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRPV  278 (562)
T ss_dssp             EEEEECSSSCCCCCCEEEESSEEEEEEEEEECCSTTHHHHHHHHHHHHSCSSCEEEEEEEEEECHHHHHHHHHHHTTSSE
T ss_pred             EEEEecCccchhhhhhhcccccceEEEecccccccccchHHHHHHHHhccCcceEEEecCCcCcHHHHHHHHHhhhcccc
Confidence                                                                                          45


Q ss_pred             CEEEccCCcCCccCChhhh----------------------------------------------------ccCCCccEE
Q 042011          156 EFLDISNNNFRCHIPVEIG----------------------------------------------------DILPSLKFF  183 (361)
Q Consensus       156 ~~L~l~~n~l~~~~~~~~~----------------------------------------------------~~l~~L~~L  183 (361)
                      ++|++++|.+++.+|..++                                                    ..+++|++|
T Consensus       279 ~~L~l~~n~l~~~ip~~~~~~~~~~L~~L~~~~~~~~~~~~p~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~l~~L~~L  358 (562)
T 3a79_B          279 EYLNIYNLTITERIDREEFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPFIHMVCPPSPSSFTFL  358 (562)
T ss_dssp             EEEEEEEEEECSCCCCCCCCCCSCSCCEEEEEEEEECCCSSCHHHHHHHHHTCCCSEEEEESSCCCCCCCCSSCCCCCEE
T ss_pred             cEEEEeccEeeccccchhhhcccccchheehhhcccceeecChhhhhhhhccCcceEEEccCCCcccccCccCCCCceEE
Confidence            5555555555544444331                                                    335677777


Q ss_pred             EecCCccccccCccccCCCCCCEEeccCCcCccccch--hhhhCCCCCcEEEeecCCCCC-cccccccCCCCCCEEeccC
Q 042011          184 NISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPE--HLAVGCVNLESLALSNNSLEG-HMFSRNFNLTNLEWLQLGG  260 (361)
Q Consensus       184 ~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~--~~~~~~~~L~~L~L~~n~l~~-~~~~~~~~~~~L~~L~L~~  260 (361)
                      ++++|.+++..|..+..+++|++|++++|.++ .++.  ..+..+++|++|++++|++++ .....+..+++|+.|++++
T Consensus       359 ~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~-~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~l~~L~~L~l~~  437 (562)
T 3a79_B          359 NFTQNVFTDSVFQGCSTLKRLQTLILQRNGLK-NFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSS  437 (562)
T ss_dssp             ECCSSCCCTTTTTTCCSCSSCCEEECCSSCCC-BTTHHHHTTTTCTTCCEEECTTSCCBSCCSSCCCCCCTTCCEEECCS
T ss_pred             ECCCCccccchhhhhcccCCCCEEECCCCCcC-CcccchhhhcCCCCCCEEECCCCcCCCccChhhhcCcccCCEEECCC
Confidence            77777777666777777777777777777776 4332  222366777777777777766 3334456666666666666


Q ss_pred             CcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccC
Q 042011          261 NRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTS  313 (361)
Q Consensus       261 n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~  313 (361)
                      |++++..|..+.  ++|+.|++++|+++ .+|..+..+++|++|++++|++++
T Consensus       438 n~l~~~~~~~l~--~~L~~L~L~~N~l~-~ip~~~~~l~~L~~L~L~~N~l~~  487 (562)
T 3a79_B          438 NMLTGSVFRCLP--PKVKVLDLHNNRIM-SIPKDVTHLQALQELNVASNQLKS  487 (562)
T ss_dssp             SCCCGGGGSSCC--TTCSEEECCSSCCC-CCCTTTTSSCCCSEEECCSSCCCC
T ss_pred             CCCCcchhhhhc--CcCCEEECCCCcCc-ccChhhcCCCCCCEEECCCCCCCC
Confidence            666654443332  46666666666666 344444466666666666666663

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=100.00  E-value=1.7e-36  Score=295.65  Aligned_cols=315  Identities=20%  Similarity=0.199  Sum_probs=232.0

Q ss_pred             CCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccccc
Q 042011            3 SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLN   82 (361)
Q Consensus         3 ~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~   82 (361)
                      .+++|||++|+|+ .+|...|.++++|++|+|++|+|+ .++..+|.++++|++|+|++|++++..+..   +..+.+|+
T Consensus        53 ~~~~LdLs~N~i~-~l~~~~f~~l~~L~~L~Ls~N~i~-~i~~~~f~~L~~L~~L~Ls~N~l~~l~~~~---f~~L~~L~  127 (635)
T 4g8a_A           53 STKNLDLSFNPLR-HLGSYSFFSFPELQVLDLSRCEIQ-TIEDGAYQSLSHLSTLILTGNPIQSLALGA---FSGLSSLQ  127 (635)
T ss_dssp             TCCEEECTTSCCC-EECTTTTTTCTTCCEEECTTCCCC-EECTTTTTTCTTCCEEECTTCCCCEECGGG---GTTCTTCC
T ss_pred             CCCEEEeeCCCCC-CCCHHHHhCCCCCCEEECCCCcCC-CcChhHhcCCCCCCEEEccCCcCCCCCHHH---hcCCCCCC
Confidence            5789999999998 777668899999999999999888 566577888999999999999888765544   56677888


Q ss_pred             EEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCC-cChHHHhcCCCCcEEEecCCcccCCCCCCc------------
Q 042011           83 SLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGE-FPTWLLENNTKLETLFLVNDSLTGPFRLPI------------  149 (361)
Q Consensus        83 ~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~-~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~------------  149 (361)
                      +|++ ++|.+++..+..|+.+++|++|++++|.++.. .|.. +..+++|++|++++|++.+..+..+            
T Consensus       128 ~L~L-s~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~-~~~l~~L~~L~L~~N~l~~~~~~~l~~L~~l~~~~~~  205 (635)
T 4g8a_A          128 KLVA-VETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEY-FSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLS  205 (635)
T ss_dssp             EEEC-TTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGG-GGGCTTCCEEECCSSCCCEECGGGGHHHHTCTTCCCE
T ss_pred             EEEC-CCCcCCCCChhhhhcCcccCeeccccCccccCCCchh-hccchhhhhhcccCccccccccccccchhhhhhhhhh
Confidence            8888 88888877777788888888888888887643 3443 6778888888887775532111100            


Q ss_pred             --------------------------------------------------------------------------------
Q 042011          150 --------------------------------------------------------------------------------  149 (361)
Q Consensus       150 --------------------------------------------------------------------------------  149 (361)
                                                                                                      
T Consensus       206 ~~ls~n~l~~i~~~~~~~~~~~~l~l~~n~~~~~~~~~~~~~l~~l~~~~l~~~~~~~~~~l~~~~~~~~~~~~~l~~~~  285 (635)
T 4g8a_A          206 LDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEE  285 (635)
T ss_dssp             EECTTCCCCEECTTTTTTCEEEEEEEESCCSSHHHHHHHHHTTTTCEEEEEEEECCTTSCCCSCCCTTTTGGGGGSEEEE
T ss_pred             hhcccCcccccCcccccchhhhhhhhhcccccccccchhhcCCcccccccccccccccccccccccccccccccchhhhh
Confidence                                                                                            


Q ss_pred             --------------------------------------------------------------------------------
Q 042011          150 --------------------------------------------------------------------------------  149 (361)
Q Consensus       150 --------------------------------------------------------------------------------  149 (361)
                                                                                                      
T Consensus       286 l~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~  365 (635)
T 4g8a_A          286 FRLAYLDYYLDGIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAF  365 (635)
T ss_dssp             EEEECCCSCEEECTTTTGGGTTCSEEEEESCEEEECGGGGSCCCCSEEEEESCEESSCCCCBCTTCCEEEEESCCSCCBC
T ss_pred             hhhhhhcccccchhhhhhhhcccccccccccccccccccccchhhhhhhcccccccCcCcccchhhhhcccccccCCCCc
Confidence                                                                                            


Q ss_pred             --CCCCCcCEEEccCCcCCcc--C-----------------------------------------------ChhhhccCC
Q 042011          150 --HSHRWLEFLDISNNNFRCH--I-----------------------------------------------PVEIGDILP  178 (361)
Q Consensus       150 --~~l~~L~~L~l~~n~l~~~--~-----------------------------------------------~~~~~~~l~  178 (361)
                        ..+++|+.++++.|.+...  .                                               +...+..++
T Consensus       366 ~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~l~  445 (635)
T 4g8a_A          366 SEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTISLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLR  445 (635)
T ss_dssp             CCCBCTTCCEEECCSSCCBEEEECCHHHHSCSCCCEEECCSCSEEEECSCCTTCTTCCEEECTTSEEESTTSSCTTTTCT
T ss_pred             ccccccccccchhhccccccccccccchhhhhhhhhhhccccccccccccccccccccchhhhhcccccccccccccccc
Confidence              0112233333333332100  0                                               001111233


Q ss_pred             CccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEec
Q 042011          179 SLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQL  258 (361)
Q Consensus       179 ~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L  258 (361)
                      +++.++++.|.+.+..+..+..++.+++|++++|.+...++...+..+++|++|++++|++++..+..|.++++|++|+|
T Consensus       446 ~l~~l~ls~n~l~~~~~~~~~~~~~L~~L~Ls~N~~~~~~~~~~~~~l~~L~~L~Ls~N~L~~l~~~~f~~l~~L~~L~L  525 (635)
T 4g8a_A          446 NLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNM  525 (635)
T ss_dssp             TCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEC
T ss_pred             ccccccccccccccccccccccchhhhhhhhhhcccccccCchhhhhccccCEEECCCCccCCcChHHHcCCCCCCEEEC
Confidence            44455555555555556667777888888888887543444344457899999999999999988888999999999999


Q ss_pred             cCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCc-CcceeeccccccccCCcccccccccc
Q 042011          259 GGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPA-NTLFNLSQNSRRFTSSISHSHLLNLH  324 (361)
Q Consensus       259 ~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~-~~L~~l~l~~N~~~~~~~~~~~~~~~  324 (361)
                      ++|++++..+..|.++++|+.|++++|++++..|..+..+ ++|+.|++++|+|.|+|...+|..|.
T Consensus       526 s~N~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~l~~~L~~L~L~~Np~~C~C~~~~~~~wl  592 (635)
T 4g8a_A          526 SHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFACTCEHQSFLQWI  592 (635)
T ss_dssp             TTSCCCBCCCGGGTTCTTCCEEECTTSCCCBCCSSCTTCCCTTCCEEECTTCCBCCSGGGHHHHHHH
T ss_pred             CCCcCCCCChhHHhCCCCCCEEECCCCcCCCCCHHHHHhhhCcCCEEEeeCCCCcccCCcHHHHHHH
Confidence            9999998888889999999999999999999888888887 68999999999999999888877764

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=100.00  E-value=1.7e-36  Score=278.76  Aligned_cols=302  Identities=19%  Similarity=0.190  Sum_probs=208.2

Q ss_pred             CCCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccc
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQ   80 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~   80 (361)
                      +++++.|++++|.++ .+|...|..+++|++|++++|+++ .++...|..+++|++|++++|.+++..+..   +..+.+
T Consensus        44 l~~l~~l~l~~~~l~-~l~~~~~~~l~~L~~L~L~~n~i~-~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~---~~~l~~  118 (390)
T 3o6n_A           44 LNNQKIVTFKNSTMR-KLPAALLDSFRQVELLNLNDLQIE-EIDTYAFAYAHTIQKLYMGFNAIRYLPPHV---FQNVPL  118 (390)
T ss_dssp             GCCCSEEEEESCEES-EECTHHHHHCCCCSEEECTTSCCC-EECTTTTTTCTTCCEEECCSSCCCCCCTTT---TTTCTT
T ss_pred             cCCceEEEecCCchh-hCChhHhcccccCcEEECCCCccc-ccChhhccCCCCcCEEECCCCCCCcCCHHH---hcCCCC
Confidence            367888999999887 788767888999999999999887 455467888999999999999888765554   456678


Q ss_pred             ccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEc
Q 042011           81 LNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDI  160 (361)
Q Consensus        81 L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l  160 (361)
                      |++|++ ++|.+....+..|..+++|++|++++|.+++..+.. +.++++|++|++++|++++..   +..+++|+.+++
T Consensus       119 L~~L~L-~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~-~~~l~~L~~L~l~~n~l~~~~---~~~l~~L~~L~l  193 (390)
T 3o6n_A          119 LTVLVL-ERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDT-FQATTSLQNLQLSSNRLTHVD---LSLIPSLFHANV  193 (390)
T ss_dssp             CCEEEC-CSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTT-TSSCTTCCEEECCSSCCSBCC---GGGCTTCSEEEC
T ss_pred             CCEEEC-CCCccCcCCHHHhcCCCCCcEEECCCCccCccChhh-ccCCCCCCEEECCCCcCCccc---cccccccceeec
Confidence            999999 888888666666788899999999999888444444 788889999999998887542   334445555555


Q ss_pred             cCCcCCc------------------cCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhh
Q 042011          161 SNNNFRC------------------HIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHL  222 (361)
Q Consensus       161 ~~n~l~~------------------~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~  222 (361)
                      ++|.+++                  .++...   .++|+.|++++|.+++.  ..+..+++|++|++++|.+.+..|..+
T Consensus       194 ~~n~l~~~~~~~~L~~L~l~~n~l~~~~~~~---~~~L~~L~l~~n~l~~~--~~l~~l~~L~~L~Ls~n~l~~~~~~~~  268 (390)
T 3o6n_A          194 SYNLLSTLAIPIAVEELDASHNSINVVRGPV---NVELTILKLQHNNLTDT--AWLLNYPGLVEVDLSYNELEKIMYHPF  268 (390)
T ss_dssp             CSSCCSEEECCSSCSEEECCSSCCCEEECCC---CSSCCEEECCSSCCCCC--GGGGGCTTCSEEECCSSCCCEEESGGG
T ss_pred             ccccccccCCCCcceEEECCCCeeeeccccc---cccccEEECCCCCCccc--HHHcCCCCccEEECCCCcCCCcChhHc
Confidence            5544431                  333221   34666666666666632  356666777777777777763334443


Q ss_pred             hhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcce
Q 042011          223 AVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLF  302 (361)
Q Consensus       223 ~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~  302 (361)
                      . .+++|++|++++|++++ .+..+..+++|+.|++++|+++ .+|..+..+++|+.|++++|++++. +  +..+++|+
T Consensus       269 ~-~l~~L~~L~L~~n~l~~-~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~~l~~L~~L~L~~N~i~~~-~--~~~~~~L~  342 (390)
T 3o6n_A          269 V-KMQRLERLYISNNRLVA-LNLYGQPIPTLKVLDLSHNHLL-HVERNQPQFDRLENLYLDHNSIVTL-K--LSTHHTLK  342 (390)
T ss_dssp             T-TCSSCCEEECCSSCCCE-EECSSSCCTTCCEEECCSSCCC-CCGGGHHHHTTCSEEECCSSCCCCC-C--CCTTCCCS
T ss_pred             c-ccccCCEEECCCCcCcc-cCcccCCCCCCCEEECCCCcce-ecCccccccCcCCEEECCCCcccee-C--chhhccCC
Confidence            3 66777777777777765 3444556677777777777776 4555566667777777777777643 2  55566777


Q ss_pred             eeccccccccCCccccccccc
Q 042011          303 NLSQNSRRFTSSISHSHLLNL  323 (361)
Q Consensus       303 ~l~l~~N~~~~~~~~~~~~~~  323 (361)
                      +|++++|++.+.....++..+
T Consensus       343 ~L~l~~N~~~~~~~~~~~~~~  363 (390)
T 3o6n_A          343 NLTLSHNDWDCNSLRALFRNV  363 (390)
T ss_dssp             EEECCSSCEEHHHHHHHTTTC
T ss_pred             EEEcCCCCccchhHHHHHHHH
Confidence            777777777765554444444

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=100.00  E-value=2.8e-36  Score=296.75  Aligned_cols=315  Identities=18%  Similarity=0.174  Sum_probs=230.0

Q ss_pred             CCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCccc---------------------------------cc
Q 042011            3 SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEP---------------------------------LF   49 (361)
Q Consensus         3 ~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~---------------------------------~~   49 (361)
                      +|++|++++|++++..|. .|..+++|++|++++|++++..+ ..                                 |.
T Consensus       249 ~L~~L~Ls~n~l~~~~~~-~~~~l~~L~~L~L~~n~l~~~~~-~~~~~l~~L~~L~L~~~~~~~~~~~~~lp~i~~~~~~  326 (680)
T 1ziw_A          249 NLTMLDLSYNNLNVVGND-SFAWLPQLEYFFLEYNNIQHLFS-HSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQ  326 (680)
T ss_dssp             CCCEEECTTSCCCEECTT-TTTTCTTCCEEECCSCCBSEECT-TTTTTCTTCCEEECTTCBCCC------CCEECTTTTT
T ss_pred             CCCEEECCCCCcCccCcc-cccCcccccEeeCCCCccCccCh-hhhcCCCCccEEeccchhhhcccccccccccChhhcc
Confidence            477777777777633333 67777777777777776653322 22                                 33


Q ss_pred             CCCCCcEEEccCCCcccccccccccccCc----------------------------ccccEEeccCCCCCCCCCchhhc
Q 042011           50 NHSRLKIFYADNNELNAEITQSHSLIAPN----------------------------FQLNSLSLSSDYGDGFIFPKFLY  101 (361)
Q Consensus        50 ~l~~L~~L~l~~n~~~~~~~~~~~~~~~~----------------------------~~L~~L~l~~~~~~~~~~~~~l~  101 (361)
                      .+++|++|++++|.+.+..+..   +..+                            .+|++|++ ++|.+.+..+..+.
T Consensus       327 ~l~~L~~L~l~~n~l~~~~~~~---~~~l~~L~~L~Ls~n~~~~~~l~~~~f~~~~~~~L~~L~L-~~n~l~~~~~~~~~  402 (680)
T 1ziw_A          327 WLKCLEHLNMEDNDIPGIKSNM---FTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNL-TKNKISKIESDAFS  402 (680)
T ss_dssp             TCTTCCEEECCSCCBCCCCTTT---TTTCTTCCEEECTTCBSCCCEECTTTTGGGTTSCCCEEEC-TTSCCCEECTTTTT
T ss_pred             cCCCCCEEECCCCccCCCChhH---hccccCCcEEECCCCchhhhhcchhhhcccccCcCceEEC-CCCCCCeEChhhhh
Confidence            4455555555555555433322   1222                            24555555 55666666666777


Q ss_pred             CCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCC--ccCChhhhccCCC
Q 042011          102 HQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFR--CHIPVEIGDILPS  179 (361)
Q Consensus       102 ~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~--~~~~~~~~~~l~~  179 (361)
                      .+++|+.|++++|.+++.++...+.++++|++|++++|++.+..+..|..+++|+.|++++|.+.  +.+|..+.. +++
T Consensus       403 ~l~~L~~L~L~~N~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~p~~~~~-l~~  481 (680)
T 1ziw_A          403 WLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQP-LRN  481 (680)
T ss_dssp             TCTTCCEEECCSSCCEEECCSGGGTTCTTCCEEECCSCSEEECCTTTTTTCTTCCEEECTTSCCBCTTCSSCTTTT-CTT
T ss_pred             CCCCCCEEeCCCCcCccccCcccccCcccccEEecCCCCcceeChhhhhcCcccccchhccccccccccCCccccc-CCC
Confidence            77888888888887776666545777888888888888877777777888888888888888765  345555554 788


Q ss_pred             ccEEEecCCccccccCccccCCCCCCEEeccCCcCccccch--------hhhhCCCCCcEEEeecCCCCCcccccccCCC
Q 042011          180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPE--------HLAVGCVNLESLALSNNSLEGHMFSRNFNLT  251 (361)
Q Consensus       180 L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~--------~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~  251 (361)
                      |+.|++++|.+++..+..|..+++|++|++++|.++ .++.        ..+..+++|++|++++|+++.+.+..|..++
T Consensus       482 L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~-~~~~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~  560 (680)
T 1ziw_A          482 LTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLA-RLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLF  560 (680)
T ss_dssp             CCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCG-GGGSTTSTTSCCCTTTTCTTCCEEECCSSCCCCCCTTTTTTCT
T ss_pred             CCEEECCCCCCCcCChhhhccccccCEEeCCCCCcc-ccchhhccCCcchhhcCCCCCCEEECCCCCCCCCCHHHccccc
Confidence            999999999998777777888999999999999887 4322        1244788999999999999876666788999


Q ss_pred             CCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCC-CcCcceeeccccccccCCccc-cccccccc
Q 042011          252 NLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSS-PANTLFNLSQNSRRFTSSISH-SHLLNLHG  325 (361)
Q Consensus       252 ~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~-~~~~L~~l~l~~N~~~~~~~~-~~~~~~~~  325 (361)
                      +|+.|++++|++++..+..|..+++|+.|++++|++++..+..+. .+++|+.+++++|++.|+++. .+|..|..
T Consensus       561 ~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~l~l~~N~~~c~c~~~~~~~~~~~  636 (680)
T 1ziw_A          561 ELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVEKKVFGPAFRNLTELDMRFNPFDCTCESIAWFVNWIN  636 (680)
T ss_dssp             TCCEEECCSSCCCCCCTTTTTTCTTCCEEECTTSCCCBCCHHHHHHHHTTCSEEECTTCCCCBCCCCCSSEECCSS
T ss_pred             CcceeECCCCCCCcCCHhHhCCCCCCCEEECCCCcCCccChhHhcccccccCEEEccCCCcccCCccHHHHHHHHH
Confidence            999999999999977777788899999999999999987776666 688999999999999999985 77777643

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

Probab=100.00  E-value=1.5e-36  Score=295.59  Aligned_cols=296  Identities=19%  Similarity=0.300  Sum_probs=230.9

Q ss_pred             CCCCeEeCCCcc-ccC-cCChhhhhcc------CCCCeEeCcCCcccccCCc-ccccCCCCCcEEEccCCCccccccccc
Q 042011            2 TSLRILDVSSNQ-LTG-SISSSPLVHL------TSIEELMLSNNHFQIPISL-EPLFNHSRLKIFYADNNELNAEITQSH   72 (361)
Q Consensus         2 ~~L~~L~L~~n~-i~~-~i~~~~~~~l------~~L~~L~Ls~n~l~~~~~~-~~~~~l~~L~~L~l~~n~~~~~~~~~~   72 (361)
                      ++|++|++++|+ ++| .+|. .+..+      ++|++|++++|+++ .+|. ..+.++++|++|++++|.+++..+ . 
T Consensus       273 ~~L~~L~Ls~n~~l~~~~lp~-~~~~L~~~~~l~~L~~L~L~~n~l~-~ip~~~~l~~l~~L~~L~L~~N~l~g~ip-~-  348 (636)
T 4eco_A          273 PEMQLINVACNRGISGEQLKD-DWQALADAPVGEKIQIIYIGYNNLK-TFPVETSLQKMKKLGMLECLYNQLEGKLP-A-  348 (636)
T ss_dssp             SSCCEEECTTCTTSCHHHHHH-HHHHHHHSGGGGTCCEEECCSSCCS-SCCCHHHHTTCTTCCEEECCSCCCEEECC-C-
T ss_pred             CCCCEEECcCCCCCccccchH-HHHhhhccccCCCCCEEECCCCcCC-ccCchhhhccCCCCCEEeCcCCcCccchh-h-
Confidence            455555555555 554 4554 44443      56666666666665 5552 156777777777777777765554 2 


Q ss_pred             ccccCcccccEEeccCCCCCCCCCchhhcCCCC-ccEEEecCCcccCCcChHHHhcCC--CCcEEEecCCcccCCCCCCc
Q 042011           73 SLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHD-LALVDLSHIKMNGEFPTWLLENNT--KLETLFLVNDSLTGPFRLPI  149 (361)
Q Consensus        73 ~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~-L~~L~l~~n~l~~~~~~~~~~~~~--~L~~L~l~~n~l~~~~~~~~  149 (361)
                        +..+.+|++|++ ++|.+. .+|..+..+++ |++|++++|.++ .+|.. +...+  +|++|++++|.+.+..|..+
T Consensus       349 --~~~l~~L~~L~L-~~N~l~-~lp~~l~~l~~~L~~L~Ls~N~l~-~lp~~-~~~~~l~~L~~L~Ls~N~l~~~~p~~l  422 (636)
T 4eco_A          349 --FGSEIKLASLNL-AYNQIT-EIPANFCGFTEQVENLSFAHNKLK-YIPNI-FDAKSVSVMSAIDFSYNEIGSVDGKNF  422 (636)
T ss_dssp             --CEEEEEESEEEC-CSSEEE-ECCTTSEEECTTCCEEECCSSCCS-SCCSC-CCTTCSSCEEEEECCSSCTTTTTTCSS
T ss_pred             --hCCCCCCCEEEC-CCCccc-cccHhhhhhcccCcEEEccCCcCc-ccchh-hhhcccCccCEEECcCCcCCCcchhhh
Confidence              455567888888 777776 56667888888 888888888887 77765 44433  78889999998888778777


Q ss_pred             C-------CCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCcc-ccCC-------CCCCEEeccCCcC
Q 042011          150 H-------SHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSS-FGNM-------NFLRVLDLSNNQL  214 (361)
Q Consensus       150 ~-------~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-l~~~-------~~L~~L~l~~n~l  214 (361)
                      .       .+++|++|++++|+++ .+|..++..+++|++|++++|.++ .+|.. +...       ++|++|++++|.+
T Consensus       423 ~~~~~~~~~~~~L~~L~Ls~N~l~-~lp~~~~~~l~~L~~L~Ls~N~l~-~i~~~~~~~~~~~~~~l~~L~~L~Ls~N~l  500 (636)
T 4eco_A          423 DPLDPTPFKGINVSSINLSNNQIS-KFPKELFSTGSPLSSINLMGNMLT-EIPKNSLKDENENFKNTYLLTSIDLRFNKL  500 (636)
T ss_dssp             CTTCSSCCCCCCEEEEECCSSCCC-SCCTHHHHTTCCCSEEECCSSCCS-BCCSSSSEETTEECTTGGGCCEEECCSSCC
T ss_pred             cccccccccCCCCCEEECcCCccC-cCCHHHHccCCCCCEEECCCCCCC-CcCHHHhccccccccccCCccEEECcCCcC
Confidence            7       7789999999999998 888888877899999999999998 55543 3333       2899999999999


Q ss_pred             ccccchhhh-hCCCCCcEEEeecCCCCCcccccccCCCCCCEEec------cCCcCCccchhhhhcCCCCCEEECcCCcc
Q 042011          215 TGEIPEHLA-VGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQL------GGNRFVGEIPQSLSKCSSLEGLYLNNNSL  287 (361)
Q Consensus       215 ~~~~~~~~~-~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L------~~n~l~~~~~~~~~~l~~L~~L~l~~N~l  287 (361)
                      + .+|..++ ..+++|++|++++|++++ .|..+..+++|+.|++      ++|++.+.+|..+..+++|++|++++|++
T Consensus       501 ~-~lp~~~~~~~l~~L~~L~Ls~N~l~~-ip~~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l  578 (636)
T 4eco_A          501 T-KLSDDFRATTLPYLVGIDLSYNSFSK-FPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSNDI  578 (636)
T ss_dssp             C-BCCGGGSTTTCTTCCEEECCSSCCSS-CCCGGGGCSSCCEEECCSCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSCC
T ss_pred             C-ccChhhhhccCCCcCEEECCCCCCCC-cChhhhcCCCCCEEECCCCcccccCcccccChHHHhcCCCCCEEECCCCcC
Confidence            9 8998775 479999999999999998 7888889999999999      56778889999999999999999999999


Q ss_pred             cccCCCCCCCcCcceeeccccccccCC
Q 042011          288 SGNVNVPSSPANTLFNLSQNSRRFTSS  314 (361)
Q Consensus       288 ~~~~~~~~~~~~~L~~l~l~~N~~~~~  314 (361)
                      + .+|..+.  ++|+.|++++|++.+.
T Consensus       579 ~-~ip~~~~--~~L~~L~Ls~N~l~~~  602 (636)
T 4eco_A          579 R-KVNEKIT--PNISVLDIKDNPNISI  602 (636)
T ss_dssp             C-BCCSCCC--TTCCEEECCSCTTCEE
T ss_pred             C-ccCHhHh--CcCCEEECcCCCCccc
Confidence            4 6777665  7999999999998863

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=100.00  E-value=1.8e-36  Score=292.10  Aligned_cols=168  Identities=23%  Similarity=0.236  Sum_probs=104.0

Q ss_pred             CCCCcCEEEccCCcCCccC--ChhhhccCCCccEEEecCCccc-----------------------cccC-ccccCCCCC
Q 042011          151 SHRWLEFLDISNNNFRCHI--PVEIGDILPSLKFFNISMNALD-----------------------GSIP-SSFGNMNFL  204 (361)
Q Consensus       151 ~l~~L~~L~l~~n~l~~~~--~~~~~~~l~~L~~L~L~~n~l~-----------------------~~~~-~~l~~~~~L  204 (361)
                      .+++|++|++++|++++..  +..+.. +++|++|++++|.+.                       +..+ ..+..+++|
T Consensus       345 ~~~~L~~L~l~~n~l~~~~~~~~~~~~-~~~L~~L~l~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L  423 (570)
T 2z63_A          345 DLPSLEFLDLSRNGLSFKGCCSQSDFG-TTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNL  423 (570)
T ss_dssp             BCTTCCEEECCSSCCBEEEEEEHHHHT-CSCCCEEECCSCSEEEEEEEEETCTTCCEEECTTSEEESCTTSCTTTTCTTC
T ss_pred             cCCCCCEEeCcCCccCccccccccccc-cCccCEEECCCCccccccccccccCCCCEEEccCCccccccchhhhhcCCCC
Confidence            4456777777777765221  333332 455555555555544                       3222 245555666


Q ss_pred             CEEeccCCcCccccchhhhhCCCCCcEEEeecCCCC-CcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECc
Q 042011          205 RVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE-GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLN  283 (361)
Q Consensus       205 ~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~-~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~  283 (361)
                      ++|++++|.+.+..|..+ ..+++|++|++++|.+. +..|..+..+++|+.|++++|++++..|..+..+++|+.|+++
T Consensus       424 ~~L~l~~n~l~~~~~~~~-~~l~~L~~L~l~~n~l~~~~~p~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  502 (570)
T 2z63_A          424 IYLDISHTHTRVAFNGIF-NGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMA  502 (570)
T ss_dssp             CEEECTTSCCEECCTTTT-TTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECC
T ss_pred             CEEeCcCCcccccchhhh-hcCCcCcEEECcCCcCccccchhhhhcccCCCEEECCCCccccCChhhhhcccCCCEEeCC
Confidence            666666666553333333 35666777777776665 3456666677777777777777776667777777777777777


Q ss_pred             CCcccccCCCCCCCcCcceeeccccccccCCcccccc
Q 042011          284 NNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHL  320 (361)
Q Consensus       284 ~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~  320 (361)
                      +|++++..+..+..+++|++|++++|+++|.+|..++
T Consensus       503 ~n~l~~~~~~~~~~l~~L~~L~l~~N~~~~~~~~~~~  539 (570)
T 2z63_A          503 SNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRIDY  539 (570)
T ss_dssp             SSCCSCCCTTTTTTCTTCCEEECCSSCBCCCTTTTHH
T ss_pred             CCcCCCCCHHHhhcccCCcEEEecCCcccCCCcchHH
Confidence            7777776666677777777777777777777765444

>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=1e-36  Score=302.62  Aligned_cols=319  Identities=18%  Similarity=0.199  Sum_probs=233.4

Q ss_pred             CCCCCeEeCCCccccC-----------------cCChhhhh--ccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccC
Q 042011            1 MTSLRILDVSSNQLTG-----------------SISSSPLV--HLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN   61 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~-----------------~i~~~~~~--~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~   61 (361)
                      |++|+.|+|++|++++                 .+|. .+.  ++++|++|+|++|++.+.+| ..+.++++|++|++++
T Consensus       447 L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~-~l~f~~L~~L~~L~Ls~N~l~~~iP-~~l~~L~~L~~L~Ls~  524 (876)
T 4ecn_A          447 LTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENE-ELSWSNLKDLTDVELYNCPNMTQLP-DFLYDLPELQSLNIAC  524 (876)
T ss_dssp             CTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTS-CCCGGGCTTCCEEEEESCTTCCSCC-GGGGGCSSCCEEECTT
T ss_pred             CCCCCEEECcCCcCCCCcccccccccccccccccCCh-hhhhccCCCCCEEECcCCCCCccCh-HHHhCCCCCCEEECcC
Confidence            5789999999999986                 2887 555  99999999999999888888 6889999999999999


Q ss_pred             CC-ccc-cccccccc----ccCcccccEEeccCCCCCCCCCch--hhcCCCCccEEEecCCcccCCcChHHHhcCCCCcE
Q 042011           62 NE-LNA-EITQSHSL----IAPNFQLNSLSLSSDYGDGFIFPK--FLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLET  133 (361)
Q Consensus        62 n~-~~~-~~~~~~~~----~~~~~~L~~L~l~~~~~~~~~~~~--~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~  133 (361)
                      |. +++ ..|..+..    +..+.+|++|++ ++|.+. .+|.  .+..+++|+.|++++|.++ .+| . +..+++|++
T Consensus       525 N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~L-s~N~L~-~ip~~~~l~~L~~L~~L~Ls~N~l~-~lp-~-~~~L~~L~~  599 (876)
T 4ecn_A          525 NRGISAAQLKADWTRLADDEDTGPKIQIFYM-GYNNLE-EFPASASLQKMVKLGLLDCVHNKVR-HLE-A-FGTNVKLTD  599 (876)
T ss_dssp             CTTSCHHHHHHHHHHHHHCTTTTTTCCEEEC-CSSCCC-BCCCHHHHTTCTTCCEEECTTSCCC-BCC-C-CCTTSEESE
T ss_pred             CCCcccccchHHHHhhhhcccccCCccEEEe-eCCcCC-ccCChhhhhcCCCCCEEECCCCCcc-cch-h-hcCCCcceE
Confidence            98 776 55543221    234448888888 888888 6666  7888888888888888887 777 3 778888888


Q ss_pred             EEecCCcccCCCCCCcCCCCC-cCEEEccCCcCCccCChhhhccC--CCccEEEecCCccccc-----------------
Q 042011          134 LFLVNDSLTGPFRLPIHSHRW-LEFLDISNNNFRCHIPVEIGDIL--PSLKFFNISMNALDGS-----------------  193 (361)
Q Consensus       134 L~l~~n~l~~~~~~~~~~l~~-L~~L~l~~n~l~~~~~~~~~~~l--~~L~~L~L~~n~l~~~-----------------  193 (361)
                      |++++|.+. .+|..+..+++ |+.|++++|+++ .+|..+.. .  ++|+.|++++|.+.+.                 
T Consensus       600 L~Ls~N~l~-~lp~~l~~l~~~L~~L~Ls~N~L~-~lp~~~~~-~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~  676 (876)
T 4ecn_A          600 LKLDYNQIE-EIPEDFCAFTDQVEGLGFSHNKLK-YIPNIFNA-KSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINAS  676 (876)
T ss_dssp             EECCSSCCS-CCCTTSCEECTTCCEEECCSSCCC-SCCSCCCT-TCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEE
T ss_pred             EECcCCccc-cchHHHhhccccCCEEECcCCCCC-cCchhhhc-cccCCCCEEECcCCcCCCccccchhhhccccCCCcC
Confidence            888888887 67777777777 888888888877 66654432 2  2255555555555433                 


Q ss_pred             -----------cCcc-ccCCCCCCEEeccCCcCccccchhhhhCC-------CCCcEEEeecCCCCCccccccc--CCCC
Q 042011          194 -----------IPSS-FGNMNFLRVLDLSNNQLTGEIPEHLAVGC-------VNLESLALSNNSLEGHMFSRNF--NLTN  252 (361)
Q Consensus       194 -----------~~~~-l~~~~~L~~L~l~~n~l~~~~~~~~~~~~-------~~L~~L~L~~n~l~~~~~~~~~--~~~~  252 (361)
                                 +|.. +..+++|+.|++++|.+. .+|...+...       ++|+.|++++|+++. +|..+.  .+++
T Consensus       677 ~L~Ls~N~L~~lp~~~~~~l~~L~~L~Ls~N~L~-~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~L~~-lp~~l~~~~l~~  754 (876)
T 4ecn_A          677 TVTLSYNEIQKFPTELFATGSPISTIILSNNLMT-SIPENSLKPKDGNYKNTYLLTTIDLRFNKLTS-LSDDFRATTLPY  754 (876)
T ss_dssp             EEECCSSCCCSCCHHHHHTTCCCSEEECCSCCCS-CCCTTSSSCTTSCCTTGGGCCEEECCSSCCCC-CCGGGSTTTCTT
T ss_pred             EEEccCCcCCccCHHHHccCCCCCEEECCCCcCC-ccChHHhccccccccccCCccEEECCCCCCcc-chHHhhhccCCC
Confidence                       2222 235566667777777666 6666554322       267777777777774 555555  7788


Q ss_pred             CCEEeccCCcCCccchhhhhcCCCCCEEECcC------CcccccCCCCCCCcCcceeeccccccccCCcccccccccccc
Q 042011          253 LEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNN------NSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGI  326 (361)
Q Consensus       253 L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~------N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~~~~  326 (361)
                      |+.|++++|++++ +|..+..+++|+.|++++      |++.+.+|..+..+++|+.|++++|++ +.+|...+..+..+
T Consensus       755 L~~L~Ls~N~L~~-lp~~l~~L~~L~~L~Ls~N~~ls~N~l~~~ip~~l~~L~~L~~L~Ls~N~L-~~Ip~~l~~~L~~L  832 (876)
T 4ecn_A          755 LSNMDVSYNCFSS-FPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSNDI-RKVDEKLTPQLYIL  832 (876)
T ss_dssp             CCEEECCSSCCSS-CCCGGGGCTTCCEEECCCCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSCC-CBCCSCCCSSSCEE
T ss_pred             cCEEEeCCCCCCc-cchhhhcCCCCCEEECCCCCCcccccccccChHHHhcCCCCCEEECCCCCC-CccCHhhcCCCCEE
Confidence            8888888888885 677777888888888865      777778888888888888888888888 66776666666666


Q ss_pred             hhhhHHH
Q 042011          327 CKEYAKE  333 (361)
Q Consensus       327 ~~~~~~~  333 (361)
                      ....++.
T Consensus       833 dLs~N~l  839 (876)
T 4ecn_A          833 DIADNPN  839 (876)
T ss_dssp             ECCSCTT
T ss_pred             ECCCCCC
Confidence            6655543

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=100.00  E-value=4.7e-36  Score=295.10  Aligned_cols=312  Identities=21%  Similarity=0.175  Sum_probs=214.9

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCC--CCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccc------
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTS--IEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHS------   73 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~--L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~------   73 (361)
                      ++|+.|++++|.+++..|. .|.+++.  |++|++++|++++..+ ..|..+++|++|++++|.+.+..+..+.      
T Consensus       222 ~~L~~L~L~~n~l~~~~~~-~~~~l~~~~L~~L~Ls~n~l~~~~~-~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  299 (680)
T 1ziw_A          222 TSIRNLSLSNSQLSTTSNT-TFLGLKWTNLTMLDLSYNNLNVVGN-DSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVR  299 (680)
T ss_dssp             SCCCEEECTTSCCCEECTT-TTGGGGGSCCCEEECTTSCCCEECT-TTTTTCTTCCEEECCSCCBSEECTTTTTTCTTCC
T ss_pred             ccccEEEccCCcccccChh-HhhccCcCCCCEEECCCCCcCccCc-ccccCcccccEeeCCCCccCccChhhhcCCCCcc
Confidence            6899999999999866666 7888865  9999999999985444 6899999999999999999876554321      


Q ss_pred             ------------------------cccCcccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccC-CcChHHHhc-
Q 042011           74 ------------------------LIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG-EFPTWLLEN-  127 (361)
Q Consensus        74 ------------------------~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~-~~~~~~~~~-  127 (361)
                                              .+..+.+|++|++ ++|.+.+..+..|..+++|++|++++|.+.. .++...+.. 
T Consensus       300 ~L~L~~~~~~~~~~~~~lp~i~~~~~~~l~~L~~L~l-~~n~l~~~~~~~~~~l~~L~~L~Ls~n~~~~~~l~~~~f~~~  378 (680)
T 1ziw_A          300 YLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNM-EDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSL  378 (680)
T ss_dssp             EEECTTCBCCC------CCEECTTTTTTCTTCCEEEC-CSCCBCCCCTTTTTTCTTCCEEECTTCBSCCCEECTTTTGGG
T ss_pred             EEeccchhhhcccccccccccChhhcccCCCCCEEEC-CCCccCCCChhHhccccCCcEEECCCCchhhhhcchhhhccc
Confidence                                    1233456666676 6666666666666666666666666654321 111111111 


Q ss_pred             -CCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccc---------------
Q 042011          128 -NTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALD---------------  191 (361)
Q Consensus       128 -~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~---------------  191 (361)
                       .++|+.|++++|++.+..+..+..+++|+.|++++|.+.+.++...+..+++|++|++++|.+.               
T Consensus       379 ~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~L~~  458 (680)
T 1ziw_A          379 AHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQR  458 (680)
T ss_dssp             TTSCCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCEEECCSGGGTTCTTCCEEECCSCSEEECCTTTTTTCTTCCE
T ss_pred             ccCcCceEECCCCCCCeEChhhhhCCCCCCEEeCCCCcCccccCcccccCcccccEEecCCCCcceeChhhhhcCccccc
Confidence             1345555555555555555666666666666666666654455444444556666666555543               


Q ss_pred             -----------cccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCccc--------ccccCCCC
Q 042011          192 -----------GSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMF--------SRNFNLTN  252 (361)
Q Consensus       192 -----------~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~--------~~~~~~~~  252 (361)
                                 +..|..+..+++|++|++++|.++ .++...+..+++|++|++++|++++..+        ..+..+++
T Consensus       459 L~l~~n~l~~~~~~p~~~~~l~~L~~L~Ls~N~l~-~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~~~~~l~~  537 (680)
T 1ziw_A          459 LMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIA-NINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSH  537 (680)
T ss_dssp             EECTTSCCBCTTCSSCTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCGGGGSTTSTTSCCCTTTTCTT
T ss_pred             chhccccccccccCCcccccCCCCCEEECCCCCCC-cCChhhhccccccCEEeCCCCCccccchhhccCCcchhhcCCCC
Confidence                       245566777777888888888877 5655555577888888888888775422        23667788


Q ss_pred             CCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCccc
Q 042011          253 LEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISH  317 (361)
Q Consensus       253 L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~  317 (361)
                      |+.|++++|+++...+..|.++++|+.|++++|++++..+..|..+++|+.|++++|++++..+.
T Consensus       538 L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~  602 (680)
T 1ziw_A          538 LHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVEKK  602 (680)
T ss_dssp             CCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECTTSCCCBCCHH
T ss_pred             CCEEECCCCCCCCCCHHHcccccCcceeECCCCCCCcCCHhHhCCCCCCCEEECCCCcCCccChh
Confidence            88888888888855555688888888888888888877777778888888888888888875553

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=100.00  E-value=6.2e-36  Score=280.62  Aligned_cols=286  Identities=20%  Similarity=0.221  Sum_probs=236.6

Q ss_pred             CCCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccc
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQ   80 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~   80 (361)
                      +++|++|++++|.+.+.++...|.++++|++|+|++|++++..+ ..|.++++|++|++++|.+++..+.. ..+..+.+
T Consensus        53 l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~~~l~~L~~L~L~~n~l~~~~~~~-~~~~~l~~  130 (455)
T 3v47_A           53 LQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQLET-GAFNGLANLEVLTLTQCNLDGAVLSG-NFFKPLTS  130 (455)
T ss_dssp             CTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCTTCEECT-TTTTTCTTCCEEECTTSCCBTHHHHS-STTTTCTT
T ss_pred             CccccEEECcCCcccceECcccccccccCCEEeCCCCccCccCh-hhccCcccCCEEeCCCCCCCccccCc-ccccCccc
Confidence            57899999999999777876689999999999999999985445 68999999999999999997633222 12456779


Q ss_pred             ccEEeccCCCCCCCCCchh-hcCCCCccEEEecCCcccCCcChHHHhc--------------------------------
Q 042011           81 LNSLSLSSDYGDGFIFPKF-LYHQHDLALVDLSHIKMNGEFPTWLLEN--------------------------------  127 (361)
Q Consensus        81 L~~L~l~~~~~~~~~~~~~-l~~l~~L~~L~l~~n~l~~~~~~~~~~~--------------------------------  127 (361)
                      |++|++ ++|.+.+..|.. +..+++|++|++++|.+++..+.. +..                                
T Consensus       131 L~~L~L-~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-l~~l~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~~  208 (455)
T 3v47_A          131 LEMLVL-RDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSICEED-LLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNP  208 (455)
T ss_dssp             CCEEEC-CSSBCCSCCCCGGGGGCTTCCEEECTTCCBSCCCTTT-SGGGTTCEEEEEECTTCBCTTCSTTCTTHHHHCCT
T ss_pred             CCEEEC-CCCccCccCcccccCCCCcccEEeCCCCcccccChhh-hhccccccccccccccCcccccchhhccccccccc
Confidence            999999 889998877765 889999999999999988655543 222                                


Q ss_pred             --CCCCcEEEecCCcccCCCCCCc-------------------------------------C--CCCCcCEEEccCCcCC
Q 042011          128 --NTKLETLFLVNDSLTGPFRLPI-------------------------------------H--SHRWLEFLDISNNNFR  166 (361)
Q Consensus       128 --~~~L~~L~l~~n~l~~~~~~~~-------------------------------------~--~l~~L~~L~l~~n~l~  166 (361)
                        +++|++|++++|++.+..+..+                                     .  ..++|++|++++|.++
T Consensus       209 ~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~  288 (455)
T 3v47_A          209 FKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIF  288 (455)
T ss_dssp             TTTCEEEEEECTTSCCCHHHHHHHHHHTTTCCEEEEECTTCTTTSCCTTCCSSCCCCTTTTGGGTTSCCCEEECCSSCCC
T ss_pred             cccceeeeEecCCCcccccchhhhhccccccceeeEeeccccccccccchhhhccCcccccccccccCceEEEecCcccc
Confidence              3678888888887754222111                                     1  1257999999999998


Q ss_pred             ccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCccccc
Q 042011          167 CHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSR  246 (361)
Q Consensus       167 ~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~  246 (361)
                      +..|..+. .+++|++|++++|.+++..+..|..+++|++|++++|.++ .++...+..+++|++|++++|++++..+..
T Consensus       289 ~~~~~~~~-~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~-~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~  366 (455)
T 3v47_A          289 ALLKSVFS-HFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLG-SIDSRMFENLDKLEVLDLSYNHIRALGDQS  366 (455)
T ss_dssp             EECTTTTT-TCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCC-EECGGGGTTCTTCCEEECCSSCCCEECTTT
T ss_pred             ccchhhcc-cCCCCCEEECCCCcccccChhHhcCcccCCEEECCCCccC-CcChhHhcCcccCCEEECCCCcccccChhh
Confidence            55555554 4899999999999999888889999999999999999998 565555558999999999999999988999


Q ss_pred             ccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCC
Q 042011          247 NFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVN  292 (361)
Q Consensus       247 ~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~  292 (361)
                      +..+++|++|++++|++++..+..+..+++|+.|++++|++++..|
T Consensus       367 ~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~  412 (455)
T 3v47_A          367 FLGLPNLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCP  412 (455)
T ss_dssp             TTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCCCTT
T ss_pred             ccccccccEEECCCCccccCCHhHhccCCcccEEEccCCCcccCCC
Confidence            9999999999999999998777788999999999999999998665

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=100.00  E-value=1.3e-35  Score=283.10  Aligned_cols=293  Identities=21%  Similarity=0.185  Sum_probs=241.4

Q ss_pred             CeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEE
Q 042011            5 RILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSL   84 (361)
Q Consensus         5 ~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L   84 (361)
                      ++||+++|+++ .+|. .+.  ++|++|++++|+++ .++...|.++++|++|++++|.+++..+..   +..+.+|++|
T Consensus         3 ~~l~ls~n~l~-~ip~-~~~--~~L~~L~Ls~n~i~-~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~---~~~l~~L~~L   74 (520)
T 2z7x_B            3 FLVDRSKNGLI-HVPK-DLS--QKTTILNISQNYIS-ELWTSDILSLSKLRILIISHNRIQYLDISV---FKFNQELEYL   74 (520)
T ss_dssp             CEEECTTSCCS-SCCC-SCC--TTCSEEECCSSCCC-CCCHHHHTTCTTCCEEECCSSCCCEEEGGG---GTTCTTCCEE
T ss_pred             ceEecCCCCcc-cccc-ccc--ccccEEECCCCccc-ccChhhccccccccEEecCCCccCCcChHH---hhcccCCCEE
Confidence            58999999998 8997 343  89999999999998 455468999999999999999999876655   5677899999


Q ss_pred             eccCCCCCCCCCchhhcCCCCccEEEecCCcccC-CcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCc--CEEEcc
Q 042011           85 SLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG-EFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWL--EFLDIS  161 (361)
Q Consensus        85 ~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~-~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L--~~L~l~  161 (361)
                      ++ ++|.++. +|..  .+++|++|++++|.+++ .+|.. ++++++|++|++++|.+.+   ..+..+++|  ++|+++
T Consensus        75 ~L-s~N~l~~-lp~~--~l~~L~~L~L~~N~l~~~~~p~~-~~~l~~L~~L~L~~n~l~~---~~~~~l~~L~L~~L~l~  146 (520)
T 2z7x_B           75 DL-SHNKLVK-ISCH--PTVNLKHLDLSFNAFDALPICKE-FGNMSQLKFLGLSTTHLEK---SSVLPIAHLNISKVLLV  146 (520)
T ss_dssp             EC-CSSCCCE-EECC--CCCCCSEEECCSSCCSSCCCCGG-GGGCTTCCEEEEEESSCCG---GGGGGGTTSCEEEEEEE
T ss_pred             ec-CCCceee-cCcc--ccCCccEEeccCCccccccchhh-hccCCcceEEEecCcccch---hhccccccceeeEEEee
Confidence            99 9999984 4544  89999999999999985 35666 8999999999999999875   456677777  999999


Q ss_pred             CCcC--CccCChhhhc----------------------------------------------------------------
Q 042011          162 NNNF--RCHIPVEIGD----------------------------------------------------------------  175 (361)
Q Consensus       162 ~n~l--~~~~~~~~~~----------------------------------------------------------------  175 (361)
                      +|.+  .+..|..+..                                                                
T Consensus       147 ~n~l~~~~~~~~~l~~l~~~~l~l~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~l~~l~~L~~L~  226 (520)
T 2z7x_B          147 LGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLT  226 (520)
T ss_dssp             ECTTTTSSCCTTTTTTCCEEEEEEECCSSSCCCCCCCCCCTTCSEEEECCEEECCSTTTTHHHHHHHHGGGGCTTCCEEE
T ss_pred             cccccccccccccccccccceEEEEeccCcchhhhhhhhhhcccceeeccccccccccccceeecchhhhccccchhhcc
Confidence            9988  4344433322                                                                


Q ss_pred             ------------------cCCCccEEEecCCccccccCccc---------------------------------------
Q 042011          176 ------------------ILPSLKFFNISMNALDGSIPSSF---------------------------------------  198 (361)
Q Consensus       176 ------------------~l~~L~~L~L~~n~l~~~~~~~l---------------------------------------  198 (361)
                                        ..++|++|++++|.+++.+|..+                                       
T Consensus       227 l~~~~l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~p~~~~~~~~~~l~~L~~l~l~~n~~~~p~~~~~~~~~~~~L~~  306 (520)
T 2z7x_B          227 LNNIETTWNSFIRILQLVWHTTVWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKN  306 (520)
T ss_dssp             EEEEEEEHHHHHHHHHHHHTSSCSEEEEEEEEEESCCCCCCCCCCSCCCCEEEEEEEEECCCCSCTHHHHHHHHTCCCSE
T ss_pred             ccccccCHHHHHHHHHHhhhCcccEEEeecccccCccccchhhcccccCceeEeccccccceecchhhhhcccccCceeE
Confidence                              01267788888887776555544                                       


Q ss_pred             --------------cCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCC--cccccccCCCCCCEEeccCCc
Q 042011          199 --------------GNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEG--HMFSRNFNLTNLEWLQLGGNR  262 (361)
Q Consensus       199 --------------~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~--~~~~~~~~~~~L~~L~L~~n~  262 (361)
                                    ..+++|++|++++|.+++.+|..+. .+++|++|++++|++++  ..+..+..+++|+.|++++|+
T Consensus       307 L~l~~n~l~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~-~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~  385 (520)
T 2z7x_B          307 FTVSGTRMVHMLCPSKISPFLHLDFSNNLLTDTVFENCG-HLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNS  385 (520)
T ss_dssp             EEEESSCCCCCCCCSSCCCCCEEECCSSCCCTTTTTTCC-CCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSC
T ss_pred             EEcCCCccccccchhhCCcccEEEeECCccChhhhhhhc-cCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCc
Confidence                          5778999999999999966777665 89999999999999997  455778999999999999999


Q ss_pred             CCccchh-hhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCccc
Q 042011          263 FVGEIPQ-SLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISH  317 (361)
Q Consensus       263 l~~~~~~-~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~  317 (361)
                      +++.+|. .+..+++|++|++++|++++..|..+.  ++|++|++++|+++. +|.
T Consensus       386 l~~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~--~~L~~L~Ls~N~l~~-ip~  438 (520)
T 2z7x_B          386 VSYDEKKGDCSWTKSLLSLNMSSNILTDTIFRCLP--PRIKVLDLHSNKIKS-IPK  438 (520)
T ss_dssp             CBCCGGGCSCCCCTTCCEEECCSSCCCGGGGGSCC--TTCCEEECCSSCCCC-CCG
T ss_pred             CCcccccchhccCccCCEEECcCCCCCcchhhhhc--ccCCEEECCCCcccc-cch
Confidence            9974665 488899999999999999988776664  799999999999994 553

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=100.00  E-value=7.1e-35  Score=263.84  Aligned_cols=298  Identities=24%  Similarity=0.291  Sum_probs=241.2

Q ss_pred             CCCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccc
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQ   80 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~   80 (361)
                      +++|++|+++++.++ .++.  +..+++|++|++++|+++ .++  .+..+++|++|++++|.+++.     ..+..+.+
T Consensus        43 l~~L~~L~l~~~~i~-~~~~--~~~~~~L~~L~l~~n~i~-~~~--~~~~l~~L~~L~L~~n~i~~~-----~~~~~l~~  111 (347)
T 4fmz_A           43 LESITKLVVAGEKVA-SIQG--IEYLTNLEYLNLNGNQIT-DIS--PLSNLVKLTNLYIGTNKITDI-----SALQNLTN  111 (347)
T ss_dssp             HTTCSEEECCSSCCC-CCTT--GGGCTTCCEEECCSSCCC-CCG--GGTTCTTCCEEECCSSCCCCC-----GGGTTCTT
T ss_pred             cccccEEEEeCCccc-cchh--hhhcCCccEEEccCCccc-cch--hhhcCCcCCEEEccCCcccCc-----hHHcCCCc
Confidence            367899999999997 7775  888999999999999998 555  288999999999999988763     23667789


Q ss_pred             ccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEc
Q 042011           81 LNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDI  160 (361)
Q Consensus        81 L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l  160 (361)
                      |++|++ ++|.+....+  +..+++|++|++++|.....++.  +..+++|++|++++|.+.+..+  +..+++|++|++
T Consensus       112 L~~L~l-~~n~i~~~~~--~~~l~~L~~L~l~~n~~~~~~~~--~~~l~~L~~L~l~~~~~~~~~~--~~~l~~L~~L~l  184 (347)
T 4fmz_A          112 LRELYL-NEDNISDISP--LANLTKMYSLNLGANHNLSDLSP--LSNMTGLNYLTVTESKVKDVTP--IANLTDLYSLSL  184 (347)
T ss_dssp             CSEEEC-TTSCCCCCGG--GTTCTTCCEEECTTCTTCCCCGG--GTTCTTCCEEECCSSCCCCCGG--GGGCTTCSEEEC
T ss_pred             CCEEEC-cCCcccCchh--hccCCceeEEECCCCCCcccccc--hhhCCCCcEEEecCCCcCCchh--hccCCCCCEEEc
Confidence            999999 8888876533  88899999999999965545544  7889999999999998876433  778889999999


Q ss_pred             cCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCC
Q 042011          161 SNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE  240 (361)
Q Consensus       161 ~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~  240 (361)
                      ++|.+. .++. + ..+++|+.+++++|.+++..+  +..+++|++|++++|.++ .++.  +..+++|++|++++|.++
T Consensus       185 ~~n~l~-~~~~-~-~~l~~L~~L~l~~n~l~~~~~--~~~~~~L~~L~l~~n~l~-~~~~--~~~l~~L~~L~l~~n~l~  256 (347)
T 4fmz_A          185 NYNQIE-DISP-L-ASLTSLHYFTAYVNQITDITP--VANMTRLNSLKIGNNKIT-DLSP--LANLSQLTWLEIGTNQIS  256 (347)
T ss_dssp             TTSCCC-CCGG-G-GGCTTCCEEECCSSCCCCCGG--GGGCTTCCEEECCSSCCC-CCGG--GTTCTTCCEEECCSSCCC
T ss_pred             cCCccc-cccc-c-cCCCccceeecccCCCCCCch--hhcCCcCCEEEccCCccC-CCcc--hhcCCCCCEEECCCCccC
Confidence            999987 5554 3 348899999999998884433  778889999999999988 5555  347889999999999888


Q ss_pred             CcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcccccc
Q 042011          241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHL  320 (361)
Q Consensus       241 ~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~  320 (361)
                      +.  ..+..+++|+.|++++|++++.  ..+..+++|+.|++++|++++..+..+..+++|++|++++|++++..|...+
T Consensus       257 ~~--~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~l  332 (347)
T 4fmz_A          257 DI--NAVKDLTKLKMLNVGSNQISDI--SVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNHITDIRPLASL  332 (347)
T ss_dssp             CC--GGGTTCTTCCEEECCSSCCCCC--GGGGGCTTCSEEECCSSCCCGGGHHHHHTCTTCSEEECCSSSCCCCGGGGGC
T ss_pred             CC--hhHhcCCCcCEEEccCCccCCC--hhhcCCCCCCEEECcCCcCCCcChhHhhccccCCEEEccCCccccccChhhh
Confidence            74  4677889999999999988854  4578889999999999999887777788889999999999999887775556


Q ss_pred             cccccchh
Q 042011          321 LNLHGICK  328 (361)
Q Consensus       321 ~~~~~~~~  328 (361)
                      ..+..+..
T Consensus       333 ~~L~~L~l  340 (347)
T 4fmz_A          333 SKMDSADF  340 (347)
T ss_dssp             TTCSEESS
T ss_pred             hccceeeh
Confidence            66555443

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=100.00  E-value=1.3e-35  Score=298.04  Aligned_cols=305  Identities=17%  Similarity=0.165  Sum_probs=213.8

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      +++++|||++|.|++..|. .|.++++|++|+|++|...+.++..+|.++++|++|++++|.+.+..+..   +..+.+|
T Consensus        24 ~~l~~LdLs~N~i~~i~~~-~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~---~~~l~~L   99 (844)
T 3j0a_A           24 NTTERLLLSFNYIRTVTAS-SFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDA---FQGLFHL   99 (844)
T ss_dssp             TTCCEEEEESCCCCEECSS-SCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCCEECTTS---SCSCSSC
T ss_pred             CCcCEEECCCCcCCccChh-HCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCcccCHhH---ccCCccc
Confidence            5789999999999844455 89999999999999997666775578899999999999999998776665   5677799


Q ss_pred             cEEeccCCCCCCCCCchh--hcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCC--CCcCE
Q 042011           82 NSLSLSSDYGDGFIFPKF--LYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSH--RWLEF  157 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~~~~--l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l--~~L~~  157 (361)
                      ++|++ ++|.+.+..+..  +..+++|++|++++|.+++..+...++++++|++|++++|.+.+..+..+..+  ++|+.
T Consensus       100 ~~L~L-s~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~~~~l~~l~~~~L~~  178 (844)
T 3j0a_A          100 FELRL-YFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSF  178 (844)
T ss_dssp             CCEEC-TTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCCCSGGGHHHHHCSSCC
T ss_pred             CEeeC-cCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCeeCHHHcccccCCccce
Confidence            99999 888888755544  88899999999999998865554447889999999999998887666666655  66777


Q ss_pred             EEccCCcCCccCChhhhccCC------CccEEEecCCccccccCcccc--------------------------------
Q 042011          158 LDISNNNFRCHIPVEIGDILP------SLKFFNISMNALDGSIPSSFG--------------------------------  199 (361)
Q Consensus       158 L~l~~n~l~~~~~~~~~~~l~------~L~~L~L~~n~l~~~~~~~l~--------------------------------  199 (361)
                      |++++|.+.+..+..+.. ++      .|+.|++++|.+++..+..+.                                
T Consensus       179 L~L~~n~l~~~~~~~~~~-~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~~l~~L~l~~~~~~~~~~~~~l~~~~~  257 (844)
T 3j0a_A          179 FSLAANSLYSRVSVDWGK-CMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQ  257 (844)
T ss_dssp             CEECCSBSCCCCCCCCCS-SSCTTTTCCBSEEBCSSCCSSTTTTSGGGGTSCSCCBSEEECCSSCCBCSSSCSSSTTGGG
T ss_pred             EECCCCccccccccchhh-cCCccccCceeEEecCCCcCchhHHHHHHhhcCcccccceecccccccccccccccCCCCh
Confidence            777777666544443322 22      266666666654433222111                                


Q ss_pred             ----C--CCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhc
Q 042011          200 ----N--MNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSK  273 (361)
Q Consensus       200 ----~--~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~  273 (361)
                          +  .++|++|++++|.+. .++...+..+++|+.|++++|++++..+..+..+++|+.|++++|++++..+..|..
T Consensus       258 ~~f~~l~~~~L~~L~Ls~n~l~-~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~  336 (844)
T 3j0a_A          258 NTFAGLARSSVRHLDLSHGFVF-SLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYG  336 (844)
T ss_dssp             TTTTTTTTSCCCEEECTTCCCC-EECSCCSSSCCCCCEEEEESCCCCEECTTTTTTCSSCCEEEEESCCCSCCCSCSCSS
T ss_pred             hhhhccccCCccEEECCCCccc-ccChhhhhcCCCCCEEECCCCcCCCCChHHhcCCCCCCEEECCCCCCCccCHHHhcC
Confidence                1  145666666666666 333333346666777777777666666666666666777777777666555666666


Q ss_pred             CCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccC
Q 042011          274 CSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTS  313 (361)
Q Consensus       274 l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~  313 (361)
                      +++|+.|++++|.+++..+..|..+++|+.|++++|.+++
T Consensus       337 l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~  376 (844)
T 3j0a_A          337 LPKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNALTT  376 (844)
T ss_dssp             CTTCCEEECCSCCCCCCCSSCSCSCCCCCEEEEETCCSCC
T ss_pred             CCCCCEEECCCCCCCccChhhhcCCCCCCEEECCCCCCCc
Confidence            6677777777776666555666666666666666666654

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=100.00  E-value=2.2e-35  Score=285.71  Aligned_cols=300  Identities=19%  Similarity=0.195  Sum_probs=230.3

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      ++++.+++++|.+. .+|...|.++++|++|+|++|.+++ ++...|..+++|++|++++|.+++..+..   +..+.+|
T Consensus        51 ~~l~~l~l~~~~l~-~lp~~~~~~l~~L~~L~L~~n~l~~-~~~~~~~~l~~L~~L~L~~n~l~~~~~~~---~~~l~~L  125 (597)
T 3oja_B           51 NNQKIVTFKNSTMR-KLPAALLDSFRQVELLNLNDLQIEE-IDTYAFAYAHTIQKLYMGFNAIRYLPPHV---FQNVPLL  125 (597)
T ss_dssp             CCCSEEEESSCEES-EECTHHHHHCCCCSEEECTTSCCCE-ECTTTTTTCTTCCEEECCSSCCCCCCTTT---TTTCTTC
T ss_pred             CCceEEEeeCCCCC-CcCHHHHccCCCCcEEECCCCCCCC-CChHHhcCCCCCCEEECCCCcCCCCCHHH---HcCCCCC
Confidence            56788888888886 7777678888888888888888874 44357888888888888888887765554   4566688


Q ss_pred             cEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCC-------
Q 042011           82 NSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRW-------  154 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~-------  154 (361)
                      ++|++ ++|.++...+..|..+++|++|++++|.+++..|.. +.++++|++|++++|.+.+..   +..+++       
T Consensus       126 ~~L~L-~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~-~~~l~~L~~L~L~~N~l~~~~---~~~l~~L~~L~l~  200 (597)
T 3oja_B          126 TVLVL-ERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDT-FQATTSLQNLQLSSNRLTHVD---LSLIPSLFHANVS  200 (597)
T ss_dssp             CEEEC-CSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTT-TTTCTTCCEEECTTSCCSBCC---GGGCTTCSEEECC
T ss_pred             CEEEe-eCCCCCCCCHHHhccCCCCCEEEeeCCcCCCCChhh-hhcCCcCcEEECcCCCCCCcC---hhhhhhhhhhhcc
Confidence            88888 888888766666788888888888888887544444 778888888888888887542   233344       


Q ss_pred             ------------cCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhh
Q 042011          155 ------------LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHL  222 (361)
Q Consensus       155 ------------L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~  222 (361)
                                  |+.|++++|.+. .++...   .++|+.|++++|.+++  +..+..+++|++|++++|.+.+..|..+
T Consensus       201 ~n~l~~l~~~~~L~~L~ls~n~l~-~~~~~~---~~~L~~L~L~~n~l~~--~~~l~~l~~L~~L~Ls~N~l~~~~~~~~  274 (597)
T 3oja_B          201 YNLLSTLAIPIAVEELDASHNSIN-VVRGPV---NVELTILKLQHNNLTD--TAWLLNYPGLVEVDLSYNELEKIMYHPF  274 (597)
T ss_dssp             SSCCSEEECCTTCSEEECCSSCCC-EEECSC---CSCCCEEECCSSCCCC--CGGGGGCTTCSEEECCSSCCCEEESGGG
T ss_pred             cCccccccCCchhheeeccCCccc-cccccc---CCCCCEEECCCCCCCC--ChhhccCCCCCEEECCCCccCCCCHHHh
Confidence                        555555555554 333332   3578888888888874  3568889999999999999985556555


Q ss_pred             hhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcce
Q 042011          223 AVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLF  302 (361)
Q Consensus       223 ~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~  302 (361)
                      . .+++|+.|++++|.+++ .+..+..+++|+.|++++|.++ .+|..+..+++|+.|++++|.+++..   +..+++|+
T Consensus       275 ~-~l~~L~~L~Ls~N~l~~-l~~~~~~l~~L~~L~Ls~N~l~-~i~~~~~~l~~L~~L~L~~N~l~~~~---~~~~~~L~  348 (597)
T 3oja_B          275 V-KMQRLERLYISNNRLVA-LNLYGQPIPTLKVLDLSHNHLL-HVERNQPQFDRLENLYLDHNSIVTLK---LSTHHTLK  348 (597)
T ss_dssp             T-TCSSCCEEECTTSCCCE-EECSSSCCTTCCEEECCSSCCC-CCGGGHHHHTTCSEEECCSSCCCCCC---CCTTCCCS
T ss_pred             c-CccCCCEEECCCCCCCC-CCcccccCCCCcEEECCCCCCC-ccCcccccCCCCCEEECCCCCCCCcC---hhhcCCCC
Confidence            4 78999999999999987 4666677899999999999998 57777888999999999999998642   66778999


Q ss_pred             eeccccccccCCccccccccc
Q 042011          303 NLSQNSRRFTSSISHSHLLNL  323 (361)
Q Consensus       303 ~l~l~~N~~~~~~~~~~~~~~  323 (361)
                      .|++++|+|.|.+...++..+
T Consensus       349 ~L~l~~N~~~~~~~~~~~~~~  369 (597)
T 3oja_B          349 NLTLSHNDWDCNSLRALFRNV  369 (597)
T ss_dssp             EEECCSSCEEHHHHHHHTTTC
T ss_pred             EEEeeCCCCCChhHHHHHHHH
Confidence            999999999887655554443

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=100.00  E-value=2.5e-34  Score=260.23  Aligned_cols=282  Identities=21%  Similarity=0.275  Sum_probs=241.2

Q ss_pred             CCCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccc
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQ   80 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~   80 (361)
                      +++|++|++++|+++ .++.  +..+++|++|++++|.++ .++  .+..+++|++|++++|.+.+..+     +..+.+
T Consensus        65 ~~~L~~L~l~~n~i~-~~~~--~~~l~~L~~L~L~~n~i~-~~~--~~~~l~~L~~L~l~~n~i~~~~~-----~~~l~~  133 (347)
T 4fmz_A           65 LTNLEYLNLNGNQIT-DISP--LSNLVKLTNLYIGTNKIT-DIS--ALQNLTNLRELYLNEDNISDISP-----LANLTK  133 (347)
T ss_dssp             CTTCCEEECCSSCCC-CCGG--GTTCTTCCEEECCSSCCC-CCG--GGTTCTTCSEEECTTSCCCCCGG-----GTTCTT
T ss_pred             cCCccEEEccCCccc-cchh--hhcCCcCCEEEccCCccc-Cch--HHcCCCcCCEEECcCCcccCchh-----hccCCc
Confidence            578999999999998 7776  999999999999999998 454  69999999999999999986433     567779


Q ss_pred             ccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEc
Q 042011           81 LNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDI  160 (361)
Q Consensus        81 L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l  160 (361)
                      |++|++ ++|...... ..+..+++|++|++++|.+. .++.  +..+++|++|++++|.+.+..+  +..+++|+.+++
T Consensus       134 L~~L~l-~~n~~~~~~-~~~~~l~~L~~L~l~~~~~~-~~~~--~~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~l  206 (347)
T 4fmz_A          134 MYSLNL-GANHNLSDL-SPLSNMTGLNYLTVTESKVK-DVTP--IANLTDLYSLSLNYNQIEDISP--LASLTSLHYFTA  206 (347)
T ss_dssp             CCEEEC-TTCTTCCCC-GGGTTCTTCCEEECCSSCCC-CCGG--GGGCTTCSEEECTTSCCCCCGG--GGGCTTCCEEEC
T ss_pred             eeEEEC-CCCCCcccc-cchhhCCCCcEEEecCCCcC-Cchh--hccCCCCCEEEccCCccccccc--ccCCCccceeec
Confidence            999999 777544333 34889999999999999998 4444  7899999999999999986433  888999999999


Q ss_pred             cCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCC
Q 042011          161 SNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE  240 (361)
Q Consensus       161 ~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~  240 (361)
                      ++|.++ .++. + ..+++|++|++++|.+++. +. +..+++|++|++++|.++ .++ .+ ..+++|++|++++|+++
T Consensus       207 ~~n~l~-~~~~-~-~~~~~L~~L~l~~n~l~~~-~~-~~~l~~L~~L~l~~n~l~-~~~-~~-~~l~~L~~L~l~~n~l~  278 (347)
T 4fmz_A          207 YVNQIT-DITP-V-ANMTRLNSLKIGNNKITDL-SP-LANLSQLTWLEIGTNQIS-DIN-AV-KDLTKLKMLNVGSNQIS  278 (347)
T ss_dssp             CSSCCC-CCGG-G-GGCTTCCEEECCSSCCCCC-GG-GTTCTTCCEEECCSSCCC-CCG-GG-TTCTTCCEEECCSSCCC
T ss_pred             ccCCCC-CCch-h-hcCCcCCEEEccCCccCCC-cc-hhcCCCCCEEECCCCccC-CCh-hH-hcCCCcCEEEccCCccC
Confidence            999998 5544 3 4489999999999999844 33 889999999999999998 554 33 47999999999999998


Q ss_pred             CcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeecccccccc
Q 042011          241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFT  312 (361)
Q Consensus       241 ~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~  312 (361)
                      +.  ..+..+++|+.|++++|++++..+..+..+++|+.|++++|++++..|  +..+++|++|++++|+++
T Consensus       279 ~~--~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~L~~n~l~~~~~--~~~l~~L~~L~l~~N~i~  346 (347)
T 4fmz_A          279 DI--SVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNHITDIRP--LASLSKMDSADFANQVIK  346 (347)
T ss_dssp             CC--GGGGGCTTCSEEECCSSCCCGGGHHHHHTCTTCSEEECCSSSCCCCGG--GGGCTTCSEESSSCC---
T ss_pred             CC--hhhcCCCCCCEEECcCCcCCCcChhHhhccccCCEEEccCCccccccC--hhhhhccceeehhhhccc
Confidence            84  467889999999999999998899999999999999999999998766  888999999999999986

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=100.00  E-value=3.3e-35  Score=282.10  Aligned_cols=162  Identities=23%  Similarity=0.254  Sum_probs=98.8

Q ss_pred             CCCCCcCEEEccCCcCCccCCh--hhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCC
Q 042011          150 HSHRWLEFLDISNNNFRCHIPV--EIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCV  227 (361)
Q Consensus       150 ~~l~~L~~L~l~~n~l~~~~~~--~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~  227 (361)
                      ..+++|++|++++|+++ .++.  ..+..+++|++|++++|.++ .+|..+..+++|++|++++|.++ .+|..+   .+
T Consensus       358 ~~l~~L~~L~Ls~N~l~-~~~~~~~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~~~~L~~L~Ls~N~l~-~l~~~~---~~  431 (549)
T 2z81_A          358 GAWPSLQTLVLSQNHLR-SMQKTGEILLTLKNLTSLDISRNTFH-PMPDSCQWPEKMRFLNLSSTGIR-VVKTCI---PQ  431 (549)
T ss_dssp             TSSTTCCEEECTTSCCC-CHHHHHHHGGGCTTCCEEECTTCCCC-CCCSCCCCCTTCCEEECTTSCCS-CCCTTS---CT
T ss_pred             hccccCcEEEccCCccc-ccccchhhhhcCCCCCEEECCCCCCc-cCChhhcccccccEEECCCCCcc-cccchh---cC
Confidence            34444444444444444 2221  12222455555555555554 44444555555555555555554 444322   24


Q ss_pred             CCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccc
Q 042011          228 NLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQN  307 (361)
Q Consensus       228 ~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~  307 (361)
                      +|++|++++|++++..    ..+++|++|++++|+++ .+|. ...+++|+.|++++|++++.+|..+..+++|+.|+++
T Consensus       432 ~L~~L~Ls~N~l~~~~----~~l~~L~~L~Ls~N~l~-~ip~-~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~l~  505 (549)
T 2z81_A          432 TLEVLDVSNNNLDSFS----LFLPRLQELYISRNKLK-TLPD-ASLFPVLLVMKISRNQLKSVPDGIFDRLTSLQKIWLH  505 (549)
T ss_dssp             TCSEEECCSSCCSCCC----CCCTTCCEEECCSSCCS-SCCC-GGGCTTCCEEECCSSCCCCCCTTGGGGCTTCCEEECC
T ss_pred             CceEEECCCCChhhhc----ccCChhcEEECCCCccC-cCCC-cccCccCCEEecCCCccCCcCHHHHhcCcccCEEEec
Confidence            5666666666655432    36778888888888887 4554 4567888888888888888777778888888888888


Q ss_pred             cccccCCccc-cccccc
Q 042011          308 SRRFTSSISH-SHLLNL  323 (361)
Q Consensus       308 ~N~~~~~~~~-~~~~~~  323 (361)
                      +|+++|.+|. .++..|
T Consensus       506 ~N~~~~~~~~~~~l~~~  522 (549)
T 2z81_A          506 TNPWDCSCPRIDYLSRW  522 (549)
T ss_dssp             SSCBCCCHHHHHHHHHH
T ss_pred             CCCccCCCccHHHHHHH
Confidence            8888888773 334333

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=100.00  E-value=4.6e-35  Score=281.80  Aligned_cols=294  Identities=18%  Similarity=0.148  Sum_probs=238.5

Q ss_pred             CCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccccc
Q 042011            3 SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLN   82 (361)
Q Consensus         3 ~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~   82 (361)
                      ..+++++++|+++ .+|. .+  .++|++|++++|.++ .++...|.++++|++|++++|.+++..+..   +..+.+|+
T Consensus        32 ~~~~l~ls~~~L~-~ip~-~~--~~~L~~L~Ls~N~i~-~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~---~~~l~~L~  103 (562)
T 3a79_B           32 LESMVDYSNRNLT-HVPK-DL--PPRTKALSLSQNSIS-ELRMPDISFLSELRVLRLSHNRIRSLDFHV---FLFNQDLE  103 (562)
T ss_dssp             -CCEEECTTSCCC-SCCT-TS--CTTCCEEECCSSCCC-CCCGGGTTTCTTCCEEECCSCCCCEECTTT---TTTCTTCC
T ss_pred             CCcEEEcCCCCCc-cCCC-CC--CCCcCEEECCCCCcc-ccChhhhccCCCccEEECCCCCCCcCCHHH---hCCCCCCC
Confidence            3478999999998 7997 33  289999999999998 565578999999999999999999876655   56678999


Q ss_pred             EEeccCCCCCCCCCchhhcCCCCccEEEecCCcccC-CcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCc--CEEE
Q 042011           83 SLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG-EFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWL--EFLD  159 (361)
Q Consensus        83 ~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~-~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L--~~L~  159 (361)
                      +|++ ++|.++. +|..  .+++|++|++++|.+++ .+|.. ++++++|++|++++|++.+.   .+..+++|  ++|+
T Consensus       104 ~L~L-s~N~l~~-lp~~--~l~~L~~L~Ls~N~l~~l~~p~~-~~~l~~L~~L~L~~n~l~~~---~~~~l~~L~L~~L~  175 (562)
T 3a79_B          104 YLDV-SHNRLQN-ISCC--PMASLRHLDLSFNDFDVLPVCKE-FGNLTKLTFLGLSAAKFRQL---DLLPVAHLHLSCIL  175 (562)
T ss_dssp             EEEC-TTSCCCE-ECSC--CCTTCSEEECCSSCCSBCCCCGG-GGGCTTCCEEEEECSBCCTT---TTGGGTTSCEEEEE
T ss_pred             EEEC-CCCcCCc-cCcc--ccccCCEEECCCCCccccCchHh-hcccCcccEEecCCCccccC---chhhhhhceeeEEE
Confidence            9999 9999984 4444  79999999999999984 23355 89999999999999999853   45555555  9999


Q ss_pred             ccCCcC--CccCChhhhc--------------------------------------------------------------
Q 042011          160 ISNNNF--RCHIPVEIGD--------------------------------------------------------------  175 (361)
Q Consensus       160 l~~n~l--~~~~~~~~~~--------------------------------------------------------------  175 (361)
                      +++|.+  ++..|..+..                                                              
T Consensus       176 L~~n~l~~~~~~~~~l~~l~~~~l~l~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~l~~~~~~l~~l~~L~~L~  255 (562)
T 3a79_B          176 LDLVSYHIKGGETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQRLMTFLSELTRGPTLLNVT  255 (562)
T ss_dssp             EEESSCCCCSSSCCEEEECCEEEEEEEECSSSCCCCCCEEEESSEEEEEEEEEECCSTTHHHHHHHHHHHHSCSSCEEEE
T ss_pred             eecccccccccCcccccccCcceEEEEecCccchhhhhhhcccccceEEEecccccccccchHHHHHHHHhccCcceEEE
Confidence            999988  4333333222                                                              


Q ss_pred             ------------------cCCCccEEEecCCccccccCccc---------------------------------------
Q 042011          176 ------------------ILPSLKFFNISMNALDGSIPSSF---------------------------------------  198 (361)
Q Consensus       176 ------------------~l~~L~~L~L~~n~l~~~~~~~l---------------------------------------  198 (361)
                                        ..++|++|++++|.+++.+|..+                                       
T Consensus       256 L~~~~l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~ip~~~~~~~~~~L~~L~~~~~~~~~~~~p~~~~~~~~~~~~L~~  335 (562)
T 3a79_B          256 LQHIETTWKCSVKLFQFFWPRPVEYLNIYNLTITERIDREEFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKM  335 (562)
T ss_dssp             EEEEEECHHHHHHHHHHHTTSSEEEEEEEEEEECSCCCCCCCCCCSCSCCEEEEEEEEECCCSSCHHHHHHHHHTCCCSE
T ss_pred             ecCCcCcHHHHHHHHHhhhcccccEEEEeccEeeccccchhhhcccccchheehhhcccceeecChhhhhhhhccCcceE
Confidence                              01267788888888776666544                                       


Q ss_pred             --------------cCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCc--ccccccCCCCCCEEeccCCc
Q 042011          199 --------------GNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGH--MFSRNFNLTNLEWLQLGGNR  262 (361)
Q Consensus       199 --------------~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~--~~~~~~~~~~L~~L~L~~n~  262 (361)
                                    ..+++|++|++++|.+++.+|..+. .+++|++|++++|++++.  .+..+..+++|+.|++++|+
T Consensus       336 L~l~~n~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~-~l~~L~~L~L~~N~l~~~~~~~~~~~~l~~L~~L~l~~N~  414 (562)
T 3a79_B          336 LSISDTPFIHMVCPPSPSSFTFLNFTQNVFTDSVFQGCS-TLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNS  414 (562)
T ss_dssp             EEEESSCCCCCCCCSSCCCCCEEECCSSCCCTTTTTTCC-SCSSCCEEECCSSCCCBTTHHHHTTTTCTTCCEEECTTSC
T ss_pred             EEccCCCcccccCccCCCCceEEECCCCccccchhhhhc-ccCCCCEEECCCCCcCCcccchhhhcCCCCCCEEECCCCc
Confidence                          6778999999999999966776664 899999999999999974  34678899999999999999


Q ss_pred             CCccch-hhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcc
Q 042011          263 FVGEIP-QSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSIS  316 (361)
Q Consensus       263 l~~~~~-~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~  316 (361)
                      +++.+| ..+..+++|++|++++|++++.+|..+.  ++|++|++++|+++. +|
T Consensus       415 l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~--~~L~~L~L~~N~l~~-ip  466 (562)
T 3a79_B          415 LNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLP--PKVKVLDLHNNRIMS-IP  466 (562)
T ss_dssp             CBSCCSSCCCCCCTTCCEEECCSSCCCGGGGSSCC--TTCSEEECCSSCCCC-CC
T ss_pred             CCCccChhhhcCcccCCEEECCCCCCCcchhhhhc--CcCCEEECCCCcCcc-cC
Confidence            997455 4588899999999999999987776654  799999999999985 44

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=100.00  E-value=2.6e-35  Score=284.05  Aligned_cols=141  Identities=25%  Similarity=0.204  Sum_probs=104.4

Q ss_pred             cCCCccEEEecCCcccccc--CccccCCCCCCEEeccCCcC-----------------------ccccchhhhhCCCCCc
Q 042011          176 ILPSLKFFNISMNALDGSI--PSSFGNMNFLRVLDLSNNQL-----------------------TGEIPEHLAVGCVNLE  230 (361)
Q Consensus       176 ~l~~L~~L~L~~n~l~~~~--~~~l~~~~~L~~L~l~~n~l-----------------------~~~~~~~~~~~~~~L~  230 (361)
                      .+++|++|++++|.+++..  +..+..+++|++|++++|.+                       .+..+...+..+++|+
T Consensus       345 ~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~  424 (570)
T 2z63_A          345 DLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLI  424 (570)
T ss_dssp             BCTTCCEEECCSSCCBEEEEEEHHHHTCSCCCEEECCSCSEEEEEEEEETCTTCCEEECTTSEEESCTTSCTTTTCTTCC
T ss_pred             cCCCCCEEeCcCCccCccccccccccccCccCEEECCCCccccccccccccCCCCEEEccCCccccccchhhhhcCCCCC
Confidence            3688999999999987432  44455555555555555544                       4222323334667777


Q ss_pred             EEEeecCCCCCcccccccCCCCCCEEeccCCcCC-ccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccc
Q 042011          231 SLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFV-GEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSR  309 (361)
Q Consensus       231 ~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~-~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N  309 (361)
                      +|++++|.+.+..+..+..+++|+.|++++|+++ +.+|..+..+++|+.|++++|++++..|..+..+++|++|++++|
T Consensus       425 ~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~p~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n  504 (570)
T 2z63_A          425 YLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASN  504 (570)
T ss_dssp             EEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS
T ss_pred             EEeCcCCcccccchhhhhcCCcCcEEECcCCcCccccchhhhhcccCCCEEECCCCccccCChhhhhcccCCCEEeCCCC
Confidence            7777777777767777778888888888888886 467788888889999999999998887888888999999999999


Q ss_pred             cccCCcc
Q 042011          310 RFTSSIS  316 (361)
Q Consensus       310 ~~~~~~~  316 (361)
                      ++++..+
T Consensus       505 ~l~~~~~  511 (570)
T 2z63_A          505 QLKSVPD  511 (570)
T ss_dssp             CCSCCCT
T ss_pred             cCCCCCH
Confidence            9887655

>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=3.7e-35  Score=291.52  Aligned_cols=302  Identities=18%  Similarity=0.249  Sum_probs=204.2

Q ss_pred             CCCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCc-ccc-cCCccccc-------CCCCCcEEEccCCCccccccc-
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNH-FQI-PISLEPLF-------NHSRLKIFYADNNELNAEITQ-   70 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~-l~~-~~~~~~~~-------~l~~L~~L~l~~n~~~~~~~~-   70 (361)
                      |++|++|+|++|++.+.+|. .|.++++|++|+|++|+ +++ .+| ..+.       .+++|++|++++|.++ .++. 
T Consensus       490 L~~L~~L~Ls~N~l~~~iP~-~l~~L~~L~~L~Ls~N~~lsg~~iP-~~i~~L~~~~~~l~~L~~L~Ls~N~L~-~ip~~  566 (876)
T 4ecn_A          490 LKDLTDVELYNCPNMTQLPD-FLYDLPELQSLNIACNRGISAAQLK-ADWTRLADDEDTGPKIQIFYMGYNNLE-EFPAS  566 (876)
T ss_dssp             CTTCCEEEEESCTTCCSCCG-GGGGCSSCCEEECTTCTTSCHHHHH-HHHHHHHHCTTTTTTCCEEECCSSCCC-BCCCH
T ss_pred             CCCCCEEECcCCCCCccChH-HHhCCCCCCEEECcCCCCcccccch-HHHHhhhhcccccCCccEEEeeCCcCC-ccCCh
Confidence            35566666666666556665 56666666666666665 554 333 1222       2235555555555544 2222 


Q ss_pred             -cc-------------------ccccCcccccEEeccCCCCCCCCCchhhcCCCC-ccEEEecCCcccCCcChHHHhcCC
Q 042011           71 -SH-------------------SLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHD-LALVDLSHIKMNGEFPTWLLENNT  129 (361)
Q Consensus        71 -~~-------------------~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~-L~~L~l~~n~l~~~~~~~~~~~~~  129 (361)
                       .+                   +.+..+.+|++|++ ++|.+. .+|..+..+++ |+.|++++|.++ .+|.. +...+
T Consensus       567 ~~l~~L~~L~~L~Ls~N~l~~lp~~~~L~~L~~L~L-s~N~l~-~lp~~l~~l~~~L~~L~Ls~N~L~-~lp~~-~~~~~  642 (876)
T 4ecn_A          567 ASLQKMVKLGLLDCVHNKVRHLEAFGTNVKLTDLKL-DYNQIE-EIPEDFCAFTDQVEGLGFSHNKLK-YIPNI-FNAKS  642 (876)
T ss_dssp             HHHTTCTTCCEEECTTSCCCBCCCCCTTSEESEEEC-CSSCCS-CCCTTSCEECTTCCEEECCSSCCC-SCCSC-CCTTC
T ss_pred             hhhhcCCCCCEEECCCCCcccchhhcCCCcceEEEC-cCCccc-cchHHHhhccccCCEEECcCCCCC-cCchh-hhccc
Confidence             10                   01333445555555 444444 34444555555 555555555554 44433 22222


Q ss_pred             --CCcEEEecCCcccCCCCCC---cC--CCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccC--
Q 042011          130 --KLETLFLVNDSLTGPFRLP---IH--SHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGN--  200 (361)
Q Consensus       130 --~L~~L~l~~n~l~~~~~~~---~~--~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~--  200 (361)
                        +|+.|++++|.+.+..|..   +.  ..++|+.|++++|+++ .+|..++..+++|+.|++++|.++ .+|..+..  
T Consensus       643 ~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N~L~-~lp~~~~~~l~~L~~L~Ls~N~L~-~ip~~~~~~~  720 (876)
T 4ecn_A          643 VYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQ-KFPTELFATGSPISTIILSNNLMT-SIPENSLKPK  720 (876)
T ss_dssp             SSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSSCCC-SCCHHHHHTTCCCSEEECCSCCCS-CCCTTSSSCT
T ss_pred             cCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccCCcCC-ccCHHHHccCCCCCEEECCCCcCC-ccChHHhccc
Confidence              2555555555555433321   11  2347888888888888 788888866899999999999998 56554433  


Q ss_pred             ------CCCCCEEeccCCcCccccchhhh-hCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccC------CcCCccc
Q 042011          201 ------MNFLRVLDLSNNQLTGEIPEHLA-VGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGG------NRFVGEI  267 (361)
Q Consensus       201 ------~~~L~~L~l~~n~l~~~~~~~~~-~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~------n~l~~~~  267 (361)
                            +++|++|++++|.++ .+|..++ ..+++|+.|++++|++++ .|..+..+++|+.|++++      |++.+.+
T Consensus       721 ~~~l~nl~~L~~L~Ls~N~L~-~lp~~l~~~~l~~L~~L~Ls~N~L~~-lp~~l~~L~~L~~L~Ls~N~~ls~N~l~~~i  798 (876)
T 4ecn_A          721 DGNYKNTYLLTTIDLRFNKLT-SLSDDFRATTLPYLSNMDVSYNCFSS-FPTQPLNSSQLKAFGIRHQRDAEGNRILRQW  798 (876)
T ss_dssp             TSCCTTGGGCCEEECCSSCCC-CCCGGGSTTTCTTCCEEECCSSCCSS-CCCGGGGCTTCCEEECCCCBCTTCCBCCCCC
T ss_pred             cccccccCCccEEECCCCCCc-cchHHhhhccCCCcCEEEeCCCCCCc-cchhhhcCCCCCEEECCCCCCcccccccccC
Confidence                  238999999999999 8998775 479999999999999998 688888999999999976      7788889


Q ss_pred             hhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcc
Q 042011          268 PQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSIS  316 (361)
Q Consensus       268 ~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~  316 (361)
                      |..+..+++|+.|++++|++ +.+|..+.  ++|+.|++++|++...-+
T Consensus       799 p~~l~~L~~L~~L~Ls~N~L-~~Ip~~l~--~~L~~LdLs~N~l~~i~~  844 (876)
T 4ecn_A          799 PTGITTCPSLIQLQIGSNDI-RKVDEKLT--PQLYILDIADNPNISIDV  844 (876)
T ss_dssp             CTTGGGCSSCCEEECCSSCC-CBCCSCCC--SSSCEEECCSCTTCEEEC
T ss_pred             hHHHhcCCCCCEEECCCCCC-CccCHhhc--CCCCEEECCCCCCCccCh
Confidence            99999999999999999999 57777765  699999999999976443

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=100.00  E-value=2.3e-35  Score=283.13  Aligned_cols=303  Identities=17%  Similarity=0.180  Sum_probs=237.7

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      ++|++|++++|++++..|. .|.++++|++|++++|++++ ++..+|.++++|++|++++|.+++..+..   +..+.+|
T Consensus        26 ~~L~~L~Ls~n~l~~~~~~-~~~~l~~L~~L~Ls~n~i~~-~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~---~~~l~~L  100 (549)
T 2z81_A           26 AAMKSLDLSFNKITYIGHG-DLRACANLQVLILKSSRINT-IEGDAFYSLGSLEHLDLSDNHLSSLSSSW---FGPLSSL  100 (549)
T ss_dssp             TTCCEEECCSSCCCEECSS-TTSSCTTCCEEECTTSCCCE-ECTTTTTTCTTCCEEECTTSCCCSCCHHH---HTTCTTC
T ss_pred             CCccEEECcCCccCccChh-hhhcCCcccEEECCCCCcCc-cChhhccccccCCEEECCCCccCccCHHH---hccCCCC
Confidence            4799999999999844455 89999999999999999984 44468999999999999999998766554   5667799


Q ss_pred             cEEeccCCCCCCCC-CchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEc
Q 042011           82 NSLSLSSDYGDGFI-FPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDI  160 (361)
Q Consensus        82 ~~L~l~~~~~~~~~-~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l  160 (361)
                      ++|++ ++|.+... .+..+..+++|++|++++|.+.+.++...+.++++|++|++++|.+.+..|..+..+++|++|++
T Consensus       101 ~~L~L-s~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~l  179 (549)
T 2z81_A          101 KYLNL-MGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTL  179 (549)
T ss_dssp             CEEEC-TTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEE
T ss_pred             cEEEC-CCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhhhhccccCceEec
Confidence            99999 88888763 46678999999999999998555776555889999999999999999888888888888888888


Q ss_pred             cCCcCCccCChhhhccCCCccEEEecCCcccccc--Ccc-----------------------------------------
Q 042011          161 SNNNFRCHIPVEIGDILPSLKFFNISMNALDGSI--PSS-----------------------------------------  197 (361)
Q Consensus       161 ~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~--~~~-----------------------------------------  197 (361)
                      ++|.+. .++..++..+++|++|++++|.+++..  +..                                         
T Consensus       180 ~~n~~~-~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~~~~~~~L~~l~l  258 (549)
T 2z81_A          180 HLSESA-FLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEF  258 (549)
T ss_dssp             ECSBST-THHHHHHHSTTTBSEEEEESCBCTTCCCCCCSSCCCCCCCCEEEEESCEEEHHHHHHHHGGGGGCTTCCEEEE
T ss_pred             ccCccc-ccchhhHhhcccccEEEccCCccccccccccchhhhhhcccceeccccccchhHHHHHHHHhhhhcccccccc
Confidence            887776 666665555677777777777765421  000                                         


Q ss_pred             -----------------------------------------------ccCCCCCCEEeccCCcCccccchhhhhCCCCCc
Q 042011          198 -----------------------------------------------FGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLE  230 (361)
Q Consensus       198 -----------------------------------------------l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~  230 (361)
                                                                     +...++|+++++++|.+. .+|..++..+++|+
T Consensus       259 ~~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~i~~~~~~~~l~~~~~~~~~L~~L~l~~n~l~-~ip~~~~~~l~~L~  337 (549)
T 2z81_A          259 DDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVF-LVPCSFSQHLKSLE  337 (549)
T ss_dssp             ESCEEECCSCCCCCTTTCCCCCTTCCEEEEESCBCSCGGGSCCCCHHHHHSTTCCEEEEESSCCC-CCCHHHHHHCTTCC
T ss_pred             ccccccccccccccchhhhhhhcccccccccccccchhhhcccchhhhhhcccceEEEeccCccc-cCCHHHHhcCcccc
Confidence                                                           001235667777777776 77877766789999


Q ss_pred             EEEeecCCCCCccc---ccccCCCCCCEEeccCCcCCccch--hhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeec
Q 042011          231 SLALSNNSLEGHMF---SRNFNLTNLEWLQLGGNRFVGEIP--QSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLS  305 (361)
Q Consensus       231 ~L~L~~n~l~~~~~---~~~~~~~~L~~L~L~~n~l~~~~~--~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~  305 (361)
                      +|++++|++++..+   ..++.+++|+.|++++|++++..+  ..+..+++|++|++++|+++ .+|..+..+++|++|+
T Consensus       338 ~L~Ls~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~~~~L~~L~  416 (549)
T 2z81_A          338 FLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFH-PMPDSCQWPEKMRFLN  416 (549)
T ss_dssp             EEECCSSCCCHHHHHHHTCTTSSTTCCEEECTTSCCCCHHHHHHHGGGCTTCCEEECTTCCCC-CCCSCCCCCTTCCEEE
T ss_pred             EEEccCCccccccccchhhhhccccCcEEEccCCcccccccchhhhhcCCCCCEEECCCCCCc-cCChhhcccccccEEE
Confidence            99999999887553   346778899999999999985432  56888899999999999998 5677777788888888


Q ss_pred             cccccccC
Q 042011          306 QNSRRFTS  313 (361)
Q Consensus       306 l~~N~~~~  313 (361)
                      +++|.++.
T Consensus       417 Ls~N~l~~  424 (549)
T 2z81_A          417 LSSTGIRV  424 (549)
T ss_dssp             CTTSCCSC
T ss_pred             CCCCCccc
Confidence            88888764

>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=100.00  E-value=9e-34  Score=254.83  Aligned_cols=289  Identities=18%  Similarity=0.173  Sum_probs=165.7

Q ss_pred             CCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccccc
Q 042011            3 SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLN   82 (361)
Q Consensus         3 ~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~   82 (361)
                      +++.++++++.++ .+|. .+  .+++++|++++|+++ .++...|.++++|++|++++|.+++..+..   +..+.+|+
T Consensus        32 ~l~~l~~~~~~l~-~lp~-~~--~~~l~~L~L~~n~i~-~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~---~~~l~~L~  103 (330)
T 1xku_A           32 HLRVVQCSDLGLE-KVPK-DL--PPDTALLDLQNNKIT-EIKDGDFKNLKNLHTLILINNKISKISPGA---FAPLVKLE  103 (330)
T ss_dssp             ETTEEECTTSCCC-SCCC-SC--CTTCCEEECCSSCCC-CBCTTTTTTCTTCCEEECCSSCCCCBCTTT---TTTCTTCC
T ss_pred             CCeEEEecCCCcc-ccCc-cC--CCCCeEEECCCCcCC-EeChhhhccCCCCCEEECCCCcCCeeCHHH---hcCCCCCC
Confidence            4566666666665 5554 22  256666666666666 344345666666666666666666544433   34455666


Q ss_pred             EEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccC--CCCCCcCCCCCcCEEEc
Q 042011           83 SLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTG--PFRLPIHSHRWLEFLDI  160 (361)
Q Consensus        83 ~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~--~~~~~~~~l~~L~~L~l  160 (361)
                      +|++ ++|.++. .|..+.  ++|++|++++|.++ .++...+.++++|++|++++|.+..  ..+..+..+++|++|++
T Consensus       104 ~L~L-s~n~l~~-l~~~~~--~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l  178 (330)
T 1xku_A          104 RLYL-SKNQLKE-LPEKMP--KTLQELRVHENEIT-KVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRI  178 (330)
T ss_dssp             EEEC-CSSCCSB-CCSSCC--TTCCEEECCSSCCC-BBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEEC
T ss_pred             EEEC-CCCcCCc-cChhhc--ccccEEECCCCccc-ccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEEC
Confidence            6666 6666553 232222  56666666666665 4444445666666666666666642  44555666666666666


Q ss_pred             cCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCC
Q 042011          161 SNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE  240 (361)
Q Consensus       161 ~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~  240 (361)
                      ++|.++ .+|..++   ++|++|++++|.+++..+..+..+++|++|++++|.++ .++...+..+++|++|++++|+++
T Consensus       179 ~~n~l~-~l~~~~~---~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~-~~~~~~~~~l~~L~~L~L~~N~l~  253 (330)
T 1xku_A          179 ADTNIT-TIPQGLP---PSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSIS-AVDNGSLANTPHLRELHLNNNKLV  253 (330)
T ss_dssp             CSSCCC-SCCSSCC---TTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCC-EECTTTGGGSTTCCEEECCSSCCS
T ss_pred             CCCccc-cCCcccc---ccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCc-eeChhhccCCCCCCEEECCCCcCc
Confidence            666665 5554432   46666666666666555556666666666666666666 333322335666666666666665


Q ss_pred             CcccccccCCCCCCEEeccCCcCCccchhhhhc------CCCCCEEECcCCcccc--cCCCCCCCcCcceeecccccc
Q 042011          241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSK------CSSLEGLYLNNNSLSG--NVNVPSSPANTLFNLSQNSRR  310 (361)
Q Consensus       241 ~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~------l~~L~~L~l~~N~l~~--~~~~~~~~~~~L~~l~l~~N~  310 (361)
                      . .|..+..+++|+.|++++|++++..+..|..      .++++.+++++|.+..  ..|..|..+.+++.+++++|+
T Consensus       254 ~-lp~~l~~l~~L~~L~l~~N~i~~~~~~~f~~~~~~~~~~~l~~l~l~~N~~~~~~i~~~~f~~~~~l~~l~L~~N~  330 (330)
T 1xku_A          254 K-VPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAVQLGNYK  330 (330)
T ss_dssp             S-CCTTTTTCSSCCEEECCSSCCCCCCTTSSSCSSCCTTSCCCSEEECCSSSSCGGGSCGGGGTTCCCGGGEEC----
T ss_pred             c-CChhhccCCCcCEEECCCCcCCccChhhcCCcccccccccccceEeecCcccccccCccccccccceeEEEecccC
Confidence            4 4455556666666666666666544444432      2456666666666543  334455556666666666553

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=100.00  E-value=5.8e-34  Score=256.28  Aligned_cols=267  Identities=18%  Similarity=0.180  Sum_probs=159.9

Q ss_pred             CCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCcc
Q 042011           28 SIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLA  107 (361)
Q Consensus        28 ~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~  107 (361)
                      +++.++++++.++ .+|. .+  .++|++|++++|.+++..+..   +..+.+|++|++ ++|.++...+..+..+++|+
T Consensus        34 ~l~~l~~~~~~l~-~ip~-~~--~~~l~~L~l~~n~i~~~~~~~---~~~l~~L~~L~L-~~n~l~~~~~~~~~~l~~L~  105 (332)
T 2ft3_A           34 HLRVVQCSDLGLK-AVPK-EI--SPDTTLLDLQNNDISELRKDD---FKGLQHLYALVL-VNNKISKIHEKAFSPLRKLQ  105 (332)
T ss_dssp             ETTEEECCSSCCS-SCCS-CC--CTTCCEEECCSSCCCEECTTT---TTTCTTCCEEEC-CSSCCCEECGGGSTTCTTCC
T ss_pred             cCCEEECCCCCcc-ccCC-CC--CCCCeEEECCCCcCCccCHhH---hhCCCCCcEEEC-CCCccCccCHhHhhCcCCCC
Confidence            5666666666665 5552 22  246666666666665544333   344556666666 66666665566666666666


Q ss_pred             EEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCc-cCChhhhccCCCccEEEec
Q 042011          108 LVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRC-HIPVEIGDILPSLKFFNIS  186 (361)
Q Consensus       108 ~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~-~~~~~~~~~l~~L~~L~L~  186 (361)
                      +|++++|.++ .+|..++   ++|++|++++|++.+..+..+..+++|++|++++|.++. ......+..+ +|++|+++
T Consensus       106 ~L~L~~n~l~-~l~~~~~---~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~  180 (332)
T 2ft3_A          106 KLYISKNHLV-EIPPNLP---SSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRIS  180 (332)
T ss_dssp             EEECCSSCCC-SCCSSCC---TTCCEEECCSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCC
T ss_pred             EEECCCCcCC-ccCcccc---ccCCEEECCCCccCccCHhHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEECc
Confidence            6666666665 5554422   566666666666665555556666666666666666641 1222222223 66666666


Q ss_pred             CCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCcc
Q 042011          187 MNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGE  266 (361)
Q Consensus       187 ~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~  266 (361)
                      +|.++ .+|..+.  ++|++|++++|.++ .++...+..+++|++|++++|++++..+..+..+++|+.|++++|+++ .
T Consensus       181 ~n~l~-~l~~~~~--~~L~~L~l~~n~i~-~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~-~  255 (332)
T 2ft3_A          181 EAKLT-GIPKDLP--ETLNELHLDHNKIQ-AIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNKLS-R  255 (332)
T ss_dssp             SSBCS-SCCSSSC--SSCSCCBCCSSCCC-CCCTTSSTTCTTCSCCBCCSSCCCCCCTTGGGGCTTCCEEECCSSCCC-B
T ss_pred             CCCCC-ccCcccc--CCCCEEECCCCcCC-ccCHHHhcCCCCCCEEECCCCcCCcCChhHhhCCCCCCEEECCCCcCe-e
Confidence            66666 3444332  56666667666666 333222335666677777776666655556666666777777777666 5


Q ss_pred             chhhhhcCCCCCEEECcCCcccccCCCCCCC------cCcceeecccccccc
Q 042011          267 IPQSLSKCSSLEGLYLNNNSLSGNVNVPSSP------ANTLFNLSQNSRRFT  312 (361)
Q Consensus       267 ~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~------~~~L~~l~l~~N~~~  312 (361)
                      +|..+..+++|+.|++++|++++..+..|..      ...|+.+++.+|++.
T Consensus       256 lp~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~~~  307 (332)
T 2ft3_A          256 VPAGLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGISLFNNPVP  307 (332)
T ss_dssp             CCTTGGGCTTCCEEECCSSCCCBCCTTSSSCSSCCSSSCCBSEEECCSSSSC
T ss_pred             cChhhhcCccCCEEECCCCCCCccChhHccccccccccccccceEeecCccc
Confidence            5656666667777777777666655555543      245666667766665

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=100.00  E-value=4.7e-33  Score=261.71  Aligned_cols=282  Identities=25%  Similarity=0.303  Sum_probs=128.4

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      ++|++|++++|.++ .++.  +.++++|++|++++|+++ .++  .+.++++|++|++++|.+++..+     +..+.+|
T Consensus        68 ~~L~~L~Ls~n~l~-~~~~--~~~l~~L~~L~l~~n~l~-~~~--~~~~l~~L~~L~L~~n~l~~~~~-----~~~l~~L  136 (466)
T 1o6v_A           68 NNLTQINFSNNQLT-DITP--LKNLTKLVDILMNNNQIA-DIT--PLANLTNLTGLTLFNNQITDIDP-----LKNLTNL  136 (466)
T ss_dssp             TTCCEEECCSSCCC-CCGG--GTTCTTCCEEECCSSCCC-CCG--GGTTCTTCCEEECCSSCCCCCGG-----GTTCTTC
T ss_pred             cCCCEEECCCCccC-Cchh--hhccccCCEEECCCCccc-cCh--hhcCCCCCCEEECCCCCCCCChH-----HcCCCCC
Confidence            45556666666555 4443  555555555555555554 222  14555555555555555443221     2223334


Q ss_pred             cEEeccCCCCCCCCC-------------------chhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCccc
Q 042011           82 NSLSLSSDYGDGFIF-------------------PKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLT  142 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~-------------------~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~  142 (361)
                      ++|++ ++|.+.+..                   ...+..+++|+.|++++|.++ .++.  +..+++|++|++++|.+.
T Consensus       137 ~~L~l-~~n~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~L~~L~l~~n~l~-~~~~--l~~l~~L~~L~l~~n~l~  212 (466)
T 1o6v_A          137 NRLEL-SSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVS-DISV--LAKLTNLESLIATNNQIS  212 (466)
T ss_dssp             SEEEE-EEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCC-CCGG--GGGCTTCSEEECCSSCCC
T ss_pred             CEEEC-CCCccCCChhhccCCcccEeecCCcccCchhhccCCCCCEEECcCCcCC-CChh--hccCCCCCEEEecCCccc
Confidence            44444 333322210                   011333444444444444443 2221  344444444444444444


Q ss_pred             CCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccC---------------------ccccCC
Q 042011          143 GPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIP---------------------SSFGNM  201 (361)
Q Consensus       143 ~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~---------------------~~l~~~  201 (361)
                      +..+  +..+++|++|++++|+++ .++ .+. .+++|+.|++++|.+++..+                     . +..+
T Consensus       213 ~~~~--~~~l~~L~~L~l~~n~l~-~~~-~l~-~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~-~~~l  286 (466)
T 1o6v_A          213 DITP--LGILTNLDELSLNGNQLK-DIG-TLA-SLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISP-LAGL  286 (466)
T ss_dssp             CCGG--GGGCTTCCEEECCSSCCC-CCG-GGG-GCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCCCCGG-GTTC
T ss_pred             cccc--ccccCCCCEEECCCCCcc-cch-hhh-cCCCCCEEECCCCccccchhhhcCCCCCEEECCCCccCcccc-ccCC
Confidence            3222  333444444444444443 221 111 23444444444444432221                     1 3444


Q ss_pred             CCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEE
Q 042011          202 NFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLY  281 (361)
Q Consensus       202 ~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~  281 (361)
                      ++|++|++++|.+. .++. + ..+++|+.|++++|++++..+  +..+++|+.|++++|++++.  ..+..+++|+.|+
T Consensus       287 ~~L~~L~L~~n~l~-~~~~-~-~~l~~L~~L~L~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~~--~~l~~l~~L~~L~  359 (466)
T 1o6v_A          287 TALTNLELNENQLE-DISP-I-SNLKNLTYLTLYFNNISDISP--VSSLTKLQRLFFYNNKVSDV--SSLANLTNINWLS  359 (466)
T ss_dssp             TTCSEEECCSSCCS-CCGG-G-GGCTTCSEEECCSSCCSCCGG--GGGCTTCCEEECCSSCCCCC--GGGTTCTTCCEEE
T ss_pred             CccCeEEcCCCccc-Cchh-h-cCCCCCCEEECcCCcCCCchh--hccCccCCEeECCCCccCCc--hhhccCCCCCEEe
Confidence            44444444444444 2222 1 244555555555555544332  34455555555555555532  2455555666666


Q ss_pred             CcCCcccccCCCCCCCcCcceeeccccccccC
Q 042011          282 LNNNSLSGNVNVPSSPANTLFNLSQNSRRFTS  313 (361)
Q Consensus       282 l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~  313 (361)
                      +++|++++..|  +..+++|+.|++++|++++
T Consensus       360 l~~n~l~~~~~--~~~l~~L~~L~l~~n~~~~  389 (466)
T 1o6v_A          360 AGHNQISDLTP--LANLTRITQLGLNDQAWTN  389 (466)
T ss_dssp             CCSSCCCBCGG--GTTCTTCCEEECCCEEEEC
T ss_pred             CCCCccCccch--hhcCCCCCEEeccCCcccC
Confidence            66666555444  5555666666666666655

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=100.00  E-value=2.2e-33  Score=281.89  Aligned_cols=303  Identities=18%  Similarity=0.187  Sum_probs=251.8

Q ss_pred             CCCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccc
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQ   80 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~   80 (361)
                      +++|++|+|++|...+.++...|.++++|++|+|++|.+++..| ..|.++++|++|++++|.+++..+.. ..+..+.+
T Consensus        47 l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p-~~~~~l~~L~~L~Ls~n~l~~~~~~~-~~~~~L~~  124 (844)
T 3j0a_A           47 LEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHP-DAFQGLFHLFELRLYFCGLSDAVLKD-GYFRNLKA  124 (844)
T ss_dssp             CCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCCEECT-TSSCSCSSCCCEECTTCCCSSCCSTT-CCCSSCSS
T ss_pred             cccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCcccCH-hHccCCcccCEeeCcCCCCCcccccC-ccccccCC
Confidence            57899999999976668865589999999999999999985545 78999999999999999998644332 12567789


Q ss_pred             ccEEeccCCCCCCCCCc-hhhcCCCCccEEEecCCcccCCcChHHHhcC--CCCcEEEecCCcccCCCCCCcCCCCC---
Q 042011           81 LNSLSLSSDYGDGFIFP-KFLYHQHDLALVDLSHIKMNGEFPTWLLENN--TKLETLFLVNDSLTGPFRLPIHSHRW---  154 (361)
Q Consensus        81 L~~L~l~~~~~~~~~~~-~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~--~~L~~L~l~~n~l~~~~~~~~~~l~~---  154 (361)
                      |++|++ ++|.+.+..+ ..|+++++|++|++++|.+++..+.. +..+  ++|+.|++++|.+.+..+..+..+++   
T Consensus       125 L~~L~L-s~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~~~~-l~~l~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~  202 (844)
T 3j0a_A          125 LTRLDL-SKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHE-LEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFR  202 (844)
T ss_dssp             CCEEEE-ESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCCCSGG-GHHHHHCSSCCCEECCSBSCCCCCCCCCSSSCTTT
T ss_pred             CCEEEC-CCCcccccccchhHhhCCCCCEEECCCCcCCeeCHHH-cccccCCccceEECCCCccccccccchhhcCCccc
Confidence            999999 8888877654 57999999999999999998666665 5666  89999999999998877777666655   


Q ss_pred             ---cCEEEccCCcCCccCChhhhcc-------------------------------------CCCccEEEecCCcccccc
Q 042011          155 ---LEFLDISNNNFRCHIPVEIGDI-------------------------------------LPSLKFFNISMNALDGSI  194 (361)
Q Consensus       155 ---L~~L~l~~n~l~~~~~~~~~~~-------------------------------------l~~L~~L~L~~n~l~~~~  194 (361)
                         |+.|++++|.+++..+..+...                                     .++|+.|++++|.+.+..
T Consensus       203 ~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~~l~~L~l~~~~~~~~~~~~~l~~~~~~~f~~l~~~~L~~L~Ls~n~l~~~~  282 (844)
T 3j0a_A          203 NMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLN  282 (844)
T ss_dssp             TCCBSEEBCSSCCSSTTTTSGGGGTSCSCCBSEEECCSSCCBCSSSCSSSTTGGGTTTTTTTTSCCCEEECTTCCCCEEC
T ss_pred             cCceeEEecCCCcCchhHHHHHHhhcCcccccceecccccccccccccccCCCChhhhhccccCCccEEECCCCcccccC
Confidence               9999999998775555433321                                     267999999999999888


Q ss_pred             CccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcC
Q 042011          195 PSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKC  274 (361)
Q Consensus       195 ~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l  274 (361)
                      +..|..+++|++|++++|.+. .++...+..+++|++|++++|.+++..+..+..+++|+.|++++|++.+..+..|..+
T Consensus       283 ~~~~~~l~~L~~L~L~~n~i~-~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l  361 (844)
T 3j0a_A          283 SRVFETLKDLKVLNLAYNKIN-KIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQKNHIAIIQDQTFKFL  361 (844)
T ss_dssp             SCCSSSCCCCCEEEEESCCCC-EECTTTTTTCSSCCEEEEESCCCSCCCSCSCSSCTTCCEEECCSCCCCCCCSSCSCSC
T ss_pred             hhhhhcCCCCCEEECCCCcCC-CCChHHhcCCCCCCEEECCCCCCCccCHHHhcCCCCCCEEECCCCCCCccChhhhcCC
Confidence            889999999999999999998 5544444589999999999999999888999999999999999999998777889999


Q ss_pred             CCCCEEECcCCcccccCCCCCCCcCcceeeccccccccC
Q 042011          275 SSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTS  313 (361)
Q Consensus       275 ~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~  313 (361)
                      ++|+.|++++|.+++..     .+++|+.+++++|+++.
T Consensus       362 ~~L~~L~Ls~N~l~~i~-----~~~~L~~L~l~~N~l~~  395 (844)
T 3j0a_A          362 EKLQTLDLRDNALTTIH-----FIPSIPDIFLSGNKLVT  395 (844)
T ss_dssp             CCCCEEEEETCCSCCCS-----SCCSCSEEEEESCCCCC
T ss_pred             CCCCEEECCCCCCCccc-----CCCCcchhccCCCCccc
Confidence            99999999999998532     26667777777777763

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

Probab=100.00  E-value=2.5e-34  Score=256.28  Aligned_cols=255  Identities=25%  Similarity=0.275  Sum_probs=216.9

Q ss_pred             CCCcEEEccCCCccc--ccccccccccCcccccEEeccC-CCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcC
Q 042011           52 SRLKIFYADNNELNA--EITQSHSLIAPNFQLNSLSLSS-DYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENN  128 (361)
Q Consensus        52 ~~L~~L~l~~n~~~~--~~~~~~~~~~~~~~L~~L~l~~-~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~  128 (361)
                      .+++.|++++|.+.+  ..+..   +..+.+|++|++ + ++.+.+..|..+..+++|++|++++|.+++.+|.. +.++
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~---l~~l~~L~~L~L-~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~-~~~l  124 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSS---LANLPYLNFLYI-GGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDF-LSQI  124 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGG---GGGCTTCSEEEE-EEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGG-GGGC
T ss_pred             ceEEEEECCCCCccCCcccChh---HhCCCCCCeeeC-CCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCHH-HhCC
Confidence            467777777777765  44433   455567777777 5 46666677888999999999999999998778876 7889


Q ss_pred             CCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCC-CccEEEecCCccccccCccccCCCCCCEE
Q 042011          129 TKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILP-SLKFFNISMNALDGSIPSSFGNMNFLRVL  207 (361)
Q Consensus       129 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~-~L~~L~L~~n~l~~~~~~~l~~~~~L~~L  207 (361)
                      ++|++|++++|.+.+..|..+..+++|++|++++|++++.+|..+.. ++ +|++|++++|.+++.+|..+..++ |++|
T Consensus       125 ~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~-l~~~L~~L~L~~N~l~~~~~~~~~~l~-L~~L  202 (313)
T 1ogq_A          125 KTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGS-FSKLFTSMTISRNRLTGKIPPTFANLN-LAFV  202 (313)
T ss_dssp             TTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGC-CCTTCCEEECCSSEEEEECCGGGGGCC-CSEE
T ss_pred             CCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhh-hhhcCcEEECcCCeeeccCChHHhCCc-ccEE
Confidence            99999999999999888999999999999999999998788888877 55 999999999999988899898887 9999


Q ss_pred             eccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcc
Q 042011          208 DLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSL  287 (361)
Q Consensus       208 ~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l  287 (361)
                      ++++|.+++..|..+ ..+++|+.|++++|.+++..+. +..+++|++|++++|++++.+|..+..+++|+.|++++|++
T Consensus       203 ~Ls~N~l~~~~~~~~-~~l~~L~~L~L~~N~l~~~~~~-~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l  280 (313)
T 1ogq_A          203 DLSRNMLEGDASVLF-GSDKNTQKIHLAKNSLAFDLGK-VGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNL  280 (313)
T ss_dssp             ECCSSEEEECCGGGC-CTTSCCSEEECCSSEECCBGGG-CCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEE
T ss_pred             ECcCCcccCcCCHHH-hcCCCCCEEECCCCceeeecCc-ccccCCCCEEECcCCcccCcCChHHhcCcCCCEEECcCCcc
Confidence            999999986655555 4899999999999999875554 78899999999999999989999999999999999999999


Q ss_pred             cccCCCCCCCcCcceeeccccccccCCcc
Q 042011          288 SGNVNVPSSPANTLFNLSQNSRRFTSSIS  316 (361)
Q Consensus       288 ~~~~~~~~~~~~~L~~l~l~~N~~~~~~~  316 (361)
                      ++.+|.. ..+++|+.+++.+|+..+..|
T Consensus       281 ~~~ip~~-~~l~~L~~l~l~~N~~lc~~p  308 (313)
T 1ogq_A          281 CGEIPQG-GNLQRFDVSAYANNKCLCGSP  308 (313)
T ss_dssp             EEECCCS-TTGGGSCGGGTCSSSEEESTT
T ss_pred             cccCCCC-ccccccChHHhcCCCCccCCC
Confidence            9988876 889999999999999655444

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=100.00  E-value=1.5e-33  Score=259.20  Aligned_cols=304  Identities=20%  Similarity=0.251  Sum_probs=241.6

Q ss_pred             ccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCC
Q 042011           25 HLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQH  104 (361)
Q Consensus        25 ~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~  104 (361)
                      .+++++.+++++|.++ .+|...|..+++|++|++++|.+++..+..   +..+.+|++|++ ++|.+.+..+..+..++
T Consensus        43 ~l~~l~~l~l~~~~l~-~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~---~~~l~~L~~L~L-~~n~l~~~~~~~~~~l~  117 (390)
T 3o6n_A           43 TLNNQKIVTFKNSTMR-KLPAALLDSFRQVELLNLNDLQIEEIDTYA---FAYAHTIQKLYM-GFNAIRYLPPHVFQNVP  117 (390)
T ss_dssp             GGCCCSEEEEESCEES-EECTHHHHHCCCCSEEECTTSCCCEECTTT---TTTCTTCCEEEC-CSSCCCCCCTTTTTTCT
T ss_pred             ccCCceEEEecCCchh-hCChhHhcccccCcEEECCCCcccccChhh---ccCCCCcCEEEC-CCCCCCcCCHHHhcCCC
Confidence            4689999999999998 788667899999999999999998766554   566779999999 99999988888899999


Q ss_pred             CccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEE
Q 042011          105 DLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFN  184 (361)
Q Consensus       105 ~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~  184 (361)
                      +|++|++++|.++ .+|...+.++++|++|++++|.+.+..+..+..+++|++|++++|+++ .++..   .+++|+.|+
T Consensus       118 ~L~~L~L~~n~l~-~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~---~l~~L~~L~  192 (390)
T 3o6n_A          118 LLTVLVLERNDLS-SLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLT-HVDLS---LIPSLFHAN  192 (390)
T ss_dssp             TCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCCS-BCCGG---GCTTCSEEE
T ss_pred             CCCEEECCCCccC-cCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCcCC-ccccc---cccccceee
Confidence            9999999999998 777776789999999999999999888888999999999999999998 55432   245666655


Q ss_pred             ecCCcccc------------------ccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCccccc
Q 042011          185 ISMNALDG------------------SIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSR  246 (361)
Q Consensus       185 L~~n~l~~------------------~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~  246 (361)
                      +++|.+++                  .++.  ...++|++|++++|.++ ..+ .+ ..+++|++|++++|.+++..+..
T Consensus       193 l~~n~l~~~~~~~~L~~L~l~~n~l~~~~~--~~~~~L~~L~l~~n~l~-~~~-~l-~~l~~L~~L~Ls~n~l~~~~~~~  267 (390)
T 3o6n_A          193 VSYNLLSTLAIPIAVEELDASHNSINVVRG--PVNVELTILKLQHNNLT-DTA-WL-LNYPGLVEVDLSYNELEKIMYHP  267 (390)
T ss_dssp             CCSSCCSEEECCSSCSEEECCSSCCCEEEC--CCCSSCCEEECCSSCCC-CCG-GG-GGCTTCSEEECCSSCCCEEESGG
T ss_pred             cccccccccCCCCcceEEECCCCeeeeccc--cccccccEEECCCCCCc-ccH-HH-cCCCCccEEECCCCcCCCcChhH
Confidence            55555442                  1122  12457888888888887 433 33 37888999999999998877888


Q ss_pred             ccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcccccccccccc
Q 042011          247 NFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGI  326 (361)
Q Consensus       247 ~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~~~~  326 (361)
                      +..+++|+.|++++|++++ ++..+..+++|++|++++|++++ +|..+..+++|++|++++|+++.. +...+..++.+
T Consensus       268 ~~~l~~L~~L~L~~n~l~~-~~~~~~~l~~L~~L~L~~n~l~~-~~~~~~~l~~L~~L~L~~N~i~~~-~~~~~~~L~~L  344 (390)
T 3o6n_A          268 FVKMQRLERLYISNNRLVA-LNLYGQPIPTLKVLDLSHNHLLH-VERNQPQFDRLENLYLDHNSIVTL-KLSTHHTLKNL  344 (390)
T ss_dssp             GTTCSSCCEEECCSSCCCE-EECSSSCCTTCCEEECCSSCCCC-CGGGHHHHTTCSEEECCSSCCCCC-CCCTTCCCSEE
T ss_pred             ccccccCCEEECCCCcCcc-cCcccCCCCCCCEEECCCCccee-cCccccccCcCCEEECCCCcccee-CchhhccCCEE
Confidence            8889999999999999884 56666778899999999999884 555677788999999999998764 44445555443


Q ss_pred             hhhhHHHhhccchHHHHHHHHHhhccc
Q 042011          327 CKEYAKEFARNMPRICEEYAAYLNSTN  353 (361)
Q Consensus       327 ~~~~~~~~~~~~~~~c~~~~~~~~~~~  353 (361)
                      .       ..++|+.|++..+|+....
T Consensus       345 ~-------l~~N~~~~~~~~~~~~~~~  364 (390)
T 3o6n_A          345 T-------LSHNDWDCNSLRALFRNVA  364 (390)
T ss_dssp             E-------CCSSCEEHHHHHHHTTTCC
T ss_pred             E-------cCCCCccchhHHHHHHHHH
Confidence            3       3556788888888776543

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

Probab=100.00  E-value=4.2e-34  Score=254.82  Aligned_cols=252  Identities=26%  Similarity=0.343  Sum_probs=210.5

Q ss_pred             CCCCeEeCcCCcccc--cCCcccccCCCCCcEEEccC-CCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCC
Q 042011           27 TSIEELMLSNNHFQI--PISLEPLFNHSRLKIFYADN-NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQ  103 (361)
Q Consensus        27 ~~L~~L~Ls~n~l~~--~~~~~~~~~l~~L~~L~l~~-n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l  103 (361)
                      .++++|+|++|++++  .+| ..+.++++|++|++++ |.+.+..+..   +..+.+|++|++ ++|.+++..|..+..+
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~-~~l~~l~~L~~L~L~~~n~l~~~~p~~---l~~l~~L~~L~L-s~n~l~~~~p~~~~~l  124 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIP-SSLANLPYLNFLYIGGINNLVGPIPPA---IAKLTQLHYLYI-THTNVSGAIPDFLSQI  124 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECC-GGGGGCTTCSEEEEEEETTEESCCCGG---GGGCTTCSEEEE-EEECCEEECCGGGGGC
T ss_pred             ceEEEEECCCCCccCCcccC-hhHhCCCCCCeeeCCCCCcccccCChh---HhcCCCCCEEEC-cCCeeCCcCCHHHhCC
Confidence            467777777777765  566 4677777777777774 6666555544   455567777777 7777776778888899


Q ss_pred             CCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCC-CcCEEEccCCcCCccCChhhhccCCCccE
Q 042011          104 HDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHR-WLEFLDISNNNFRCHIPVEIGDILPSLKF  182 (361)
Q Consensus       104 ~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~-~L~~L~l~~n~l~~~~~~~~~~~l~~L~~  182 (361)
                      ++|++|++++|.+++.+|.. +..+++|++|++++|++++..|..+..++ +|++|++++|++++.+|..+.. ++ |++
T Consensus       125 ~~L~~L~Ls~N~l~~~~p~~-~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~~~~-l~-L~~  201 (313)
T 1ogq_A          125 KTLVTLDFSYNALSGTLPPS-ISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFAN-LN-LAF  201 (313)
T ss_dssp             TTCCEEECCSSEEESCCCGG-GGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGG-CC-CSE
T ss_pred             CCCCEEeCCCCccCCcCChH-HhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeeccCChHHhC-Cc-ccE
Confidence            99999999999998778877 78899999999999999888888898887 8999999999998778877766 55 999


Q ss_pred             EEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCc
Q 042011          183 FNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNR  262 (361)
Q Consensus       183 L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~  262 (361)
                      |++++|.+++..|..+..+++|++|++++|.+++..|. + ..+++|++|++++|++++..|..+..+++|+.|++++|+
T Consensus       202 L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~-~-~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~  279 (313)
T 1ogq_A          202 VDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGK-V-GLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNN  279 (313)
T ss_dssp             EECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGG-C-CCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSE
T ss_pred             EECcCCcccCcCCHHHhcCCCCCEEECCCCceeeecCc-c-cccCCCCEEECcCCcccCcCChHHhcCcCCCEEECcCCc
Confidence            99999999988899999999999999999999855554 3 378999999999999998889999999999999999999


Q ss_pred             CCccchhhhhcCCCCCEEECcCCc-ccc
Q 042011          263 FVGEIPQSLSKCSSLEGLYLNNNS-LSG  289 (361)
Q Consensus       263 l~~~~~~~~~~l~~L~~L~l~~N~-l~~  289 (361)
                      +++.+|.. ..+++|+.+++++|+ +.+
T Consensus       280 l~~~ip~~-~~l~~L~~l~l~~N~~lc~  306 (313)
T 1ogq_A          280 LCGEIPQG-GNLQRFDVSAYANNKCLCG  306 (313)
T ss_dssp             EEEECCCS-TTGGGSCGGGTCSSSEEES
T ss_pred             ccccCCCC-ccccccChHHhcCCCCccC
Confidence            99888876 788999999999998 554

>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=100.00  E-value=3.9e-32  Score=244.15  Aligned_cols=269  Identities=18%  Similarity=0.193  Sum_probs=225.9

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      ++++.|++++|+++ .++...|.++++|++|++++|++++..| ..|.++++|++|++++|.++......    .  .+|
T Consensus        52 ~~l~~L~L~~n~i~-~~~~~~~~~l~~L~~L~L~~n~l~~~~~-~~~~~l~~L~~L~Ls~n~l~~l~~~~----~--~~L  123 (330)
T 1xku_A           52 PDTALLDLQNNKIT-EIKDGDFKNLKNLHTLILINNKISKISP-GAFAPLVKLERLYLSKNQLKELPEKM----P--KTL  123 (330)
T ss_dssp             TTCCEEECCSSCCC-CBCTTTTTTCTTCCEEECCSSCCCCBCT-TTTTTCTTCCEEECCSSCCSBCCSSC----C--TTC
T ss_pred             CCCeEEECCCCcCC-EeChhhhccCCCCCEEECCCCcCCeeCH-HHhcCCCCCCEEECCCCcCCccChhh----c--ccc
Confidence            57899999999998 6665589999999999999999985445 68999999999999999998543322    1  599


Q ss_pred             cEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccC--CcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEE
Q 042011           82 NSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG--EFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLD  159 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~--~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~  159 (361)
                      ++|++ ++|.+....+..+..+++|++|++++|.+..  ..+.. +.++++|++|++++|.+.. +|..+.  ++|++|+
T Consensus       124 ~~L~l-~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~-~~~l~~L~~L~l~~n~l~~-l~~~~~--~~L~~L~  198 (330)
T 1xku_A          124 QELRV-HENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGA-FQGMKKLSYIRIADTNITT-IPQGLP--PSLTELH  198 (330)
T ss_dssp             CEEEC-CSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTG-GGGCTTCCEEECCSSCCCS-CCSSCC--TTCSEEE
T ss_pred             cEEEC-CCCcccccCHhHhcCCccccEEECCCCcCCccCcChhh-ccCCCCcCEEECCCCcccc-CCcccc--ccCCEEE
Confidence            99999 9999998888889999999999999999863  33444 8899999999999999985 444443  7899999


Q ss_pred             ccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCC
Q 042011          160 ISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL  239 (361)
Q Consensus       160 l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l  239 (361)
                      +++|++++..+..+ ..+++|++|++++|.+++..+..+..+++|++|++++|.++ .+|..+. .+++|++|++++|++
T Consensus       199 l~~n~l~~~~~~~~-~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~-~lp~~l~-~l~~L~~L~l~~N~i  275 (330)
T 1xku_A          199 LDGNKITKVDAASL-KGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLV-KVPGGLA-DHKYIQVVYLHNNNI  275 (330)
T ss_dssp             CTTSCCCEECTGGG-TTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCCS-SCCTTTT-TCSSCCEEECCSSCC
T ss_pred             CCCCcCCccCHHHh-cCCCCCCEEECCCCcCceeChhhccCCCCCCEEECCCCcCc-cCChhhc-cCCCcCEEECCCCcC
Confidence            99999984444444 45899999999999999777778999999999999999999 8988776 799999999999999


Q ss_pred             CCcccccccC------CCCCCEEeccCCcCCc--cchhhhhcCCCCCEEECcCCc
Q 042011          240 EGHMFSRNFN------LTNLEWLQLGGNRFVG--EIPQSLSKCSSLEGLYLNNNS  286 (361)
Q Consensus       240 ~~~~~~~~~~------~~~L~~L~L~~n~l~~--~~~~~~~~l~~L~~L~l~~N~  286 (361)
                      ++..+..|..      .+.++.+++++|++..  ..|..|..+++++.+++++|+
T Consensus       276 ~~~~~~~f~~~~~~~~~~~l~~l~l~~N~~~~~~i~~~~f~~~~~l~~l~L~~N~  330 (330)
T 1xku_A          276 SAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAVQLGNYK  330 (330)
T ss_dssp             CCCCTTSSSCSSCCTTSCCCSEEECCSSSSCGGGSCGGGGTTCCCGGGEEC----
T ss_pred             CccChhhcCCcccccccccccceEeecCcccccccCccccccccceeEEEecccC
Confidence            9877766653      3789999999999874  467889999999999999985

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=100.00  E-value=4e-32  Score=255.39  Aligned_cols=281  Identities=25%  Similarity=0.279  Sum_probs=191.6

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      ++++.|+++++.++ .+|.  +..+++|++|++++|.++ .++  .+.++++|++|++++|.+.+..+     +..+.+|
T Consensus        46 ~~l~~L~l~~~~i~-~l~~--~~~l~~L~~L~Ls~n~l~-~~~--~~~~l~~L~~L~l~~n~l~~~~~-----~~~l~~L  114 (466)
T 1o6v_A           46 DQVTTLQADRLGIK-SIDG--VEYLNNLTQINFSNNQLT-DIT--PLKNLTKLVDILMNNNQIADITP-----LANLTNL  114 (466)
T ss_dssp             HTCCEEECCSSCCC-CCTT--GGGCTTCCEEECCSSCCC-CCG--GGTTCTTCCEEECCSSCCCCCGG-----GTTCTTC
T ss_pred             ccccEEecCCCCCc-cCcc--hhhhcCCCEEECCCCccC-Cch--hhhccccCCEEECCCCccccChh-----hcCCCCC
Confidence            57899999999998 7886  889999999999999998 555  28999999999999999986543     5677799


Q ss_pred             cEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChH-------------------HHhcCCCCcEEEecCCccc
Q 042011           82 NSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTW-------------------LLENNTKLETLFLVNDSLT  142 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~-------------------~~~~~~~L~~L~l~~n~l~  142 (361)
                      ++|++ ++|.+.+..+  +..+++|++|++++|.+.+ ++..                   .+.++++|++|++++|.+.
T Consensus       115 ~~L~L-~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~-~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~L~~L~l~~n~l~  190 (466)
T 1o6v_A          115 TGLTL-FNNQITDIDP--LKNLTNLNRLELSSNTISD-ISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVS  190 (466)
T ss_dssp             CEEEC-CSSCCCCCGG--GTTCTTCSEEEEEEEEECC-CGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCC
T ss_pred             CEEEC-CCCCCCCChH--HcCCCCCCEEECCCCccCC-ChhhccCCcccEeecCCcccCchhhccCCCCCEEECcCCcCC
Confidence            99999 8899887543  8899999999999999873 4320                   1345566666666666665


Q ss_pred             CCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhh
Q 042011          143 GPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHL  222 (361)
Q Consensus       143 ~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~  222 (361)
                      +.  ..+..+++|++|++++|.+++ ++. + ..+++|++|++++|.+++ + ..+..+++|++|++++|.+. .++.  
T Consensus       191 ~~--~~l~~l~~L~~L~l~~n~l~~-~~~-~-~~l~~L~~L~l~~n~l~~-~-~~l~~l~~L~~L~l~~n~l~-~~~~--  260 (466)
T 1o6v_A          191 DI--SVLAKLTNLESLIATNNQISD-ITP-L-GILTNLDELSLNGNQLKD-I-GTLASLTNLTDLDLANNQIS-NLAP--  260 (466)
T ss_dssp             CC--GGGGGCTTCSEEECCSSCCCC-CGG-G-GGCTTCCEEECCSSCCCC-C-GGGGGCTTCSEEECCSSCCC-CCGG--
T ss_pred             CC--hhhccCCCCCEEEecCCcccc-ccc-c-cccCCCCEEECCCCCccc-c-hhhhcCCCCCEEECCCCccc-cchh--
Confidence            42  235666777777777777763 332 2 236777777777777763 2 34667777777777777776 3333  


Q ss_pred             hhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcce
Q 042011          223 AVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLF  302 (361)
Q Consensus       223 ~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~  302 (361)
                      +..+++|++|++++|.+++..+  +..+++|+.|++++|++++..+  +..+++|+.|++++|++++..|  +..+++|+
T Consensus       261 ~~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~L~~n~l~~~~~--~~~l~~L~~L~L~~n~l~~~~~--~~~l~~L~  334 (466)
T 1o6v_A          261 LSGLTKLTELKLGANQISNISP--LAGLTALTNLELNENQLEDISP--ISNLKNLTYLTLYFNNISDISP--VSSLTKLQ  334 (466)
T ss_dssp             GTTCTTCSEEECCSSCCCCCGG--GTTCTTCSEEECCSSCCSCCGG--GGGCTTCSEEECCSSCCSCCGG--GGGCTTCC
T ss_pred             hhcCCCCCEEECCCCccCcccc--ccCCCccCeEEcCCCcccCchh--hcCCCCCCEEECcCCcCCCchh--hccCccCC
Confidence            2356667777777776665332  5556666666666666654322  4555555555555555554433  33444444


Q ss_pred             eeccccccccC
Q 042011          303 NLSQNSRRFTS  313 (361)
Q Consensus       303 ~l~l~~N~~~~  313 (361)
                      +|++++|++++
T Consensus       335 ~L~l~~n~l~~  345 (466)
T 1o6v_A          335 RLFFYNNKVSD  345 (466)
T ss_dssp             EEECCSSCCCC
T ss_pred             EeECCCCccCC
Confidence            44444444443

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=100.00  E-value=1.3e-32  Score=266.25  Aligned_cols=303  Identities=20%  Similarity=0.251  Sum_probs=240.8

Q ss_pred             ccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCC
Q 042011           25 HLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQH  104 (361)
Q Consensus        25 ~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~  104 (361)
                      .+++++.+++++|.++ .+|...|..+++|++|++++|.+++..+..   +..+.+|++|++ ++|.+.+..+..|..++
T Consensus        49 ~l~~l~~l~l~~~~l~-~lp~~~~~~l~~L~~L~L~~n~l~~~~~~~---~~~l~~L~~L~L-~~n~l~~~~~~~~~~l~  123 (597)
T 3oja_B           49 TLNNQKIVTFKNSTMR-KLPAALLDSFRQVELLNLNDLQIEEIDTYA---FAYAHTIQKLYM-GFNAIRYLPPHVFQNVP  123 (597)
T ss_dssp             GGCCCSEEEESSCEES-EECTHHHHHCCCCSEEECTTSCCCEECTTT---TTTCTTCCEEEC-CSSCCCCCCTTTTTTCT
T ss_pred             cCCCceEEEeeCCCCC-CcCHHHHccCCCCcEEECCCCCCCCCChHH---hcCCCCCCEEEC-CCCcCCCCCHHHHcCCC
Confidence            4688999999999998 677677899999999999999998776655   567779999999 99999998888999999


Q ss_pred             CccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEE
Q 042011          105 DLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFN  184 (361)
Q Consensus       105 ~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~  184 (361)
                      +|++|++++|.++ .+|...|+++++|++|++++|.+.+..+..+..+++|++|++++|.++ .++..   .+++|+.|+
T Consensus       124 ~L~~L~L~~n~l~-~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~-~~~~~---~l~~L~~L~  198 (597)
T 3oja_B          124 LLTVLVLERNDLS-SLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLT-HVDLS---LIPSLFHAN  198 (597)
T ss_dssp             TCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSCCS-BCCGG---GCTTCSEEE
T ss_pred             CCCEEEeeCCCCC-CCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCCCC-CcChh---hhhhhhhhh
Confidence            9999999999998 677766899999999999999999888889999999999999999998 45432   255666666


Q ss_pred             ecCCcccc------------------ccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCccccc
Q 042011          185 ISMNALDG------------------SIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSR  246 (361)
Q Consensus       185 L~~n~l~~------------------~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~  246 (361)
                      +++|.+++                  .++..  ..++|+.|++++|.+++ . ..+. .+++|+.|++++|.+.+..+..
T Consensus       199 l~~n~l~~l~~~~~L~~L~ls~n~l~~~~~~--~~~~L~~L~L~~n~l~~-~-~~l~-~l~~L~~L~Ls~N~l~~~~~~~  273 (597)
T 3oja_B          199 VSYNLLSTLAIPIAVEELDASHNSINVVRGP--VNVELTILKLQHNNLTD-T-AWLL-NYPGLVEVDLSYNELEKIMYHP  273 (597)
T ss_dssp             CCSSCCSEEECCTTCSEEECCSSCCCEEECS--CCSCCCEEECCSSCCCC-C-GGGG-GCTTCSEEECCSSCCCEEESGG
T ss_pred             cccCccccccCCchhheeeccCCcccccccc--cCCCCCEEECCCCCCCC-C-hhhc-cCCCCCEEECCCCccCCCCHHH
Confidence            66665542                  11111  12567888888888773 2 3333 7888999999999988888888


Q ss_pred             ccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcccccccccccc
Q 042011          247 NFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHGI  326 (361)
Q Consensus       247 ~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~~~~  326 (361)
                      +..+++|+.|++++|.+++ +|..+..+++|+.|++++|.++ .+|..+..+++|+.|++++|++++. +...+..+..+
T Consensus       274 ~~~l~~L~~L~Ls~N~l~~-l~~~~~~l~~L~~L~Ls~N~l~-~i~~~~~~l~~L~~L~L~~N~l~~~-~~~~~~~L~~L  350 (597)
T 3oja_B          274 FVKMQRLERLYISNNRLVA-LNLYGQPIPTLKVLDLSHNHLL-HVERNQPQFDRLENLYLDHNSIVTL-KLSTHHTLKNL  350 (597)
T ss_dssp             GTTCSSCCEEECTTSCCCE-EECSSSCCTTCCEEECCSSCCC-CCGGGHHHHTTCSEEECCSSCCCCC-CCCTTCCCSEE
T ss_pred             hcCccCCCEEECCCCCCCC-CCcccccCCCCcEEECCCCCCC-ccCcccccCCCCCEEECCCCCCCCc-ChhhcCCCCEE
Confidence            8888999999999998885 5666677889999999999888 4666677788899999999988764 44445555444


Q ss_pred             hhhhHHHhhccchHHHHHHHHHhhcc
Q 042011          327 CKEYAKEFARNMPRICEEYAAYLNST  352 (361)
Q Consensus       327 ~~~~~~~~~~~~~~~c~~~~~~~~~~  352 (361)
                      .       ..++|+.|.+..+|+...
T Consensus       351 ~-------l~~N~~~~~~~~~~~~~~  369 (597)
T 3oja_B          351 T-------LSHNDWDCNSLRALFRNV  369 (597)
T ss_dssp             E-------CCSSCEEHHHHHHHTTTC
T ss_pred             E-------eeCCCCCChhHHHHHHHH
Confidence            3       355677888888776543

>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=100.00  E-value=2.1e-32  Score=248.14  Aligned_cols=289  Identities=17%  Similarity=0.116  Sum_probs=235.4

Q ss_pred             hccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCC
Q 042011           24 VHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQ  103 (361)
Q Consensus        24 ~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l  103 (361)
                      ..|+.....++++++++ .+|. .+  .++|++|++++|.+++..+..   +..+.+|++|++ ++|.+++..+..|..+
T Consensus        28 ~~C~~~~~c~~~~~~l~-~iP~-~~--~~~L~~L~l~~n~i~~~~~~~---~~~l~~L~~L~L-~~n~l~~~~~~~~~~l   99 (353)
T 2z80_A           28 LSCDRNGICKGSSGSLN-SIPS-GL--TEAVKSLDLSNNRITYISNSD---LQRCVNLQALVL-TSNGINTIEEDSFSSL   99 (353)
T ss_dssp             CEECTTSEEECCSTTCS-SCCT-TC--CTTCCEEECTTSCCCEECTTT---TTTCTTCCEEEC-TTSCCCEECTTTTTTC
T ss_pred             CCCCCCeEeeCCCCCcc-cccc-cc--cccCcEEECCCCcCcccCHHH---hccCCCCCEEEC-CCCccCccCHhhcCCC
Confidence            34666677888888887 6773 33  247888888888887654433   456668888888 8888887777889999


Q ss_pred             CCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCC-CCcCCCCCcCEEEccCCc-CCccCChhhhccCCCcc
Q 042011          104 HDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFR-LPIHSHRWLEFLDISNNN-FRCHIPVEIGDILPSLK  181 (361)
Q Consensus       104 ~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~-~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~~l~~L~  181 (361)
                      ++|++|++++|.++ .++...++++++|++|++++|++.+..+ ..+..+++|++|++++|. +. .++...+..+++|+
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 GSLEHLDLSYNYLS-NLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFT-KIQRKDFAGLTFLE  177 (353)
T ss_dssp             TTCCEEECCSSCCS-SCCHHHHTTCTTCSEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCC-EECTTTTTTCCEEE
T ss_pred             CCCCEEECCCCcCC-cCCHhHhCCCccCCEEECCCCCCcccCchhhhccCCCCcEEECCCCcccc-ccCHHHccCCCCCC
Confidence            99999999999998 6777668899999999999999986544 478899999999999994 66 66555555589999


Q ss_pred             EEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCccccccc---CCCCCCEEec
Q 042011          182 FFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNF---NLTNLEWLQL  258 (361)
Q Consensus       182 ~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~---~~~~L~~L~L  258 (361)
                      +|++++|.+++..|..+..+++|++|++++|.+. .+|...+..+++|++|++++|.+++..+..+.   ....++.+++
T Consensus       178 ~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~l~-~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~~~~~~l~~l~L  256 (353)
T 2z80_A          178 ELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHI-LLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTF  256 (353)
T ss_dssp             EEEEEETTCCEECTTTTTTCSEEEEEEEECSCST-THHHHHHHHTTTEEEEEEESCBCTTCCCC------CCCCCCEEEE
T ss_pred             EEECCCCCcCccCHHHHhccccCCeecCCCCccc-cchhhhhhhcccccEEECCCCccccccccccccccccchhhcccc
Confidence            9999999999888999999999999999999997 88887776799999999999999886544433   4677899999


Q ss_pred             cCCcCCc----cchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcc-ccccccc
Q 042011          259 GGNRFVG----EIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSIS-HSHLLNL  323 (361)
Q Consensus       259 ~~n~l~~----~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~-~~~~~~~  323 (361)
                      +++.+.+    .+|+.+..+++|+.|++++|+++...+..|..+++|++|++++|+++|.+| ..++..|
T Consensus       257 ~~~~l~~~~l~~l~~~l~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~~~~~~~~l~~l~~~  326 (353)
T 2z80_A          257 RNVKITDESLFQVMKLLNQISGLLELEFSRNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRIDYLSRW  326 (353)
T ss_dssp             ESCBCCHHHHHHHHHHHHTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCBCCCHHHHHHHHHH
T ss_pred             ccccccCcchhhhHHHHhcccCCCEEECCCCCCCccCHHHHhcCCCCCEEEeeCCCccCcCCCcHHHHHH
Confidence            9998886    367889999999999999999996544556899999999999999999887 3344443

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=100.00  E-value=6.7e-32  Score=252.47  Aligned_cols=276  Identities=21%  Similarity=0.217  Sum_probs=200.2

Q ss_pred             CCCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccc
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQ   80 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~   80 (361)
                      +++|++|++++|.++ .+|.  +..+++|++|++++|++++ ++   +..+++|++|++++|.+++..      +..+.+
T Consensus        41 l~~L~~L~Ls~n~l~-~~~~--l~~l~~L~~L~Ls~n~l~~-~~---~~~l~~L~~L~Ls~N~l~~~~------~~~l~~  107 (457)
T 3bz5_A           41 LATLTSLDCHNSSIT-DMTG--IEKLTGLTKLICTSNNITT-LD---LSQNTNLTYLACDSNKLTNLD------VTPLTK  107 (457)
T ss_dssp             HTTCCEEECCSSCCC-CCTT--GGGCTTCSEEECCSSCCSC-CC---CTTCTTCSEEECCSSCCSCCC------CTTCTT
T ss_pred             cCCCCEEEccCCCcc-cChh--hcccCCCCEEEccCCcCCe-Ec---cccCCCCCEEECcCCCCceee------cCCCCc
Confidence            468999999999998 5674  8999999999999999984 44   788999999999999988641      456779


Q ss_pred             ccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEc
Q 042011           81 LNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDI  160 (361)
Q Consensus        81 L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l  160 (361)
                      |++|++ ++|.+++. +  +..+++|++|++++|.+++ ++   ++.+++|++|++++|...+..  .+..+++|++|++
T Consensus       108 L~~L~L-~~N~l~~l-~--~~~l~~L~~L~l~~N~l~~-l~---l~~l~~L~~L~l~~n~~~~~~--~~~~l~~L~~L~l  177 (457)
T 3bz5_A          108 LTYLNC-DTNKLTKL-D--VSQNPLLTYLNCARNTLTE-ID---VSHNTQLTELDCHLNKKITKL--DVTPQTQLTTLDC  177 (457)
T ss_dssp             CCEEEC-CSSCCSCC-C--CTTCTTCCEEECTTSCCSC-CC---CTTCTTCCEEECTTCSCCCCC--CCTTCTTCCEEEC
T ss_pred             CCEEEC-CCCcCCee-c--CCCCCcCCEEECCCCccce-ec---cccCCcCCEEECCCCCccccc--ccccCCcCCEEEC
Confidence            999999 88888764 3  7888999999999999884 44   567888888888888544333  4667778888888


Q ss_pred             cCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCC
Q 042011          161 SNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE  240 (361)
Q Consensus       161 ~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~  240 (361)
                      ++|+++ .+|  +. .+++|+.|++++|.+++.   .+..+++|++|++++|.++ .+|  + ..+++|+.|++++|+++
T Consensus       178 s~n~l~-~l~--l~-~l~~L~~L~l~~N~l~~~---~l~~l~~L~~L~Ls~N~l~-~ip--~-~~l~~L~~L~l~~N~l~  246 (457)
T 3bz5_A          178 SFNKIT-ELD--VS-QNKLLNRLNCDTNNITKL---DLNQNIQLTFLDCSSNKLT-EID--V-TPLTQLTYFDCSVNPLT  246 (457)
T ss_dssp             CSSCCC-CCC--CT-TCTTCCEEECCSSCCSCC---CCTTCTTCSEEECCSSCCS-CCC--C-TTCTTCSEEECCSSCCS
T ss_pred             CCCccc-eec--cc-cCCCCCEEECcCCcCCee---ccccCCCCCEEECcCCccc-ccC--c-cccCCCCEEEeeCCcCC
Confidence            888887 455  33 367777777777777743   3667777777777777777 455  2 36777777777777776


Q ss_pred             Cccccccc-----------------------------CCCCCCEEeccCCcCCccchh--------hhhcCCCCCEEECc
Q 042011          241 GHMFSRNF-----------------------------NLTNLEWLQLGGNRFVGEIPQ--------SLSKCSSLEGLYLN  283 (361)
Q Consensus       241 ~~~~~~~~-----------------------------~~~~L~~L~L~~n~l~~~~~~--------~~~~l~~L~~L~l~  283 (361)
                      +..+..+.                             .+++|+.|++++|...+.+|.        .+..+++|+.|+++
T Consensus       247 ~~~~~~l~~L~~L~l~~n~L~~L~l~~n~~~~~~~~~~l~~L~~L~Ls~n~~l~~l~~~~~~L~~L~l~~~~~L~~L~L~  326 (457)
T 3bz5_A          247 ELDVSTLSKLTTLHCIQTDLLEIDLTHNTQLIYFQAEGCRKIKELDVTHNTQLYLLDCQAAGITELDLSQNPKLVYLYLN  326 (457)
T ss_dssp             CCCCTTCTTCCEEECTTCCCSCCCCTTCTTCCEEECTTCTTCCCCCCTTCTTCCEEECTTCCCSCCCCTTCTTCCEEECT
T ss_pred             CcCHHHCCCCCEEeccCCCCCEEECCCCccCCcccccccccCCEEECCCCcccceeccCCCcceEechhhcccCCEEECC
Confidence            64433322                             334555555555554333332        24455677777777


Q ss_pred             CCcccccCCCCCCCcCcceeeccccccccC
Q 042011          284 NNSLSGNVNVPSSPANTLFNLSQNSRRFTS  313 (361)
Q Consensus       284 ~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~  313 (361)
                      +|++++.   .+..+++|+.|++++|++++
T Consensus       327 ~N~l~~l---~l~~l~~L~~L~l~~N~l~~  353 (457)
T 3bz5_A          327 NTELTEL---DVSHNTKLKSLSCVNAHIQD  353 (457)
T ss_dssp             TCCCSCC---CCTTCTTCSEEECCSSCCCB
T ss_pred             CCccccc---ccccCCcCcEEECCCCCCCC
Confidence            7777763   26777788888888888776

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=100.00  E-value=2.2e-32  Score=266.58  Aligned_cols=328  Identities=17%  Similarity=0.128  Sum_probs=236.3

Q ss_pred             eEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEe
Q 042011            6 ILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLS   85 (361)
Q Consensus         6 ~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~   85 (361)
                      +.+-++-+++ .||. .+  -+++++|||++|+|+ .++..+|.++++|++|+|++|.+++..+..   |..+.+|++|+
T Consensus        35 ~~~c~~~~l~-~vP~-~l--p~~~~~LdLs~N~i~-~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~---f~~L~~L~~L~  106 (635)
T 4g8a_A           35 TYQCMELNFY-KIPD-NL--PFSTKNLDLSFNPLR-HLGSYSFFSFPELQVLDLSRCEIQTIEDGA---YQSLSHLSTLI  106 (635)
T ss_dssp             EEECTTSCCS-SCCS-SS--CTTCCEEECTTSCCC-EECTTTTTTCTTCCEEECTTCCCCEECTTT---TTTCTTCCEEE
T ss_pred             EEECCCCCcC-ccCC-CC--CcCCCEEEeeCCCCC-CCCHHHHhCCCCCCEEECCCCcCCCcChhH---hcCCCCCCEEE
Confidence            3455566777 7887 22  248999999999998 677678999999999999999998776655   66778999999


Q ss_pred             ccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCC-CCCCcCCCCCcCEEEccCCc
Q 042011           86 LSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGP-FRLPIHSHRWLEFLDISNNN  164 (361)
Q Consensus        86 l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~-~~~~~~~l~~L~~L~l~~n~  164 (361)
                      | ++|.++...+..|.++++|++|++++|.++ .++...++++++|++|++++|.+... .|..+..+++|++|++++|+
T Consensus       107 L-s~N~l~~l~~~~f~~L~~L~~L~Ls~N~l~-~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~  184 (635)
T 4g8a_A          107 L-TGNPIQSLALGAFSGLSSLQKLVAVETNLA-SLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNK  184 (635)
T ss_dssp             C-TTCCCCEECGGGGTTCTTCCEEECTTSCCC-CSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSC
T ss_pred             c-cCCcCCCCCHHHhcCCCCCCEEECCCCcCC-CCChhhhhcCcccCeeccccCccccCCCchhhccchhhhhhcccCcc
Confidence            9 999999888888999999999999999998 56655589999999999999999753 57778889999999999998


Q ss_pred             CCccCChhhhc---------------------------------------------------------------------
Q 042011          165 FRCHIPVEIGD---------------------------------------------------------------------  175 (361)
Q Consensus       165 l~~~~~~~~~~---------------------------------------------------------------------  175 (361)
                      +++..+..+..                                                                     
T Consensus       185 l~~~~~~~l~~L~~l~~~~~~~~ls~n~l~~i~~~~~~~~~~~~l~l~~n~~~~~~~~~~~~~l~~l~~~~l~~~~~~~~  264 (635)
T 4g8a_A          185 IQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNE  264 (635)
T ss_dssp             CCEECGGGGHHHHTCTTCCCEEECTTCCCCEECTTTTTTCEEEEEEEESCCSSHHHHHHHHHTTTTCEEEEEEEECCTTS
T ss_pred             ccccccccccchhhhhhhhhhhhcccCcccccCcccccchhhhhhhhhcccccccccchhhcCCcccccccccccccccc
Confidence            76322211100                                                                     


Q ss_pred             -------------------------------------------------------------cCCCccEEEecCCcccccc
Q 042011          176 -------------------------------------------------------------ILPSLKFFNISMNALDGSI  194 (361)
Q Consensus       176 -------------------------------------------------------------~l~~L~~L~L~~n~l~~~~  194 (361)
                                                                                   ....++.|++.+|.+.+..
T Consensus       265 ~~l~~~~~~~~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~  344 (635)
T 4g8a_A          265 GNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDGIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFP  344 (635)
T ss_dssp             CCCSCCCTTTTGGGGGSEEEEEEEECCCSCEEECTTTTGGGTTCSEEEEESCEEEECGGGGSCCCCSEEEEESCEESSCC
T ss_pred             cccccccccccccccchhhhhhhhhhhcccccchhhhhhhhcccccccccccccccccccccchhhhhhhcccccccCcC
Confidence                                                                         0011223333332221100


Q ss_pred             Cc-------------------cccCCCCCCEEeccCCcCcc---------------------------------------
Q 042011          195 PS-------------------SFGNMNFLRVLDLSNNQLTG---------------------------------------  216 (361)
Q Consensus       195 ~~-------------------~l~~~~~L~~L~l~~n~l~~---------------------------------------  216 (361)
                      +.                   ....+++|+.+++++|.+..                                       
T Consensus       345 ~~~l~~L~~l~l~~n~~~~~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~~~~~~~~~~~~~~~~l~~L~~  424 (635)
T 4g8a_A          345 TLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTISLKYLDLSFNGVITMSSNFLGLEQLEH  424 (635)
T ss_dssp             CCBCTTCCEEEEESCCSCCBCCCCBCTTCCEEECCSSCCBEEEECCHHHHSCSCCCEEECCSCSEEEECSCCTTCTTCCE
T ss_pred             cccchhhhhcccccccCCCCcccccccccccchhhccccccccccccchhhhhhhhhhhccccccccccccccccccccc
Confidence            00                   01123344444444443320                                       


Q ss_pred             ----------------------------------ccchhhhhCCCCCcEEEeecCCC-CCcccccccCCCCCCEEeccCC
Q 042011          217 ----------------------------------EIPEHLAVGCVNLESLALSNNSL-EGHMFSRNFNLTNLEWLQLGGN  261 (361)
Q Consensus       217 ----------------------------------~~~~~~~~~~~~L~~L~L~~n~l-~~~~~~~~~~~~~L~~L~L~~n  261 (361)
                                                        ..+...+..++.++.|++++|.+ ....+..+..+++|++|++++|
T Consensus       425 l~l~~~~~~~~~~~~~~~~l~~l~~l~ls~n~l~~~~~~~~~~~~~L~~L~Ls~N~~~~~~~~~~~~~l~~L~~L~Ls~N  504 (635)
T 4g8a_A          425 LDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC  504 (635)
T ss_dssp             EECTTSEEESTTSSCTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTS
T ss_pred             hhhhhccccccccccccccccccccccccccccccccccccccchhhhhhhhhhcccccccCchhhhhccccCEEECCCC
Confidence                                              11122223556677777777764 3456778889999999999999


Q ss_pred             cCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCccccccccc-ccchhhhHHHhhccchH
Q 042011          262 RFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNL-HGICKEYAKEFARNMPR  340 (361)
Q Consensus       262 ~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  340 (361)
                      ++++..|..|.++++|++|++++|+|++..+..|..+++|++|++++|++++..|.. +..+ ..+    ..-...++|+
T Consensus       505 ~L~~l~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~-l~~l~~~L----~~L~L~~Np~  579 (635)
T 4g8a_A          505 QLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQE-LQHFPSSL----AFLNLTQNDF  579 (635)
T ss_dssp             CCCEECTTTTTTCTTCCEEECTTSCCCBCCCGGGTTCTTCCEEECTTSCCCBCCSSC-TTCCCTTC----CEEECTTCCB
T ss_pred             ccCCcChHHHcCCCCCCEEECCCCcCCCCChhHHhCCCCCCEEECCCCcCCCCCHHH-HHhhhCcC----CEEEeeCCCC
Confidence            999888999999999999999999999988888999999999999999999877643 2222 111    1123466888


Q ss_pred             HHHHHHHH
Q 042011          341 ICEEYAAY  348 (361)
Q Consensus       341 ~c~~~~~~  348 (361)
                      .|+|...|
T Consensus       580 ~C~C~~~~  587 (635)
T 4g8a_A          580 ACTCEHQS  587 (635)
T ss_dssp             CCSGGGHH
T ss_pred             cccCCcHH
Confidence            88885444

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=100.00  E-value=5.3e-32  Score=243.45  Aligned_cols=288  Identities=17%  Similarity=0.171  Sum_probs=243.6

Q ss_pred             CCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccccc
Q 042011            3 SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLN   82 (361)
Q Consensus         3 ~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~   82 (361)
                      +++.++++++.++ .+|. .+  .++|++|++++|+++ .++...|.++++|++|++++|.+++..+..   +..+.+|+
T Consensus        34 ~l~~l~~~~~~l~-~ip~-~~--~~~l~~L~l~~n~i~-~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~---~~~l~~L~  105 (332)
T 2ft3_A           34 HLRVVQCSDLGLK-AVPK-EI--SPDTTLLDLQNNDIS-ELRKDDFKGLQHLYALVLVNNKISKIHEKA---FSPLRKLQ  105 (332)
T ss_dssp             ETTEEECCSSCCS-SCCS-CC--CTTCCEEECCSSCCC-EECTTTTTTCTTCCEEECCSSCCCEECGGG---STTCTTCC
T ss_pred             cCCEEECCCCCcc-ccCC-CC--CCCCeEEECCCCcCC-ccCHhHhhCCCCCcEEECCCCccCccCHhH---hhCcCCCC
Confidence            5899999999998 8887 34  479999999999998 555468999999999999999998776655   56778999


Q ss_pred             EEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCccc--CCCCCCcCCCCCcCEEEc
Q 042011           83 SLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLT--GPFRLPIHSHRWLEFLDI  160 (361)
Q Consensus        83 ~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~--~~~~~~~~~l~~L~~L~l  160 (361)
                      +|++ ++|.+... |..+.  ++|++|++++|.++ .++...+.++++|++|++++|.+.  +..+..+..+ +|++|++
T Consensus       106 ~L~L-~~n~l~~l-~~~~~--~~L~~L~l~~n~i~-~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l  179 (332)
T 2ft3_A          106 KLYI-SKNHLVEI-PPNLP--SSLVELRIHDNRIR-KVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRI  179 (332)
T ss_dssp             EEEC-CSSCCCSC-CSSCC--TTCCEEECCSSCCC-CCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBC
T ss_pred             EEEC-CCCcCCcc-Ccccc--ccCCEEECCCCccC-ccCHhHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEEC
Confidence            9999 88988854 44333  89999999999998 566655899999999999999996  3667778877 8999999


Q ss_pred             cCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCC
Q 042011          161 SNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE  240 (361)
Q Consensus       161 ~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~  240 (361)
                      ++|+++ .+|..++   ++|++|++++|.+++..+..+..+++|++|++++|.+. .++...+..+++|++|++++|+++
T Consensus       180 ~~n~l~-~l~~~~~---~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~l~-~~~~~~~~~l~~L~~L~L~~N~l~  254 (332)
T 2ft3_A          180 SEAKLT-GIPKDLP---ETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIR-MIENGSLSFLPTLRELHLDNNKLS  254 (332)
T ss_dssp             CSSBCS-SCCSSSC---SSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSCCC-CCCTTGGGGCTTCCEEECCSSCCC
T ss_pred             cCCCCC-ccCcccc---CCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCC-cCChhHhhCCCCCCEEECCCCcCe
Confidence            999998 7887654   69999999999999777788999999999999999999 555544458999999999999998


Q ss_pred             CcccccccCCCCCCEEeccCCcCCccchhhhhcC------CCCCEEECcCCccc--ccCCCCCCCcCcceeecccccc
Q 042011          241 GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKC------SSLEGLYLNNNSLS--GNVNVPSSPANTLFNLSQNSRR  310 (361)
Q Consensus       241 ~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l------~~L~~L~l~~N~l~--~~~~~~~~~~~~L~~l~l~~N~  310 (361)
                      . .|..+..+++|+.|++++|++++..+..|...      ++|+.+++++|.+.  +..|.+|..+++|+.+++++|+
T Consensus       255 ~-lp~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~~~~~~~~~~~~~~l~~L~~l~l~~n~  331 (332)
T 2ft3_A          255 R-VPAGLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEVQPATFRCVTDRLAIQFGNYK  331 (332)
T ss_dssp             B-CCTTGGGCTTCCEEECCSSCCCBCCTTSSSCSSCCSSSCCBSEEECCSSSSCGGGSCGGGGTTBCCSTTEEC----
T ss_pred             e-cChhhhcCccCCEEECCCCCCCccChhHccccccccccccccceEeecCcccccccCcccccccchhhhhhccccc
Confidence            5 67778999999999999999997777777653      67999999999987  5677789999999999999885

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.98  E-value=1.5e-30  Score=243.40  Aligned_cols=291  Identities=21%  Similarity=0.224  Sum_probs=173.2

Q ss_pred             CCCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccc
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQ   80 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~   80 (361)
                      +++|++|++++|+++ .+|   +..+++|++|++++|++++ ++   +.++++|++|++++|.+++. +     +..+.+
T Consensus        63 l~~L~~L~Ls~n~l~-~~~---~~~l~~L~~L~Ls~N~l~~-~~---~~~l~~L~~L~L~~N~l~~l-~-----~~~l~~  128 (457)
T 3bz5_A           63 LTGLTKLICTSNNIT-TLD---LSQNTNLTYLACDSNKLTN-LD---VTPLTKLTYLNCDTNKLTKL-D-----VSQNPL  128 (457)
T ss_dssp             CTTCSEEECCSSCCS-CCC---CTTCTTCSEEECCSSCCSC-CC---CTTCTTCCEEECCSSCCSCC-C-----CTTCTT
T ss_pred             cCCCCEEEccCCcCC-eEc---cccCCCCCEEECcCCCCce-ee---cCCCCcCCEEECCCCcCCee-c-----CCCCCc
Confidence            467788888888877 454   6677788888888887773 33   66777777777777777653 1     345557


Q ss_pred             ccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCC--------------
Q 042011           81 LNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFR--------------  146 (361)
Q Consensus        81 L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~--------------  146 (361)
                      |++|++ ++|.+++.   .++.+++|++|++++|...+.++   +..+++|++|++++|++++. +              
T Consensus       129 L~~L~l-~~N~l~~l---~l~~l~~L~~L~l~~n~~~~~~~---~~~l~~L~~L~ls~n~l~~l-~l~~l~~L~~L~l~~  200 (457)
T 3bz5_A          129 LTYLNC-ARNTLTEI---DVSHNTQLTELDCHLNKKITKLD---VTPQTQLTTLDCSFNKITEL-DVSQNKLLNRLNCDT  200 (457)
T ss_dssp             CCEEEC-TTSCCSCC---CCTTCTTCCEEECTTCSCCCCCC---CTTCTTCCEEECCSSCCCCC-CCTTCTTCCEEECCS
T ss_pred             CCEEEC-CCCcccee---ccccCCcCCEEECCCCCcccccc---cccCCcCCEEECCCCcccee-ccccCCCCCEEECcC
Confidence            777777 66666553   14455555555555553322332   33445555555555554431 1              


Q ss_pred             -----CCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCC-------CCCEEeccCCcC
Q 042011          147 -----LPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMN-------FLRVLDLSNNQL  214 (361)
Q Consensus       147 -----~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~-------~L~~L~l~~n~l  214 (361)
                           ..+..+++|++|++++|+++ .+|  +. .+++|+.|++++|.+++..+..+..+.       +|+++++++|.+
T Consensus       201 N~l~~~~l~~l~~L~~L~Ls~N~l~-~ip--~~-~l~~L~~L~l~~N~l~~~~~~~l~~L~~L~l~~n~L~~L~l~~n~~  276 (457)
T 3bz5_A          201 NNITKLDLNQNIQLTFLDCSSNKLT-EID--VT-PLTQLTYFDCSVNPLTELDVSTLSKLTTLHCIQTDLLEIDLTHNTQ  276 (457)
T ss_dssp             SCCSCCCCTTCTTCSEEECCSSCCS-CCC--CT-TCTTCSEEECCSSCCSCCCCTTCTTCCEEECTTCCCSCCCCTTCTT
T ss_pred             CcCCeeccccCCCCCEEECcCCccc-ccC--cc-ccCCCCEEEeeCCcCCCcCHHHCCCCCEEeccCCCCCEEECCCCcc
Confidence                 02444445555555555554 233  22 244555555555555433222222221       223333333333


Q ss_pred             ccccchhhhhCCCCCcEEEeecCCCCCcccc--------cccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCc
Q 042011          215 TGEIPEHLAVGCVNLESLALSNNSLEGHMFS--------RNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNS  286 (361)
Q Consensus       215 ~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~--------~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~  286 (361)
                      .+.+|.   ..+++|+.|++++|...+..+.        .+..+++|+.|++++|++++. +  +..+++|+.|++++|+
T Consensus       277 ~~~~~~---~~l~~L~~L~Ls~n~~l~~l~~~~~~L~~L~l~~~~~L~~L~L~~N~l~~l-~--l~~l~~L~~L~l~~N~  350 (457)
T 3bz5_A          277 LIYFQA---EGCRKIKELDVTHNTQLYLLDCQAAGITELDLSQNPKLVYLYLNNTELTEL-D--VSHNTKLKSLSCVNAH  350 (457)
T ss_dssp             CCEEEC---TTCTTCCCCCCTTCTTCCEEECTTCCCSCCCCTTCTTCCEEECTTCCCSCC-C--CTTCTTCSEEECCSSC
T ss_pred             CCcccc---cccccCCEEECCCCcccceeccCCCcceEechhhcccCCEEECCCCccccc-c--cccCCcCcEEECCCCC
Confidence            333331   2457777888887765443332        356778999999999999974 3  8899999999999999


Q ss_pred             ccccCCC-CC----------CCcCcceeeccccccccCCccccccccc
Q 042011          287 LSGNVNV-PS----------SPANTLFNLSQNSRRFTSSISHSHLLNL  323 (361)
Q Consensus       287 l~~~~~~-~~----------~~~~~L~~l~l~~N~~~~~~~~~~~~~~  323 (361)
                      +++...- .+          ..+..+..++++.|+++|.+|...+..+
T Consensus       351 l~~l~~L~~L~l~~n~l~g~~~~~~l~~l~l~~N~l~g~ip~~~~~~~  398 (457)
T 3bz5_A          351 IQDFSSVGKIPALNNNFEAEGQTITMPKETLTNNSLTIAVSPDLLDQF  398 (457)
T ss_dssp             CCBCTTGGGSSGGGTSEEEEEEEEECCCBCCBTTBEEEECCTTCBCTT
T ss_pred             CCCccccccccccCCcEEecceeeecCccccccCcEEEEcChhHhccc
Confidence            9873110 00          1124567889999999999987655543

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.97  E-value=9e-31  Score=244.40  Aligned_cols=238  Identities=21%  Similarity=0.173  Sum_probs=202.6

Q ss_pred             cccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEE
Q 042011           80 QLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLD  159 (361)
Q Consensus        80 ~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~  159 (361)
                      +++.|++ ++|.+....+..|..+++|++|++++|.++ .++...|.++++|++|++++|+++...+..|..+++|++|+
T Consensus        65 ~l~~L~L-~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~-~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~  142 (440)
T 3zyj_A           65 NTRLLNL-HENQIQIIKVNSFKHLRHLEILQLSRNHIR-TIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELW  142 (440)
T ss_dssp             TCSEEEC-CSCCCCEECTTTTSSCSSCCEEECCSSCCC-EECGGGGTTCSSCCEEECCSSCCSSCCTTTSCSCSSCCEEE
T ss_pred             CCcEEEc-cCCcCCeeCHHHhhCCCCCCEEECCCCcCC-ccChhhccCCccCCEEECCCCcCCeeCHhHhhccccCceee
Confidence            5666666 666666666677888889999999999887 55544488899999999999998877777888999999999


Q ss_pred             ccCCcCCccCChhhhccCCCccEEEecCC-ccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCC
Q 042011          160 ISNNNFRCHIPVEIGDILPSLKFFNISMN-ALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNS  238 (361)
Q Consensus       160 l~~n~l~~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~  238 (361)
                      +++|+++ .++...+..+++|++|++++| .+....+..|..+++|++|++++|.++ .+|. + ..+++|++|++++|+
T Consensus       143 L~~N~i~-~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~-~~~~-~-~~l~~L~~L~Ls~N~  218 (440)
T 3zyj_A          143 LRNNPIE-SIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLR-EIPN-L-TPLIKLDELDLSGNH  218 (440)
T ss_dssp             CCSCCCC-EECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCS-SCCC-C-TTCSSCCEEECTTSC
T ss_pred             CCCCccc-ccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCc-cccc-c-CCCcccCEEECCCCc
Confidence            9999998 677766666899999999984 445444557889999999999999998 7775 3 378999999999999


Q ss_pred             CCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcccc
Q 042011          239 LEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHS  318 (361)
Q Consensus       239 l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~  318 (361)
                      +++..+..+..+++|+.|++++|++++..+..|..+++|+.|++++|++++..+..|..+++|+.|++++|+|.|++...
T Consensus       219 l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~Np~~CdC~l~  298 (440)
T 3zyj_A          219 LSAIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHNNLTLLPHDLFTPLHHLERIHLHHNPWNCNCDIL  298 (440)
T ss_dssp             CCEECTTTTTTCTTCCEEECTTCCCCEECTTSSTTCTTCCEEECTTSCCCCCCTTTTSSCTTCCEEECCSSCEECSSTTH
T ss_pred             cCccChhhhccCccCCEEECCCCceeEEChhhhcCCCCCCEEECCCCCCCccChhHhccccCCCEEEcCCCCccCCCCch
Confidence            99988899999999999999999999888899999999999999999999888888999999999999999999999877


Q ss_pred             ccccc
Q 042011          319 HLLNL  323 (361)
Q Consensus       319 ~~~~~  323 (361)
                      ++..|
T Consensus       299 ~l~~~  303 (440)
T 3zyj_A          299 WLSWW  303 (440)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76655

>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=99.97  E-value=1.6e-30  Score=243.55  Aligned_cols=258  Identities=20%  Similarity=0.154  Sum_probs=212.5

Q ss_pred             CcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcE
Q 042011           54 LKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLET  133 (361)
Q Consensus        54 L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~  133 (361)
                      .+.++.++..++... ..+   .  .++++|++ ++|.+....+..|..+++|+.|++++|.+++ ++...+.++++|++
T Consensus        56 ~~~v~c~~~~l~~iP-~~~---~--~~l~~L~L-~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~-~~~~~~~~l~~L~~  127 (452)
T 3zyi_A           56 FSKVVCTRRGLSEVP-QGI---P--SNTRYLNL-MENNIQMIQADTFRHLHHLEVLQLGRNSIRQ-IEVGAFNGLASLNT  127 (452)
T ss_dssp             SCEEECCSSCCSSCC-SCC---C--TTCSEEEC-CSSCCCEECTTTTTTCTTCCEEECCSSCCCE-ECTTTTTTCTTCCE
T ss_pred             CcEEEECCCCcCccC-CCC---C--CCccEEEC-cCCcCceECHHHcCCCCCCCEEECCCCccCC-cChhhccCcccCCE
Confidence            455666666555322 211   1  26777777 7777776677788889999999999999884 44334788999999


Q ss_pred             EEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCC-ccccccCccccCCCCCCEEeccCC
Q 042011          134 LFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMN-ALDGSIPSSFGNMNFLRVLDLSNN  212 (361)
Q Consensus       134 L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~l~~~~~L~~L~l~~n  212 (361)
                      |++++|+++...+..|..+++|++|++++|+++ .++...+..+++|++|++++| .+....+..|..+++|++|++++|
T Consensus       128 L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~-~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n  206 (452)
T 3zyi_A          128 LELFDNWLTVIPSGAFEYLSKLRELWLRNNPIE-SIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMC  206 (452)
T ss_dssp             EECCSSCCSBCCTTTSSSCTTCCEEECCSCCCC-EECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTS
T ss_pred             EECCCCcCCccChhhhcccCCCCEEECCCCCcc-eeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCC
Confidence            999999998777777888999999999999998 777766667899999999984 455444457889999999999999


Q ss_pred             cCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCC
Q 042011          213 QLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVN  292 (361)
Q Consensus       213 ~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~  292 (361)
                      .++ .+|. + ..+++|++|++++|.+++..+..+..+++|+.|++++|++++..+..|..+++|+.|++++|++++..+
T Consensus       207 ~l~-~~~~-~-~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~  283 (452)
T 3zyi_A          207 NIK-DMPN-L-TPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNLSSLPH  283 (452)
T ss_dssp             CCS-SCCC-C-TTCTTCCEEECTTSCCSEECGGGGTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCCCT
T ss_pred             ccc-cccc-c-cccccccEEECcCCcCcccCcccccCccCCCEEEeCCCcCceECHHHhcCCCCCCEEECCCCcCCccCh
Confidence            998 6664 3 378999999999999999889999999999999999999998889999999999999999999998888


Q ss_pred             CCCCCcCcceeeccccccccCCccccccccc
Q 042011          293 VPSSPANTLFNLSQNSRRFTSSISHSHLLNL  323 (361)
Q Consensus       293 ~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~  323 (361)
                      ..|..+++|+.|++++|+|.|++...++..|
T Consensus       284 ~~~~~l~~L~~L~L~~Np~~CdC~~~~l~~~  314 (452)
T 3zyi_A          284 DLFTPLRYLVELHLHHNPWNCDCDILWLAWW  314 (452)
T ss_dssp             TSSTTCTTCCEEECCSSCEECSTTTHHHHHH
T ss_pred             HHhccccCCCEEEccCCCcCCCCCchHHHHH
Confidence            8889999999999999999999987776554

>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=99.97  E-value=1.1e-30  Score=232.20  Aligned_cols=258  Identities=18%  Similarity=0.176  Sum_probs=191.3

Q ss_pred             CeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCccEE
Q 042011           30 EELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALV  109 (361)
Q Consensus        30 ~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L  109 (361)
                      +.++++++.++ .+|. .+  .++|++|++++|.++.                            ..+..|..+++|++|
T Consensus        10 ~~l~c~~~~l~-~ip~-~~--~~~l~~L~L~~n~l~~----------------------------i~~~~~~~l~~L~~L   57 (306)
T 2z66_A           10 TEIRCNSKGLT-SVPT-GI--PSSATRLELESNKLQS----------------------------LPHGVFDKLTQLTKL   57 (306)
T ss_dssp             TEEECCSSCCS-SCCS-CC--CTTCCEEECCSSCCCC----------------------------CCTTTTTTCTTCSEE
T ss_pred             CEEEcCCCCcc-cCCC-CC--CCCCCEEECCCCccCc----------------------------cCHhHhhccccCCEE
Confidence            46777777776 5663 22  2466666666666542                            233345667777777


Q ss_pred             EecCCcccCC--cChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCCh-hhhccCCCccEEEec
Q 042011          110 DLSHIKMNGE--FPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPV-EIGDILPSLKFFNIS  186 (361)
Q Consensus       110 ~l~~n~l~~~--~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~-~~~~~l~~L~~L~L~  186 (361)
                      ++++|.++..  .+.. +..+++|++|++++|.+.. .+..+..+++|++|++++|+++ .++. ..+..+++|++|+++
T Consensus        58 ~L~~n~l~~~~~~~~~-~~~~~~L~~L~Ls~n~i~~-l~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~~l~~L~~L~l~  134 (306)
T 2z66_A           58 SLSSNGLSFKGCCSQS-DFGTTSLKYLDLSFNGVIT-MSSNFLGLEQLEHLDFQHSNLK-QMSEFSVFLSLRNLIYLDIS  134 (306)
T ss_dssp             ECCSSCCCEEEEEEHH-HHSCSCCCEEECCSCSEEE-EEEEEETCTTCCEEECTTSEEE-SSTTTTTTTTCTTCCEEECT
T ss_pred             ECCCCccCcccCcccc-cccccccCEEECCCCcccc-ChhhcCCCCCCCEEECCCCccc-ccccchhhhhccCCCEEECC
Confidence            7777776521  1344 4567777888887777764 4555777788888888888877 4443 334447888888888


Q ss_pred             CCccccccCccccCCCCCCEEeccCCcCcc-ccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCc
Q 042011          187 MNALDGSIPSSFGNMNFLRVLDLSNNQLTG-EIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVG  265 (361)
Q Consensus       187 ~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~-~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~  265 (361)
                      +|.+.+..+..+..+++|++|++++|.+.+ .+|..+. .+++|++|++++|++++..+..+..+++|+.|++++|++++
T Consensus       135 ~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~-~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~  213 (306)
T 2z66_A          135 HTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFT-ELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFS  213 (306)
T ss_dssp             TSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECSCCT-TCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCSB
T ss_pred             CCcCCccchhhcccCcCCCEEECCCCccccccchhHHh-hCcCCCEEECCCCCcCCcCHHHhcCCCCCCEEECCCCccCc
Confidence            888877777778888888888888888874 2454443 78889999999998888778888888999999999999987


Q ss_pred             cchhhhhcCCCCCEEECcCCcccccCCCCCCCcC-cceeeccccccccCCccccccccc
Q 042011          266 EIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPAN-TLFNLSQNSRRFTSSISHSHLLNL  323 (361)
Q Consensus       266 ~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~-~L~~l~l~~N~~~~~~~~~~~~~~  323 (361)
                      ..+..+..+++|+.|++++|++++..|..+..++ +|++|++++|+++|.++..++..|
T Consensus       214 ~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~L~L~~N~~~~~c~~~~~~~~  272 (306)
T 2z66_A          214 LDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFACTCEHQSFLQW  272 (306)
T ss_dssp             CCSGGGTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCCEEECTTCCEECSGGGHHHHHH
T ss_pred             cChhhccCcccCCEeECCCCCCcccCHHHHHhhhccCCEEEccCCCeecccChHHHHHH
Confidence            7777888899999999999999988888888874 899999999999998876665554

>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=99.97  E-value=4.2e-31  Score=234.86  Aligned_cols=278  Identities=21%  Similarity=0.191  Sum_probs=192.4

Q ss_pred             CeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEE
Q 042011            5 RILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSL   84 (361)
Q Consensus         5 ~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L   84 (361)
                      +.++.+++.++ .+|. .+  .++|++|++++|+++ .++...|.++++|++|++++|.++...                
T Consensus        10 ~~l~c~~~~l~-~ip~-~~--~~~l~~L~L~~n~l~-~i~~~~~~~l~~L~~L~L~~n~l~~~~----------------   68 (306)
T 2z66_A           10 TEIRCNSKGLT-SVPT-GI--PSSATRLELESNKLQ-SLPHGVFDKLTQLTKLSLSSNGLSFKG----------------   68 (306)
T ss_dssp             TEEECCSSCCS-SCCS-CC--CTTCCEEECCSSCCC-CCCTTTTTTCTTCSEEECCSSCCCEEE----------------
T ss_pred             CEEEcCCCCcc-cCCC-CC--CCCCCEEECCCCccC-ccCHhHhhccccCCEEECCCCccCccc----------------
Confidence            57899999998 8887 33  379999999999998 777667899999999999999886321                


Q ss_pred             eccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCC-CCcCCCCCcCEEEccCC
Q 042011           85 SLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFR-LPIHSHRWLEFLDISNN  163 (361)
Q Consensus        85 ~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~-~~~~~l~~L~~L~l~~n  163 (361)
                                ..+..+..+++|++|++++|.++ .++.. +..+++|++|++++|++.+..+ ..+..+++|++|++++|
T Consensus        69 ----------~~~~~~~~~~~L~~L~Ls~n~i~-~l~~~-~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n  136 (306)
T 2z66_A           69 ----------CCSQSDFGTTSLKYLDLSFNGVI-TMSSN-FLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHT  136 (306)
T ss_dssp             ----------EEEHHHHSCSCCCEEECCSCSEE-EEEEE-EETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTS
T ss_pred             ----------CcccccccccccCEEECCCCccc-cChhh-cCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCCC
Confidence                      01233444566666666666665 44444 5566667777777666665433 45666777777777777


Q ss_pred             cCCccCChhhhccCCCccEEEecCCcccc-ccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCc
Q 042011          164 NFRCHIPVEIGDILPSLKFFNISMNALDG-SIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGH  242 (361)
Q Consensus       164 ~l~~~~~~~~~~~l~~L~~L~L~~n~l~~-~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~  242 (361)
                      .+.+..+ ..+..+++|++|++++|.+++ ..|..+..+++|++|++++|.++ .++...+..+++|++|++++|++++.
T Consensus       137 ~l~~~~~-~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~-~~~~~~~~~l~~L~~L~L~~N~l~~~  214 (306)
T 2z66_A          137 HTRVAFN-GIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLE-QLSPTAFNSLSSLQVLNMSHNNFFSL  214 (306)
T ss_dssp             CCEECST-TTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCC-EECTTTTTTCTTCCEEECTTSCCSBC
T ss_pred             cCCccch-hhcccCcCCCEEECCCCccccccchhHHhhCcCCCEEECCCCCcC-CcCHHHhcCCCCCCEEECCCCccCcc
Confidence            7763333 333346777777777777764 46677777788888888888877 44333333677888888888888776


Q ss_pred             ccccccCCCCCCEEeccCCcCCccchhhhhcCC-CCCEEECcCCcccccCCC-C-CCCcCcceeeccccccccCCccc
Q 042011          243 MFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCS-SLEGLYLNNNSLSGNVNV-P-SSPANTLFNLSQNSRRFTSSISH  317 (361)
Q Consensus       243 ~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~-~L~~L~l~~N~l~~~~~~-~-~~~~~~L~~l~l~~N~~~~~~~~  317 (361)
                      .+..+..+++|+.|++++|++++..+..+..++ +|+.|++++|.+++..+. + ...+...+.+....+.+.|..|.
T Consensus       215 ~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~L~L~~N~~~~~c~~~~~~~~l~~~~~~~~~~~~~~C~~p~  292 (306)
T 2z66_A          215 DTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFACTCEHQSFLQWIKDQRQLLVEVERMECATPS  292 (306)
T ss_dssp             CSGGGTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCCEEECTTCCEECSGGGHHHHHHHHHTGGGBSCGGGCBEEESG
T ss_pred             ChhhccCcccCCEeECCCCCCcccCHHHHHhhhccCCEEEccCCCeecccChHHHHHHHHhhhhhhccccccccCCch
Confidence            666777788888888888888877777777774 888888888888753221 1 12234444555666677766553

>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=99.97  E-value=7.7e-31  Score=237.88  Aligned_cols=279  Identities=19%  Similarity=0.166  Sum_probs=227.6

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      +.....+.+++.++ .+|. .+  .++|++|++++|+++ .++...|.++++|++|++++|.+++..+..   +..+.+|
T Consensus        31 ~~~~~c~~~~~~l~-~iP~-~~--~~~L~~L~l~~n~i~-~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~---~~~l~~L  102 (353)
T 2z80_A           31 DRNGICKGSSGSLN-SIPS-GL--TEAVKSLDLSNNRIT-YISNSDLQRCVNLQALVLTSNGINTIEEDS---FSSLGSL  102 (353)
T ss_dssp             CTTSEEECCSTTCS-SCCT-TC--CTTCCEEECTTSCCC-EECTTTTTTCTTCCEEECTTSCCCEECTTT---TTTCTTC
T ss_pred             CCCeEeeCCCCCcc-cccc-cc--cccCcEEECCCCcCc-ccCHHHhccCCCCCEEECCCCccCccCHhh---cCCCCCC
Confidence            34456889999998 8987 33  258999999999998 566568999999999999999998766554   5667799


Q ss_pred             cEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcCh-HHHhcCCCCcEEEecCC-cccCCCCCCcCCCCCcCEEE
Q 042011           82 NSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPT-WLLENNTKLETLFLVND-SLTGPFRLPIHSHRWLEFLD  159 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~-~~~~~~~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~  159 (361)
                      ++|++ ++|.++...+..+..+++|++|++++|.++ .++. ..+..+++|++|++++| .+....+..+..+++|++|+
T Consensus       103 ~~L~L-s~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~  180 (353)
T 2z80_A          103 EHLDL-SYNYLSNLSSSWFKPLSSLTFLNLLGNPYK-TLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELE  180 (353)
T ss_dssp             CEEEC-CSSCCSSCCHHHHTTCTTCSEEECTTCCCS-SSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEE
T ss_pred             CEEEC-CCCcCCcCCHhHhCCCccCCEEECCCCCCc-ccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEE
Confidence            99999 999999777777999999999999999998 5665 44889999999999998 46666678899999999999


Q ss_pred             ccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhh--hhCCCCCcEEEeecC
Q 042011          160 ISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHL--AVGCVNLESLALSNN  237 (361)
Q Consensus       160 l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~--~~~~~~L~~L~L~~n  237 (361)
                      +++|++++..|..+.. +++|++|++++|.++......+..+++|++|++++|.+++..+..+  ....+.++.++++++
T Consensus       181 l~~n~l~~~~~~~l~~-l~~L~~L~l~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~~~~~~l~~l~L~~~  259 (353)
T 2z80_A          181 IDASDLQSYEPKSLKS-IQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNV  259 (353)
T ss_dssp             EEETTCCEECTTTTTT-CSEEEEEEEECSCSTTHHHHHHHHTTTEEEEEEESCBCTTCCCC------CCCCCCEEEEESC
T ss_pred             CCCCCcCccCHHHHhc-cccCCeecCCCCccccchhhhhhhcccccEEECCCCccccccccccccccccchhhccccccc
Confidence            9999998555666554 8999999999999974433345568999999999999984333222  124677999999999


Q ss_pred             CCCC----cccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccC
Q 042011          238 SLEG----HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV  291 (361)
Q Consensus       238 ~l~~----~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~  291 (361)
                      .+.+    ..+..+..+++|+.|++++|++++..+..|..+++|++|++++|.+.+..
T Consensus       260 ~l~~~~l~~l~~~l~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~~~~~~  317 (353)
T 2z80_A          260 KITDESLFQVMKLLNQISGLLELEFSRNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSC  317 (353)
T ss_dssp             BCCHHHHHHHHHHHHTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCBCCCH
T ss_pred             cccCcchhhhHHHHhcccCCCEEECCCCCCCccCHHHHhcCCCCCEEEeeCCCccCcC
Confidence            8876    25667889999999999999999544444689999999999999998644

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.97  E-value=6.7e-33  Score=260.38  Aligned_cols=311  Identities=20%  Similarity=0.133  Sum_probs=194.0

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccC----CCCeEeCcCCcccc----cCCcccccCCCCCcEEEccCCCcccccccccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLT----SIEELMLSNNHFQI----PISLEPLFNHSRLKIFYADNNELNAEITQSHS   73 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~----~L~~L~Ls~n~l~~----~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~   73 (361)
                      ++|++|++++|.+++..+...+..++    +|++|++++|+++.    .++ ..+..+++|++|++++|.+++.....+.
T Consensus        56 ~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~-~~l~~~~~L~~L~Ls~n~i~~~~~~~l~  134 (461)
T 1z7x_W           56 PALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLS-STLRTLPTLQELHLSDNLLGDAGLQLLC  134 (461)
T ss_dssp             TTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHHHH-HHTTSCTTCCEEECCSSBCHHHHHHHHH
T ss_pred             CCcCEEeCCCCcCChHHHHHHHHHHhhCCCceeEEEccCCCCCHHHHHHHH-HHHccCCceeEEECCCCcCchHHHHHHH
Confidence            55666666666665322321233344    46666666666652    223 3556666677777776666543322211


Q ss_pred             c--ccCcccccEEeccCCCCCCCCC----chhhcCCCCccEEEecCCcccCCcChHHH----hcCCCCcEEEecCCcccC
Q 042011           74 L--IAPNFQLNSLSLSSDYGDGFIF----PKFLYHQHDLALVDLSHIKMNGEFPTWLL----ENNTKLETLFLVNDSLTG  143 (361)
Q Consensus        74 ~--~~~~~~L~~L~l~~~~~~~~~~----~~~l~~l~~L~~L~l~~n~l~~~~~~~~~----~~~~~L~~L~l~~n~l~~  143 (361)
                      .  ..+..+|++|++ ++|.++...    +..+..+++|++|++++|.+++..+..+.    ...++|++|++++|.++.
T Consensus       135 ~~l~~~~~~L~~L~L-~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~  213 (461)
T 1z7x_W          135 EGLLDPQCRLEKLQL-EYCSLSAASCEPLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTS  213 (461)
T ss_dssp             HHHTSTTCCCCEEEC-TTSCCBGGGHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBT
T ss_pred             HHHhcCCCcceEEEC-CCCCCCHHHHHHHHHHHhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCCCcH
Confidence            1  112335777777 666665532    44455567777777777776533222221    234577777777777764


Q ss_pred             C----CCCCcCCCCCcCEEEccCCcCCccC----ChhhhccCCCccEEEecCCccccc----cCccccCCCCCCEEeccC
Q 042011          144 P----FRLPIHSHRWLEFLDISNNNFRCHI----PVEIGDILPSLKFFNISMNALDGS----IPSSFGNMNFLRVLDLSN  211 (361)
Q Consensus       144 ~----~~~~~~~l~~L~~L~l~~n~l~~~~----~~~~~~~l~~L~~L~L~~n~l~~~----~~~~l~~~~~L~~L~l~~  211 (361)
                      .    ++..+..+++|++|++++|++++..    ...++..+++|++|++++|.+++.    ++..+..+++|++|++++
T Consensus       214 ~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~  293 (461)
T 1z7x_W          214 DNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAG  293 (461)
T ss_dssp             THHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTT
T ss_pred             HHHHHHHHHHHhCCCccEEeccCCcCChHHHHHHHHHHhcCCCCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCC
Confidence            3    3445556677888888888776321    122332367788888888877743    455666778888888888


Q ss_pred             CcCccccchhhh----hCCCCCcEEEeecCCCCCc----ccccccCCCCCCEEeccCCcCCccchhhhhc-----CCCCC
Q 042011          212 NQLTGEIPEHLA----VGCVNLESLALSNNSLEGH----MFSRNFNLTNLEWLQLGGNRFVGEIPQSLSK-----CSSLE  278 (361)
Q Consensus       212 n~l~~~~~~~~~----~~~~~L~~L~L~~n~l~~~----~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~-----l~~L~  278 (361)
                      |.+.+..+..+.    ...++|++|++++|.+++.    .+..+..+++|+.|++++|++++..+..+..     .++|+
T Consensus       294 n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~  373 (461)
T 1z7x_W          294 NELGDEGARLLCETLLEPGCQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLR  373 (461)
T ss_dssp             CCCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCC
T ss_pred             CCCchHHHHHHHHHhccCCccceeeEcCCCCCchHHHHHHHHHHhhCCCccEEEccCCccccccHHHHHHHHcCCCCceE
Confidence            877643332222    1235788888888887764    3455566788888888888887665554443     57888


Q ss_pred             EEECcCCcccc----cCCCCCCCcCcceeeccccccccCC
Q 042011          279 GLYLNNNSLSG----NVNVPSSPANTLFNLSQNSRRFTSS  314 (361)
Q Consensus       279 ~L~l~~N~l~~----~~~~~~~~~~~L~~l~l~~N~~~~~  314 (361)
                      +|++++|++++    .+|..+..+++|++|++++|++++.
T Consensus       374 ~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~N~i~~~  413 (461)
T 1z7x_W          374 VLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGDA  413 (461)
T ss_dssp             EEECTTSCCCHHHHHHHHHHHHHCCCCCEEECCSSSCCHH
T ss_pred             EEECCCCCCChhhHHHHHHHHHhCCCccEEECCCCCCCHH
Confidence            88888888875    5666677788888888888888753

>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=99.97  E-value=5.7e-29  Score=232.43  Aligned_cols=250  Identities=25%  Similarity=0.292  Sum_probs=143.1

Q ss_pred             CCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCc
Q 042011           27 TSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDL  106 (361)
Q Consensus        27 ~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L  106 (361)
                      ++|++|++++|+++ .+|  .+.++++|++|++++|.+++. +..      ..+|++|++ ++|.+.+ .| .+..+++|
T Consensus       131 ~~L~~L~L~~n~l~-~lp--~~~~l~~L~~L~l~~N~l~~l-p~~------~~~L~~L~L-~~n~l~~-l~-~~~~l~~L  197 (454)
T 1jl5_A          131 PLLEYLGVSNNQLE-KLP--ELQNSSFLKIIDVDNNSLKKL-PDL------PPSLEFIAA-GNNQLEE-LP-ELQNLPFL  197 (454)
T ss_dssp             TTCCEEECCSSCCS-SCC--CCTTCTTCCEEECCSSCCSCC-CCC------CTTCCEEEC-CSSCCSS-CC-CCTTCTTC
T ss_pred             CCCCEEECcCCCCC-CCc--ccCCCCCCCEEECCCCcCccc-CCC------cccccEEEC-cCCcCCc-Cc-cccCCCCC
Confidence            46667777777666 355  366777777777777776642 221      126777777 6666665 33 46677777


Q ss_pred             cEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEec
Q 042011          107 ALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNIS  186 (361)
Q Consensus       107 ~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~  186 (361)
                      ++|++++|.++ .+|..    .++|++|++++|.+. .+| .+..+++|++|++++|+++ .+|..    .++|+.|+++
T Consensus       198 ~~L~l~~N~l~-~l~~~----~~~L~~L~l~~n~l~-~lp-~~~~l~~L~~L~l~~N~l~-~l~~~----~~~L~~L~l~  265 (454)
T 1jl5_A          198 TAIYADNNSLK-KLPDL----PLSLESIVAGNNILE-ELP-ELQNLPFLTTIYADNNLLK-TLPDL----PPSLEALNVR  265 (454)
T ss_dssp             CEEECCSSCCS-SCCCC----CTTCCEEECCSSCCS-SCC-CCTTCTTCCEEECCSSCCS-SCCSC----CTTCCEEECC
T ss_pred             CEEECCCCcCC-cCCCC----cCcccEEECcCCcCC-ccc-ccCCCCCCCEEECCCCcCC-ccccc----ccccCEEECC
Confidence            77777777776 34432    246777777777666 344 3667777777777777776 45432    3566666666


Q ss_pred             CCccccccCccccCCCCCCEEeccCCcCcc--ccchh-------------hhhCCCCCcEEEeecCCCCCcccccccCCC
Q 042011          187 MNALDGSIPSSFGNMNFLRVLDLSNNQLTG--EIPEH-------------LAVGCVNLESLALSNNSLEGHMFSRNFNLT  251 (361)
Q Consensus       187 ~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~--~~~~~-------------~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~  251 (361)
                      +|.+++ +|..   +++|++|++++|.+++  .+|..             +....++|++|++++|++++ .|..   ++
T Consensus       266 ~N~l~~-l~~~---~~~L~~L~ls~N~l~~l~~~~~~L~~L~l~~N~l~~i~~~~~~L~~L~Ls~N~l~~-lp~~---~~  337 (454)
T 1jl5_A          266 DNYLTD-LPEL---PQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIE-LPAL---PP  337 (454)
T ss_dssp             SSCCSC-CCCC---CTTCCEEECCSSCCSEESCCCTTCCEEECCSSCCSEECCCCTTCCEEECCSSCCSC-CCCC---CT
T ss_pred             CCcccc-cCcc---cCcCCEEECcCCccCcccCcCCcCCEEECcCCcCCcccCCcCcCCEEECCCCcccc-cccc---CC
Confidence            666663 3332   2455566666555552  11110             00012467777777777665 3332   46


Q ss_pred             CCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccc--cCCCCCCCc-------------CcceeeccccccccC
Q 042011          252 NLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG--NVNVPSSPA-------------NTLFNLSQNSRRFTS  313 (361)
Q Consensus       252 ~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~--~~~~~~~~~-------------~~L~~l~l~~N~~~~  313 (361)
                      +|+.|++++|+++ .+|.   .+++|++|++++|++++  .+|.++..+             ++|++|++++|++++
T Consensus       338 ~L~~L~L~~N~l~-~lp~---~l~~L~~L~L~~N~l~~l~~ip~~l~~L~~n~~~~~i~~~~~~L~~L~ls~N~l~~  410 (454)
T 1jl5_A          338 RLERLIASFNHLA-EVPE---LPQNLKQLHVEYNPLREFPDIPESVEDLRMNSHLAEVPELPQNLKQLHVETNPLRE  410 (454)
T ss_dssp             TCCEEECCSSCCS-CCCC---CCTTCCEEECCSSCCSSCCCCCTTCCEEECCC------------------------
T ss_pred             cCCEEECCCCccc-cccc---hhhhccEEECCCCCCCcCCCChHHHHhhhhcccccccccccCcCCEEECCCCcCCc
Confidence            7777888877777 3454   35778888888888877  566666666             678888888888876

>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=99.97  E-value=1.7e-29  Score=222.24  Aligned_cols=251  Identities=18%  Similarity=0.130  Sum_probs=130.1

Q ss_pred             cEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEE
Q 042011           55 KIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETL  134 (361)
Q Consensus        55 ~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L  134 (361)
                      +.++.+++.++... ..   +  ..+|++|++ +++.++...+..|..+++|++|++++|.+++..+.. +.++++|++|
T Consensus        14 ~~~~c~~~~l~~ip-~~---~--~~~l~~L~l-~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~-~~~l~~L~~L   85 (285)
T 1ozn_A           14 VTTSCPQQGLQAVP-VG---I--PAASQRIFL-HGNRISHVPAASFRACRNLTILWLHSNVLARIDAAA-FTGLALLEQL   85 (285)
T ss_dssp             CEEECCSSCCSSCC-TT---C--CTTCSEEEC-TTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTT-TTTCTTCCEE
T ss_pred             eEEEcCcCCcccCC-cC---C--CCCceEEEe-eCCcCCccCHHHcccCCCCCEEECCCCccceeCHhh-cCCccCCCEE
Confidence            45666666555322 11   1  125666666 555555555555556666666666666655322333 5555666666


Q ss_pred             EecCCc-ccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCc
Q 042011          135 FLVNDS-LTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQ  213 (361)
Q Consensus       135 ~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~  213 (361)
                      ++++|. +....+..+..+++|++|++++|+++ .++...+..+++|++|++++|.+++..+..+..+++|++|++++|.
T Consensus        86 ~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~  164 (285)
T 1ozn_A           86 DLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQ-ELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNR  164 (285)
T ss_dssp             ECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCC-CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             eCCCCCCccccCHHHhcCCcCCCEEECCCCcCC-EECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCc
Confidence            666654 44444555555556666666666555 3333333335556666666655554444445555555555655555


Q ss_pred             CccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCC
Q 042011          214 LTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNV  293 (361)
Q Consensus       214 l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~  293 (361)
                      ++ .++...+..+++|++|++++|.+++..+..+..+++|+.|++++|++++..+..+..+++|+.|++++|.+....+.
T Consensus       165 l~-~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~~~c~~~~  243 (285)
T 1ozn_A          165 IS-SVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWVCDCRA  243 (285)
T ss_dssp             CC-EECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCEECSGGG
T ss_pred             cc-ccCHHHhcCccccCEEECCCCcccccCHhHccCcccccEeeCCCCcCCcCCHHHcccCcccCEEeccCCCccCCCCc
Confidence            55 44443333455555555555555555555555555555555555555544444555555555555555555432211


Q ss_pred             CCCCcCcceeeccccccccCCcc
Q 042011          294 PSSPANTLFNLSQNSRRFTSSIS  316 (361)
Q Consensus       294 ~~~~~~~L~~l~l~~N~~~~~~~  316 (361)
                      . .....++.+....+.+.|..|
T Consensus       244 ~-~~~~~l~~~~~~~~~~~c~~p  265 (285)
T 1ozn_A          244 R-PLWAWLQKFRGSSSEVPCSLP  265 (285)
T ss_dssp             H-HHHHHHHHCCSEECCCBEEES
T ss_pred             H-HHHHHHHhcccccCccccCCc
Confidence            0 111234444444455554444

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

Probab=99.97  E-value=3.8e-29  Score=224.13  Aligned_cols=223  Identities=19%  Similarity=0.216  Sum_probs=112.7

Q ss_pred             CCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCc
Q 042011           27 TSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDL  106 (361)
Q Consensus        27 ~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L  106 (361)
                      ++++.|+|++|+++ .+| ..+.++++|++|++++|.++                             .+|..+..+++|
T Consensus        81 ~~l~~L~L~~n~l~-~lp-~~l~~l~~L~~L~L~~n~l~-----------------------------~lp~~~~~l~~L  129 (328)
T 4fcg_A           81 PGRVALELRSVPLP-QFP-DQAFRLSHLQHMTIDAAGLM-----------------------------ELPDTMQQFAGL  129 (328)
T ss_dssp             TTCCEEEEESSCCS-SCC-SCGGGGTTCSEEEEESSCCC-----------------------------CCCSCGGGGTTC
T ss_pred             cceeEEEccCCCch-hcC-hhhhhCCCCCEEECCCCCcc-----------------------------chhHHHhccCCC
Confidence            45555555555554 444 23444555555555555443                             344456666777


Q ss_pred             cEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCC---------CCCcCEEEccCCcCCccCChhhhccC
Q 042011          107 ALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHS---------HRWLEFLDISNNNFRCHIPVEIGDIL  177 (361)
Q Consensus       107 ~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~---------l~~L~~L~l~~n~l~~~~~~~~~~~l  177 (361)
                      ++|++++|.++ .+|.. +.++++|++|++++|++.+..|..+..         +++|++|++++|+++ .+|..+.. +
T Consensus       130 ~~L~Ls~n~l~-~lp~~-l~~l~~L~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~-~lp~~l~~-l  205 (328)
T 4fcg_A          130 ETLTLARNPLR-ALPAS-IASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIR-SLPASIAN-L  205 (328)
T ss_dssp             SEEEEESCCCC-CCCGG-GGGCTTCCEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCC-CCCGGGGG-C
T ss_pred             CEEECCCCccc-cCcHH-HhcCcCCCEEECCCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcC-cchHhhcC-C
Confidence            77777777776 66655 566777777777776666555554432         444555555555554 44444333 4


Q ss_pred             CCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEe
Q 042011          178 PSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQ  257 (361)
Q Consensus       178 ~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~  257 (361)
                      ++|++|++++|.++ .+|..+..+++|++|++++|.+.+.+|..+. .+++|++|++++|.+.+..|..+..+++|+.|+
T Consensus       206 ~~L~~L~L~~N~l~-~l~~~l~~l~~L~~L~Ls~n~~~~~~p~~~~-~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~  283 (328)
T 4fcg_A          206 QNLKSLKIRNSPLS-ALGPAIHHLPKLEELDLRGCTALRNYPPIFG-GRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLD  283 (328)
T ss_dssp             TTCCEEEEESSCCC-CCCGGGGGCTTCCEEECTTCTTCCBCCCCTT-CCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEE
T ss_pred             CCCCEEEccCCCCC-cCchhhccCCCCCEEECcCCcchhhhHHHhc-CCCCCCEEECCCCCchhhcchhhhcCCCCCEEe
Confidence            45555555555444 2333344444444444444444434443332 344444444444444444444444444444444


Q ss_pred             ccCCcCCccchhhhhcCCCCCEEECcCCc
Q 042011          258 LGGNRFVGEIPQSLSKCSSLEGLYLNNNS  286 (361)
Q Consensus       258 L~~n~l~~~~~~~~~~l~~L~~L~l~~N~  286 (361)
                      +++|.+.+.+|+.+..+++|+.+++..+.
T Consensus       284 L~~n~~~~~iP~~l~~L~~L~~l~l~~~~  312 (328)
T 4fcg_A          284 LRGCVNLSRLPSLIAQLPANCIILVPPHL  312 (328)
T ss_dssp             CTTCTTCCCCCGGGGGSCTTCEEECCGGG
T ss_pred             CCCCCchhhccHHHhhccCceEEeCCHHH
Confidence            44444444444444444444444444433

>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=99.97  E-value=1.7e-29  Score=222.27  Aligned_cols=254  Identities=17%  Similarity=0.153  Sum_probs=141.0

Q ss_pred             CeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEE
Q 042011            5 RILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSL   84 (361)
Q Consensus         5 ~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L   84 (361)
                      +.++.+++.++ .+|. .+  .++|++|++++|+++ .++...|..+++|++|++++|.+++                  
T Consensus        14 ~~~~c~~~~l~-~ip~-~~--~~~l~~L~l~~n~i~-~~~~~~~~~~~~L~~L~l~~n~l~~------------------   70 (285)
T 1ozn_A           14 VTTSCPQQGLQ-AVPV-GI--PAASQRIFLHGNRIS-HVPAASFRACRNLTILWLHSNVLAR------------------   70 (285)
T ss_dssp             CEEECCSSCCS-SCCT-TC--CTTCSEEECTTSCCC-EECTTTTTTCTTCCEEECCSSCCCE------------------
T ss_pred             eEEEcCcCCcc-cCCc-CC--CCCceEEEeeCCcCC-ccCHHHcccCCCCCEEECCCCccce------------------
Confidence            34566666665 5554 22  346666666666665 3333455666666666666665544                  


Q ss_pred             eccCCCCCCCCCchhhcCCCCccEEEecCCc-ccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCC
Q 042011           85 SLSSDYGDGFIFPKFLYHQHDLALVDLSHIK-MNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNN  163 (361)
Q Consensus        85 ~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~-l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n  163 (361)
                                ..+..+..+++|++|++++|. +. .++...+..+++|++|++++|.+.+..+..+..+++|++|++++|
T Consensus        71 ----------~~~~~~~~l~~L~~L~l~~n~~l~-~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n  139 (285)
T 1ozn_A           71 ----------IDAAAFTGLALLEQLDLSDNAQLR-SVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDN  139 (285)
T ss_dssp             ----------ECTTTTTTCTTCCEEECCSCTTCC-CCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             ----------eCHhhcCCccCCCEEeCCCCCCcc-ccCHHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCC
Confidence                      334445555566666666664 44 332222555666666666666665555555666666666666666


Q ss_pred             cCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcc
Q 042011          164 NFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHM  243 (361)
Q Consensus       164 ~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~  243 (361)
                      +++ .++...+..+++|++|++++|.+++..+..+..+++|++|++++|.+.+..|..+. .+++|+.|++++|.+++..
T Consensus       140 ~l~-~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~-~l~~L~~L~l~~n~l~~~~  217 (285)
T 1ozn_A          140 ALQ-ALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFR-DLGRLMTLYLFANNLSALP  217 (285)
T ss_dssp             CCC-CCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTT-TCTTCCEEECCSSCCSCCC
T ss_pred             ccc-ccCHhHhccCCCccEEECCCCcccccCHHHhcCccccCEEECCCCcccccCHhHcc-CcccccEeeCCCCcCCcCC
Confidence            665 44444333456666666666666644444566666666666666666633343333 5666666666666666655


Q ss_pred             cccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCC
Q 042011          244 FSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPS  295 (361)
Q Consensus       244 ~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~  295 (361)
                      +..+..+++|+.|++++|++...-+.. .....++.+..+.+.+....|..+
T Consensus       218 ~~~~~~l~~L~~L~l~~N~~~c~~~~~-~~~~~l~~~~~~~~~~~c~~p~~l  268 (285)
T 1ozn_A          218 TEALAPLRALQYLRLNDNPWVCDCRAR-PLWAWLQKFRGSSSEVPCSLPQRL  268 (285)
T ss_dssp             HHHHTTCTTCCEEECCSSCEECSGGGH-HHHHHHHHCCSEECCCBEEESGGG
T ss_pred             HHHcccCcccCEEeccCCCccCCCCcH-HHHHHHHhcccccCccccCCchHh
Confidence            555666667777777777665432210 001122333355556655555544

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.97  E-value=1.1e-28  Score=230.26  Aligned_cols=248  Identities=19%  Similarity=0.185  Sum_probs=150.3

Q ss_pred             CCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCccE
Q 042011           29 IEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLAL  108 (361)
Q Consensus        29 L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~  108 (361)
                      .+.++.++..++ .+|. .+  .++++.|++++|.++...+..   +..+.+|++|++ ++|.+....+..|..+++|++
T Consensus        45 ~~~v~c~~~~l~-~iP~-~~--~~~l~~L~L~~n~i~~~~~~~---~~~l~~L~~L~L-s~n~i~~i~~~~~~~l~~L~~  116 (440)
T 3zyj_A           45 FSKVICVRKNLR-EVPD-GI--STNTRLLNLHENQIQIIKVNS---FKHLRHLEILQL-SRNHIRTIEIGAFNGLANLNT  116 (440)
T ss_dssp             SCEEECCSCCCS-SCCS-CC--CTTCSEEECCSCCCCEECTTT---TSSCSSCCEEEC-CSSCCCEECGGGGTTCSSCCE
T ss_pred             CCEEEeCCCCcC-cCCC-CC--CCCCcEEEccCCcCCeeCHHH---hhCCCCCCEEEC-CCCcCCccChhhccCCccCCE
Confidence            455666666555 4552 22  245666666666665544333   344456666666 666666555566666666666


Q ss_pred             EEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCC
Q 042011          109 VDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMN  188 (361)
Q Consensus       109 L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n  188 (361)
                      |++++|.++ .++...+..+++|++|++++|.+....+..|..+++|++|++++|...+.++...+..+++|++|++++|
T Consensus       117 L~L~~n~l~-~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n  195 (440)
T 3zyj_A          117 LELFDNRLT-TIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMC  195 (440)
T ss_dssp             EECCSSCCS-SCCTTTSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTS
T ss_pred             EECCCCcCC-eeCHhHhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCC
Confidence            666666666 4444335666666666666666665555566666666666666633222555554555666666666666


Q ss_pred             ccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccch
Q 042011          189 ALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIP  268 (361)
Q Consensus       189 ~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~  268 (361)
                      .++ .+| .+..+++|++|++++|.++ .++...+..+++|+.|++++|++++..+..+..+++|+.|++++|++++..+
T Consensus       196 ~l~-~~~-~~~~l~~L~~L~Ls~N~l~-~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~  272 (440)
T 3zyj_A          196 NLR-EIP-NLTPLIKLDELDLSGNHLS-AIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHNNLTLLPH  272 (440)
T ss_dssp             CCS-SCC-CCTTCSSCCEEECTTSCCC-EECTTTTTTCTTCCEEECTTCCCCEECTTSSTTCTTCCEEECTTSCCCCCCT
T ss_pred             cCc-ccc-ccCCCcccCEEECCCCccC-ccChhhhccCccCCEEECCCCceeEEChhhhcCCCCCCEEECCCCCCCccCh
Confidence            666 344 3566666667777766666 3433333466667777777776666666666666677777777776665555


Q ss_pred             hhhhcCCCCCEEECcCCccc
Q 042011          269 QSLSKCSSLEGLYLNNNSLS  288 (361)
Q Consensus       269 ~~~~~l~~L~~L~l~~N~l~  288 (361)
                      ..|..+++|+.|++++|.+.
T Consensus       273 ~~~~~l~~L~~L~L~~Np~~  292 (440)
T 3zyj_A          273 DLFTPLHHLERIHLHHNPWN  292 (440)
T ss_dssp             TTTSSCTTCCEEECCSSCEE
T ss_pred             hHhccccCCCEEEcCCCCcc
Confidence            56666667777777766653

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.96  E-value=1.2e-30  Score=233.06  Aligned_cols=258  Identities=19%  Similarity=0.214  Sum_probs=152.9

Q ss_pred             CCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccE
Q 042011            4 LRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNS   83 (361)
Q Consensus         4 L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~   83 (361)
                      ++..+++.+.+. ..+...+..+++|++|++++|+++ .++...|..+++|++|++++|.+++..+     +..+.+|++
T Consensus        12 l~i~~ls~~~l~-~~~~~~~~~~~~L~~L~L~~n~l~-~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-----~~~l~~L~~   84 (317)
T 3o53_A           12 YKIEKVTDSSLK-QALASLRQSAWNVKELDLSGNPLS-QISAADLAPFTKLELLNLSSNVLYETLD-----LESLSTLRT   84 (317)
T ss_dssp             EEEESCCTTTHH-HHHHHHHTTGGGCSEEECTTSCCC-CCCHHHHTTCTTCCEEECTTSCCEEEEE-----ETTCTTCCE
T ss_pred             eeEeeccccchh-hhHHHHhccCCCCCEEECcCCccC-cCCHHHhhCCCcCCEEECCCCcCCcchh-----hhhcCCCCE
Confidence            455667777776 455546777889999999999998 4544678899999999999998875432     344556666


Q ss_pred             EeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCC
Q 042011           84 LSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNN  163 (361)
Q Consensus        84 L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n  163 (361)
                      |++ ++|.+++.     ...++|++|++++|.+++ ++.   ..+++|++|++++|++.+..+..+..+++|++|++++|
T Consensus        85 L~L-s~n~l~~l-----~~~~~L~~L~l~~n~l~~-~~~---~~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N  154 (317)
T 3o53_A           85 LDL-NNNYVQEL-----LVGPSIETLHAANNNISR-VSC---SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLN  154 (317)
T ss_dssp             EEC-CSSEEEEE-----EECTTCCEEECCSSCCSE-EEE---CCCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTS
T ss_pred             EEC-cCCccccc-----cCCCCcCEEECCCCccCC-cCc---cccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCC
Confidence            666 55555432     123566666666666652 222   12455666666666666555555556666666666666


Q ss_pred             cCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcc
Q 042011          164 NFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHM  243 (361)
Q Consensus       164 ~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~  243 (361)
                      .+++..+..+...+++|++|++++|.+++. +. ...+++|++|++++|.++ .+|..+. .+++|++|++++|++++ .
T Consensus       155 ~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~-~~-~~~l~~L~~L~Ls~N~l~-~l~~~~~-~l~~L~~L~L~~N~l~~-l  229 (317)
T 3o53_A          155 EIDTVNFAELAASSDTLEHLNLQYNFIYDV-KG-QVVFAKLKTLDLSSNKLA-FMGPEFQ-SAAGVTWISLRNNKLVL-I  229 (317)
T ss_dssp             CCCEEEGGGGGGGTTTCCEEECTTSCCCEE-EC-CCCCTTCCEEECCSSCCC-EECGGGG-GGTTCSEEECTTSCCCE-E
T ss_pred             CCCcccHHHHhhccCcCCEEECCCCcCccc-cc-ccccccCCEEECCCCcCC-cchhhhc-ccCcccEEECcCCcccc-h
Confidence            665333333333355666666666666532 21 223555666666666655 4444433 45555555555555554 3


Q ss_pred             cccccCCCCCCEEeccCCcCC-ccchhhhhcCCCCCEEECc
Q 042011          244 FSRNFNLTNLEWLQLGGNRFV-GEIPQSLSKCSSLEGLYLN  283 (361)
Q Consensus       244 ~~~~~~~~~L~~L~L~~n~l~-~~~~~~~~~l~~L~~L~l~  283 (361)
                      |..+..+++|+.|++++|++. +..+..+..+++|+.++++
T Consensus       230 ~~~~~~l~~L~~L~l~~N~~~~~~~~~~~~~~~~L~~l~l~  270 (317)
T 3o53_A          230 EKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQ  270 (317)
T ss_dssp             CTTCCCCTTCCEEECTTCCCBHHHHHHHHHTCHHHHHHHHH
T ss_pred             hhHhhcCCCCCEEEccCCCccCcCHHHHHhccccceEEECC
Confidence            444555555555555555555 4445555555555555555

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=99.96  E-value=1.7e-28  Score=229.79  Aligned_cols=248  Identities=18%  Similarity=0.143  Sum_probs=162.6

Q ss_pred             CCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCccE
Q 042011           29 IEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLAL  108 (361)
Q Consensus        29 L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~  108 (361)
                      ...++.++..++ .+|. .+  .+++++|++++|.+++..+..   +..+.+|++|++ ++|.+....+..|..+++|++
T Consensus        56 ~~~v~c~~~~l~-~iP~-~~--~~~l~~L~L~~n~i~~~~~~~---~~~l~~L~~L~L-s~n~i~~~~~~~~~~l~~L~~  127 (452)
T 3zyi_A           56 FSKVVCTRRGLS-EVPQ-GI--PSNTRYLNLMENNIQMIQADT---FRHLHHLEVLQL-GRNSIRQIEVGAFNGLASLNT  127 (452)
T ss_dssp             SCEEECCSSCCS-SCCS-CC--CTTCSEEECCSSCCCEECTTT---TTTCTTCCEEEC-CSSCCCEECTTTTTTCTTCCE
T ss_pred             CcEEEECCCCcC-ccCC-CC--CCCccEEECcCCcCceECHHH---cCCCCCCCEEEC-CCCccCCcChhhccCcccCCE
Confidence            456666666665 5552 22  246667777777666554444   445556777777 666666666666777777777


Q ss_pred             EEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCC
Q 042011          109 VDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMN  188 (361)
Q Consensus       109 L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n  188 (361)
                      |++++|.++ .++...+.++++|++|++++|.+....+..|..+++|++|++++|...+.++...+..+++|++|++++|
T Consensus       128 L~L~~n~l~-~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n  206 (452)
T 3zyi_A          128 LELFDNWLT-VIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMC  206 (452)
T ss_dssp             EECCSSCCS-BCCTTTSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTS
T ss_pred             EECCCCcCC-ccChhhhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCC
Confidence            777777776 4444446667777777777777766555667777777777777633222566555555777777777777


Q ss_pred             ccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccch
Q 042011          189 ALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIP  268 (361)
Q Consensus       189 ~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~  268 (361)
                      .++ .+| .+..+++|++|++++|.++ .++...+..+++|+.|++++|++++..+..+..+++|+.|++++|++++..+
T Consensus       207 ~l~-~~~-~~~~l~~L~~L~Ls~N~l~-~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~  283 (452)
T 3zyi_A          207 NIK-DMP-NLTPLVGLEELEMSGNHFP-EIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNLSSLPH  283 (452)
T ss_dssp             CCS-SCC-CCTTCTTCCEEECTTSCCS-EECGGGGTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCCCT
T ss_pred             ccc-ccc-cccccccccEEECcCCcCc-ccCcccccCccCCCEEEeCCCcCceECHHHhcCCCCCCEEECCCCcCCccCh
Confidence            776 333 3666777777777777777 4433333467777777777777777666677777777777777777776666


Q ss_pred             hhhhcCCCCCEEECcCCccc
Q 042011          269 QSLSKCSSLEGLYLNNNSLS  288 (361)
Q Consensus       269 ~~~~~l~~L~~L~l~~N~l~  288 (361)
                      ..|..+++|+.|++++|.+.
T Consensus       284 ~~~~~l~~L~~L~L~~Np~~  303 (452)
T 3zyi_A          284 DLFTPLRYLVELHLHHNPWN  303 (452)
T ss_dssp             TSSTTCTTCCEEECCSSCEE
T ss_pred             HHhccccCCCEEEccCCCcC
Confidence            66667777777777777654

>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=99.96  E-value=4.9e-29  Score=223.39  Aligned_cols=227  Identities=18%  Similarity=0.164  Sum_probs=192.9

Q ss_pred             ccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEE
Q 042011           79 FQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFL  158 (361)
Q Consensus        79 ~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L  158 (361)
                      ..+++|++ +++.+. .+|..+..+++|++|++++|.++ .+|.. +..+++|++|++++|.+. .+|..+..+++|++|
T Consensus        81 ~~l~~L~L-~~n~l~-~lp~~l~~l~~L~~L~L~~n~l~-~lp~~-~~~l~~L~~L~Ls~n~l~-~lp~~l~~l~~L~~L  155 (328)
T 4fcg_A           81 PGRVALEL-RSVPLP-QFPDQAFRLSHLQHMTIDAAGLM-ELPDT-MQQFAGLETLTLARNPLR-ALPASIASLNRLREL  155 (328)
T ss_dssp             TTCCEEEE-ESSCCS-SCCSCGGGGTTCSEEEEESSCCC-CCCSC-GGGGTTCSEEEEESCCCC-CCCGGGGGCTTCCEE
T ss_pred             cceeEEEc-cCCCch-hcChhhhhCCCCCEEECCCCCcc-chhHH-HhccCCCCEEECCCCccc-cCcHHHhcCcCCCEE
Confidence            36777777 777776 45666777999999999999998 78876 688999999999999988 568888899999999


Q ss_pred             EccCCcCCccCChhhh--------ccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCc
Q 042011          159 DISNNNFRCHIPVEIG--------DILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLE  230 (361)
Q Consensus       159 ~l~~n~l~~~~~~~~~--------~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~  230 (361)
                      ++++|.+.+.+|..+.        ..+++|++|++++|.++ .+|..+..+++|++|++++|.++ .+|..+. .+++|+
T Consensus       156 ~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~-~lp~~l~~l~~L~~L~L~~N~l~-~l~~~l~-~l~~L~  232 (328)
T 4fcg_A          156 SIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIR-SLPASIANLQNLKSLKIRNSPLS-ALGPAIH-HLPKLE  232 (328)
T ss_dssp             EEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCC-CCCGGGGGCTTCCEEEEESSCCC-CCCGGGG-GCTTCC
T ss_pred             ECCCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcC-cchHhhcCCCCCCEEEccCCCCC-cCchhhc-cCCCCC
Confidence            9999877767877653        24789999999999988 78888889999999999999998 6777655 789999


Q ss_pred             EEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeecccccc
Q 042011          231 SLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRR  310 (361)
Q Consensus       231 ~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~  310 (361)
                      +|++++|.+.+..|..+..+++|+.|++++|.+.+.+|..+..+++|+.|++++|.+.+.+|..+..+++|+.+++..|.
T Consensus       233 ~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~iP~~l~~L~~L~~l~l~~~~  312 (328)
T 4fcg_A          233 ELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHL  312 (328)
T ss_dssp             EEECTTCTTCCBCCCCTTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEECTTCTTCCCCCGGGGGSCTTCEEECCGGG
T ss_pred             EEECcCCcchhhhHHHhcCCCCCCEEECCCCCchhhcchhhhcCCCCCEEeCCCCCchhhccHHHhhccCceEEeCCHHH
Confidence            99999998888888888899999999999998888888889999999999999999988999999999999999888776


Q ss_pred             ccC
Q 042011          311 FTS  313 (361)
Q Consensus       311 ~~~  313 (361)
                      +..
T Consensus       313 ~~~  315 (328)
T 4fcg_A          313 QAQ  315 (328)
T ss_dssp             SCC
T ss_pred             HHH
Confidence            654

>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=99.96  E-value=2.9e-28  Score=234.68  Aligned_cols=262  Identities=20%  Similarity=0.203  Sum_probs=218.6

Q ss_pred             CCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccccc
Q 042011            3 SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLN   82 (361)
Q Consensus         3 ~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~   82 (361)
                      +++.|++++|.++ .+|. .+.  ++|++|++++|.++ .+|.    .+++|++|++++|.++....       .+.+|+
T Consensus        41 ~l~~L~ls~n~L~-~lp~-~l~--~~L~~L~L~~N~l~-~lp~----~l~~L~~L~Ls~N~l~~lp~-------~l~~L~  104 (622)
T 3g06_A           41 GNAVLNVGESGLT-TLPD-CLP--AHITTLVIPDNNLT-SLPA----LPPELRTLEVSGNQLTSLPV-------LPPGLL  104 (622)
T ss_dssp             CCCEEECCSSCCS-CCCS-CCC--TTCSEEEECSCCCS-CCCC----CCTTCCEEEECSCCCSCCCC-------CCTTCC
T ss_pred             CCcEEEecCCCcC-ccCh-hhC--CCCcEEEecCCCCC-CCCC----cCCCCCEEEcCCCcCCcCCC-------CCCCCC
Confidence            5889999999998 8997 343  89999999999998 6773    57999999999999875332       345999


Q ss_pred             EEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccC
Q 042011           83 SLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISN  162 (361)
Q Consensus        83 ~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~  162 (361)
                      +|++ ++|.++....    .+++|+.|++++|+++ .+|..    +++|++|++++|++++ +|.   .+++|+.|++++
T Consensus       105 ~L~L-s~N~l~~l~~----~l~~L~~L~L~~N~l~-~lp~~----l~~L~~L~Ls~N~l~~-l~~---~~~~L~~L~L~~  170 (622)
T 3g06_A          105 ELSI-FSNPLTHLPA----LPSGLCKLWIFGNQLT-SLPVL----PPGLQELSVSDNQLAS-LPA---LPSELCKLWAYN  170 (622)
T ss_dssp             EEEE-CSCCCCCCCC----CCTTCCEEECCSSCCS-CCCCC----CTTCCEEECCSSCCSC-CCC---CCTTCCEEECCS
T ss_pred             EEEC-cCCcCCCCCC----CCCCcCEEECCCCCCC-cCCCC----CCCCCEEECcCCcCCC-cCC---ccCCCCEEECCC
Confidence            9999 8898886433    5789999999999998 56653    5899999999999986 333   346899999999


Q ss_pred             CcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCc
Q 042011          163 NNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGH  242 (361)
Q Consensus       163 n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~  242 (361)
                      |.++ .+|    ..+++|+.|++++|.++ .+|..   +++|+.|++++|.++ .+|.    .+++|+.|++++|.+++.
T Consensus       171 N~l~-~l~----~~~~~L~~L~Ls~N~l~-~l~~~---~~~L~~L~L~~N~l~-~l~~----~~~~L~~L~Ls~N~L~~l  236 (622)
T 3g06_A          171 NQLT-SLP----MLPSGLQELSVSDNQLA-SLPTL---PSELYKLWAYNNRLT-SLPA----LPSGLKELIVSGNRLTSL  236 (622)
T ss_dssp             SCCS-CCC----CCCTTCCEEECCSSCCS-CCCCC---CTTCCEEECCSSCCS-SCCC----CCTTCCEEECCSSCCSCC
T ss_pred             CCCC-CCc----ccCCCCcEEECCCCCCC-CCCCc---cchhhEEECcCCccc-ccCC----CCCCCCEEEccCCccCcC
Confidence            9998 677    33689999999999998 45543   478999999999998 7774    468899999999999883


Q ss_pred             ccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCccc
Q 042011          243 MFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISH  317 (361)
Q Consensus       243 ~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~  317 (361)
                       +   ..+++|+.|++++|+++ .+|.   .+++|+.|++++|+++ .+|..+..+++|+.|++++|++++..+.
T Consensus       237 -p---~~l~~L~~L~Ls~N~L~-~lp~---~~~~L~~L~Ls~N~L~-~lp~~l~~l~~L~~L~L~~N~l~~~~~~  302 (622)
T 3g06_A          237 -P---VLPSELKELMVSGNRLT-SLPM---LPSGLLSLSVYRNQLT-RLPESLIHLSSETTVNLEGNPLSERTLQ  302 (622)
T ss_dssp             -C---CCCTTCCEEECCSSCCS-CCCC---CCTTCCEEECCSSCCC-SCCGGGGGSCTTCEEECCSCCCCHHHHH
T ss_pred             -C---CCCCcCcEEECCCCCCC-cCCc---ccccCcEEeCCCCCCC-cCCHHHhhccccCEEEecCCCCCCcCHH
Confidence             4   45689999999999999 4555   5789999999999999 5677899999999999999999876553

>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=99.96  E-value=3.5e-29  Score=233.86  Aligned_cols=247  Identities=23%  Similarity=0.262  Sum_probs=131.5

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCC-------------CcEEEccCCCccccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSR-------------LKIFYADNNELNAEI   68 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~-------------L~~L~l~~n~~~~~~   68 (361)
                      +.|++|++++|.+ +.+|+ .++++++|++|++++|++++.+| ..+.++.+             +++|++++|.+++..
T Consensus        11 ~~L~~L~l~~n~l-~~iP~-~i~~L~~L~~L~l~~n~~~~~~p-~~~~~l~~L~~l~l~~c~~~~l~~L~l~~~~l~~lp   87 (454)
T 1jl5_A           11 TFLQEPLRHSSNL-TEMPV-EAENVKSKTEYYNAWSEWERNAP-PGNGEQREMAVSRLRDCLDRQAHELELNNLGLSSLP   87 (454)
T ss_dssp             -------------------------CCHHHHHHHHHHHHHTSC-TTSCCCHHHHHHHHHHHHHHTCSEEECTTSCCSCCC
T ss_pred             ccchhhhcccCch-hhCCh-hHhcccchhhhhccCCcccccCC-cccccchhcchhhhhhhhccCCCEEEecCCccccCC
Confidence            5689999999999 59998 79999999999999999987787 56777665             488888888876532


Q ss_pred             ccccccccCcccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCC
Q 042011           69 TQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLP  148 (361)
Q Consensus        69 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~  148 (361)
                      . .      ..+|++|++ ++|.+++ +|..   .++|++|++++|.++ .++..    .++|++|++++|++.+ +| .
T Consensus        88 ~-~------~~~L~~L~l-~~n~l~~-lp~~---~~~L~~L~l~~n~l~-~l~~~----~~~L~~L~L~~n~l~~-lp-~  148 (454)
T 1jl5_A           88 E-L------PPHLESLVA-SCNSLTE-LPEL---PQSLKSLLVDNNNLK-ALSDL----PPLLEYLGVSNNQLEK-LP-E  148 (454)
T ss_dssp             S-C------CTTCSEEEC-CSSCCSS-CCCC---CTTCCEEECCSSCCS-CCCSC----CTTCCEEECCSSCCSS-CC-C
T ss_pred             C-C------cCCCCEEEc-cCCcCCc-cccc---cCCCcEEECCCCccC-cccCC----CCCCCEEECcCCCCCC-Cc-c
Confidence            1 1      137777777 7777765 3332   356666677666665 33321    1466666666666664 44 4


Q ss_pred             cCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCC
Q 042011          149 IHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVN  228 (361)
Q Consensus       149 ~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~  228 (361)
                      +..+++|++|++++|+++ .+|..    .++|++|++++|.+++ +| .++.+++|++|++++|.++ .+|.    ..++
T Consensus       149 ~~~l~~L~~L~l~~N~l~-~lp~~----~~~L~~L~L~~n~l~~-l~-~~~~l~~L~~L~l~~N~l~-~l~~----~~~~  216 (454)
T 1jl5_A          149 LQNSSFLKIIDVDNNSLK-KLPDL----PPSLEFIAAGNNQLEE-LP-ELQNLPFLTAIYADNNSLK-KLPD----LPLS  216 (454)
T ss_dssp             CTTCTTCCEEECCSSCCS-CCCCC----CTTCCEEECCSSCCSS-CC-CCTTCTTCCEEECCSSCCS-SCCC----CCTT
T ss_pred             cCCCCCCCEEECCCCcCc-ccCCC----cccccEEECcCCcCCc-Cc-cccCCCCCCEEECCCCcCC-cCCC----CcCc
Confidence            666666666666666665 44432    2366666666666663 44 3566666666666666665 3432    1235


Q ss_pred             CcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCccc
Q 042011          229 LESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS  288 (361)
Q Consensus       229 L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~  288 (361)
                      |++|++++|.++. .| .+..+++|+.|++++|++++ +|..   +++|+.|++++|+++
T Consensus       217 L~~L~l~~n~l~~-lp-~~~~l~~L~~L~l~~N~l~~-l~~~---~~~L~~L~l~~N~l~  270 (454)
T 1jl5_A          217 LESIVAGNNILEE-LP-ELQNLPFLTTIYADNNLLKT-LPDL---PPSLEALNVRDNYLT  270 (454)
T ss_dssp             CCEEECCSSCCSS-CC-CCTTCTTCCEEECCSSCCSS-CCSC---CTTCCEEECCSSCCS
T ss_pred             ccEEECcCCcCCc-cc-ccCCCCCCCEEECCCCcCCc-cccc---ccccCEEECCCCccc
Confidence            5555555555553 23 24555555555555555553 2221   234444444444444

>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=99.96  E-value=3.2e-31  Score=248.95  Aligned_cols=307  Identities=18%  Similarity=0.127  Sum_probs=149.6

Q ss_pred             CCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccc----cCCcccccCCCCCcEEEccCCCccccccccccc-ccC
Q 042011            3 SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQI----PISLEPLFNHSRLKIFYADNNELNAEITQSHSL-IAP   77 (361)
Q Consensus         3 ~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~----~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~-~~~   77 (361)
                      +|++||+++|+++.......+..+++|++|++++|++++    .++ ..+..+++|++|++++|.+.+.....+.. +..
T Consensus         4 ~l~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~-~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~   82 (461)
T 1z7x_W            4 DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDIS-SALRVNPALAELNLRSNELGDVGVHCVLQGLQT   82 (461)
T ss_dssp             EEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHH-HHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCS
T ss_pred             cceehhhhhcccCchhHHHHHhhcCCccEEEccCCCCCHHHHHHHH-HHHHhCCCcCEEeCCCCcCChHHHHHHHHHHhh
Confidence            455555555555422212124555555555555555541    112 23444555555555555554322211110 010


Q ss_pred             c-ccccEEeccCCCCCCC----CCchhhcCCCCccEEEecCCcccCCcChH-----------------------------
Q 042011           78 N-FQLNSLSLSSDYGDGF----IFPKFLYHQHDLALVDLSHIKMNGEFPTW-----------------------------  123 (361)
Q Consensus        78 ~-~~L~~L~l~~~~~~~~----~~~~~l~~l~~L~~L~l~~n~l~~~~~~~-----------------------------  123 (361)
                      . .+|++|++ ++|.++.    ..+..+..+++|++|++++|.+++..+..                             
T Consensus        83 ~~~~L~~L~L-~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~  161 (461)
T 1z7x_W           83 PSCKIQKLSL-QNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEP  161 (461)
T ss_dssp             TTCCCCEEEC-TTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHH
T ss_pred             CCCceeEEEc-cCCCCCHHHHHHHHHHHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCCCCHHHHHH
Confidence            0 13555555 5555442    22444555555555555555544222221                             


Q ss_pred             ---HHhcCCCCcEEEecCCcccCCCCCCcC-----CCCCcCEEEccCCcCCcc----CChhhhccCCCccEEEecCCccc
Q 042011          124 ---LLENNTKLETLFLVNDSLTGPFRLPIH-----SHRWLEFLDISNNNFRCH----IPVEIGDILPSLKFFNISMNALD  191 (361)
Q Consensus       124 ---~~~~~~~L~~L~l~~n~l~~~~~~~~~-----~l~~L~~L~l~~n~l~~~----~~~~~~~~l~~L~~L~L~~n~l~  191 (361)
                         .+..+++|++|++++|.+....+..+.     ..++|++|++++|.+++.    ++..+.. +++|++|++++|.++
T Consensus       162 l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~-~~~L~~L~Ls~n~l~  240 (461)
T 1z7x_W          162 LASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVAS-KASLRELALGSNKLG  240 (461)
T ss_dssp             HHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHH-CTTCCEEECCSSBCH
T ss_pred             HHHHHhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHHh-CCCccEEeccCCcCC
Confidence               133344455555554444322111111     133455555555555421    2222222 456666666666554


Q ss_pred             ccc-----CccccCCCCCCEEeccCCcCccc----cchhhhhCCCCCcEEEeecCCCCCccccccc-----CCCCCCEEe
Q 042011          192 GSI-----PSSFGNMNFLRVLDLSNNQLTGE----IPEHLAVGCVNLESLALSNNSLEGHMFSRNF-----NLTNLEWLQ  257 (361)
Q Consensus       192 ~~~-----~~~l~~~~~L~~L~l~~n~l~~~----~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~-----~~~~L~~L~  257 (361)
                      +..     +..+..+++|++|++++|.+++.    ++..+. .+++|++|++++|.+++..+..+.     ..++|+.|+
T Consensus       241 ~~~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~-~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~  319 (461)
T 1z7x_W          241 DVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLR-AKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLW  319 (461)
T ss_dssp             HHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHH-HCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEE
T ss_pred             hHHHHHHHHHHhcCCCCceEEECcCCCCCHHHHHHHHHHHh-hCCCcceEECCCCCCchHHHHHHHHHhccCCccceeeE
Confidence            221     12222456666666666666522    333332 466666777766666543222222     225677777


Q ss_pred             ccCCcCCcc----chhhhhcCCCCCEEECcCCcccccCCCCCC-----CcCcceeeccccccccC
Q 042011          258 LGGNRFVGE----IPQSLSKCSSLEGLYLNNNSLSGNVNVPSS-----PANTLFNLSQNSRRFTS  313 (361)
Q Consensus       258 L~~n~l~~~----~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~-----~~~~L~~l~l~~N~~~~  313 (361)
                      +++|.+++.    ++..+..+++|++|++++|.+++..+..+.     ..++|++|++++|.+++
T Consensus       320 L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~  384 (461)
T 1z7x_W          320 VKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSD  384 (461)
T ss_dssp             CTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCH
T ss_pred             cCCCCCchHHHHHHHHHHhhCCCccEEEccCCccccccHHHHHHHHcCCCCceEEEECCCCCCCh
Confidence            777776654    345566667777777777777654333222     15677788888877764

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.96  E-value=3.3e-30  Score=229.66  Aligned_cols=205  Identities=25%  Similarity=0.249  Sum_probs=151.3

Q ss_pred             CCCCccEEEecCCcccCCcChHHH-hcCCCCcEEEecCCcccCCCCCCcCCC-----CCcCEEEccCCcCCccCChhhhc
Q 042011          102 HQHDLALVDLSHIKMNGEFPTWLL-ENNTKLETLFLVNDSLTGPFRLPIHSH-----RWLEFLDISNNNFRCHIPVEIGD  175 (361)
Q Consensus       102 ~l~~L~~L~l~~n~l~~~~~~~~~-~~~~~L~~L~l~~n~l~~~~~~~~~~l-----~~L~~L~l~~n~l~~~~~~~~~~  175 (361)
                      .+++|++|++++|.+++.+|..++ ..+++|++|++++|++++. |..+..+     ++|++|++++|+++ .++...+.
T Consensus        93 ~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~l~~~~~~~L~~L~L~~N~l~-~~~~~~~~  170 (312)
T 1wwl_A           93 GISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATR-DAWLAELQQWLKPGLKVLSIAQAHSL-NFSCEQVR  170 (312)
T ss_dssp             TTSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSS-SSHHHHHHTTCCTTCCEEEEESCSCC-CCCTTTCC
T ss_pred             CcCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCCCcch-hHHHHHHHHhhcCCCcEEEeeCCCCc-cchHHHhc
Confidence            567777777777777766666532 6677777777777777765 5555555     67777777777777 44433333


Q ss_pred             cCCCccEEEecCCccccc--cCccc--cCCCCCCEEeccCCcCcc--ccchhhhhCCCCCcEEEeecCCCCCccc-cccc
Q 042011          176 ILPSLKFFNISMNALDGS--IPSSF--GNMNFLRVLDLSNNQLTG--EIPEHLAVGCVNLESLALSNNSLEGHMF-SRNF  248 (361)
Q Consensus       176 ~l~~L~~L~L~~n~l~~~--~~~~l--~~~~~L~~L~l~~n~l~~--~~~~~~~~~~~~L~~L~L~~n~l~~~~~-~~~~  248 (361)
                      .+++|++|++++|.+.+.  .+..+  ..+++|++|++++|.+++  .++..++..+++|++|++++|++++..+ ..+.
T Consensus       171 ~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~  250 (312)
T 1wwl_A          171 VFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCD  250 (312)
T ss_dssp             CCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSCCCSCCC
T ss_pred             cCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCcccchhhhh
Confidence            477788888888876543  22233  778888888888888872  3344555578899999999999988653 4566


Q ss_pred             CCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccC
Q 042011          249 NLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTS  313 (361)
Q Consensus       249 ~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~  313 (361)
                      .+++|+.|++++|+++ .+|..+.  ++|++|++++|++++. |. +..+++|++|++++|++++
T Consensus       251 ~l~~L~~L~Ls~N~l~-~ip~~~~--~~L~~L~Ls~N~l~~~-p~-~~~l~~L~~L~L~~N~l~~  310 (312)
T 1wwl_A          251 WPSQLNSLNLSFTGLK-QVPKGLP--AKLSVLDLSYNRLDRN-PS-PDELPQVGNLSLKGNPFLD  310 (312)
T ss_dssp             CCTTCCEEECTTSCCS-SCCSSCC--SEEEEEECCSSCCCSC-CC-TTTSCEEEEEECTTCTTTC
T ss_pred             hcCCCCEEECCCCccC-hhhhhcc--CCceEEECCCCCCCCC-hh-HhhCCCCCEEeccCCCCCC
Confidence            7889999999999998 6676665  8899999999999876 55 8889999999999999886

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.96  E-value=5.8e-29  Score=222.08  Aligned_cols=239  Identities=19%  Similarity=0.136  Sum_probs=108.9

Q ss_pred             CCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCccE
Q 042011           29 IEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLAL  108 (361)
Q Consensus        29 L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~  108 (361)
                      ++..+++++.+. ..+...+..+++|++|++++|.+++                            ..+..+..+++|++
T Consensus        12 l~i~~ls~~~l~-~~~~~~~~~~~~L~~L~L~~n~l~~----------------------------~~~~~~~~l~~L~~   62 (317)
T 3o53_A           12 YKIEKVTDSSLK-QALASLRQSAWNVKELDLSGNPLSQ----------------------------ISAADLAPFTKLEL   62 (317)
T ss_dssp             EEEESCCTTTHH-HHHHHHHTTGGGCSEEECTTSCCCC----------------------------CCHHHHTTCTTCCE
T ss_pred             eeEeeccccchh-hhHHHHhccCCCCCEEECcCCccCc----------------------------CCHHHhhCCCcCCE
Confidence            344455555554 2222334445556666666665554                            33344444444444


Q ss_pred             EEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCC
Q 042011          109 VDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMN  188 (361)
Q Consensus       109 L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n  188 (361)
                      |++++|.+++..+   +..+++|++|++++|.+++..     ..++|++|++++|+++ .++..   .+++|++|++++|
T Consensus        63 L~Ls~n~l~~~~~---~~~l~~L~~L~Ls~n~l~~l~-----~~~~L~~L~l~~n~l~-~~~~~---~~~~L~~L~l~~N  130 (317)
T 3o53_A           63 LNLSSNVLYETLD---LESLSTLRTLDLNNNYVQELL-----VGPSIETLHAANNNIS-RVSCS---RGQGKKNIYLANN  130 (317)
T ss_dssp             EECTTSCCEEEEE---ETTCTTCCEEECCSSEEEEEE-----ECTTCCEEECCSSCCS-EEEEC---CCSSCEEEECCSS
T ss_pred             EECCCCcCCcchh---hhhcCCCCEEECcCCcccccc-----CCCCcCEEECCCCccC-CcCcc---ccCCCCEEECCCC
Confidence            4444444442221   344444555555544444211     1144555555555444 22221   1334555555555


Q ss_pred             ccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccch
Q 042011          189 ALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIP  268 (361)
Q Consensus       189 ~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~  268 (361)
                      .+++..+..+..+++|++|++++|.+.+..+..++..+++|++|++++|.+++. + ....+++|+.|++++|++++ +|
T Consensus       131 ~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~-~-~~~~l~~L~~L~Ls~N~l~~-l~  207 (317)
T 3o53_A          131 KITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDV-K-GQVVFAKLKTLDLSSNKLAF-MG  207 (317)
T ss_dssp             CCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEE-E-CCCCCTTCCEEECCSSCCCE-EC
T ss_pred             CCCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCCcCccc-c-cccccccCCEEECCCCcCCc-ch
Confidence            554433444444455555555555554222333322344555555555555442 1 11234455555555555542 22


Q ss_pred             hhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeecccccccc
Q 042011          269 QSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFT  312 (361)
Q Consensus       269 ~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~  312 (361)
                      ..+..+++|+.|++++|++++ +|..+..+++|+.|++++|+++
T Consensus       208 ~~~~~l~~L~~L~L~~N~l~~-l~~~~~~l~~L~~L~l~~N~~~  250 (317)
T 3o53_A          208 PEFQSAAGVTWISLRNNKLVL-IEKALRFSQNLEHFDLRGNGFH  250 (317)
T ss_dssp             GGGGGGTTCSEEECTTSCCCE-ECTTCCCCTTCCEEECTTCCCB
T ss_pred             hhhcccCcccEEECcCCcccc-hhhHhhcCCCCCEEEccCCCcc
Confidence            234445555555555555542 3444444555555555555554

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.96  E-value=9.3e-30  Score=226.72  Aligned_cols=254  Identities=19%  Similarity=0.124  Sum_probs=199.7

Q ss_pred             hhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccc-cccccc----cccCcccccEEeccCCCCCCCCCc
Q 042011           23 LVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAE-ITQSHS----LIAPNFQLNSLSLSSDYGDGFIFP   97 (361)
Q Consensus        23 ~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~-~~~~~~----~~~~~~~L~~L~l~~~~~~~~~~~   97 (361)
                      ++..++|+++++++|.+  .+|. .+...  |+.|++++|.+... .+....    .+..+.+|++|++ ++|.+++..|
T Consensus        39 ~~~~~~L~~l~l~~n~l--~~p~-~~~~~--L~~L~L~~n~l~~~~~~~~~~~~~~~~~~l~~L~~L~L-~~n~l~~~~~  112 (312)
T 1wwl_A           39 YGGGRSLEYLLKRVDTE--ADLG-QFTDI--IKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTL-ENLEVTGTAP  112 (312)
T ss_dssp             EEEEEECTTHHHHCCTT--CCCH-HHHHH--HHHCCCCEEEEEEEECBHHHHHHHHHHHTTSCCCEEEE-EEEBCBSCCC
T ss_pred             EccCCCceeEeeccccc--ccHH-HHHHH--HhhcccccccccCCCcCHHHHHHHHHhcCcCCccEEEc-cCCcccchhH
Confidence            45667889999999988  5663 34333  88889998888532 222110    0114668999999 8888887777


Q ss_pred             hhh--cCCCCccEEEecCCcccCCcChHHHhcC-----CCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCcc--
Q 042011           98 KFL--YHQHDLALVDLSHIKMNGEFPTWLLENN-----TKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCH--  168 (361)
Q Consensus        98 ~~l--~~l~~L~~L~l~~n~l~~~~~~~~~~~~-----~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~--  168 (361)
                      ..+  ..+++|++|++++|.+++. |.. +..+     ++|++|++++|++.+..+..+..+++|++|++++|++.+.  
T Consensus       113 ~~~~~~~l~~L~~L~Ls~N~l~~~-~~~-~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~  190 (312)
T 1wwl_A          113 PPLLEATGPDLNILNLRNVSWATR-DAW-LAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERG  190 (312)
T ss_dssp             CCSSSCCSCCCSEEEEESCBCSSS-SSH-HHHHHTTCCTTCCEEEEESCSCCCCCTTTCCCCSSCCEEECCSCTTCHHHH
T ss_pred             HHHHHhcCCCccEEEccCCCCcch-hHH-HHHHHHhhcCCCcEEEeeCCCCccchHHHhccCCCCCEEECCCCCcCcchH
Confidence            765  8899999999999999855 655 6666     8999999999999988889999999999999999998744  


Q ss_pred             CChhh-hccCCCccEEEecCCcccc---ccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCccc
Q 042011          169 IPVEI-GDILPSLKFFNISMNALDG---SIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMF  244 (361)
Q Consensus       169 ~~~~~-~~~l~~L~~L~L~~n~l~~---~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~  244 (361)
                      ++..+ +..+++|++|++++|.+++   .....+..+++|++|++++|.+++..|...+..+++|++|++++|+++. +|
T Consensus       191 ~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~Ls~N~l~~-ip  269 (312)
T 1wwl_A          191 LISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSFTGLKQ-VP  269 (312)
T ss_dssp             HHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSCCCSCCCCCTTCCEEECTTSCCSS-CC
T ss_pred             HHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCcccchhhhhhcCCCCEEECCCCccCh-hh
Confidence            23333 2458999999999999983   2224456789999999999999965654444468999999999999985 56


Q ss_pred             ccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccc
Q 042011          245 SRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG  289 (361)
Q Consensus       245 ~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~  289 (361)
                      ..+.  ++|+.|++++|++++. |. +..+++|++|++++|++++
T Consensus       270 ~~~~--~~L~~L~Ls~N~l~~~-p~-~~~l~~L~~L~L~~N~l~~  310 (312)
T 1wwl_A          270 KGLP--AKLSVLDLSYNRLDRN-PS-PDELPQVGNLSLKGNPFLD  310 (312)
T ss_dssp             SSCC--SEEEEEECCSSCCCSC-CC-TTTSCEEEEEECTTCTTTC
T ss_pred             hhcc--CCceEEECCCCCCCCC-hh-HhhCCCCCEEeccCCCCCC
Confidence            5554  8999999999999965 65 8899999999999999986

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.96  E-value=2.6e-27  Score=206.57  Aligned_cols=214  Identities=21%  Similarity=0.212  Sum_probs=184.8

Q ss_pred             CCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEE
Q 042011          104 HDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFF  183 (361)
Q Consensus       104 ~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L  183 (361)
                      ...++++++++.++ .+|..+   .+.+++|++++|++.+..+..|..+++|++|++++|+++ .++...+..+++|++|
T Consensus        16 ~~~~~l~~~~~~l~-~ip~~~---~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~-~i~~~~~~~l~~L~~L   90 (270)
T 2o6q_A           16 NNKNSVDCSSKKLT-AIPSNI---PADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQ-TLPAGIFKELKNLETL   90 (270)
T ss_dssp             TTTTEEECTTSCCS-SCCSCC---CTTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSCCS-CCCTTTTSSCTTCCEE
T ss_pred             CCCCEEEccCCCCC-ccCCCC---CCCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCccC-eeChhhhcCCCCCCEE
Confidence            35788999999988 677642   367999999999998877778999999999999999998 7888877778999999


Q ss_pred             EecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcC
Q 042011          184 NISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRF  263 (361)
Q Consensus       184 ~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l  263 (361)
                      ++++|.+++..+..|..+++|++|++++|.++ .++...+..+++|++|++++|.+++..+..+..+++|+.|++++|++
T Consensus        91 ~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l  169 (270)
T 2o6q_A           91 WVTDNKLQALPIGVFDQLVNLAELRLDRNQLK-SLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQL  169 (270)
T ss_dssp             ECCSSCCCCCCTTTTTTCSSCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             ECCCCcCCcCCHhHcccccCCCEEECCCCccC-eeCHHHhCcCcCCCEEECCCCcCCccCHhHccCCcccceeEecCCcC
Confidence            99999998766777889999999999999998 66666556899999999999999987777789999999999999999


Q ss_pred             CccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcc-ccccccc
Q 042011          264 VGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSIS-HSHLLNL  323 (361)
Q Consensus       264 ~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~-~~~~~~~  323 (361)
                      ++..+..|..+++|+.|++++|++++..+..+..+++|+.|++++|++.|.++ ..++..|
T Consensus       170 ~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~c~c~~~~~~~~~  230 (270)
T 2o6q_A          170 KRVPEGAFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQENPWDCTCNGIIYMAKW  230 (270)
T ss_dssp             SCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCCSSSSSHHHHHH
T ss_pred             cEeChhHhccCCCcCEEECCCCcCCcCCHHHhccccCCCEEEecCCCeeCCCccHHHHHHH
Confidence            98777789999999999999999998777788999999999999999999886 3344433

>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=99.95  E-value=2.1e-27  Score=209.06  Aligned_cols=214  Identities=21%  Similarity=0.174  Sum_probs=178.7

Q ss_pred             hcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCC
Q 042011          100 LYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS  179 (361)
Q Consensus       100 l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~  179 (361)
                      +..++++++++++++.++ .+|..+   .+.+++|++++|.+.+..+..+..+++|++|++++|.++ .++..  ..+++
T Consensus         6 ~~~l~~l~~l~~~~~~l~-~ip~~~---~~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~--~~l~~   78 (290)
T 1p9a_G            6 VSKVASHLEVNCDKRNLT-ALPPDL---PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELT-KLQVD--GTLPV   78 (290)
T ss_dssp             EECSTTCCEEECTTSCCS-SCCSCC---CTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCC-EEECC--SCCTT
T ss_pred             ccccCCccEEECCCCCCC-cCCCCC---CCCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccC-cccCC--CCCCc
Confidence            567788888888888887 677553   367888999999888777788888899999999999887 55543  34789


Q ss_pred             ccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEecc
Q 042011          180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLG  259 (361)
Q Consensus       180 L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~  259 (361)
                      |++|++++|.++ .+|..+..+++|++|++++|.++ .++...+..+++|++|++++|++++..+..+..+++|+.|+++
T Consensus        79 L~~L~Ls~N~l~-~l~~~~~~l~~L~~L~l~~N~l~-~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~  156 (290)
T 1p9a_G           79 LGTLDLSHNQLQ-SLPLLGQTLPALTVLDVSFNRLT-SLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLA  156 (290)
T ss_dssp             CCEEECCSSCCS-SCCCCTTTCTTCCEEECCSSCCC-CCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECT
T ss_pred             CCEEECCCCcCC-cCchhhccCCCCCEEECCCCcCc-ccCHHHHcCCCCCCEEECCCCCCCccChhhcccccCCCEEECC
Confidence            999999999998 77778888999999999999998 6665555688999999999999998777788889999999999


Q ss_pred             CCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCccccccccc
Q 042011          260 GNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNL  323 (361)
Q Consensus       260 ~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~  323 (361)
                      +|++++..+..|..+++|+.|++++|+++ .+|..+....+|+.+++.+|+|.|.+...++..|
T Consensus       157 ~N~l~~l~~~~~~~l~~L~~L~L~~N~l~-~ip~~~~~~~~L~~l~L~~Np~~C~c~~~~l~~w  219 (290)
T 1p9a_G          157 NNNLTELPAGLLNGLENLDTLLLQENSLY-TIPKGFFGSHLLPFAFLHGNPWLCNCEILYFRRW  219 (290)
T ss_dssp             TSCCSCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCCCSEEECCSCCBCCSGGGHHHHHH
T ss_pred             CCcCCccCHHHhcCcCCCCEEECCCCcCC-ccChhhcccccCCeEEeCCCCccCcCccHHHHHH
Confidence            99999766677888999999999999998 5677777788999999999999998876666555

>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=99.95  E-value=7.6e-27  Score=204.27  Aligned_cols=216  Identities=19%  Similarity=0.167  Sum_probs=169.6

Q ss_pred             CCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEE
Q 042011          104 HDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFF  183 (361)
Q Consensus       104 ~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L  183 (361)
                      +.+++|++++|.++ .++...+.++++|++|++++|++.+..+..+..+++|++|++++|+++ .++...+..+++|++|
T Consensus        28 ~~l~~L~ls~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~~~l~~L~~L  105 (276)
T 2z62_A           28 FSTKNLDLSFNPLR-HLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQ-SLALGAFSGLSSLQKL  105 (276)
T ss_dssp             TTCCEEECTTCCCC-EECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCC-EECTTTTTTCTTCCEE
T ss_pred             CCccEEECCCCccc-ccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccC-ccChhhhcCCccccEE
Confidence            46888888888887 444433777888888888888887766777888888888888888887 4554444458888999


Q ss_pred             EecCCccccccCccccCCCCCCEEeccCCcCcc-ccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCC----EEec
Q 042011          184 NISMNALDGSIPSSFGNMNFLRVLDLSNNQLTG-EIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLE----WLQL  258 (361)
Q Consensus       184 ~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~-~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~----~L~L  258 (361)
                      ++++|.+.+..+..+..+++|++|++++|.+.+ .+|..+. .+++|++|++++|++++..+..+..+++|+    .|++
T Consensus       106 ~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~-~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~l~l~L~l  184 (276)
T 2z62_A          106 VAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFS-NLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDL  184 (276)
T ss_dssp             ECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGG-GCTTCCEEECCSSCCCEECGGGGHHHHTCTTCCEEEEC
T ss_pred             ECCCCCccccCchhcccCCCCCEEECcCCccceecCchhhc-cCCCCCEEECCCCCCCcCCHHHhhhhhhccccceeeec
Confidence            998888886666678888899999999998873 2466554 788999999999999887777776666666    8999


Q ss_pred             cCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCccc-cccccc
Q 042011          259 GGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISH-SHLLNL  323 (361)
Q Consensus       259 ~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~-~~~~~~  323 (361)
                      ++|++++..+..+ ...+|+.|++++|++++..+..+..+++|++|++++|+++|.++. .++..|
T Consensus       185 s~n~l~~~~~~~~-~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~~~c~c~~l~~l~~~  249 (276)
T 2z62_A          185 SLNPMNFIQPGAF-KEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRIDYLSRW  249 (276)
T ss_dssp             CSSCCCEECTTSS-CSCCEEEEECCSSCCSCCCTTTTTTCCSCCEEECCSSCBCCCTTTTHHHHHH
T ss_pred             CCCcccccCcccc-CCCcccEEECCCCceeecCHhHhcccccccEEEccCCcccccCCchHHHHHH
Confidence            9999996555555 445899999999999987777788999999999999999998873 344444

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.95  E-value=6.2e-26  Score=218.44  Aligned_cols=244  Identities=23%  Similarity=0.221  Sum_probs=206.3

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      ++|++|++++|+++ .+|.    .+++|++|+|++|+++ .+|.    .+++|++|++++|.+++...       ...+|
T Consensus        61 ~~L~~L~L~~N~l~-~lp~----~l~~L~~L~Ls~N~l~-~lp~----~l~~L~~L~Ls~N~l~~l~~-------~l~~L  123 (622)
T 3g06_A           61 AHITTLVIPDNNLT-SLPA----LPPELRTLEVSGNQLT-SLPV----LPPGLLELSIFSNPLTHLPA-------LPSGL  123 (622)
T ss_dssp             TTCSEEEECSCCCS-CCCC----CCTTCCEEEECSCCCS-CCCC----CCTTCCEEEECSCCCCCCCC-------CCTTC
T ss_pred             CCCcEEEecCCCCC-CCCC----cCCCCCEEEcCCCcCC-cCCC----CCCCCCEEECcCCcCCCCCC-------CCCCc
Confidence            57999999999998 8887    5799999999999998 6773    78999999999999986432       33589


Q ss_pred             cEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEcc
Q 042011           82 NSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDIS  161 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  161 (361)
                      ++|++ ++|.++.. |..   +++|++|++++|.++ .+|.    ..++|+.|++++|.+++ +|   ..+++|+.|+++
T Consensus       124 ~~L~L-~~N~l~~l-p~~---l~~L~~L~Ls~N~l~-~l~~----~~~~L~~L~L~~N~l~~-l~---~~~~~L~~L~Ls  189 (622)
T 3g06_A          124 CKLWI-FGNQLTSL-PVL---PPGLQELSVSDNQLA-SLPA----LPSELCKLWAYNNQLTS-LP---MLPSGLQELSVS  189 (622)
T ss_dssp             CEEEC-CSSCCSCC-CCC---CTTCCEEECCSSCCS-CCCC----CCTTCCEEECCSSCCSC-CC---CCCTTCCEEECC
T ss_pred             CEEEC-CCCCCCcC-CCC---CCCCCEEECcCCcCC-CcCC----ccCCCCEEECCCCCCCC-Cc---ccCCCCcEEECC
Confidence            99999 88988864 432   489999999999998 5654    35789999999999986 44   456889999999


Q ss_pred             CCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCC
Q 042011          162 NNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEG  241 (361)
Q Consensus       162 ~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~  241 (361)
                      +|.++ .+|..    +++|+.|++++|.++ .+|..   +++|++|++++|.++ .+|    ..+++|+.|++++|+++.
T Consensus       190 ~N~l~-~l~~~----~~~L~~L~L~~N~l~-~l~~~---~~~L~~L~Ls~N~L~-~lp----~~l~~L~~L~Ls~N~L~~  255 (622)
T 3g06_A          190 DNQLA-SLPTL----PSELYKLWAYNNRLT-SLPAL---PSGLKELIVSGNRLT-SLP----VLPSELKELMVSGNRLTS  255 (622)
T ss_dssp             SSCCS-CCCCC----CTTCCEEECCSSCCS-SCCCC---CTTCCEEECCSSCCS-CCC----CCCTTCCEEECCSSCCSC
T ss_pred             CCCCC-CCCCc----cchhhEEECcCCccc-ccCCC---CCCCCEEEccCCccC-cCC----CCCCcCcEEECCCCCCCc
Confidence            99998 66643    579999999999998 55543   488999999999999 677    267899999999999997


Q ss_pred             cccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCC
Q 042011          242 HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPS  295 (361)
Q Consensus       242 ~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~  295 (361)
                      . |.   .+++|+.|++++|+++ .+|..+..+++|+.|++++|.+++..|..+
T Consensus       256 l-p~---~~~~L~~L~Ls~N~L~-~lp~~l~~l~~L~~L~L~~N~l~~~~~~~l  304 (622)
T 3g06_A          256 L-PM---LPSGLLSLSVYRNQLT-RLPESLIHLSSETTVNLEGNPLSERTLQAL  304 (622)
T ss_dssp             C-CC---CCTTCCEEECCSSCCC-SCCGGGGGSCTTCEEECCSCCCCHHHHHHH
T ss_pred             C-Cc---ccccCcEEeCCCCCCC-cCCHHHhhccccCEEEecCCCCCCcCHHHH
Confidence            4 43   6789999999999999 678899999999999999999998766544

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.95  E-value=2.1e-27  Score=223.96  Aligned_cols=234  Identities=19%  Similarity=0.219  Sum_probs=110.5

Q ss_pred             CCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCc
Q 042011           53 RLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLE  132 (361)
Q Consensus        53 ~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~  132 (361)
                      +|++|++++|.+++..+..   +..+.+|++|++ ++|.+++..+  +..+++|++|++++|.++ .++     ..++|+
T Consensus        35 ~L~~L~Ls~n~l~~~~~~~---~~~l~~L~~L~L-s~N~l~~~~~--l~~l~~L~~L~Ls~N~l~-~l~-----~~~~L~  102 (487)
T 3oja_A           35 NVKELDLSGNPLSQISAAD---LAPFTKLELLNL-SSNVLYETLD--LESLSTLRTLDLNNNYVQ-ELL-----VGPSIE  102 (487)
T ss_dssp             GCCEEECCSSCCCCCCGGG---GTTCTTCCEEEC-TTSCCEEEEE--CTTCTTCCEEECCSSEEE-EEE-----ECTTCC
T ss_pred             CccEEEeeCCcCCCCCHHH---HhCCCCCCEEEe-eCCCCCCCcc--cccCCCCCEEEecCCcCC-CCC-----CCCCcC
Confidence            5666666666655443332   334445555555 5555543333  455555555555555554 222     124555


Q ss_pred             EEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCcccc-CCCCCCEEeccC
Q 042011          133 TLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFG-NMNFLRVLDLSN  211 (361)
Q Consensus       133 ~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~-~~~~L~~L~l~~  211 (361)
                      +|++++|.+.+..+.   .+++|+.|++++|.+++..|..+. .+++|+.|++++|.+++..|..+. .+++|++|++++
T Consensus       103 ~L~L~~N~l~~~~~~---~l~~L~~L~L~~N~l~~~~~~~~~-~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~  178 (487)
T 3oja_A          103 TLHAANNNISRVSCS---RGQGKKNIYLANNKITMLRDLDEG-CRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQY  178 (487)
T ss_dssp             EEECCSSCCCCEEEC---CCSSCEEEECCSSCCCSGGGBCGG-GGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTT
T ss_pred             EEECcCCcCCCCCcc---ccCCCCEEECCCCCCCCCCchhhc-CCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCC
Confidence            555555555443322   224455555555555422222222 245555555555555544444443 445555555555


Q ss_pred             CcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCccc-cc
Q 042011          212 NQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS-GN  290 (361)
Q Consensus       212 n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~-~~  290 (361)
                      |.++ .++...  .+++|+.|++++|.+++..+ .+..+++|+.|++++|.+++ +|..+..+++|+.|++++|.+. +.
T Consensus       179 N~l~-~~~~~~--~l~~L~~L~Ls~N~l~~~~~-~~~~l~~L~~L~Ls~N~l~~-lp~~l~~l~~L~~L~l~~N~l~c~~  253 (487)
T 3oja_A          179 NFIY-DVKGQV--VFAKLKTLDLSSNKLAFMGP-EFQSAAGVTWISLRNNKLVL-IEKALRFSQNLEHFDLRGNGFHCGT  253 (487)
T ss_dssp             SCCC-EEECCC--CCTTCCEEECCSSCCCEECG-GGGGGTTCSEEECTTSCCCE-ECTTCCCCTTCCEEECTTCCBCHHH
T ss_pred             Cccc-cccccc--cCCCCCEEECCCCCCCCCCH-hHcCCCCccEEEecCCcCcc-cchhhccCCCCCEEEcCCCCCcCcc
Confidence            5554 233222  24555555555555554222 24445555555555555552 3444444555555555555554 33


Q ss_pred             CCCCCCCcCcceeeccc
Q 042011          291 VNVPSSPANTLFNLSQN  307 (361)
Q Consensus       291 ~~~~~~~~~~L~~l~l~  307 (361)
                      +|..+..++.++.+++.
T Consensus       254 ~~~~~~~l~~L~~l~~~  270 (487)
T 3oja_A          254 LRDFFSKNQRVQTVAKQ  270 (487)
T ss_dssp             HHHHHTTCHHHHHHHHH
T ss_pred             hHHHHHhCCCCcEEecc
Confidence            33444444455544443

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.95  E-value=1.6e-27  Score=224.76  Aligned_cols=236  Identities=19%  Similarity=0.222  Sum_probs=196.7

Q ss_pred             CCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCc
Q 042011           27 TSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDL  106 (361)
Q Consensus        27 ~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L  106 (361)
                      ++|++|+|++|.+++ ++...|..+++|++|++++|.+++..+     +..+.+|++|++ ++|.+++..     ..++|
T Consensus        34 ~~L~~L~Ls~n~l~~-~~~~~~~~l~~L~~L~Ls~N~l~~~~~-----l~~l~~L~~L~L-s~N~l~~l~-----~~~~L  101 (487)
T 3oja_A           34 WNVKELDLSGNPLSQ-ISAADLAPFTKLELLNLSSNVLYETLD-----LESLSTLRTLDL-NNNYVQELL-----VGPSI  101 (487)
T ss_dssp             GGCCEEECCSSCCCC-CCGGGGTTCTTCCEEECTTSCCEEEEE-----CTTCTTCCEEEC-CSSEEEEEE-----ECTTC
T ss_pred             CCccEEEeeCCcCCC-CCHHHHhCCCCCCEEEeeCCCCCCCcc-----cccCCCCCEEEe-cCCcCCCCC-----CCCCc
Confidence            489999999999984 444678899999999999998876543     456678999999 888776433     34899


Q ss_pred             cEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEec
Q 042011          107 ALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNIS  186 (361)
Q Consensus       107 ~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~  186 (361)
                      ++|++++|.+++ ++.   ..+++|++|++++|.+++..|..+..+++|+.|++++|.+++..|..+...+++|++|+++
T Consensus       102 ~~L~L~~N~l~~-~~~---~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls  177 (487)
T 3oja_A          102 ETLHAANNNISR-VSC---SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQ  177 (487)
T ss_dssp             CEEECCSSCCCC-EEE---CCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECT
T ss_pred             CEEECcCCcCCC-CCc---cccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecC
Confidence            999999999984 443   2468999999999999988888899999999999999999966777776558999999999


Q ss_pred             CCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCC-c
Q 042011          187 MNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFV-G  265 (361)
Q Consensus       187 ~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~-~  265 (361)
                      +|.+++. +. ...+++|++|++++|.++ .+|..+. .+++|+.|++++|.+++ +|..+..+++|+.|++++|++. +
T Consensus       178 ~N~l~~~-~~-~~~l~~L~~L~Ls~N~l~-~~~~~~~-~l~~L~~L~Ls~N~l~~-lp~~l~~l~~L~~L~l~~N~l~c~  252 (487)
T 3oja_A          178 YNFIYDV-KG-QVVFAKLKTLDLSSNKLA-FMGPEFQ-SAAGVTWISLRNNKLVL-IEKALRFSQNLEHFDLRGNGFHCG  252 (487)
T ss_dssp             TSCCCEE-EC-CCCCTTCCEEECCSSCCC-EECGGGG-GGTTCSEEECTTSCCCE-ECTTCCCCTTCCEEECTTCCBCHH
T ss_pred             CCccccc-cc-cccCCCCCEEECCCCCCC-CCCHhHc-CCCCccEEEecCCcCcc-cchhhccCCCCCEEEcCCCCCcCc
Confidence            9999855 32 446899999999999999 6766655 79999999999999997 5777889999999999999998 5


Q ss_pred             cchhhhhcCCCCCEEECc
Q 042011          266 EIPQSLSKCSSLEGLYLN  283 (361)
Q Consensus       266 ~~~~~~~~l~~L~~L~l~  283 (361)
                      .+|..+..++.|+.++++
T Consensus       253 ~~~~~~~~l~~L~~l~~~  270 (487)
T 3oja_A          253 TLRDFFSKNQRVQTVAKQ  270 (487)
T ss_dssp             HHHHHHTTCHHHHHHHHH
T ss_pred             chHHHHHhCCCCcEEecc
Confidence            677888888888888886

>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=99.94  E-value=1.4e-25  Score=196.13  Aligned_cols=223  Identities=17%  Similarity=0.182  Sum_probs=175.0

Q ss_pred             eEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEe
Q 042011            6 ILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLS   85 (361)
Q Consensus         6 ~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~   85 (361)
                      .++-++.+++ .+|. .+  .++|++|++++|+++ .++...|.++++|++|++++|.+++..+..   +..+.+|++|+
T Consensus        11 ~~~c~~~~l~-~ip~-~l--~~~l~~L~ls~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~---~~~l~~L~~L~   82 (276)
T 2z62_A           11 TYQCMELNFY-KIPD-NL--PFSTKNLDLSFNPLR-HLGSYSFFSFPELQVLDLSRCEIQTIEDGA---YQSLSHLSTLI   82 (276)
T ss_dssp             EEECTTSCCS-SCCS-SS--CTTCCEEECTTCCCC-EECTTTTTTCTTCSEEECTTCCCCEECTTT---TTTCTTCCEEE
T ss_pred             eEEecCCCcc-ccCC-CC--CCCccEEECCCCccc-ccCHhHhccccCCcEEECCCCcCCccCHHH---ccCCcCCCEEE
Confidence            4566666776 7776 33  257999999999998 455457888999999999999888665544   55667899999


Q ss_pred             ccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCC-CCCCcCCCCCcCEEEccCCc
Q 042011           86 LSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGP-FRLPIHSHRWLEFLDISNNN  164 (361)
Q Consensus        86 l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~-~~~~~~~l~~L~~L~l~~n~  164 (361)
                      + ++|.+....+..+..+++|++|++++|.+.+ ++...+..+++|++|++++|.+.+. .|..+..+++|++|++++|+
T Consensus        83 L-~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~-~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~  160 (276)
T 2z62_A           83 L-TGNPIQSLALGAFSGLSSLQKLVAVETNLAS-LENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNK  160 (276)
T ss_dssp             C-TTCCCCEECTTTTTTCTTCCEEECTTSCCCC-STTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSC
T ss_pred             C-CCCccCccChhhhcCCccccEEECCCCCccc-cCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCCC
Confidence            9 8888888777888999999999999999884 4443378889999999999998864 57888999999999999999


Q ss_pred             CCccCChhhhccCCCcc----EEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCC
Q 042011          165 FRCHIPVEIGDILPSLK----FFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE  240 (361)
Q Consensus       165 l~~~~~~~~~~~l~~L~----~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~  240 (361)
                      ++ .++...+..+++|+    .|++++|.+++..+..+ ...+|++|++++|.++ .+|...+..+++|+.|++++|.+.
T Consensus       161 l~-~~~~~~~~~l~~L~~l~l~L~ls~n~l~~~~~~~~-~~~~L~~L~L~~n~l~-~~~~~~~~~l~~L~~L~l~~N~~~  237 (276)
T 2z62_A          161 IQ-SIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAF-KEIRLKELALDTNQLK-SVPDGIFDRLTSLQKIWLHTNPWD  237 (276)
T ss_dssp             CC-EECGGGGHHHHTCTTCCEEEECCSSCCCEECTTSS-CSCCEEEEECCSSCCS-CCCTTTTTTCCSCCEEECCSSCBC
T ss_pred             CC-cCCHHHhhhhhhccccceeeecCCCcccccCcccc-CCCcccEEECCCCcee-ecCHhHhcccccccEEEccCCccc
Confidence            98 45443333355665    89999999985544444 4458999999999998 777776668999999999999887


Q ss_pred             C
Q 042011          241 G  241 (361)
Q Consensus       241 ~  241 (361)
                      .
T Consensus       238 c  238 (276)
T 2z62_A          238 C  238 (276)
T ss_dssp             C
T ss_pred             c
Confidence            5

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.93  E-value=8.8e-25  Score=190.47  Aligned_cols=183  Identities=25%  Similarity=0.283  Sum_probs=120.5

Q ss_pred             CCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEE
Q 042011          104 HDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFF  183 (361)
Q Consensus       104 ~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L  183 (361)
                      +.+++|++++|.++ .++...+.++++|++|++++|.++...+..|..+++|++|++++|+++ .++...+..+++|++|
T Consensus        37 ~~l~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L  114 (270)
T 2o6q_A           37 ADTKKLDLQSNKLS-SLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQ-ALPIGVFDQLVNLAEL  114 (270)
T ss_dssp             TTCSEEECCSSCCS-CCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSCCC-CCCTTTTTTCSSCCEE
T ss_pred             CCCCEEECcCCCCC-eeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECCCCcCC-cCCHhHcccccCCCEE
Confidence            35566666666665 333323556666666666666666544455566666666666666666 5555554456677777


Q ss_pred             EecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcC
Q 042011          184 NISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRF  263 (361)
Q Consensus       184 ~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l  263 (361)
                      ++++|.+++..+..|..+++|++|++++|.++ .+|...+..+++|++|++++|++++..+..+..+++|+.|++++|++
T Consensus       115 ~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~-~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l  193 (270)
T 2o6q_A          115 RLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQ-SLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQL  193 (270)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             ECCCCccCeeCHHHhCcCcCCCEEECCCCcCC-ccCHhHccCCcccceeEecCCcCcEeChhHhccCCCcCEEECCCCcC
Confidence            77777776555556667777777777777776 55555444677777777777777776666677777777777777777


Q ss_pred             CccchhhhhcCCCCCEEECcCCcccc
Q 042011          264 VGEIPQSLSKCSSLEGLYLNNNSLSG  289 (361)
Q Consensus       264 ~~~~~~~~~~l~~L~~L~l~~N~l~~  289 (361)
                      ++..+..|..+++|+.|++++|.+..
T Consensus       194 ~~~~~~~~~~l~~L~~L~l~~N~~~c  219 (270)
T 2o6q_A          194 KRVPEGAFDSLEKLKMLQLQENPWDC  219 (270)
T ss_dssp             SCCCTTTTTTCTTCCEEECCSSCBCC
T ss_pred             CcCCHHHhccccCCCEEEecCCCeeC
Confidence            76555667777777777777777754

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.93  E-value=3e-25  Score=193.62  Aligned_cols=204  Identities=20%  Similarity=0.223  Sum_probs=134.4

Q ss_pred             hcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCC
Q 042011          100 LYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS  179 (361)
Q Consensus       100 l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~  179 (361)
                      ...+++|+.|++++|.++ .++.  +..+++|++|++++|.+.+.  ..+..+++|++|++++|.++ .++...+..+++
T Consensus        37 ~~~l~~L~~L~l~~~~i~-~~~~--l~~l~~L~~L~l~~n~l~~~--~~l~~l~~L~~L~L~~n~l~-~~~~~~~~~l~~  110 (272)
T 3rfs_A           37 QNELNSIDQIIANNSDIK-SVQG--IQYLPNVRYLALGGNKLHDI--SALKELTNLTYLILTGNQLQ-SLPNGVFDKLTN  110 (272)
T ss_dssp             HHHHTTCCEEECTTSCCC-CCTT--GGGCTTCCEEECTTSCCCCC--GGGTTCTTCCEEECTTSCCC-CCCTTTTTTCTT
T ss_pred             cccccceeeeeeCCCCcc-cccc--cccCCCCcEEECCCCCCCCc--hhhcCCCCCCEEECCCCccC-ccChhHhcCCcC
Confidence            445666667777766665 4433  45666777777777766642  35666667777777777776 455444444667


Q ss_pred             ccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEecc
Q 042011          180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLG  259 (361)
Q Consensus       180 L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~  259 (361)
                      |++|++++|.+++..+..+..+++|++|++++|.++ .++...+..+++|++|++++|++++..+..+..+++|+.|+++
T Consensus       111 L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~  189 (272)
T 3rfs_A          111 LKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQ-SLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLY  189 (272)
T ss_dssp             CCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCEEECCCCcCCccCHHHhccCCCCCEEECCCCccC-ccCHHHhccCccCCEEECCCCCcCccCHHHhcCCccCCEEECC
Confidence            777777777776555555667777777777777776 5554444466777777777777776666666677777777777


Q ss_pred             CCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCccc
Q 042011          260 GNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISH  317 (361)
Q Consensus       260 ~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~  317 (361)
                      +|++++..+..+..+++|+.|++++|.+.+.       ++.++.+++..|.++|.+|.
T Consensus       190 ~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~-------~~~l~~l~~~~n~~~g~ip~  240 (272)
T 3rfs_A          190 QNQLKSVPDGVFDRLTSLQYIWLHDNPWDCT-------CPGIRYLSEWINKHSGVVRN  240 (272)
T ss_dssp             SSCCSCCCTTTTTTCTTCCEEECCSSCBCCC-------TTTTHHHHHHHHHTGGGBBC
T ss_pred             CCcCCccCHHHHhCCcCCCEEEccCCCcccc-------CcHHHHHHHHHHhCCCcccC
Confidence            7777766666667777777777777766532       34567777777777776664

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.93  E-value=7.3e-26  Score=197.54  Aligned_cols=210  Identities=20%  Similarity=0.248  Sum_probs=134.7

Q ss_pred             cCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcC
Q 042011           49 FNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENN  128 (361)
Q Consensus        49 ~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~  128 (361)
                      ..+++|+.|++++|.+...     ..+..+.+|++|++ ++|.+.+.  ..+..+++|++|++++|.++ .++...+.++
T Consensus        38 ~~l~~L~~L~l~~~~i~~~-----~~l~~l~~L~~L~l-~~n~l~~~--~~l~~l~~L~~L~L~~n~l~-~~~~~~~~~l  108 (272)
T 3rfs_A           38 NELNSIDQIIANNSDIKSV-----QGIQYLPNVRYLAL-GGNKLHDI--SALKELTNLTYLILTGNQLQ-SLPNGVFDKL  108 (272)
T ss_dssp             HHHTTCCEEECTTSCCCCC-----TTGGGCTTCCEEEC-TTSCCCCC--GGGTTCTTCCEEECTTSCCC-CCCTTTTTTC
T ss_pred             ccccceeeeeeCCCCcccc-----cccccCCCCcEEEC-CCCCCCCc--hhhcCCCCCCEEECCCCccC-ccChhHhcCC
Confidence            3444444555544444321     11233334555555 44444432  24566777777777777776 3444336677


Q ss_pred             CCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEe
Q 042011          129 TKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLD  208 (361)
Q Consensus       129 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~  208 (361)
                      ++|++|++++|++.+..+..+..+++|++|++++|+++ .++...+..+++|++|++++|.+++..+..+..+++|++|+
T Consensus       109 ~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~  187 (272)
T 3rfs_A          109 TNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQ-SLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLR  187 (272)
T ss_dssp             TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             cCCCEEECCCCcCCccCHHHhccCCCCCEEECCCCccC-ccCHHHhccCccCCEEECCCCCcCccCHHHhcCCccCCEEE
Confidence            77777777777777666666777777777777777777 55555544477777888877777766666667777888888


Q ss_pred             ccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCC
Q 042011          209 LSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSS  276 (361)
Q Consensus       209 l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~  276 (361)
                      +++|.++ .++...+..+++|+.|++++|.+.+       .+++|+.++++.|.+++.+|..++.++.
T Consensus       188 L~~N~l~-~~~~~~~~~l~~L~~L~l~~N~~~~-------~~~~l~~l~~~~n~~~g~ip~~~~~~~~  247 (272)
T 3rfs_A          188 LYQNQLK-SVPDGVFDRLTSLQYIWLHDNPWDC-------TCPGIRYLSEWINKHSGVVRNSAGSVAP  247 (272)
T ss_dssp             CCSSCCS-CCCTTTTTTCTTCCEEECCSSCBCC-------CTTTTHHHHHHHHHTGGGBBCTTSCBCG
T ss_pred             CCCCcCC-ccCHHHHhCCcCCCEEEccCCCccc-------cCcHHHHHHHHHHhCCCcccCcccccCC
Confidence            8888777 4444444467788888888877653       3567778888888888777777665543

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.92  E-value=4.9e-26  Score=206.87  Aligned_cols=260  Identities=16%  Similarity=0.137  Sum_probs=130.2

Q ss_pred             eEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCc----ccccCCC-CCcEEEccCCCcccccccccccc-cC-c
Q 042011            6 ILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISL----EPLFNHS-RLKIFYADNNELNAEITQSHSLI-AP-N   78 (361)
Q Consensus         6 ~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~----~~~~~l~-~L~~L~l~~n~~~~~~~~~~~~~-~~-~   78 (361)
                      .+++++|.+++.+|. .+...++|++|+|++|.++ ..+.    ..+..++ +|++|++++|.+++..+..+... .. .
T Consensus         2 ~~~ls~n~~~~~~~~-~~~~~~~L~~L~Ls~n~l~-~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~   79 (362)
T 3goz_A            2 NYKLTLHPGSNPVEE-FTSIPHGVTSLDLSLNNLY-SISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIP   79 (362)
T ss_dssp             EEECCCCTTCCHHHH-HHTSCTTCCEEECTTSCGG-GSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSC
T ss_pred             ccccccccchHHHHH-HHhCCCCceEEEccCCCCC-hHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccC
Confidence            467889999877776 5555566999999999987 4554    4677788 89999999998876443331111 00 0


Q ss_pred             ccccEEeccCCCCCCCCCchhhc----CC-CCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCC-C
Q 042011           79 FQLNSLSLSSDYGDGFIFPKFLY----HQ-HDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHS-H  152 (361)
Q Consensus        79 ~~L~~L~l~~~~~~~~~~~~~l~----~l-~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~-l  152 (361)
                      .+|++|++ ++|.+++..+..+.    .+ ++|++|++++|.+++..+..+ ..                    .+.. .
T Consensus        80 ~~L~~L~L-s~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l-~~--------------------~l~~~~  137 (362)
T 3goz_A           80 ANVTSLNL-SGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEF-KQ--------------------AFSNLP  137 (362)
T ss_dssp             TTCCEEEC-CSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHH-HH--------------------HHTTSC
T ss_pred             CCccEEEC-cCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHH-HH--------------------HHHhCC
Confidence            34555555 44444443333222    22 445555555555442222221 11                    0111 1


Q ss_pred             CCcCEEEccCCcCCccCChh----hhccCC-CccEEEecCCccccccCc----cccCC-CCCCEEeccCCcCccc----c
Q 042011          153 RWLEFLDISNNNFRCHIPVE----IGDILP-SLKFFNISMNALDGSIPS----SFGNM-NFLRVLDLSNNQLTGE----I  218 (361)
Q Consensus       153 ~~L~~L~l~~n~l~~~~~~~----~~~~l~-~L~~L~L~~n~l~~~~~~----~l~~~-~~L~~L~l~~n~l~~~----~  218 (361)
                      ++|++|++++|++++.....    +.. .+ +|++|++++|.+++..+.    .+..+ ++|++|++++|.+++.    +
T Consensus       138 ~~L~~L~Ls~N~l~~~~~~~l~~~l~~-~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l  216 (362)
T 3goz_A          138 ASITSLNLRGNDLGIKSSDELIQILAA-IPANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAEL  216 (362)
T ss_dssp             TTCCEEECTTSCGGGSCHHHHHHHHHT-SCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHH
T ss_pred             CceeEEEccCCcCCHHHHHHHHHHHhc-CCccccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHH
Confidence            34455555555444221111    111 22 555555555555433222    22233 3555555555555521    3


Q ss_pred             chhhhhCCCCCcEEEeecCCCCCccc----ccccCCCCCCEEeccCCcCCcc-------chhhhhcCCCCCEEECcCCcc
Q 042011          219 PEHLAVGCVNLESLALSNNSLEGHMF----SRNFNLTNLEWLQLGGNRFVGE-------IPQSLSKCSSLEGLYLNNNSL  287 (361)
Q Consensus       219 ~~~~~~~~~~L~~L~L~~n~l~~~~~----~~~~~~~~L~~L~L~~n~l~~~-------~~~~~~~l~~L~~L~l~~N~l  287 (361)
                      +..+....++|++|++++|.+++..+    ..+..+++|+.|++++|.+.+.       ++..+..+++|+.||+++|.+
T Consensus       217 ~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~~~l~~L~~LdL~~N~l  296 (362)
T 3goz_A          217 AYIFSSIPNHVVSLNLCLNCLHGPSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDKNGKEI  296 (362)
T ss_dssp             HHHHHHSCTTCCEEECCSSCCCCCCHHHHHHTTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTSTTCCEEEEECTTSCBC
T ss_pred             HHHHhcCCCCceEEECcCCCCCcHHHHHHHHHHhcCCCccEEEeccCCccccCHHHHHHHHHHhccCCceEEEecCCCcC
Confidence            33333223455666666655554322    2234445566666666553322       122344455555566666655


Q ss_pred             ccc
Q 042011          288 SGN  290 (361)
Q Consensus       288 ~~~  290 (361)
                      .+.
T Consensus       297 ~~~  299 (362)
T 3goz_A          297 HPS  299 (362)
T ss_dssp             CGG
T ss_pred             CCc
Confidence            543

>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=99.92  E-value=4.8e-26  Score=208.81  Aligned_cols=260  Identities=20%  Similarity=0.177  Sum_probs=168.3

Q ss_pred             CCccccCcCChhhhhccCCCCeEeCcCCcccccCCc---ccccCCCCCcEEEccCCCcccccccccccccCcccccEEec
Q 042011           10 SSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISL---EPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSL   86 (361)
Q Consensus        10 ~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~---~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l   86 (361)
                      +...+. .++. .+..+++|++|+|++|++++..+.   ..+..+++|++|++++|.+.......+..+.          
T Consensus        17 ~~~~~~-~l~~-~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~----------   84 (386)
T 2ca6_A           17 TTEDEK-SVFA-VLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALR----------   84 (386)
T ss_dssp             CSHHHH-TTSH-HHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHH----------
T ss_pred             CHHHHH-HHHH-HHhcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHH----------
Confidence            333443 5666 788889999999999988743221   2366788899999988755321111000000          


Q ss_pred             cCCCCCCCCCchhhcCCCCccEEEecCCcccC----CcChHHHhcCCCCcEEEecCCcccCCCCCC----cCCC------
Q 042011           87 SSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG----EFPTWLLENNTKLETLFLVNDSLTGPFRLP----IHSH------  152 (361)
Q Consensus        87 ~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~----~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~----~~~l------  152 (361)
                              .+...+..+++|++|++++|.++.    .++.. +..+++|++|++++|.+....+..    +..+      
T Consensus        85 --------~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~-l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~  155 (386)
T 2ca6_A           85 --------LLLQALLKCPKLHTVRLSDNAFGPTAQEPLIDF-LSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKA  155 (386)
T ss_dssp             --------HHHHHHTTCTTCCEEECCSCCCCTTTHHHHHHH-HHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             --------HHHHHHhhCCcccEEECCCCcCCHHHHHHHHHH-HHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhc
Confidence                    011234566677777777776664    23333 566677777777777664322222    2222      


Q ss_pred             ---CCcCEEEccCCcCCc-cCCh--hhhccCCCccEEEecCCcccc-----ccCccccCCCCCCEEeccCCcCc----cc
Q 042011          153 ---RWLEFLDISNNNFRC-HIPV--EIGDILPSLKFFNISMNALDG-----SIPSSFGNMNFLRVLDLSNNQLT----GE  217 (361)
Q Consensus       153 ---~~L~~L~l~~n~l~~-~~~~--~~~~~l~~L~~L~L~~n~l~~-----~~~~~l~~~~~L~~L~l~~n~l~----~~  217 (361)
                         ++|++|++++|++++ .++.  ..+..+++|++|++++|.++.     ..+..+..+++|++|++++|.++    +.
T Consensus       156 ~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~  235 (386)
T 2ca6_A          156 KNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSA  235 (386)
T ss_dssp             HTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHH
T ss_pred             ccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHH
Confidence               678888888888762 2331  122236788888888888762     23446778888888888888885    35


Q ss_pred             cchhhhhCCCCCcEEEeecCCCCCc----cccccc--CCCCCCEEeccCCcCCc----cchhhh-hcCCCCCEEECcCCc
Q 042011          218 IPEHLAVGCVNLESLALSNNSLEGH----MFSRNF--NLTNLEWLQLGGNRFVG----EIPQSL-SKCSSLEGLYLNNNS  286 (361)
Q Consensus       218 ~~~~~~~~~~~L~~L~L~~n~l~~~----~~~~~~--~~~~L~~L~L~~n~l~~----~~~~~~-~~l~~L~~L~l~~N~  286 (361)
                      +|..+. .+++|++|++++|.+++.    .+..+.  .+++|+.|++++|.+++    .+|..+ ..+++|+.|++++|.
T Consensus       236 l~~~l~-~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~L~l~~N~  314 (386)
T 2ca6_A          236 LAIALK-SWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNR  314 (386)
T ss_dssp             HHHHGG-GCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSB
T ss_pred             HHHHHc-cCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCCcCCHHHHHHHHHHHHhcCCCceEEEccCCc
Confidence            666554 688888888888888764    344553  37889999999998886    366666 557889999999998


Q ss_pred             ccccC
Q 042011          287 LSGNV  291 (361)
Q Consensus       287 l~~~~  291 (361)
                      +++..
T Consensus       315 l~~~~  319 (386)
T 2ca6_A          315 FSEED  319 (386)
T ss_dssp             SCTTS
T ss_pred             CCcch
Confidence            88655

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=99.92  E-value=1.5e-26  Score=223.89  Aligned_cols=305  Identities=16%  Similarity=0.152  Sum_probs=197.0

Q ss_pred             CCCCCeEeCCCccccCc----CChhhhhccCCCCeEeCcCCcccc----cCCcccccCCCCCcEEEccCCCccccccccc
Q 042011            1 MTSLRILDVSSNQLTGS----ISSSPLVHLTSIEELMLSNNHFQI----PISLEPLFNHSRLKIFYADNNELNAEITQSH   72 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~----i~~~~~~~l~~L~~L~Ls~n~l~~----~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~   72 (361)
                      |++|++|+|++|.+++.    ++. .+..+++|++|++++|.+++    .++ ..+.++++|++|++++|.+.+.. .. 
T Consensus       163 ~~~L~~L~L~~~~~~~~~~~~l~~-~~~~~~~L~~L~L~~n~~~~~~~~~l~-~~~~~~~~L~~L~L~~~~~~~l~-~~-  238 (592)
T 3ogk_B          163 CRKIKTLLMEESSFSEKDGKWLHE-LAQHNTSLEVLNFYMTEFAKISPKDLE-TIARNCRSLVSVKVGDFEILELV-GF-  238 (592)
T ss_dssp             CTTCSEEECTTCEEECCCSHHHHH-HHHHCCCCCEEECTTCCCSSCCHHHHH-HHHHHCTTCCEEECSSCBGGGGH-HH-
T ss_pred             CCCCCEEECccccccCcchhHHHH-HHhcCCCccEEEeeccCCCccCHHHHH-HHHhhCCCCcEEeccCccHHHHH-HH-
Confidence            57899999999988744    333 56678999999999988861    222 23567889999999988776421 11 


Q ss_pred             ccccCcccccEEecc--------------------------CCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHh
Q 042011           73 SLIAPNFQLNSLSLS--------------------------SDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLE  126 (361)
Q Consensus        73 ~~~~~~~~L~~L~l~--------------------------~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~  126 (361)
                        +..+.+|++|+++                          .... ....+..+..+++|++|++++|.+++.....++.
T Consensus       239 --~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~-~~~l~~~~~~~~~L~~L~Ls~~~l~~~~~~~~~~  315 (592)
T 3ogk_B          239 --FKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMG-PNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQ  315 (592)
T ss_dssp             --HHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTCC-TTTGGGGGGGGGGCCEEEETTCCCCHHHHHHHHT
T ss_pred             --HhhhhHHHhhcccccccccchHHHHHHhhccccccccCccccc-hhHHHHHHhhcCCCcEEecCCCcCCHHHHHHHHH
Confidence              2333344544441                          3221 2234555666777888888877765433333456


Q ss_pred             cCCCCcEEEecCCccc-CCCCCCcCCCCCcCEEEcc-----------CCcCCccCChhhhccCCCccEEEecCCcccccc
Q 042011          127 NNTKLETLFLVNDSLT-GPFRLPIHSHRWLEFLDIS-----------NNNFRCHIPVEIGDILPSLKFFNISMNALDGSI  194 (361)
Q Consensus       127 ~~~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l~-----------~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~  194 (361)
                      .+++|++|+++ +.+. ...+..+..+++|++|+++           .+.+++.....+...+++|++|+++.|.+++..
T Consensus       316 ~~~~L~~L~L~-~~~~~~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~L~l~~~~l~~~~  394 (592)
T 3ogk_B          316 KCPNLEVLETR-NVIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVSDITNES  394 (592)
T ss_dssp             TCTTCCEEEEE-GGGHHHHHHHHHHHCTTCCEEEEECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSEEEEEESCCCHHH
T ss_pred             hCcCCCEEecc-CccCHHHHHHHHHhCCCCCEEEeecCccccccccccCccCHHHHHHHHhhCccCeEEEeecCCccHHH
Confidence            77778888777 3332 2222233456778888888           355553323333444778888888777777555


Q ss_pred             CccccC-CCCCCEEecc----CCcCccc-----cchhhhhCCCCCcEEEeecCC--CCCccccccc-CCCCCCEEeccCC
Q 042011          195 PSSFGN-MNFLRVLDLS----NNQLTGE-----IPEHLAVGCVNLESLALSNNS--LEGHMFSRNF-NLTNLEWLQLGGN  261 (361)
Q Consensus       195 ~~~l~~-~~~L~~L~l~----~n~l~~~-----~~~~~~~~~~~L~~L~L~~n~--l~~~~~~~~~-~~~~L~~L~L~~n  261 (361)
                      +..+.. +++|++|+++    .|.+++.     ++.. +..+++|++|++++|.  +++.....+. .+++|+.|++++|
T Consensus       395 ~~~l~~~~~~L~~L~l~~~~~~n~l~~~p~~~~~~~~-~~~~~~L~~L~L~~~~~~l~~~~~~~~~~~~~~L~~L~L~~n  473 (592)
T 3ogk_B          395 LESIGTYLKNLCDFRLVLLDREERITDLPLDNGVRSL-LIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYV  473 (592)
T ss_dssp             HHHHHHHCCSCCEEEEEECSCCSCCSSCCCHHHHHHH-HHHCTTCCEEEEECCGGGCCHHHHHHHHHSCTTCCEEEECSC
T ss_pred             HHHHHhhCCCCcEEEEeecCCCccccCchHHHHHHHH-HHhCCCCCEEEEecCCCCccHHHHHHHHHhCccceEeeccCC
Confidence            555544 7788888885    5566632     2222 3368888888887543  5544333333 4788999999999


Q ss_pred             cCCcc-chhhhhcCCCCCEEECcCCcccccC-CCCCCCcCcceeeccccccccCC
Q 042011          262 RFVGE-IPQSLSKCSSLEGLYLNNNSLSGNV-NVPSSPANTLFNLSQNSRRFTSS  314 (361)
Q Consensus       262 ~l~~~-~~~~~~~l~~L~~L~l~~N~l~~~~-~~~~~~~~~L~~l~l~~N~~~~~  314 (361)
                      ++++. ++..+..+++|++|++++|.+++.. +.....+++|++|++++|+++..
T Consensus       474 ~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~ls~n~it~~  528 (592)
T 3ogk_B          474 GESDEGLMEFSRGCPNLQKLEMRGCCFSERAIAAAVTKLPSLRYLWVQGYRASMT  528 (592)
T ss_dssp             CSSHHHHHHHHTCCTTCCEEEEESCCCBHHHHHHHHHHCSSCCEEEEESCBCCTT
T ss_pred             CCCHHHHHHHHhcCcccCeeeccCCCCcHHHHHHHHHhcCccCeeECcCCcCCHH
Confidence            88763 4455677889999999999887542 33335678899999999987754

>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=99.92  E-value=4.3e-24  Score=187.85  Aligned_cols=201  Identities=19%  Similarity=0.162  Sum_probs=86.4

Q ss_pred             hhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcC
Q 042011           23 LVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYH  102 (361)
Q Consensus        23 ~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~  102 (361)
                      +.++++++++++++++++ .+|. .+  .++++.|++++|.+++..+..   +..+.+|++|++ ++|.++...+  ...
T Consensus         6 ~~~l~~l~~l~~~~~~l~-~ip~-~~--~~~l~~L~L~~N~l~~~~~~~---~~~l~~L~~L~L-~~n~l~~~~~--~~~   75 (290)
T 1p9a_G            6 VSKVASHLEVNCDKRNLT-ALPP-DL--PKDTTILHLSENLLYTFSLAT---LMPYTRLTQLNL-DRAELTKLQV--DGT   75 (290)
T ss_dssp             EECSTTCCEEECTTSCCS-SCCS-CC--CTTCCEEECTTSCCSEEEGGG---GTTCTTCCEEEC-TTSCCCEEEC--CSC
T ss_pred             ccccCCccEEECCCCCCC-cCCC-CC--CCCCCEEEcCCCcCCccCHHH---hhcCCCCCEEEC-CCCccCcccC--CCC
Confidence            344555566666665555 4442 22  145555555555554332222   222233333333 3333332211  133


Q ss_pred             CCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccE
Q 042011          103 QHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKF  182 (361)
Q Consensus       103 l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~  182 (361)
                      +++|++|++++|.++ .+|.. +..+++|++|++++|++++..+..|..+++|++|++++|+++ .++...+..+++|+.
T Consensus        76 l~~L~~L~Ls~N~l~-~l~~~-~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~-~~~~~~~~~l~~L~~  152 (290)
T 1p9a_G           76 LPVLGTLDLSHNQLQ-SLPLL-GQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELK-TLPPGLLTPTPKLEK  152 (290)
T ss_dssp             CTTCCEEECCSSCCS-SCCCC-TTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCC-CCCTTTTTTCTTCCE
T ss_pred             CCcCCEEECCCCcCC-cCchh-hccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCCCC-ccChhhcccccCCCE
Confidence            444555555555444 33332 344444444444444444433344444444444444444444 333333333444444


Q ss_pred             EEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCC
Q 042011          183 FNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNS  238 (361)
Q Consensus       183 L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~  238 (361)
                      |++++|.+++..+..|..+++|++|++++|.++ .+|..++ ..++|+.+++++|.
T Consensus       153 L~L~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~-~ip~~~~-~~~~L~~l~L~~Np  206 (290)
T 1p9a_G          153 LSLANNNLTELPAGLLNGLENLDTLLLQENSLY-TIPKGFF-GSHLLPFAFLHGNP  206 (290)
T ss_dssp             EECTTSCCSCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTT-TTCCCSEEECCSCC
T ss_pred             EECCCCcCCccCHHHhcCcCCCCEEECCCCcCC-ccChhhc-ccccCCeEEeCCCC
Confidence            444444444322333344444444444444444 4444333 33344444444443

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.92  E-value=1.6e-24  Score=192.75  Aligned_cols=204  Identities=23%  Similarity=0.230  Sum_probs=152.9

Q ss_pred             CCCccEEEecCCcccCCcChHHH-hcCCCCcEEEecCCcccCCCC----CCcCCCCCcCEEEccCCcCCccCChhhhccC
Q 042011          103 QHDLALVDLSHIKMNGEFPTWLL-ENNTKLETLFLVNDSLTGPFR----LPIHSHRWLEFLDISNNNFRCHIPVEIGDIL  177 (361)
Q Consensus       103 l~~L~~L~l~~n~l~~~~~~~~~-~~~~~L~~L~l~~n~l~~~~~----~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l  177 (361)
                      +++|++|++++|.+++..|..++ ..+++|++|++++|.+.+..+    ..+..+++|++|++++|++. .++...+..+
T Consensus        90 ~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~-~~~~~~~~~l  168 (310)
T 4glp_A           90 YSRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSP-AFSCEQVRAF  168 (310)
T ss_dssp             HSCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSC-CCCTTSCCCC
T ss_pred             cCceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcc-hhhHHHhccC
Confidence            45688888888887766666532 677788888888887775433    23446778888888888887 4554444457


Q ss_pred             CCccEEEecCCccccc--c--CccccCCCCCCEEeccCCcCccccchh---hhhCCCCCcEEEeecCCCCCcccccccCC
Q 042011          178 PSLKFFNISMNALDGS--I--PSSFGNMNFLRVLDLSNNQLTGEIPEH---LAVGCVNLESLALSNNSLEGHMFSRNFNL  250 (361)
Q Consensus       178 ~~L~~L~L~~n~l~~~--~--~~~l~~~~~L~~L~l~~n~l~~~~~~~---~~~~~~~L~~L~L~~n~l~~~~~~~~~~~  250 (361)
                      ++|++|++++|.+.+.  +  +..+..+++|++|++++|.++ .++..   ++..+++|++|++++|++++..|..+..+
T Consensus       169 ~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~-~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~~~~  247 (310)
T 4glp_A          169 PALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGME-TPTGVCAALAAAGVQPHSLDLSHNSLRATVNPSAPRC  247 (310)
T ss_dssp             TTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCC-CHHHHHHHHHHHTCCCSSEECTTSCCCCCCCSCCSSC
T ss_pred             CCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCC-chHHHHHHHHhcCCCCCEEECCCCCCCccchhhHHhc
Confidence            8888888888886532  2  233467888999999999987 55543   44478899999999999988767666665


Q ss_pred             ---CCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccC
Q 042011          251 ---TNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTS  313 (361)
Q Consensus       251 ---~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~  313 (361)
                         ++|++|++++|+++ .+|..+.  ++|+.|++++|++++. |. +..+++|+.|++++|+++.
T Consensus       248 ~~~~~L~~L~Ls~N~l~-~lp~~~~--~~L~~L~Ls~N~l~~~-~~-~~~l~~L~~L~L~~N~l~~  308 (310)
T 4glp_A          248 MWSSALNSLNLSFAGLE-QVPKGLP--AKLRVLDLSSNRLNRA-PQ-PDELPEVDNLTLDGNPFLV  308 (310)
T ss_dssp             CCCTTCCCEECCSSCCC-SCCSCCC--SCCSCEECCSCCCCSC-CC-TTSCCCCSCEECSSTTTSC
T ss_pred             cCcCcCCEEECCCCCCC-chhhhhc--CCCCEEECCCCcCCCC-ch-hhhCCCccEEECcCCCCCC
Confidence               69999999999999 5676663  7999999999999864 33 6778999999999999875

>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=99.92  E-value=5.2e-24  Score=183.56  Aligned_cols=180  Identities=22%  Similarity=0.226  Sum_probs=92.1

Q ss_pred             CccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEE
Q 042011          105 DLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFN  184 (361)
Q Consensus       105 ~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~  184 (361)
                      ..++++++++.++ .+|..+   .+.+++|++++|.+.+..+..+..+++|++|++++|.+                   
T Consensus        15 ~~~~l~~~~~~l~-~~p~~~---~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l-------------------   71 (251)
T 3m19_A           15 GKKEVDCQGKSLD-SVPSGI---PADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQL-------------------   71 (251)
T ss_dssp             GGTEEECTTCCCS-SCCSCC---CTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCC-------------------
T ss_pred             CCeEEecCCCCcc-ccCCCC---CCCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcC-------------------
Confidence            3445555555554 444331   13445555555555444444444444555555555544                   


Q ss_pred             ecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCC
Q 042011          185 ISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFV  264 (361)
Q Consensus       185 L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~  264 (361)
                            ++..+..|..+++|++|++++|.++ .++...+..+++|++|++++|++++..+..+..+++|+.|++++|+++
T Consensus        72 ------~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~  144 (251)
T 3m19_A           72 ------QTLSAGVFDDLTELGTLGLANNQLA-SLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQ  144 (251)
T ss_dssp             ------CCCCTTTTTTCTTCCEEECTTSCCC-CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             ------CccCHhHhccCCcCCEEECCCCccc-ccChhHhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcCCcCC
Confidence                  4444444444555555555555554 333333334555555555555555444444455555555555555555


Q ss_pred             ccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCC
Q 042011          265 GEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSS  314 (361)
Q Consensus       265 ~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~  314 (361)
                      +..+..|..+++|+.|++++|++++..+..+..+++|+.|++.+|+|+|.
T Consensus       145 ~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~c~  194 (251)
T 3m19_A          145 SIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITLFGNQFDCS  194 (251)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCBCTT
T ss_pred             ccCHHHcCcCcCCCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCceeCC
Confidence            44444555555555555555555555444555555556666666665554

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.92  E-value=5.7e-25  Score=195.59  Aligned_cols=232  Identities=18%  Similarity=0.153  Sum_probs=183.1

Q ss_pred             CCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhh--cCCCCccEEEecCCcccCCcC---hHH
Q 042011           50 NHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFL--YHQHDLALVDLSHIKMNGEFP---TWL  124 (361)
Q Consensus        50 ~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l--~~l~~L~~L~l~~n~l~~~~~---~~~  124 (361)
                      ....++.+.+.++.+....-.....+....+|++|++ ++|.+.+..|..+  ..+++|++|++++|.+++..+   ...
T Consensus        62 ~~~~l~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l-~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~  140 (310)
T 4glp_A           62 KALRVRRLTVGAAQVPAQLLVGALRVLAYSRLKELTL-EDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQ  140 (310)
T ss_dssp             SSCCCCEEEECSCCCBHHHHHHHHHHHHHSCCCEEEE-ESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHH
T ss_pred             hhcceeEEEEeCCcCCHHHHHHHHHhcccCceeEEEe-eCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHH
Confidence            3456888999988876432222222334457999999 9999988888887  889999999999999986544   222


Q ss_pred             HhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCcc--CCh-hhhccCCCccEEEecCCccccccCc----c
Q 042011          125 LENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCH--IPV-EIGDILPSLKFFNISMNALDGSIPS----S  197 (361)
Q Consensus       125 ~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~--~~~-~~~~~l~~L~~L~L~~n~l~~~~~~----~  197 (361)
                      +..+++|++|++++|++.+..+..+..+++|++|++++|++.+.  ++. .....+++|++|++++|.++ .++.    .
T Consensus       141 ~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~-~l~~~~~~l  219 (310)
T 4glp_A          141 QWLKPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGME-TPTGVCAAL  219 (310)
T ss_dssp             TTBCSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCC-CHHHHHHHH
T ss_pred             hhhccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCC-chHHHHHHH
Confidence            45799999999999999988888999999999999999997632  222 22234889999999999997 3333    3


Q ss_pred             ccCCCCCCEEeccCCcCccccchhhhhCC---CCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcC
Q 042011          198 FGNMNFLRVLDLSNNQLTGEIPEHLAVGC---VNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKC  274 (361)
Q Consensus       198 l~~~~~L~~L~l~~n~l~~~~~~~~~~~~---~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l  274 (361)
                      +..+++|++|++++|.+.+..|..++ .+   ++|++|++++|+++. +|..+.  ++|+.|++++|++++. |. +..+
T Consensus       220 ~~~l~~L~~L~Ls~N~l~~~~p~~~~-~~~~~~~L~~L~Ls~N~l~~-lp~~~~--~~L~~L~Ls~N~l~~~-~~-~~~l  293 (310)
T 4glp_A          220 AAAGVQPHSLDLSHNSLRATVNPSAP-RCMWSSALNSLNLSFAGLEQ-VPKGLP--AKLRVLDLSSNRLNRA-PQ-PDEL  293 (310)
T ss_dssp             HHHTCCCSSEECTTSCCCCCCCSCCS-SCCCCTTCCCEECCSSCCCS-CCSCCC--SCCSCEECCSCCCCSC-CC-TTSC
T ss_pred             HhcCCCCCEEECCCCCCCccchhhHH-hccCcCcCCEEECCCCCCCc-hhhhhc--CCCCEEECCCCcCCCC-ch-hhhC
Confidence            57889999999999999966576665 44   799999999999996 455553  7999999999999964 33 6788


Q ss_pred             CCCCEEECcCCcccc
Q 042011          275 SSLEGLYLNNNSLSG  289 (361)
Q Consensus       275 ~~L~~L~l~~N~l~~  289 (361)
                      ++|+.|++++|++++
T Consensus       294 ~~L~~L~L~~N~l~~  308 (310)
T 4glp_A          294 PEVDNLTLDGNPFLV  308 (310)
T ss_dssp             CCCSCEECSSTTTSC
T ss_pred             CCccEEECcCCCCCC
Confidence            999999999999985

>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=99.91  E-value=1.9e-26  Score=211.53  Aligned_cols=246  Identities=23%  Similarity=0.298  Sum_probs=189.0

Q ss_pred             ccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcc---cCCcCh
Q 042011           46 EPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKM---NGEFPT  122 (361)
Q Consensus        46 ~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l---~~~~~~  122 (361)
                      ..+..+++|++|++++|.+....+..                        ++..+..+++|++|++++|.+   ++.+|.
T Consensus        26 ~~l~~~~~L~~L~L~~n~i~~~~~~~------------------------l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~   81 (386)
T 2ca6_A           26 AVLLEDDSVKEIVLSGNTIGTEAARW------------------------LSENIASKKDLEIAEFSDIFTGRVKDEIPE   81 (386)
T ss_dssp             HHHHHCSCCCEEECTTSEECHHHHHH------------------------HHHTTTTCTTCCEEECCSCCTTSCGGGSHH
T ss_pred             HHHhcCCCccEEECCCCCCCHHHHHH------------------------HHHHHHhCCCccEEeCcccccCccccchhH
Confidence            45677788888888888776432221                        223456678888888888643   334454


Q ss_pred             HH------HhcCCCCcEEEecCCcccC----CCCCCcCCCCCcCEEEccCCcCCccCChhhhcc---C---------CCc
Q 042011          123 WL------LENNTKLETLFLVNDSLTG----PFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI---L---------PSL  180 (361)
Q Consensus       123 ~~------~~~~~~L~~L~l~~n~l~~----~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~---l---------~~L  180 (361)
                      .+      +..+++|++|++++|.+..    .++..+..+++|++|++++|.+++..+..+...   +         ++|
T Consensus        82 ~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L  161 (386)
T 2ca6_A           82 ALRLLLQALLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPL  161 (386)
T ss_dssp             HHHHHHHHHTTCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCC
T ss_pred             HHHHHHHHHhhCCcccEEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCC
Confidence            42      4688999999999999986    356677889999999999999974333333332   2         899


Q ss_pred             cEEEecCCccc-cccC---ccccCCCCCCEEeccCCcCccc----cch-hhhhCCCCCcEEEeecCCCC----Ccccccc
Q 042011          181 KFFNISMNALD-GSIP---SSFGNMNFLRVLDLSNNQLTGE----IPE-HLAVGCVNLESLALSNNSLE----GHMFSRN  247 (361)
Q Consensus       181 ~~L~L~~n~l~-~~~~---~~l~~~~~L~~L~l~~n~l~~~----~~~-~~~~~~~~L~~L~L~~n~l~----~~~~~~~  247 (361)
                      ++|++++|.++ ..++   ..+..+++|++|++++|.++..    +.. .+ ..+++|++|++++|.++    ...+..+
T Consensus       162 ~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l-~~~~~L~~L~Ls~n~l~~~g~~~l~~~l  240 (386)
T 2ca6_A          162 RSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGL-AYCQELKVLDLQDNTFTHLGSSALAIAL  240 (386)
T ss_dssp             CEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTG-GGCTTCCEEECCSSCCHHHHHHHHHHHG
T ss_pred             cEEECCCCCCCcHHHHHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHh-hcCCCccEEECcCCCCCcHHHHHHHHHH
Confidence            99999999997 3344   4677889999999999999732    222 33 37899999999999996    4567788


Q ss_pred             cCCCCCCEEeccCCcCCcc----chhhhhc--CCCCCEEECcCCcccc----cCCCCC-CCcCcceeeccccccccCCcc
Q 042011          248 FNLTNLEWLQLGGNRFVGE----IPQSLSK--CSSLEGLYLNNNSLSG----NVNVPS-SPANTLFNLSQNSRRFTSSIS  316 (361)
Q Consensus       248 ~~~~~L~~L~L~~n~l~~~----~~~~~~~--l~~L~~L~l~~N~l~~----~~~~~~-~~~~~L~~l~l~~N~~~~~~~  316 (361)
                      ..+++|+.|++++|++++.    ++..+..  +++|+.|++++|.+++    .+|..+ ..+++|++|++++|++++..+
T Consensus       241 ~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~L~l~~N~l~~~~~  320 (386)
T 2ca6_A          241 KSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFSEEDD  320 (386)
T ss_dssp             GGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBSCTTSH
T ss_pred             ccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCCcCCHHHHHHHHHHHHhcCCCceEEEccCCcCCcchh
Confidence            8999999999999999876    4566644  8999999999999997    366666 557999999999999998764

>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=99.91  E-value=2.9e-24  Score=183.80  Aligned_cols=196  Identities=19%  Similarity=0.206  Sum_probs=127.1

Q ss_pred             CccEEEecCCcccCCcChHHHhcCCCCcEEEecCCc-ccCCCCCCcCCCCCcCEEEccC-CcCCccCChhhhccCCCccE
Q 042011          105 DLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDS-LTGPFRLPIHSHRWLEFLDISN-NNFRCHIPVEIGDILPSLKF  182 (361)
Q Consensus       105 ~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~-n~l~~~~~~~~~~~l~~L~~  182 (361)
                      .+++|++++|.++ .++...+.++++|++|++++|+ ++...+..|..+++|++|++++ |+++ .++...+..+++|++
T Consensus        32 ~l~~L~l~~n~l~-~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~-~i~~~~f~~l~~L~~  109 (239)
T 2xwt_C           32 STQTLKLIETHLR-TIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLT-YIDPDALKELPLLKF  109 (239)
T ss_dssp             TCCEEEEESCCCS-EECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCC-EECTTSEECCTTCCE
T ss_pred             cccEEEEeCCcce-EECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCee-EcCHHHhCCCCCCCE
Confidence            6677777777776 4444336667777777777775 6655555666777777777776 7776 555554445677777


Q ss_pred             EEecCCccccccCccccCCCCCC---EEeccCC-cCccccchhhhhCCCCCc-EEEeecCCCCCcccccccCCCCCCEEe
Q 042011          183 FNISMNALDGSIPSSFGNMNFLR---VLDLSNN-QLTGEIPEHLAVGCVNLE-SLALSNNSLEGHMFSRNFNLTNLEWLQ  257 (361)
Q Consensus       183 L~L~~n~l~~~~~~~l~~~~~L~---~L~l~~n-~l~~~~~~~~~~~~~~L~-~L~L~~n~l~~~~~~~~~~~~~L~~L~  257 (361)
                      |++++|.+++ +|. +..+++|+   +|++++| .++ .++...+..+++|+ +|++++|+++...+..+.. ++|+.|+
T Consensus       110 L~l~~n~l~~-lp~-~~~l~~L~~L~~L~l~~N~~l~-~i~~~~~~~l~~L~~~L~l~~n~l~~i~~~~~~~-~~L~~L~  185 (239)
T 2xwt_C          110 LGIFNTGLKM-FPD-LTKVYSTDIFFILEITDNPYMT-SIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFNG-TKLDAVY  185 (239)
T ss_dssp             EEEEEECCCS-CCC-CTTCCBCCSEEEEEEESCTTCC-EECTTTTTTTBSSEEEEECCSCCCCEECTTTTTT-CEEEEEE
T ss_pred             EeCCCCCCcc-ccc-cccccccccccEEECCCCcchh-hcCcccccchhcceeEEEcCCCCCcccCHhhcCC-CCCCEEE
Confidence            7777777763 554 66666666   7777777 666 56655555677777 7777777776544444444 6777777


Q ss_pred             ccCCc-CCccchhhhhcC-CCCCEEECcCCcccccCCCCCCCcCcceeeccccc
Q 042011          258 LGGNR-FVGEIPQSLSKC-SSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSR  309 (361)
Q Consensus       258 L~~n~-l~~~~~~~~~~l-~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N  309 (361)
                      +++|+ +++..+..|..+ ++|+.|++++|++++..+.   .+++|+.|++.++
T Consensus       186 L~~n~~l~~i~~~~~~~l~~~L~~L~l~~N~l~~l~~~---~~~~L~~L~l~~~  236 (239)
T 2xwt_C          186 LNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVTALPSK---GLEHLKELIARNT  236 (239)
T ss_dssp             CTTCTTCCEECTTTTTTCSBCCSEEECTTCCCCCCCCT---TCTTCSEEECTTC
T ss_pred             cCCCCCcccCCHHHhhccccCCcEEECCCCccccCChh---HhccCceeeccCc
Confidence            77774 765556667777 7777777777777653333   4556666666654

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=99.91  E-value=6.2e-26  Score=219.50  Aligned_cols=305  Identities=14%  Similarity=0.102  Sum_probs=202.6

Q ss_pred             CCeEeCCCcc-ccC-cCChhhhhccCCCCeEeCcCCccccc----CCcccccCCCCCcEEEccCCCccccccccc-cccc
Q 042011            4 LRILDVSSNQ-LTG-SISSSPLVHLTSIEELMLSNNHFQIP----ISLEPLFNHSRLKIFYADNNELNAEITQSH-SLIA   76 (361)
Q Consensus         4 L~~L~L~~n~-i~~-~i~~~~~~~l~~L~~L~Ls~n~l~~~----~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~-~~~~   76 (361)
                      |++|++++|. ++. .++. ....+++|++|+|++|.+++.    ++ ..+..+++|++|++++|.+++.....+ ..+.
T Consensus       140 L~~L~L~~~~~~~~~~l~~-~~~~~~~L~~L~L~~~~~~~~~~~~l~-~~~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~  217 (592)
T 3ogk_B          140 LETLKLDKCSGFTTDGLLS-IVTHCRKIKTLLMEESSFSEKDGKWLH-ELAQHNTSLEVLNFYMTEFAKISPKDLETIAR  217 (592)
T ss_dssp             CCEEEEESCEEEEHHHHHH-HHHHCTTCSEEECTTCEEECCCSHHHH-HHHHHCCCCCEEECTTCCCSSCCHHHHHHHHH
T ss_pred             CcEEECcCCCCcCHHHHHH-HHhhCCCCCEEECccccccCcchhHHH-HHHhcCCCccEEEeeccCCCccCHHHHHHHHh
Confidence            9999999986 321 1222 445899999999999998743    22 245688999999999999873322221 1134


Q ss_pred             CcccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCccc--------------------------CCcChHHHhcCCC
Q 042011           77 PNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMN--------------------------GEFPTWLLENNTK  130 (361)
Q Consensus        77 ~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~--------------------------~~~~~~~~~~~~~  130 (361)
                      .+.+|++|++ +++.+.+ .+..+..+++|++|+++.....                          ..++.. +..+++
T Consensus       218 ~~~~L~~L~L-~~~~~~~-l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l~~~-~~~~~~  294 (592)
T 3ogk_B          218 NCRSLVSVKV-GDFEILE-LVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPIL-FPFAAQ  294 (592)
T ss_dssp             HCTTCCEEEC-SSCBGGG-GHHHHHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTCCTTTGGGG-GGGGGG
T ss_pred             hCCCCcEEec-cCccHHH-HHHHHhhhhHHHhhcccccccccchHHHHHHhhccccccccCccccchhHHHHH-HhhcCC
Confidence            5679999999 7777664 4566777777777777642111                          123332 556667


Q ss_pred             CcEEEecCCcccCCCC-CCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecC-----------Cccccc-cCcc
Q 042011          131 LETLFLVNDSLTGPFR-LPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISM-----------NALDGS-IPSS  197 (361)
Q Consensus       131 L~~L~l~~n~l~~~~~-~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~-----------n~l~~~-~~~~  197 (361)
                      |++|++++|.+++... ..+..+++|++|+++ +.+.+.....+...+++|++|++++           +.+++. ++..
T Consensus       295 L~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~-~~~~~~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~l  373 (592)
T 3ogk_B          295 IRKLDLLYALLETEDHCTLIQKCPNLEVLETR-NVIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIAL  373 (592)
T ss_dssp             CCEEEETTCCCCHHHHHHHHTTCTTCCEEEEE-GGGHHHHHHHHHHHCTTCCEEEEECCCCSSTTSSTTCCCCHHHHHHH
T ss_pred             CcEEecCCCcCCHHHHHHHHHhCcCCCEEecc-CccCHHHHHHHHHhCCCCCEEEeecCccccccccccCccCHHHHHHH
Confidence            7777777776543222 224566777777777 3333233333434467788888873           444422 2222


Q ss_pred             ccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEee----cCCCCCc-----ccccccCCCCCCEEeccCCc--CCcc
Q 042011          198 FGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALS----NNSLEGH-----MFSRNFNLTNLEWLQLGGNR--FVGE  266 (361)
Q Consensus       198 l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~----~n~l~~~-----~~~~~~~~~~L~~L~L~~n~--l~~~  266 (361)
                      +..+++|++|+++.|.+++..+..+...+++|+.|+++    .|.+++.     .+..+..+++|+.|++++|.  +++.
T Consensus       374 ~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~~L~~L~l~~~~~~n~l~~~p~~~~~~~~~~~~~~L~~L~L~~~~~~l~~~  453 (592)
T 3ogk_B          374 AQGCQELEYMAVYVSDITNESLESIGTYLKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLTDL  453 (592)
T ss_dssp             HHHCTTCSEEEEEESCCCHHHHHHHHHHCCSCCEEEEEECSCCSCCSSCCCHHHHHHHHHHCTTCCEEEEECCGGGCCHH
T ss_pred             HhhCccCeEEEeecCCccHHHHHHHHhhCCCCcEEEEeecCCCccccCchHHHHHHHHHHhCCCCCEEEEecCCCCccHH
Confidence            44578888888888888766666666558889999886    5566653     23335668899999997544  6655


Q ss_pred             chhhhhc-CCCCCEEECcCCccccc-CCCCCCCcCcceeeccccccccCC
Q 042011          267 IPQSLSK-CSSLEGLYLNNNSLSGN-VNVPSSPANTLFNLSQNSRRFTSS  314 (361)
Q Consensus       267 ~~~~~~~-l~~L~~L~l~~N~l~~~-~~~~~~~~~~L~~l~l~~N~~~~~  314 (361)
                      .+..+.. +++|+.|++++|++++. ++..+..+++|++|++++|+++..
T Consensus       454 ~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~  503 (592)
T 3ogk_B          454 GLSYIGQYSPNVRWMLLGYVGESDEGLMEFSRGCPNLQKLEMRGCCFSER  503 (592)
T ss_dssp             HHHHHHHSCTTCCEEEECSCCSSHHHHHHHHTCCTTCCEEEEESCCCBHH
T ss_pred             HHHHHHHhCccceEeeccCCCCCHHHHHHHHhcCcccCeeeccCCCCcHH
Confidence            5555544 88999999999998763 344457789999999999997643

>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=99.91  E-value=1.4e-23  Score=186.35  Aligned_cols=192  Identities=19%  Similarity=0.249  Sum_probs=113.0

Q ss_pred             cccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCE
Q 042011           78 NFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEF  157 (361)
Q Consensus        78 ~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~  157 (361)
                      +.+|++|++ .++.+... + .+..+++|++|++++|.++ .++.  +..+++|++|++++|++.+.  ..+..+++|++
T Consensus        40 l~~L~~L~l-~~~~i~~l-~-~~~~l~~L~~L~L~~n~i~-~~~~--~~~l~~L~~L~L~~n~l~~~--~~~~~l~~L~~  111 (308)
T 1h6u_A           40 LDGITTLSA-FGTGVTTI-E-GVQYLNNLIGLELKDNQIT-DLAP--LKNLTKITELELSGNPLKNV--SAIAGLQSIKT  111 (308)
T ss_dssp             HHTCCEEEC-TTSCCCCC-T-TGGGCTTCCEEECCSSCCC-CCGG--GTTCCSCCEEECCSCCCSCC--GGGTTCTTCCE
T ss_pred             cCCcCEEEe-eCCCccCc-h-hhhccCCCCEEEccCCcCC-CChh--HccCCCCCEEEccCCcCCCc--hhhcCCCCCCE
Confidence            346666666 66665542 2 4566666666666666665 3333  55666666666666666542  24566666666


Q ss_pred             EEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecC
Q 042011          158 LDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN  237 (361)
Q Consensus       158 L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n  237 (361)
                      |++++|+++ .++. + ..+++|++|++++|.+++..+  +..+++|++|++++|.++ .++.  +..+++|+.|++++|
T Consensus       112 L~l~~n~l~-~~~~-l-~~l~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~l~~n~l~-~~~~--l~~l~~L~~L~l~~n  183 (308)
T 1h6u_A          112 LDLTSTQIT-DVTP-L-AGLSNLQVLYLDLNQITNISP--LAGLTNLQYLSIGNAQVS-DLTP--LANLSKLTTLKADDN  183 (308)
T ss_dssp             EECTTSCCC-CCGG-G-TTCTTCCEEECCSSCCCCCGG--GGGCTTCCEEECCSSCCC-CCGG--GTTCTTCCEEECCSS
T ss_pred             EECCCCCCC-Cchh-h-cCCCCCCEEECCCCccCcCcc--ccCCCCccEEEccCCcCC-CChh--hcCCCCCCEEECCCC
Confidence            666666665 3433 2 235666666666666653222  556666666666666666 4443  235666666666666


Q ss_pred             CCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccc
Q 042011          238 SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG  289 (361)
Q Consensus       238 ~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~  289 (361)
                      ++++..+  +..+++|+.|++++|++++..  .+..+++|+.|++++|++++
T Consensus       184 ~l~~~~~--l~~l~~L~~L~L~~N~l~~~~--~l~~l~~L~~L~l~~N~i~~  231 (308)
T 1h6u_A          184 KISDISP--LASLPNLIEVHLKNNQISDVS--PLANTSNLFIVTLTNQTITN  231 (308)
T ss_dssp             CCCCCGG--GGGCTTCCEEECTTSCCCBCG--GGTTCTTCCEEEEEEEEEEC
T ss_pred             ccCcChh--hcCCCCCCEEEccCCccCccc--cccCCCCCCEEEccCCeeec
Confidence            6665332  555666666666666666433  25566666666666666654

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.91  E-value=4.2e-25  Score=200.71  Aligned_cols=260  Identities=17%  Similarity=0.107  Sum_probs=182.2

Q ss_pred             eEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCC-CccEE
Q 042011           31 ELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQH-DLALV  109 (361)
Q Consensus        31 ~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~-~L~~L  109 (361)
                      ..++++|++++.++ ..+...++|++|++++|.+++.....                        ....+..++ +|++|
T Consensus         2 ~~~ls~n~~~~~~~-~~~~~~~~L~~L~Ls~n~l~~~~~~~------------------------l~~~l~~~~~~L~~L   56 (362)
T 3goz_A            2 NYKLTLHPGSNPVE-EFTSIPHGVTSLDLSLNNLYSISTVE------------------------LIQAFANTPASVTSL   56 (362)
T ss_dssp             EEECCCCTTCCHHH-HHHTSCTTCCEEECTTSCGGGSCHHH------------------------HHHHHHTCCTTCCEE
T ss_pred             ccccccccchHHHH-HHHhCCCCceEEEccCCCCChHHHHH------------------------HHHHHHhCCCceeEE
Confidence            35677777776555 34444555888888887775432211                        114566666 78888


Q ss_pred             EecCCcccCCcChHHHhcC-----CCCcEEEecCCcccCCCCCC----cCCC-CCcCEEEccCCcCCccCChhhhcc---
Q 042011          110 DLSHIKMNGEFPTWLLENN-----TKLETLFLVNDSLTGPFRLP----IHSH-RWLEFLDISNNNFRCHIPVEIGDI---  176 (361)
Q Consensus       110 ~l~~n~l~~~~~~~~~~~~-----~~L~~L~l~~n~l~~~~~~~----~~~l-~~L~~L~l~~n~l~~~~~~~~~~~---  176 (361)
                      ++++|.+++..+.. +...     ++|++|++++|.+++..+..    +..+ ++|++|++++|++++..+..+...   
T Consensus        57 ~Ls~N~l~~~~~~~-l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~  135 (362)
T 3goz_A           57 NLSGNSLGFKNSDE-LVQILAAIPANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSN  135 (362)
T ss_dssp             ECCSSCGGGSCHHH-HHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTT
T ss_pred             ECcCCCCCHHHHHH-HHHHHhccCCCccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHh
Confidence            88888877544443 3333     78888888888877654443    3334 789999999999874433333221   


Q ss_pred             -CCCccEEEecCCccccc----cCccccCCC-CCCEEeccCCcCccccchhhh---hCC-CCCcEEEeecCCCCCc----
Q 042011          177 -LPSLKFFNISMNALDGS----IPSSFGNMN-FLRVLDLSNNQLTGEIPEHLA---VGC-VNLESLALSNNSLEGH----  242 (361)
Q Consensus       177 -l~~L~~L~L~~n~l~~~----~~~~l~~~~-~L~~L~l~~n~l~~~~~~~~~---~~~-~~L~~L~L~~n~l~~~----  242 (361)
                       .++|++|++++|.+++.    ++..+...+ +|++|++++|.+++..+..+.   ... ++|++|++++|.+++.    
T Consensus       136 ~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~  215 (362)
T 3goz_A          136 LPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAE  215 (362)
T ss_dssp             SCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHH
T ss_pred             CCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHHHH
Confidence             25999999999999843    334445565 999999999999855443332   244 5999999999999873    


Q ss_pred             ccccccC-CCCCCEEeccCCcCCccch----hhhhcCCCCCEEECcCCccccc-------CCCCCCCcCcceeecccccc
Q 042011          243 MFSRNFN-LTNLEWLQLGGNRFVGEIP----QSLSKCSSLEGLYLNNNSLSGN-------VNVPSSPANTLFNLSQNSRR  310 (361)
Q Consensus       243 ~~~~~~~-~~~L~~L~L~~n~l~~~~~----~~~~~l~~L~~L~l~~N~l~~~-------~~~~~~~~~~L~~l~l~~N~  310 (361)
                      .+..+.. .++|+.|++++|++++..+    ..+..+++|+.|++++|.+.+.       ++..+..+++|+.|++++|+
T Consensus       216 l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~~~l~~L~~LdL~~N~  295 (362)
T 3goz_A          216 LAYIFSSIPNHVVSLNLCLNCLHGPSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDKNGKE  295 (362)
T ss_dssp             HHHHHHHSCTTCCEEECCSSCCCCCCHHHHHHTTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTSTTCCEEEEECTTSCB
T ss_pred             HHHHHhcCCCCceEEECcCCCCCcHHHHHHHHHHhcCCCccEEEeccCCccccCHHHHHHHHHHhccCCceEEEecCCCc
Confidence            2334444 5699999999999997655    3346679999999999995443       33467889999999999999


Q ss_pred             ccCCcc
Q 042011          311 FTSSIS  316 (361)
Q Consensus       311 ~~~~~~  316 (361)
                      +....+
T Consensus       296 l~~~~~  301 (362)
T 3goz_A          296 IHPSHS  301 (362)
T ss_dssp             CCGGGC
T ss_pred             CCCcch
Confidence            987633

>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=99.91  E-value=7.4e-24  Score=181.22  Aligned_cols=196  Identities=17%  Similarity=0.143  Sum_probs=148.6

Q ss_pred             ccEEeccCCCCCCCCCchhhcCCCCccEEEecCCc-ccCCcChHHHhcCCCCcEEEecC-CcccCCCCCCcCCCCCcCEE
Q 042011           81 LNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIK-MNGEFPTWLLENNTKLETLFLVN-DSLTGPFRLPIHSHRWLEFL  158 (361)
Q Consensus        81 L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~-l~~~~~~~~~~~~~~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L  158 (361)
                      |++|++ +++.++...+..|..+++|++|++++|+ ++ .++...|.++++|++|++++ |++++..+..|..+++|++|
T Consensus        33 l~~L~l-~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~-~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L  110 (239)
T 2xwt_C           33 TQTLKL-IETHLRTIPSHAFSNLPNISRIYVSIDVTLQ-QLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFL  110 (239)
T ss_dssp             CCEEEE-ESCCCSEECTTTTTTCTTCCEEEEECCSSCC-EECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTCCEE
T ss_pred             ccEEEE-eCCcceEECHHHccCCCCCcEEeCCCCCCcc-eeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCCEE
Confidence            334444 3334443444567777888888888886 66 55554477888888888887 88876666778888888888


Q ss_pred             EccCCcCCccCChhhhccCCCcc---EEEecCC-ccccccCccccCCCCCC-EEeccCCcCccccchhhhhCCCCCcEEE
Q 042011          159 DISNNNFRCHIPVEIGDILPSLK---FFNISMN-ALDGSIPSSFGNMNFLR-VLDLSNNQLTGEIPEHLAVGCVNLESLA  233 (361)
Q Consensus       159 ~l~~n~l~~~~~~~~~~~l~~L~---~L~L~~n-~l~~~~~~~l~~~~~L~-~L~l~~n~l~~~~~~~~~~~~~~L~~L~  233 (361)
                      ++++|+++ .+|. + ..+++|+   +|++++| .+++..+..|..+++|+ +|++++|.++ .+|...+.. ++|++|+
T Consensus       111 ~l~~n~l~-~lp~-~-~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~-~i~~~~~~~-~~L~~L~  185 (239)
T 2xwt_C          111 GIFNTGLK-MFPD-L-TKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFT-SVQGYAFNG-TKLDAVY  185 (239)
T ss_dssp             EEEEECCC-SCCC-C-TTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCC-EECTTTTTT-CEEEEEE
T ss_pred             eCCCCCCc-cccc-c-ccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCCCc-ccCHhhcCC-CCCCEEE
Confidence            88888887 5765 3 3367777   9999998 88866666788899999 9999999998 888877744 7899999


Q ss_pred             eecCC-CCCcccccccCC-CCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCc
Q 042011          234 LSNNS-LEGHMFSRNFNL-TNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNS  286 (361)
Q Consensus       234 L~~n~-l~~~~~~~~~~~-~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~  286 (361)
                      +++|+ +++..+..+..+ ++|+.|++++|++++. |..  .+++|+.|+++++.
T Consensus       186 L~~n~~l~~i~~~~~~~l~~~L~~L~l~~N~l~~l-~~~--~~~~L~~L~l~~~~  237 (239)
T 2xwt_C          186 LNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVTAL-PSK--GLEHLKELIARNTW  237 (239)
T ss_dssp             CTTCTTCCEECTTTTTTCSBCCSEEECTTCCCCCC-CCT--TCTTCSEEECTTC-
T ss_pred             cCCCCCcccCCHHHhhccccCCcEEECCCCccccC-Chh--HhccCceeeccCcc
Confidence            99995 888777788888 8999999999999854 433  56789999988763

>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=99.91  E-value=1.2e-24  Score=195.66  Aligned_cols=211  Identities=18%  Similarity=0.179  Sum_probs=131.4

Q ss_pred             cccEEeccCCCCCCCC-CchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCC-cccC-CCCCCcCCCCCcC
Q 042011           80 QLNSLSLSSDYGDGFI-FPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVND-SLTG-PFRLPIHSHRWLE  156 (361)
Q Consensus        80 ~L~~L~l~~~~~~~~~-~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n-~l~~-~~~~~~~~l~~L~  156 (361)
                      +|++|++ +++.+.+. .+..+..+++|++|++++|.+++..+.. +..+++|++|++++| .+++ ..+..+..+++|+
T Consensus        94 ~L~~L~L-~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~-l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~  171 (336)
T 2ast_B           94 RVQHMDL-SNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNT-LAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLD  171 (336)
T ss_dssp             CCCEEEC-TTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHH-HTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCC
T ss_pred             CCCEEEc-cCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHHHHHH-HhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCC
Confidence            4444444 33333322 3445556666666666666665444444 455666666666666 4443 1344455666777


Q ss_pred             EEEccCC-cCCcc-CChhhhccCC-CccEEEecCC--ccc-cccCccccCCCCCCEEeccCCc-CccccchhhhhCCCCC
Q 042011          157 FLDISNN-NFRCH-IPVEIGDILP-SLKFFNISMN--ALD-GSIPSSFGNMNFLRVLDLSNNQ-LTGEIPEHLAVGCVNL  229 (361)
Q Consensus       157 ~L~l~~n-~l~~~-~~~~~~~~l~-~L~~L~L~~n--~l~-~~~~~~l~~~~~L~~L~l~~n~-l~~~~~~~~~~~~~~L  229 (361)
                      +|++++| .+++. ++..+.. ++ +|++|++++|  .++ +.++..+..+++|++|++++|. +++..+..+. .+++|
T Consensus       172 ~L~l~~~~~l~~~~~~~~~~~-l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~l~-~l~~L  249 (336)
T 2ast_B          172 ELNLSWCFDFTEKHVQVAVAH-VSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFF-QLNYL  249 (336)
T ss_dssp             EEECCCCTTCCHHHHHHHHHH-SCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGG-GCTTC
T ss_pred             EEcCCCCCCcChHHHHHHHHh-cccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCCCcCCHHHHHHHh-CCCCC
Confidence            7777777 66532 3333333 67 7888888877  343 3455566677888888888887 5545555554 67888


Q ss_pred             cEEEeecCC-CCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCC
Q 042011          230 ESLALSNNS-LEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSP  297 (361)
Q Consensus       230 ~~L~L~~n~-l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~  297 (361)
                      ++|++++|. +.......+..+++|+.|++++| +.......+.  .+++.|++++|++++..|..+..
T Consensus       250 ~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~-i~~~~~~~l~--~~l~~L~l~~n~l~~~~~~~~~~  315 (336)
T 2ast_B          250 QHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI-VPDGTLQLLK--EALPHLQINCSHFTTIARPTIGN  315 (336)
T ss_dssp             CEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS-SCTTCHHHHH--HHSTTSEESCCCSCCTTCSSCSS
T ss_pred             CEeeCCCCCCCCHHHHHHHhcCCCCCEEeccCc-cCHHHHHHHH--hhCcceEEecccCccccCCcccc
Confidence            888888884 33333335677889999999988 5543333332  23566668999999888876654

>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=99.90  E-value=6e-23  Score=176.88  Aligned_cols=180  Identities=23%  Similarity=0.197  Sum_probs=138.5

Q ss_pred             cccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEE
Q 042011           80 QLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLD  159 (361)
Q Consensus        80 ~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~  159 (361)
                      ..+++++ .++.+.. +|..+.  +.++.|++++|.+++..+.. +.++++|++|++++|.+.+..+..+..+++|++|+
T Consensus        15 ~~~~l~~-~~~~l~~-~p~~~~--~~l~~L~L~~n~l~~~~~~~-~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~   89 (251)
T 3m19_A           15 GKKEVDC-QGKSLDS-VPSGIP--ADTEKLDLQSTGLATLSDAT-FRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLG   89 (251)
T ss_dssp             GGTEEEC-TTCCCSS-CCSCCC--TTCCEEECTTSCCCCCCTTT-TTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CCeEEec-CCCCccc-cCCCCC--CCCCEEEccCCCcCccCHhH-hcCcccCCEEECCCCcCCccCHhHhccCCcCCEEE
Confidence            6788999 8888874 444443  68999999999998544444 88999999999999999988888899999999999


Q ss_pred             ccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCC
Q 042011          160 ISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL  239 (361)
Q Consensus       160 l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l  239 (361)
                      +++|+++ .++...+..+++|++|++++|.+++..+..|..+++|++|++++|.++ .++...+..+++|++|++++|++
T Consensus        90 L~~n~l~-~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~-~~~~~~~~~l~~L~~L~L~~N~l  167 (251)
T 3m19_A           90 LANNQLA-SLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQ-SIPAGAFDKLTNLQTLSLSTNQL  167 (251)
T ss_dssp             CTTSCCC-CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCC
T ss_pred             CCCCccc-ccChhHhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcCCcCC-ccCHHHcCcCcCCCEEECCCCcC
Confidence            9999998 666666556888888888888888555556677778888888888777 55554444667777777777777


Q ss_pred             CCcccccccCCCCCCEEeccCCcCCcc
Q 042011          240 EGHMFSRNFNLTNLEWLQLGGNRFVGE  266 (361)
Q Consensus       240 ~~~~~~~~~~~~~L~~L~L~~n~l~~~  266 (361)
                      ++..+..+..+++|+.|++++|++.+.
T Consensus       168 ~~~~~~~~~~l~~L~~L~l~~N~~~c~  194 (251)
T 3m19_A          168 QSVPHGAFDRLGKLQTITLFGNQFDCS  194 (251)
T ss_dssp             SCCCTTTTTTCTTCCEEECCSCCBCTT
T ss_pred             CccCHHHHhCCCCCCEEEeeCCceeCC
Confidence            766555666667777777777766543

>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=99.90  E-value=9.7e-25  Score=196.29  Aligned_cols=252  Identities=18%  Similarity=0.200  Sum_probs=193.2

Q ss_pred             CCCcEEEccCCCcccccccccccccCc--ccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCC-cChHHHhcC
Q 042011           52 SRLKIFYADNNELNAEITQSHSLIAPN--FQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGE-FPTWLLENN  128 (361)
Q Consensus        52 ~~L~~L~l~~n~~~~~~~~~~~~~~~~--~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~-~~~~~~~~~  128 (361)
                      ..++.++++++.+...   .   +...  .+++.+++ .++.+.+..+. +..+++|++|++++|.+++. ++.. +..+
T Consensus        47 ~~~~~l~l~~~~~~~~---~---~~~~~~~~l~~L~l-~~n~l~~~~~~-~~~~~~L~~L~L~~~~l~~~~~~~~-~~~~  117 (336)
T 2ast_B           47 SLWQTLDLTGKNLHPD---V---TGRLLSQGVIAFRC-PRSFMDQPLAE-HFSPFRVQHMDLSNSVIEVSTLHGI-LSQC  117 (336)
T ss_dssp             TTSSEEECTTCBCCHH---H---HHHHHHTTCSEEEC-TTCEECSCCCS-CCCCBCCCEEECTTCEECHHHHHHH-HTTB
T ss_pred             hhheeeccccccCCHH---H---HHhhhhccceEEEc-CCccccccchh-hccCCCCCEEEccCCCcCHHHHHHH-HhhC
Confidence            3477888888776521   1   2222  47888888 77777766554 55789999999999998754 4444 7889


Q ss_pred             CCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCC-cCCcc-CChhhhccCCCccEEEecCC-ccccc-cCccccCCC-C
Q 042011          129 TKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNN-NFRCH-IPVEIGDILPSLKFFNISMN-ALDGS-IPSSFGNMN-F  203 (361)
Q Consensus       129 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~-~~~~~~~~l~~L~~L~L~~n-~l~~~-~~~~l~~~~-~  203 (361)
                      ++|++|++++|.+++..+..+..+++|++|++++| .+++. ++..+. .+++|++|++++| .+++. ++..+..++ +
T Consensus       118 ~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~-~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~  196 (336)
T 2ast_B          118 SKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLS-SCSRLDELNLSWCFDFTEKHVQVAVAHVSET  196 (336)
T ss_dssp             CCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHH-HCTTCCEEECCCCTTCCHHHHHHHHHHSCTT
T ss_pred             CCCCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHh-cCCCCCEEcCCCCCCcChHHHHHHHHhcccC
Confidence            99999999999988777778888999999999999 67642 444344 4899999999999 88753 566788899 9


Q ss_pred             CCEEeccCC--cCc-cccchhhhhCCCCCcEEEeecCC-CCCcccccccCCCCCCEEeccCCc-CCccchhhhhcCCCCC
Q 042011          204 LRVLDLSNN--QLT-GEIPEHLAVGCVNLESLALSNNS-LEGHMFSRNFNLTNLEWLQLGGNR-FVGEIPQSLSKCSSLE  278 (361)
Q Consensus       204 L~~L~l~~n--~l~-~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~~~~~~l~~L~  278 (361)
                      |++|++++|  .++ +.++..+. .+++|++|++++|. +++..+..+..+++|+.|++++|. +.......+..+++|+
T Consensus       197 L~~L~l~~~~~~~~~~~l~~~~~-~~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~  275 (336)
T 2ast_B          197 ITQLNLSGYRKNLQKSDLSTLVR-RCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLK  275 (336)
T ss_dssp             CCEEECCSCGGGSCHHHHHHHHH-HCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCC
T ss_pred             CCEEEeCCCcccCCHHHHHHHHh-hCCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEeeCCCCCCCCHHHHHHHhcCCCCC
Confidence            999999999  454 24555544 79999999999999 776677788899999999999995 4333334688899999


Q ss_pred             EEECcCCcccccCCCCCCCc-CcceeeccccccccCCcccc
Q 042011          279 GLYLNNNSLSGNVNVPSSPA-NTLFNLSQNSRRFTSSISHS  318 (361)
Q Consensus       279 ~L~l~~N~l~~~~~~~~~~~-~~L~~l~l~~N~~~~~~~~~  318 (361)
                      .|++++| +++   ..+..+ ..+..|++++|++++..|..
T Consensus       276 ~L~l~~~-i~~---~~~~~l~~~l~~L~l~~n~l~~~~~~~  312 (336)
T 2ast_B          276 TLQVFGI-VPD---GTLQLLKEALPHLQINCSHFTTIARPT  312 (336)
T ss_dssp             EEECTTS-SCT---TCHHHHHHHSTTSEESCCCSCCTTCSS
T ss_pred             EEeccCc-cCH---HHHHHHHhhCcceEEecccCccccCCc
Confidence            9999999 432   234444 34778889999999887754

>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=99.90  E-value=1.1e-22  Score=180.62  Aligned_cols=208  Identities=17%  Similarity=0.230  Sum_probs=165.3

Q ss_pred             eCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEecc
Q 042011            8 DVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLS   87 (361)
Q Consensus         8 ~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~   87 (361)
                      .+..+.++ .+.  .+..+++|++|++++|.++ .++  .+..+++|++|++++|.+++..+     +..+.+|++|++ 
T Consensus        25 ~l~~~~~~-~~~--~~~~l~~L~~L~l~~~~i~-~l~--~~~~l~~L~~L~L~~n~i~~~~~-----~~~l~~L~~L~L-   92 (308)
T 1h6u_A           25 AAGKSNVT-DTV--TQADLDGITTLSAFGTGVT-TIE--GVQYLNNLIGLELKDNQITDLAP-----LKNLTKITELEL-   92 (308)
T ss_dssp             HTTCSSTT-SEE--CHHHHHTCCEEECTTSCCC-CCT--TGGGCTTCCEEECCSSCCCCCGG-----GTTCCSCCEEEC-
T ss_pred             HhCCCCcC-cee--cHHHcCCcCEEEeeCCCcc-Cch--hhhccCCCCEEEccCCcCCCChh-----HccCCCCCEEEc-
Confidence            34555555 322  2567889999999999887 555  57888999999999998876443     456678999999 


Q ss_pred             CCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCc
Q 042011           88 SDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRC  167 (361)
Q Consensus        88 ~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~  167 (361)
                      ++|.+.+.  ..+..+++|++|++++|.++ .++.  +..+++|++|++++|.+.+..+  +..+++|++|++++|+++ 
T Consensus        93 ~~n~l~~~--~~~~~l~~L~~L~l~~n~l~-~~~~--l~~l~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~l~~n~l~-  164 (308)
T 1h6u_A           93 SGNPLKNV--SAIAGLQSIKTLDLTSTQIT-DVTP--LAGLSNLQVLYLDLNQITNISP--LAGLTNLQYLSIGNAQVS-  164 (308)
T ss_dssp             CSCCCSCC--GGGTTCTTCCEEECTTSCCC-CCGG--GTTCTTCCEEECCSSCCCCCGG--GGGCTTCCEEECCSSCCC-
T ss_pred             cCCcCCCc--hhhcCCCCCCEEECCCCCCC-Cchh--hcCCCCCCEEECCCCccCcCcc--ccCCCCccEEEccCCcCC-
Confidence            88888754  36888999999999999998 4554  7889999999999999986443  788899999999999998 


Q ss_pred             cCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCc
Q 042011          168 HIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGH  242 (361)
Q Consensus       168 ~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~  242 (361)
                      .++. + ..+++|+.|++++|.+++..+  +..+++|++|++++|.+. .++. + ..+++|+.|++++|.+++.
T Consensus       165 ~~~~-l-~~l~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~L~~N~l~-~~~~-l-~~l~~L~~L~l~~N~i~~~  232 (308)
T 1h6u_A          165 DLTP-L-ANLSKLTTLKADDNKISDISP--LASLPNLIEVHLKNNQIS-DVSP-L-ANTSNLFIVTLTNQTITNQ  232 (308)
T ss_dssp             CCGG-G-TTCTTCCEEECCSSCCCCCGG--GGGCTTCCEEECTTSCCC-BCGG-G-TTCTTCCEEEEEEEEEECC
T ss_pred             CChh-h-cCCCCCCEEECCCCccCcChh--hcCCCCCCEEEccCCccC-cccc-c-cCCCCCCEEEccCCeeecC
Confidence            5655 3 448999999999999984433  788999999999999998 5553 3 4799999999999998763

>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=99.89  E-value=5.6e-25  Score=212.84  Aligned_cols=306  Identities=16%  Similarity=0.089  Sum_probs=146.2

Q ss_pred             CCCCCeEeCCCccccCcCChhhhh-ccCCCCeEeCcCC-ccccc-CCcccccCCCCCcEEEccCCCccccccccccccc-
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLV-HLTSIEELMLSNN-HFQIP-ISLEPLFNHSRLKIFYADNNELNAEITQSHSLIA-   76 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~-~l~~L~~L~Ls~n-~l~~~-~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~-   76 (361)
                      +++|++|++++|.+++..+. .+. .+++|++|++++| .++.. ++ ..+.++++|++|++++|.+++.....+..+. 
T Consensus       104 ~~~L~~L~L~~~~~~~~~~~-~l~~~~~~L~~L~L~~~~~~~~~~l~-~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~  181 (594)
T 2p1m_B          104 YTWLEEIRLKRMVVTDDCLE-LIAKSFKNFKVLVLSSCEGFSTDGLA-AIAATCRNLKELDLRESDVDDVSGHWLSHFPD  181 (594)
T ss_dssp             CTTCCEEEEESCBCCHHHHH-HHHHHCTTCCEEEEESCEEEEHHHHH-HHHHHCTTCCEEECTTCEEECCCGGGGGGSCT
T ss_pred             CCCCCeEEeeCcEEcHHHHH-HHHHhCCCCcEEeCCCcCCCCHHHHH-HHHHhCCCCCEEeCcCCccCCcchHHHHHHhh
Confidence            35677777777776644444 333 5777777777777 44321 22 2334677777777777776654433322222 


Q ss_pred             CcccccEEeccCCCC--CCCC-CchhhcCCCCccEEEecCCc-ccCCcChHHHhcCCCCcEEEecCCc------------
Q 042011           77 PNFQLNSLSLSSDYG--DGFI-FPKFLYHQHDLALVDLSHIK-MNGEFPTWLLENNTKLETLFLVNDS------------  140 (361)
Q Consensus        77 ~~~~L~~L~l~~~~~--~~~~-~~~~l~~l~~L~~L~l~~n~-l~~~~~~~~~~~~~~L~~L~l~~n~------------  140 (361)
                      .+.+|++|++ +.+.  +... ....+..+++|++|++++|. +. .++.. +..+++|++|+++.+.            
T Consensus       182 ~~~~L~~L~l-~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~-~l~~~-~~~~~~L~~L~l~~~~~~~~~~~~~~l~  258 (594)
T 2p1m_B          182 TYTSLVSLNI-SCLASEVSFSALERLVTRCPNLKSLKLNRAVPLE-KLATL-LQRAPQLEELGTGGYTAEVRPDVYSGLS  258 (594)
T ss_dssp             TCCCCCEEEC-TTCCSCCCHHHHHHHHHHCTTCCEEECCTTSCHH-HHHHH-HHHCTTCSEEECSBCCCCCCHHHHHHHH
T ss_pred             cCCcCcEEEe-cccCCcCCHHHHHHHHHhCCCCcEEecCCCCcHH-HHHHH-HhcCCcceEcccccccCccchhhHHHHH
Confidence            4557777777 5554  2111 11122345777777777662 22 22222 3444455555433221            


Q ss_pred             --------------ccCC----CCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCC--------------
Q 042011          141 --------------LTGP----FRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMN--------------  188 (361)
Q Consensus       141 --------------l~~~----~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n--------------  188 (361)
                                    +...    ++..+..+++|++|++++|.+++.....+...+++|++|++++|              
T Consensus       259 ~~l~~~~~L~~Ls~~~~~~~~~l~~~~~~~~~L~~L~L~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~~~~l~~l~~~~~  338 (594)
T 2p1m_B          259 VALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDYIEDAGLEVLASTCK  338 (594)
T ss_dssp             HHHHTCTTCCEEECCBTCCGGGGGGGHHHHTTCCEEECTTCCCCHHHHHHHHTTCTTCCEEEEEGGGHHHHHHHHHHHCT
T ss_pred             HHHhcCCCcccccCCcccchhhHHHHHHhhCCCCEEEccCCCCCHHHHHHHHhcCCCcCEEeCcCccCHHHHHHHHHhCC
Confidence                          1000    11111234556666666655442222222223445555555444              


Q ss_pred             -------------------ccccccCccc-cCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEee--c----CCCCCc
Q 042011          189 -------------------ALDGSIPSSF-GNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALS--N----NSLEGH  242 (361)
Q Consensus       189 -------------------~l~~~~~~~l-~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~--~----n~l~~~  242 (361)
                                         .+++.....+ ..+++|++|.++.|.+++.....+...+++|+.|+++  +    +.++..
T Consensus       339 ~L~~L~L~~~~~~g~~~~~~l~~~~l~~l~~~~~~L~~L~~~~~~l~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~  418 (594)
T 2p1m_B          339 DLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLE  418 (594)
T ss_dssp             TCCEEEEECSCTTCSSCSSCCCHHHHHHHHHHCTTCCEEEEEESCCCHHHHHHHHHHCTTCCEEEEEESSTTCCCTTTCC
T ss_pred             CCCEEEEecCcccccccCCCCCHHHHHHHHHhchhHHHHHHhcCCcCHHHHHHHHhhCCCcceeEeecccCCCcccccCC
Confidence                               1111100011 1245555555555555433333343346666777666  2    334321


Q ss_pred             -----ccccccCCCCCCEEeccCCcCCccchhhhhc-CCCCCEEECcCCcccccCCCCC-CCcCcceeecccccccc
Q 042011          243 -----MFSRNFNLTNLEWLQLGGNRFVGEIPQSLSK-CSSLEGLYLNNNSLSGNVNVPS-SPANTLFNLSQNSRRFT  312 (361)
Q Consensus       243 -----~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~-l~~L~~L~l~~N~l~~~~~~~~-~~~~~L~~l~l~~N~~~  312 (361)
                           .+..+..+++|+.|++++ .+++..+..+.. +++|+.|++++|.+++..+..+ ..+++|++|++++|+++
T Consensus       419 ~~~~~~~~l~~~~~~L~~L~L~~-~l~~~~~~~l~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~L~~L~L~~n~~~  494 (594)
T 2p1m_B          419 PLDIGFGAIVEHCKDLRRLSLSG-LLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMHHVLSGCDSLRKLEIRDCPFG  494 (594)
T ss_dssp             CTHHHHHHHHHHCTTCCEEECCS-SCCHHHHHHHHHHCTTCCEEEEESCCSSHHHHHHHHHHCTTCCEEEEESCSCC
T ss_pred             chhhHHHHHHhhCCCccEEeecC-cccHHHHHHHHHhchhccEeeccCCCCcHHHHHHHHhcCCCcCEEECcCCCCc
Confidence                 111233455555555544 444333334433 5566666666666554332222 34556666666666653

>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=99.89  E-value=2e-22  Score=182.20  Aligned_cols=242  Identities=16%  Similarity=0.101  Sum_probs=169.5

Q ss_pred             CeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEE
Q 042011            5 RILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSL   84 (361)
Q Consensus         5 ~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L   84 (361)
                      ++++-++++++ .||. .+  .+++++|+|++|+|+ .++..+|.++++|++|+|++|.+.+.++..  .|..+.+++++
T Consensus        12 ~~v~C~~~~Lt-~iP~-~l--~~~l~~L~Ls~N~i~-~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~--~f~~L~~l~~~   84 (350)
T 4ay9_X           12 RVFLCQESKVT-EIPS-DL--PRNAIELRFVLTKLR-VIQKGAFSGFGDLEKIEISQNDVLEVIEAD--VFSNLPKLHEI   84 (350)
T ss_dssp             TEEEEESTTCC-SCCT-TC--CTTCSEEEEESCCCS-EECTTSSTTCTTCCEEEEECCTTCCEECTT--SBCSCTTCCEE
T ss_pred             CEEEecCCCCC-ccCc-Cc--CCCCCEEEccCCcCC-CcCHHHHcCCCCCCEEECcCCCCCCccChh--Hhhcchhhhhh
Confidence            56788888998 8997 33  468999999999998 788678999999999999999986544432  14455566654


Q ss_pred             eccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecC-CcccCCCCCCcCCCC-CcCEEEccC
Q 042011           85 SLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVN-DSLTGPFRLPIHSHR-WLEFLDISN  162 (361)
Q Consensus        85 ~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~-n~l~~~~~~~~~~l~-~L~~L~l~~  162 (361)
                      ....+|.+....+..|..+++|++|++++|.+. .++...+....++..+++.+ +++....+..|..+. .++.|++++
T Consensus        85 l~~~~N~l~~l~~~~f~~l~~L~~L~l~~n~l~-~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~  163 (350)
T 4ay9_X           85 RIEKANNLLYINPEAFQNLPNLQYLLISNTGIK-HLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNK  163 (350)
T ss_dssp             EEEEETTCCEECTTSBCCCTTCCEEEEEEECCS-SCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCS
T ss_pred             hcccCCcccccCchhhhhccccccccccccccc-cCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhcccc
Confidence            332677888777788888888888888888887 44443355566677777755 556555555666554 577788888


Q ss_pred             CcCCccCChhhhccCCCccEEEecC-CccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCC
Q 042011          163 NNFRCHIPVEIGDILPSLKFFNISM-NALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEG  241 (361)
Q Consensus       163 n~l~~~~~~~~~~~l~~L~~L~L~~-n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~  241 (361)
                      |+++ .++...+. ..+|+++++++ |.++...+..|..+++|++|++++|+++ .+|...   +.+|+.|.+.++.--.
T Consensus       164 N~i~-~i~~~~f~-~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~l~-~lp~~~---~~~L~~L~~l~~~~l~  237 (350)
T 4ay9_X          164 NGIQ-EIHNSAFN-GTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIH-SLPSYG---LENLKKLRARSTYNLK  237 (350)
T ss_dssp             SCCC-EECTTSST-TEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTSCCC-CCCSSS---CTTCCEEECTTCTTCC
T ss_pred             cccc-CCChhhcc-ccchhHHhhccCCcccCCCHHHhccCcccchhhcCCCCcC-ccChhh---hccchHhhhccCCCcC
Confidence            8887 77777765 56788888864 5555333456777888888888888887 777643   4556666655543222


Q ss_pred             cccccccCCCCCCEEeccCC
Q 042011          242 HMFSRNFNLTNLEWLQLGGN  261 (361)
Q Consensus       242 ~~~~~~~~~~~L~~L~L~~n  261 (361)
                      ..| .+..+++|+.+++.++
T Consensus       238 ~lP-~l~~l~~L~~l~l~~~  256 (350)
T 4ay9_X          238 KLP-TLEKLVALMEASLTYP  256 (350)
T ss_dssp             CCC-CTTTCCSCCEEECSCH
T ss_pred             cCC-CchhCcChhhCcCCCC
Confidence            233 3567777777777654

>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=99.88  E-value=3.1e-22  Score=168.81  Aligned_cols=165  Identities=22%  Similarity=0.204  Sum_probs=136.7

Q ss_pred             cCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccC-ccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEE
Q 042011          155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIP-SSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLA  233 (361)
Q Consensus       155 L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~-~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~  233 (361)
                      -+.+++++|.++ .+|..+.   +.+++|++++|.+++..+ ..|..+++|++|++++|.++ .++...+..+++|++|+
T Consensus        13 ~~~l~~s~n~l~-~iP~~~~---~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~-~i~~~~~~~l~~L~~L~   87 (220)
T 2v70_A           13 GTTVDCSNQKLN-KIPEHIP---QYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKIT-DIEEGAFEGASGVNEIL   87 (220)
T ss_dssp             TTEEECCSSCCS-SCCSCCC---TTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCC-EECTTTTTTCTTCCEEE
T ss_pred             CCEeEeCCCCcc-cCccCCC---CCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCC-EECHHHhCCCCCCCEEE
Confidence            357888888887 7776554   367888888888885544 45788888999999999888 66665555888999999


Q ss_pred             eecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccC
Q 042011          234 LSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTS  313 (361)
Q Consensus       234 L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~  313 (361)
                      +++|.+++..+..+..+++|+.|++++|++++..|..|..+++|+.|++++|++++..|..|..+++|+.|++++|+|.|
T Consensus        88 Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~c  167 (220)
T 2v70_A           88 LTSNRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNLLANPFNC  167 (220)
T ss_dssp             CCSSCCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEEECCSCCEEC
T ss_pred             CCCCccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEEEecCcCCcC
Confidence            99999988878888889999999999999998888889999999999999999998888889999999999999999999


Q ss_pred             Ccccccccccc
Q 042011          314 SISHSHLLNLH  324 (361)
Q Consensus       314 ~~~~~~~~~~~  324 (361)
                      +++..++..|.
T Consensus       168 ~c~l~~l~~~~  178 (220)
T 2v70_A          168 NCYLAWLGEWL  178 (220)
T ss_dssp             SGGGHHHHHHH
T ss_pred             CCchHHHHHHH
Confidence            88877665543

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=99.88  E-value=2.4e-24  Score=208.39  Aligned_cols=304  Identities=16%  Similarity=0.118  Sum_probs=185.0

Q ss_pred             CCCCCeEeCCCc-cccCc-CChhhhhccCCCCeEeCcCCcccccCCc---ccccCCCCCcEEEccCCC--cccccccccc
Q 042011            1 MTSLRILDVSSN-QLTGS-ISSSPLVHLTSIEELMLSNNHFQIPISL---EPLFNHSRLKIFYADNNE--LNAEITQSHS   73 (361)
Q Consensus         1 l~~L~~L~L~~n-~i~~~-i~~~~~~~l~~L~~L~Ls~n~l~~~~~~---~~~~~l~~L~~L~l~~n~--~~~~~~~~~~   73 (361)
                      +++|++|++++| .+++. ++. .+.++++|++|++++|.+++..+.   .....+++|++|++++|.  +..   ..+.
T Consensus       129 ~~~L~~L~L~~~~~~~~~~l~~-~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~---~~l~  204 (594)
T 2p1m_B          129 FKNFKVLVLSSCEGFSTDGLAA-IAATCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSF---SALE  204 (594)
T ss_dssp             CTTCCEEEEESCEEEEHHHHHH-HHHHCTTCCEEECTTCEEECCCGGGGGGSCTTCCCCCEEECTTCCSCCCH---HHHH
T ss_pred             CCCCcEEeCCCcCCCCHHHHHH-HHHhCCCCCEEeCcCCccCCcchHHHHHHhhcCCcCcEEEecccCCcCCH---HHHH
Confidence            467788888777 45422 333 455777888888888776532210   122356677777777775  211   1100


Q ss_pred             c-ccCcccccEEeccCCC-CCC-------------------------------------------------C----CCch
Q 042011           74 L-IAPNFQLNSLSLSSDY-GDG-------------------------------------------------F----IFPK   98 (361)
Q Consensus        74 ~-~~~~~~L~~L~l~~~~-~~~-------------------------------------------------~----~~~~   98 (361)
                      . ...+.+|++|++ .++ .+.                                                 .    ..+.
T Consensus       205 ~l~~~~~~L~~L~L-~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~l~~~l~~~~~L~~Ls~~~~~~~~~l~~  283 (594)
T 2p1m_B          205 RLVTRCPNLKSLKL-NRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPA  283 (594)
T ss_dssp             HHHHHCTTCCEEEC-CTTSCHHHHHHHHHHCTTCSEEECSBCCCCCCHHHHHHHHHHHHTCTTCCEEECCBTCCGGGGGG
T ss_pred             HHHHhCCCCcEEec-CCCCcHHHHHHHHhcCCcceEcccccccCccchhhHHHHHHHHhcCCCcccccCCcccchhhHHH
Confidence            0 112345666666 333 111                                                 0    1122


Q ss_pred             hhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCC-CCCCcCCCCCcCEEEcc---------CCcCCcc
Q 042011           99 FLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGP-FRLPIHSHRWLEFLDIS---------NNNFRCH  168 (361)
Q Consensus        99 ~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~-~~~~~~~l~~L~~L~l~---------~n~l~~~  168 (361)
                      .+..+++|++|++++|.+++.....++..+++|++|++++| +... .+.....+++|++|++.         .+.+++.
T Consensus       284 ~~~~~~~L~~L~L~~~~l~~~~l~~~~~~~~~L~~L~l~~~-~~~~~l~~l~~~~~~L~~L~L~~~~~~g~~~~~~l~~~  362 (594)
T 2p1m_B          284 VYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDY-IEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQ  362 (594)
T ss_dssp             GHHHHTTCCEEECTTCCCCHHHHHHHHTTCTTCCEEEEEGG-GHHHHHHHHHHHCTTCCEEEEECSCTTCSSCSSCCCHH
T ss_pred             HHHhhCCCCEEEccCCCCCHHHHHHHHhcCCCcCEEeCcCc-cCHHHHHHHHHhCCCCCEEEEecCcccccccCCCCCHH
Confidence            22245677777777777653333333556777777777776 3211 11112246778888773         3444432


Q ss_pred             CChhhhccCCCccEEEecCCccccccCcccc-CCCCCCEEecc--C----CcCccccc-----hhhhhCCCCCcEEEeec
Q 042011          169 IPVEIGDILPSLKFFNISMNALDGSIPSSFG-NMNFLRVLDLS--N----NQLTGEIP-----EHLAVGCVNLESLALSN  236 (361)
Q Consensus       169 ~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~-~~~~L~~L~l~--~----n~l~~~~~-----~~~~~~~~~L~~L~L~~  236 (361)
                      ....+...+++|+.|.++.|.+++.....+. .+++|++|+++  +    +.++ ..|     ..++..+++|+.|++++
T Consensus       363 ~l~~l~~~~~~L~~L~~~~~~l~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~-~~~~~~~~~~l~~~~~~L~~L~L~~  441 (594)
T 2p1m_B          363 GLVSVSMGCPKLESVLYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAPDYLT-LEPLDIGFGAIVEHCKDLRRLSLSG  441 (594)
T ss_dssp             HHHHHHHHCTTCCEEEEEESCCCHHHHHHHHHHCTTCCEEEEEESSTTCCCTTT-CCCTHHHHHHHHHHCTTCCEEECCS
T ss_pred             HHHHHHHhchhHHHHHHhcCCcCHHHHHHHHhhCCCcceeEeecccCCCccccc-CCchhhHHHHHHhhCCCccEEeecC
Confidence            2333344478899998888888755444443 57889999998  3    4454 222     12234688999999977


Q ss_pred             CCCCCcccccccC-CCCCCEEeccCCcCCccchhhh-hcCCCCCEEECcCCcccccCCC-CCCCcCcceeecccccccc
Q 042011          237 NSLEGHMFSRNFN-LTNLEWLQLGGNRFVGEIPQSL-SKCSSLEGLYLNNNSLSGNVNV-PSSPANTLFNLSQNSRRFT  312 (361)
Q Consensus       237 n~l~~~~~~~~~~-~~~L~~L~L~~n~l~~~~~~~~-~~l~~L~~L~l~~N~l~~~~~~-~~~~~~~L~~l~l~~N~~~  312 (361)
                       .+++.....+.. +++|+.|++++|.+++..+..+ ..+++|+.|++++|.+++.... ....+++|++|++++|+++
T Consensus       442 -~l~~~~~~~l~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~l~~~~~~  519 (594)
T 2p1m_B          442 -LLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMHHVLSGCDSLRKLEIRDCPFGDKALLANASKLETMRSLWMSSCSVS  519 (594)
T ss_dssp             -SCCHHHHHHHHHHCTTCCEEEEESCCSSHHHHHHHHHHCTTCCEEEEESCSCCHHHHHHTGGGGGGSSEEEEESSCCB
T ss_pred             -cccHHHHHHHHHhchhccEeeccCCCCcHHHHHHHHhcCCCcCEEECcCCCCcHHHHHHHHHhCCCCCEEeeeCCCCC
Confidence             666544455544 7889999999999876655555 6689999999999998654333 3455789999999998874

>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=99.88  E-value=5.6e-22  Score=167.21  Aligned_cols=163  Identities=22%  Similarity=0.261  Sum_probs=129.3

Q ss_pred             CEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEee
Q 042011          156 EFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALS  235 (361)
Q Consensus       156 ~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~  235 (361)
                      +.++.+++.++ .+|..+.   ++++.|++++|.+++..+..|..+++|++|++++|.++ .++...+..+++|++|+++
T Consensus        14 ~~v~c~~~~l~-~iP~~l~---~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~-~~~~~~~~~l~~L~~L~Ls   88 (220)
T 2v9t_B           14 NIVDCRGKGLT-EIPTNLP---ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQIS-ELAPDAFQGLRSLNSLVLY   88 (220)
T ss_dssp             TEEECTTSCCS-SCCSSCC---TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCC-EECTTTTTTCSSCCEEECC
T ss_pred             CEEEcCCCCcC-cCCCccC---cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCC-CcCHHHhhCCcCCCEEECC
Confidence            56777778777 7776553   47888888888888666667888888888888888887 4533334478888888888


Q ss_pred             cCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCc
Q 042011          236 NNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSI  315 (361)
Q Consensus       236 ~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~  315 (361)
                      +|+++...+..|..+++|+.|++++|++++..+..|..+++|+.|++++|++++..+..|..+++|++|++++|+|.|++
T Consensus        89 ~N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~c~c  168 (220)
T 2v9t_B           89 GNKITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQNPFICDC  168 (220)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCEECSG
T ss_pred             CCcCCccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEeCCCCcCCCC
Confidence            88888776667788888888888888888777888888889999999999988877777888888999999999998888


Q ss_pred             cccccccc
Q 042011          316 SHSHLLNL  323 (361)
Q Consensus       316 ~~~~~~~~  323 (361)
                      ...++..|
T Consensus       169 ~l~~l~~~  176 (220)
T 2v9t_B          169 HLKWLADY  176 (220)
T ss_dssp             GGHHHHHH
T ss_pred             ccHHHHHH
Confidence            76666544

>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=99.88  E-value=7.8e-22  Score=178.31  Aligned_cols=200  Identities=16%  Similarity=0.062  Sum_probs=89.8

Q ss_pred             CeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCC-CchhhcCCCCccE
Q 042011           30 EELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFI-FPKFLYHQHDLAL  108 (361)
Q Consensus        30 ~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~~~l~~l~~L~~  108 (361)
                      ++++.++++++ .+|. .+  .+++++|+|++|+++...+..   |..+.+|++|++ ++|.+.+. .+..|.+++++++
T Consensus        12 ~~v~C~~~~Lt-~iP~-~l--~~~l~~L~Ls~N~i~~i~~~~---f~~l~~L~~L~L-s~N~i~~~i~~~~f~~L~~l~~   83 (350)
T 4ay9_X           12 RVFLCQESKVT-EIPS-DL--PRNAIELRFVLTKLRVIQKGA---FSGFGDLEKIEI-SQNDVLEVIEADVFSNLPKLHE   83 (350)
T ss_dssp             TEEEEESTTCC-SCCT-TC--CTTCSEEEEESCCCSEECTTS---STTCTTCCEEEE-ECCTTCCEECTTSBCSCTTCCE
T ss_pred             CEEEecCCCCC-ccCc-Cc--CCCCCEEEccCCcCCCcCHHH---HcCCCCCCEEEC-cCCCCCCccChhHhhcchhhhh
Confidence            56778888887 7773 33  356788888888776443322   333444555555 44443322 2233444444333


Q ss_pred             -EEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccC-CcCCccCChhhhccC-CCccEEEe
Q 042011          109 -VDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISN-NNFRCHIPVEIGDIL-PSLKFFNI  185 (361)
Q Consensus       109 -L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~-n~l~~~~~~~~~~~l-~~L~~L~L  185 (361)
                       +.++.|+++ .++...|.++++|++|++++|++....+..+....++..+++.+ +.+. .++...+..+ ..++.|++
T Consensus        84 ~l~~~~N~l~-~l~~~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~-~l~~~~f~~~~~~l~~L~L  161 (350)
T 4ay9_X           84 IRIEKANNLL-YINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIH-TIERNSFVGLSFESVILWL  161 (350)
T ss_dssp             EEEEEETTCC-EECTTSBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCC-EECTTSSTTSBSSCEEEEC
T ss_pred             hhcccCCccc-ccCchhhhhccccccccccccccccCCchhhcccchhhhhhhccccccc-cccccchhhcchhhhhhcc
Confidence             233334444 33222244444455555544444443333333333444444432 2333 3333322222 23444444


Q ss_pred             cCCccccccCccccCCCCCCEEeccC-CcCccccchhhhhCCCCCcEEEeecCCCCC
Q 042011          186 SMNALDGSIPSSFGNMNFLRVLDLSN-NQLTGEIPEHLAVGCVNLESLALSNNSLEG  241 (361)
Q Consensus       186 ~~n~l~~~~~~~l~~~~~L~~L~l~~-n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~  241 (361)
                      ++|.++ .++.......+++++++.+ |.++ .+|...+..+++|++|++++|+++.
T Consensus       162 ~~N~i~-~i~~~~f~~~~L~~l~l~~~n~l~-~i~~~~f~~l~~L~~LdLs~N~l~~  216 (350)
T 4ay9_X          162 NKNGIQ-EIHNSAFNGTQLDELNLSDNNNLE-ELPNDVFHGASGPVILDISRTRIHS  216 (350)
T ss_dssp             CSSCCC-EECTTSSTTEEEEEEECTTCTTCC-CCCTTTTTTEECCSEEECTTSCCCC
T ss_pred             cccccc-CCChhhccccchhHHhhccCCccc-CCCHHHhccCcccchhhcCCCCcCc
Confidence            444444 2222222333444444432 2333 4444443344444444444444444

>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=99.87  E-value=3e-21  Score=163.80  Aligned_cols=164  Identities=20%  Similarity=0.190  Sum_probs=144.5

Q ss_pred             CcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEE
Q 042011          154 WLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLA  233 (361)
Q Consensus       154 ~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~  233 (361)
                      ..+.++.++++++ .+|..+.   ++|++|++++|.+++..+..|..+++|++|++++|.+. .++...+..+++|++|+
T Consensus        20 s~~~v~c~~~~l~-~ip~~~~---~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~-~i~~~~~~~l~~L~~L~   94 (229)
T 3e6j_A           20 SGTTVDCRSKRHA-SVPAGIP---TNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLG-ALPVGVFDSLTQLTVLD   94 (229)
T ss_dssp             ETTEEECTTSCCS-SCCSCCC---TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEE
T ss_pred             eCCEeEccCCCcC-ccCCCCC---CCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCC-CcChhhcccCCCcCEEE
Confidence            4677899999987 8887654   68999999999999877888999999999999999998 88877766899999999


Q ss_pred             eecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccC
Q 042011          234 LSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTS  313 (361)
Q Consensus       234 L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~  313 (361)
                      +++|++++..+..+..+++|+.|++++|+++ .+|..+..+++|+.|++++|++++..+..+..+++|+.|++.+|++.|
T Consensus        95 Ls~N~l~~l~~~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~c  173 (229)
T 3e6j_A           95 LGTNQLTVLPSAVFDRLVHLKELFMCCNKLT-ELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYLFGNPWDC  173 (229)
T ss_dssp             CCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-SCCTTGGGCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECTTSCBCT
T ss_pred             CCCCcCCccChhHhCcchhhCeEeccCCccc-ccCcccccCCCCCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCCccC
Confidence            9999999987778889999999999999999 778889999999999999999998777889999999999999999999


Q ss_pred             Ccc-ccccccc
Q 042011          314 SIS-HSHLLNL  323 (361)
Q Consensus       314 ~~~-~~~~~~~  323 (361)
                      .++ ..++..|
T Consensus       174 ~c~~~~~l~~~  184 (229)
T 3e6j_A          174 ECRDIMYLRNW  184 (229)
T ss_dssp             TBGGGHHHHHH
T ss_pred             CcchhHHHHHH
Confidence            886 3344433

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.86  E-value=2.8e-21  Score=161.57  Aligned_cols=180  Identities=23%  Similarity=0.241  Sum_probs=101.7

Q ss_pred             cEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEec
Q 042011          107 ALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNIS  186 (361)
Q Consensus       107 ~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~  186 (361)
                      +.++.+++.++ .+|..+   .+++++|++++|++.+..+..+..+++|++|++++|+++ .++...+..+++|++|+++
T Consensus        10 ~~v~c~~~~l~-~~p~~~---~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~Ls   84 (208)
T 2o6s_A           10 TTVECYSQGRT-SVPTGI---PAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQ-SLPNGVFNKLTSLTYLNLS   84 (208)
T ss_dssp             TEEECCSSCCS-SCCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCC-CCCTTTTTTCTTCCEEECC
T ss_pred             CEEEecCCCcc-CCCCCC---CCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccC-ccChhhcCCCCCcCEEECC
Confidence            45555665555 444331   345666666666666544455566666666666666665 4554444445666666666


Q ss_pred             CCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCcc
Q 042011          187 MNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGE  266 (361)
Q Consensus       187 ~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~  266 (361)
                      +|.+++..+..|..+++|++|++++|.++ .++...+..+++|++|++++|++++..+..+..+++|+.|++++|.+.+ 
T Consensus        85 ~n~l~~~~~~~~~~l~~L~~L~L~~N~l~-~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~-  162 (208)
T 2o6s_A           85 TNQLQSLPNGVFDKLTQLKELALNTNQLQ-SLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWDC-  162 (208)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCBCC-
T ss_pred             CCcCCccCHhHhcCccCCCEEEcCCCcCc-ccCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEecCCCeec-
Confidence            66665444444556666666666666665 4444433355666666666666655444445556666666666665542 


Q ss_pred             chhhhhcCCCCCEEECcCCcccccCCCCCCCcC
Q 042011          267 IPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPAN  299 (361)
Q Consensus       267 ~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~  299 (361)
                            .+++|+.|+++.|++++.+|..+..++
T Consensus       163 ------~~~~l~~L~~~~n~~~g~ip~~~~~l~  189 (208)
T 2o6s_A          163 ------TCPGIRYLSEWINKHSGVVRNSAGSVA  189 (208)
T ss_dssp             ------CTTTTHHHHHHHHHCTTTBBCTTSSBC
T ss_pred             ------CCCCHHHHHHHHHhCCceeeccCcccc
Confidence                  234556666666666666665554443

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.85  E-value=2.7e-21  Score=175.50  Aligned_cols=162  Identities=24%  Similarity=0.174  Sum_probs=101.9

Q ss_pred             cCEEEccCCcCCccCChhhhc-cCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEE
Q 042011          155 LEFLDISNNNFRCHIPVEIGD-ILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLA  233 (361)
Q Consensus       155 L~~L~l~~n~l~~~~~~~~~~-~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~  233 (361)
                      ++.|++++|+++ .++...+. .+++|+.|++++|.+++..+..|..+++|++|++++|.++ .++...+..+++|++|+
T Consensus        41 l~~L~Ls~N~l~-~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~-~~~~~~~~~l~~L~~L~  118 (361)
T 2xot_A           41 TALLDLSHNNLS-RLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLH-TLDEFLFSDLQALEVLL  118 (361)
T ss_dssp             CSEEECCSSCCC-EECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCC-EECTTTTTTCTTCCEEE
T ss_pred             CCEEECCCCCCC-ccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCCcCC-cCCHHHhCCCcCCCEEE
Confidence            555666666665 44444332 3566666666666666555555666666666666666666 55554444666777777


Q ss_pred             eecCCCCCcccccccCCCCCCEEeccCCcCCccchhhh---hcCCCCCEEECcCCcccccCCCCCCCcCc--ceeecccc
Q 042011          234 LSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSL---SKCSSLEGLYLNNNSLSGNVNVPSSPANT--LFNLSQNS  308 (361)
Q Consensus       234 L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~---~~l~~L~~L~l~~N~l~~~~~~~~~~~~~--L~~l~l~~  308 (361)
                      +++|++++..+..|..+++|+.|+|++|++++..+..|   ..+++|+.|++++|+|++..+..+..++.  ++.|++.+
T Consensus       119 L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~~~l~~l~l~~  198 (361)
T 2xot_A          119 LYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNKLKKLPLTDLQKLPAWVKNGLYLHN  198 (361)
T ss_dssp             CCSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC----CTTCCEEECCSSCCCCCCHHHHHHSCHHHHTTEECCS
T ss_pred             CCCCcccEECHHHhCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCCEEECCCCCCCccCHHHhhhccHhhcceEEecC
Confidence            77777766666666777777777777777775444444   45677777777777777554445555555  36788888


Q ss_pred             ccccCCcccc
Q 042011          309 RRFTSSISHS  318 (361)
Q Consensus       309 N~~~~~~~~~  318 (361)
                      |+|.|++...
T Consensus       199 N~~~C~C~l~  208 (361)
T 2xot_A          199 NPLECDCKLY  208 (361)
T ss_dssp             SCEECCHHHH
T ss_pred             CCccCCcCcH
Confidence            8888777643

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.84  E-value=4.6e-20  Score=154.15  Aligned_cols=175  Identities=23%  Similarity=0.245  Sum_probs=145.7

Q ss_pred             CcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEecc
Q 042011          131 LETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLS  210 (361)
Q Consensus       131 L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~  210 (361)
                      -+.++.+++.+.. +|..+  .+++++|++++|+++ .++...+..+++|++|++++|.+++..+..|..+++|++|+++
T Consensus         9 ~~~v~c~~~~l~~-~p~~~--~~~l~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls   84 (208)
T 2o6s_A            9 GTTVECYSQGRTS-VPTGI--PAQTTYLDLETNSLK-SLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLS   84 (208)
T ss_dssp             TTEEECCSSCCSS-CCSCC--CTTCSEEECCSSCCC-CCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCEEEecCCCccC-CCCCC--CCCCcEEEcCCCccC-cCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECC
Confidence            3567777777764 34333  458999999999998 6777666668999999999999986666678899999999999


Q ss_pred             CCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCccccc
Q 042011          211 NNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGN  290 (361)
Q Consensus       211 ~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~  290 (361)
                      +|.++ .++...+..+++|++|++++|++++..+..+..+++|+.|++++|++++..+..+..+++|+.|++++|.+.+ 
T Consensus        85 ~n~l~-~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~-  162 (208)
T 2o6s_A           85 TNQLQ-SLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWDC-  162 (208)
T ss_dssp             SSCCC-CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCBCC-
T ss_pred             CCcCC-ccCHhHhcCccCCCEEEcCCCcCcccCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEecCCCeec-
Confidence            99998 6776665589999999999999998777778899999999999999997777778889999999999998764 


Q ss_pred             CCCCCCCcCcceeeccccccccCCccc
Q 042011          291 VNVPSSPANTLFNLSQNSRRFTSSISH  317 (361)
Q Consensus       291 ~~~~~~~~~~L~~l~l~~N~~~~~~~~  317 (361)
                            .++.|++|++..|.+++.+|.
T Consensus       163 ------~~~~l~~L~~~~n~~~g~ip~  183 (208)
T 2o6s_A          163 ------TCPGIRYLSEWINKHSGVVRN  183 (208)
T ss_dssp             ------CTTTTHHHHHHHHHCTTTBBC
T ss_pred             ------CCCCHHHHHHHHHhCCceeec
Confidence                  356889999999999998885

>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=99.84  E-value=2.4e-20  Score=164.07  Aligned_cols=175  Identities=20%  Similarity=0.252  Sum_probs=124.6

Q ss_pred             hcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCC
Q 042011          100 LYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS  179 (361)
Q Consensus       100 l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~  179 (361)
                      +..+++|+.|++++|.+. .++.  +..+++|++|++++|++++..+  +..+++|++|++++|.++ .++. +. .+++
T Consensus        42 ~~~l~~L~~L~l~~~~i~-~~~~--~~~l~~L~~L~L~~n~l~~~~~--l~~l~~L~~L~l~~n~l~-~~~~-l~-~l~~  113 (291)
T 1h6t_A           42 QNELNSIDQIIANNSDIK-SVQG--IQYLPNVTKLFLNGNKLTDIKP--LANLKNLGWLFLDENKVK-DLSS-LK-DLKK  113 (291)
T ss_dssp             HHHHHTCCEEECTTSCCC-CCTT--GGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCC-CGGG-GT-TCTT
T ss_pred             hhhcCcccEEEccCCCcc-cChh--HhcCCCCCEEEccCCccCCCcc--cccCCCCCEEECCCCcCC-CChh-hc-cCCC
Confidence            445677777777777776 4443  5677777778887777775433  777777888888888776 4443 33 3778


Q ss_pred             ccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEecc
Q 042011          180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLG  259 (361)
Q Consensus       180 L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~  259 (361)
                      |++|++++|.+++ + ..+..+++|++|++++|.++ .++ .+ ..+++|++|++++|++++..+  +..+++|+.|+++
T Consensus       114 L~~L~L~~n~i~~-~-~~l~~l~~L~~L~l~~n~l~-~~~-~l-~~l~~L~~L~L~~N~l~~~~~--l~~l~~L~~L~L~  186 (291)
T 1h6t_A          114 LKSLSLEHNGISD-I-NGLVHLPQLESLYLGNNKIT-DIT-VL-SRLTKLDTLSLEDNQISDIVP--LAGLTKLQNLYLS  186 (291)
T ss_dssp             CCEEECTTSCCCC-C-GGGGGCTTCCEEECCSSCCC-CCG-GG-GGCTTCSEEECCSSCCCCCGG--GTTCTTCCEEECC
T ss_pred             CCEEECCCCcCCC-C-hhhcCCCCCCEEEccCCcCC-cch-hh-ccCCCCCEEEccCCccccchh--hcCCCccCEEECC
Confidence            8888888887774 3 35677788888888888877 442 33 367888888888888877544  7778888888888


Q ss_pred             CCcCCccchhhhhcCCCCCEEECcCCcccccC
Q 042011          260 GNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV  291 (361)
Q Consensus       260 ~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~  291 (361)
                      +|++++. + .+..+++|+.|++++|+++...
T Consensus       187 ~N~i~~l-~-~l~~l~~L~~L~l~~n~i~~~~  216 (291)
T 1h6t_A          187 KNHISDL-R-ALAGLKNLDVLELFSQECLNKP  216 (291)
T ss_dssp             SSCCCBC-G-GGTTCTTCSEEEEEEEEEECCC
T ss_pred             CCcCCCC-h-hhccCCCCCEEECcCCcccCCc
Confidence            8888753 3 3777888888888888887533

>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=99.84  E-value=3.8e-20  Score=162.79  Aligned_cols=191  Identities=21%  Similarity=0.264  Sum_probs=159.4

Q ss_pred             CccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEE
Q 042011          105 DLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFN  184 (361)
Q Consensus       105 ~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~  184 (361)
                      .+..+.+..+.+++..+   ...+++|++|++++|.+...  ..+..+++|++|++++|+++ .++. + ..+++|++|+
T Consensus        25 ~~~~~~l~~~~~~~~~~---~~~l~~L~~L~l~~~~i~~~--~~~~~l~~L~~L~L~~n~l~-~~~~-l-~~l~~L~~L~   96 (291)
T 1h6t_A           25 ETIKDNLKKKSVTDAVT---QNELNSIDQIIANNSDIKSV--QGIQYLPNVTKLFLNGNKLT-DIKP-L-ANLKNLGWLF   96 (291)
T ss_dssp             HHHHHHTTCSCTTSEEC---HHHHHTCCEEECTTSCCCCC--TTGGGCTTCCEEECCSSCCC-CCGG-G-TTCTTCCEEE
T ss_pred             HHHHHHhcCCCcccccc---hhhcCcccEEEccCCCcccC--hhHhcCCCCCEEEccCCccC-CCcc-c-ccCCCCCEEE
Confidence            34444566666664333   45788999999999999864  34888999999999999998 5655 4 4489999999


Q ss_pred             ecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCC
Q 042011          185 ISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFV  264 (361)
Q Consensus       185 L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~  264 (361)
                      +++|.+++ ++ .+..+++|++|++++|.++ .++ .+. .+++|+.|++++|++++.  ..+..+++|+.|++++|+++
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~  169 (291)
T 1h6t_A           97 LDENKVKD-LS-SLKDLKKLKSLSLEHNGIS-DIN-GLV-HLPQLESLYLGNNKITDI--TVLSRLTKLDTLSLEDNQIS  169 (291)
T ss_dssp             CCSSCCCC-GG-GGTTCTTCCEEECTTSCCC-CCG-GGG-GCTTCCEEECCSSCCCCC--GGGGGCTTCSEEECCSSCCC
T ss_pred             CCCCcCCC-Ch-hhccCCCCCEEECCCCcCC-CCh-hhc-CCCCCCEEEccCCcCCcc--hhhccCCCCCEEEccCCccc
Confidence            99999984 44 4899999999999999998 554 343 799999999999999985  67889999999999999999


Q ss_pred             ccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCC
Q 042011          265 GEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSS  314 (361)
Q Consensus       265 ~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~  314 (361)
                      +..+  +..+++|+.|++++|++++. + .+..+++|+.|++++|+++..
T Consensus       170 ~~~~--l~~l~~L~~L~L~~N~i~~l-~-~l~~l~~L~~L~l~~n~i~~~  215 (291)
T 1h6t_A          170 DIVP--LAGLTKLQNLYLSKNHISDL-R-ALAGLKNLDVLELFSQECLNK  215 (291)
T ss_dssp             CCGG--GTTCTTCCEEECCSSCCCBC-G-GGTTCTTCSEEEEEEEEEECC
T ss_pred             cchh--hcCCCccCEEECCCCcCCCC-h-hhccCCCCCEEECcCCcccCC
Confidence            6654  88999999999999999974 3 488999999999999999863

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.84  E-value=7.3e-20  Score=174.24  Aligned_cols=187  Identities=21%  Similarity=0.259  Sum_probs=144.1

Q ss_pred             CCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCcc
Q 042011           28 SIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLA  107 (361)
Q Consensus        28 ~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~  107 (361)
                      +++.|++++|+++ .+|.. +  .++|++|++++|.++.. +      ..+.+|++|++ ++|.+++ +|. +..  +|+
T Consensus        60 ~L~~L~Ls~n~L~-~lp~~-l--~~~L~~L~Ls~N~l~~i-p------~~l~~L~~L~L-s~N~l~~-ip~-l~~--~L~  123 (571)
T 3cvr_A           60 QFSELQLNRLNLS-SLPDN-L--PPQITVLEITQNALISL-P------ELPASLEYLDA-CDNRLST-LPE-LPA--SLK  123 (571)
T ss_dssp             TCSEEECCSSCCS-CCCSC-C--CTTCSEEECCSSCCSCC-C------CCCTTCCEEEC-CSSCCSC-CCC-CCT--TCC
T ss_pred             CccEEEeCCCCCC-ccCHh-H--cCCCCEEECcCCCCccc-c------cccCCCCEEEc-cCCCCCC-cch-hhc--CCC
Confidence            8888888888887 47732 3  37788888888888743 2      12358888888 8888876 454 544  889


Q ss_pred             EEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecC
Q 042011          108 LVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISM  187 (361)
Q Consensus       108 ~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~  187 (361)
                      +|++++|.+++ +|.    .+++|++|++++|.+++ +|.   .+++|++|++++|+++ .+|. +.   ++|+.|++++
T Consensus       124 ~L~Ls~N~l~~-lp~----~l~~L~~L~Ls~N~l~~-lp~---~l~~L~~L~Ls~N~L~-~lp~-l~---~~L~~L~Ls~  189 (571)
T 3cvr_A          124 HLDVDNNQLTM-LPE----LPALLEYINADNNQLTM-LPE---LPTSLEVLSVRNNQLT-FLPE-LP---ESLEALDVST  189 (571)
T ss_dssp             EEECCSSCCSC-CCC----CCTTCCEEECCSSCCSC-CCC---CCTTCCEEECCSSCCS-CCCC-CC---TTCCEEECCS
T ss_pred             EEECCCCcCCC-CCC----cCccccEEeCCCCccCc-CCC---cCCCcCEEECCCCCCC-Ccch-hh---CCCCEEECcC
Confidence            99999999884 665    57889999999998886 444   5678999999999998 5776 33   7899999999


Q ss_pred             CccccccCccccCCCCC-------CEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCC
Q 042011          188 NALDGSIPSSFGNMNFL-------RVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNL  250 (361)
Q Consensus       188 n~l~~~~~~~l~~~~~L-------~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~  250 (361)
                      |.++ .+|. +..  +|       +.|++++|.++ .+|..++ .+++|+.|++++|.+++..|..+..+
T Consensus       190 N~L~-~lp~-~~~--~L~~~~~~L~~L~Ls~N~l~-~lp~~l~-~l~~L~~L~L~~N~l~~~~p~~l~~l  253 (571)
T 3cvr_A          190 NLLE-SLPA-VPV--RNHHSEETEIFFRCRENRIT-HIPENIL-SLDPTCTIILEDNPLSSRIRESLSQQ  253 (571)
T ss_dssp             SCCS-SCCC-CC----------CCEEEECCSSCCC-CCCGGGG-GSCTTEEEECCSSSCCHHHHHHHHHH
T ss_pred             CCCC-chhh-HHH--hhhcccccceEEecCCCcce-ecCHHHh-cCCCCCEEEeeCCcCCCcCHHHHHHh
Confidence            9988 6666 544  67       99999999998 8888887 59999999999999988777776654

>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=99.83  E-value=5.6e-20  Score=176.78  Aligned_cols=169  Identities=20%  Similarity=0.249  Sum_probs=85.5

Q ss_pred             cccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCE
Q 042011           78 NFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEF  157 (361)
Q Consensus        78 ~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~  157 (361)
                      +.+|+.|++ .++.+... + .+..+++|+.|++++|.+++ ++.  +..+++|+.|++++|.+.+  +..+..+++|+.
T Consensus        42 L~~L~~L~l-~~n~i~~l-~-~l~~l~~L~~L~Ls~N~l~~-~~~--l~~l~~L~~L~Ls~N~l~~--l~~l~~l~~L~~  113 (605)
T 1m9s_A           42 LNSIDQIIA-NNSDIKSV-Q-GIQYLPNVTKLFLNGNKLTD-IKP--LTNLKNLGWLFLDENKIKD--LSSLKDLKKLKS  113 (605)
T ss_dssp             HTTCCCCBC-TTCCCCCC-T-TGGGCTTCCEEECTTSCCCC-CGG--GGGCTTCCEEECCSSCCCC--CTTSTTCTTCCE
T ss_pred             CCCCCEEEC-cCCCCCCC-h-HHccCCCCCEEEeeCCCCCC-Chh--hccCCCCCEEECcCCCCCC--ChhhccCCCCCE
Confidence            335555566 55555432 1 35555666666666665552 322  4555556666666555553  124555555555


Q ss_pred             EEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecC
Q 042011          158 LDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN  237 (361)
Q Consensus       158 L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n  237 (361)
                      |++++|++. .++ .+. .+++|+.|+|++|.+++.  ..+..+++|+.|++++|.+.+ ++. + ..+++|+.|+|++|
T Consensus       114 L~Ls~N~l~-~l~-~l~-~l~~L~~L~Ls~N~l~~l--~~l~~l~~L~~L~Ls~N~l~~-~~~-l-~~l~~L~~L~Ls~N  185 (605)
T 1m9s_A          114 LSLEHNGIS-DIN-GLV-HLPQLESLYLGNNKITDI--TVLSRLTKLDTLSLEDNQISD-IVP-L-AGLTKLQNLYLSKN  185 (605)
T ss_dssp             EECTTSCCC-CCG-GGG-GCTTCSEEECCSSCCCCC--GGGGSCTTCSEEECCSSCCCC-CGG-G-TTCTTCCEEECCSS
T ss_pred             EEecCCCCC-CCc-ccc-CCCccCEEECCCCccCCc--hhhcccCCCCEEECcCCcCCC-chh-h-ccCCCCCEEECcCC
Confidence            555555555 332 222 255555555555555532  344555555555555555552 222 2 24555555555555


Q ss_pred             CCCCcccccccCCCCCCEEeccCCcCC
Q 042011          238 SLEGHMFSRNFNLTNLEWLQLGGNRFV  264 (361)
Q Consensus       238 ~l~~~~~~~~~~~~~L~~L~L~~n~l~  264 (361)
                      ++++.  ..+..+++|+.|+|++|++.
T Consensus       186 ~i~~l--~~l~~l~~L~~L~L~~N~l~  210 (605)
T 1m9s_A          186 HISDL--RALAGLKNLDVLELFSQECL  210 (605)
T ss_dssp             CCCBC--GGGTTCTTCSEEECCSEEEE
T ss_pred             CCCCC--hHHccCCCCCEEEccCCcCc
Confidence            55542  23445555555555555544

>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=99.83  E-value=1e-19  Score=153.26  Aligned_cols=153  Identities=21%  Similarity=0.258  Sum_probs=112.4

Q ss_pred             cEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccC
Q 042011          132 ETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSN  211 (361)
Q Consensus       132 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~  211 (361)
                      +.++.+++.++. +|..+.  +.++.|++++|+++ .++...+..+++|++|++++|.+++..|..|..+++|++|++++
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 NIVDCRGKGLTE-IPTNLP--ETITEIRLEQNTIK-VIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYG   89 (220)
T ss_dssp             TEEECTTSCCSS-CCSSCC--TTCCEEECCSSCCC-EECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCS
T ss_pred             CEEEcCCCCcCc-CCCccC--cCCCEEECCCCcCC-CcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCC
Confidence            345555555543 333322  45777777777776 55554445577777777777777766677788888888888888


Q ss_pred             CcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccc
Q 042011          212 NQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG  289 (361)
Q Consensus       212 n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~  289 (361)
                      |.++ .+|...+..+++|++|++++|++++..+..+..+++|+.|++++|++++..+..|..+++|+.|++++|.+..
T Consensus        90 N~l~-~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~c  166 (220)
T 2v9t_B           90 NKIT-ELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQNPFIC  166 (220)
T ss_dssp             SCCC-CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCEEC
T ss_pred             CcCC-ccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEeCCCCcCC
Confidence            8887 7777666678888888888888888777788888888888888888887777778888888888888888764

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.83  E-value=1e-19  Score=173.19  Aligned_cols=187  Identities=20%  Similarity=0.253  Sum_probs=120.5

Q ss_pred             CCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCc
Q 042011           53 RLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLE  132 (361)
Q Consensus        53 ~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~  132 (361)
                      +++.|++++|.+++. +..+     ..+|++|++ ++|.++. +|   ..+++|++|++++|.+++ +|.  +.+  +|+
T Consensus        60 ~L~~L~Ls~n~L~~l-p~~l-----~~~L~~L~L-s~N~l~~-ip---~~l~~L~~L~Ls~N~l~~-ip~--l~~--~L~  123 (571)
T 3cvr_A           60 QFSELQLNRLNLSSL-PDNL-----PPQITVLEI-TQNALIS-LP---ELPASLEYLDACDNRLST-LPE--LPA--SLK  123 (571)
T ss_dssp             TCSEEECCSSCCSCC-CSCC-----CTTCSEEEC-CSSCCSC-CC---CCCTTCCEEECCSSCCSC-CCC--CCT--TCC
T ss_pred             CccEEEeCCCCCCcc-CHhH-----cCCCCEEEC-cCCCCcc-cc---cccCCCCEEEccCCCCCC-cch--hhc--CCC
Confidence            788888888887753 3221     136777777 7777763 34   346777777777777763 555  222  777


Q ss_pred             EEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCC
Q 042011          133 TLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNN  212 (361)
Q Consensus       133 ~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n  212 (361)
                      +|++++|++++ +|.   .+++|+.|++++|.++ .+|.    .+++|+.|++++|.+++ +|. |.  ++|++|++++|
T Consensus       124 ~L~Ls~N~l~~-lp~---~l~~L~~L~Ls~N~l~-~lp~----~l~~L~~L~Ls~N~L~~-lp~-l~--~~L~~L~Ls~N  190 (571)
T 3cvr_A          124 HLDVDNNQLTM-LPE---LPALLEYINADNNQLT-MLPE----LPTSLEVLSVRNNQLTF-LPE-LP--ESLEALDVSTN  190 (571)
T ss_dssp             EEECCSSCCSC-CCC---CCTTCCEEECCSSCCS-CCCC----CCTTCCEEECCSSCCSC-CCC-CC--TTCCEEECCSS
T ss_pred             EEECCCCcCCC-CCC---cCccccEEeCCCCccC-cCCC----cCCCcCEEECCCCCCCC-cch-hh--CCCCEEECcCC
Confidence            77777777765 343   4567777777777776 4654    25677777777777764 555 44  67777777777


Q ss_pred             cCccccchhhhhCCCCC-------cEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcC
Q 042011          213 QLTGEIPEHLAVGCVNL-------ESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKC  274 (361)
Q Consensus       213 ~l~~~~~~~~~~~~~~L-------~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l  274 (361)
                      .++ .+|. +. .  +|       +.|++++|+++. +|..+..+++|+.|++++|++++..|..+..+
T Consensus       191 ~L~-~lp~-~~-~--~L~~~~~~L~~L~Ls~N~l~~-lp~~l~~l~~L~~L~L~~N~l~~~~p~~l~~l  253 (571)
T 3cvr_A          191 LLE-SLPA-VP-V--RNHHSEETEIFFRCRENRITH-IPENILSLDPTCTIILEDNPLSSRIRESLSQQ  253 (571)
T ss_dssp             CCS-SCCC-CC-----------CCEEEECCSSCCCC-CCGGGGGSCTTEEEECCSSSCCHHHHHHHHHH
T ss_pred             CCC-chhh-HH-H--hhhcccccceEEecCCCccee-cCHHHhcCCCCCEEEeeCCcCCCcCHHHHHHh
Confidence            777 6665 32 1  45       777777777765 44445557777777777777776666666554

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.83  E-value=5.2e-20  Score=166.97  Aligned_cols=157  Identities=25%  Similarity=0.222  Sum_probs=75.5

Q ss_pred             CccEEEecCCcccCCcChHHHh-cCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEE
Q 042011          105 DLALVDLSHIKMNGEFPTWLLE-NNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFF  183 (361)
Q Consensus       105 ~L~~L~l~~n~l~~~~~~~~~~-~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L  183 (361)
                      .++.|++++|.++ .++...+. ++++|++|++++|++.+..+..|..+++|++|++++|+++ .++...+..+++|+.|
T Consensus        40 ~l~~L~Ls~N~l~-~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~-~~~~~~~~~l~~L~~L  117 (361)
T 2xot_A           40 YTALLDLSHNNLS-RLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLH-TLDEFLFSDLQALEVL  117 (361)
T ss_dssp             TCSEEECCSSCCC-EECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCC-EECTTTTTTCTTCCEE
T ss_pred             CCCEEECCCCCCC-ccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCCcCC-cCCHHHhCCCcCCCEE
Confidence            3455555555554 22222233 4555555555555555444444555555555555555554 3443333335555555


Q ss_pred             EecCCccccccCccccCCCCCCEEeccCCcCccccchhhh---hCCCCCcEEEeecCCCCCcccccccCCCC--CCEEec
Q 042011          184 NISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLA---VGCVNLESLALSNNSLEGHMFSRNFNLTN--LEWLQL  258 (361)
Q Consensus       184 ~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~---~~~~~L~~L~L~~n~l~~~~~~~~~~~~~--L~~L~L  258 (361)
                      +|++|.+++..+..|..+++|++|++++|.++ .+|...+   ..+++|+.|++++|+++...+..+..++.  ++.|++
T Consensus       118 ~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~-~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~~~l~~l~l  196 (361)
T 2xot_A          118 LLYNNHIVVVDRNAFEDMAQLQKLYLSQNQIS-RFPVELIKDGNKLPKLMLLDLSSNKLKKLPLTDLQKLPAWVKNGLYL  196 (361)
T ss_dssp             ECCSSCCCEECTTTTTTCTTCCEEECCSSCCC-SCCGGGTC----CTTCCEEECCSSCCCCCCHHHHHHSCHHHHTTEEC
T ss_pred             ECCCCcccEECHHHhCCcccCCEEECCCCcCC-eeCHHHhcCcccCCcCCEEECCCCCCCccCHHHhhhccHhhcceEEe
Confidence            55555555444445555555555555555555 4444433   23445555555555555443344444443  244555


Q ss_pred             cCCcCC
Q 042011          259 GGNRFV  264 (361)
Q Consensus       259 ~~n~l~  264 (361)
                      ++|++.
T Consensus       197 ~~N~~~  202 (361)
T 2xot_A          197 HNNPLE  202 (361)
T ss_dssp             CSSCEE
T ss_pred             cCCCcc
Confidence            555443

>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=99.82  E-value=2.1e-19  Score=151.42  Aligned_cols=155  Identities=23%  Similarity=0.254  Sum_probs=112.6

Q ss_pred             cEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccC
Q 042011          132 ETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSN  211 (361)
Q Consensus       132 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~  211 (361)
                      +.+++++|.++. +|..+.  +.+++|++++|++++..+...+..+++|++|++++|.+++..+..|..+++|++|++++
T Consensus        14 ~~l~~s~n~l~~-iP~~~~--~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~   90 (220)
T 2v70_A           14 TTVDCSNQKLNK-IPEHIP--QYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTS   90 (220)
T ss_dssp             TEEECCSSCCSS-CCSCCC--TTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CEeEeCCCCccc-CccCCC--CCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCC
Confidence            355666665553 333332  34567777777776333444444577888888888887766666778888888888888


Q ss_pred             CcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCccccc
Q 042011          212 NQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGN  290 (361)
Q Consensus       212 n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~  290 (361)
                      |.++ .++...+..+++|++|++++|++++..+..+..+++|+.|++++|++++..|..|..+++|+.|++++|.+...
T Consensus        91 N~l~-~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~c~  168 (220)
T 2v70_A           91 NRLE-NVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNLLANPFNCN  168 (220)
T ss_dssp             SCCC-CCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEEECCSCCEECS
T ss_pred             CccC-ccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEEEecCcCCcCC
Confidence            8887 55555555788888888888888887777888888888888888888877788888888888888888888753

>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=99.81  E-value=1.1e-19  Score=162.74  Aligned_cols=267  Identities=16%  Similarity=0.176  Sum_probs=148.1

Q ss_pred             CCCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccC--------CCCCcEEEccCCCccccccccc
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFN--------HSRLKIFYADNNELNAEITQSH   72 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~--------l~~L~~L~l~~n~~~~~~~~~~   72 (361)
                      +++|+.|||++|+|. .... ....++.++.+.+..|.    ++..+|.+        +++|+.+++.+ .++...... 
T Consensus        48 l~~L~~LdLs~n~i~-~~~~-~~~~~~~~~~~~~~~~~----I~~~aF~~~~~~~~~g~~~L~~l~L~~-~i~~I~~~a-  119 (329)
T 3sb4_A           48 FPSLKVLDISNAEIK-MYSG-KAGTYPNGKFYIYMANF----VPAYAFSNVVNGVTKGKQTLEKVILSE-KIKNIEDAA-  119 (329)
T ss_dssp             CTTCCEEEEEEEEEC-CEEE-SSSSSGGGCCEEECTTE----ECTTTTEEEETTEEEECTTCCC-CBCT-TCCEECTTT-
T ss_pred             hccCeEEecCcceeE-EecC-ccccccccccccccccc----cCHHHhcccccccccccCCCcEEECCc-cccchhHHH-
Confidence            478999999999987 1100 00011112333333331    22234444        55555555554 444333222 


Q ss_pred             ccccCcccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcc---cCCcChHHHhcCCCCc-EEEecCCc-ccCCCCC
Q 042011           73 SLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKM---NGEFPTWLLENNTKLE-TLFLVNDS-LTGPFRL  147 (361)
Q Consensus        73 ~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l---~~~~~~~~~~~~~~L~-~L~l~~n~-l~~~~~~  147 (361)
                        |..+.+|+++++ .++.+..+.+.+|..+.++..+.......   ...+....|.++..|+ .+.+.... +......
T Consensus       120 --F~~~~~L~~l~l-~~n~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~L~~~i~~~~~~~l~~~~~~  196 (329)
T 3sb4_A          120 --FKGCDNLKICQI-RKKTAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEPLETTIQVGAMGKLEDEIMK  196 (329)
T ss_dssp             --TTTCTTCCEEEB-CCSSCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCCCEEEEEECTTCCHHHHHHH
T ss_pred             --hhcCcccceEEc-CCCCccccchhhhcCCCceEEecCcchhhhhccccccccccccccccceeEEecCCCcHHHHHhh
Confidence              344445555555 44444444444555555554444433211   0011222244444554 33333211 0000001


Q ss_pred             CcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCC
Q 042011          148 PIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCV  227 (361)
Q Consensus       148 ~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~  227 (361)
                      .-....+++.+.+.++-.. .....+...+++|+.+++++|.++...+.+|.++++|+++++.+| +. .++...|.+++
T Consensus       197 ~~~~~~~~~~l~~~~~l~~-~~~~~l~~~~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~n-i~-~I~~~aF~~~~  273 (329)
T 3sb4_A          197 AGLQPRDINFLTIEGKLDN-ADFKLIRDYMPNLVSLDISKTNATTIPDFTFAQKKYLLKIKLPHN-LK-TIGQRVFSNCG  273 (329)
T ss_dssp             TTCCGGGCSEEEEEECCCH-HHHHHHHHHCTTCCEEECTTBCCCEECTTTTTTCTTCCEEECCTT-CC-EECTTTTTTCT
T ss_pred             cccCccccceEEEeeeecH-HHHHHHHHhcCCCeEEECCCCCcceecHhhhhCCCCCCEEECCcc-cc-eehHHHhhCCh
Confidence            1112344556666554221 112222233678888888888887566667888888888888877 66 77777777888


Q ss_pred             CCc-EEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEEC
Q 042011          228 NLE-SLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYL  282 (361)
Q Consensus       228 ~L~-~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l  282 (361)
                      +|+ .+++.+ .++.+.+..|.+|++|+.+++++|.++...+.+|.++++|+.++.
T Consensus       274 ~L~~~l~l~~-~l~~I~~~aF~~c~~L~~l~l~~n~i~~I~~~aF~~~~~L~~ly~  328 (329)
T 3sb4_A          274 RLAGTLELPA-SVTAIEFGAFMGCDNLRYVLATGDKITTLGDELFGNGVPSKLIYK  328 (329)
T ss_dssp             TCCEEEEECT-TCCEECTTTTTTCTTEEEEEECSSCCCEECTTTTCTTCCCCEEEC
T ss_pred             hccEEEEEcc-cceEEchhhhhCCccCCEEEeCCCccCccchhhhcCCcchhhhcc
Confidence            888 888877 777777788888888888888888888777778888888888763

>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=99.81  E-value=5.6e-19  Score=149.75  Aligned_cols=155  Identities=25%  Similarity=0.265  Sum_probs=118.8

Q ss_pred             CccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEE
Q 042011          105 DLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFN  184 (361)
Q Consensus       105 ~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~  184 (361)
                      ..+.++.+++.++ .+|..+   .++|++|++++|.+.+..+..|..+++|++|++++|+++ .++...+..+++|+.|+
T Consensus        20 s~~~v~c~~~~l~-~ip~~~---~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~-~i~~~~~~~l~~L~~L~   94 (229)
T 3e6j_A           20 SGTTVDCRSKRHA-SVPAGI---PTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLG-ALPVGVFDSLTQLTVLD   94 (229)
T ss_dssp             ETTEEECTTSCCS-SCCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEE
T ss_pred             eCCEeEccCCCcC-ccCCCC---CCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCC-CcChhhcccCCCcCEEE
Confidence            4567888888887 677543   378888888888888777778888888888888888887 67766666678888888


Q ss_pred             ecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCC
Q 042011          185 ISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFV  264 (361)
Q Consensus       185 L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~  264 (361)
                      +++|.+++..+..|..+++|++|++++|.++ .+|..+. .+++|++|++++|++++..+..+..+++|+.|++++|++.
T Consensus        95 Ls~N~l~~l~~~~~~~l~~L~~L~Ls~N~l~-~lp~~~~-~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~  172 (229)
T 3e6j_A           95 LGTNQLTVLPSAVFDRLVHLKELFMCCNKLT-ELPRGIE-RLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYLFGNPWD  172 (229)
T ss_dssp             CCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-SCCTTGG-GCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECTTSCBC
T ss_pred             CCCCcCCccChhHhCcchhhCeEeccCCccc-ccCcccc-cCCCCCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCCcc
Confidence            8888887666666777888888888888887 7776664 6777888888888777766666777777777777777776


Q ss_pred             cc
Q 042011          265 GE  266 (361)
Q Consensus       265 ~~  266 (361)
                      ..
T Consensus       173 c~  174 (229)
T 3e6j_A          173 CE  174 (229)
T ss_dssp             TT
T ss_pred             CC
Confidence            43

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.81  E-value=5.7e-20  Score=159.16  Aligned_cols=171  Identities=19%  Similarity=0.232  Sum_probs=130.6

Q ss_pred             CCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCcc
Q 042011          102 HQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLK  181 (361)
Q Consensus       102 ~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~  181 (361)
                      .+.++..++++++.++ .++.  +..+++|++|++++|++.. ++ .+..+++|++|++++|+++ .++. + ..+++|+
T Consensus        17 ~l~~l~~l~l~~~~i~-~~~~--~~~l~~L~~L~l~~n~i~~-l~-~l~~l~~L~~L~L~~N~i~-~~~~-l-~~l~~L~   88 (263)
T 1xeu_A           17 GLANAVKQNLGKQSVT-DLVS--QKELSGVQNFNGDNSNIQS-LA-GMQFFTNLKELHLSHNQIS-DLSP-L-KDLTKLE   88 (263)
T ss_dssp             HHHHHHHHHHTCSCTT-SEEC--HHHHTTCSEEECTTSCCCC-CT-TGGGCTTCCEEECCSSCCC-CCGG-G-TTCSSCC
T ss_pred             HHHHHHHHHhcCCCcc-cccc--hhhcCcCcEEECcCCCccc-ch-HHhhCCCCCEEECCCCccC-CChh-h-ccCCCCC
Confidence            3556777788888887 4442  6778889999999988875 33 6778888999999999887 5655 3 4488889


Q ss_pred             EEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCC
Q 042011          182 FFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGN  261 (361)
Q Consensus       182 ~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n  261 (361)
                      +|++++|.+++ ++.. .. ++|++|++++|.++ .++. + ..+++|+.|++++|++++.  ..+..+++|+.|++++|
T Consensus        89 ~L~L~~N~l~~-l~~~-~~-~~L~~L~L~~N~l~-~~~~-l-~~l~~L~~L~Ls~N~i~~~--~~l~~l~~L~~L~L~~N  160 (263)
T 1xeu_A           89 ELSVNRNRLKN-LNGI-PS-ACLSRLFLDNNELR-DTDS-L-IHLKNLEILSIRNNKLKSI--VMLGFLSKLEVLDLHGN  160 (263)
T ss_dssp             EEECCSSCCSC-CTTC-CC-SSCCEEECCSSCCS-BSGG-G-TTCTTCCEEECTTSCCCBC--GGGGGCTTCCEEECTTS
T ss_pred             EEECCCCccCC-cCcc-cc-CcccEEEccCCccC-CChh-h-cCcccccEEECCCCcCCCC--hHHccCCCCCEEECCCC
Confidence            99999888874 4432 23 78888888888887 5543 3 3788888888888888874  35777888888888888


Q ss_pred             cCCccchhhhhcCCCCCEEECcCCccccc
Q 042011          262 RFVGEIPQSLSKCSSLEGLYLNNNSLSGN  290 (361)
Q Consensus       262 ~l~~~~~~~~~~l~~L~~L~l~~N~l~~~  290 (361)
                      ++++.  ..+..+++|+.|++++|.+++.
T Consensus       161 ~i~~~--~~l~~l~~L~~L~l~~N~~~~~  187 (263)
T 1xeu_A          161 EITNT--GGLTRLKKVNWIDLTGQKCVNE  187 (263)
T ss_dssp             CCCBC--TTSTTCCCCCEEEEEEEEEECC
T ss_pred             cCcch--HHhccCCCCCEEeCCCCcccCC
Confidence            88865  6677888888888888888764

>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=99.81  E-value=2.5e-19  Score=172.22  Aligned_cols=200  Identities=19%  Similarity=0.207  Sum_probs=163.4

Q ss_pred             cccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEE
Q 042011           80 QLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLD  159 (361)
Q Consensus        80 ~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~  159 (361)
                      ++..+.+ ..+.+....  .+..++.|+.|++++|.+. .++.  +..+++|+.|++++|.+.+..+  +..+++|+.|+
T Consensus        22 ~l~~l~l-~~~~i~~~~--~~~~L~~L~~L~l~~n~i~-~l~~--l~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~   93 (605)
T 1m9s_A           22 ETIKDNL-KKKSVTDAV--TQNELNSIDQIIANNSDIK-SVQG--IQYLPNVTKLFLNGNKLTDIKP--LTNLKNLGWLF   93 (605)
T ss_dssp             HHHHHHT-TCSCTTSEE--CHHHHTTCCCCBCTTCCCC-CCTT--GGGCTTCCEEECTTSCCCCCGG--GGGCTTCCEEE
T ss_pred             HHHHHhc-cCCCccccc--chhcCCCCCEEECcCCCCC-CChH--HccCCCCCEEEeeCCCCCCChh--hccCCCCCEEE
Confidence            4455566 666665443  3567899999999999998 6664  7899999999999999987554  88999999999


Q ss_pred             ccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCC
Q 042011          160 ISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL  239 (361)
Q Consensus       160 l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l  239 (361)
                      +++|.+. .++ .+.. +++|+.|+|++|.+.+ + ..+..+++|+.|++++|.+. .+ ..+ ..+++|+.|+|++|.+
T Consensus        94 Ls~N~l~-~l~-~l~~-l~~L~~L~Ls~N~l~~-l-~~l~~l~~L~~L~Ls~N~l~-~l-~~l-~~l~~L~~L~Ls~N~l  165 (605)
T 1m9s_A           94 LDENKIK-DLS-SLKD-LKKLKSLSLEHNGISD-I-NGLVHLPQLESLYLGNNKIT-DI-TVL-SRLTKLDTLSLEDNQI  165 (605)
T ss_dssp             CCSSCCC-CCT-TSTT-CTTCCEEECTTSCCCC-C-GGGGGCTTCSEEECCSSCCC-CC-GGG-GSCTTCSEEECCSSCC
T ss_pred             CcCCCCC-CCh-hhcc-CCCCCEEEecCCCCCC-C-ccccCCCccCEEECCCCccC-Cc-hhh-cccCCCCEEECcCCcC
Confidence            9999998 555 4444 8999999999999984 3 45889999999999999998 55 334 3899999999999999


Q ss_pred             CCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcC
Q 042011          240 EGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPAN  299 (361)
Q Consensus       240 ~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~  299 (361)
                      .+..+  +..+++|+.|+|++|++++.  ..+..+++|+.|++++|.+.+.....+..+.
T Consensus       166 ~~~~~--l~~l~~L~~L~Ls~N~i~~l--~~l~~l~~L~~L~L~~N~l~~~p~~~~~~l~  221 (605)
T 1m9s_A          166 SDIVP--LAGLTKLQNLYLSKNHISDL--RALAGLKNLDVLELFSQECLNKPINHQSNLV  221 (605)
T ss_dssp             CCCGG--GTTCTTCCEEECCSSCCCBC--GGGTTCTTCSEEECCSEEEECCCCCCCSSCE
T ss_pred             CCchh--hccCCCCCEEECcCCCCCCC--hHHccCCCCCEEEccCCcCcCCcccccccEE
Confidence            98655  88999999999999999964  4688999999999999999875444444333

>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=99.81  E-value=9.5e-21  Score=169.70  Aligned_cols=263  Identities=14%  Similarity=0.073  Sum_probs=154.3

Q ss_pred             ccCCCCeEeCcCCcccccCCcccccC-CCCCcEEEccCCCcc--cccccccccccCcccccEEeccCCCCCCCCCchhhc
Q 042011           25 HLTSIEELMLSNNHFQIPISLEPLFN-HSRLKIFYADNNELN--AEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLY  101 (361)
Q Consensus        25 ~l~~L~~L~Ls~n~l~~~~~~~~~~~-l~~L~~L~l~~n~~~--~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~  101 (361)
                      .++++++|.++++ +. ......+.. +++|+.|||++|++.  ......    .+  .+..+.+ ..+.   +....|.
T Consensus        23 ~~~~l~~L~l~g~-i~-~~~~~~l~~~l~~L~~LdLs~n~i~~~~~~~~~----~~--~~~~~~~-~~~~---I~~~aF~   90 (329)
T 3sb4_A           23 EANSITHLTLTGK-LN-AEDFRHLRDEFPSLKVLDISNAEIKMYSGKAGT----YP--NGKFYIY-MANF---VPAYAFS   90 (329)
T ss_dssp             HHHHCSEEEEEEE-EC-HHHHHHHHHSCTTCCEEEEEEEEECCEEESSSS----SG--GGCCEEE-CTTE---ECTTTTE
T ss_pred             hhCceeEEEEecc-cc-HHHHHHHHHhhccCeEEecCcceeEEecCcccc----cc--ccccccc-cccc---cCHHHhc
Confidence            3556777777764 22 111123333 677888888888776  211111    11  1233333 3332   2334566


Q ss_pred             C--------CCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcC----CccC
Q 042011          102 H--------QHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNF----RCHI  169 (361)
Q Consensus       102 ~--------l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l----~~~~  169 (361)
                      .        |++|+.+++.+ .++ .++...|.++++|+.+++++|.+....+.+|..+.++..+....+..    . .+
T Consensus        91 ~~~~~~~~g~~~L~~l~L~~-~i~-~I~~~aF~~~~~L~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~-~i  167 (329)
T 3sb4_A           91 NVVNGVTKGKQTLEKVILSE-KIK-NIEDAAFKGCDNLKICQIRKKTAPNLLPEALADSVTAIFIPLGSSDAYRFKN-RW  167 (329)
T ss_dssp             EEETTEEEECTTCCC-CBCT-TCC-EECTTTTTTCTTCCEEEBCCSSCCEECTTSSCTTTCEEEECTTCTHHHHTST-TT
T ss_pred             ccccccccccCCCcEEECCc-ccc-chhHHHhhcCcccceEEcCCCCccccchhhhcCCCceEEecCcchhhhhccc-cc
Confidence            6        77777777777 665 56666677777777777777777666666777666666665544211    1 12


Q ss_pred             ChhhhccCCCcc--------------------------EEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhh
Q 042011          170 PVEIGDILPSLK--------------------------FFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLA  223 (361)
Q Consensus       170 ~~~~~~~l~~L~--------------------------~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~  223 (361)
                      ....+..+..|+                          .+.+.++-...........+++|+++++++|.++ .++...|
T Consensus       168 ~~~~f~~~~~L~~~i~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n~i~-~I~~~aF  246 (329)
T 3sb4_A          168 EHFAFIEGEPLETTIQVGAMGKLEDEIMKAGLQPRDINFLTIEGKLDNADFKLIRDYMPNLVSLDISKTNAT-TIPDFTF  246 (329)
T ss_dssp             TTSCEEESCCCEEEEEECTTCCHHHHHHHTTCCGGGCSEEEEEECCCHHHHHHHHHHCTTCCEEECTTBCCC-EECTTTT
T ss_pred             cccccccccccceeEEecCCCcHHHHHhhcccCccccceEEEeeeecHHHHHHHHHhcCCCeEEECCCCCcc-eecHhhh
Confidence            222222233444                          3333222111000001112677777777777777 7777777


Q ss_pred             hCCCCCcEEEeecCCCCCcccccccCCCCCC-EEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcce
Q 042011          224 VGCVNLESLALSNNSLEGHMFSRNFNLTNLE-WLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLF  302 (361)
Q Consensus       224 ~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~-~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~  302 (361)
                      .++++|+.+++.+| ++.+....|.++++|+ .+++.+ .++...+.+|.++++|+.+++++|.++...+.+|.++++|+
T Consensus       247 ~~~~~L~~l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~-~l~~I~~~aF~~c~~L~~l~l~~n~i~~I~~~aF~~~~~L~  324 (329)
T 3sb4_A          247 AQKKYLLKIKLPHN-LKTIGQRVFSNCGRLAGTLELPA-SVTAIEFGAFMGCDNLRYVLATGDKITTLGDELFGNGVPSK  324 (329)
T ss_dssp             TTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEEECT-TCCEECTTTTTTCTTEEEEEECSSCCCEECTTTTCTTCCCC
T ss_pred             hCCCCCCEEECCcc-cceehHHHhhCChhccEEEEEcc-cceEEchhhhhCCccCCEEEeCCCccCccchhhhcCCcchh
Confidence            77777777777776 6666677777777777 777776 66655667777777777777777777766666777777777


Q ss_pred             eec
Q 042011          303 NLS  305 (361)
Q Consensus       303 ~l~  305 (361)
                      .++
T Consensus       325 ~ly  327 (329)
T 3sb4_A          325 LIY  327 (329)
T ss_dssp             EEE
T ss_pred             hhc
Confidence            664

>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=99.80  E-value=3.3e-19  Score=147.57  Aligned_cols=153  Identities=18%  Similarity=0.205  Sum_probs=88.1

Q ss_pred             hcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCC
Q 042011          126 ENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLR  205 (361)
Q Consensus       126 ~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~  205 (361)
                      ..+++|++|++++|.+.. ++ .+..+++|++|++++|.++ .++ .+.. +++|++|++++|.+++..+..+..+++|+
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~~L~  115 (197)
T 4ezg_A           41 AQMNSLTYITLANINVTD-LT-GIEYAHNIKDLTINNIHAT-NYN-PISG-LSNLERLRIMGKDVTSDKIPNLSGLTSLT  115 (197)
T ss_dssp             HHHHTCCEEEEESSCCSC-CT-TGGGCTTCSEEEEESCCCS-CCG-GGTT-CTTCCEEEEECTTCBGGGSCCCTTCTTCC
T ss_pred             hhcCCccEEeccCCCccC-hH-HHhcCCCCCEEEccCCCCC-cch-hhhc-CCCCCEEEeECCccCcccChhhcCCCCCC
Confidence            345666777777776663 33 4666666777777766554 332 3333 66666666666666655566666666666


Q ss_pred             EEeccCCcCccccchhhhhCCCCCcEEEeecCC-CCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcC
Q 042011          206 VLDLSNNQLTGEIPEHLAVGCVNLESLALSNNS-LEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNN  284 (361)
Q Consensus       206 ~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~  284 (361)
                      +|++++|.+++..+..+. .+++|++|++++|. ++.. + .+..+++|+.|++++|++++ ++ .+..+++|+.|++++
T Consensus       116 ~L~Ls~n~i~~~~~~~l~-~l~~L~~L~L~~n~~i~~~-~-~l~~l~~L~~L~l~~n~i~~-~~-~l~~l~~L~~L~l~~  190 (197)
T 4ezg_A          116 LLDISHSAHDDSILTKIN-TLPKVNSIDLSYNGAITDI-M-PLKTLPELKSLNIQFDGVHD-YR-GIEDFPKLNQLYAFS  190 (197)
T ss_dssp             EEECCSSBCBGGGHHHHT-TCSSCCEEECCSCTBCCCC-G-GGGGCSSCCEEECTTBCCCC-CT-TGGGCSSCCEEEECB
T ss_pred             EEEecCCccCcHhHHHHh-hCCCCCEEEccCCCCcccc-H-hhcCCCCCCEEECCCCCCcC-hH-HhccCCCCCEEEeeC
Confidence            666666666643444443 56666666666665 4442 2 45556666666666666653 22 455556666666666


Q ss_pred             Cccc
Q 042011          285 NSLS  288 (361)
Q Consensus       285 N~l~  288 (361)
                      |+|.
T Consensus       191 N~i~  194 (197)
T 4ezg_A          191 QTIG  194 (197)
T ss_dssp             C---
T ss_pred             cccC
Confidence            6554

>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=99.80  E-value=7.6e-19  Score=145.40  Aligned_cols=154  Identities=16%  Similarity=0.200  Sum_probs=108.3

Q ss_pred             CCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCC
Q 042011          150 HSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNL  229 (361)
Q Consensus       150 ~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L  229 (361)
                      ..+++|++|++++|.++ .++ .+.. +++|++|++++|.++ . +..+..+++|++|++++|.+++..+..+. .+++|
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~~L  114 (197)
T 4ezg_A           41 AQMNSLTYITLANINVT-DLT-GIEY-AHNIKDLTINNIHAT-N-YNPISGLSNLERLRIMGKDVTSDKIPNLS-GLTSL  114 (197)
T ss_dssp             HHHHTCCEEEEESSCCS-CCT-TGGG-CTTCSEEEEESCCCS-C-CGGGTTCTTCCEEEEECTTCBGGGSCCCT-TCTTC
T ss_pred             hhcCCccEEeccCCCcc-ChH-HHhc-CCCCCEEEccCCCCC-c-chhhhcCCCCCEEEeECCccCcccChhhc-CCCCC
Confidence            55667788888888877 666 3433 778888888888665 2 33577778888888888887754555554 67788


Q ss_pred             cEEEeecCCCCCcccccccCCCCCCEEeccCCc-CCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeecccc
Q 042011          230 ESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNR-FVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNS  308 (361)
Q Consensus       230 ~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~  308 (361)
                      ++|++++|++++..+..+..+++|+.|++++|+ ++ .++ .+..+++|+.|++++|++++. + .+..+++|++|++++
T Consensus       115 ~~L~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~-~~~-~l~~l~~L~~L~l~~n~i~~~-~-~l~~l~~L~~L~l~~  190 (197)
T 4ezg_A          115 TLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAIT-DIM-PLKTLPELKSLNIQFDGVHDY-R-GIEDFPKLNQLYAFS  190 (197)
T ss_dssp             CEEECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCC-CCG-GGGGCSSCCEEECTTBCCCCC-T-TGGGCSSCCEEEECB
T ss_pred             CEEEecCCccCcHhHHHHhhCCCCCEEEccCCCCcc-ccH-hhcCCCCCCEEECCCCCCcCh-H-HhccCCCCCEEEeeC
Confidence            888888888877667777778888888888887 55 344 577778888888888887753 3 567777888888888


Q ss_pred             ccccC
Q 042011          309 RRFTS  313 (361)
Q Consensus       309 N~~~~  313 (361)
                      |++.+
T Consensus       191 N~i~~  195 (197)
T 4ezg_A          191 QTIGG  195 (197)
T ss_dssp             C----
T ss_pred             cccCC
Confidence            77654

>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=99.79  E-value=4.4e-19  Score=146.15  Aligned_cols=138  Identities=22%  Similarity=0.188  Sum_probs=77.8

Q ss_pred             cEEEecCCccccccCccccCCCCCCEEeccCCcCccccch-hhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEecc
Q 042011          181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPE-HLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLG  259 (361)
Q Consensus       181 ~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~-~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~  259 (361)
                      +.+++++|.++ .+|..+.  .++++|++++|.++ .++. ..+..+++|++|++++|++++..+..+..+++|+.|+++
T Consensus        11 ~~l~~s~~~l~-~ip~~~~--~~l~~L~l~~n~i~-~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls   86 (192)
T 1w8a_A           11 TTVDCTGRGLK-EIPRDIP--LHTTELLLNDNELG-RISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLG   86 (192)
T ss_dssp             TEEECTTSCCS-SCCSCCC--TTCSEEECCSCCCC-SBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             CEEEcCCCCcC-cCccCCC--CCCCEEECCCCcCC-ccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECC
Confidence            34444444443 3333222  14555555555554 3332 223355566666666666655555556666666666666


Q ss_pred             CCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcccccccc
Q 042011          260 GNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLN  322 (361)
Q Consensus       260 ~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~  322 (361)
                      +|++++..+..|..+++|++|++++|++++..|..+..+++|++|++++|+|+|.++..++..
T Consensus        87 ~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~c~c~l~~~~~  149 (192)
T 1w8a_A           87 ENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFNCNCHLAWFAE  149 (192)
T ss_dssp             SCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBCCSGGGHHHHH
T ss_pred             CCcCCccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCCCccCcCcchHHHH
Confidence            666665555556666666666666666666666666666666666666666666665544443

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=99.78  E-value=1.3e-17  Score=152.75  Aligned_cols=270  Identities=12%  Similarity=0.090  Sum_probs=215.8

Q ss_pred             hhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcC
Q 042011           23 LVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYH  102 (361)
Q Consensus        23 ~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~  102 (361)
                      +..+..++.+.+.++ ++ .++..+|.++ +|+.+.+..+ ++......   |.. .+|+.+.+ .+ .+..+....|..
T Consensus       109 ~~~~~~l~~i~ip~~-i~-~I~~~aF~~~-~L~~i~l~~~-i~~I~~~a---F~~-~~L~~i~l-p~-~l~~I~~~aF~~  178 (401)
T 4fdw_A          109 TEILKGYNEIILPNS-VK-SIPKDAFRNS-QIAKVVLNEG-LKSIGDMA---FFN-STVQEIVF-PS-TLEQLKEDIFYY  178 (401)
T ss_dssp             EEECSSCSEEECCTT-CC-EECTTTTTTC-CCSEEECCTT-CCEECTTT---TTT-CCCCEEEC-CT-TCCEECSSTTTT
T ss_pred             EEecCCccEEEECCc-cC-EehHhhcccC-CccEEEeCCC-ccEECHHh---cCC-CCceEEEe-CC-CccEehHHHhhC
Confidence            445678888888764 55 5666788875 7999998876 55544444   333 37999998 54 566667788999


Q ss_pred             CCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccE
Q 042011          103 QHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKF  182 (361)
Q Consensus       103 l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~  182 (361)
                      |++|+.++++.|.++ .++...|. ..+|+.+.+..+ +......+|..+++|+.+++..+ ++ .++...|.. .+|+.
T Consensus       179 c~~L~~l~l~~n~l~-~I~~~aF~-~~~L~~l~lp~~-l~~I~~~aF~~~~~L~~l~l~~~-l~-~I~~~aF~~-~~L~~  252 (401)
T 4fdw_A          179 CYNLKKADLSKTKIT-KLPASTFV-YAGIEEVLLPVT-LKEIGSQAFLKTSQLKTIEIPEN-VS-TIGQEAFRE-SGITT  252 (401)
T ss_dssp             CTTCCEEECTTSCCS-EECTTTTT-TCCCSEEECCTT-CCEECTTTTTTCTTCCCEECCTT-CC-EECTTTTTT-CCCSE
T ss_pred             cccCCeeecCCCcce-EechhhEe-ecccCEEEeCCc-hheehhhHhhCCCCCCEEecCCC-cc-Ccccccccc-CCccE
Confidence            999999999999998 77777677 589999999854 66667888999999999999875 55 788888875 79999


Q ss_pred             EEecCCccccccCccccCCCCCCEEeccCCcCc----cccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEec
Q 042011          183 FNISMNALDGSIPSSFGNMNFLRVLDLSNNQLT----GEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQL  258 (361)
Q Consensus       183 L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~----~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L  258 (361)
                      +.+. +.++.....+|.++++|+.+.+.++.+.    ..++...|.++++|+.+.+. +.++.+....|.+|++|+.+.+
T Consensus       253 i~lp-~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~-~~i~~I~~~aF~~c~~L~~l~l  330 (401)
T 4fdw_A          253 VKLP-NGVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIP-ESIRILGQGLLGGNRKVTQLTI  330 (401)
T ss_dssp             EEEE-TTCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCC-TTCCEECTTTTTTCCSCCEEEE
T ss_pred             EEeC-CCccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeC-CceEEEhhhhhcCCCCccEEEE
Confidence            9995 4466466788999999999999887653    14778888899999999998 5588888889999999999999


Q ss_pred             cCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcC-cceeecccccccc
Q 042011          259 GGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPAN-TLFNLSQNSRRFT  312 (361)
Q Consensus       259 ~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~-~L~~l~l~~N~~~  312 (361)
                      ..+ ++.....+|.++ +|+.+++++|.+....+..|.+++ .+..|.+-.+.+.
T Consensus       331 p~~-l~~I~~~aF~~~-~L~~l~l~~n~~~~l~~~~F~~~~~~l~~l~vp~~~~~  383 (401)
T 4fdw_A          331 PAN-VTQINFSAFNNT-GIKEVKVEGTTPPQVFEKVWYGFPDDITVIRVPAESVE  383 (401)
T ss_dssp             CTT-CCEECTTSSSSS-CCCEEEECCSSCCBCCCSSCCCSCTTCCEEEECGGGHH
T ss_pred             Ccc-ccEEcHHhCCCC-CCCEEEEcCCCCcccccccccCCCCCccEEEeCHHHHH
Confidence            665 666777899999 999999999999877777888874 7888888876654

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.78  E-value=1.9e-18  Score=142.41  Aligned_cols=139  Identities=23%  Similarity=0.203  Sum_probs=107.6

Q ss_pred             cEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccC
Q 042011          181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGG  260 (361)
Q Consensus       181 ~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~  260 (361)
                      +.+++++|.++ .+|..+  .+++++|++++|.++ .+|..+. .+++|++|++++|.+++..+..|..+++|+.|++++
T Consensus        13 ~~l~~~~~~l~-~ip~~~--~~~l~~L~L~~n~i~-~ip~~~~-~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~   87 (193)
T 2wfh_A           13 TVVRCSNKGLK-VLPKGI--PRDVTELYLDGNQFT-LVPKELS-NYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSY   87 (193)
T ss_dssp             TEEECTTSCCS-SCCSCC--CTTCCEEECCSSCCC-SCCGGGG-GCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CEEEcCCCCCC-cCCCCC--CCCCCEEECCCCcCc-hhHHHhh-cccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCC
Confidence            45666666666 455433  246777777777777 6775443 678888888888888877777788888888888888


Q ss_pred             CcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcccccccccc
Q 042011          261 NRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLH  324 (361)
Q Consensus       261 n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~~  324 (361)
                      |++++..+..|..+++|+.|++++|+++...+..|..+++|+.|++++|++.|++...++..|.
T Consensus        88 N~l~~i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~C~c~l~~l~~~~  151 (193)
T 2wfh_A           88 NRLRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANPLYCDCNMQWLSDWV  151 (193)
T ss_dssp             SCCCBCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSCEECSGGGHHHHHHH
T ss_pred             CccCEeCHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCCCeecCCcCHHHHHHH
Confidence            8888777778888889999999999998766677888899999999999999888877766653

>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=99.78  E-value=1.1e-21  Score=187.53  Aligned_cols=210  Identities=20%  Similarity=0.184  Sum_probs=123.4

Q ss_pred             hccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCC
Q 042011           24 VHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQ  103 (361)
Q Consensus        24 ~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l  103 (361)
                      ..+++|+.|+|++|+++ .+| ..+.++++|+.|++++|......+.         .+      ..+...+..|..+..+
T Consensus       346 ~~~~~L~~L~Ls~n~L~-~Lp-~~i~~l~~L~~L~l~~n~~l~~l~~---------ll------~~~~~~~~~~~~l~~l  408 (567)
T 1dce_A          346 ATDEQLFRCELSVEKST-VLQ-SELESCKELQELEPENKWCLLTIIL---------LM------RALDPLLYEKETLQYF  408 (567)
T ss_dssp             STTTTSSSCCCCHHHHH-HHH-HHHHHHHHHHHHCTTCHHHHHHHHH---------HH------HHHCTGGGHHHHHHHH
T ss_pred             ccCccceeccCChhhHH-hhH-HHHHHHHHHHHhccccchhhhhHHH---------HH------HhcccccCCHHHHHHH
Confidence            34566667777777665 566 4566666677776655431100000         00      0111122344445555


Q ss_pred             CCccEEE-ecCCcccCCcChHH-----Hh--cCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhc
Q 042011          104 HDLALVD-LSHIKMNGEFPTWL-----LE--NNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGD  175 (361)
Q Consensus       104 ~~L~~L~-l~~n~l~~~~~~~~-----~~--~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~  175 (361)
                      ++|+.|+ ++.|.+. .++...     +.  ....|+.|++++|.+++ +|. +..+++|+.|++++|.++ .+|..+..
T Consensus       409 ~~L~~L~~l~~n~~~-~L~~l~l~~n~i~~l~~~~L~~L~Ls~n~l~~-lp~-~~~l~~L~~L~Ls~N~l~-~lp~~~~~  484 (567)
T 1dce_A          409 STLKAVDPMRAAYLD-DLRSKFLLENSVLKMEYADVRVLHLAHKDLTV-LCH-LEQLLLVTHLDLSHNRLR-ALPPALAA  484 (567)
T ss_dssp             HHHHHHCGGGHHHHH-HHHHHHHHHHHHHHHHHTTCSEEECTTSCCSS-CCC-GGGGTTCCEEECCSSCCC-CCCGGGGG
T ss_pred             HhcccCcchhhcccc-hhhhhhhhcccccccCccCceEEEecCCCCCC-CcC-ccccccCcEeecCccccc-ccchhhhc
Confidence            5555555 3333322 111100     00  11247777787777775 454 777777888888888777 77776655


Q ss_pred             cCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCcccc-chhhhhCCCCCcEEEeecCCCCCcccc---cccCCC
Q 042011          176 ILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEI-PEHLAVGCVNLESLALSNNSLEGHMFS---RNFNLT  251 (361)
Q Consensus       176 ~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~-~~~~~~~~~~L~~L~L~~n~l~~~~~~---~~~~~~  251 (361)
                       +++|+.|++++|.+++ +| .++.+++|++|++++|.+++.. |..+. .+++|+.|++++|.+++..+.   .+..++
T Consensus       485 -l~~L~~L~Ls~N~l~~-lp-~l~~l~~L~~L~Ls~N~l~~~~~p~~l~-~l~~L~~L~L~~N~l~~~~~~~~~l~~~lp  560 (567)
T 1dce_A          485 -LRCLEVLQASDNALEN-VD-GVANLPRLQELLLCNNRLQQSAAIQPLV-SCPRLVLLNLQGNSLCQEEGIQERLAEMLP  560 (567)
T ss_dssp             -CTTCCEEECCSSCCCC-CG-GGTTCSSCCEEECCSSCCCSSSTTGGGG-GCTTCCEEECTTSGGGGSSSCTTHHHHHCT
T ss_pred             -CCCCCEEECCCCCCCC-Cc-ccCCCCCCcEEECCCCCCCCCCCcHHHh-cCCCCCEEEecCCcCCCCccHHHHHHHHCc
Confidence             7788888888887774 55 6777788888888888877433 55554 677888888888877764332   123467


Q ss_pred             CCCEEec
Q 042011          252 NLEWLQL  258 (361)
Q Consensus       252 ~L~~L~L  258 (361)
                      +|+.|++
T Consensus       561 ~L~~L~l  567 (567)
T 1dce_A          561 SVSSILT  567 (567)
T ss_dssp             TCSEEEC
T ss_pred             ccCccCC
Confidence            7777754

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.78  E-value=4.9e-19  Score=153.26  Aligned_cols=169  Identities=18%  Similarity=0.211  Sum_probs=137.2

Q ss_pred             ccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEE
Q 042011           79 FQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFL  158 (361)
Q Consensus        79 ~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L  158 (361)
                      .++..+++ +.+.+++..  .+..+++|+.|++++|.++ .++ . +..+++|++|++++|++++..+  +..+++|++|
T Consensus        19 ~~l~~l~l-~~~~i~~~~--~~~~l~~L~~L~l~~n~i~-~l~-~-l~~l~~L~~L~L~~N~i~~~~~--l~~l~~L~~L   90 (263)
T 1xeu_A           19 ANAVKQNL-GKQSVTDLV--SQKELSGVQNFNGDNSNIQ-SLA-G-MQFFTNLKELHLSHNQISDLSP--LKDLTKLEEL   90 (263)
T ss_dssp             HHHHHHHH-TCSCTTSEE--CHHHHTTCSEEECTTSCCC-CCT-T-GGGCTTCCEEECCSSCCCCCGG--GTTCSSCCEE
T ss_pred             HHHHHHHh-cCCCccccc--chhhcCcCcEEECcCCCcc-cch-H-HhhCCCCCEEECCCCccCCChh--hccCCCCCEE
Confidence            36677788 777777543  5778899999999999987 666 3 7789999999999999986544  8889999999


Q ss_pred             EccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCC
Q 042011          159 DISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNS  238 (361)
Q Consensus       159 ~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~  238 (361)
                      ++++|+++ .++....   ++|++|++++|.+++ ++ .+..+++|++|++++|.++ .++ .+ ..+++|++|++++|+
T Consensus        91 ~L~~N~l~-~l~~~~~---~~L~~L~L~~N~l~~-~~-~l~~l~~L~~L~Ls~N~i~-~~~-~l-~~l~~L~~L~L~~N~  161 (263)
T 1xeu_A           91 SVNRNRLK-NLNGIPS---ACLSRLFLDNNELRD-TD-SLIHLKNLEILSIRNNKLK-SIV-ML-GFLSKLEVLDLHGNE  161 (263)
T ss_dssp             ECCSSCCS-CCTTCCC---SSCCEEECCSSCCSB-SG-GGTTCTTCCEEECTTSCCC-BCG-GG-GGCTTCCEEECTTSC
T ss_pred             ECCCCccC-CcCcccc---CcccEEEccCCccCC-Ch-hhcCcccccEEECCCCcCC-CCh-HH-ccCCCCCEEECCCCc
Confidence            99999998 5664332   789999999999984 33 5888999999999999998 565 33 378999999999999


Q ss_pred             CCCcccccccCCCCCCEEeccCCcCCcc
Q 042011          239 LEGHMFSRNFNLTNLEWLQLGGNRFVGE  266 (361)
Q Consensus       239 l~~~~~~~~~~~~~L~~L~L~~n~l~~~  266 (361)
                      +++.  ..+..+++|+.|++++|++.+.
T Consensus       162 i~~~--~~l~~l~~L~~L~l~~N~~~~~  187 (263)
T 1xeu_A          162 ITNT--GGLTRLKKVNWIDLTGQKCVNE  187 (263)
T ss_dssp             CCBC--TTSTTCCCCCEEEEEEEEEECC
T ss_pred             Ccch--HHhccCCCCCEEeCCCCcccCC
Confidence            9875  6788889999999999988754

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=99.77  E-value=2.1e-17  Score=151.35  Aligned_cols=247  Identities=10%  Similarity=-0.004  Sum_probs=196.4

Q ss_pred             ccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhc
Q 042011           48 LFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLEN  127 (361)
Q Consensus        48 ~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~  127 (361)
                      +..+..++.+.+..+ ++......   |..+ +|+.+.+ ..+ +..+...+|.++ +|+.+.+.. .+. .++...|.+
T Consensus       109 ~~~~~~l~~i~ip~~-i~~I~~~a---F~~~-~L~~i~l-~~~-i~~I~~~aF~~~-~L~~i~lp~-~l~-~I~~~aF~~  178 (401)
T 4fdw_A          109 TEILKGYNEIILPNS-VKSIPKDA---FRNS-QIAKVVL-NEG-LKSIGDMAFFNS-TVQEIVFPS-TLE-QLKEDIFYY  178 (401)
T ss_dssp             EEECSSCSEEECCTT-CCEECTTT---TTTC-CCSEEEC-CTT-CCEECTTTTTTC-CCCEEECCT-TCC-EECSSTTTT
T ss_pred             EEecCCccEEEECCc-cCEehHhh---cccC-CccEEEe-CCC-ccEECHHhcCCC-CceEEEeCC-Ccc-EehHHHhhC
Confidence            445688899998854 55444444   3443 7999998 544 666677788885 799999986 565 666666999


Q ss_pred             CCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEE
Q 042011          128 NTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVL  207 (361)
Q Consensus       128 ~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L  207 (361)
                      +++|+.+++..|++......+|. ..+|+.+.+..+ ++ .++...|..+++|+.+++..+ ++.....+|.+ .+|+.+
T Consensus       179 c~~L~~l~l~~n~l~~I~~~aF~-~~~L~~l~lp~~-l~-~I~~~aF~~~~~L~~l~l~~~-l~~I~~~aF~~-~~L~~i  253 (401)
T 4fdw_A          179 CYNLKKADLSKTKITKLPASTFV-YAGIEEVLLPVT-LK-EIGSQAFLKTSQLKTIEIPEN-VSTIGQEAFRE-SGITTV  253 (401)
T ss_dssp             CTTCCEEECTTSCCSEECTTTTT-TCCCSEEECCTT-CC-EECTTTTTTCTTCCCEECCTT-CCEECTTTTTT-CCCSEE
T ss_pred             cccCCeeecCCCcceEechhhEe-ecccCEEEeCCc-hh-eehhhHhhCCCCCCEEecCCC-ccCcccccccc-CCccEE
Confidence            99999999999998876677777 588999999854 76 788888888899999999875 55455667777 789999


Q ss_pred             eccCCcCccccchhhhhCCCCCcEEEeecCCCC-----CcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEEC
Q 042011          208 DLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE-----GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYL  282 (361)
Q Consensus       208 ~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~-----~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l  282 (361)
                      .+. +.++ .++...|.++++|+.+.+.+|.+.     .+....|.+|++|+.+++.+ .++.....+|.++++|+.+++
T Consensus       254 ~lp-~~i~-~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~~-~i~~I~~~aF~~c~~L~~l~l  330 (401)
T 4fdw_A          254 KLP-NGVT-NIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIPE-SIRILGQGLLGGNRKVTQLTI  330 (401)
T ss_dssp             EEE-TTCC-EECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCCT-TCCEECTTTTTTCCSCCEEEE
T ss_pred             EeC-CCcc-EEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeCC-ceEEEhhhhhcCCCCccEEEE
Confidence            994 5576 788888889999999999988765     46778899999999999984 577677789999999999999


Q ss_pred             cCCcccccCCCCCCCcCcceeeccccccccCC
Q 042011          283 NNNSLSGNVNVPSSPANTLFNLSQNSRRFTSS  314 (361)
Q Consensus       283 ~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~  314 (361)
                      .+| ++...+.+|.++ +|+.+++.+|.....
T Consensus       331 p~~-l~~I~~~aF~~~-~L~~l~l~~n~~~~l  360 (401)
T 4fdw_A          331 PAN-VTQINFSAFNNT-GIKEVKVEGTTPPQV  360 (401)
T ss_dssp             CTT-CCEECTTSSSSS-CCCEEEECCSSCCBC
T ss_pred             Ccc-ccEEcHHhCCCC-CCCEEEEcCCCCccc
Confidence            665 776777889999 999999999977653

>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=99.76  E-value=1.3e-20  Score=180.15  Aligned_cols=196  Identities=22%  Similarity=0.220  Sum_probs=132.6

Q ss_pred             cCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCc-------------ccCCCCCCcCCCCCcCEEE-ccCCcCC
Q 042011          101 YHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDS-------------LTGPFRLPIHSHRWLEFLD-ISNNNFR  166 (361)
Q Consensus       101 ~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~-------------l~~~~~~~~~~l~~L~~L~-l~~n~l~  166 (361)
                      ..++.|+.|++++|.++ .+|.. ++.+++|+.|++++|.             ..+..|..+..+++|+.|+ ++.|.+.
T Consensus       346 ~~~~~L~~L~Ls~n~L~-~Lp~~-i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~~l~~l~~L~~L~~l~~n~~~  423 (567)
T 1dce_A          346 ATDEQLFRCELSVEKST-VLQSE-LESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLD  423 (567)
T ss_dssp             STTTTSSSCCCCHHHHH-HHHHH-HHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHH
T ss_pred             ccCccceeccCChhhHH-hhHHH-HHHHHHHHHhccccchhhhhHHHHHHhcccccCCHHHHHHHHhcccCcchhhcccc
Confidence            45778888888888887 77776 6778888888876653             3344455566666777776 5555433


Q ss_pred             ccCChh------hhc-cCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCC
Q 042011          167 CHIPVE------IGD-ILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL  239 (361)
Q Consensus       167 ~~~~~~------~~~-~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l  239 (361)
                       .++..      +.. ....|+.|++++|.+++ +|. +..+++|++|++++|.++ .+|..+. .+++|+.|++++|++
T Consensus       424 -~L~~l~l~~n~i~~l~~~~L~~L~Ls~n~l~~-lp~-~~~l~~L~~L~Ls~N~l~-~lp~~~~-~l~~L~~L~Ls~N~l  498 (567)
T 1dce_A          424 -DLRSKFLLENSVLKMEYADVRVLHLAHKDLTV-LCH-LEQLLLVTHLDLSHNRLR-ALPPALA-ALRCLEVLQASDNAL  498 (567)
T ss_dssp             -HHHHHHHHHHHHHHHHHTTCSEEECTTSCCSS-CCC-GGGGTTCCEEECCSSCCC-CCCGGGG-GCTTCCEEECCSSCC
T ss_pred             -hhhhhhhhcccccccCccCceEEEecCCCCCC-CcC-ccccccCcEeecCccccc-ccchhhh-cCCCCCEEECCCCCC
Confidence             22210      000 01257778888888773 555 777788888888888887 7777665 677888888888888


Q ss_pred             CCcccccccCCCCCCEEeccCCcCCccc-hhhhhcCCCCCEEECcCCcccccCCCCC---CCcCcceeec
Q 042011          240 EGHMFSRNFNLTNLEWLQLGGNRFVGEI-PQSLSKCSSLEGLYLNNNSLSGNVNVPS---SPANTLFNLS  305 (361)
Q Consensus       240 ~~~~~~~~~~~~~L~~L~L~~n~l~~~~-~~~~~~l~~L~~L~l~~N~l~~~~~~~~---~~~~~L~~l~  305 (361)
                      ++ +| .++.+++|+.|++++|++++.. |..+..+++|+.|++++|.+++.+|...   ..+++|+.|+
T Consensus       499 ~~-lp-~l~~l~~L~~L~Ls~N~l~~~~~p~~l~~l~~L~~L~L~~N~l~~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          499 EN-VD-GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             CC-CG-GGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEEE
T ss_pred             CC-Cc-ccCCCCCCcEEECCCCCCCCCCCcHHHhcCCCCCEEEecCCcCCCCccHHHHHHHHCcccCccC
Confidence            77 34 6777788888888888887665 7777778888888888888876554321   2256666654

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.73  E-value=3.2e-17  Score=133.20  Aligned_cols=132  Identities=20%  Similarity=0.203  Sum_probs=86.3

Q ss_pred             cEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccC
Q 042011          181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGG  260 (361)
Q Consensus       181 ~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~  260 (361)
                      +.++++++.++ .+|..+  .++|++|++++|.++ .++...+..+++|++|++++|++++..+..+..+++|+.|++++
T Consensus        10 ~~l~~~~~~l~-~~p~~~--~~~l~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~   85 (177)
T 2o6r_A           10 TEIRCNSKGLT-SVPTGI--PSSATRLELESNKLQ-SLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHE   85 (177)
T ss_dssp             TEEECCSSCCS-SCCTTC--CTTCSEEECCSSCCC-CCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CEEEecCCCCc-cCCCCC--CCCCcEEEeCCCccc-EeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCC
Confidence            44555555554 333222  245666666666665 44444434566666666666666665555566777777777777


Q ss_pred             CcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcc
Q 042011          261 NRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSIS  316 (361)
Q Consensus       261 n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~  316 (361)
                      |++++..+..+..+++|+.|++++|++++..+..+..+++|++|++++|++++.++
T Consensus        86 N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~~~  141 (177)
T 2o6r_A           86 NKLQSLPNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCP  141 (177)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCCCHH
T ss_pred             CCccccCHHHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEEecCCCeeccCc
Confidence            77776666667777788888888888876666566777888888888888887766

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.72  E-value=2.8e-18  Score=168.85  Aligned_cols=182  Identities=21%  Similarity=0.278  Sum_probs=116.6

Q ss_pred             CCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhh
Q 042011           95 IFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIG  174 (361)
Q Consensus        95 ~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~  174 (361)
                      ..+..+..++.|+.|++++|.+. .+|..+ ..+++|++|+|++|.++ .+|..+..+++|+.|++++|+++ .+|..+.
T Consensus       215 ~~~~~~~~l~~L~~L~Ls~n~l~-~l~~~~-~~l~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L~Ls~N~l~-~lp~~~~  290 (727)
T 4b8c_D          215 MPKDSKYDDQLWHALDLSNLQIF-NISANI-FKYDFLTRLYLNGNSLT-ELPAEIKNLSNLRVLDLSHNRLT-SLPAELG  290 (727)
T ss_dssp             -------CCCCCCEEECTTSCCS-CCCGGG-GGCCSCSCCBCTTSCCS-CCCGGGGGGTTCCEEECTTSCCS-SCCSSGG
T ss_pred             cChhhhccCCCCcEEECCCCCCC-CCChhh-cCCCCCCEEEeeCCcCc-ccChhhhCCCCCCEEeCcCCcCC-ccChhhc
Confidence            45677888999999999999998 787774 48899999999999998 67888899999999999999998 8888876


Q ss_pred             ccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCC
Q 042011          175 DILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLE  254 (361)
Q Consensus       175 ~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~  254 (361)
                      . +++|++|+|++|.++ .+|..|+.+++|++|++++|.+++.+|..+.........+++++|.+++..|.      .|+
T Consensus       291 ~-l~~L~~L~L~~N~l~-~lp~~~~~l~~L~~L~L~~N~l~~~~p~~~~~~~~~~~~l~l~~N~l~~~~p~------~l~  362 (727)
T 4b8c_D          291 S-CFQLKYFYFFDNMVT-TLPWEFGNLCNLQFLGVEGNPLEKQFLKILTEKSVTGLIFYLRDNRPEIPLPH------ERR  362 (727)
T ss_dssp             G-GTTCSEEECCSSCCC-CCCSSTTSCTTCCCEECTTSCCCSHHHHHHHHHHHHHHHHHHHHCCCCCCCCC------C--
T ss_pred             C-CCCCCEEECCCCCCC-ccChhhhcCCCccEEeCCCCccCCCChHHHhhcchhhhHHhhccCcccCcCcc------ccc
Confidence            6 889999999999997 77888999999999999999999777766542112233477888888776554      455


Q ss_pred             EEeccCC--------cCCccchhhhhcCCCCCEEECcCCccc
Q 042011          255 WLQLGGN--------RFVGEIPQSLSKCSSLEGLYLNNNSLS  288 (361)
Q Consensus       255 ~L~L~~n--------~l~~~~~~~~~~l~~L~~L~l~~N~l~  288 (361)
                      .|+++.|        .+.+..+..+..+.++....++.|-+.
T Consensus       363 ~l~l~~n~~~~~~~~~l~~~~~~~~~~l~~~~~~~ls~Nil~  404 (727)
T 4b8c_D          363 FIEINTDGEPQREYDSLQQSTEHLATDLAKRTFTVLSYNTLC  404 (727)
T ss_dssp             ---------------------------------------CCC
T ss_pred             eeEeecccccccccCCccccccchhhcccccceeeeeccccc
Confidence            6666666        233333344445555666666777664

>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=99.72  E-value=5.6e-17  Score=133.52  Aligned_cols=129  Identities=26%  Similarity=0.340  Sum_probs=71.4

Q ss_pred             CEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCc-cccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEe
Q 042011          156 EFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPS-SFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLAL  234 (361)
Q Consensus       156 ~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L  234 (361)
                      +.+++++|+++ .+|..++.   ++++|++++|.+++..+. .|..+++|++|++++|.+++..|..+ ..+++|++|++
T Consensus        11 ~~l~~s~~~l~-~ip~~~~~---~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~-~~l~~L~~L~L   85 (192)
T 1w8a_A           11 TTVDCTGRGLK-EIPRDIPL---HTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAF-EGASHIQELQL   85 (192)
T ss_dssp             TEEECTTSCCS-SCCSCCCT---TCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTT-TTCTTCCEEEC
T ss_pred             CEEEcCCCCcC-cCccCCCC---CCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHc-CCcccCCEEEC
Confidence            45555555554 55544322   555556655555533332 25555566666666666552223333 25556666666


Q ss_pred             ecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccc
Q 042011          235 SNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG  289 (361)
Q Consensus       235 ~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~  289 (361)
                      ++|++++..+..+..+++|+.|++++|++++..|..+..+++|+.|++++|.+.+
T Consensus        86 s~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~c  140 (192)
T 1w8a_A           86 GENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFNC  140 (192)
T ss_dssp             CSCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBCC
T ss_pred             CCCcCCccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCCCccC
Confidence            6666655555555566666666666666665555566666666666666666654

>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=99.71  E-value=8.1e-17  Score=129.59  Aligned_cols=133  Identities=20%  Similarity=0.112  Sum_probs=82.6

Q ss_pred             CCcCEEEccCCcCC-ccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcE
Q 042011          153 RWLEFLDISNNNFR-CHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLES  231 (361)
Q Consensus       153 ~~L~~L~l~~n~l~-~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~  231 (361)
                      ++|++|++++|.++ +.+|..+.. +++|++|++++|.+++.  ..+..+++|++|++++|.+.+.+|..+. .+++|++
T Consensus        24 ~~L~~L~l~~n~l~~~~i~~~~~~-l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~N~l~~~~~~~~~-~l~~L~~   99 (168)
T 2ell_A           24 AAVRELVLDNCKSNDGKIEGLTAE-FVNLEFLSLINVGLISV--SNLPKLPKLKKLELSENRIFGGLDMLAE-KLPNLTH   99 (168)
T ss_dssp             TSCSEEECCSCBCBTTBCSSCCGG-GGGCCEEEEESSCCCCC--SSCCCCSSCCEEEEESCCCCSCCCHHHH-HCTTCCE
T ss_pred             ccCCEEECCCCCCChhhHHHHHHh-CCCCCEEeCcCCCCCCh--hhhccCCCCCEEECcCCcCchHHHHHHh-hCCCCCE
Confidence            45666666666665 345544333 56666666666666633  5566667777777777777633444333 5677777


Q ss_pred             EEeecCCCCCccc-ccccCCCCCCEEeccCCcCCccch---hhhhcCCCCCEEECcCCcccc
Q 042011          232 LALSNNSLEGHMF-SRNFNLTNLEWLQLGGNRFVGEIP---QSLSKCSSLEGLYLNNNSLSG  289 (361)
Q Consensus       232 L~L~~n~l~~~~~-~~~~~~~~L~~L~L~~n~l~~~~~---~~~~~l~~L~~L~l~~N~l~~  289 (361)
                      |++++|.+++... ..+..+++|+.|++++|++++..+   ..+..+++|+.|++++|.+..
T Consensus       100 L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~~~~  161 (168)
T 2ell_A          100 LNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDREDQE  161 (168)
T ss_dssp             EECBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEETTSCB
T ss_pred             EeccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCCChhh
Confidence            7777777766322 556667777777777777764433   366667777777777776653

>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=99.70  E-value=4e-17  Score=131.39  Aligned_cols=135  Identities=22%  Similarity=0.192  Sum_probs=118.1

Q ss_pred             CCCccEEEecCCccc-cccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCE
Q 042011          177 LPSLKFFNISMNALD-GSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEW  255 (361)
Q Consensus       177 l~~L~~L~L~~n~l~-~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~  255 (361)
                      .++|++|++++|.++ +.+|..+..+++|++|++++|.++ .+ ..+ ..+++|++|++++|++++..+..+..+++|+.
T Consensus        23 ~~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~-~~-~~~-~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~   99 (168)
T 2ell_A           23 PAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLI-SV-SNL-PKLPKLKKLELSENRIFGGLDMLAEKLPNLTH   99 (168)
T ss_dssp             TTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCC-CC-SSC-CCCSSCCEEEEESCCCCSCCCHHHHHCTTCCE
T ss_pred             cccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCC-Ch-hhh-ccCCCCCEEECcCCcCchHHHHHHhhCCCCCE
Confidence            478999999999997 678888899999999999999998 55 333 47999999999999999877778878999999


Q ss_pred             EeccCCcCCccc-hhhhhcCCCCCEEECcCCcccccCC---CCCCCcCcceeeccccccccCC
Q 042011          256 LQLGGNRFVGEI-PQSLSKCSSLEGLYLNNNSLSGNVN---VPSSPANTLFNLSQNSRRFTSS  314 (361)
Q Consensus       256 L~L~~n~l~~~~-~~~~~~l~~L~~L~l~~N~l~~~~~---~~~~~~~~L~~l~l~~N~~~~~  314 (361)
                      |++++|++++.. +..+..+++|+.|++++|.+++..+   ..+..+++|++|++.+|.+...
T Consensus       100 L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~  162 (168)
T 2ell_A          100 LNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDREDQEA  162 (168)
T ss_dssp             EECBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEETTSCBC
T ss_pred             EeccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCCChhhc
Confidence            999999999643 2789999999999999999997554   3788999999999999998753

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.70  E-value=1.3e-16  Score=131.36  Aligned_cols=128  Identities=23%  Similarity=0.282  Sum_probs=94.1

Q ss_pred             CEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEee
Q 042011          156 EFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALS  235 (361)
Q Consensus       156 ~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~  235 (361)
                      +.+++++++++ .+|..+.   +++++|++++|.++ .+|..|..+++|++|++++|.++ .++...+..+++|++|+++
T Consensus        13 ~~l~~~~~~l~-~ip~~~~---~~l~~L~L~~n~i~-~ip~~~~~l~~L~~L~Ls~N~i~-~i~~~~f~~l~~L~~L~Ls   86 (193)
T 2wfh_A           13 TVVRCSNKGLK-VLPKGIP---RDVTELYLDGNQFT-LVPKELSNYKHLTLIDLSNNRIS-TLSNQSFSNMTQLLTLILS   86 (193)
T ss_dssp             TEEECTTSCCS-SCCSCCC---TTCCEEECCSSCCC-SCCGGGGGCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECC
T ss_pred             CEEEcCCCCCC-cCCCCCC---CCCCEEECCCCcCc-hhHHHhhcccCCCEEECCCCcCC-EeCHhHccCCCCCCEEECC
Confidence            46777777776 6665543   46777777777776 56677777777777777777777 5555545577778888888


Q ss_pred             cCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccc
Q 042011          236 NNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG  289 (361)
Q Consensus       236 ~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~  289 (361)
                      +|++++..+..|..+++|+.|++++|++++..+..|..+++|+.|++++|.+..
T Consensus        87 ~N~l~~i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~C  140 (193)
T 2wfh_A           87 YNRLRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANPLYC  140 (193)
T ss_dssp             SSCCCBCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSCEEC
T ss_pred             CCccCEeCHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCCCeec
Confidence            888877777777778888888888888876555667778888888888887764

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.69  E-value=2.3e-16  Score=128.10  Aligned_cols=132  Identities=21%  Similarity=0.245  Sum_probs=100.0

Q ss_pred             cCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEe
Q 042011          155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLAL  234 (361)
Q Consensus       155 L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L  234 (361)
                      .+.+++++++++ .+|..+.   ++|++|++++|.+++..+..|..+++|++|++++|.++ .++...+..+++|++|++
T Consensus         9 ~~~l~~~~~~l~-~~p~~~~---~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l   83 (177)
T 2o6r_A            9 GTEIRCNSKGLT-SVPTGIP---SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQ-SLPDGVFDKLTKLTILYL   83 (177)
T ss_dssp             TTEEECCSSCCS-SCCTTCC---TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCC-CCCTTTTTTCTTCCEEEC
T ss_pred             CCEEEecCCCCc-cCCCCCC---CCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcce-EeChhHccCCCccCEEEC
Confidence            466777777776 6665443   57888888888887555566777888888888888887 666655557888888888


Q ss_pred             ecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccC
Q 042011          235 SNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV  291 (361)
Q Consensus       235 ~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~  291 (361)
                      ++|++++..+..+..+++|+.|++++|++++..+..+..+++|+.|++++|.+.+..
T Consensus        84 ~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~~  140 (177)
T 2o6r_A           84 HENKLQSLPNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSC  140 (177)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCCCH
T ss_pred             CCCCccccCHHHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEEecCCCeeccC
Confidence            888888766666778888888888888888666666777888888888888887543

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.69  E-value=5e-17  Score=159.99  Aligned_cols=117  Identities=24%  Similarity=0.357  Sum_probs=54.5

Q ss_pred             HhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCC
Q 042011          125 LENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFL  204 (361)
Q Consensus       125 ~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L  204 (361)
                      +..++.|+.|++++|.+. .++..+..+++|++|++++|.++ .+|..+.. +++|++|+|++|.++ .+|..|..+++|
T Consensus       220 ~~~l~~L~~L~Ls~n~l~-~l~~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~-l~~L~~L~Ls~N~l~-~lp~~~~~l~~L  295 (727)
T 4b8c_D          220 KYDDQLWHALDLSNLQIF-NISANIFKYDFLTRLYLNGNSLT-ELPAEIKN-LSNLRVLDLSHNRLT-SLPAELGSCFQL  295 (727)
T ss_dssp             --CCCCCCEEECTTSCCS-CCCGGGGGCCSCSCCBCTTSCCS-CCCGGGGG-GTTCCEEECTTSCCS-SCCSSGGGGTTC
T ss_pred             hccCCCCcEEECCCCCCC-CCChhhcCCCCCCEEEeeCCcCc-ccChhhhC-CCCCCEEeCcCCcCC-ccChhhcCCCCC
Confidence            444445555555555444 23333334445555555555554 44444433 445555555555554 444444455555


Q ss_pred             CEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccc
Q 042011          205 RVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRN  247 (361)
Q Consensus       205 ~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~  247 (361)
                      ++|++++|.++ .+|..+. .+++|+.|+|++|.+++..+..+
T Consensus       296 ~~L~L~~N~l~-~lp~~~~-~l~~L~~L~L~~N~l~~~~p~~~  336 (727)
T 4b8c_D          296 KYFYFFDNMVT-TLPWEFG-NLCNLQFLGVEGNPLEKQFLKIL  336 (727)
T ss_dssp             SEEECCSSCCC-CCCSSTT-SCTTCCCEECTTSCCCSHHHHHH
T ss_pred             CEEECCCCCCC-ccChhhh-cCCCccEEeCCCCccCCCChHHH
Confidence            55555555544 4444432 44455555555555544444333

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.68  E-value=1.7e-16  Score=125.10  Aligned_cols=127  Identities=20%  Similarity=0.202  Sum_probs=72.3

Q ss_pred             CCcCEEEccCCcCC-ccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcE
Q 042011          153 RWLEFLDISNNNFR-CHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLES  231 (361)
Q Consensus       153 ~~L~~L~l~~n~l~-~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~  231 (361)
                      ++++.|++++|.++ +.+|..+.. +++|++|++++|.+++.  ..+..+++|++|++++|.+++.+|..+. .+++|++
T Consensus        17 ~~l~~L~l~~n~l~~~~~~~~~~~-l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~n~i~~~~~~~~~-~l~~L~~   92 (149)
T 2je0_A           17 SDVKELVLDNSRSNEGKLEGLTDE-FEELEFLSTINVGLTSI--ANLPKLNKLKKLELSDNRVSGGLEVLAE-KCPNLTH   92 (149)
T ss_dssp             GGCSEEECTTCBCBTTBCCSCCTT-CTTCCEEECTTSCCCCC--TTCCCCTTCCEEECCSSCCCSCTHHHHH-HCTTCCE
T ss_pred             ccCeEEEccCCcCChhHHHHHHhh-cCCCcEEECcCCCCCCc--hhhhcCCCCCEEECCCCcccchHHHHhh-hCCCCCE
Confidence            44555666666554 344443332 55666666666666533  4455666666666666666633444332 4666666


Q ss_pred             EEeecCCCCCc-ccccccCCCCCCEEeccCCcCCccch---hhhhcCCCCCEEECc
Q 042011          232 LALSNNSLEGH-MFSRNFNLTNLEWLQLGGNRFVGEIP---QSLSKCSSLEGLYLN  283 (361)
Q Consensus       232 L~L~~n~l~~~-~~~~~~~~~~L~~L~L~~n~l~~~~~---~~~~~l~~L~~L~l~  283 (361)
                      |++++|.+++. .+..+..+++|+.|++++|++++..+   ..+..+++|+.|+++
T Consensus        93 L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           93 LNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             EECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             EECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccCC
Confidence            66666666653 22555666666666666666664433   356666666666654

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=99.68  E-value=1.4e-15  Score=139.51  Aligned_cols=203  Identities=17%  Similarity=0.074  Sum_probs=120.1

Q ss_pred             CchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCC---------
Q 042011           96 FPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFR---------  166 (361)
Q Consensus        96 ~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~---------  166 (361)
                      ...+|..|++|+.+.+..+. . .++...|.++.+|+.+++..+ +......+|..+..|+.+.+..+...         
T Consensus       154 ~~~aF~~c~~L~~i~l~~~~-~-~I~~~~F~~c~~L~~i~l~~~-~~~I~~~~F~~~~~L~~i~~~~~~~~i~~~~~~~~  230 (394)
T 4fs7_A          154 GDEAFATCESLEYVSLPDSM-E-TLHNGLFSGCGKLKSIKLPRN-LKIIRDYCFAECILLENMEFPNSLYYLGDFALSKT  230 (394)
T ss_dssp             CTTTTTTCTTCCEEECCTTC-C-EECTTTTTTCTTCCBCCCCTT-CCEECTTTTTTCTTCCBCCCCTTCCEECTTTTTTC
T ss_pred             chhhhcccCCCcEEecCCcc-c-eeccccccCCCCceEEEcCCC-ceEeCchhhccccccceeecCCCceEeehhhcccC
Confidence            34567788888888886543 2 455555778888888877654 33334455666666666555443221         


Q ss_pred             -----------ccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEee
Q 042011          167 -----------CHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALS  235 (361)
Q Consensus       167 -----------~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~  235 (361)
                                 ..+....+..+..++.+.+..+... .....|..+..++.+.....    .++...+..+.+|+.+.+.
T Consensus       231 ~l~~i~ip~~~~~i~~~~f~~~~~l~~~~~~~~~~~-i~~~~F~~~~~l~~~~~~~~----~i~~~~F~~~~~L~~i~l~  305 (394)
T 4fs7_A          231 GVKNIIIPDSFTELGKSVFYGCTDLESISIQNNKLR-IGGSLFYNCSGLKKVIYGSV----IVPEKTFYGCSSLTEVKLL  305 (394)
T ss_dssp             CCCEEEECTTCCEECSSTTTTCSSCCEEEECCTTCE-ECSCTTTTCTTCCEEEECSS----EECTTTTTTCTTCCEEEEC
T ss_pred             CCceEEECCCceecccccccccccceeEEcCCCcce-eeccccccccccceeccCce----eeccccccccccccccccc
Confidence                       0222223333444444444443322 33344455555555544432    2344445567777777775


Q ss_pred             cCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccc
Q 042011          236 NNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSR  309 (361)
Q Consensus       236 ~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N  309 (361)
                      .+ ++.+....|.++++|+.+++..+ ++.....+|.++.+|+.+++..+ ++.....+|.++.+|+.+++..+
T Consensus       306 ~~-i~~I~~~aF~~c~~L~~i~lp~~-v~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~C~~L~~i~lp~~  376 (394)
T 4fs7_A          306 DS-VKFIGEEAFESCTSLVSIDLPYL-VEEIGKRSFRGCTSLSNINFPLS-LRKIGANAFQGCINLKKVELPKR  376 (394)
T ss_dssp             TT-CCEECTTTTTTCTTCCEECCCTT-CCEECTTTTTTCTTCCEECCCTT-CCEECTTTBTTCTTCCEEEEEGG
T ss_pred             cc-cceechhhhcCCCCCCEEEeCCc-ccEEhHHhccCCCCCCEEEECcc-ccEehHHHhhCCCCCCEEEECCC
Confidence            43 55556667777777887777543 55455677777778888877766 65555667777777777777543

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.67  E-value=6.8e-17  Score=127.32  Aligned_cols=129  Identities=22%  Similarity=0.197  Sum_probs=109.8

Q ss_pred             CCCccEEEecCCccc-cccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCE
Q 042011          177 LPSLKFFNISMNALD-GSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEW  255 (361)
Q Consensus       177 l~~L~~L~L~~n~l~-~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~  255 (361)
                      .++++.|++++|.++ +.+|..+..+++|++|++++|.++ .+ ..+ ..+++|++|++++|.+++..+..+..+++|+.
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~-~~-~~~-~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~   92 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLT-SI-ANL-PKLNKLKKLELSDNRVSGGLEVLAEKCPNLTH   92 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCC-CC-TTC-CCCTTCCEEECCSSCCCSCTHHHHHHCTTCCE
T ss_pred             CccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCC-Cc-hhh-hcCCCCCEEECCCCcccchHHHHhhhCCCCCE
Confidence            468999999999998 678888899999999999999998 44 333 47899999999999999877777878999999


Q ss_pred             EeccCCcCCcc-chhhhhcCCCCCEEECcCCcccccCC---CCCCCcCcceeecccc
Q 042011          256 LQLGGNRFVGE-IPQSLSKCSSLEGLYLNNNSLSGNVN---VPSSPANTLFNLSQNS  308 (361)
Q Consensus       256 L~L~~n~l~~~-~~~~~~~l~~L~~L~l~~N~l~~~~~---~~~~~~~~L~~l~l~~  308 (361)
                      |++++|++++. .+..+..+++|++|++++|.+++..+   ..+..+++|+.|++++
T Consensus        93 L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~d  149 (149)
T 2je0_A           93 LNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDGYD  149 (149)
T ss_dssp             EECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETTBC
T ss_pred             EECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccCCC
Confidence            99999999864 34788999999999999999987655   4678889999998863

>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=99.65  E-value=5.8e-16  Score=125.54  Aligned_cols=134  Identities=22%  Similarity=0.201  Sum_probs=89.5

Q ss_pred             cCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCC
Q 042011          149 IHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVN  228 (361)
Q Consensus       149 ~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~  228 (361)
                      +..+++|++|++++|.++ .++. +....++|++|++++|.+++.  ..+..+++|++|++++|.++ .+|..++..+++
T Consensus        15 ~~~~~~L~~L~l~~n~l~-~i~~-~~~~~~~L~~L~Ls~N~l~~~--~~l~~l~~L~~L~Ls~N~l~-~~~~~~~~~l~~   89 (176)
T 1a9n_A           15 YTNAVRDRELDLRGYKIP-VIEN-LGATLDQFDAIDFSDNEIRKL--DGFPLLRRLKTLLVNNNRIC-RIGEGLDQALPD   89 (176)
T ss_dssp             EECTTSCEEEECTTSCCC-SCCC-GGGGTTCCSEEECCSSCCCEE--CCCCCCSSCCEEECCSSCCC-EECSCHHHHCTT
T ss_pred             cCCcCCceEEEeeCCCCc-hhHH-hhhcCCCCCEEECCCCCCCcc--cccccCCCCCEEECCCCccc-ccCcchhhcCCC
Confidence            445667777777777776 5543 444345788888888877743  56777777888888888777 566555446777


Q ss_pred             CcEEEeecCCCCCccc-ccccCCCCCCEEeccCCcCCccchh----hhhcCCCCCEEECcCCccc
Q 042011          229 LESLALSNNSLEGHMF-SRNFNLTNLEWLQLGGNRFVGEIPQ----SLSKCSSLEGLYLNNNSLS  288 (361)
Q Consensus       229 L~~L~L~~n~l~~~~~-~~~~~~~~L~~L~L~~n~l~~~~~~----~~~~l~~L~~L~l~~N~l~  288 (361)
                      |++|++++|+++.... ..+..+++|+.|++++|+++. .|.    .+..+++|+.||+++|.+.
T Consensus        90 L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~i~~-~~~~~~~~~~~l~~L~~Ld~~~n~~~  153 (176)
T 1a9n_A           90 LTELILTNNSLVELGDLDPLASLKSLTYLCILRNPVTN-KKHYRLYVIYKVPQVRVLDFQKVKLK  153 (176)
T ss_dssp             CCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGG-STTHHHHHHHHCTTCSEETTEECCHH
T ss_pred             CCEEECCCCcCCcchhhHhhhcCCCCCEEEecCCCCCC-cHhHHHHHHHHCCccceeCCCcCCHH
Confidence            7777777777765322 256667777777777777763 343    3666777777777776654

>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=99.64  E-value=9e-16  Score=123.64  Aligned_cols=117  Identities=20%  Similarity=0.130  Sum_probs=96.5

Q ss_pred             CCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEEC
Q 042011          203 FLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYL  282 (361)
Q Consensus       203 ~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l  282 (361)
                      ..+++++++|.++ .+|..+   .+++++|++++|++++..+..|..+++|+.|++++|++++..+..|..+++|++|++
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-SVPTGI---PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSL   85 (170)
T ss_dssp             ETTEEECTTSCCS-SCCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCEEEeCCCCcC-ccCccC---CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEEC
Confidence            3567888888887 777654   367888999999988877888888999999999999998777777888999999999


Q ss_pred             cCCcccccCCCCCCCcCcceeeccccccccCCcc-ccccccc
Q 042011          283 NNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSIS-HSHLLNL  323 (361)
Q Consensus       283 ~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~-~~~~~~~  323 (361)
                      ++|+|++..+..|..+++|++|++++|+|++.++ ..++..|
T Consensus        86 ~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~c~c~~l~~l~~~  127 (170)
T 3g39_A           86 NDNQLKSIPRGAFDNLKSLTHIWLLNNPWDCACSDILYLSRW  127 (170)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCBCTTBGGGHHHHHH
T ss_pred             CCCccCEeCHHHhcCCCCCCEEEeCCCCCCCCchhHHHHHHH
Confidence            9999998777778899999999999999998876 4444444

>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=99.61  E-value=2.5e-15  Score=121.84  Aligned_cols=134  Identities=15%  Similarity=0.146  Sum_probs=85.2

Q ss_pred             hcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCC
Q 042011          100 LYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS  179 (361)
Q Consensus       100 l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~  179 (361)
                      +..+.+|+.|++++|.++ .++.. ....++|++|++++|.+++.  ..+..+++|++|++++|+++ .+|..++..+++
T Consensus        15 ~~~~~~L~~L~l~~n~l~-~i~~~-~~~~~~L~~L~Ls~N~l~~~--~~l~~l~~L~~L~Ls~N~l~-~~~~~~~~~l~~   89 (176)
T 1a9n_A           15 YTNAVRDRELDLRGYKIP-VIENL-GATLDQFDAIDFSDNEIRKL--DGFPLLRRLKTLLVNNNRIC-RIGEGLDQALPD   89 (176)
T ss_dssp             EECTTSCEEEECTTSCCC-SCCCG-GGGTTCCSEEECCSSCCCEE--CCCCCCSSCCEEECCSSCCC-EECSCHHHHCTT
T ss_pred             cCCcCCceEEEeeCCCCc-hhHHh-hhcCCCCCEEECCCCCCCcc--cccccCCCCCEEECCCCccc-ccCcchhhcCCC
Confidence            455677777777777776 44432 33334777777777777653  56667777777777777776 555555444677


Q ss_pred             ccEEEecCCccccccCc--cccCCCCCCEEeccCCcCccccchh---hhhCCCCCcEEEeecCCCC
Q 042011          180 LKFFNISMNALDGSIPS--SFGNMNFLRVLDLSNNQLTGEIPEH---LAVGCVNLESLALSNNSLE  240 (361)
Q Consensus       180 L~~L~L~~n~l~~~~~~--~l~~~~~L~~L~l~~n~l~~~~~~~---~~~~~~~L~~L~L~~n~l~  240 (361)
                      |++|++++|.++ .+|.  .+..+++|++|++++|.+. .+|..   .+..+++|+.|++++|...
T Consensus        90 L~~L~L~~N~i~-~~~~~~~l~~l~~L~~L~l~~N~i~-~~~~~~~~~~~~l~~L~~Ld~~~n~~~  153 (176)
T 1a9n_A           90 LTELILTNNSLV-ELGDLDPLASLKSLTYLCILRNPVT-NKKHYRLYVIYKVPQVRVLDFQKVKLK  153 (176)
T ss_dssp             CCEEECCSCCCC-CGGGGGGGGGCTTCCEEECCSSGGG-GSTTHHHHHHHHCTTCSEETTEECCHH
T ss_pred             CCEEECCCCcCC-cchhhHhhhcCCCCCEEEecCCCCC-CcHhHHHHHHHHCCccceeCCCcCCHH
Confidence            777777777775 4443  5666677777777777766 55543   2235666666666665543

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.60  E-value=2.9e-15  Score=121.03  Aligned_cols=116  Identities=19%  Similarity=0.171  Sum_probs=93.0

Q ss_pred             CCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECc
Q 042011          204 LRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLN  283 (361)
Q Consensus       204 L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~  283 (361)
                      -+.+++++|.++ .+|..+   .++|++|++++|++++..+..+..+++|+.|+|++|++++..+..|..+++|+.|+++
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-SVPAGI---PTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLN   89 (174)
T ss_dssp             SSEEECCSSCCS-SCCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CcEEEeCCCCCC-ccCCCc---CCCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECC
Confidence            367888888887 777654   3678888888888888778888888899999999999887666667888999999999


Q ss_pred             CCcccccCCCCCCCcCcceeeccccccccCCcc-ccccccc
Q 042011          284 NNSLSGNVNVPSSPANTLFNLSQNSRRFTSSIS-HSHLLNL  323 (361)
Q Consensus       284 ~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~-~~~~~~~  323 (361)
                      +|+|++..+..|..+++|++|++++|+|.+.++ ..++..|
T Consensus        90 ~N~l~~l~~~~~~~l~~L~~L~L~~N~~~c~~~~~~~l~~~  130 (174)
T 2r9u_A           90 DNHLKSIPRGAFDNLKSLTHIYLYNNPWDCECRDIMYLRNW  130 (174)
T ss_dssp             SSCCCCCCTTTTTTCTTCSEEECCSSCBCTTBGGGHHHHHH
T ss_pred             CCccceeCHHHhccccCCCEEEeCCCCcccccccHHHHHHH
Confidence            999987666678888999999999999988775 3344444

>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=99.60  E-value=1.6e-17  Score=137.50  Aligned_cols=108  Identities=29%  Similarity=0.327  Sum_probs=47.4

Q ss_pred             CCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEE
Q 042011          177 LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWL  256 (361)
Q Consensus       177 l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L  256 (361)
                      +++|++|++++|.+++ +| .+..+++|++|++++|.++ .+|..+. .+++|++|++++|++++. + .+..+++|+.|
T Consensus        47 l~~L~~L~ls~n~l~~-l~-~~~~l~~L~~L~l~~n~l~-~l~~~~~-~~~~L~~L~L~~N~l~~l-~-~~~~l~~L~~L  120 (198)
T 1ds9_A           47 LKACKHLALSTNNIEK-IS-SLSGMENLRILSLGRNLIK-KIENLDA-VADTLEELWISYNQIASL-S-GIEKLVNLRVL  120 (198)
T ss_dssp             TTTCSEEECSEEEESC-CC-CHHHHTTCCEEEEEEEEEC-SCSSHHH-HHHHCSEEEEEEEECCCH-H-HHHHHHHSSEE
T ss_pred             CCCCCEEECCCCCCcc-cc-ccccCCCCCEEECCCCCcc-cccchhh-cCCcCCEEECcCCcCCcC-C-ccccCCCCCEE
Confidence            4444444444444442 33 3444444444444444444 3443222 234444444444444441 1 33444445555


Q ss_pred             eccCCcCCccch-hhhhcCCCCCEEECcCCccccc
Q 042011          257 QLGGNRFVGEIP-QSLSKCSSLEGLYLNNNSLSGN  290 (361)
Q Consensus       257 ~L~~n~l~~~~~-~~~~~l~~L~~L~l~~N~l~~~  290 (361)
                      ++++|++++..+ ..+..+++|+.|++++|.+++.
T Consensus       121 ~l~~N~i~~~~~~~~l~~l~~L~~L~l~~N~l~~~  155 (198)
T 1ds9_A          121 YMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYND  155 (198)
T ss_dssp             EESEEECCCHHHHHHHTTTTTCSEEEECSCHHHHH
T ss_pred             ECCCCcCCchhHHHHHhcCCCCCEEEecCCccccc
Confidence            555555443211 2444455555555555555443

>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=99.60  E-value=1e-17  Score=138.73  Aligned_cols=156  Identities=21%  Similarity=0.250  Sum_probs=128.6

Q ss_pred             HhcCCCCcEEEecCCcccCCCCC------CcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccc
Q 042011          125 LENNTKLETLFLVNDSLTGPFRL------PIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSF  198 (361)
Q Consensus       125 ~~~~~~L~~L~l~~n~l~~~~~~------~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l  198 (361)
                      +.....++.++++.+.+.+..|.      .+..+++|++|++++|+++ .+| .+.. +++|++|++++|.++ .+|..+
T Consensus        14 ~~~~~~l~~l~l~~~~l~~~~~~l~~l~~~~~~l~~L~~L~ls~n~l~-~l~-~~~~-l~~L~~L~l~~n~l~-~l~~~~   89 (198)
T 1ds9_A           14 FEERKSVVATEAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIE-KIS-SLSG-MENLRILSLGRNLIK-KIENLD   89 (198)
T ss_dssp             HHHTTCCCCTTCSEEECCBCCTTCCCCHHHHHHTTTCSEEECSEEEES-CCC-CHHH-HTTCCEEEEEEEEEC-SCSSHH
T ss_pred             HHhcccccCcchheeEeccccCcHhhhhHHHhcCCCCCEEECCCCCCc-ccc-cccc-CCCCCEEECCCCCcc-cccchh
Confidence            45677888888888888877666      7888999999999999998 677 5544 899999999999998 678777


Q ss_pred             cCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCccc-ccccCCCCCCEEeccCCcCCccchh--------
Q 042011          199 GNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMF-SRNFNLTNLEWLQLGGNRFVGEIPQ--------  269 (361)
Q Consensus       199 ~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~-~~~~~~~~L~~L~L~~n~l~~~~~~--------  269 (361)
                      ..+++|++|++++|.++ .+| .+. .+++|++|++++|++++... ..+..+++|+.|++++|++.+..|.        
T Consensus        90 ~~~~~L~~L~L~~N~l~-~l~-~~~-~l~~L~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~  166 (198)
T 1ds9_A           90 AVADTLEELWISYNQIA-SLS-GIE-KLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYR  166 (198)
T ss_dssp             HHHHHCSEEEEEEEECC-CHH-HHH-HHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSCHHHHHHHTTTTHHHHH
T ss_pred             hcCCcCCEEECcCCcCC-cCC-ccc-cCCCCCEEECCCCcCCchhHHHHHhcCCCCCEEEecCCccccccccccchHHHH
Confidence            77899999999999998 666 343 68999999999999987443 5788999999999999999766543        


Q ss_pred             --hhhcCCCCCEEECcCCcccc
Q 042011          270 --SLSKCSSLEGLYLNNNSLSG  289 (361)
Q Consensus       270 --~~~~l~~L~~L~l~~N~l~~  289 (361)
                        .+..+++|+.||  +|.++.
T Consensus       167 ~~~~~~l~~L~~Ld--~~~i~~  186 (198)
T 1ds9_A          167 IEVVKRLPNLKKLD--GMPVDV  186 (198)
T ss_dssp             HHHHHHCSSCSEEC--CGGGTT
T ss_pred             HHHHHhCCCcEEEC--CcccCH
Confidence              377888999886  666653

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=99.58  E-value=1.2e-13  Score=126.60  Aligned_cols=112  Identities=13%  Similarity=0.218  Sum_probs=76.7

Q ss_pred             CccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcC
Q 042011          195 PSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKC  274 (361)
Q Consensus       195 ~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l  274 (361)
                      ..+|.++..|+.+.+..+. . .+....|.+++.|+.+.+. +.++.+....|.++.+|+.+++..+ ++.....+|.++
T Consensus       258 ~~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          258 THAFDSCAYLASVKMPDSV-V-SIGTGAFMNCPALQDIEFS-SRITELPESVFAGCISLKSIDIPEG-ITQILDDAFAGC  333 (394)
T ss_dssp             TTTTTTCSSCCEEECCTTC-C-EECTTTTTTCTTCCEEECC-TTCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTC
T ss_pred             cceeeecccccEEeccccc-c-eecCcccccccccccccCC-CcccccCceeecCCCCcCEEEeCCc-ccEehHhHhhCC
Confidence            3467777778887776543 2 4555666677778887775 4566666677777788888887654 554556777778


Q ss_pred             CCCCEEECcCCcccccCCCCCCCcCcceeeccccccc
Q 042011          275 SSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRF  311 (361)
Q Consensus       275 ~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~  311 (361)
                      .+|+.+.+..+ ++.....+|.++.+|+.+++.++..
T Consensus       334 ~~L~~i~ip~s-v~~I~~~aF~~C~~L~~i~~~~~~~  369 (394)
T 4gt6_A          334 EQLERIAIPSS-VTKIPESAFSNCTALNNIEYSGSRS  369 (394)
T ss_dssp             TTCCEEEECTT-CCBCCGGGGTTCTTCCEEEESSCHH
T ss_pred             CCCCEEEECcc-cCEEhHhHhhCCCCCCEEEECCcee
Confidence            88888887654 5555556777788888887777643

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=99.58  E-value=6e-14  Score=128.56  Aligned_cols=286  Identities=13%  Similarity=0.046  Sum_probs=191.0

Q ss_pred             ccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCC
Q 042011           14 LTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDG   93 (361)
Q Consensus        14 i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~   93 (361)
                      ++ .|...+|.+|.+|+.+.+..+ ++ .+...+|.++++|+.+++..+ ++......   +..+.+|+.+.+ .. .+.
T Consensus        59 Vt-sIg~~AF~~c~~L~~i~lp~~-i~-~I~~~aF~~c~~L~~i~lp~~-l~~I~~~a---F~~c~~L~~i~~-p~-~l~  129 (394)
T 4fs7_A           59 VV-SIGYAAFQGCRKVTEIKIPST-VR-EIGEFAFENCSKLEIINIPDS-VKMIGRCT---FSGCYALKSILL-PL-MLK  129 (394)
T ss_dssp             EE-EECTTTTTTCTTEEEEECCTT-CC-EECTTTTTTCTTCCEECCCTT-CCEECTTT---TTTCTTCCCCCC-CT-TCC
T ss_pred             Ee-EhHHHHhhCCCCceEEEeCCC-cc-CcchhHhhCCCCCcEEEeCCC-ceEccchh---hcccccchhhcc-cC-cee
Confidence            55 677779999999999999754 66 677789999999999999865 44333333   667778888776 32 344


Q ss_pred             CCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhh
Q 042011           94 FIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEI  173 (361)
Q Consensus        94 ~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~  173 (361)
                      .....+|..+...+.......  . .+....|.++++|+.+.+..+. .......|..+.+|+.+.+..+ ++ .++...
T Consensus       130 ~i~~~aF~~~~~~~~~~~~~~--~-~i~~~aF~~c~~L~~i~l~~~~-~~I~~~~F~~c~~L~~i~l~~~-~~-~I~~~~  203 (394)
T 4fs7_A          130 SIGVEAFKGCDFKEITIPEGV--T-VIGDEAFATCESLEYVSLPDSM-ETLHNGLFSGCGKLKSIKLPRN-LK-IIRDYC  203 (394)
T ss_dssp             EECTTTTTTCCCSEEECCTTC--C-EECTTTTTTCTTCCEEECCTTC-CEECTTTTTTCTTCCBCCCCTT-CC-EECTTT
T ss_pred             eecceeeecccccccccCccc--c-ccchhhhcccCCCcEEecCCcc-ceeccccccCCCCceEEEcCCC-ce-EeCchh
Confidence            455667777765444433332  2 3444558899999999997653 3355678899999999999876 44 566666


Q ss_pred             hccCCCccEEEecCCccc---------------------cccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEE
Q 042011          174 GDILPSLKFFNISMNALD---------------------GSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESL  232 (361)
Q Consensus       174 ~~~l~~L~~L~L~~n~l~---------------------~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L  232 (361)
                      +..++.|+.+.+..+...                     ......|..+..++.+.+..+..  .+....+..+..++..
T Consensus       204 F~~~~~L~~i~~~~~~~~i~~~~~~~~~l~~i~ip~~~~~i~~~~f~~~~~l~~~~~~~~~~--~i~~~~F~~~~~l~~~  281 (394)
T 4fs7_A          204 FAECILLENMEFPNSLYYLGDFALSKTGVKNIIIPDSFTELGKSVFYGCTDLESISIQNNKL--RIGGSLFYNCSGLKKV  281 (394)
T ss_dssp             TTTCTTCCBCCCCTTCCEECTTTTTTCCCCEEEECTTCCEECSSTTTTCSSCCEEEECCTTC--EECSCTTTTCTTCCEE
T ss_pred             hccccccceeecCCCceEeehhhcccCCCceEEECCCceecccccccccccceeEEcCCCcc--eeecccccccccccee
Confidence            665667776665544321                     11122344455555555544322  3334444455556655


Q ss_pred             EeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeecccccccc
Q 042011          233 ALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFT  312 (361)
Q Consensus       233 ~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~  312 (361)
                      ......+   ....|..+.+|+.+.+..+ ++.....+|.++.+|+.+++.++ ++.....+|.++.+|+.+.+..+ ++
T Consensus       282 ~~~~~~i---~~~~F~~~~~L~~i~l~~~-i~~I~~~aF~~c~~L~~i~lp~~-v~~I~~~aF~~c~~L~~i~lp~~-l~  355 (394)
T 4fs7_A          282 IYGSVIV---PEKTFYGCSSLTEVKLLDS-VKFIGEEAFESCTSLVSIDLPYL-VEEIGKRSFRGCTSLSNINFPLS-LR  355 (394)
T ss_dssp             EECSSEE---CTTTTTTCTTCCEEEECTT-CCEECTTTTTTCTTCCEECCCTT-CCEECTTTTTTCTTCCEECCCTT-CC
T ss_pred             ccCceee---ccccccccccccccccccc-cceechhhhcCCCCCCEEEeCCc-ccEEhHHhccCCCCCCEEEECcc-cc
Confidence            5544332   3445778889999998765 66566788999999999999755 77666788999999999999876 43


Q ss_pred             CCccccccccc
Q 042011          313 SSISHSHLLNL  323 (361)
Q Consensus       313 ~~~~~~~~~~~  323 (361)
                       .+....|.+.
T Consensus       356 -~I~~~aF~~C  365 (394)
T 4fs7_A          356 -KIGANAFQGC  365 (394)
T ss_dssp             -EECTTTBTTC
T ss_pred             -EehHHHhhCC
Confidence             3444445443

>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=99.50  E-value=1.1e-13  Score=111.39  Aligned_cols=105  Identities=26%  Similarity=0.294  Sum_probs=62.8

Q ss_pred             cCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEe
Q 042011          155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLAL  234 (361)
Q Consensus       155 L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L  234 (361)
                      .+.+++++|+++ .+|..+.   +++++|++++|.+++..+..|..+++|++|++++|.++ .+|...+..+++|++|++
T Consensus        11 ~~~l~~s~n~l~-~ip~~~~---~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~-~l~~~~f~~l~~L~~L~L   85 (170)
T 3g39_A           11 GTTVDCSGKSLA-SVPTGIP---TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLT-VLPAGVFDKLTQLTQLSL   85 (170)
T ss_dssp             TTEEECTTSCCS-SCCSCCC---TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCC-CCCTTTTTTCTTCCEEEC
T ss_pred             CCEEEeCCCCcC-ccCccCC---CCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcC-ccChhhccCCCCCCEEEC
Confidence            456666666666 5665442   46666666666666555556666666666666666666 555544445566666666


Q ss_pred             ecCCCCCcccccccCCCCCCEEeccCCcCC
Q 042011          235 SNNSLEGHMFSRNFNLTNLEWLQLGGNRFV  264 (361)
Q Consensus       235 ~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~  264 (361)
                      ++|++++..+..+..+++|+.|++++|++.
T Consensus        86 ~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~  115 (170)
T 3g39_A           86 NDNQLKSIPRGAFDNLKSLTHIWLLNNPWD  115 (170)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCBC
T ss_pred             CCCccCEeCHHHhcCCCCCCEEEeCCCCCC
Confidence            666665544445555566666666666554

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=99.49  E-value=1.7e-12  Score=118.83  Aligned_cols=130  Identities=18%  Similarity=0.242  Sum_probs=74.0

Q ss_pred             hhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCC
Q 042011          173 IGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTN  252 (361)
Q Consensus       173 ~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~  252 (361)
                      .|..+..|+.+.+..+... ....+|.+++.|+.+.+. +.++ .++...|.++.+|+.+.+..+ ++.+....|.+|.+
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~~  335 (394)
T 4gt6_A          260 AFDSCAYLASVKMPDSVVS-IGTGAFMNCPALQDIEFS-SRIT-ELPESVFAGCISLKSIDIPEG-ITQILDDAFAGCEQ  335 (394)
T ss_dssp             TTTTCSSCCEEECCTTCCE-ECTTTTTTCTTCCEEECC-TTCC-EECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTT
T ss_pred             eeeecccccEEecccccce-ecCcccccccccccccCC-Cccc-ccCceeecCCCCcCEEEeCCc-ccEehHhHhhCCCC
Confidence            3444556666666544332 444566677777777775 3455 666666666777777777543 55555666777777


Q ss_pred             CCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeecccccc
Q 042011          253 LEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRR  310 (361)
Q Consensus       253 L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~  310 (361)
                      |+.+.+..+ ++.....+|.++++|+.+++.++....   ..+.....|+.+.+..|.
T Consensus       336 L~~i~ip~s-v~~I~~~aF~~C~~L~~i~~~~~~~~~---~~~~~~~~L~~i~i~~~~  389 (394)
T 4gt6_A          336 LERIAIPSS-VTKIPESAFSNCTALNNIEYSGSRSQW---NAISTDSGLQNLPVAPGS  389 (394)
T ss_dssp             CCEEEECTT-CCBCCGGGGTTCTTCCEEEESSCHHHH---HTCBCCCCC---------
T ss_pred             CCEEEECcc-cCEEhHhHhhCCCCCCEEEECCceeeh---hhhhccCCCCEEEeCCCC
Confidence            777777543 554556677777777777777665432   244555666666655443

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.48  E-value=2.1e-13  Score=110.07  Aligned_cols=104  Identities=22%  Similarity=0.261  Sum_probs=65.9

Q ss_pred             CEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEee
Q 042011          156 EFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALS  235 (361)
Q Consensus       156 ~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~  235 (361)
                      +.+++++|+++ .+|..+.   ++|++|++++|.+++..|..|..+++|++|++++|.++ .+|...+..+++|++|+++
T Consensus        15 ~~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           15 TLVNCQNIRLA-SVPAGIP---TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLT-AIPTGVFDKLTQLTQLDLN   89 (174)
T ss_dssp             SEEECCSSCCS-SCCSCCC---TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECC
T ss_pred             cEEEeCCCCCC-ccCCCcC---CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCC-ccChhHhCCcchhhEEECC
Confidence            56677777765 6665543   46777777777776555666666667777777777666 5555544456666666666


Q ss_pred             cCCCCCcccccccCCCCCCEEeccCCcCC
Q 042011          236 NNSLEGHMFSRNFNLTNLEWLQLGGNRFV  264 (361)
Q Consensus       236 ~n~l~~~~~~~~~~~~~L~~L~L~~n~l~  264 (361)
                      +|++++..+..+..+++|+.|++++|++.
T Consensus        90 ~N~l~~l~~~~~~~l~~L~~L~L~~N~~~  118 (174)
T 2r9u_A           90 DNHLKSIPRGAFDNLKSLTHIYLYNNPWD  118 (174)
T ss_dssp             SSCCCCCCTTTTTTCTTCSEEECCSSCBC
T ss_pred             CCccceeCHHHhccccCCCEEEeCCCCcc
Confidence            66666554444556666666666666655

>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=99.46  E-value=1.6e-13  Score=123.53  Aligned_cols=115  Identities=19%  Similarity=0.151  Sum_probs=87.1

Q ss_pred             EEeccCC-cCccccchhhhhCCCCCcEEEeec-CCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECc
Q 042011          206 VLDLSNN-QLTGEIPEHLAVGCVNLESLALSN-NSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLN  283 (361)
Q Consensus       206 ~L~l~~n-~l~~~~~~~~~~~~~~L~~L~L~~-n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~  283 (361)
                      .++.+++ .++ .+|. +. .+++|++|+|++ |.+++..+..|..+++|+.|+|++|+|++..|..|..+++|+.|+|+
T Consensus        12 ~v~~~~~n~l~-~ip~-l~-~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~   88 (347)
T 2ifg_A           12 GLRCTRDGALD-SLHH-LP-GAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLS   88 (347)
T ss_dssp             CEECCSSCCCT-TTTT-SC-SCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECC
T ss_pred             EEEcCCCCCCC-ccCC-CC-CCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCC
Confidence            4567776 677 6777 43 677788888875 88877777778888888888888888887777788888888888888


Q ss_pred             CCcccccCCCCCCCcCcceeeccccccccCCcccccccccc
Q 042011          284 NNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLH  324 (361)
Q Consensus       284 ~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~~  324 (361)
                      +|+|++..+..|..++ |+.|++.+|+|.+.+...++..|.
T Consensus        89 ~N~l~~~~~~~~~~~~-L~~l~l~~N~~~c~c~l~~~~~~~  128 (347)
T 2ifg_A           89 FNALESLSWKTVQGLS-LQELVLSGNPLHCSCALRWLQRWE  128 (347)
T ss_dssp             SSCCSCCCSTTTCSCC-CCEEECCSSCCCCCGGGHHHHHHH
T ss_pred             CCccceeCHHHcccCC-ceEEEeeCCCccCCCccHHHHHHH
Confidence            8888876666666555 888888888888877766666553

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=99.46  E-value=6.2e-15  Score=133.64  Aligned_cols=183  Identities=17%  Similarity=0.113  Sum_probs=102.7

Q ss_pred             CCCcEEEecCCcccCCCCCC----cC-CCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccc-----
Q 042011          129 TKLETLFLVNDSLTGPFRLP----IH-SHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSF-----  198 (361)
Q Consensus       129 ~~L~~L~l~~n~l~~~~~~~----~~-~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l-----  198 (361)
                      +.|++|++++|.++......    +. ..++|++|++++|.+++.....+...+++|+.|++++|.++......+     
T Consensus        72 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~  151 (372)
T 3un9_A           72 SSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLL  151 (372)
T ss_dssp             TTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHH
T ss_pred             hhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHH
Confidence            45555666655554321111    11 124677777777766533333444445567777777777753322222     


Q ss_pred             cCCCCCCEEeccCCcCccc----cchhhhhCCCCCcEEEeecCCCCCcc----cccccCCCCCCEEeccCCcCCcc----
Q 042011          199 GNMNFLRVLDLSNNQLTGE----IPEHLAVGCVNLESLALSNNSLEGHM----FSRNFNLTNLEWLQLGGNRFVGE----  266 (361)
Q Consensus       199 ~~~~~L~~L~l~~n~l~~~----~~~~~~~~~~~L~~L~L~~n~l~~~~----~~~~~~~~~L~~L~L~~n~l~~~----  266 (361)
                      ...++|++|++++|.+++.    ++..+ ...++|++|+|++|.+++..    ...+..+++|+.|+|++|.+++.    
T Consensus       152 ~~~~~L~~L~Ls~n~l~~~~~~~l~~~L-~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~i~~~g~~~  230 (372)
T 3un9_A          152 HDQCQITTLRLSNNPLTAAGVAVLMEGL-AGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNGAGDTAALA  230 (372)
T ss_dssp             STTCCCCEEECCSSCCHHHHHHHHHHHH-HTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSCCCHHHHHH
T ss_pred             hcCCccceeeCCCCCCChHHHHHHHHHH-hcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCCCCHHHHHH
Confidence            2456777788877777622    22222 25677888888888776432    44455667888888888888753    


Q ss_pred             chhhhhcCCCCCEEECcCCcccccCCCCCC---CcC--cceeec--ccccccc
Q 042011          267 IPQSLSKCSSLEGLYLNNNSLSGNVNVPSS---PAN--TLFNLS--QNSRRFT  312 (361)
Q Consensus       267 ~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~---~~~--~L~~l~--l~~N~~~  312 (361)
                      ++..+...++|++|++++|.|++.....+.   ...  .++.+.  +.+|.+.
T Consensus       231 l~~~L~~~~~L~~L~Ls~N~i~~~g~~~L~~~~~~~~~~L~~l~~ll~~~~~~  283 (372)
T 3un9_A          231 LARAAREHPSLELLHLYFNELSSEGRQVLRDLGGAAEGGARVVVSLTEGTAVS  283 (372)
T ss_dssp             HHHHHHHCSSCCEEECTTSSCCHHHHHHHHHCC------CEEECCCC----CH
T ss_pred             HHHHHHhCCCCCEEeccCCCCCHHHHHHHHHHhcCCCccchhhHhhhcCCccC
Confidence            334455668888888888888754332221   112  166666  6666554

>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=99.36  E-value=9.1e-11  Score=106.77  Aligned_cols=283  Identities=12%  Similarity=0.108  Sum_probs=141.8

Q ss_pred             CCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccE
Q 042011            4 LRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNS   83 (361)
Q Consensus         4 L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~   83 (361)
                      |+.+.+.. .++ .|++.+|.+|.+|+.+++..+ ++ .+...+|.++ +|+.+.+..+ ++......   |. ..+|+.
T Consensus        48 i~~v~ip~-~vt-~Ig~~aF~~C~~L~~I~lp~~-v~-~Ig~~aF~~c-~l~~i~~~~~-l~~I~~~a---F~-~~~L~~  117 (379)
T 4h09_A           48 ISEVRVNS-GIT-SIGEANFNSCYNMTKVTVAST-VT-SIGDGAFADT-KLQSYTGMER-VKKFGDYV---FQ-GTDLDD  117 (379)
T ss_dssp             CSEEEECT-TEE-EECTTTTTTCTTCCEEEECTT-CC-EECTTTTTTC-CCCEEEECTT-CCEECTTT---TT-TCCCSE
T ss_pred             CEEEEeCC-Ccc-ChHHHHhhCCCCCCEEEeCCc-ce-EechhhhcCC-CCceEECCce-eeEeccce---ec-cCCccc
Confidence            44444432 244 455556666666666666543 43 4444555554 4555555432 22222111   22 225666


Q ss_pred             EeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccC------------CCCCCcCC
Q 042011           84 LSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTG------------PFRLPIHS  151 (361)
Q Consensus        84 L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~------------~~~~~~~~  151 (361)
                      +.+ ... +.......|..+ .++.+.+..+ ++ .+....|..+..++.+.+..+....            .....+..
T Consensus       118 i~l-p~~-~~~i~~~~F~~~-~l~~~~~~~~-v~-~i~~~~f~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  192 (379)
T 4h09_A          118 FEF-PGA-TTEIGNYIFYNS-SVKRIVIPKS-VT-TIKDGIGYKAENLEKIEVSSNNKNYVAENYVLYNKNKTILESYPA  192 (379)
T ss_dssp             EEC-CTT-CCEECTTTTTTC-CCCEEEECTT-CC-EECSCTTTTCTTCCEEEECTTCSSEEEETTEEEETTSSEEEECCT
T ss_pred             ccC-CCc-cccccccccccc-eeeeeeccce-ee-ccccchhcccccccccccccccceeecccceecccccceeccccc
Confidence            655 222 222222333333 3444443322 11 2222234555566555554332110            00111222


Q ss_pred             CCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcE
Q 042011          152 HRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLES  231 (361)
Q Consensus       152 l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~  231 (361)
                      ...+..+.+.....  .+....+.....++.+.+..+ +.......|.++..|+.+.+..+ ++ .+....+..+.+|+.
T Consensus       193 ~~~~~~~~~~~~~~--~i~~~~f~~~~~l~~i~~~~~-~~~i~~~~f~~~~~L~~i~lp~~-v~-~I~~~aF~~~~~l~~  267 (379)
T 4h09_A          193 AKTGTEFTIPSTVK--TVTAYGFSYGKNLKKITITSG-VTTLGDGAFYGMKALDEIAIPKN-VT-SIGSFLLQNCTALKT  267 (379)
T ss_dssp             TCCCSEEECCTTCC--EECTTTTTTCSSCSEEECCTT-CCEECTTTTTTCSSCCEEEECTT-CC-EECTTTTTTCTTCCE
T ss_pred             ccccccccccccee--EEeecccccccccceeeeccc-eeEEccccccCCccceEEEcCCC-cc-EeCccccceeehhcc
Confidence            23334443333221  122233333456666666543 22234455666777777777654 44 555566666777777


Q ss_pred             EEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeecccc
Q 042011          232 LALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNS  308 (361)
Q Consensus       232 L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~  308 (361)
                      +.+.. .+..+....|.++++|+.+.+.++.++.....+|.++.+|+.+.+..+ ++.....+|.++.+|+.+.+..
T Consensus       268 i~l~~-~i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~C~~L~~i~ip~  342 (379)
T 4h09_A          268 LNFYA-KVKTVPYLLCSGCSNLTKVVMDNSAIETLEPRVFMDCVKLSSVTLPTA-LKTIQVYAFKNCKALSTISYPK  342 (379)
T ss_dssp             EEECC-CCSEECTTTTTTCTTCCEEEECCTTCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCCCCCCT
T ss_pred             ccccc-cceeccccccccccccccccccccccceehhhhhcCCCCCCEEEcCcc-ccEEHHHHhhCCCCCCEEEECC
Confidence            77644 355555566677777777777777666555667777777777777644 5545556677777777776654

>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=2.8e-14  Score=129.37  Aligned_cols=159  Identities=16%  Similarity=0.082  Sum_probs=93.1

Q ss_pred             CCCcEEEecCCcccCCCCCC-cCCCCCcCEEEccCCcCCccCChhhh----ccCCCccEEEecCCcccc----ccCcccc
Q 042011          129 TKLETLFLVNDSLTGPFRLP-IHSHRWLEFLDISNNNFRCHIPVEIG----DILPSLKFFNISMNALDG----SIPSSFG  199 (361)
Q Consensus       129 ~~L~~L~l~~n~l~~~~~~~-~~~l~~L~~L~l~~n~l~~~~~~~~~----~~l~~L~~L~L~~n~l~~----~~~~~l~  199 (361)
                      ++|++|++++|.++...... ...+++|++|++++|.+++.....+.    ...++|++|++++|.++.    .++..+.
T Consensus       101 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~  180 (372)
T 3un9_A          101 HALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLLHDQCQITTLRLSNNPLTAAGVAVLMEGLA  180 (372)
T ss_dssp             SCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHHSTTCCCCEEECCSSCCHHHHHHHHHHHHH
T ss_pred             CCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHHhcCCccceeeCCCCCCChHHHHHHHHHHh
Confidence            45556666655554211111 12234567777777776532222222    224678888888887753    2344456


Q ss_pred             CCCCCCEEeccCCcCcccc----chhhhhCCCCCcEEEeecCCCCCc----ccccccCCCCCCEEeccCCcCCccchhhh
Q 042011          200 NMNFLRVLDLSNNQLTGEI----PEHLAVGCVNLESLALSNNSLEGH----MFSRNFNLTNLEWLQLGGNRFVGEIPQSL  271 (361)
Q Consensus       200 ~~~~L~~L~l~~n~l~~~~----~~~~~~~~~~L~~L~L~~n~l~~~----~~~~~~~~~~L~~L~L~~n~l~~~~~~~~  271 (361)
                      ..++|++|++++|.+++..    ...+ ...++|++|++++|.++..    ....+...++|++|+|++|.|++.....+
T Consensus       181 ~~~~L~~L~Ls~N~l~~~g~~~L~~~L-~~~~~L~~L~Ls~N~i~~~g~~~l~~~L~~~~~L~~L~Ls~N~i~~~g~~~L  259 (372)
T 3un9_A          181 GNTSVTHLSLLHTGLGDEGLELLAAQL-DRNRQLQELNVAYNGAGDTAALALARAAREHPSLELLHLYFNELSSEGRQVL  259 (372)
T ss_dssp             TCSSCCEEECTTSSCHHHHHHHHHHHG-GGCSCCCEEECCSSCCCHHHHHHHHHHHHHCSSCCEEECTTSSCCHHHHHHH
T ss_pred             cCCCcCEEeCCCCCCCcHHHHHHHHHH-hcCCCcCeEECCCCCCCHHHHHHHHHHHHhCCCCCEEeccCCCCCHHHHHHH
Confidence            6778888888888876322    2222 2567888888888888753    23344466889999999999887666666


Q ss_pred             hcCCC-----CCEEE--CcCCccc
Q 042011          272 SKCSS-----LEGLY--LNNNSLS  288 (361)
Q Consensus       272 ~~l~~-----L~~L~--l~~N~l~  288 (361)
                      ..+..     |+.+.  +..+.++
T Consensus       260 ~~~~~~~~~~L~~l~~ll~~~~~~  283 (372)
T 3un9_A          260 RDLGGAAEGGARVVVSLTEGTAVS  283 (372)
T ss_dssp             HHCC------CEEECCCC----CH
T ss_pred             HHHhcCCCccchhhHhhhcCCccC
Confidence            55421     66666  5666554

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=99.31  E-value=2.9e-10  Score=103.41  Aligned_cols=280  Identities=11%  Similarity=0.063  Sum_probs=197.4

Q ss_pred             CCCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccc
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQ   80 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~   80 (361)
                      |++|+.+++..+ ++ .|++.+|.++ +|+.+.+..+ ++ .+...+|..+ +|+.+.+..+- +......   +.. .+
T Consensus        68 C~~L~~I~lp~~-v~-~Ig~~aF~~c-~l~~i~~~~~-l~-~I~~~aF~~~-~L~~i~lp~~~-~~i~~~~---F~~-~~  136 (379)
T 4h09_A           68 CYNMTKVTVAST-VT-SIGDGAFADT-KLQSYTGMER-VK-KFGDYVFQGT-DLDDFEFPGAT-TEIGNYI---FYN-SS  136 (379)
T ss_dssp             CTTCCEEEECTT-CC-EECTTTTTTC-CCCEEEECTT-CC-EECTTTTTTC-CCSEEECCTTC-CEECTTT---TTT-CC
T ss_pred             CCCCCEEEeCCc-ce-EechhhhcCC-CCceEECCce-ee-EeccceeccC-CcccccCCCcc-ccccccc---ccc-ce
Confidence            578999999755 76 8888899998 6888888754 55 5665677665 89999998653 2222222   222 36


Q ss_pred             ccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcCh-----------HHHhcCCCCcEEEecCCcccCCCCCCc
Q 042011           81 LNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPT-----------WLLENNTKLETLFLVNDSLTGPFRLPI  149 (361)
Q Consensus        81 L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~-----------~~~~~~~~L~~L~l~~n~l~~~~~~~~  149 (361)
                      ++.+.+ - ..+.......|..+..++.+.+...........           ..+.....+..+.+.... .......+
T Consensus       137 l~~~~~-~-~~v~~i~~~~f~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~i~~~~f  213 (379)
T 4h09_A          137 VKRIVI-P-KSVTTIKDGIGYKAENLEKIEVSSNNKNYVAENYVLYNKNKTILESYPAAKTGTEFTIPSTV-KTVTAYGF  213 (379)
T ss_dssp             CCEEEE-C-TTCCEECSCTTTTCTTCCEEEECTTCSSEEEETTEEEETTSSEEEECCTTCCCSEEECCTTC-CEECTTTT
T ss_pred             eeeeec-c-ceeeccccchhcccccccccccccccceeecccceecccccceeccccccccccccccccce-eEEeeccc
Confidence            666665 2 234445566788889999888876543211000           002233445555544322 22345567


Q ss_pred             CCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCC
Q 042011          150 HSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNL  229 (361)
Q Consensus       150 ~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L  229 (361)
                      .....++.+.+..+ +. .+....+..+..|+.+.+..+ ++..-...|.++.+|+.+.+..+ +. .++...|.++++|
T Consensus       214 ~~~~~l~~i~~~~~-~~-~i~~~~f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~~-i~-~i~~~aF~~c~~L  288 (379)
T 4h09_A          214 SYGKNLKKITITSG-VT-TLGDGAFYGMKALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYAK-VK-TVPYLLCSGCSNL  288 (379)
T ss_dssp             TTCSSCSEEECCTT-CC-EECTTTTTTCSSCCEEEECTT-CCEECTTTTTTCTTCCEEEECCC-CS-EECTTTTTTCTTC
T ss_pred             ccccccceeeeccc-ee-EEccccccCCccceEEEcCCC-ccEeCccccceeehhcccccccc-ce-ecccccccccccc
Confidence            77788999998765 44 566666666889999999776 55455678889999999999654 66 7788888899999


Q ss_pred             cEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcc
Q 042011          230 ESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTL  301 (361)
Q Consensus       230 ~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L  301 (361)
                      +.+.+.++.++.+....|.+|.+|+.+.+..+ ++.....+|.++.+|+.+.+..+ ++..-..+|.++..+
T Consensus       289 ~~i~l~~~~i~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~C~~L~~i~ip~~-v~~I~~~aF~~c~~~  358 (379)
T 4h09_A          289 TKVVMDNSAIETLEPRVFMDCVKLSSVTLPTA-LKTIQVYAFKNCKALSTISYPKS-ITLIESGAFEGSSIT  358 (379)
T ss_dssp             CEEEECCTTCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCCCCCCTT-CCEECTTTTTTSSCC
T ss_pred             ccccccccccceehhhhhcCCCCCCEEEcCcc-ccEEHHHHhhCCCCCCEEEECCc-cCEEchhHhhCCCCC
Confidence            99999999998888889999999999999765 66566789999999999999765 665566778776433

>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=99.29  E-value=3.5e-12  Score=114.71  Aligned_cols=105  Identities=20%  Similarity=0.153  Sum_probs=83.1

Q ss_pred             CEEEccCC-cCCccCChhhhccCCCccEEEecC-CccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEE
Q 042011          156 EFLDISNN-NFRCHIPVEIGDILPSLKFFNISM-NALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLA  233 (361)
Q Consensus       156 ~~L~l~~n-~l~~~~~~~~~~~l~~L~~L~L~~-n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~  233 (361)
                      ..++.+++ +++ .+|. +.. +++|++|+|++ |.+++..+..|..+++|++|+|++|.++ .++...+..+++|+.|+
T Consensus        11 ~~v~~~~~n~l~-~ip~-l~~-~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~-~~~~~~~~~l~~L~~L~   86 (347)
T 2ifg_A           11 SGLRCTRDGALD-SLHH-LPG-AENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLR-FVAPDAFHFTPRLSRLN   86 (347)
T ss_dssp             SCEECCSSCCCT-TTTT-SCS-CSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCC-EECTTGGGSCSCCCEEE
T ss_pred             CEEEcCCCCCCC-ccCC-CCC-CCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccc-eeCHHHhcCCcCCCEEe
Confidence            35688887 887 7887 554 78899999986 8888666678888999999999999988 55555555888999999


Q ss_pred             eecCCCCCcccccccCCCCCCEEeccCCcCCc
Q 042011          234 LSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVG  265 (361)
Q Consensus       234 L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~  265 (361)
                      |++|++++..+..+..++ |+.|++++|.+..
T Consensus        87 l~~N~l~~~~~~~~~~~~-L~~l~l~~N~~~c  117 (347)
T 2ifg_A           87 LSFNALESLSWKTVQGLS-LQELVLSGNPLHC  117 (347)
T ss_dssp             CCSSCCSCCCSTTTCSCC-CCEEECCSSCCCC
T ss_pred             CCCCccceeCHHHcccCC-ceEEEeeCCCccC
Confidence            999998886666666555 8899999888874

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=99.13  E-value=4.3e-10  Score=101.09  Aligned_cols=181  Identities=13%  Similarity=0.125  Sum_probs=95.0

Q ss_pred             hcCCCCccEEEecCCccc---------CCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCC
Q 042011          100 LYHQHDLALVDLSHIKMN---------GEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIP  170 (361)
Q Consensus       100 l~~l~~L~~L~l~~n~l~---------~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~  170 (361)
                      ...+++|+.|.+......         +.+. .++..+|+|+.|++.+|.-.. .+. + .+++|++|++..+.+.....
T Consensus       135 ~~~l~~L~~L~l~~~~~e~~~is~~~~~~L~-~ll~~~P~L~~L~L~g~~~l~-l~~-~-~~~~L~~L~L~~~~l~~~~l  210 (362)
T 2ra8_A          135 KEKFAHFEGLFWGDIDFEEQEISWIEQVDLS-PVLDAMPLLNNLKIKGTNNLS-IGK-K-PRPNLKSLEIISGGLPDSVV  210 (362)
T ss_dssp             HHHHTTCSEEEECCCCTTTCCGGGCBCCBCH-HHHHTCTTCCEEEEECCBTCB-CCS-C-BCTTCSEEEEECSBCCHHHH
T ss_pred             hhhcchhhheeecCcchhhcccccccccCHH-HHHhcCCCCcEEEEeCCCCce-ecc-c-cCCCCcEEEEecCCCChHHH
Confidence            344667777777543221         1122 346778888888888763111 222 3 36788888888877763333


Q ss_pred             hhhh-ccCCCccEEEecCC--ccccc-----cCccc--cCCCCCCEEeccCCcCccccchhhhh--CCCCCcEEEeecCC
Q 042011          171 VEIG-DILPSLKFFNISMN--ALDGS-----IPSSF--GNMNFLRVLDLSNNQLTGEIPEHLAV--GCVNLESLALSNNS  238 (361)
Q Consensus       171 ~~~~-~~l~~L~~L~L~~n--~l~~~-----~~~~l--~~~~~L~~L~l~~n~l~~~~~~~~~~--~~~~L~~L~L~~n~  238 (361)
                      ..+. ..+|+|++|+|+.+  ...+.     +...+  ..+++|++|++.+|.+.+..+..++.  .+++|++|+|+.|.
T Consensus       211 ~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~  290 (362)
T 2ra8_A          211 EDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGV  290 (362)
T ss_dssp             HHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSC
T ss_pred             HHHHHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCC
Confidence            3333 23788888887532  11111     11112  23567777777766665433333331  34556666666666


Q ss_pred             CCCcc----cccccCCCCCCEEeccCCcCCccchhhhhc-CCCCCEEECcCCc
Q 042011          239 LEGHM----FSRNFNLTNLEWLQLGGNRFVGEIPQSLSK-CSSLEGLYLNNNS  286 (361)
Q Consensus       239 l~~~~----~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~-l~~L~~L~l~~N~  286 (361)
                      +++..    +..+..+++|+.|++++|.+++.....+.. +  ...++++.++
T Consensus       291 L~d~G~~~L~~~L~~l~~L~~L~L~~n~i~d~~~~~l~~al--g~~~~~~~~~  341 (362)
T 2ra8_A          291 LTDEGARLLLDHVDKIKHLKFINMKYNYLSDEMKKELQKSL--PMKIDVSDSQ  341 (362)
T ss_dssp             CBHHHHHHHHTTHHHHTTCSEEECCSBBCCHHHHHHHHHHC--CSEEECCSBC
T ss_pred             CChHHHHHHHhhcccCCcceEEECCCCcCCHHHHHHHHHHc--CCEEEecCCc
Confidence            55422    122233456666666666655444343432 2  2445555554

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.98  E-value=8.5e-10  Score=99.17  Aligned_cols=160  Identities=19%  Similarity=0.150  Sum_probs=70.7

Q ss_pred             hcCCCCcEEEecCCcccC---------CCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCc
Q 042011          126 ENNTKLETLFLVNDSLTG---------PFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPS  196 (361)
Q Consensus       126 ~~~~~L~~L~l~~n~l~~---------~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~  196 (361)
                      ..+++|+.|.+.......         .+...+..+|+|+.|.++++.-. .++. + . .++|++|++..+.++.....
T Consensus       136 ~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l-~l~~-~-~-~~~L~~L~L~~~~l~~~~l~  211 (362)
T 2ra8_A          136 EKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNL-SIGK-K-P-RPNLKSLEIISGGLPDSVVE  211 (362)
T ss_dssp             HHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTC-BCCS-C-B-CTTCSEEEEECSBCCHHHHH
T ss_pred             hhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCc-eecc-c-c-CCCCcEEEEecCCCChHHHH
Confidence            456778888775542210         11122234455666666555211 2222 1 2 45666666665555422222


Q ss_pred             ccc--CCCCCCEEeccC--CcCccc-----cchhhh-hCCCCCcEEEeecCCCCCcccccc---cCCCCCCEEeccCCcC
Q 042011          197 SFG--NMNFLRVLDLSN--NQLTGE-----IPEHLA-VGCVNLESLALSNNSLEGHMFSRN---FNLTNLEWLQLGGNRF  263 (361)
Q Consensus       197 ~l~--~~~~L~~L~l~~--n~l~~~-----~~~~~~-~~~~~L~~L~L~~n~l~~~~~~~~---~~~~~L~~L~L~~n~l  263 (361)
                      .+.  .+|+|+.|+++.  +...+.     +...+. ..+++|++|++.+|.+....+..+   ..+++|+.|+|+.|.+
T Consensus       212 ~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~L  291 (362)
T 2ra8_A          212 DILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVL  291 (362)
T ss_dssp             HHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSCC
T ss_pred             HHHHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCCC
Confidence            222  455666665532  111101     001110 124556666665555543211111   1345566666666555


Q ss_pred             Cccch----hhhhcCCCCCEEECcCCcccc
Q 042011          264 VGEIP----QSLSKCSSLEGLYLNNNSLSG  289 (361)
Q Consensus       264 ~~~~~----~~~~~l~~L~~L~l~~N~l~~  289 (361)
                      .+..+    ..+..+++|+.|++++|.+++
T Consensus       292 ~d~G~~~L~~~L~~l~~L~~L~L~~n~i~d  321 (362)
T 2ra8_A          292 TDEGARLLLDHVDKIKHLKFINMKYNYLSD  321 (362)
T ss_dssp             BHHHHHHHHTTHHHHTTCSEEECCSBBCCH
T ss_pred             ChHHHHHHHhhcccCCcceEEECCCCcCCH
Confidence            54322    222334556666666555543

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.74  E-value=7.7e-09  Score=83.98  Aligned_cols=111  Identities=14%  Similarity=0.173  Sum_probs=54.9

Q ss_pred             CCCccEEEecCC-cccc----ccCccccCCCCCCEEeccCCcCccccc----hhhhhCCCCCcEEEeecCCCCCc----c
Q 042011          177 LPSLKFFNISMN-ALDG----SIPSSFGNMNFLRVLDLSNNQLTGEIP----EHLAVGCVNLESLALSNNSLEGH----M  243 (361)
Q Consensus       177 l~~L~~L~L~~n-~l~~----~~~~~l~~~~~L~~L~l~~n~l~~~~~----~~~~~~~~~L~~L~L~~n~l~~~----~  243 (361)
                      .+.|++|+|++| .+..    .+...+...++|++|++++|.+.+...    ..+. ..++|++|+|++|.+...    .
T Consensus        35 ~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~-~n~~L~~L~L~~N~i~~~g~~~l  113 (185)
T 1io0_A           35 DPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLK-VNNTLKSLNVESNFISGSGILAL  113 (185)
T ss_dssp             CTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHH-HCSSCCEEECCSSCCCHHHHHHH
T ss_pred             CCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHH-hCCCcCEEECcCCcCCHHHHHHH
Confidence            455556666555 5542    123334455566666666666652211    1111 334566666666655532    2


Q ss_pred             cccccCCCCCCEEec--cCCcCCccc----hhhhhcCCCCCEEECcCCccc
Q 042011          244 FSRNFNLTNLEWLQL--GGNRFVGEI----PQSLSKCSSLEGLYLNNNSLS  288 (361)
Q Consensus       244 ~~~~~~~~~L~~L~L--~~n~l~~~~----~~~~~~l~~L~~L~l~~N~l~  288 (361)
                      ...+...+.|++|++  ++|.+....    .+.+...++|++|++++|.+.
T Consensus       114 ~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i~  164 (185)
T 1io0_A          114 VEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQG  164 (185)
T ss_dssp             HHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSHH
T ss_pred             HHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCCC
Confidence            333444555666666  555555432    233344455556665555553

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.60  E-value=9.6e-09  Score=83.40  Aligned_cols=120  Identities=16%  Similarity=0.134  Sum_probs=91.7

Q ss_pred             ccCccccCCCCCCEEeccCC-cCcccc----chhhhhCCCCCcEEEeecCCCCCc----ccccccCCCCCCEEeccCCcC
Q 042011          193 SIPSSFGNMNFLRVLDLSNN-QLTGEI----PEHLAVGCVNLESLALSNNSLEGH----MFSRNFNLTNLEWLQLGGNRF  263 (361)
Q Consensus       193 ~~~~~l~~~~~L~~L~l~~n-~l~~~~----~~~~~~~~~~L~~L~L~~n~l~~~----~~~~~~~~~~L~~L~L~~n~l  263 (361)
                      .+...+...+.|++|++++| .+....    ...+ ...++|++|+|++|.+...    +...+...+.|++|+|++|.|
T Consensus        27 ~l~~~l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L-~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i  105 (185)
T 1io0_A           27 TLKRIQNNDPDLEEVNLNNIMNIPVPTLKACAEAL-KTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFI  105 (185)
T ss_dssp             HHHHHHTTCTTCCEEECTTCTTCCHHHHHHHHHHH-TTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCC
T ss_pred             HHHHHHhcCCCCCEEEecCCCCCCHHHHHHHHHHH-HhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcC
Confidence            34456778899999999999 887432    2222 2578899999999999753    334455678999999999999


Q ss_pred             Ccc----chhhhhcCCCCCEEEC--cCCcccccC----CCCCCCcCcceeeccccccccC
Q 042011          264 VGE----IPQSLSKCSSLEGLYL--NNNSLSGNV----NVPSSPANTLFNLSQNSRRFTS  313 (361)
Q Consensus       264 ~~~----~~~~~~~l~~L~~L~l--~~N~l~~~~----~~~~~~~~~L~~l~l~~N~~~~  313 (361)
                      .+.    +.+.+...++|++|++  ++|.|.+..    ...+...++|++|++++|.+..
T Consensus       106 ~~~g~~~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i~~  165 (185)
T 1io0_A          106 SGSGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQGP  165 (185)
T ss_dssp             CHHHHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSHHH
T ss_pred             CHHHHHHHHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCCCh
Confidence            865    3566777889999999  889998642    2344566899999999998763

>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=98.43  E-value=4.4e-08  Score=83.66  Aligned_cols=39  Identities=41%  Similarity=0.349  Sum_probs=16.8

Q ss_pred             CCCCcEEEeecCCCCCc--ccccccCCCCCCEEeccCCcCC
Q 042011          226 CVNLESLALSNNSLEGH--MFSRNFNLTNLEWLQLGGNRFV  264 (361)
Q Consensus       226 ~~~L~~L~L~~n~l~~~--~~~~~~~~~~L~~L~L~~n~l~  264 (361)
                      +++|+.|+|++|++++.  .+..+..+++|+.|+|++|+++
T Consensus       169 l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~  209 (267)
T 3rw6_A          169 IPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELK  209 (267)
T ss_dssp             CTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCC
T ss_pred             CCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccC
Confidence            44444444444444431  1223334444444444444444

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=98.38  E-value=4e-07  Score=77.76  Aligned_cols=99  Identities=23%  Similarity=0.189  Sum_probs=67.3

Q ss_pred             EeCCCccccCcCCh---hhhhccCCCCeEeCcCCcccc--cCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            7 LDVSSNQLTGSISS---SPLVHLTSIEELMLSNNHFQI--PISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         7 L~L~~n~i~~~i~~---~~~~~l~~L~~L~Ls~n~l~~--~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      ++++.|... .++.   ....++++|++|+|++|++++  .++ ..+..+++|+.|+|++|.+.+.  ..+..+..+ +|
T Consensus       148 l~l~~N~~~-~~~~~l~i~~~~l~~L~~L~Ls~N~l~~l~~l~-~~~~~l~~L~~L~Ls~N~i~~~--~~l~~l~~l-~L  222 (267)
T 3rw6_A          148 IDVVLNRRS-CMAATLRIIEENIPELLSLNLSNNRLYRLDDMS-SIVQKAPNLKILNLSGNELKSE--RELDKIKGL-KL  222 (267)
T ss_dssp             CCCCTTSHH-HHHHHHHHHHHHCTTCCEEECTTSCCCCCGGGT-THHHHSTTCCEEECTTSCCCSG--GGGGGGTTS-CC
T ss_pred             ccccCCHHH-HHHHHHHHHHhhCCCCCEEECCCCCCCCCccch-hHHhhCCCCCEEECCCCccCCc--hhhhhcccC-Cc
Confidence            566667443 3332   123568899999999999884  333 3556889999999999998764  222223333 89


Q ss_pred             cEEeccCCCCCCCCCc-------hhhcCCCCccEEEe
Q 042011           82 NSLSLSSDYGDGFIFP-------KFLYHQHDLALVDL  111 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~~-------~~l~~l~~L~~L~l  111 (361)
                      ++|++ .+|.+.+..|       ..+..+++|+.||=
T Consensus       223 ~~L~L-~~Npl~~~~~~~~~y~~~il~~~P~L~~LDg  258 (267)
T 3rw6_A          223 EELWL-DGNSLCDTFRDQSTYISAIRERFPKLLRLDG  258 (267)
T ss_dssp             SEEEC-TTSTTGGGCSSHHHHHHHHHHHCTTCCEESS
T ss_pred             ceEEc-cCCcCccccCcchhHHHHHHHHCcccCeECC
Confidence            99999 8888875443       34677899998864

>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=98.32  E-value=5.1e-07  Score=71.64  Aligned_cols=84  Identities=8%  Similarity=0.119  Sum_probs=55.0

Q ss_pred             CCccEEEecCCccccccCccccCCCCCCEEeccCCc-CccccchhhhhCC----CCCcEEEeecCC-CCCcccccccCCC
Q 042011          178 PSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQ-LTGEIPEHLAVGC----VNLESLALSNNS-LEGHMFSRNFNLT  251 (361)
Q Consensus       178 ~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~-l~~~~~~~~~~~~----~~L~~L~L~~n~-l~~~~~~~~~~~~  251 (361)
                      ..|++||+++|.++..--..+..+++|++|++++|. +++..-..+. .+    ++|++|++++|. ++......+..++
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 YKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLS-QLENLQKSMLEMEIISCGNVTDKGIIALHHFR  139 (176)
T ss_dssp             CCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHH-TCHHHHHHCCEEEEESCTTCCHHHHHHGGGCT
T ss_pred             ceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHH-hcccccCCCCEEEcCCCCcCCHHHHHHHhcCC
Confidence            368888888887775545556777888888888874 5533333333 22    357777777764 6655555566677


Q ss_pred             CCCEEeccCCc
Q 042011          252 NLEWLQLGGNR  262 (361)
Q Consensus       252 ~L~~L~L~~n~  262 (361)
                      +|+.|++++|.
T Consensus       140 ~L~~L~L~~c~  150 (176)
T 3e4g_A          140 NLKYLFLSDLP  150 (176)
T ss_dssp             TCCEEEEESCT
T ss_pred             CCCEEECCCCC
Confidence            77777777764

>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=98.24  E-value=7.2e-07  Score=70.78  Aligned_cols=84  Identities=14%  Similarity=0.176  Sum_probs=52.3

Q ss_pred             CCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCC-CCCcccccccCC----CCCCEEeccCCc-CCccchhhhhcCC
Q 042011          202 NFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNS-LEGHMFSRNFNL----TNLEWLQLGGNR-FVGEIPQSLSKCS  275 (361)
Q Consensus       202 ~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~~~~~~~----~~L~~L~L~~n~-l~~~~~~~~~~l~  275 (361)
                      ..|++|+++++.+++.--..+. .+++|++|+|++|. +++.....+..+    ++|++|++++|. +++.....+..++
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 YKIQAIDATDSCIMSIGFDHME-GLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFR  139 (176)
T ss_dssp             CCEEEEEEESCCCCGGGGGGGT-TCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGGGCT
T ss_pred             ceEeEEeCcCCCccHHHHHHhc-CCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHHHhcCC
Confidence            4577777777776644334443 67777777777764 555444444443    357777777763 6665555666677


Q ss_pred             CCCEEECcCCc
Q 042011          276 SLEGLYLNNNS  286 (361)
Q Consensus       276 ~L~~L~l~~N~  286 (361)
                      +|++|+++++.
T Consensus       140 ~L~~L~L~~c~  150 (176)
T 3e4g_A          140 NLKYLFLSDLP  150 (176)
T ss_dssp             TCCEEEEESCT
T ss_pred             CCCEEECCCCC
Confidence            77777777764

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=97.95  E-value=6.8e-06  Score=62.15  Aligned_cols=69  Identities=12%  Similarity=0.084  Sum_probs=49.4

Q ss_pred             CEEeccCCcCC-ccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcccccccccc
Q 042011          254 EWLQLGGNRFV-GEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLH  324 (361)
Q Consensus       254 ~~L~L~~n~l~-~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~~  324 (361)
                      ..++.+++.++ ..+|..+  .++|+.|+|++|+|+...+..|..+++|+.|+|.+|+|.+++...+|..|.
T Consensus        11 ~~v~Cs~~~L~~~~vP~~l--p~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~~CdC~l~~l~~wl   80 (130)
T 3rfe_A           11 TLVDCGRRGLTWASLPTAF--PVDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPWRCDCRLVPLRAWL   80 (130)
T ss_dssp             TEEECCSSCCCTTTSCSCC--CTTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCCBCSGGGHHHHHHH
T ss_pred             CEEEeCCCCCccccCCCCC--CcCCCEEECCCCcCCccChhhhhhccccCEEEecCCCeeccCccHHHHHHH
Confidence            36677777765 2344333  246888888888888776777788888888888888888888776666653

>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=97.74  E-value=3.9e-05  Score=62.01  Aligned_cols=18  Identities=17%  Similarity=0.303  Sum_probs=8.6

Q ss_pred             ccCCCCCCEEeccCCcCc
Q 042011          198 FGNMNFLRVLDLSNNQLT  215 (361)
Q Consensus       198 l~~~~~L~~L~l~~n~l~  215 (361)
                      +..-..|++|++++|.+.
T Consensus        66 L~~N~~L~~L~L~~n~ig   83 (197)
T 1pgv_A           66 ACNSKHIEKFSLANTAIS   83 (197)
T ss_dssp             HTTCSCCCEEECTTSCCB
T ss_pred             HhhCCCcCEEEccCCCCC
Confidence            333444555555555544

>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=97.53  E-value=3.1e-05  Score=62.54  Aligned_cols=116  Identities=11%  Similarity=0.083  Sum_probs=73.6

Q ss_pred             hccCCCCeEeCcCC-cccc----cCCcccccCCCCCcEEEccCCCcccccccccccc-cCcccccEEeccCCCCCCCCCc
Q 042011           24 VHLTSIEELMLSNN-HFQI----PISLEPLFNHSRLKIFYADNNELNAEITQSHSLI-APNFQLNSLSLSSDYGDGFIFP   97 (361)
Q Consensus        24 ~~l~~L~~L~Ls~n-~l~~----~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~~~~   97 (361)
                      ..-+.|++|+|++| +|..    .+. +++.....|+.|+|++|.+.+.....+... .....|++|+| +.|.++....
T Consensus        38 ~~n~~L~~L~L~~nn~igd~ga~~la-~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L-~~N~Ig~~Ga  115 (197)
T 1pgv_A           38 EDDTDLKEVNINNMKRVSKERIRSLI-EAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNV-ESNFLTPELL  115 (197)
T ss_dssp             TTCSSCCEEECTTCCSSCHHHHHHHH-HHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEEC-CSSBCCHHHH
T ss_pred             hcCCCccEEECCCCCCCCHHHHHHHH-HHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEec-CCCcCCHHHH
Confidence            34567888888875 6641    122 356667788888888888876544433222 23447888888 8888775432


Q ss_pred             ----hhhcCCCCccEEEecCCc---ccCC----cChHHHhcCCCCcEEEecCCccc
Q 042011           98 ----KFLYHQHDLALVDLSHIK---MNGE----FPTWLLENNTKLETLFLVNDSLT  142 (361)
Q Consensus        98 ----~~l~~l~~L~~L~l~~n~---l~~~----~~~~~~~~~~~L~~L~l~~n~l~  142 (361)
                          ..+..-+.|++|+++++.   +...    +... +...+.|+.|+++.+.+.
T Consensus       116 ~ala~aL~~N~tL~~L~L~n~~~~~ig~~g~~~ia~a-L~~N~tL~~L~l~~~~~g  170 (197)
T 1pgv_A          116 ARLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMA-IEENESLLRVGISFASME  170 (197)
T ss_dssp             HHHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHH-HHHCSSCCEEECCCCCHH
T ss_pred             HHHHHHHhhCCceeEEECCCCcCcCcCHHHHHHHHHH-HHhCCCcCeEeccCCCcc
Confidence                345556778999997653   3321    2223 566788999998877543

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=96.88  E-value=0.0023  Score=48.06  Aligned_cols=55  Identities=18%  Similarity=0.146  Sum_probs=30.9

Q ss_pred             EEEeecCCCC--CcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCccc
Q 042011          231 SLALSNNSLE--GHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS  288 (361)
Q Consensus       231 ~L~L~~n~l~--~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~  288 (361)
                      .++.+++.++  . +|..+  .++|+.|+|++|+|+...+..|..+++|+.|+|++|.+.
T Consensus        12 ~v~Cs~~~L~~~~-vP~~l--p~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~~   68 (130)
T 3rfe_A           12 LVDCGRRGLTWAS-LPTAF--PVDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPWR   68 (130)
T ss_dssp             EEECCSSCCCTTT-SCSCC--CTTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCCB
T ss_pred             EEEeCCCCCcccc-CCCCC--CcCCCEEECCCCcCCccChhhhhhccccCEEEecCCCee
Confidence            4555555554  3 33222  235666666666666555555666666666666666553

>2lz0_A Uncharacterized protein; hypothetical leucine rich repeat protein, structural genomic unknown function; NMR {Bacteroides capillosus}

Probab=89.06  E-value=0.4  Score=33.72  Aligned_cols=49  Identities=12%  Similarity=0.109  Sum_probs=39.7

Q ss_pred             CccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCC
Q 042011           11 SNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNN   62 (361)
Q Consensus        11 ~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n   62 (361)
                      +..++ .|...+|.+|.+|+.+.+..+ ++ .|...+|.+|.+|+.+.+.+.
T Consensus         5 g~~vt-~I~~~aF~~c~~L~~i~iP~~-v~-~Ig~~aF~~C~~L~~i~~~~~   53 (100)
T 2lz0_A            5 GEPVV-GMDKSLFAGNTVIREITVQPN-IG-LLYDGMFSGCTALEKLILTGE   53 (100)
T ss_dssp             CCCCC-SSCSCTTTTCTTCCCEEECTT-SS-CCCTTSSTTCTTCCCEEECCS
T ss_pred             CCccC-EecHHHhcCCCCCcEEEcCCc-hh-eEcHHHHhccCCccEEEEcCC
Confidence            45566 777779999999999999875 44 566678999999999998865

---

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	361
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-11
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	2e-11
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-07
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	2e-11
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	4e-05
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	8e-09
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	1e-08
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	2e-05
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	4e-05
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	5e-05
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	1e-04
d1ozna_	284	c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 recept	3e-08
d1ozna_	284	c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 recept	1e-05
d1ozna_	284	c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 recept	4e-05
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	1e-06
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	3e-06
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	2e-04
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	7e-04
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	0.003
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	6e-06
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	1e-05
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	3e-05
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	3e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	3e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	5e-04
d1xwdc1	242	c.10.2.7 (C:18-259) Follicle-stimulating hormone r	6e-06
d1xwdc1	242	c.10.2.7 (C:18-259) Follicle-stimulating hormone r	4e-04
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	7e-06
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	6e-04
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	1e-05
d1a9na_	162	c.10.2.4 (A:) Splicesomal U2A' protein {Human (Hom	1e-05
d1p9ag_	266	c.10.2.7 (G:) von Willebrand factor binding domain	2e-04
d1p9ag_	266	c.10.2.7 (G:) von Willebrand factor binding domain	4e-04
d1p9ag_	266	c.10.2.7 (G:) von Willebrand factor binding domain	0.003
d2ca6a1	344	c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal dom	0.003
d2ca6a1	344	c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal dom	0.004

>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 = 63.1 bits (152), Expect = 1e-11
 Identities = 55/346 (15%), Positives = 108/346 (31%), Gaps = 36/346 (10%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +  +  L      +    S   + +L ++ ++  SNN       + PL N ++L     +
Sbjct: 43  LDQVTTLQADRLGIK---SIDGVEYLNNLTQINFSNNQLT---DITPLKNLTKLVDILMN 96

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           NN++      ++        L +  ++       +            + D+S +      
Sbjct: 97  NNQIADITPLANLTNLTGLTLFNNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSL 156

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
                 N            +L                  ++N         +I DI P  
Sbjct: 157 QQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQISDITPLG 216

Query: 181 KFFNISMNALDG---SIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN 237
              N+   +L+G       +  ++  L  LDL+NNQ++   P     G   L  L L  N
Sbjct: 217 ILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPLS---GLTKLTELKLGAN 273

Query: 238 SLEG--------------------HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSL 277
            +                         S   NL NL +L L  N      P  +S  + L
Sbjct: 274 QISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDISP--VSSLTKL 331

Query: 278 EGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNL 323
           + L+  NN +S   ++ +       +   N  + +     ++L  +
Sbjct: 332 QRLFFANNKVSDVSSLANLTNINWLSAGHN--QISDLTPLANLTRI 375

>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 = 62.7 bits (151), Expect = 2e-11
 Identities = 61/333 (18%), Positives = 120/333 (36%), Gaps = 40/333 (12%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           + +L  ++ S+NQLT      PL +LT + +++++NN       L  L N + L +F   
Sbjct: 65  LNNLTQINFSNNQLTDIT---PLKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNNQ 121

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQH-------DLALVDLSH 113
             +++     ++             +S+  G   +      +Q        +L  ++   
Sbjct: 122 ITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLD 181

Query: 114 IKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEI 173
           I  N      +L   T LE+L   N+ ++     P+     L+ L ++ N  +    +  
Sbjct: 182 ISSNKVSDISVLAKLTNLESLIATNNQISDIT--PLGILTNLDELSLNGNQLKDIGTLAS 239

Query: 174 GDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIP-------------- 219
              L +L   +++ N +    P     +  L  L L  NQ++   P              
Sbjct: 240 ---LTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQISNISPLAGLTALTNLELNE 294

Query: 220 -----EHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKC 274
                        NL  L L  N++     S   +LT L+ L    N+       SL+  
Sbjct: 295 NQLEDISPISNLKNLTYLTLYFNNISD--ISPVSSLTKLQRLFFANNKVSD--VSSLANL 350

Query: 275 SSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQN 307
           +++  L   +N +S    + +    T   L+  
Sbjct: 351 TNINWLSAGHNQISDLTPLANLTRITQLGLNDQ 383

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 50.8 bits (120), Expect = 1e-07
 Identities = 36/189 (19%), Positives = 75/189 (39%), Gaps = 22/189 (11%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           +T+L  L ++ NQL        L  LT++ +L L+NN      +L PL   ++L      
Sbjct: 218 LTNLDELSLNGNQLKDI---GTLASLTNLTDLDLANNQIS---NLAPLSGLTKLTELKLG 271

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
            N+++         I+P   L +L+      +       + +  +L  + L    ++   
Sbjct: 272 ANQISN--------ISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDIS 323

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
           P   + + TKL+ LF  N+ ++      + +   + +L   +N      P+     L  +
Sbjct: 324 P---VSSLTKLQRLFFANNKVSDVS--SLANLTNINWLSAGHNQISDLTPLAN---LTRI 375

Query: 181 KFFNISMNA 189
               ++  A
Sbjct: 376 TQLGLNDQA 384

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]} Length = 313

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

 Score = 61.7 bits (148), Expect = 2e-11
 Identities = 48/273 (17%), Positives = 88/273 (32%), Gaps = 12/273 (4%)

Query: 4   LRILDVSSNQLTGSISSSP-LVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNN 62
           +  LD+S   L         L +L  +  L +   +  +      +   ++L   Y  + 
Sbjct: 52  VNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHT 111

Query: 63  ELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPT 122
            ++  I    S I     L+     S        P  +    +L  +     +++G  P 
Sbjct: 112 NVSGAIPDFLSQIKTLVTLDF----SYNALSGTLPPSISSLPNLVGITFDGNRISGAIPD 167

Query: 123 WLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKF 182
                +    ++ +  + LTG       +          N        +   D       
Sbjct: 168 SYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIH 227

Query: 183 FNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGH 242
              +  A D        N+N    LDL NN++ G +P+ L      L SL +S N+L G 
Sbjct: 228 LAKNSLAFDLGKVGLSKNLN---GLDLRNNRIYGTLPQGLT-QLKFLHSLNVSFNNLCGE 283

Query: 243 MFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCS 275
           +     NL   +      N+ +   P  L  C+
Sbjct: 284 IPQ-GGNLQRFDVSAYANNKCLCGSP--LPACT 313

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]} Length = 313

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

 Score = 42.4 bits (98), Expect = 4e-05
 Identities = 51/235 (21%), Positives = 89/235 (37%), Gaps = 24/235 (10%)

Query: 80  QLNSLSLSSDYGDGFI-FPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVN 138
           ++N+L LS          P  L +   L  + +  I          +   T+L  L++ +
Sbjct: 51  RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITH 110

Query: 139 DSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSF 198
            +++G     +   + L  LD S N     +P  I  + P+L       N + G+IP S+
Sbjct: 111 TNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSL-PNLVGITFDGNRISGAIPDSY 169

Query: 199 GNMNFLRV-LDLSNNQLTGEIPEHLAVGCVNLES---------------------LALSN 236
           G+ + L   + +S N+LTG+IP   A   +                              
Sbjct: 170 GSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLA 229

Query: 237 NSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV 291
            +       +     NL  L L  NR  G +PQ L++   L  L ++ N+L G +
Sbjct: 230 KNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEI 284

>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 = 53.9 bits (128), Expect = 8e-09
 Identities = 34/197 (17%), Positives = 67/197 (34%), Gaps = 4/197 (2%)

Query: 146 RLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLR 205
           ++P         LD+ NN        +  + L +L    +  N +    P +F  +  L 
Sbjct: 24  KVPKDLPPDTALLDLQNNKITEIKDGDFKN-LKNLHTLILINNKISKISPGAFAPLVKLE 82

Query: 206 VLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVG 265
            L LS NQL  E+PE +      L         +   +F+    +  +  L     +  G
Sbjct: 83  RLYLSKNQLK-ELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVV-ELGTNPLKSSG 140

Query: 266 EIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHG 325
               +      L  + + + +++  +     P+ T  +L  N      + S   L NL  
Sbjct: 141 IENGAFQGMKKLSYIRIADTNIT-TIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAK 199

Query: 326 ICKEYAKEFARNMPRIC 342
           +   +    A +   + 
Sbjct: 200 LGLSFNSISAVDNGSLA 216

>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 = 53.5 bits (127), Expect = 1e-08
 Identities = 49/280 (17%), Positives = 92/280 (32%), Gaps = 21/280 (7%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
               +LD+ +N++T  I      +L ++  L+L NN     IS        +L+  Y   
Sbjct: 31  PDTALLDLQNNKITE-IKDGDFKNLKNLHTLILINNKIS-KISPGAFAPLVKLERLYLSK 88

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
           N+L     +          L  L +  +         F      + +   ++   +    
Sbjct: 89  NQLKELPEKMP------KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIE 142

Query: 122 TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLK 181
               +   KL  + + + ++T    +P      L  L +  N         +   L +L 
Sbjct: 143 NGAFQGMKKLSYIRIADTNIT---TIPQGLPPSLTELHLDGNKITKVDAASLKG-LNNLA 198

Query: 182 FFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEG 241
              +S N++      S  N   LR L L+NN+L              ++ + L NN++  
Sbjct: 199 KLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLA--DHKYIQVVYLHNNNISA 256

Query: 242 ------HMFSRNFNLTNLEWLQLGGNRF-VGEIPQSLSKC 274
                      N    +   + L  N     EI  S  +C
Sbjct: 257 IGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRC 296

>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 = 43.1 bits (100), Expect = 2e-05
 Identities = 34/191 (17%), Positives = 62/191 (32%), Gaps = 6/191 (3%)

Query: 129 TKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMN 188
                L L N+ +T        + + L  L + NN      P      L  L+   +S N
Sbjct: 31  PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAP-LVKLERLYLSKN 89

Query: 189 ALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNF 248
            L          +  LRV +    ++   +   L    + +  L  +     G       
Sbjct: 90  QLKELPEKMPKTLQELRVHENEITKVRKSVFNGL--NQMIVVELGTNPLKSSGIENGAFQ 147

Query: 249 NLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNS 308
            +  L ++++        IPQ L    SL  L+L+ N ++          N L  L  + 
Sbjct: 148 GMKKLSYIRIADTNI-TTIPQGL--PPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSF 204

Query: 309 RRFTSSISHSH 319
              ++  + S 
Sbjct: 205 NSISAVDNGSL 215

>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 = 42.3 bits (98), Expect = 4e-05
 Identities = 42/236 (17%), Positives = 75/236 (31%), Gaps = 32/236 (13%)

Query: 95  IFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRW 154
           I      +  +L  + L + K++   P        KLE L+L  + L     LP    + 
Sbjct: 46  IKDGDFKNLKNLHTLILINNKISKISPGAF-APLVKLERLYLSKNQLKE---LPEKMPKT 101

Query: 155 LEFLDISNNNFRCHIPVEIGDI-LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQ 213
           L+ L +  N            +    +     +     G    +F  M  L  + +++  
Sbjct: 102 LQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTN 161

Query: 214 LTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEI------ 267
           +T  IP+ L     +L  L L  N +     +    L NL  L L  N            
Sbjct: 162 IT-TIPQGL---PPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLAN 217

Query: 268 -----------------PQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQ 306
                            P  L+    ++ +YL+NN++S   +    P       + 
Sbjct: 218 TPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKAS 273

>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 = 42.3 bits (98), Expect = 5e-05
 Identities = 42/218 (19%), Positives = 77/218 (35%), Gaps = 7/218 (3%)

Query: 105 DLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNN 164
           D AL+DL + K+         +N   L TL L+N+ ++            LE L +S N 
Sbjct: 32  DTALLDLQNNKITE-IKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQ 90

Query: 165 FRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAV 224
            +  +P ++   L  L+     +  +  S+ +    M  + +          E       
Sbjct: 91  LK-ELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQ-- 147

Query: 225 GCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNN 284
           G   L  + +++ ++            +L  L L GN+       SL   ++L  L L+ 
Sbjct: 148 GMKKLSYIRIADTNITTIPQG---LPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSF 204

Query: 285 NSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLN 322
           NS+S   N   +    L  L  N+ +            
Sbjct: 205 NSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHK 242

>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 = 41.2 bits (95), Expect = 1e-04
 Identities = 26/86 (30%), Positives = 37/86 (43%), Gaps = 4/86 (4%)

Query: 204 LRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRF 263
           LRV+  S+  L  ++P+ L     +   L L NN +         NL NL  L L  N+ 
Sbjct: 12  LRVVQCSDLGLE-KVPKDLPP---DTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKI 67

Query: 264 VGEIPQSLSKCSSLEGLYLNNNSLSG 289
               P + +    LE LYL+ N L  
Sbjct: 68  SKISPGAFAPLVKLERLYLSKNQLKE 93

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]} Length = 284

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.7 bits (122), Expect = 3e-08
 Identities = 45/288 (15%), Positives = 89/288 (30%), Gaps = 36/288 (12%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
            + + + +  N+++   ++S      ++  L L +N      +          ++  +DN
Sbjct: 32  AASQRIFLHGNRISHVPAAS-FRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDN 90

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
            +L                              + P   +    L  + L    +    P
Sbjct: 91  AQL----------------------------RSVDPATFHGLGRLHTLHLDRCGLQELGP 122

Query: 122 TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLK 181
                    L+ L+L +++L             L  L +  N     +P      L SL 
Sbjct: 123 GL-FRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRI-SSVPERAFRGLHSLD 180

Query: 182 FFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEG 241
              +  N +    P +F ++  L  L L  N L+  +P         L+ L L++N    
Sbjct: 181 RLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLS-ALPTEALAPLRALQYLRLNDNPWVC 239

Query: 242 HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG 289
              +R      L+  +   +     +PQ L+         L  N L G
Sbjct: 240 DCRARPL-WAWLQKFRGSSSEVPCSLPQRLAGRDLKR---LAANDLQG 283

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]} Length = 284

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.0 bits (102), Expect = 1e-05
 Identities = 46/219 (21%), Positives = 69/219 (31%), Gaps = 2/219 (0%)

Query: 104 HDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNN 163
                + L   +++   P         L  L+L ++ L             LE LD+S+N
Sbjct: 32  AASQRIFLHGNRISH-VPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDN 90

Query: 164 NFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLA 223
                +       L  L   ++    L    P  F  +  L+ L L +N L     +   
Sbjct: 91  AQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTF- 149

Query: 224 VGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLN 283
               NL  L L  N +          L +L+ L L  NR     P +      L  LYL 
Sbjct: 150 RDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLF 209

Query: 284 NNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLN 322
            N+LS       +P   L  L  N   +        L  
Sbjct: 210 ANNLSALPTEALAPLRALQYLRLNDNPWVCDCRARPLWA 248

>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 = 42.5 bits (98), Expect = 4e-05
 Identities = 29/143 (20%), Positives = 51/143 (35%), Gaps = 1/143 (0%)

Query: 147 LPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRV 206
           +P+      + + +  N    H+P        +L    +  N L     ++F  +  L  
Sbjct: 26  VPVGIPAASQRIFLHGNRIS-HVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQ 84

Query: 207 LDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGE 266
           LDLS+N     +      G   L +L L    L+         L  L++L L  N     
Sbjct: 85  LDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQAL 144

Query: 267 IPQSLSKCSSLEGLYLNNNSLSG 289
              +     +L  L+L+ N +S 
Sbjct: 145 PDDTFRDLGNLTHLFLHGNRISS 167

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]} Length = 227

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

 Score = 46.6 bits (109), Expect = 1e-06
 Identities = 30/236 (12%), Positives = 70/236 (29%), Gaps = 27/236 (11%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYAD 60
           + +   +    + +T +++ +    L  I  L           ++E +   + L      
Sbjct: 18  LANAIKIAAGKSNVTDTVTQA---DLDGITTLSAFGTGVT---TIEGVQYLNNLIGLELK 71

Query: 61  NNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEF 120
           +N++       +           L+  ++        K +     L  +    +      
Sbjct: 72  DNQITDLAPLKN-----------LTKITELELSGNPLKNVSAIAGLQSIKTLDLTSTQIT 120

Query: 121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL 180
               L   + L+ L+L  + +T    L   ++         +        +     L  L
Sbjct: 121 DVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQ-----YLSIGNAQVSDLTPLANLSKL 175

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSN 236
                  N +    P    ++  L  + L NNQ++   P        NL  + L+N
Sbjct: 176 TTLKADDNKISDISP--LASLPNLIEVHLKNNQISDVSPLA---NTSNLFIVTLTN 226

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]} Length = 284

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.9 bits (107), Expect = 3e-06
 Identities = 18/99 (18%), Positives = 39/99 (39%), Gaps = 3/99 (3%)

Query: 158 LDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGE 217
           LD++  N    +   +  +   +  F    + +D  +   F     ++ +DLSN+ +   
Sbjct: 5   LDLTGKNLHPDVTGRL--LSQGVIAFRCPRSFMDQPLAEHFSPFR-VQHMDLSNSVIEVS 61

Query: 218 IPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWL 256
               +   C  L++L+L    L   + +     +NL  L
Sbjct: 62  TLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRL 100

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]} Length = 284

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.5 bits (93), Expect = 2e-04
 Identities = 30/226 (13%), Positives = 62/226 (27%), Gaps = 6/226 (2%)

Query: 1   MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHF--QIPISLEPLFNHSRLKIFY 58
              ++ +D+S++ +  S     L   + ++ L L        I  +L    N  RL +  
Sbjct: 45  PFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSG 104

Query: 59  ADNNELNAEITQSHSLIA-PNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMN 117
                  A  T   S        L+     ++                L L         
Sbjct: 105 CSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQK 164

Query: 118 GEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDIL 177
            +  T +      +      +  L            +L+ L +S         +     +
Sbjct: 165 SDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEI 224

Query: 178 PSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLA 223
           P+LK   +     DG++         L  L ++ +  T      + 
Sbjct: 225 PTLKTLQVFGIVPDGTLQLLKEA---LPHLQINCSHFTTIARPTIG 267

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]} Length = 284

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.5 bits (88), Expect = 7e-04
 Identities = 16/88 (18%), Positives = 36/88 (40%), Gaps = 4/88 (4%)

Query: 205 RVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFV 264
           + LDL+   L  ++   L      + +     + ++  +   +F+   ++ + L  +   
Sbjct: 3   QTLDLTGKNLHPDVTGRLL--SQGVIAFRCPRSFMDQPLAE-HFSPFRVQHMDLSNSVIE 59

Query: 265 GE-IPQSLSKCSSLEGLYLNNNSLSGNV 291
              +   LS+CS L+ L L    LS  +
Sbjct: 60  VSTLHGILSQCSKLQNLSLEGLRLSDPI 87

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]} Length = 284

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.6 bits (83), Expect = 0.003
 Identities = 14/100 (14%), Positives = 31/100 (31%), Gaps = 3/100 (3%)

Query: 109 VDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCH 168
           +DL+   ++ +    LL                         S   ++ +D+SN+     
Sbjct: 5   LDLTGKNLHPDVTGRLLSQGVIAFRCPRSFMDQPLAEHF---SPFRVQHMDLSNSVIEVS 61

Query: 169 IPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLD 208
               I      L+  ++    L   I ++    + L  L+
Sbjct: 62  TLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLN 101

>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 = 45.4 bits (105), Expect = 6e-06
 Identities = 19/103 (18%), Positives = 34/103 (33%), Gaps = 8/103 (7%)

Query: 155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDG----SIPSSFGNMNFLRVLDLS 210
           ++ LDI           E+  +L   +   +    L       I S+      L  L+L 
Sbjct: 4   IQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLR 63

Query: 211 NNQLTGEIPEHLAVG----CVNLESLALSNNSLEGHMFSRNFN 249
           +N+L       +  G       ++ L+L N  L G       +
Sbjct: 64  SNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSS 106

>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 = 44.6 bits (103), Expect = 1e-05
 Identities = 13/91 (14%), Positives = 25/91 (27%), Gaps = 4/91 (4%)

Query: 204 LRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEG----HMFSRNFNLTNLEWLQLG 259
           ++ LD+   +L+      L       + + L +  L       + S       L  L L 
Sbjct: 4   IQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLR 63

Query: 260 GNRFVGEIPQSLSKCSSLEGLYLNNNSLSGN 290
            N         + +        +   SL   
Sbjct: 64  SNELGDVGVHCVLQGLQTPSCKIQKLSLQNC 94

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.4 bits (100), Expect = 3e-05
 Identities = 23/102 (22%), Positives = 35/102 (34%), Gaps = 14/102 (13%)

Query: 195 PSSFGNMNFLRVLDLSNNQLTGEIPEHLA---VGCVNLESLALSNNSLEGHMFSR----- 246
                  + LRVL L++  ++      LA   +   +L  L LSNN L      +     
Sbjct: 362 QGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGDAGILQLVESV 421

Query: 247 NFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
                 LE L L    +  E+         L+ L  +  SL 
Sbjct: 422 RQPGCLLEQLVLYDIYWSEEMED------RLQALEKDKPSLR 457

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.3 bits (92), Expect = 3e-04
 Identities = 12/68 (17%), Positives = 26/68 (38%), Gaps = 5/68 (7%)

Query: 227 VNLESLALSNNSLEGHMFSRNF-NLTNLEWLQLGGNRF----VGEIPQSLSKCSSLEGLY 281
           ++++SL +    L    ++     L   + ++L           +I  +L    +L  L 
Sbjct: 2   LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELN 61

Query: 282 LNNNSLSG 289
           L +N L  
Sbjct: 62  LRSNELGD 69

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.3 bits (92), Expect = 3e-04
 Identities = 16/98 (16%), Positives = 31/98 (31%), Gaps = 15/98 (15%)

Query: 150 HSHRWLEFLDISNNNFRCHIPVEIGDIL---PSLKFFNISMNALDGSIPSSFG-----NM 201
                L  L +++ +        +   L    SL+  ++S N L  +             
Sbjct: 366 QPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGDAGILQLVESVRQPG 425

Query: 202 NFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL 239
             L  L L +   + E+ +        L++L     SL
Sbjct: 426 CLLEQLVLYDIYWSEEMEDR-------LQALEKDKPSL 456

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.2 bits (89), Expect = 5e-04
 Identities = 14/94 (14%), Positives = 27/94 (28%), Gaps = 9/94 (9%)

Query: 179 SLKFFNISMNAL-DGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLA---VGCVNLESLAL 234
            ++  +I    L D         +   +V+ L +  LT    + ++        L  L L
Sbjct: 3   DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNL 62

Query: 235 SNNSLEGHMFSR-----NFNLTNLEWLQLGGNRF 263
            +N L                  ++ L L     
Sbjct: 63  RSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCL 96

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]} Length = 242

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.5 bits (103), Expect = 6e-06
 Identities = 28/212 (13%), Positives = 60/212 (28%), Gaps = 4/212 (1%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
            +   L     +L   I          +E++ +S N     I  +   N  +L     + 
Sbjct: 29  RNAIELRFVLTKLRV-IQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEK 87

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
                 I            L  L +S+           ++    + L    +I ++    
Sbjct: 88  ANNLLYINPEA--FQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIER 145

Query: 122 TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLK 181
              +  + +   L+L  + +        +  +  E     NNN    +P ++        
Sbjct: 146 NSFVGLSFESVILWLNKNGIQEIHNCAFNGTQLDELNLSDNNNL-EELPNDVFHGASGPV 204

Query: 182 FFNISMNALDGSIPSSFGNMNFLRVLDLSNNQ 213
             +IS   +         N+  LR     N +
Sbjct: 205 ILDISRTRIHSLPSYGLENLKKLRARSTYNLK 236

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]} Length = 242

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.1 bits (89), Expect = 4e-04
 Identities = 26/236 (11%), Positives = 72/236 (30%), Gaps = 8/236 (3%)

Query: 3   SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNN 62
           S R+     +++T      P     +  EL       +    ++         +   + +
Sbjct: 9   SNRVFLCQESKVT----EIPSDLPRNAIELRFVLTKLR---VIQKGAFSGFGDLEKIEIS 61

Query: 63  ELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPT 122
           + +        + +   +L+ + +       +I P+   +  +L  + +S+  +      
Sbjct: 62  QNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDV 121

Query: 123 WLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKF 182
             + +  K+      N ++    R       +   +   N N    I     +     + 
Sbjct: 122 HKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNCAFNGTQLDEL 181

Query: 183 FNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNS 238
                N L+      F   +   +LD+S  ++   +P +       L + +  N  
Sbjct: 182 NLSDNNNLEELPNDVFHGASGPVILDISRTRIH-SLPSYGLENLKKLRARSTYNLK 236

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 45.2 bits (105), Expect = 7e-06
 Identities = 31/135 (22%), Positives = 47/135 (34%), Gaps = 13/135 (9%)

Query: 150 HSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDL 209
             +   +  ++  +     +   I   L  L      +NA    I S       L  L++
Sbjct: 232 RDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNV 291

Query: 210 SNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQ 269
           SNN+L  E+P         LE L  S N L            NL+ L +  N    E P 
Sbjct: 292 SNNKLI-ELPALPP----RLERLIASFNHLA----EVPELPQNLKQLHVEYNPLR-EFPD 341

Query: 270 SLSKCSSLEGLYLNN 284
                 S+E L +N+
Sbjct: 342 IP---ESVEDLRMNS 353

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 39.0 bits (89), Expect = 6e-04
 Identities = 49/314 (15%), Positives = 85/314 (27%), Gaps = 25/314 (7%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
                L++++  L+ S+   P      +E L+ S N       L  L     LK    DN
Sbjct: 38  RQAHELELNNLGLS-SLPELP----PHLESLVASCNSLT---ELPELP--QSLKSLLVDN 87

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
           N L A       L       N L    +  +           + L  +      +     
Sbjct: 88  NNLKALSDLPPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAA 147

Query: 122 TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLK 181
                             ++                L+           +     LP L 
Sbjct: 148 GNNQLEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPFLT 207

Query: 182 FFNISMNALDGSIPSSFG-------NMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLAL 234
                 N L                +     + +L  +    ++ E++  G   L     
Sbjct: 208 TIYADNNLLKTLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLY 267

Query: 235 SNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVP 294
             N+    + S      +LE L +  N+ + E+P        LE L  + N L+    VP
Sbjct: 268 YLNASSNEIRSLCDLPPSLEELNVSNNKLI-ELPALP---PRLERLIASFNHLA---EVP 320

Query: 295 SSPAN-TLFNLSQN 307
             P N    ++  N
Sbjct: 321 ELPQNLKQLHVEYN 334

>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 = 42.4 bits (99), Expect = 1e-05
 Identities = 29/127 (22%), Positives = 47/127 (37%), Gaps = 7/127 (5%)

Query: 181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLE 240
           +  +++   L  ++      +  +  LDLS+N+L    P   A+ C+ +       +   
Sbjct: 1   RVLHLAHKDL--TVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQ----ASDNA 54

Query: 241 GHMFSRNFNLTNLEWLQLGGNRFVG-EIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPAN 299
                   NL  L+ L L  NR       Q L  C  L  L L  NSL     +    A 
Sbjct: 55  LENVDGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAE 114

Query: 300 TLFNLSQ 306
            L ++S 
Sbjct: 115 MLPSVSS 121

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]} Length = 162

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.0 bits (100), Expect = 1e-05
 Identities = 21/93 (22%), Positives = 34/93 (36%), Gaps = 4/93 (4%)

Query: 196 SSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEW 255
           + + N    R LDL   ++   + E+L       +++  S+N +          L  L+ 
Sbjct: 12  AQYTNAVRDRELDLRGYKIP--VIENLGATLDQFDAIDFSDNEI--RKLDGFPLLRRLKT 67

Query: 256 LQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS 288
           L +  NR              L  L L NNSL 
Sbjct: 68  LLVNNNRICRIGEGLDQALPDLTELILTNNSLV 100

>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 = 40.5 bits (93), Expect = 2e-04
 Identities = 37/216 (17%), Positives = 58/216 (26%), Gaps = 17/216 (7%)

Query: 25  HLTSIEELMLSNNHFQ-IPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNS 83
            + S  E+     +   +P  L          I +   N L    T S + + P  +L  
Sbjct: 8   KVASHLEVNCDKRNLTALPPDLPK-----DTTILHLSENLLY---TFSLATLMPYTRLTQ 59

Query: 84  LSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTG 143
           L+L             L     L L       +     T        +    L +  L  
Sbjct: 60  LNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGA 119

Query: 144 PFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNF 203
              L      +         N    +P  +    P L+  +++ N L          +  
Sbjct: 120 LRGLGELQELY------LKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLEN 173

Query: 204 LRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL 239
           L  L L  N L   IP+    G   L    L  N  
Sbjct: 174 LDTLLLQENSLY-TIPKGF-FGSHLLPFAFLHGNPW 207

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 266

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.3 bits (90), Expect = 4e-04
 Identities = 31/213 (14%), Positives = 53/213 (24%), Gaps = 36/213 (16%)

Query: 2   TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADN 61
               IL +S N L    S + L+  T + +L L             L     L + +   
Sbjct: 31  KDTTILHLSENLLYT-FSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQL 89

Query: 62  NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFP 121
             L                                       + L  + L  ++  GE  
Sbjct: 90  QSLPLLGQTLP----------------------ALTVLDVSFNRLTSLPLGALRGLGELQ 127

Query: 122 TWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLK 181
              L+ N                    + +           NN    +P  + + L +L 
Sbjct: 128 ELYLKGNELK------------TLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLD 175

Query: 182 FFNISMNALDGSIPSSFGNMNFLRVLDLSNNQL 214
              +  N+   +IP  F   + L    L  N  
Sbjct: 176 TLLLQENS-LYTIPKGFFGSHLLPFAFLHGNPW 207

>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 = 0.003
 Identities = 33/183 (18%), Positives = 51/183 (27%), Gaps = 7/183 (3%)

Query: 105 DLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNN 164
           D  ++ LS   +   F    L   T+L  L L            +     L  L   + +
Sbjct: 32  DTTILHLSENLLYT-FSLATLMPYTRLTQLNLDRAE-----LTKLQVDGTLPVLGTLDLS 85

Query: 165 FRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAV 224
                 + +                   S+P                      +P  L  
Sbjct: 86  HNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLT 145

Query: 225 GCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNN 284
               LE L+L+NN+L          L NL+ L L  N     IP+       L   +L+ 
Sbjct: 146 PTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLY-TIPKGFFGSHLLPFAFLHG 204

Query: 285 NSL 287
           N  
Sbjct: 205 NPW 207

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 344

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

 Score = 36.8 bits (83), Expect = 0.003
 Identities = 40/311 (12%), Positives = 79/311 (25%), Gaps = 29/311 (9%)

Query: 3   SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHF------QIPISLEPLFNHSRLKI 56
           SL++  +++       +   L+   S++E++LS N         +  ++    +    + 
Sbjct: 9   SLKLDAITTEDEKSVFAV--LLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEF 66

Query: 57  FYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKM 116
                  +  EI ++  L+           +    D    P       D          +
Sbjct: 67  SDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHL 126

Query: 117 NGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDI 176
                    +   K+                P           + N + +     +    
Sbjct: 127 YLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWA--KTFQS 184

Query: 177 LPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVG--------CVN 228
              L    +  N +                 +L    L      HL             N
Sbjct: 185 HRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPN 244

Query: 229 LESLALSNNSLEGHMFS------RNFNLTNLEWLQLGGNRFVGEIPQSL-----SKCSSL 277
           L  L L++  L     +             L+ L+L  N    +  ++L      K   L
Sbjct: 245 LRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDL 304

Query: 278 EGLYLNNNSLS 288
             L LN N  S
Sbjct: 305 LFLELNGNRFS 315

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 344

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

 Score = 36.4 bits (82), Expect = 0.004
 Identities = 34/299 (11%), Positives = 78/299 (26%), Gaps = 23/299 (7%)

Query: 1   MTSLRILDVSSNQLTGSIS---SSPLVHLTSIEELMLSNNHFQIPISLEP---------L 48
             S++ + +S N +    +   S  +     +E    S+          P         L
Sbjct: 30  DDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQAL 89

Query: 49  FNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLAL 108
               +L      +N       +                  + G G      +        
Sbjct: 90  LKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELA 149

Query: 109 VDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCH 168
           V+                N  +  ++     +      L                +    
Sbjct: 150 VNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLE 209

Query: 169 IPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLA----- 223
                 ++       N   +    ++  +  +   LR L L++  L+      +      
Sbjct: 210 GLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSK 269

Query: 224 VGCVNLESLALSNNSLEGHMFSR-----NFNLTNLEWLQLGGNRFVGEIPQSLSKCSSL 277
           +  + L++L L  N +E           +  + +L +L+L GNRF  E    + +   +
Sbjct: 270 LENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRF-SEEDDVVDEIREV 327

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	361
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.97
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.97
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.96
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.96
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.95
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.95
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.95
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.94
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.94
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.91
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.84
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.83
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.82
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.81
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.81
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.8
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.79
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.79
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.79
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.78
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.78
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.77
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.76
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.71
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.71
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.71
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.66
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.65
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.63
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.62
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.58
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.57
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.53
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.44
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.4
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.36
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.59
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.53
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	98.11
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.94
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.6
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.49

>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=99.97  E-value=1.5e-30  Score=229.99  Aligned_cols=259  Identities=24%  Similarity=0.267  Sum_probs=213.6

Q ss_pred             CCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCC
Q 042011           52 SRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKL  131 (361)
Q Consensus        52 ~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L  131 (361)
                      .+++.|+|+++.+.+..+ ....+..+++|++|++++.|.+++.+|..+.++++|++|++++|++.+..+.. +..+..|
T Consensus        50 ~~v~~L~L~~~~l~g~~~-lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~-~~~~~~L  127 (313)
T d1ogqa_          50 YRVNNLDLSGLNLPKPYP-IPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDF-LSQIKTL  127 (313)
T ss_dssp             CCEEEEEEECCCCSSCEE-CCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGG-GGGCTTC
T ss_pred             EEEEEEECCCCCCCCCCC-CChHHhcCccccccccccccccccccccccccccccchhhhcccccccccccc-ccchhhh
Confidence            357777777776665311 11224556677777772236677678888999999999999999998655554 7889999


Q ss_pred             cEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccC
Q 042011          132 ETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSN  211 (361)
Q Consensus       132 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~  211 (361)
                      +.+++++|.+.+..|..+..++.++.+++++|++.+.+|..+......++.+++++|.+++..+..+..+.. ..+++++
T Consensus       128 ~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~-~~l~l~~  206 (313)
T d1ogqa_         128 VTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNL-AFVDLSR  206 (313)
T ss_dssp             CEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCC-SEEECCS
T ss_pred             cccccccccccccCchhhccCcccceeecccccccccccccccccccccccccccccccccccccccccccc-ccccccc
Confidence            999999999998889999999999999999999988899888773334589999999999888888877764 4799999


Q ss_pred             CcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccC
Q 042011          212 NQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNV  291 (361)
Q Consensus       212 n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~  291 (361)
                      +...+.+|.... .+++++.+++++|.+.+. +..+..+++|+.|++++|++++.+|+.++++++|++|++++|+++|.+
T Consensus       207 ~~~~~~~~~~~~-~~~~l~~l~~~~~~l~~~-~~~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls~N~l~g~i  284 (313)
T d1ogqa_         207 NMLEGDASVLFG-SDKNTQKIHLAKNSLAFD-LGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEI  284 (313)
T ss_dssp             SEEEECCGGGCC-TTSCCSEEECCSSEECCB-GGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEEEC
T ss_pred             cccccccccccc-cccccccccccccccccc-ccccccccccccccCccCeecccCChHHhCCCCCCEEECcCCcccccC
Confidence            998877777665 789999999999999875 456888999999999999999999999999999999999999999988


Q ss_pred             CCCCCCcCcceeeccccccccCCcc
Q 042011          292 NVPSSPANTLFNLSQNSRRFTSSIS  316 (361)
Q Consensus       292 ~~~~~~~~~L~~l~l~~N~~~~~~~  316 (361)
                      |. +..+++|+.+++.+|++.|..|
T Consensus       285 P~-~~~L~~L~~l~l~~N~~l~g~p  308 (313)
T d1ogqa_         285 PQ-GGNLQRFDVSAYANNKCLCGSP  308 (313)
T ss_dssp             CC-STTGGGSCGGGTCSSSEEESTT
T ss_pred             CC-cccCCCCCHHHhCCCccccCCC
Confidence            84 6789999999999998655444

>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=99.97  E-value=2.6e-28  Score=221.26  Aligned_cols=293  Identities=23%  Similarity=0.292  Sum_probs=202.8

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      .+|++|++++++|+ .++.  +..+++|++|++++|+++ .++  .+.++++|++|++++|.+.+..+     +..+.+|
T Consensus        44 ~~l~~L~l~~~~I~-~l~g--l~~L~nL~~L~Ls~N~l~-~l~--~l~~L~~L~~L~L~~n~i~~i~~-----l~~l~~L  112 (384)
T d2omza2          44 DQVTTLQADRLGIK-SIDG--VEYLNNLTQINFSNNQLT-DIT--PLKNLTKLVDILMNNNQIADITP-----LANLTNL  112 (384)
T ss_dssp             TTCCEEECCSSCCC-CCTT--GGGCTTCCEEECCSSCCC-CCG--GGTTCTTCCEEECCSSCCCCCGG-----GTTCTTC
T ss_pred             CCCCEEECCCCCCC-Cccc--cccCCCCCEEeCcCCcCC-CCc--cccCCcccccccccccccccccc-----ccccccc
Confidence            57899999999998 7754  888999999999999998 555  48899999999999999876432     4567799


Q ss_pred             cEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccC-----------------------------------------Cc
Q 042011           82 NSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNG-----------------------------------------EF  120 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~-----------------------------------------~~  120 (361)
                      +.|++ .++.+.+..+.  .....+.......+.+..                                         ..
T Consensus       113 ~~L~~-~~~~~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  189 (384)
T d2omza2         113 TGLTL-FNNQITDIDPL--KNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSD  189 (384)
T ss_dssp             CEEEC-CSSCCCCCGGG--TTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCC
T ss_pred             ccccc-ccccccccccc--cccccccccccccccccccccccccccccccccccccchhhhhcccccccccccccccccc
Confidence            99999 77777653222  222233333332222110                                         01


Q ss_pred             ChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccC
Q 042011          121 PTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGN  200 (361)
Q Consensus       121 ~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~  200 (361)
                      ... +..+++++.+++++|.+++..+  +..+++|++|++++|+++ .++ .+. .+++|+.+++++|.+++..  .+..
T Consensus       190 ~~~-~~~l~~~~~l~l~~n~i~~~~~--~~~~~~L~~L~l~~n~l~-~~~-~l~-~l~~L~~L~l~~n~l~~~~--~~~~  261 (384)
T d2omza2         190 ISV-LAKLTNLESLIATNNQISDITP--LGILTNLDELSLNGNQLK-DIG-TLA-SLTNLTDLDLANNQISNLA--PLSG  261 (384)
T ss_dssp             CGG-GGGCTTCSEEECCSSCCCCCGG--GGGCTTCCEEECCSSCCC-CCG-GGG-GCTTCSEEECCSSCCCCCG--GGTT
T ss_pred             ccc-cccccccceeeccCCccCCCCc--ccccCCCCEEECCCCCCC-Ccc-hhh-cccccchhccccCccCCCC--cccc
Confidence            112 5567778888888887776433  455677888888888877 444 333 3778888888888877433  2677


Q ss_pred             CCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEE
Q 042011          201 MNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGL  280 (361)
Q Consensus       201 ~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  280 (361)
                      +++|++++++++.+. .++. + ..++.++.+++..|.+++  ...+..+++++.|++++|++++..  .+..+++|++|
T Consensus       262 ~~~L~~L~l~~~~l~-~~~~-~-~~~~~l~~l~~~~n~l~~--~~~~~~~~~l~~L~ls~n~l~~l~--~l~~l~~L~~L  334 (384)
T d2omza2         262 LTKLTELKLGANQIS-NISP-L-AGLTALTNLELNENQLED--ISPISNLKNLTYLTLYFNNISDIS--PVSSLTKLQRL  334 (384)
T ss_dssp             CTTCSEEECCSSCCC-CCGG-G-TTCTTCSEEECCSSCCSC--CGGGGGCTTCSEEECCSSCCSCCG--GGGGCTTCCEE
T ss_pred             cccCCEeeccCcccC-CCCc-c-cccccccccccccccccc--ccccchhcccCeEECCCCCCCCCc--ccccCCCCCEE
Confidence            788888888888877 4443 2 257778888888887775  234667778888888888887543  36777888888


Q ss_pred             ECcCCcccccCCCCCCCcCcceeeccccccccCCccccccccccc
Q 042011          281 YLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLHG  325 (361)
Q Consensus       281 ~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~~~  325 (361)
                      ++++|++++ ++ .+..+++|++|++++|++++..|...+..++.
T Consensus       335 ~L~~n~l~~-l~-~l~~l~~L~~L~l~~N~l~~l~~l~~l~~L~~  377 (384)
T d2omza2         335 FFANNKVSD-VS-SLANLTNINWLSAGHNQISDLTPLANLTRITQ  377 (384)
T ss_dssp             ECCSSCCCC-CG-GGGGCTTCCEEECCSSCCCBCGGGTTCTTCSE
T ss_pred             ECCCCCCCC-Ch-hHcCCCCCCEEECCCCcCCCChhhccCCCCCE
Confidence            888888875 33 46777888888888888877655444444443

>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=99.96  E-value=4.2e-30  Score=227.00  Aligned_cols=250  Identities=26%  Similarity=0.348  Sum_probs=175.1

Q ss_pred             CCeEeCcCCcccc--cCCcccccCCCCCcEEEccC-CCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCC
Q 042011           29 IEELMLSNNHFQI--PISLEPLFNHSRLKIFYADN-NELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHD  105 (361)
Q Consensus        29 L~~L~Ls~n~l~~--~~~~~~~~~l~~L~~L~l~~-n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~  105 (361)
                      ++.|+|++|++++  .+| ..+.++++|++|++++ |.+.+.+|..   +..+.+|++|++ ++|.+.+..+..+..+..
T Consensus        52 v~~L~L~~~~l~g~~~lp-~~l~~L~~L~~L~Ls~~N~l~g~iP~~---i~~L~~L~~L~L-s~N~l~~~~~~~~~~~~~  126 (313)
T d1ogqa_          52 VNNLDLSGLNLPKPYPIP-SSLANLPYLNFLYIGGINNLVGPIPPA---IAKLTQLHYLYI-THTNVSGAIPDFLSQIKT  126 (313)
T ss_dssp             EEEEEEECCCCSSCEECC-GGGGGCTTCSEEEEEEETTEESCCCGG---GGGCTTCSEEEE-EEECCEEECCGGGGGCTT
T ss_pred             EEEEECCCCCCCCCCCCC-hHHhcCccccccccccccccccccccc---cccccccchhhh-ccccccccccccccchhh
Confidence            4444444444443  233 2344444444444443 3443333322   233334444444 444444445556777788


Q ss_pred             ccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCc-CEEEccCCcCCccCChhhhccCCCccEEE
Q 042011          106 LALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWL-EFLDISNNNFRCHIPVEIGDILPSLKFFN  184 (361)
Q Consensus       106 L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L-~~L~l~~n~l~~~~~~~~~~~l~~L~~L~  184 (361)
                      |+.+++++|.+.+.+|.. +.+++.++++++++|.+.+.+|..+..+..+ +.+++++|++++..+..+.. + ....++
T Consensus       127 L~~l~l~~N~~~~~~p~~-l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~-l-~~~~l~  203 (313)
T d1ogqa_         127 LVTLDFSYNALSGTLPPS-ISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFAN-L-NLAFVD  203 (313)
T ss_dssp             CCEEECCSSEEESCCCGG-GGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGG-C-CCSEEE
T ss_pred             hcccccccccccccCchh-hccCcccceeeccccccccccccccccccccccccccccccccccccccccc-c-cccccc
Confidence            888888888877777776 6788888888888888877777777777665 77888888888666665544 3 455788


Q ss_pred             ecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCC
Q 042011          185 ISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFV  264 (361)
Q Consensus       185 L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~  264 (361)
                      ++++...+.+|..+..+++++.+++++|.+.+.++ .+. .+++++.|++++|++++..|..++.+++|++|+|++|+++
T Consensus       204 l~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~-~~~-~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls~N~l~  281 (313)
T d1ogqa_         204 LSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLG-KVG-LSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLC  281 (313)
T ss_dssp             CCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGG-GCC-CCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEE
T ss_pred             ccccccccccccccccccccccccccccccccccc-ccc-cccccccccCccCeecccCChHHhCCCCCCEEECcCCccc
Confidence            88888887888888888889999999988885554 343 6788999999999998888888889999999999999998


Q ss_pred             ccchhhhhcCCCCCEEECcCCc-ccc
Q 042011          265 GEIPQSLSKCSSLEGLYLNNNS-LSG  289 (361)
Q Consensus       265 ~~~~~~~~~l~~L~~L~l~~N~-l~~  289 (361)
                      |.+|+ ++.+++|+.+++++|+ +.|
T Consensus       282 g~iP~-~~~L~~L~~l~l~~N~~l~g  306 (313)
T d1ogqa_         282 GEIPQ-GGNLQRFDVSAYANNKCLCG  306 (313)
T ss_dssp             EECCC-STTGGGSCGGGTCSSSEEES
T ss_pred             ccCCC-cccCCCCCHHHhCCCccccC
Confidence            87774 5678889999999887 444

>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=99.96  E-value=6.9e-27  Score=205.41  Aligned_cols=266  Identities=21%  Similarity=0.222  Sum_probs=143.6

Q ss_pred             CeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEE
Q 042011            5 RILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSL   84 (361)
Q Consensus         5 ~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L   84 (361)
                      +.+|=++++++ .+|. .+  .+++++|+|++|+|+ .++..+|.++++|++|++++|.+..                  
T Consensus        13 ~~~~C~~~~L~-~lP~-~l--~~~l~~L~Ls~N~i~-~l~~~~f~~l~~L~~L~l~~n~~~~------------------   69 (305)
T d1xkua_          13 RVVQCSDLGLE-KVPK-DL--PPDTALLDLQNNKIT-EIKDGDFKNLKNLHTLILINNKISK------------------   69 (305)
T ss_dssp             TEEECTTSCCC-SCCC-SC--CTTCCEEECCSSCCC-CBCTTTTTTCTTCCEEECCSSCCCC------------------
T ss_pred             CEEEecCCCCC-ccCC-CC--CCCCCEEECcCCcCC-CcChhHhhccccccccccccccccc------------------
Confidence            34455555555 5554 22  245566666666655 4443455555666666666555543                  


Q ss_pred             eccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCc
Q 042011           85 SLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNN  164 (361)
Q Consensus        85 ~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~  164 (361)
                                ..+..|..++.|++|++++|+++ .+|..   ....++.|++.+|.+....+..+........++...+.
T Consensus        70 ----------i~~~~f~~l~~L~~L~l~~n~l~-~l~~~---~~~~l~~L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~  135 (305)
T d1xkua_          70 ----------ISPGAFAPLVKLERLYLSKNQLK-ELPEK---MPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNP  135 (305)
T ss_dssp             ----------BCTTTTTTCTTCCEEECCSSCCS-BCCSS---CCTTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSC
T ss_pred             ----------cchhhhhCCCccCEecccCCccC-cCccc---hhhhhhhhhccccchhhhhhhhhhcccccccccccccc
Confidence                      33444555555555555555554 34432   23345555555555544333334444445555555443


Q ss_pred             CCc-cCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcc
Q 042011          165 FRC-HIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHM  243 (361)
Q Consensus       165 l~~-~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~  243 (361)
                      ... ......+..+++|+.+++++|.+. .++..  .+++|++|++++|...+..+ ..+..++.+++|++++|.+++..
T Consensus       136 ~~~~~~~~~~~~~l~~L~~l~l~~n~l~-~l~~~--~~~~L~~L~l~~n~~~~~~~-~~~~~~~~l~~L~~s~n~l~~~~  211 (305)
T d1xkua_         136 LKSSGIENGAFQGMKKLSYIRIADTNIT-TIPQG--LPPSLTELHLDGNKITKVDA-ASLKGLNNLAKLGLSFNSISAVD  211 (305)
T ss_dssp             CCGGGBCTTGGGGCTTCCEEECCSSCCC-SCCSS--CCTTCSEEECTTSCCCEECT-GGGTTCTTCCEEECCSSCCCEEC
T ss_pred             ccccCCCccccccccccCccccccCCcc-ccCcc--cCCccCEEECCCCcCCCCCh-hHhhccccccccccccccccccc
Confidence            321 111122233555666666666555 33332  24556666666666653333 33335666666666666666665


Q ss_pred             cccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCC------CCcCcceeecccccccc
Q 042011          244 FSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPS------SPANTLFNLSQNSRRFT  312 (361)
Q Consensus       244 ~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~------~~~~~L~~l~l~~N~~~  312 (361)
                      +..+.++++|++|+|++|+++ .+|.++..+++|+.|++++|+|+......|      ....+|+.|++.+|++.
T Consensus       212 ~~~~~~l~~L~~L~L~~N~L~-~lp~~l~~l~~L~~L~Ls~N~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~~~  285 (305)
T d1xkua_         212 NGSLANTPHLRELHLNNNKLV-KVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQ  285 (305)
T ss_dssp             TTTGGGSTTCCEEECCSSCCS-SCCTTTTTCSSCCEEECCSSCCCCCCTTSSSCSSCCTTSCCCSEEECCSSSSC
T ss_pred             cccccccccceeeeccccccc-ccccccccccCCCEEECCCCccCccChhhccCcchhcccCCCCEEECCCCcCc
Confidence            666666667777777777766 456666667777777777777765433333      34566777777777765

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.95  E-value=2.1e-26  Score=208.54  Aligned_cols=281  Identities=23%  Similarity=0.261  Sum_probs=220.9

Q ss_pred             CCCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccC---
Q 042011            1 MTSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAP---   77 (361)
Q Consensus         1 l~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~---   77 (361)
                      |++|++|++++|+|+ .++.  ++++++|++|++++|+++ .++  .+..+++|+.|+++++.+++...........   
T Consensus        65 L~nL~~L~Ls~N~l~-~l~~--l~~L~~L~~L~L~~n~i~-~i~--~l~~l~~L~~L~~~~~~~~~~~~~~~~~~~~~~~  138 (384)
T d2omza2          65 LNNLTQINFSNNQLT-DITP--LKNLTKLVDILMNNNQIA-DIT--PLANLTNLTGLTLFNNQITDIDPLKNLTNLNRLE  138 (384)
T ss_dssp             CTTCCEEECCSSCCC-CCGG--GTTCTTCCEEECCSSCCC-CCG--GGTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEE
T ss_pred             CCCCCEEeCcCCcCC-CCcc--ccCCcccccccccccccc-ccc--cccccccccccccccccccccccccccccccccc
Confidence            579999999999998 7775  999999999999999998 444  4889999999999999887543322110000   


Q ss_pred             -----------------------------------cccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcCh
Q 042011           78 -----------------------------------NFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPT  122 (361)
Q Consensus        78 -----------------------------------~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~  122 (361)
                                                         ......... ..+..  .....+..++.++.+++++|.+++..+ 
T Consensus       139 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~--~~~~~~~~l~~~~~l~l~~n~i~~~~~-  214 (384)
T d2omza2         139 LSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDI-SSNKV--SDISVLAKLTNLESLIATNNQISDITP-  214 (384)
T ss_dssp             EEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEEC-CSSCC--CCCGGGGGCTTCSEEECCSSCCCCCGG-
T ss_pred             cccccccccccccccccccccccccccchhhhhccccccccccc-ccccc--ccccccccccccceeeccCCccCCCCc-
Confidence                                               000111111 11111  233456778999999999999985444 


Q ss_pred             HHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCC
Q 042011          123 WLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMN  202 (361)
Q Consensus       123 ~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~  202 (361)
                        ....++|+++++++|.+..  ...+..+++|+.+++++|.++ .++. + ..+++|++|+++++.+++. + .+..++
T Consensus       215 --~~~~~~L~~L~l~~n~l~~--~~~l~~l~~L~~L~l~~n~l~-~~~~-~-~~~~~L~~L~l~~~~l~~~-~-~~~~~~  285 (384)
T d2omza2         215 --LGILTNLDELSLNGNQLKD--IGTLASLTNLTDLDLANNQIS-NLAP-L-SGLTKLTELKLGANQISNI-S-PLAGLT  285 (384)
T ss_dssp             --GGGCTTCCEEECCSSCCCC--CGGGGGCTTCSEEECCSSCCC-CCGG-G-TTCTTCSEEECCSSCCCCC-G-GGTTCT
T ss_pred             --ccccCCCCEEECCCCCCCC--cchhhcccccchhccccCccC-CCCc-c-cccccCCEeeccCcccCCC-C-cccccc
Confidence              4578899999999999885  346788899999999999998 4543 3 3478999999999999843 3 377889


Q ss_pred             CCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEEC
Q 042011          203 FLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYL  282 (361)
Q Consensus       203 ~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l  282 (361)
                      .++.+.++.|.+. .++. + ..+++++.+++++|++++..  .+..+++|+.|++++|++++ ++ .+.++++|++|++
T Consensus       286 ~l~~l~~~~n~l~-~~~~-~-~~~~~l~~L~ls~n~l~~l~--~l~~l~~L~~L~L~~n~l~~-l~-~l~~l~~L~~L~l  358 (384)
T d2omza2         286 ALTNLELNENQLE-DISP-I-SNLKNLTYLTLYFNNISDIS--PVSSLTKLQRLFFANNKVSD-VS-SLANLTNINWLSA  358 (384)
T ss_dssp             TCSEEECCSSCCS-CCGG-G-GGCTTCSEEECCSSCCSCCG--GGGGCTTCCEEECCSSCCCC-CG-GGGGCTTCCEEEC
T ss_pred             ccccccccccccc-cccc-c-chhcccCeEECCCCCCCCCc--ccccCCCCCEEECCCCCCCC-Ch-hHcCCCCCCEEEC
Confidence            9999999999998 4443 3 37899999999999999853  37789999999999999984 44 6899999999999


Q ss_pred             cCCcccccCCCCCCCcCcceeeccccc
Q 042011          283 NNNSLSGNVNVPSSPANTLFNLSQNSR  309 (361)
Q Consensus       283 ~~N~l~~~~~~~~~~~~~L~~l~l~~N  309 (361)
                      ++|++++..|  +.++++|+.|++++|
T Consensus       359 ~~N~l~~l~~--l~~l~~L~~L~L~~N  383 (384)
T d2omza2         359 GHNQISDLTP--LANLTRITQLGLNDQ  383 (384)
T ss_dssp             CSSCCCBCGG--GTTCTTCSEEECCCE
T ss_pred             CCCcCCCChh--hccCCCCCEeeCCCC
Confidence            9999998765  788999999999987

>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=99.95  E-value=4.3e-26  Score=200.27  Aligned_cols=245  Identities=19%  Similarity=0.188  Sum_probs=199.5

Q ss_pred             CCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcCCCCcc
Q 042011           28 SIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLA  107 (361)
Q Consensus        28 ~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~  107 (361)
                      ..++++-++++++ ++|. .+  .+.+++|++++|+++                            ...+..|..+++|+
T Consensus        11 ~~~~~~C~~~~L~-~lP~-~l--~~~l~~L~Ls~N~i~----------------------------~l~~~~f~~l~~L~   58 (305)
T d1xkua_          11 HLRVVQCSDLGLE-KVPK-DL--PPDTALLDLQNNKIT----------------------------EIKDGDFKNLKNLH   58 (305)
T ss_dssp             ETTEEECTTSCCC-SCCC-SC--CTTCCEEECCSSCCC----------------------------CBCTTTTTTCTTCC
T ss_pred             cCCEEEecCCCCC-ccCC-CC--CCCCCEEECcCCcCC----------------------------CcChhHhhcccccc
Confidence            4566777776666 6663 23  245666666666554                            33445688899999


Q ss_pred             EEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecC
Q 042011          108 LVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISM  187 (361)
Q Consensus       108 ~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~  187 (361)
                      +|++++|.+. .++...|.+++.|++|++++|++.. +|..  ..+.++.|++..|.+. .++...+.....+..++...
T Consensus        59 ~L~l~~n~~~-~i~~~~f~~l~~L~~L~l~~n~l~~-l~~~--~~~~l~~L~~~~n~l~-~l~~~~~~~~~~~~~l~~~~  133 (305)
T d1xkua_          59 TLILINNKIS-KISPGAFAPLVKLERLYLSKNQLKE-LPEK--MPKTLQELRVHENEIT-KVRKSVFNGLNQMIVVELGT  133 (305)
T ss_dssp             EEECCSSCCC-CBCTTTTTTCTTCCEEECCSSCCSB-CCSS--CCTTCCEEECCSSCCC-BBCHHHHTTCTTCCEEECCS
T ss_pred             cccccccccc-ccchhhhhCCCccCEecccCCccCc-Cccc--hhhhhhhhhccccchh-hhhhhhhhcccccccccccc
Confidence            9999999998 5544448999999999999999985 3433  2357899999999998 77777776678889999988


Q ss_pred             Cccc--cccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCc
Q 042011          188 NALD--GSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVG  265 (361)
Q Consensus       188 n~l~--~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~  265 (361)
                      |...  ...+..+..+++|+++++++|.+. .+|..   .+++++.|++++|......+..+..++.++.|++++|.+++
T Consensus       134 n~~~~~~~~~~~~~~l~~L~~l~l~~n~l~-~l~~~---~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~  209 (305)
T d1xkua_         134 NPLKSSGIENGAFQGMKKLSYIRIADTNIT-TIPQG---LPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISA  209 (305)
T ss_dssp             SCCCGGGBCTTGGGGCTTCCEEECCSSCCC-SCCSS---CCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCE
T ss_pred             ccccccCCCccccccccccCccccccCCcc-ccCcc---cCCccCEEECCCCcCCCCChhHhhccccccccccccccccc
Confidence            7654  344567888999999999999998 77764   36789999999999999888999999999999999999998


Q ss_pred             cchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCC
Q 042011          266 EIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSS  314 (361)
Q Consensus       266 ~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~  314 (361)
                      ..+..+.++++|++|++++|+++. +|.++..+++|++|++++|+++..
T Consensus       210 ~~~~~~~~l~~L~~L~L~~N~L~~-lp~~l~~l~~L~~L~Ls~N~i~~i  257 (305)
T d1xkua_         210 VDNGSLANTPHLRELHLNNNKLVK-VPGGLADHKYIQVVYLHNNNISAI  257 (305)
T ss_dssp             ECTTTGGGSTTCCEEECCSSCCSS-CCTTTTTCSSCCEEECCSSCCCCC
T ss_pred             cccccccccccceeeecccccccc-cccccccccCCCEEECCCCccCcc
Confidence            888999999999999999999984 677899999999999999999853

>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=99.95  E-value=7.6e-27  Score=203.02  Aligned_cols=214  Identities=22%  Similarity=0.221  Sum_probs=125.3

Q ss_pred             CCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEcc-CCcCCccCChhhhccCCCccE
Q 042011          104 HDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDIS-NNNFRCHIPVEIGDILPSLKF  182 (361)
Q Consensus       104 ~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~-~n~l~~~~~~~~~~~l~~L~~  182 (361)
                      +.+++|++++|+|+ .+|...|.+++.|++|++++|++....+..+...+.++.+.+. .+.++ .++...+..+++|++
T Consensus        32 ~~~~~L~Ls~N~i~-~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~-~l~~~~~~~l~~L~~  109 (284)
T d1ozna_          32 AASQRIFLHGNRIS-HVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLR-SVDPATFHGLGRLHT  109 (284)
T ss_dssp             TTCSEEECTTSCCC-EECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCC-CCCTTTTTTCTTCCE
T ss_pred             CCCCEEECcCCcCC-CCCHHHhhccccccccccccccccccccccccccccccccccccccccc-cccchhhcccccCCE
Confidence            34556666666665 4444335556666666666666655555555555555555543 33343 444444444566666


Q ss_pred             EEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCc
Q 042011          183 FNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNR  262 (361)
Q Consensus       183 L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~  262 (361)
                      |++++|.+....+..+....+|+.+++++|.++ .+|...+..+++|+.|++++|++++..+..|.++++|+.+++++|+
T Consensus       110 L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~-~i~~~~f~~~~~L~~L~l~~N~l~~l~~~~f~~l~~L~~l~l~~N~  188 (284)
T d1ozna_         110 LHLDRCGLQELGPGLFRGLAALQYLYLQDNALQ-ALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNR  188 (284)
T ss_dssp             EECTTSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSC
T ss_pred             EecCCcccccccccccchhcccchhhhcccccc-ccChhHhccccchhhcccccCcccccchhhhccccccchhhhhhcc
Confidence            666666655444445555566666666666665 5554444455666666666666666555566666666666666666


Q ss_pred             CCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcccccc
Q 042011          263 FVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHL  320 (361)
Q Consensus       263 l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~  320 (361)
                      +++..|..|..+++|++|++++|++.+..+..|..+++|++|++++|++.|+++..++
T Consensus       189 l~~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~~N~l~C~C~~~~l  246 (284)
T d1ozna_         189 VAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWVCDCRARPL  246 (284)
T ss_dssp             CCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCEECSGGGHHH
T ss_pred             ccccChhHhhhhhhcccccccccccccccccccccccccCEEEecCCCCCCCccchHH
Confidence            6655566666666666666666666655555566666666666666666666554433

>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=99.94  E-value=8.6e-27  Score=200.61  Aligned_cols=214  Identities=21%  Similarity=0.168  Sum_probs=182.0

Q ss_pred             cCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCc
Q 042011          101 YHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSL  180 (361)
Q Consensus       101 ~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L  180 (361)
                      .+...+.+++.+++.++ .+|..+   .+.+++|++++|++++..+..|..+++|++|++++|+++ .++..  ..+++|
T Consensus         7 ~~~~~~~~v~C~~~~L~-~iP~~l---p~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~-~l~~~--~~l~~L   79 (266)
T d1p9ag_           7 SKVASHLEVNCDKRNLT-ALPPDL---PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELT-KLQVD--GTLPVL   79 (266)
T ss_dssp             ECSTTCCEEECTTSCCS-SCCSCC---CTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCC-EEECC--SCCTTC
T ss_pred             cccCCCeEEEccCCCCC-eeCcCc---CcCCCEEECcCCcCCCcCHHHhhcccccccccccccccc-ccccc--cccccc
Confidence            44556677788888888 677653   257889999999988766678888999999999999987 66643  348899


Q ss_pred             cEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccC
Q 042011          181 KFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGG  260 (361)
Q Consensus       181 ~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~  260 (361)
                      ++|++++|.++ ..+..+..+++|++|++++|.+. .++...+..+.++++|++++|.++...+..+..++.++.+++++
T Consensus        80 ~~L~Ls~N~l~-~~~~~~~~l~~L~~L~l~~~~~~-~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~  157 (266)
T d1p9ag_          80 GTLDLSHNQLQ-SLPLLGQTLPALTVLDVSFNRLT-SLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLAN  157 (266)
T ss_dssp             CEEECCSSCCS-SCCCCTTTCTTCCEEECCSSCCC-CCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTT
T ss_pred             ccccccccccc-ccccccccccccccccccccccc-eeeccccccccccccccccccccceeccccccccccchhccccc
Confidence            99999999998 56778889999999999999988 66666666889999999999999998888888999999999999


Q ss_pred             CcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccCCcccccccccc
Q 042011          261 NRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLH  324 (361)
Q Consensus       261 n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~~  324 (361)
                      |++++..++.|..+++|++|++++|+|+ .+|..+..+++|+.|++++|+|.|++...+|..|.
T Consensus       158 N~l~~~~~~~~~~l~~L~~L~Ls~N~L~-~lp~~~~~~~~L~~L~L~~Np~~CdC~~~~l~~wl  220 (266)
T d1p9ag_         158 NNLTELPAGLLNGLENLDTLLLQENSLY-TIPKGFFGSHLLPFAFLHGNPWLCNCEILYFRRWL  220 (266)
T ss_dssp             SCCSCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCCCSEEECCSCCBCCSGGGHHHHHHH
T ss_pred             ccccccCccccccccccceeecccCCCc-ccChhHCCCCCCCEEEecCCCCCCCcchHHHHHHH
Confidence            9999888888999999999999999999 67878888999999999999999998877776653

>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=99.94  E-value=1.7e-26  Score=200.81  Aligned_cols=223  Identities=18%  Similarity=0.193  Sum_probs=117.5

Q ss_pred             eEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEe
Q 042011            6 ILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLS   85 (361)
Q Consensus         6 ~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~   85 (361)
                      .++.++++++ .+|. .+  .+++++|+|++|+|+ .++..+|.++++|++|++++|.+....+..   +.....++.+.
T Consensus        15 ~v~c~~~~L~-~iP~-~i--p~~~~~L~Ls~N~i~-~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~---~~~~~~~~~l~   86 (284)
T d1ozna_          15 TTSCPQQGLQ-AVPV-GI--PAASQRIFLHGNRIS-HVPAASFRACRNLTILWLHSNVLARIDAAA---FTGLALLEQLD   86 (284)
T ss_dssp             EEECCSSCCS-SCCT-TC--CTTCSEEECTTSCCC-EECTTTTTTCTTCCEEECCSSCCCEECTTT---TTTCTTCCEEE
T ss_pred             EEEcCCCCCC-ccCC-CC--CCCCCEEECcCCcCC-CCCHHHhhcccccccccccccccccccccc---ccccccccccc
Confidence            4566667776 7776 22  246778888888887 566566777888888888887776544333   23333455554


Q ss_pred             ccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcC
Q 042011           86 LSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNF  165 (361)
Q Consensus        86 l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l  165 (361)
                      ....+.+....+..|+.+++|++|++++|.+. .++...+....+|+.+++++|.+++..+..|..+++|+.|++++|++
T Consensus        87 ~~~~~~~~~l~~~~~~~l~~L~~L~l~~n~~~-~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l  165 (284)
T d1ozna_          87 LSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQ-ELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRI  165 (284)
T ss_dssp             CCSCTTCCCCCTTTTTTCTTCCEEECTTSCCC-CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             cccccccccccchhhcccccCCEEecCCcccc-cccccccchhcccchhhhccccccccChhHhccccchhhcccccCcc
Confidence            43444444444555555555555555555554 22222244445555555555555444444444444555555555555


Q ss_pred             CccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCC
Q 042011          166 RCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSL  239 (361)
Q Consensus       166 ~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l  239 (361)
                      + .++...+..+++|+.+++++|.+++..|..|..+++|++|++++|.+. .++...+..+++|+++++++|.+
T Consensus       166 ~-~l~~~~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i~-~~~~~~~~~~~~L~~L~l~~N~l  237 (284)
T d1ozna_         166 S-SVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLS-ALPTEALAPLRALQYLRLNDNPW  237 (284)
T ss_dssp             C-EECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCS-CCCHHHHTTCTTCCEEECCSSCE
T ss_pred             c-ccchhhhccccccchhhhhhccccccChhHhhhhhhcccccccccccc-cccccccccccccCEEEecCCCC
Confidence            4 333333333445555555555544444444444445555555555444 33333333444444444444443

>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=99.91  E-value=3e-23  Score=178.24  Aligned_cols=178  Identities=27%  Similarity=0.297  Sum_probs=120.7

Q ss_pred             CCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEE
Q 042011          104 HDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFF  183 (361)
Q Consensus       104 ~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L  183 (361)
                      +.+++|++++|.++ .++...|.++++|++|++++|+++.. + .+..+++|++|++++|+++ ..+..+.. +++|+.|
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  105 (266)
T d1p9ag_          31 KDTTILHLSENLLY-TFSLATLMPYTRLTQLNLDRAELTKL-Q-VDGTLPVLGTLDLSHNQLQ-SLPLLGQT-LPALTVL  105 (266)
T ss_dssp             TTCCEEECTTSCCS-EEEGGGGTTCTTCCEEECTTSCCCEE-E-CCSCCTTCCEEECCSSCCS-SCCCCTTT-CTTCCEE
T ss_pred             cCCCEEECcCCcCC-CcCHHHhhcccccccccccccccccc-c-ccccccccccccccccccc-cccccccc-ccccccc
Confidence            35666666666665 44444466666666677666666532 2 2455667777777777776 44444433 6777777


Q ss_pred             EecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcC
Q 042011          184 NISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRF  263 (361)
Q Consensus       184 ~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l  263 (361)
                      ++++|.+.+..+..+..+.+++++++++|.+. .++...+..++.++.+++++|++++..+..+..+++|++|+|++|+|
T Consensus       106 ~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~-~l~~~~~~~l~~l~~l~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~L  184 (266)
T d1p9ag_         106 DVSFNRLTSLPLGALRGLGELQELYLKGNELK-TLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSL  184 (266)
T ss_dssp             ECCSSCCCCCCSSTTTTCTTCCEEECTTSCCC-CCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             cccccccceeeccccccccccccccccccccc-eeccccccccccchhcccccccccccCccccccccccceeecccCCC
Confidence            77777776555666667777777777777777 66666655677777777777777776666777777777777777777


Q ss_pred             CccchhhhhcCCCCCEEECcCCccc
Q 042011          264 VGEIPQSLSKCSSLEGLYLNNNSLS  288 (361)
Q Consensus       264 ~~~~~~~~~~l~~L~~L~l~~N~l~  288 (361)
                      + .+|+.+..+++|+.|++++|.+.
T Consensus       185 ~-~lp~~~~~~~~L~~L~L~~Np~~  208 (266)
T d1p9ag_         185 Y-TIPKGFFGSHLLPFAFLHGNPWL  208 (266)
T ss_dssp             C-CCCTTTTTTCCCSEEECCSCCBC
T ss_pred             c-ccChhHCCCCCCCEEEecCCCCC
Confidence            7 56666667777777777777664

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.84  E-value=2e-18  Score=153.50  Aligned_cols=268  Identities=24%  Similarity=0.267  Sum_probs=173.4

Q ss_pred             CCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCccccc
Q 042011            3 SLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLN   82 (361)
Q Consensus         3 ~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~   82 (361)
                      ++++|||+++.++ .+|+    ..++|++|+|++|+|+ .+| ..   ..+|+.|++++|.++... ..    .  ..|+
T Consensus        39 ~l~~LdLs~~~L~-~lp~----~~~~L~~L~Ls~N~l~-~lp-~~---~~~L~~L~l~~n~l~~l~-~l----p--~~L~  101 (353)
T d1jl5a_          39 QAHELELNNLGLS-SLPE----LPPHLESLVASCNSLT-ELP-EL---PQSLKSLLVDNNNLKALS-DL----P--PLLE  101 (353)
T ss_dssp             TCSEEECTTSCCS-CCCS----CCTTCSEEECCSSCCS-SCC-CC---CTTCCEEECCSSCCSCCC-SC----C--TTCC
T ss_pred             CCCEEEeCCCCCC-CCCC----CCCCCCEEECCCCCCc-ccc-cc---hhhhhhhhhhhcccchhh-hh----c--cccc
Confidence            6899999999998 8997    2579999999999998 777 23   468999999999887532 11    1  2799


Q ss_pred             EEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccC
Q 042011           83 SLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISN  162 (361)
Q Consensus        83 ~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~  162 (361)
                      +|++ ++|.+... | .++.++.|++|+++++.+. ..+.    ....+..+.+..+....  ...+..++.++.+++.+
T Consensus       102 ~L~L-~~n~l~~l-p-~~~~l~~L~~L~l~~~~~~-~~~~----~~~~l~~l~~~~~~~~~--~~~l~~l~~l~~L~l~~  171 (353)
T d1jl5a_         102 YLGV-SNNQLEKL-P-ELQNSSFLKIIDVDNNSLK-KLPD----LPPSLEFIAAGNNQLEE--LPELQNLPFLTAIYADN  171 (353)
T ss_dssp             EEEC-CSSCCSSC-C-CCTTCTTCCEEECCSSCCS-CCCC----CCTTCCEEECCSSCCSS--CCCCTTCTTCCEEECCS
T ss_pred             cccc-cccccccc-c-chhhhccceeecccccccc-cccc----ccccccchhhccccccc--cccccccccceeccccc
Confidence            9999 88888754 4 3577999999999999887 3332    23455666665554432  34455566666777666


Q ss_pred             CcCCccCChhh------------------hccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhh
Q 042011          163 NNFRCHIPVEI------------------GDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAV  224 (361)
Q Consensus       163 n~l~~~~~~~~------------------~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~  224 (361)
                      |... .++...                  ...++.++.+++++|... ..+.   ...++..+.+.++.+. ..+.    
T Consensus       172 n~~~-~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~-~~~~---~~~~l~~~~~~~~~~~-~~~~----  241 (353)
T d1jl5a_         172 NSLK-KLPDLPLSLESIVAGNNILEELPELQNLPFLTTIYADNNLLK-TLPD---LPPSLEALNVRDNYLT-DLPE----  241 (353)
T ss_dssp             SCCS-SCCCCCTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCS-SCCS---CCTTCCEEECCSSCCS-CCCC----
T ss_pred             cccc-cccccccccccccccccccccccccccccccccccccccccc-cccc---cccccccccccccccc-cccc----
Confidence            6554 222111                  112456666666666554 2222   2234555555555544 2221    


Q ss_pred             CCCCCcEEEeecCCCCC----------------cccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCccc
Q 042011          225 GCVNLESLALSNNSLEG----------------HMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS  288 (361)
Q Consensus       225 ~~~~L~~L~L~~n~l~~----------------~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~  288 (361)
                      ....+...++..+.+.+                ........+++|++|++++|+++ .+|.   .+++|+.|++++|+|+
T Consensus       242 ~~~~l~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~N~l~-~lp~---~~~~L~~L~L~~N~L~  317 (353)
T d1jl5a_         242 LPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLI-ELPA---LPPRLERLIASFNHLA  317 (353)
T ss_dssp             CCTTCCEEECCSSCCSEESCCCTTCCEEECCSSCCSEECCCCTTCCEEECCSSCCS-CCCC---CCTTCCEEECCSSCCS
T ss_pred             ccccccccccccccccccccccchhcccccccCccccccccCCCCCEEECCCCccC-cccc---ccCCCCEEECCCCcCC
Confidence            12233333333332211                01112234678999999999998 5564   3579999999999998


Q ss_pred             ccCCCCCCCcCcceeeccccccccCCcc
Q 042011          289 GNVNVPSSPANTLFNLSQNSRRFTSSIS  316 (361)
Q Consensus       289 ~~~~~~~~~~~~L~~l~l~~N~~~~~~~  316 (361)
                      . +|..   +.+|++|++++|+++. +|
T Consensus       318 ~-l~~~---~~~L~~L~L~~N~L~~-lp  340 (353)
T d1jl5a_         318 E-VPEL---PQNLKQLHVEYNPLRE-FP  340 (353)
T ss_dssp             C-CCCC---CTTCCEEECCSSCCSS-CC
T ss_pred             c-cccc---cCCCCEEECcCCcCCC-CC
Confidence            4 5543   4679999999999885 44

>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=99.83  E-value=1.5e-20  Score=158.88  Aligned_cols=221  Identities=15%  Similarity=0.079  Sum_probs=114.7

Q ss_pred             CeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEE
Q 042011            5 RILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSL   84 (361)
Q Consensus         5 ~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L   84 (361)
                      +.++.++.+++ .+|+. +  .+++++|++++|+++ .++..+|.++++|++|++++|.+....+..  .+..+..++++
T Consensus        11 ~~i~c~~~~l~-~iP~~-l--~~~l~~L~Ls~n~i~-~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~--~f~~l~~l~~l   83 (242)
T d1xwdc1          11 RVFLCQESKVT-EIPSD-L--PRNAIELRFVLTKLR-VIQKGAFSGFGDLEKIEISQNDVLEVIEAD--VFSNLPKLHEI   83 (242)
T ss_dssp             SEEEEESCSCS-SCCSC-S--CSCCSEEEEESCCCC-EECTTTTTTCTTCCEEEEESCTTCCEECSS--SEESCTTCCEE
T ss_pred             CEEEEeCCCCC-CcCCC-C--CCCCCEEECcCCcCC-ccChhHhhccchhhhhhhccccccceeecc--ccccccccccc
Confidence            56777777787 78762 2  257888888888887 666567888888888888888775433221  13344456666


Q ss_pred             eccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCC-CcCEEEccCC
Q 042011           85 SLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHR-WLEFLDISNN  163 (361)
Q Consensus        85 ~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~-~L~~L~l~~n  163 (361)
                      .+...+.+....+..|..+++|+++++++|.+....+...+..+..+..+..+++.+....+..+..++ .++.+++++|
T Consensus        84 ~~~~~n~l~~~~~~~~~~l~~L~~l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n  163 (242)
T d1xwdc1          84 RIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKN  163 (242)
T ss_dssp             EEECCTTCCEECTTSEECCTTCCEEEEESCCCCSCCCCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSS
T ss_pred             cccccccccccccccccccccccccccchhhhcccccccccccccccccccccccccccccccccccccccceeeecccc
Confidence            553344555445555566666666666666554221211122223333333333333333333333322 3444444444


Q ss_pred             cCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcc
Q 042011          164 NFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHM  243 (361)
Q Consensus       164 ~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~  243 (361)
                      +++ .++...+. .+++.++                       +.+++|.++ .+|...+.++++|++|++++|+++...
T Consensus       164 ~l~-~i~~~~~~-~~~l~~~-----------------------~~l~~n~l~-~l~~~~f~~l~~L~~L~Ls~N~l~~l~  217 (242)
T d1xwdc1         164 GIQ-EIHNCAFN-GTQLDEL-----------------------NLSDNNNLE-ELPNDVFHGASGPVILDISRTRIHSLP  217 (242)
T ss_dssp             CCC-EECTTTTT-TCCEEEE-----------------------ECTTCTTCC-CCCTTTTTTSCCCSEEECTTSCCCCCC
T ss_pred             ccc-cccccccc-chhhhcc-----------------------ccccccccc-cccHHHhcCCCCCCEEECCCCcCCccC
Confidence            444 33333333 2233222                       233444454 454444445555555555555555444


Q ss_pred             cccccCCCCCCEEec
Q 042011          244 FSRNFNLTNLEWLQL  258 (361)
Q Consensus       244 ~~~~~~~~~L~~L~L  258 (361)
                      +..+.+++.|+.+++
T Consensus       218 ~~~~~~l~~L~~l~~  232 (242)
T d1xwdc1         218 SYGLENLKKLRARST  232 (242)
T ss_dssp             SSSCTTCCEEESSSE
T ss_pred             HHHHcCCcccccCcC
Confidence            444444554444444

>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=99.82  E-value=4.6e-19  Score=148.10  Aligned_cols=189  Identities=21%  Similarity=0.280  Sum_probs=124.0

Q ss_pred             hcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCC
Q 042011          100 LYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPS  179 (361)
Q Consensus       100 l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~  179 (361)
                      ++.+.+|++|++++|.++ .++.  ++.+++|++|++++|++.+..  .+..+++++.+++++|.++ .++ .+. .+++
T Consensus        37 ~~~l~~L~~L~l~~~~i~-~l~~--l~~l~~L~~L~ls~n~i~~~~--~l~~l~~l~~l~~~~n~~~-~i~-~l~-~l~~  108 (227)
T d1h6ua2          37 QADLDGITTLSAFGTGVT-TIEG--VQYLNNLIGLELKDNQITDLA--PLKNLTKITELELSGNPLK-NVS-AIA-GLQS  108 (227)
T ss_dssp             HHHHHTCCEEECTTSCCC-CCTT--GGGCTTCCEEECCSSCCCCCG--GGTTCCSCCEEECCSCCCS-CCG-GGT-TCTT
T ss_pred             HHHcCCcCEEECCCCCCC-cchh--HhcCCCCcEeecCCceeeccc--ccccccccccccccccccc-ccc-ccc-cccc
Confidence            445666777777777766 4432  566777777777777766532  2666677777777777766 444 233 3677


Q ss_pred             ccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEecc
Q 042011          180 LKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLG  259 (361)
Q Consensus       180 L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~  259 (361)
                      |+.++++++...+.  ..+...+.++.+.++.+.+. .... + ..+++|+.|++++|.+...  ..+..+++|+.|+++
T Consensus       109 L~~l~l~~~~~~~~--~~~~~~~~~~~l~~~~~~~~-~~~~-~-~~~~~L~~L~l~~n~~~~~--~~l~~l~~L~~L~Ls  181 (227)
T d1h6ua2         109 IKTLDLTSTQITDV--TPLAGLSNLQVLYLDLNQIT-NISP-L-AGLTNLQYLSIGNAQVSDL--TPLANLSKLTTLKAD  181 (227)
T ss_dssp             CCEEECTTSCCCCC--GGGTTCTTCCEEECCSSCCC-CCGG-G-GGCTTCCEEECCSSCCCCC--GGGTTCTTCCEEECC
T ss_pred             cccccccccccccc--chhccccchhhhhchhhhhc-hhhh-h-ccccccccccccccccccc--hhhcccccceecccC
Confidence            77777777766522  23556677777777777765 3222 2 2567778888877777653  236677788888888


Q ss_pred             CCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccc
Q 042011          260 GNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQN  307 (361)
Q Consensus       260 ~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~  307 (361)
                      +|++++. + .++++++|++|++++|++++..|  +..+++|+.|+++
T Consensus       182 ~n~l~~l-~-~l~~l~~L~~L~Ls~N~lt~i~~--l~~l~~L~~L~ls  225 (227)
T d1h6ua2         182 DNKISDI-S-PLASLPNLIEVHLKNNQISDVSP--LANTSNLFIVTLT  225 (227)
T ss_dssp             SSCCCCC-G-GGGGCTTCCEEECTTSCCCBCGG--GTTCTTCCEEEEE
T ss_pred             CCccCCC-h-hhcCCCCCCEEECcCCcCCCCcc--cccCCCCCEEEee
Confidence            8877743 3 36777888888888888775442  6677778877775

>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=99.81  E-value=6.2e-19  Score=147.27  Aligned_cols=204  Identities=18%  Similarity=0.249  Sum_probs=160.8

Q ss_pred             eEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEe
Q 042011            6 ILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLS   85 (361)
Q Consensus         6 ~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~   85 (361)
                      .++++.+++++.+   .++.+.+|++|++++|+++ .++  .+.++++|++|++++|.+++..+     +..+.++++++
T Consensus        23 ~~~l~~~~~~d~~---~~~~l~~L~~L~l~~~~i~-~l~--~l~~l~~L~~L~ls~n~i~~~~~-----l~~l~~l~~l~   91 (227)
T d1h6ua2          23 KIAAGKSNVTDTV---TQADLDGITTLSAFGTGVT-TIE--GVQYLNNLIGLELKDNQITDLAP-----LKNLTKITELE   91 (227)
T ss_dssp             HHHTTCSSTTSEE---CHHHHHTCCEEECTTSCCC-CCT--TGGGCTTCCEEECCSSCCCCCGG-----GTTCCSCCEEE
T ss_pred             HHHhCCCCcCCcC---CHHHcCCcCEEECCCCCCC-cch--hHhcCCCCcEeecCCceeecccc-----ccccccccccc
Confidence            4567777777433   3677899999999999998 554  58899999999999999876432     46667999999


Q ss_pred             ccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcC
Q 042011           86 LSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNF  165 (361)
Q Consensus        86 l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l  165 (361)
                      + .++.++..  ..+..++.|+.++++++...+ ++.  +...+.++.+.++++.+..  ...+..+++|++|++++|.+
T Consensus        92 ~-~~n~~~~i--~~l~~l~~L~~l~l~~~~~~~-~~~--~~~~~~~~~l~~~~~~~~~--~~~~~~~~~L~~L~l~~n~~  163 (227)
T d1h6ua2          92 L-SGNPLKNV--SAIAGLQSIKTLDLTSTQITD-VTP--LAGLSNLQVLYLDLNQITN--ISPLAGLTNLQYLSIGNAQV  163 (227)
T ss_dssp             C-CSCCCSCC--GGGTTCTTCCEEECTTSCCCC-CGG--GTTCTTCCEEECCSSCCCC--CGGGGGCTTCCEEECCSSCC
T ss_pred             c-cccccccc--ccccccccccccccccccccc-cch--hccccchhhhhchhhhhch--hhhhcccccccccccccccc
Confidence            9 88877643  357889999999999998773 333  5678899999999988764  33467788999999999998


Q ss_pred             CccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeec
Q 042011          166 RCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSN  236 (361)
Q Consensus       166 ~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~  236 (361)
                      . ..+. +. .+++|+.|++++|.+++ ++ .++.+++|++|++++|+++ .++. + ..+++|+.|++++
T Consensus       164 ~-~~~~-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         164 S-DLTP-LA-NLSKLTTLKADDNKISD-IS-PLASLPNLIEVHLKNNQIS-DVSP-L-ANTSNLFIVTLTN  226 (227)
T ss_dssp             C-CCGG-GT-TCTTCCEEECCSSCCCC-CG-GGGGCTTCCEEECTTSCCC-BCGG-G-TTCTTCCEEEEEE
T ss_pred             c-cchh-hc-ccccceecccCCCccCC-Ch-hhcCCCCCCEEECcCCcCC-CCcc-c-ccCCCCCEEEeeC
Confidence            7 3332 33 48999999999999984 44 3788999999999999998 6764 3 4799999999874

>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=99.81  E-value=1.2e-21  Score=180.81  Aligned_cols=310  Identities=18%  Similarity=0.130  Sum_probs=191.6

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccc----cCCcccccCCCCCcEEEccCCCccccccccccc-c-
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQI----PISLEPLFNHSRLKIFYADNNELNAEITQSHSL-I-   75 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~----~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~-~-   75 (361)
                      ++|++||+++|++++.--...+..++++++|+|++|.++.    .+. .++..+++|++|++++|.+++.....+.. + 
T Consensus         2 ~~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~-~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~   80 (460)
T d1z7xw1           2 LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDIS-SALRVNPALAELNLRSNELGDVGVHCVLQGLQ   80 (460)
T ss_dssp             EEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHH-HHHHTCTTCCEEECTTCCCHHHHHHHHHHTTC
T ss_pred             CCCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHH-HHHhcCCCCCEEECcCCcCChHHHHHHHHHHh
Confidence            3689999999999843223357788999999999999872    222 35678999999999999986432222211 1 


Q ss_pred             cCcccccEEeccCCCCCCCC----CchhhcCCCCccEEEecCCcccCCcCh-----------------------------
Q 042011           76 APNFQLNSLSLSSDYGDGFI----FPKFLYHQHDLALVDLSHIKMNGEFPT-----------------------------  122 (361)
Q Consensus        76 ~~~~~L~~L~l~~~~~~~~~----~~~~l~~l~~L~~L~l~~n~l~~~~~~-----------------------------  122 (361)
                      ....+|++|++ ++|.+++.    ++..+..++.|++|++++|.++.....                             
T Consensus        81 ~~~~~L~~L~L-~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~i~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  159 (460)
T d1z7xw1          81 TPSCKIQKLSL-QNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCE  159 (460)
T ss_dssp             STTCCCCEEEC-TTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHH
T ss_pred             cCCCCCCEEEC-CCCCccccccccccchhhccccccccccccccchhhhhhhhhhcccccccccccccccccccchhhhc
Confidence            22348999999 88888754    345577889999999999976521000                             


Q ss_pred             ---HHHhcCCCCcEEEecCCcccCC---------------------------------CCCCcCCCCCcCEEEccCCcCC
Q 042011          123 ---WLLENNTKLETLFLVNDSLTGP---------------------------------FRLPIHSHRWLEFLDISNNNFR  166 (361)
Q Consensus       123 ---~~~~~~~~L~~L~l~~n~l~~~---------------------------------~~~~~~~l~~L~~L~l~~n~l~  166 (361)
                         ..+.....++.++++++.....                                 ....+...+.++.+++.+|.+.
T Consensus       160 ~~~~~l~~~~~~~~~~ls~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~n~~~  239 (460)
T d1z7xw1         160 PLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLG  239 (460)
T ss_dssp             HHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBCH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhcccccccccccccccchhhcccc
Confidence               0123344566666655432210                                 0001123356788888887664


Q ss_pred             cc----CChhhhccCCCccEEEecCCccccc----cCccccCCCCCCEEeccCCcCccccchh----hhhCCCCCcEEEe
Q 042011          167 CH----IPVEIGDILPSLKFFNISMNALDGS----IPSSFGNMNFLRVLDLSNNQLTGEIPEH----LAVGCVNLESLAL  234 (361)
Q Consensus       167 ~~----~~~~~~~~l~~L~~L~L~~n~l~~~----~~~~l~~~~~L~~L~l~~n~l~~~~~~~----~~~~~~~L~~L~L  234 (361)
                      ..    .........+.++.+++++|.+...    ....+...+.++.+++++|.+.+.....    +......|+.+++
T Consensus       240 ~~~~~~~~~~~~~~~~~l~~l~l~~n~i~~~~~~~~~~~l~~~~~l~~l~l~~n~i~~~~~~~l~~~l~~~~~~L~~l~l  319 (460)
T d1z7xw1         240 DVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWV  319 (460)
T ss_dssp             HHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEEC
T ss_pred             ccccchhhcccccccccccccccccccccccccccccccccccccccccccccccccccccchhhccccccccccccccc
Confidence            21    1122233356788888888877522    2223455677788888887776322222    1223456778888


Q ss_pred             ecCCCCCcccc----cccCCCCCCEEeccCCcCCccc----hhhhh-cCCCCCEEECcCCccccc----CCCCCCCcCcc
Q 042011          235 SNNSLEGHMFS----RNFNLTNLEWLQLGGNRFVGEI----PQSLS-KCSSLEGLYLNNNSLSGN----VNVPSSPANTL  301 (361)
Q Consensus       235 ~~n~l~~~~~~----~~~~~~~L~~L~L~~n~l~~~~----~~~~~-~l~~L~~L~l~~N~l~~~----~~~~~~~~~~L  301 (361)
                      ++|.++.....    .+...++|++|+|++|++++..    ++.+. ..+.|++|++++|.|++.    ++..+..+++|
T Consensus       320 ~~~~l~~~~~~~l~~~~~~~~~L~~L~Ls~N~i~~~g~~~l~~~l~~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~L  399 (460)
T d1z7xw1         320 KSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSL  399 (460)
T ss_dssp             TTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCCCC
T ss_pred             cccchhhhhhhhcccccccccchhhhheeeecccCcccchhhhhhhcccCCCCEEECCCCCCChHHHHHHHHHHhcCCCC
Confidence            87777654322    2334567888888888776432    23332 345678888888877652    22334556778


Q ss_pred             eeeccccccccC
Q 042011          302 FNLSQNSRRFTS  313 (361)
Q Consensus       302 ~~l~l~~N~~~~  313 (361)
                      ++|++++|+++.
T Consensus       400 ~~L~Ls~N~i~~  411 (460)
T d1z7xw1         400 RELDLSNNCLGD  411 (460)
T ss_dssp             CEEECCSSSCCH
T ss_pred             CEEECCCCcCCH
Confidence            888888887764

>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=99.80  E-value=9.4e-20  Score=153.88  Aligned_cols=200  Identities=14%  Similarity=0.029  Sum_probs=106.3

Q ss_pred             CccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCC-CCCCcCCCCCcCEEEccC-CcCCccCChhhhccCCCccE
Q 042011          105 DLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGP-FRLPIHSHRWLEFLDISN-NNFRCHIPVEIGDILPSLKF  182 (361)
Q Consensus       105 ~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~-~~~~~~~l~~L~~L~l~~-n~l~~~~~~~~~~~l~~L~~  182 (361)
                      ++++|++++|.++ .++...|.++++|++|++++|.+... .+..|..++.++++.+.. |.+. ..+...+..+++|++
T Consensus        30 ~l~~L~Ls~n~i~-~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~-~~~~~~~~~l~~L~~  107 (242)
T d1xwdc1          30 NAIELRFVLTKLR-VIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLL-YINPEAFQNLPNLQY  107 (242)
T ss_dssp             CCSEEEEESCCCC-EECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCC-EECTTSEECCTTCCE
T ss_pred             CCCEEECcCCcCC-ccChhHhhccchhhhhhhccccccceeecccccccccccccccccccccc-ccccccccccccccc
Confidence            3444555555444 33333344455555555555444322 233344455555554432 3343 333333333555555


Q ss_pred             EEecCCccccccCc-cccCCCCCCEEeccCCcCccccchhhhhCC-CCCcEEEeecCCCCCcccccccCCCCCC-EEecc
Q 042011          183 FNISMNALDGSIPS-SFGNMNFLRVLDLSNNQLTGEIPEHLAVGC-VNLESLALSNNSLEGHMFSRNFNLTNLE-WLQLG  259 (361)
Q Consensus       183 L~L~~n~l~~~~~~-~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~-~~L~~L~L~~n~l~~~~~~~~~~~~~L~-~L~L~  259 (361)
                      +++++|.+....+. .+..+..++.+..+++.+. .++...+.++ ..++.+++++|+++......+. .++++ .++++
T Consensus       108 l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~-~i~~~~~~~~~~~l~~L~l~~n~l~~i~~~~~~-~~~l~~~~~l~  185 (242)
T d1xwdc1         108 LLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIH-TIERNSFVGLSFESVILWLNKNGIQEIHNCAFN-GTQLDELNLSD  185 (242)
T ss_dssp             EEEESCCCCSCCCCTTTCBSSCEEEEEESCTTCC-EECTTSSTTSBSSCEEEECCSSCCCEECTTTTT-TCCEEEEECTT
T ss_pred             cccchhhhcccccccccccccccccccccccccc-cccccccccccccceeeeccccccccccccccc-chhhhcccccc
Confidence            55555555421111 1222233333344444554 4444433333 3566677777777664444443 34443 34567


Q ss_pred             CCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeecccc
Q 042011          260 GNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNS  308 (361)
Q Consensus       260 ~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~  308 (361)
                      +|+++...+..|.++++|++|++++|+++...+..|..++.|+.+++.+
T Consensus       186 ~n~l~~l~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~l~~~~  234 (242)
T d1xwdc1         186 NNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARSTYN  234 (242)
T ss_dssp             CTTCCCCCTTTTTTSCCCSEEECTTSCCCCCCSSSCTTCCEEESSSEES
T ss_pred             ccccccccHHHhcCCCCCCEEECCCCcCCccCHHHHcCCcccccCcCCC
Confidence            7777755556678888888888888888876666788888888877754

>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=99.79  E-value=5.2e-17  Score=144.15  Aligned_cols=260  Identities=23%  Similarity=0.253  Sum_probs=169.1

Q ss_pred             CCCCeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            2 TSLRILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      ++|++|++++|+|+ .+|+ .   ..+|+.|++++|+++ .++.  +  .+.|++|++++|.+... +.    +..+.+|
T Consensus        58 ~~L~~L~Ls~N~l~-~lp~-~---~~~L~~L~l~~n~l~-~l~~--l--p~~L~~L~L~~n~l~~l-p~----~~~l~~L  122 (353)
T d1jl5a_          58 PHLESLVASCNSLT-ELPE-L---PQSLKSLLVDNNNLK-ALSD--L--PPLLEYLGVSNNQLEKL-PE----LQNSSFL  122 (353)
T ss_dssp             TTCSEEECCSSCCS-SCCC-C---CTTCCEEECCSSCCS-CCCS--C--CTTCCEEECCSSCCSSC-CC----CTTCTTC
T ss_pred             CCCCEEECCCCCCc-cccc-c---hhhhhhhhhhhcccc-hhhh--h--ccccccccccccccccc-cc----hhhhccc
Confidence            68999999999998 8987 3   568999999999987 5541  1  24699999999998754 22    3556799


Q ss_pred             cEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCC-----------------
Q 042011           82 NSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGP-----------------  144 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~-----------------  144 (361)
                      ++|++ .++.+.....    ....+..+.+..+.... ...  ++.++.++.+++++|.....                 
T Consensus       123 ~~L~l-~~~~~~~~~~----~~~~l~~l~~~~~~~~~-~~~--l~~l~~l~~L~l~~n~~~~~~~~~~~~~~l~~~~~~~  194 (353)
T d1jl5a_         123 KIIDV-DNNSLKKLPD----LPPSLEFIAAGNNQLEE-LPE--LQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNIL  194 (353)
T ss_dssp             CEEEC-CSSCCSCCCC----CCTTCCEEECCSSCCSS-CCC--CTTCTTCCEEECCSSCCSSCCCCCTTCCEEECCSSCC
T ss_pred             eeecc-cccccccccc----ccccccchhhccccccc-ccc--ccccccceecccccccccccccccccccccccccccc
Confidence            99999 7777654322    23445555555544431 111  34455556666555543321                 


Q ss_pred             -CCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccC----------------C-CCCCE
Q 042011          145 -FRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGN----------------M-NFLRV  206 (361)
Q Consensus       145 -~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~----------------~-~~L~~  206 (361)
                       ....+..++.++.+++++|... .++..    .+++..+.+..+.+.. .+.....                + .....
T Consensus       195 ~~~~~~~~l~~L~~l~l~~n~~~-~~~~~----~~~l~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~l~~l~~~~~~  268 (353)
T d1jl5a_         195 EELPELQNLPFLTTIYADNNLLK-TLPDL----PPSLEALNVRDNYLTD-LPELPQSLTFLDVSENIFSGLSELPPNLYY  268 (353)
T ss_dssp             SSCCCCTTCTTCCEEECCSSCCS-SCCSC----CTTCCEEECCSSCCSC-CCCCCTTCCEEECCSSCCSEESCCCTTCCE
T ss_pred             ccccccccccccccccccccccc-ccccc----cccccccccccccccc-cccccccccccccccccccccccccchhcc
Confidence             1223456778899999988876 45432    4567788888777652 2221111                0 12223


Q ss_pred             EeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCc
Q 042011          207 LDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNS  286 (361)
Q Consensus       207 L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~  286 (361)
                      .++..+.+. .++    ..+++|++|++++|+++. .|.   .+++|+.|++++|+|+ .+|+   .+++|++|++++|+
T Consensus       269 ~~~~~~~~~-~~~----~~~~~L~~L~Ls~N~l~~-lp~---~~~~L~~L~L~~N~L~-~l~~---~~~~L~~L~L~~N~  335 (353)
T d1jl5a_         269 LNASSNEIR-SLC----DLPPSLEELNVSNNKLIE-LPA---LPPRLERLIASFNHLA-EVPE---LPQNLKQLHVEYNP  335 (353)
T ss_dssp             EECCSSCCS-EEC----CCCTTCCEEECCSSCCSC-CCC---CCTTCCEEECCSSCCS-CCCC---CCTTCCEEECCSSC
T ss_pred             cccccCccc-ccc----ccCCCCCEEECCCCccCc-ccc---ccCCCCEEECCCCcCC-cccc---ccCCCCEEECcCCc
Confidence            333333333 222    246789999999999987 443   3679999999999998 5564   35689999999999


Q ss_pred             ccccCCCCCCCcCcceeeccc
Q 042011          287 LSGNVNVPSSPANTLFNLSQN  307 (361)
Q Consensus       287 l~~~~~~~~~~~~~L~~l~l~  307 (361)
                      ++. +|....   +|+.|.++
T Consensus       336 L~~-lp~~~~---~L~~L~~~  352 (353)
T d1jl5a_         336 LRE-FPDIPE---SVEDLRMN  352 (353)
T ss_dssp             CSS-CCCCCT---TCCEEECC
T ss_pred             CCC-CCcccc---ccCeeECc
Confidence            984 565433   45555543

>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=99.79  E-value=2.7e-19  Score=145.47  Aligned_cols=156  Identities=24%  Similarity=0.252  Sum_probs=107.2

Q ss_pred             cCEEEccCCcCCccCChhhhccCCCccEEEecCCccccc-cCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEE
Q 042011          155 LEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGS-IPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLA  233 (361)
Q Consensus       155 L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~-~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~  233 (361)
                      .+.++.++++++ .+|..+.   +++++|+|++|.+++. .+..|..+++|++|++++|.+. .++...+..+++|++|+
T Consensus        10 ~~~v~Cs~~~L~-~iP~~lp---~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~-~~~~~~~~~~~~L~~L~   84 (192)
T d1w8aa_          10 GTTVDCTGRGLK-EIPRDIP---LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLT-GIEPNAFEGASHIQELQ   84 (192)
T ss_dssp             TTEEECTTSCCS-SCCSCCC---TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCC-CBCTTTTTTCTTCCEEE
T ss_pred             CCEEEEeCCCcC-ccCCCCC---CCCCEEEeCCCCCcccccccccCCCceEeeeeccccccc-cccccccccccccceee
Confidence            456777888887 7776653   4778888888887643 3456677777888888887777 55555555677778888


Q ss_pred             eecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccccCCCCCCCcCcceeeccccccccC
Q 042011          234 LSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTS  313 (361)
Q Consensus       234 L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~  313 (361)
                      +++|+++...+..|.++++|++|+|++|+|++..+++|..+++|+++++++|.+....+. ..-...++...+..|.+++
T Consensus        85 Ls~N~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N~~~~~~~~-~~~~~~l~~~~l~~~~~~c  163 (192)
T d1w8aa_          85 LGENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFNCNCHL-AWFAEWLRKKSLNGGAARC  163 (192)
T ss_dssp             CCSCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBCCSGGG-HHHHHHHHHHCCSGGGCBB
T ss_pred             eccccccccCHHHHhCCCcccccccCCccccccCHHHhcCCcccccccccccccccccch-HHHhhhhhhhcccCCCeEe
Confidence            888877777777777777777777777777766667777777777777777777643221 1112345566666677766


Q ss_pred             Ccc
Q 042011          314 SIS  316 (361)
Q Consensus       314 ~~~  316 (361)
                      ..|
T Consensus       164 ~~p  166 (192)
T d1w8aa_         164 GAP  166 (192)
T ss_dssp             CSS
T ss_pred             CCC
Confidence            555

>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=99.79  E-value=2.5e-19  Score=145.60  Aligned_cols=176  Identities=20%  Similarity=0.192  Sum_probs=120.3

Q ss_pred             cEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccC
Q 042011          132 ETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSN  211 (361)
Q Consensus       132 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~  211 (361)
                      +.++.++++++. +|..+.  +.+++|++++|+|+..++...+..+++|++|++++|.+....+..+..+++|++|++++
T Consensus        11 ~~v~Cs~~~L~~-iP~~lp--~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~   87 (192)
T d1w8aa_          11 TTVDCTGRGLKE-IPRDIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGE   87 (192)
T ss_dssp             TEEECTTSCCSS-CCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CEEEEeCCCcCc-cCCCCC--CCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeecc
Confidence            345555555553 343332  45677777777776445555555577777777777777766677777777888888888


Q ss_pred             CcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccch-hhhhcCCCCCEEECcCCccccc
Q 042011          212 NQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIP-QSLSKCSSLEGLYLNNNSLSGN  290 (361)
Q Consensus       212 n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~-~~~~~l~~L~~L~l~~N~l~~~  290 (361)
                      |++. .++...|.++++|++|+|++|+++++.+..|..+++|++|+|++|.+..... ..+.  ..++...+..+.++..
T Consensus        88 N~l~-~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N~~~~~~~~~~~~--~~l~~~~l~~~~~~c~  164 (192)
T d1w8aa_          88 NKIK-EISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFNCNCHLAWFA--EWLRKKSLNGGAARCG  164 (192)
T ss_dssp             CCCC-EECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBCCSGGGHHHH--HHHHHHCCSGGGCBBC
T ss_pred             cccc-ccCHHHHhCCCcccccccCCccccccCHHHhcCCcccccccccccccccccchHHHh--hhhhhhcccCCCeEeC
Confidence            8877 6766666678888888888888887777778888888888888888764322 1221  2345566777777766


Q ss_pred             CCCCCCCcCcceeeccccccccCCcc
Q 042011          291 VNVPSSPANTLFNLSQNSRRFTSSIS  316 (361)
Q Consensus       291 ~~~~~~~~~~L~~l~l~~N~~~~~~~  316 (361)
                      .|..+   ..++.+++..|.|+|..+
T Consensus       165 ~p~~l---~~~~l~~L~~n~l~C~~~  187 (192)
T d1w8aa_         165 APSKV---RDVQIKDLPHSEFKCSSE  187 (192)
T ss_dssp             SSTTT---TTSBGGGSCTTTCCCCCC
T ss_pred             CChhh---cCCEeeecCHhhCcCCCC
Confidence            66544   456677888899987654

>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=99.78  E-value=2.8e-18  Score=141.36  Aligned_cols=163  Identities=23%  Similarity=0.305  Sum_probs=77.2

Q ss_pred             CCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEe
Q 042011          129 TKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLD  208 (361)
Q Consensus       129 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~  208 (361)
                      .+|++|++++|.+...  ..+..+++|++|++++|+++ .++. +. .+++|+.|++++|.++ .++ .+..+++|+.++
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 NSIDQIIANNSDIKSV--QGIQYLPNVTKLFLNGNKLT-DIKP-LA-NLKNLGWLFLDENKVK-DLS-SLKDLKKLKSLS  118 (210)
T ss_dssp             HTCCEEECTTSCCCCC--TTGGGCTTCCEEECCSSCCC-CCGG-GT-TCTTCCEEECCSSCCC-CGG-GGTTCTTCCEEE
T ss_pred             cCccEEECcCCCCCCc--hhHhhCCCCCEEeCCCcccc-Cccc-cc-cCcccccccccccccc-ccc-cccccccccccc
Confidence            3444455555444431  12344455555555555554 3331 11 2445555555555554 222 244455555555


Q ss_pred             ccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCccc
Q 042011          209 LSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLS  288 (361)
Q Consensus       209 l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~  288 (361)
                      +++|.+. .++. + ..++.++.+++++|.+++  +..+..+++|+.+++++|++++. + .+.++++|++|++++|+++
T Consensus       119 l~~~~~~-~~~~-l-~~l~~l~~l~~~~n~l~~--~~~~~~l~~L~~l~l~~n~l~~i-~-~l~~l~~L~~L~Ls~N~i~  191 (210)
T d1h6ta2         119 LEHNGIS-DING-L-VHLPQLESLYLGNNKITD--ITVLSRLTKLDTLSLEDNQISDI-V-PLAGLTKLQNLYLSKNHIS  191 (210)
T ss_dssp             CTTSCCC-CCGG-G-GGCTTCCEEECCSSCCCC--CGGGGGCTTCSEEECCSSCCCCC-G-GGTTCTTCCEEECCSSCCC
T ss_pred             ccccccc-cccc-c-cccccccccccccccccc--ccccccccccccccccccccccc-c-cccCCCCCCEEECCCCCCC
Confidence            5555544 3332 1 145555555555555543  22334455555555555555532 2 2455555555555555555


Q ss_pred             ccCCCCCCCcCcceeeccc
Q 042011          289 GNVNVPSSPANTLFNLSQN  307 (361)
Q Consensus       289 ~~~~~~~~~~~~L~~l~l~  307 (361)
                      + ++ .+..+++|++|+++
T Consensus       192 ~-l~-~l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         192 D-LR-ALAGLKNLDVLELF  208 (210)
T ss_dssp             B-CG-GGTTCTTCSEEEEE
T ss_pred             C-Ch-hhcCCCCCCEEEcc
Confidence            3 22 34555555555554

>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=99.78  E-value=4.3e-18  Score=140.23  Aligned_cols=180  Identities=19%  Similarity=0.281  Sum_probs=142.2

Q ss_pred             eCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEecc
Q 042011            8 DVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLS   87 (361)
Q Consensus         8 ~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~   87 (361)
                      ++..+.+++.++.   ..+.+|++|++++|+++ .++  .+..+++|++|++++|.+++..+     +..+.+|++|++ 
T Consensus        30 ~l~~~~~~~~~~~---~~L~~L~~L~l~~~~i~-~l~--~l~~l~~L~~L~L~~n~i~~l~~-----~~~l~~L~~L~l-   97 (210)
T d1h6ta2          30 NLKKKSVTDAVTQ---NELNSIDQIIANNSDIK-SVQ--GIQYLPNVTKLFLNGNKLTDIKP-----LANLKNLGWLFL-   97 (210)
T ss_dssp             HTTCSCTTSEECH---HHHHTCCEEECTTSCCC-CCT--TGGGCTTCCEEECCSSCCCCCGG-----GTTCTTCCEEEC-
T ss_pred             HhCcCccCCccCH---HHhcCccEEECcCCCCC-Cch--hHhhCCCCCEEeCCCccccCccc-----cccCcccccccc-
Confidence            4566666655543   35678999999999987 454  47889999999999999876432     345678999999 


Q ss_pred             CCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCc
Q 042011           88 SDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRC  167 (361)
Q Consensus        88 ~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~  167 (361)
                      ++|.++.. + .+..+++|+.|++++|.+. .++.  +..++.++.+++++|.+++  +..+..+++|+.+++++|+++ 
T Consensus        98 ~~n~i~~l-~-~l~~l~~L~~L~l~~~~~~-~~~~--l~~l~~l~~l~~~~n~l~~--~~~~~~l~~L~~l~l~~n~l~-  169 (210)
T d1h6ta2          98 DENKVKDL-S-SLKDLKKLKSLSLEHNGIS-DING--LVHLPQLESLYLGNNKITD--ITVLSRLTKLDTLSLEDNQIS-  169 (210)
T ss_dssp             CSSCCCCG-G-GGTTCTTCCEEECTTSCCC-CCGG--GGGCTTCCEEECCSSCCCC--CGGGGGCTTCSEEECCSSCCC-
T ss_pred             cccccccc-c-ccccccccccccccccccc-cccc--ccccccccccccccccccc--ccccccccccccccccccccc-
Confidence            88888753 3 5888999999999999886 5543  6789999999999999875  345677899999999999998 


Q ss_pred             cCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccC
Q 042011          168 HIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSN  211 (361)
Q Consensus       168 ~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~  211 (361)
                      .++. +. .+++|++|++++|.++ .++ .+..+++|++|++++
T Consensus       170 ~i~~-l~-~l~~L~~L~Ls~N~i~-~l~-~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         170 DIVP-LA-GLTKLQNLYLSKNHIS-DLR-ALAGLKNLDVLELFS  209 (210)
T ss_dssp             CCGG-GT-TCTTCCEEECCSSCCC-BCG-GGTTCTTCSEEEEEE
T ss_pred             cccc-cc-CCCCCCEEECCCCCCC-CCh-hhcCCCCCCEEEccC
Confidence            5553 33 4899999999999998 455 588999999999864

>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=99.77  E-value=1.1e-17  Score=136.50  Aligned_cols=177  Identities=18%  Similarity=0.207  Sum_probs=138.5

Q ss_pred             EeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEec
Q 042011            7 LDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSL   86 (361)
Q Consensus         7 L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l   86 (361)
                      ..++.+.+++.++   ...++++++|++++|.++ .++  .+..+++|++|++++|++++..+     +..+.+|++|++
T Consensus        23 ~~l~~~~~~~~~~---~~~l~~l~~L~l~~~~i~-~l~--~l~~l~nL~~L~Ls~N~l~~~~~-----l~~l~~L~~L~l   91 (199)
T d2omxa2          23 TVLGKTNVTDTVS---QTDLDQVTTLQADRLGIK-SID--GVEYLNNLTQINFSNNQLTDITP-----LKNLTKLVDILM   91 (199)
T ss_dssp             HHTTCSSTTSEEC---HHHHTTCCEEECTTSCCC-CCT--TGGGCTTCCEEECCSSCCCCCGG-----GTTCTTCCEEEC
T ss_pred             HHhCCCCCCCccC---HHHhcCCCEEECCCCCCC-Ccc--ccccCCCcCcCccccccccCccc-----ccCCcccccccc
Confidence            4566677764333   456789999999999987 554  57889999999999999876432     456779999999


Q ss_pred             cCCCCCCCCCchhhcCCCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCC
Q 042011           87 SSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFR  166 (361)
Q Consensus        87 ~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~  166 (361)
                       +.|.+....  .++.++.|+.|+++++.+. .++.  +..+++|+.+++++|++..  ...+..+++++.|++.+|+++
T Consensus        92 -~~n~~~~~~--~l~~l~~L~~L~l~~~~~~-~~~~--~~~l~~L~~L~l~~n~l~~--~~~l~~~~~L~~L~l~~n~l~  163 (199)
T d2omxa2          92 -NNNQIADIT--PLANLTNLTGLTLFNNQIT-DIDP--LKNLTNLNRLELSSNTISD--ISALSGLTSLQQLNFSSNQVT  163 (199)
T ss_dssp             -CSSCCCCCG--GGTTCTTCSEEECCSSCCC-CCGG--GTTCTTCSEEECCSSCCCC--CGGGTTCTTCSEEECCSSCCC
T ss_pred             -ccccccccc--ccccccccccccccccccc-cccc--cchhhhhHHhhhhhhhhcc--ccccccccccccccccccccc
Confidence             777776432  4888999999999999887 3433  6789999999999999874  335788899999999999998


Q ss_pred             ccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEE
Q 042011          167 CHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVL  207 (361)
Q Consensus       167 ~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L  207 (361)
                       .++. +. .+++|++|++++|.+++ ++ .++.+++|++|
T Consensus       164 -~l~~-l~-~l~~L~~L~ls~N~i~~-i~-~l~~L~~L~~L  199 (199)
T d2omxa2         164 -DLKP-LA-NLTTLERLDISSNKVSD-IS-VLAKLTNLESL  199 (199)
T ss_dssp             -CCGG-GT-TCTTCCEEECCSSCCCC-CG-GGGGCTTCSEE
T ss_pred             -CCcc-cc-CCCCCCEEECCCCCCCC-Cc-cccCCCCCCcC
Confidence             5543 33 48999999999999984 44 57888888875

>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=99.76  E-value=1.7e-17  Score=135.46  Aligned_cols=160  Identities=24%  Similarity=0.337  Sum_probs=70.1

Q ss_pred             CCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCCcCCccCChhhhccCCCccE
Q 042011          103 QHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKF  182 (361)
Q Consensus       103 l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~  182 (361)
                      +.++++|+++++.++ .++.  ++.+++|++|++++|++++..  .+..+++|++|++++|.+. .++. + ..++.|+.
T Consensus        39 l~~l~~L~l~~~~i~-~l~~--l~~l~nL~~L~Ls~N~l~~~~--~l~~l~~L~~L~l~~n~~~-~~~~-l-~~l~~L~~  110 (199)
T d2omxa2          39 LDQVTTLQADRLGIK-SIDG--VEYLNNLTQINFSNNQLTDIT--PLKNLTKLVDILMNNNQIA-DITP-L-ANLTNLTG  110 (199)
T ss_dssp             HTTCCEEECTTSCCC-CCTT--GGGCTTCCEEECCSSCCCCCG--GGTTCTTCCEEECCSSCCC-CCGG-G-TTCTTCSE
T ss_pred             hcCCCEEECCCCCCC-Cccc--cccCCCcCcCccccccccCcc--cccCCcccccccccccccc-cccc-c-cccccccc
Confidence            445555555555554 3322  344555555555555544322  1444455555555555444 3321 2 22445555


Q ss_pred             EEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCc
Q 042011          183 FNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNR  262 (361)
Q Consensus       183 L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~  262 (361)
                      +++++|.....  ..+..+++|+.+++++|.+. .++. +. .+++++.|++.+|++++.  ..++++++|+.|++++|+
T Consensus       111 L~l~~~~~~~~--~~~~~l~~L~~L~l~~n~l~-~~~~-l~-~~~~L~~L~l~~n~l~~l--~~l~~l~~L~~L~ls~N~  183 (199)
T d2omxa2         111 LTLFNNQITDI--DPLKNLTNLNRLELSSNTIS-DISA-LS-GLTSLQQLNFSSNQVTDL--KPLANLTTLERLDISSNK  183 (199)
T ss_dssp             EECCSSCCCCC--GGGTTCTTCSEEECCSSCCC-CCGG-GT-TCTTCSEEECCSSCCCCC--GGGTTCTTCCEEECCSSC
T ss_pred             ccccccccccc--cccchhhhhHHhhhhhhhhc-cccc-cc-ccccccccccccccccCC--ccccCCCCCCEEECCCCC
Confidence            55554444311  12344445555555555444 3321 11 344445555544444432  123444444455554444


Q ss_pred             CCccchhhhhcCCCCCE
Q 042011          263 FVGEIPQSLSKCSSLEG  279 (361)
Q Consensus       263 l~~~~~~~~~~l~~L~~  279 (361)
                      +++ ++ .++++++|++
T Consensus       184 i~~-i~-~l~~L~~L~~  198 (199)
T d2omxa2         184 VSD-IS-VLAKLTNLES  198 (199)
T ss_dssp             CCC-CG-GGGGCTTCSE
T ss_pred             CCC-Cc-cccCCCCCCc
Confidence            442 11 2444444443

>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=99.71  E-value=2.7e-18  Score=148.20  Aligned_cols=183  Identities=21%  Similarity=0.210  Sum_probs=111.0

Q ss_pred             CCCccEEEecCCcccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCC-cCCccCChhhhccCCCcc
Q 042011          103 QHDLALVDLSHIKMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNN-NFRCHIPVEIGDILPSLK  181 (361)
Q Consensus       103 l~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~~l~~L~  181 (361)
                      ..+|++||++++.++......++..+++|++|+++++.+.+.....+..+++|++|+++++ .+++..-..+...+++|+
T Consensus        45 ~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~  124 (284)
T d2astb2          45 PFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLD  124 (284)
T ss_dssp             CBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCC
T ss_pred             CCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHhcc
Confidence            3466667776666654433444666677777777776665444555566667777777764 444222223334467777


Q ss_pred             EEEecCCc-cccc-cCccc-cCCCCCCEEeccCC--cCccccchhhhhCCCCCcEEEeecC-CCCCcccccccCCCCCCE
Q 042011          182 FFNISMNA-LDGS-IPSSF-GNMNFLRVLDLSNN--QLTGEIPEHLAVGCVNLESLALSNN-SLEGHMFSRNFNLTNLEW  255 (361)
Q Consensus       182 ~L~L~~n~-l~~~-~~~~l-~~~~~L~~L~l~~n--~l~~~~~~~~~~~~~~L~~L~L~~n-~l~~~~~~~~~~~~~L~~  255 (361)
                      +|++++|. ++.. +...+ ..++.|+.|+++++  .+++.....+...+++|++|++++| .+++.....+..+++|++
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            77777753 3311 11122 23456777777765  2332222333346778888888775 466556666777788888


Q ss_pred             EeccCC-cCCccchhhhhcCCCCCEEECcCC
Q 042011          256 LQLGGN-RFVGEIPQSLSKCSSLEGLYLNNN  285 (361)
Q Consensus       256 L~L~~n-~l~~~~~~~~~~l~~L~~L~l~~N  285 (361)
                      |++++| .+++.....++.+++|+.|+++++
T Consensus       205 L~L~~C~~i~~~~l~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         205 LSLSRCYDIIPETLLELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             EECTTCTTCCGGGGGGGGGCTTCCEEECTTS
T ss_pred             EECCCCCCCChHHHHHHhcCCCCCEEeeeCC
Confidence            888875 566655666777788888888776

>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=99.71  E-value=7.8e-18  Score=145.26  Aligned_cols=257  Identities=16%  Similarity=0.169  Sum_probs=135.6

Q ss_pred             CeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEE
Q 042011            5 RILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSL   84 (361)
Q Consensus         5 ~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L   84 (361)
                      +++|++++.+...+....+.  .....+.++...+....  .......+|++||+++|.+.......  .+..+.+|++|
T Consensus         3 ~~lDLs~~~l~~~~l~~l~~--~~~~~lrl~~~~~~~~~--~~~~~~~~L~~LdLs~~~i~~~~l~~--l~~~c~~L~~L   76 (284)
T d2astb2           3 QTLDLTGKNLHPDVTGRLLS--QGVIAFRCPRSFMDQPL--AEHFSPFRVQHMDLSNSVIEVSTLHG--ILSQCSKLQNL   76 (284)
T ss_dssp             SEEECTTCBCCHHHHHHHHH--TTCSEEECTTCEECSCC--CSCCCCBCCCEEECTTCEECHHHHHH--HHTTBCCCSEE
T ss_pred             CEEECCCCCCCchHHHHHHh--ccceEeeccccccccch--hhhccCCCCCEEECCCCccCHHHHHH--HHHhCCCcccc
Confidence            57899888765332221221  24566777666554222  23445678899999888775432111  13445577777


Q ss_pred             eccCCCCCCCCCchhhcCCCCccEEEecCC-cccCCcChHHHhcCCCCcEEEecCCcccCCCCCCcCCCCCcCEEEccCC
Q 042011           85 SLSSDYGDGFIFPKFLYHQHDLALVDLSHI-KMNGEFPTWLLENNTKLETLFLVNDSLTGPFRLPIHSHRWLEFLDISNN  163 (361)
Q Consensus        85 ~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n-~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n  163 (361)
                      ++ .++.+++..+..+.++++|++|+++++ .+++..-..+...+++|++|++++|.                       
T Consensus        77 ~L-~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~~L~ls~c~-----------------------  132 (284)
T d2astb2          77 SL-EGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCF-----------------------  132 (284)
T ss_dssp             EC-TTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCT-----------------------
T ss_pred             cc-cccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHhcccccccccc-----------------------
Confidence            77 666665555556666667777777664 34322122234455666666665542                       


Q ss_pred             cCCcc-CChhhhccCCCccEEEecCCc--ccc-ccCccccCCCCCCEEeccCCc-CccccchhhhhCCCCCcEEEeecC-
Q 042011          164 NFRCH-IPVEIGDILPSLKFFNISMNA--LDG-SIPSSFGNMNFLRVLDLSNNQ-LTGEIPEHLAVGCVNLESLALSNN-  237 (361)
Q Consensus       164 ~l~~~-~~~~~~~~l~~L~~L~L~~n~--l~~-~~~~~l~~~~~L~~L~l~~n~-l~~~~~~~~~~~~~~L~~L~L~~n-  237 (361)
                      .+++. +...+....+.|+.|+++++.  ++. .+...+..+++|++|++++|. +++.....+. .+++|++|++++| 
T Consensus       133 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l~-~~~~L~~L~L~~C~  211 (284)
T d2astb2         133 DFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFF-QLNYLQHLSLSRCY  211 (284)
T ss_dssp             TCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGG-GCTTCCEEECTTCT
T ss_pred             ccccccchhhhcccccccchhhhcccccccccccccccccccccccccccccccCCCchhhhhhc-ccCcCCEEECCCCC
Confidence            11110 111122223455555555432  221 112223345666666666543 4434444443 5667777777764 


Q ss_pred             CCCCcccccccCCCCCCEEeccCCcCCcc-chhhhhcCCCCCEEECcCCcccccCCCCCC
Q 042011          238 SLEGHMFSRNFNLTNLEWLQLGGNRFVGE-IPQSLSKCSSLEGLYLNNNSLSGNVNVPSS  296 (361)
Q Consensus       238 ~l~~~~~~~~~~~~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~  296 (361)
                      .+++.....++.+++|+.|+++++ +++. +......+++|+   +..+.+++..+..+.
T Consensus       212 ~i~~~~l~~L~~~~~L~~L~l~~~-~~d~~l~~l~~~lp~L~---i~~~~ls~~~~~~~~  267 (284)
T d2astb2         212 DIIPETLLELGEIPTLKTLQVFGI-VPDGTLQLLKEALPHLQ---INCSHFTTIARPTIG  267 (284)
T ss_dssp             TCCGGGGGGGGGCTTCCEEECTTS-SCTTCHHHHHHHSTTSE---ESCCCSCCTTCSSCS
T ss_pred             CCChHHHHHHhcCCCCCEEeeeCC-CCHHHHHHHHHhCcccc---ccCccCCCCCCCccC
Confidence            455545555667788888888777 3332 222234455554   466777765544443

>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=99.71  E-value=1.3e-19  Score=166.97  Aligned_cols=285  Identities=19%  Similarity=0.088  Sum_probs=187.2

Q ss_pred             CCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCccccccccc-ccccCcccccEEeccCCCCCCCCCchh----hc
Q 042011           27 TSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSH-SLIAPNFQLNSLSLSSDYGDGFIFPKF----LY  101 (361)
Q Consensus        27 ~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~-~~~~~~~~L~~L~l~~~~~~~~~~~~~----l~  101 (361)
                      .+|++||+++|++++..-...+..++++++|+|++|.++......+ ..+..+++|++|++ ++|.++......    +.
T Consensus         2 ~~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdL-s~N~i~~~~~~~l~~~l~   80 (460)
T d1z7xw1           2 LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNL-RSNELGDVGVHCVLQGLQ   80 (460)
T ss_dssp             EEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEEC-TTCCCHHHHHHHHHHTTC
T ss_pred             CCCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEEC-cCCcCChHHHHHHHHHHh
Confidence            4689999999999843222456778999999999999875433222 22355679999999 888886432222    22


Q ss_pred             -CCCCccEEEecCCcccCCcCh---HHHhcCCCCcEEEecCCcccCCC----------------------CC--------
Q 042011          102 -HQHDLALVDLSHIKMNGEFPT---WLLENNTKLETLFLVNDSLTGPF----------------------RL--------  147 (361)
Q Consensus       102 -~l~~L~~L~l~~n~l~~~~~~---~~~~~~~~L~~L~l~~n~l~~~~----------------------~~--------  147 (361)
                       ...+|++|++++|.+++....   ..+..+++|++|++++|.+....                      +.        
T Consensus        81 ~~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~i~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  160 (460)
T d1z7xw1          81 TPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEP  160 (460)
T ss_dssp             STTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHH
T ss_pred             cCCCCCCEEECCCCCccccccccccchhhccccccccccccccchhhhhhhhhhcccccccccccccccccccchhhhcc
Confidence             245899999999999743211   22567899999999999764210                      00        


Q ss_pred             ---CcCCCCCcCEEEccCCcCCc----------------------------cCC-h---hhhccCCCccEEEecCCcccc
Q 042011          148 ---PIHSHRWLEFLDISNNNFRC----------------------------HIP-V---EIGDILPSLKFFNISMNALDG  192 (361)
Q Consensus       148 ---~~~~l~~L~~L~l~~n~l~~----------------------------~~~-~---~~~~~l~~L~~L~L~~n~l~~  192 (361)
                         .+...+.++.++++++....                            ... .   ......+.++.+++++|.+..
T Consensus       161 ~~~~l~~~~~~~~~~ls~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~n~~~~  240 (460)
T d1z7xw1         161 LASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGD  240 (460)
T ss_dssp             HHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBCHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccchhhhcccccccccccccccchhhccccc
Confidence               00111334444444432210                            100 0   111125678999999987642


Q ss_pred             -----ccCccccCCCCCCEEeccCCcCccccc----hhhhhCCCCCcEEEeecCCCCCccccc-----ccCCCCCCEEec
Q 042011          193 -----SIPSSFGNMNFLRVLDLSNNQLTGEIP----EHLAVGCVNLESLALSNNSLEGHMFSR-----NFNLTNLEWLQL  258 (361)
Q Consensus       193 -----~~~~~l~~~~~L~~L~l~~n~l~~~~~----~~~~~~~~~L~~L~L~~n~l~~~~~~~-----~~~~~~L~~L~L  258 (361)
                           ...........++.+++++|.+.....    ..+ ...+.++.+++++|.+.......     ......|+.+++
T Consensus       241 ~~~~~~~~~~~~~~~~l~~l~l~~n~i~~~~~~~~~~~l-~~~~~l~~l~l~~n~i~~~~~~~l~~~l~~~~~~L~~l~l  319 (460)
T d1z7xw1         241 VGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVL-RAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWV  319 (460)
T ss_dssp             HHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHH-HHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEEC
T ss_pred             cccchhhcccccccccccccccccccccccccccccccc-cccccccccccccccccccccchhhccccccccccccccc
Confidence                 223345567889999999998873221    222 25788999999999986422221     124568999999


Q ss_pred             cCCcCCccchh----hhhcCCCCCEEECcCCccccc----CCCCC-CCcCcceeeccccccccC
Q 042011          259 GGNRFVGEIPQ----SLSKCSSLEGLYLNNNSLSGN----VNVPS-SPANTLFNLSQNSRRFTS  313 (361)
Q Consensus       259 ~~n~l~~~~~~----~~~~l~~L~~L~l~~N~l~~~----~~~~~-~~~~~L~~l~l~~N~~~~  313 (361)
                      ++|.++.....    .+...++|++|++++|++++.    ++..+ ...+.|++|++++|.++.
T Consensus       320 ~~~~l~~~~~~~l~~~~~~~~~L~~L~Ls~N~i~~~g~~~l~~~l~~~~~~L~~L~Ls~n~i~~  383 (460)
T d1z7xw1         320 KSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSD  383 (460)
T ss_dssp             TTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCH
T ss_pred             cccchhhhhhhhcccccccccchhhhheeeecccCcccchhhhhhhcccCCCCEEECCCCCCCh
Confidence            99998865433    445567999999999999753    22223 346779999999999975

>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=99.66  E-value=7.9e-17  Score=142.92  Aligned_cols=251  Identities=21%  Similarity=0.155  Sum_probs=120.5

Q ss_pred             cCChhhhhccCCCCeEeCcCCccccc----CCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCC
Q 042011           17 SISSSPLVHLTSIEELMLSNNHFQIP----ISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGD   92 (361)
Q Consensus        17 ~i~~~~~~~l~~L~~L~Ls~n~l~~~----~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~   92 (361)
                      .+.. .+.....++.|+|++|.+...    +. ..+...++|+.++++++.............                 
T Consensus        22 ~l~~-~L~~~~~l~~L~Ls~n~i~~~~~~~l~-~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~-----------------   82 (344)
T d2ca6a1          22 SVFA-VLLEDDSVKEIVLSGNTIGTEAARWLS-ENIASKKDLEIAEFSDIFTGRVKDEIPEAL-----------------   82 (344)
T ss_dssp             TTSH-HHHHCSCCCEEECTTSEECHHHHHHHH-HTTTTCTTCCEEECCSCCTTSCGGGSHHHH-----------------
T ss_pred             HHHH-HHhhCCCCCEEECcCCcCCHHHHHHHH-HHHHhCCCCCEEECCCCcccccccccchHH-----------------
Confidence            3444 577788899999998887521    11 245677888888888775432111100000                 


Q ss_pred             CCCCchhhcCCCCccEEEecCCcccCCcChH---HHhcCCCCcEEEecCCcccCCCCC-------------CcCCCCCcC
Q 042011           93 GFIFPKFLYHQHDLALVDLSHIKMNGEFPTW---LLENNTKLETLFLVNDSLTGPFRL-------------PIHSHRWLE  156 (361)
Q Consensus        93 ~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~---~~~~~~~L~~L~l~~n~l~~~~~~-------------~~~~l~~L~  156 (361)
                       ..+...+..+++|+.|++++|.++......   .+...++|++|++++|.+......             .....+.|+
T Consensus        83 -~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~  161 (344)
T d2ca6a1          83 -RLLLQALLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLR  161 (344)
T ss_dssp             -HHHHHHHTTCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCC
T ss_pred             -HHHHHHHhhCCCcccccccccccccccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccc
Confidence             012233445666777777776665321111   134556666666666655321000             012234566


Q ss_pred             EEEccCCcCCccCChhh---hccCCCccEEEecCCccccc-----cCccccCCCCCCEEeccCCcCccc----cchhhhh
Q 042011          157 FLDISNNNFRCHIPVEI---GDILPSLKFFNISMNALDGS-----IPSSFGNMNFLRVLDLSNNQLTGE----IPEHLAV  224 (361)
Q Consensus       157 ~L~l~~n~l~~~~~~~~---~~~l~~L~~L~L~~n~l~~~-----~~~~l~~~~~L~~L~l~~n~l~~~----~~~~~~~  224 (361)
                      .+.+++|++.......+   ....+.++.|++++|.++..     +...+..+++|++|++++|.++..    +...+ .
T Consensus       162 ~l~l~~n~i~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l-~  240 (344)
T d2ca6a1         162 SIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIAL-K  240 (344)
T ss_dssp             EEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHG-G
T ss_pred             eeecccccccccccccccchhhhhhhhcccccccccccccccccchhhhhcchhhhcccccccccccccccccccccc-c
Confidence            66666665542211111   11245566666666655421     223344555566666666655421    11111 2


Q ss_pred             CCCCCcEEEeecCCCCCcccccc----c--CCCCCCEEeccCCcCCccc----hhhhh-cCCCCCEEECcCCccc
Q 042011          225 GCVNLESLALSNNSLEGHMFSRN----F--NLTNLEWLQLGGNRFVGEI----PQSLS-KCSSLEGLYLNNNSLS  288 (361)
Q Consensus       225 ~~~~L~~L~L~~n~l~~~~~~~~----~--~~~~L~~L~L~~n~l~~~~----~~~~~-~l~~L~~L~l~~N~l~  288 (361)
                      .+++|++|++++|.+++.....+    .  ..+.|+.|++++|+|+...    ...+. ++++|+.|++++|++.
T Consensus       241 ~~~~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~~~~~~~l~~~l~~~~~~L~~L~l~~N~~~  315 (344)
T d2ca6a1         241 SWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFS  315 (344)
T ss_dssp             GCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBSC
T ss_pred             ccccchhhhhhcCccCchhhHHHHHHhhhccCCCCCEEECCCCcCChHHHHHHHHHHHccCCCCCEEECCCCcCC
Confidence            44555555555555543211111    1  1234555555555554321    12221 3445555555555553

>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=99.65  E-value=3.5e-16  Score=122.75  Aligned_cols=128  Identities=22%  Similarity=0.186  Sum_probs=91.2

Q ss_pred             cCCCCCcCEEEccCCcCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCC
Q 042011          149 IHSHRWLEFLDISNNNFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVN  228 (361)
Q Consensus       149 ~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~  228 (361)
                      +.+..++++|++++|+|+ .++.. +..+++|+.|++++|.++ .++ .+..+++|++|++++|.++ .++..++..+++
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~~   88 (162)
T d1a9na_          14 YTNAVRDRELDLRGYKIP-VIENL-GATLDQFDAIDFSDNEIR-KLD-GFPLLRRLKTLLVNNNRIC-RIGEGLDQALPD   88 (162)
T ss_dssp             EECTTSCEEEECTTSCCC-SCCCG-GGGTTCCSEEECCSSCCC-EEC-CCCCCSSCCEEECCSSCCC-EECSCHHHHCTT
T ss_pred             ccCcCcCcEEECCCCCCC-ccCcc-ccccccCCEEECCCCCCC-ccC-CcccCcchhhhhccccccc-CCCccccccccc
Confidence            445567788888888887 66643 344778888888888887 343 4777888888888888887 676666656888


Q ss_pred             CcEEEeecCCCCCccc-ccccCCCCCCEEeccCCcCCccc---hhhhhcCCCCCEEE
Q 042011          229 LESLALSNNSLEGHMF-SRNFNLTNLEWLQLGGNRFVGEI---PQSLSKCSSLEGLY  281 (361)
Q Consensus       229 L~~L~L~~n~l~~~~~-~~~~~~~~L~~L~L~~n~l~~~~---~~~~~~l~~L~~L~  281 (361)
                      |+.|++++|+++.... ..+..+++|+.|++++|+++...   +..+..+++|+.||
T Consensus        89 L~~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~LD  145 (162)
T d1a9na_          89 LTELILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLD  145 (162)
T ss_dssp             CCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEET
T ss_pred             cccceeccccccccccccccccccccchhhcCCCccccccchHHHHHHHCCCcCeeC
Confidence            8888888888876422 45667778888888888776332   23466677777765

>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=99.63  E-value=9.5e-16  Score=120.23  Aligned_cols=128  Identities=16%  Similarity=0.038  Sum_probs=79.1

Q ss_pred             hhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEEeccCCCCCCCCCchhhcC
Q 042011           23 LVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYH  102 (361)
Q Consensus        23 ~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~  102 (361)
                      |.++.++++|+|++|+|+ .++ ..+..+++|+.|++++|.++.. +    .+..+.+|++|++ ++|.++...+..+..
T Consensus        14 ~~n~~~lr~L~L~~n~I~-~i~-~~~~~l~~L~~L~Ls~N~i~~l-~----~~~~l~~L~~L~l-s~N~i~~l~~~~~~~   85 (162)
T d1a9na_          14 YTNAVRDRELDLRGYKIP-VIE-NLGATLDQFDAIDFSDNEIRKL-D----GFPLLRRLKTLLV-NNNRICRIGEGLDQA   85 (162)
T ss_dssp             EECTTSCEEEECTTSCCC-SCC-CGGGGTTCCSEEECCSSCCCEE-C----CCCCCSSCCEEEC-CSSCCCEECSCHHHH
T ss_pred             ccCcCcCcEEECCCCCCC-ccC-ccccccccCCEEECCCCCCCcc-C----CcccCcchhhhhc-ccccccCCCcccccc
Confidence            555666666666666666 454 3455666666666666666542 1    1344556666666 666666555555666


Q ss_pred             CCCccEEEecCCcccCCcCh-HHHhcCCCCcEEEecCCcccCCC---CCCcCCCCCcCEEE
Q 042011          103 QHDLALVDLSHIKMNGEFPT-WLLENNTKLETLFLVNDSLTGPF---RLPIHSHRWLEFLD  159 (361)
Q Consensus       103 l~~L~~L~l~~n~l~~~~~~-~~~~~~~~L~~L~l~~n~l~~~~---~~~~~~l~~L~~L~  159 (361)
                      +++|++|++++|.++ .++. ..+..+++|+++++++|.++...   +..+..+|+|+.||
T Consensus        86 l~~L~~L~L~~N~i~-~~~~l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~LD  145 (162)
T d1a9na_          86 LPDLTELILTNNSLV-ELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLD  145 (162)
T ss_dssp             CTTCCEEECCSCCCC-CGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEET
T ss_pred             ccccccceecccccc-ccccccccccccccchhhcCCCccccccchHHHHHHHCCCcCeeC
Confidence            777777777777776 3332 22567777777777777765321   12355667777776

>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=99.62  E-value=5.1e-15  Score=110.45  Aligned_cols=119  Identities=21%  Similarity=0.202  Sum_probs=88.7

Q ss_pred             CeEeCCCccccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccccEE
Q 042011            5 RILDVSSNQLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQLNSL   84 (361)
Q Consensus         5 ~~L~L~~n~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L~~L   84 (361)
                      |.|+|++|+++ .++.  +..+++|++|++++|+++ .+| ..+..+++|++|++++|.++...     .+..+.+|++|
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   70 (124)
T d1dcea3           1 RVLHLAHKDLT-VLCH--LEQLLLVTHLDLSHNRLR-ALP-PALAALRCLEVLQASDNALENVD-----GVANLPRLQEL   70 (124)
T ss_dssp             SEEECTTSCCS-SCCC--GGGGTTCCEEECCSSCCC-CCC-GGGGGCTTCCEEECCSSCCCCCG-----GGTTCSSCCEE
T ss_pred             CEEEcCCCCCC-CCcc--cccCCCCCEEECCCCccC-cch-hhhhhhhcccccccccccccccC-----ccccccccCeE
Confidence            68999999998 8876  899999999999999998 787 47899999999999999987531     24556677777


Q ss_pred             eccCCCCCCCCC-chhhcCCCCccEEEecCCcccC--CcChHHHhcCCCCcEE
Q 042011           85 SLSSDYGDGFIF-PKFLYHQHDLALVDLSHIKMNG--EFPTWLLENNTKLETL  134 (361)
Q Consensus        85 ~l~~~~~~~~~~-~~~l~~l~~L~~L~l~~n~l~~--~~~~~~~~~~~~L~~L  134 (361)
                      ++ ++|.+.... ...+..+++|+.|++++|.++.  ..+..+...+|+++.+
T Consensus        71 ~l-~~N~i~~~~~~~~l~~~~~L~~L~l~~N~i~~~~~~~~~l~~~lp~L~~L  122 (124)
T d1dcea3          71 LL-CNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSI  122 (124)
T ss_dssp             EC-CSSCCCSSSTTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEE
T ss_pred             EC-CCCccCCCCCchhhcCCCCCCEEECCCCcCCcCccHHHHHHHHCcCcceE
Confidence            77 777776543 2456667777777777777652  2234445556666654

>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=99.58  E-value=8.6e-15  Score=109.20  Aligned_cols=101  Identities=33%  Similarity=0.398  Sum_probs=43.6

Q ss_pred             EEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCC
Q 042011          182 FFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGN  261 (361)
Q Consensus       182 ~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n  261 (361)
                      .|++++|.++ .++ .+..+++|++|++++|.++ .+|..+. .+++|++|++++|.+++.  +.+..+++|+.|++++|
T Consensus         2 ~L~Ls~n~l~-~l~-~l~~l~~L~~L~ls~N~l~-~lp~~~~-~l~~L~~L~l~~N~i~~l--~~~~~l~~L~~L~l~~N   75 (124)
T d1dcea3           2 VLHLAHKDLT-VLC-HLEQLLLVTHLDLSHNRLR-ALPPALA-ALRCLEVLQASDNALENV--DGVANLPRLQELLLCNN   75 (124)
T ss_dssp             EEECTTSCCS-SCC-CGGGGTTCCEEECCSSCCC-CCCGGGG-GCTTCCEEECCSSCCCCC--GGGTTCSSCCEEECCSS
T ss_pred             EEEcCCCCCC-CCc-ccccCCCCCEEECCCCccC-cchhhhh-hhhccccccccccccccc--CccccccccCeEECCCC
Confidence            3444444444 222 2344444444444444444 4443332 344444444444444432  12444444444444444


Q ss_pred             cCCccc-hhhhhcCCCCCEEECcCCccc
Q 042011          262 RFVGEI-PQSLSKCSSLEGLYLNNNSLS  288 (361)
Q Consensus       262 ~l~~~~-~~~~~~l~~L~~L~l~~N~l~  288 (361)
                      ++++.. ...+..+++|+.+++++|+++
T Consensus        76 ~i~~~~~~~~l~~~~~L~~L~l~~N~i~  103 (124)
T d1dcea3          76 RLQQSAAIQPLVSCPRLVLLNLQGNSLC  103 (124)
T ss_dssp             CCCSSSTTGGGGGCTTCCEEECTTSGGG
T ss_pred             ccCCCCCchhhcCCCCCCEEECCCCcCC
Confidence            444321 133444445555555555444

>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=99.57  E-value=1.2e-15  Score=135.13  Aligned_cols=238  Identities=18%  Similarity=0.233  Sum_probs=140.6

Q ss_pred             CCCCeEeCCCccccCc----CChhhhhccCCCCeEeCcCCcccccCC----------cccccCCCCCcEEEccCCCcccc
Q 042011            2 TSLRILDVSSNQLTGS----ISSSPLVHLTSIEELMLSNNHFQIPIS----------LEPLFNHSRLKIFYADNNELNAE   67 (361)
Q Consensus         2 ~~L~~L~L~~n~i~~~----i~~~~~~~l~~L~~L~Ls~n~l~~~~~----------~~~~~~l~~L~~L~l~~n~~~~~   67 (361)
                      +.|+.|+|++|.|...    +.. .+...++|+.++++++... ...          ...+..+++|++|++++|.+...
T Consensus        31 ~~l~~L~Ls~n~i~~~~~~~l~~-~l~~~~~L~~l~l~~~~~~-~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~  108 (344)
T d2ca6a1          31 DSVKEIVLSGNTIGTEAARWLSE-NIASKKDLEIAEFSDIFTG-RVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPT  108 (344)
T ss_dssp             SCCCEEECTTSEECHHHHHHHHH-TTTTCTTCCEEECCSCCTT-SCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTT
T ss_pred             CCCCEEECcCCcCCHHHHHHHHH-HHHhCCCCCEEECCCCccc-ccccccchHHHHHHHHHhhCCCcccccccccccccc
Confidence            5789999999988532    222 4556799999999987654 111          12355678888888888877543


Q ss_pred             cccccccccCcccccEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcCh------------HHHhcCCCCcEEE
Q 042011           68 ITQSHSLIAPNFQLNSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPT------------WLLENNTKLETLF  135 (361)
Q Consensus        68 ~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~------------~~~~~~~~L~~L~  135 (361)
                      ....                        +...+..++.|++|++++|.+...-..            ......+.|+.+.
T Consensus       109 ~~~~------------------------l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~  164 (344)
T d2ca6a1         109 AQEP------------------------LIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSII  164 (344)
T ss_dssp             THHH------------------------HHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEE
T ss_pred             cccc------------------------hhhhhcccccchheecccccccccccccccccccccccccccccCcccceee
Confidence            2111                        122233445555555555544311000            0123455666677


Q ss_pred             ecCCcccCC----CCCCcCCCCCcCEEEccCCcCCccC----ChhhhccCCCccEEEecCCcccc----ccCccccCCCC
Q 042011          136 LVNDSLTGP----FRLPIHSHRWLEFLDISNNNFRCHI----PVEIGDILPSLKFFNISMNALDG----SIPSSFGNMNF  203 (361)
Q Consensus       136 l~~n~l~~~----~~~~~~~l~~L~~L~l~~n~l~~~~----~~~~~~~l~~L~~L~L~~n~l~~----~~~~~l~~~~~  203 (361)
                      +++|.+...    +...+...+.+++|++++|+++...    ........++|+.|++++|.++.    .+...+..+++
T Consensus       165 l~~n~i~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~  244 (344)
T d2ca6a1         165 CGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPN  244 (344)
T ss_dssp             CCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTT
T ss_pred             cccccccccccccccchhhhhhhhcccccccccccccccccchhhhhcchhhhccccccccccccccccccccccccccc
Confidence            666665421    1222344566777777777765221    11112236778888888887752    23345667788


Q ss_pred             CCEEeccCCcCccccchhhhh-----CCCCCcEEEeecCCCCCcc----ccccc-CCCCCCEEeccCCcCCc
Q 042011          204 LRVLDLSNNQLTGEIPEHLAV-----GCVNLESLALSNNSLEGHM----FSRNF-NLTNLEWLQLGGNRFVG  265 (361)
Q Consensus       204 L~~L~l~~n~l~~~~~~~~~~-----~~~~L~~L~L~~n~l~~~~----~~~~~-~~~~L~~L~L~~n~l~~  265 (361)
                      |++|++++|.+++.....++.     ..+.|++|++++|.++...    ...+. +++.|+.|++++|++..
T Consensus       245 L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~~~~~~~l~~~l~~~~~~L~~L~l~~N~~~~  316 (344)
T d2ca6a1         245 LRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFSE  316 (344)
T ss_dssp             CCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBSCT
T ss_pred             chhhhhhcCccCchhhHHHHHHhhhccCCCCCEEECCCCcCChHHHHHHHHHHHccCCCCCEEECCCCcCCC
Confidence            888888888887432222211     2356888888888876532    22222 46788999999998864

>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=99.53  E-value=2.6e-14  Score=111.13  Aligned_cols=121  Identities=18%  Similarity=0.104  Sum_probs=98.1

Q ss_pred             CCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecC-CCCCcccccccCCCCCCEEeccCCcCCccchhhhhcCCCCCE
Q 042011          201 MNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNN-SLEGHMFSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEG  279 (361)
Q Consensus       201 ~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n-~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  279 (361)
                      +...+.++.+++.+. +.|..+. .++++++|++++| .++.+.+..|.++++|+.|++++|+|+...+.+|..+++|++
T Consensus         7 c~~~~~l~c~~~~~~-~~p~~l~-~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~   84 (156)
T d2ifga3           7 PHGSSGLRCTRDGAL-DSLHHLP-GAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSR   84 (156)
T ss_dssp             CSSSSCEECCSSCCC-TTTTTSC-SCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCE
T ss_pred             cCCCCeEEecCCCCc-cCccccc-CccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccc
Confidence            344566788888777 6776664 6888999999766 488877888999999999999999999777888999999999


Q ss_pred             EECcCCcccccCCCCCCCcCcceeeccccccccCCcccccccccc
Q 042011          280 LYLNNNSLSGNVNVPSSPANTLFNLSQNSRRFTSSISHSHLLNLH  324 (361)
Q Consensus       280 L~l~~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~~~~~~~~~~  324 (361)
                      |+|++|+++...+..|.. .+|++|++++|+|.|++...++..|.
T Consensus        85 L~Ls~N~l~~l~~~~~~~-~~l~~L~L~~Np~~C~C~~~~l~~~~  128 (156)
T d2ifga3          85 LNLSFNALESLSWKTVQG-LSLQELVLSGNPLHCSCALRWLQRWE  128 (156)
T ss_dssp             EECCSSCCSCCCSTTTCS-CCCCEEECCSSCCCCCGGGHHHHHHH
T ss_pred             eeccCCCCcccChhhhcc-ccccccccCCCcccCCchHHHHHHHH
Confidence            999999999655555554 47999999999999988777776654

>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=99.44  E-value=1.5e-15  Score=123.19  Aligned_cols=143  Identities=24%  Similarity=0.286  Sum_probs=93.6

Q ss_pred             cCEEEccCC--cCCccCChhhhccCCCccEEEecCCccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEE
Q 042011          155 LEFLDISNN--NFRCHIPVEIGDILPSLKFFNISMNALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESL  232 (361)
Q Consensus       155 L~~L~l~~n--~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L  232 (361)
                      ++.+++.+.  .+. .++..+.. +++|++|++++|.++ .++ .+..+++|++|++++|.++ .++.... .+++|++|
T Consensus        25 ~~~~~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_          25 AEKVELHGMIPPIE-KMDATLST-LKACKHLALSTNNIE-KIS-SLSGMENLRILSLGRNLIK-KIENLDA-VADTLEEL   98 (198)
T ss_dssp             CSCEECCBCCTTCC-CCHHHHHH-TTTCCEEECSEEEES-CCC-CHHHHTTCCEEECCEEEEC-SCSSHHH-HHHHCCEE
T ss_pred             cceeeeecccCchh-hhhhHHhc-ccccceeECcccCCC-Ccc-cccCCccccChhhcccccc-ccccccc-cccccccc
Confidence            344444433  233 45555554 777888888888777 343 4677778888888888777 6664333 45678888


Q ss_pred             EeecCCCCCcccccccCCCCCCEEeccCCcCCccch-hhhhcCCCCCEEECcCCcccccCCCC----------CCCcCcc
Q 042011          233 ALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIP-QSLSKCSSLEGLYLNNNSLSGNVNVP----------SSPANTL  301 (361)
Q Consensus       233 ~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~-~~~~~l~~L~~L~l~~N~l~~~~~~~----------~~~~~~L  301 (361)
                      ++++|+++..  ..+..+++|+.|++++|++++... ..+..+++|+.|++++|++....+..          +..+++|
T Consensus        99 ~l~~N~i~~l--~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~~~~r~~vi~~lp~L  176 (198)
T d1m9la_          99 WISYNQIASL--SGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNL  176 (198)
T ss_dssp             ECSEEECCCH--HHHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSSHHHHHHCTTTTHHHHHHHHHHHCSSC
T ss_pred             cccccccccc--ccccccccccccccccchhccccccccccCCCccceeecCCCccccCcccccchhhHHHHHHHHCCCc
Confidence            8888887763  346667788888888888874322 45777888888888888876544432          2345666


Q ss_pred             eeec
Q 042011          302 FNLS  305 (361)
Q Consensus       302 ~~l~  305 (361)
                      +.||
T Consensus       177 ~~LD  180 (198)
T d1m9la_         177 KKLD  180 (198)
T ss_dssp             CEES
T ss_pred             CEeC
Confidence            6655

>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=99.40  E-value=9.2e-15  Score=118.52  Aligned_cols=126  Identities=21%  Similarity=0.202  Sum_probs=80.1

Q ss_pred             CCeEeCCCc--cccCcCChhhhhccCCCCeEeCcCCcccccCCcccccCCCCCcEEEccCCCcccccccccccccCcccc
Q 042011            4 LRILDVSSN--QLTGSISSSPLVHLTSIEELMLSNNHFQIPISLEPLFNHSRLKIFYADNNELNAEITQSHSLIAPNFQL   81 (361)
Q Consensus         4 L~~L~L~~n--~i~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~L   81 (361)
                      .+.+++++.  .++ .++. .+..+++|++|+|++|+|+ .++  .+..+++|++|++++|.++.. +..   .....+|
T Consensus        25 ~~~~~l~~~~~~i~-~l~~-sl~~L~~L~~L~Ls~n~I~-~i~--~l~~l~~L~~L~Ls~N~i~~i-~~~---~~~~~~L   95 (198)
T d1m9la_          25 AEKVELHGMIPPIE-KMDA-TLSTLKACKHLALSTNNIE-KIS--SLSGMENLRILSLGRNLIKKI-ENL---DAVADTL   95 (198)
T ss_dssp             CSCEECCBCCTTCC-CCHH-HHHHTTTCCEEECSEEEES-CCC--CHHHHTTCCEEECCEEEECSC-SSH---HHHHHHC
T ss_pred             cceeeeecccCchh-hhhh-HHhcccccceeECcccCCC-Ccc--cccCCccccChhhcccccccc-ccc---ccccccc
Confidence            455566544  344 4555 7888999999999999887 565  578888999999998887642 111   1222356


Q ss_pred             cEEeccCCCCCCCCCchhhcCCCCccEEEecCCcccCCcCh-HHHhcCCCCcEEEecCCccc
Q 042011           82 NSLSLSSDYGDGFIFPKFLYHQHDLALVDLSHIKMNGEFPT-WLLENNTKLETLFLVNDSLT  142 (361)
Q Consensus        82 ~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~-~~~~~~~~L~~L~l~~n~l~  142 (361)
                      ++|++ ++|.++..  ..+..+++|+.|++++|+++ .++. ..+..+++|++|++++|.+.
T Consensus        96 ~~L~l-~~N~i~~l--~~~~~l~~L~~L~L~~N~i~-~~~~~~~l~~l~~L~~L~L~~N~l~  153 (198)
T d1m9la_          96 EELWI-SYNQIASL--SGIEKLVNLRVLYMSNNKIT-NWGEIDKLAALDKLEDLLLAGNPLY  153 (198)
T ss_dssp             CEEEC-SEEECCCH--HHHHHHHHSSEEEESEEECC-CHHHHHHHTTTTTCSEEEECSSHHH
T ss_pred             ccccc-cccccccc--ccccccccccccccccchhc-cccccccccCCCccceeecCCCccc
Confidence            77777 66666542  33556666677777766665 3332 22556666666666666554

>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=99.36  E-value=2.5e-12  Score=99.69  Aligned_cols=85  Identities=22%  Similarity=0.166  Sum_probs=34.0

Q ss_pred             CCCccEEEecCC-ccccccCccccCCCCCCEEeccCCcCccccchhhhhCCCCCcEEEeecCCCCCcccccccCCCCCCE
Q 042011          177 LPSLKFFNISMN-ALDGSIPSSFGNMNFLRVLDLSNNQLTGEIPEHLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEW  255 (361)
Q Consensus       177 l~~L~~L~L~~n-~l~~~~~~~l~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~  255 (361)
                      +++|++|++++| .++...+.+|.++++|+.|++++|+++ .++...|..+++|++|+|++|+++...+..+.. ..|+.
T Consensus        30 l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~-~i~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~-~~l~~  107 (156)
T d2ifga3          30 AENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLR-FVAPDAFHFTPRLSRLNLSFNALESLSWKTVQG-LSLQE  107 (156)
T ss_dssp             CSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCC-EECTTGGGSCSCCCEEECCSSCCSCCCSTTTCS-CCCCE
T ss_pred             ccccCeeecCCCccccccCchhhccccccCcceeeccccC-CcccccccccccccceeccCCCCcccChhhhcc-ccccc
Confidence            344444444332 233222333444444444444444444 333333334444444444444444332222222 23444


Q ss_pred             EeccCCcC
Q 042011          256 LQLGGNRF  263 (361)
Q Consensus       256 L~L~~n~l  263 (361)
                      |+|++|++
T Consensus       108 L~L~~Np~  115 (156)
T d2ifga3         108 LVLSGNPL  115 (156)
T ss_dssp             EECCSSCC
T ss_pred             cccCCCcc
Confidence            44444443

>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=98.59  E-value=2.2e-09  Score=83.23  Aligned_cols=65  Identities=38%  Similarity=0.324  Sum_probs=31.7

Q ss_pred             CCCCCcEEEeecCCCCCcc--cccccCCCCCCEEeccCCcCCccchhhhhcCCCCCEEECcCCcccc
Q 042011          225 GCVNLESLALSNNSLEGHM--FSRNFNLTNLEWLQLGGNRFVGEIPQSLSKCSSLEGLYLNNNSLSG  289 (361)
Q Consensus       225 ~~~~L~~L~L~~n~l~~~~--~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~  289 (361)
                      .++.|++|++++|+++...  +..+..+++|+.|++++|.|++..+-.+.....|+.+++++|.+.+
T Consensus        63 ~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~  129 (162)
T d1koha1          63 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSD  129 (162)
T ss_dssp             HCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSS
T ss_pred             hCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCc
Confidence            4555555555555555421  2233445555555555555553322222233445555555555543

>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=98.53  E-value=2.2e-09  Score=83.27  Aligned_cols=82  Identities=28%  Similarity=0.270  Sum_probs=44.5

Q ss_pred             cCCCCCCEEeccCCcCccccch--hhhhCCCCCcEEEeecCCCCCcccccccCCCCCCEEeccCCcCCccch-------h
Q 042011          199 GNMNFLRVLDLSNNQLTGEIPE--HLAVGCVNLESLALSNNSLEGHMFSRNFNLTNLEWLQLGGNRFVGEIP-------Q  269 (361)
Q Consensus       199 ~~~~~L~~L~l~~n~l~~~~~~--~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~-------~  269 (361)
                      ..+++|++|++++|+++ .++.  ..+..+++|+.|++++|.++......+.....|+.|++++|++.+...       .
T Consensus        62 ~~~~~L~~L~Ls~N~i~-~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~  140 (162)
T d1koha1          62 ENIPELLSLNLSNNRLY-RLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISA  140 (162)
T ss_dssp             HHCTTCCCCCCCSSCCC-CCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHH
T ss_pred             HhCCCCCEeeCCCcccc-CCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCcccchhHHHH
Confidence            34555555555555555 3321  122345666666666666665433333344456777777777664322       3


Q ss_pred             hhhcCCCCCEEE
Q 042011          270 SLSKCSSLEGLY  281 (361)
Q Consensus       270 ~~~~l~~L~~L~  281 (361)
                      .+..+|+|+.||
T Consensus       141 i~~~~P~L~~LD  152 (162)
T d1koha1         141 IRERFPKLLRLD  152 (162)
T ss_dssp             HHTTSTTCCEET
T ss_pred             HHHHCCCCCEEC
Confidence            355677777764

>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=98.11  E-value=2.6e-06  Score=65.67  Aligned_cols=18  Identities=17%  Similarity=0.303  Sum_probs=9.4

Q ss_pred             ccCCCCCCEEeccCCcCc
Q 042011          198 FGNMNFLRVLDLSNNQLT  215 (361)
Q Consensus       198 l~~~~~L~~L~l~~n~l~  215 (361)
                      +...+.|++|++++|.+.
T Consensus        40 L~~n~~L~~L~Ls~n~l~   57 (167)
T d1pgva_          40 ACNSKHIEKFSLANTAIS   57 (167)
T ss_dssp             HTTCSCCCEEECTTSCCB
T ss_pred             HhhCCccceeeccccccc
Confidence            344455555555555554

>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=97.94  E-value=2.3e-06  Score=66.03  Aligned_cols=113  Identities=12%  Similarity=0.050  Sum_probs=63.4

Q ss_pred             ccCCCCeEeCcCC-ccccc----CCcccccCCCCCcEEEccCCCccccccccccc-ccCcccccEEeccCCCCCCCC---
Q 042011           25 HLTSIEELMLSNN-HFQIP----ISLEPLFNHSRLKIFYADNNELNAEITQSHSL-IAPNFQLNSLSLSSDYGDGFI---   95 (361)
Q Consensus        25 ~l~~L~~L~Ls~n-~l~~~----~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~-~~~~~~L~~L~l~~~~~~~~~---   95 (361)
                      +.++|++|+|+++ .++..    +. .++...+.|++|++++|.+.......+.. +.....|++|++ ++|.++..   
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~-~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L-~~n~i~~~g~~   90 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLI-EAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNV-ESNFLTPELLA   90 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHH-HHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEEC-CSSBCCHHHHH
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHH-HHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceee-ehhhcchHHHH
Confidence            3466777777653 34311    11 23455566777777776665433322221 223446777777 66666543   


Q ss_pred             -CchhhcCCCCccEEEecCCcccCC-------cChHHHhcCCCCcEEEecCCc
Q 042011           96 -FPKFLYHQHDLALVDLSHIKMNGE-------FPTWLLENNTKLETLFLVNDS  140 (361)
Q Consensus        96 -~~~~l~~l~~L~~L~l~~n~l~~~-------~~~~~~~~~~~L~~L~l~~n~  140 (361)
                       +...+...+.|++|++++|.+...       +... +...+.|+.|+++.+.
T Consensus        91 ~l~~aL~~n~sL~~L~l~~n~~~~~g~~~~~~l~~~-L~~n~sL~~l~l~~~~  142 (167)
T d1pgva_          91 RLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMA-IEENESLLRVGISFAS  142 (167)
T ss_dssp             HHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHH-HHHCSSCCEEECCCCC
T ss_pred             HHHHHHHhCCcCCEEECCCCcCCCccHHHHHHHHHH-HHhCCCccEeeCcCCC
Confidence             223456677888888888765421       1222 5567888888887654

>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=97.60  E-value=2.9e-05  Score=59.51  Aligned_cols=39  Identities=8%  Similarity=0.185  Sum_probs=18.4

Q ss_pred             CCCccEEEecC-Ccccc----ccCccccCCCCCCEEeccCCcCc
Q 042011          177 LPSLKFFNISM-NALDG----SIPSSFGNMNFLRVLDLSNNQLT  215 (361)
Q Consensus       177 l~~L~~L~L~~-n~l~~----~~~~~l~~~~~L~~L~l~~n~l~  215 (361)
                      .|.|++|++++ +.++.    .+...+...++|++|++++|.++
T Consensus        16 ~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~   59 (166)
T d1io0a_          16 DPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSN   59 (166)
T ss_dssp             CTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCC
T ss_pred             CCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCccc
Confidence            34555555554 23331    12223344555556666655554

>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=97.49  E-value=1.8e-05  Score=60.72  Aligned_cols=115  Identities=15%  Similarity=0.113  Sum_probs=79.4

Q ss_pred             cccCCCCCCEEeccC-CcCccccchhhh---hCCCCCcEEEeecCCCCCc----ccccccCCCCCCEEeccCCcCCcc--
Q 042011          197 SFGNMNFLRVLDLSN-NQLTGEIPEHLA---VGCVNLESLALSNNSLEGH----MFSRNFNLTNLEWLQLGGNRFVGE--  266 (361)
Q Consensus       197 ~l~~~~~L~~L~l~~-n~l~~~~~~~~~---~~~~~L~~L~L~~n~l~~~----~~~~~~~~~~L~~L~L~~n~l~~~--  266 (361)
                      ...+.++|++|++++ +.++...-..++   ...++|++|++++|.++..    ....+...++++.+++++|.+...  
T Consensus        12 ~~~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~   91 (166)
T d1io0a_          12 IQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGI   91 (166)
T ss_dssp             HHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHH
T ss_pred             HHhcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhH
Confidence            345678999999987 456532222222   2678899999999998753    233455678999999999998754  


Q ss_pred             --chhhhhcCCCCCEEECc--CCccccc----CCCCCCCcCcceeeccccccc
Q 042011          267 --IPQSLSKCSSLEGLYLN--NNSLSGN----VNVPSSPANTLFNLSQNSRRF  311 (361)
Q Consensus       267 --~~~~~~~l~~L~~L~l~--~N~l~~~----~~~~~~~~~~L~~l~l~~N~~  311 (361)
                        +.+.+...++|+.++++  +|.+.+.    +...+...++|+.|+++.+..
T Consensus        92 ~~l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~l~~~~~  144 (166)
T d1io0a_          92 LALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQ  144 (166)
T ss_dssp             HHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSH
T ss_pred             HHHHHHHHhCccccEEeeccCCCcCcHHHHHHHHHHHHhCCCcCEEeCcCCCC
Confidence              33566778899987664  5677542    233445678899998876543