Citrus Sinensis ID: 039944

---

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-------35
Protein Sequence
MCDTNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCRKDGGQYWDLLTHIPRVEIDWKSVFGDNT
Secondary Structure (PSIPRED)
cccccccccEEEEEccccccccccccccccccEEEEEcccccccccccccccccccccccccccccEEEEEccccccccccccccccccccEEcccccccccEEEEccccccccHHHcccccccccEEEEEcccccccccccccccccccEEEEEcccccccccccccccccccEEEEEcccccccccccccccccccEEEEcccccHHHHHHHccccccccccccEEEcccccccccccccccccccccccccccccEEEcccccccHHHHccccccccccEEEEcccccccccccccccccccEEEccccHHHHHHHcccccccccccccccEEEEccEEEccccc
Secondary Structure Prediction (SSPRO)
ccccccccEEEEEcccccccccccccccccccEEEEcccccHccccHHccccHHcccccccccHccEEEccccccccccccHcccccHHHHccccccccccEEEEEcccccHHHcccHccccccccEEEEccccccccccccccccccccEEEEcccccHHcccHHccccccccEEEEccccccccccccccccccccEEEEcccccHcccHHHHcccccccccccEEEEcccccHcccccHHcccccHHccccccccEEEEcccccHHHccHHHcccccccEEEEcccccccccccccccccHcEEEEcccHHHHHcccccccccccccccccEEEEcccEEccccc
Coil and Loop (DISEMBL)
mcdtnssleildiekchsLTYIAAVQLpsslkklqicdcynirTLTVEegiqcssssrrYTSSLLEHleiiscpsltcifsknelpatleslevgnlplsLKSLFVYGCSKLGsiaerldnntsletisidscgnlvsfpegglpcakltrltildckrlealpkgmhnltSLQYlrigkggalpsleeedglptnlqsldiWGNMEIWKSMIERGRGFHRFSSLRRltisrcdedmvsfpledkrlgtalplpasltslwieafpnlerlsssivdlqnltelylfgcpklkyfpekglpssLLELRISRCPLIAEKCRKDGGQYWDLlthiprveidwksvfgdnt
Flexible Loop (DISEMBL)
mcdtnssleildiEKCHSLTYIAAVQlpsslkklqICDCYNIRTLTveegiqcsssSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCRKDGGQYWDLLthiprveidwksvfgdnt
Low Complexity Region (SEG)
MCDTNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCssssrrytssLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCRKDGGQYWDLLTHIPRVEIDWKSVFGDNT
Disordered region (IsUnstruct)
*******LEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSL****GLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCRKDGGQYWDLLTHIPRVEIDWKSVF****
Disordered Region (DISOPRED)
**DTNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCRKDGGQYWDLLTHIPRVEIDWKSVFG***
Disordered Region (DISEMBL)
MCDTNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCRKDGGQYWDLLTHIPRVEIDWKSVFGDNT
Disordered Region (DISPRO)
***TNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCRKDGGQYWDLLTHIPRVEIDWKSVF****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MCDTNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCRKDGGQYWDLLTHIPRVEIDWKSVFGDNT
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	348	2.2.26 [Sep-21-2011]
Q9LRR5	1424	Putative disease resistan	yes	no	0.859	0.209	0.335	6e-24
Q7XBQ9	970	Disease resistance protei	N/A	no	0.318	0.114	0.365	2e-07
Q7XA39	988	Putative disease resistan	N/A	no	0.387	0.136	0.279	2e-06
Q7XA40	992	Putative disease resistan	N/A	no	0.600	0.210	0.291	3e-05
P23799	630	Putative adenylate cyclas	N/A	no	0.683	0.377	0.271	0.0001
Q9FKZ1	809	Probable disease resistan	no	no	0.514	0.221	0.274	0.0002
Q9FKZ0	815	Probable disease resistan	no	no	0.293	0.125	0.339	0.0004

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

 Score =  112 bits (279), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 117/349 (33%), Positives = 172/349 (49%), Gaps = 50/349 (14%)

Query: 1    MCDTNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRY 60
            + ++  +L  L I  CHSL        P++LK L I DC   + L   E +Q    +R Y
Sbjct: 1111 LTESYPNLHELLIIACHSLESFPGSHPPTTLKTLYIRDC---KKLNFTESLQ---PTRSY 1164

Query: 61   TSSLLEHLEI-ISCPSLTCIFSKNELPATLESLEVGNLPLSL----KSLFVYGCS--KLG 113
              S LE+L I  SC +L                   N PLSL    +SL +  C   K  
Sbjct: 1165 --SQLEYLFIGSSCSNLV------------------NFPLSLFPKLRSLSIRDCESFKTF 1204

Query: 114  SIAERL-DNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTS 172
            SI   L D+  +LE++ I  C NL +FP+GGLP  KL+ + + +CK+L+ALP+ +  LTS
Sbjct: 1205 SIHAGLGDDRIALESLEIRDCPNLETFPQGGLPTPKLSSMLLSNCKKLQALPEKLFGLTS 1264

Query: 173  LQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGR-GFHRFSSLRRLTIS 231
            L  L I K   + ++    G P+NL++L I     +   +  R   G     +LR L I 
Sbjct: 1265 LLSLFIIKCPEIETI-PGGGFPSNLRTLCI----SLCDKLTPRIEWGLRDLENLRNLEID 1319

Query: 232  RCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLS-SSIVDLQNLTELYLFGCP 290
              +ED+ SFP E         LP S+ SL I  F NL+ L+     D + +  + + GC 
Sbjct: 1320 GGNEDIESFPEEGL-------LPKSVFSLRISRFENLKTLNRKGFHDTKAIETMEISGCD 1372

Query: 291  KLKYFPEKGLPSSLLELRISRCPLIAEKCRKDGGQYWDLLTHIPRVEID 339
            KL+   ++ LP  L  LRIS C L+ E   +   +++ +L +IP VEID
Sbjct: 1373 KLQISIDEDLP-PLSCLRISSCSLLTETFAEVETEFFKVL-NIPYVEID 1419

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

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

 Score = 57.0 bits (136), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 45/123 (36%), Positives = 65/123 (52%), Gaps = 12/123 (9%)

Query: 219 FHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERL-SSSIVD 277
           F   ++L+ LTISRC+          K L T+L    +L SL I+    LE L    +  
Sbjct: 855 FKNLANLKYLTISRCNNL--------KELPTSLASLNALKSLKIQLCCALESLPEEGLEG 906

Query: 278 LQNLTELYLFGCPKLKYFPEKGLP--SSLLELRISRCPLIAEKCRKDGGQYWDLLTHIPR 335
           L +LTEL++  C  LK  PE GL   ++L  L+I  CP + ++C K  G+ W  ++HIP 
Sbjct: 907 LSSLTELFVEHCNMLKCLPE-GLQHLTTLTSLKIRGCPQLIKRCEKGIGEDWHKISHIPN 965

Query: 336 VEI 338
           V I
Sbjct: 966 VNI 968

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

Solanum bulbocastanum (taxid: 147425)

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

 Score = 53.5 bits (127), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 48/172 (27%), Positives = 80/172 (46%), Gaps = 37/172 (21%)

Query: 169 NLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRL 228
           NL++L  LRIG      SL EE  + T+L +L+     + +K++ +        ++L+RL
Sbjct: 851 NLSTLTSLRIGANYRATSLPEE--MFTSLTNLEFLSFFD-FKNLKDLPTSLTSLNALKRL 907

Query: 229 TISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFG 288
            I  CD                           +E+FP        +  L +LT+L++  
Sbjct: 908 QIESCDS--------------------------LESFP-----EQGLEGLTSLTQLFVKY 936

Query: 289 CPKLKYFPEKGLP--SSLLELRISRCPLIAEKCRKDGGQYWDLLTHIPRVEI 338
           C  LK  PE GL   ++L  L +S CP + ++C K+ G+ W  + HIP ++I
Sbjct: 937 CKMLKCLPE-GLQHLTALTNLGVSGCPEVEKRCDKEIGEDWHKIAHIPNLDI 987

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

Solanum bulbocastanum (taxid: 147425)

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

 Score = 50.1 bits (118), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 74/254 (29%), Positives = 102/254 (40%), Gaps = 45/254 (17%)

Query: 127 TISIDSCGNLVSFPE-GGLPCAKLTRLT-------------ILDCKRLEALPK----GMH 168
           +I I  C N    P  G LPC +   L               L  +R  +L K    G  
Sbjct: 740 SILISGCENCSCLPPFGELPCLESLELQDGSVEVEYVEDSGFLTRRRFPSLRKLHIGGFC 799

Query: 169 NLTSLQYLRIGKGGALPSLEEED-------GLPT--NLQSLDIWGNMEIWK-SMIERGRG 218
           NL  LQ  R+      P LEE           PT  +++ L+IWG  +    S I     
Sbjct: 800 NLKGLQ--RMKGAEQFPVLEEMKISDCPMFVFPTLSSVKKLEIWGEADAGGLSSISNLST 857

Query: 219 FHRFSSLRRLTISRCDEDM-----------VSFPLEDKRLGTALPLPASLTSLWIEAFPN 267
                     T++   E+M           VSF    K L T+L    +L  L I     
Sbjct: 858 LTSLKIFSNHTVTSLLEEMFKNLENLIYLSVSFLENLKELPTSLASLNNLKCLDIRYCYA 917

Query: 268 LERL-SSSIVDLQNLTELYLFGCPKLKYFPEKGLP--SSLLELRISRCPLIAEKCRKDGG 324
           LE L    +  L +LTEL++  C  LK  PE GL   ++L  L+I  CP + ++C K  G
Sbjct: 918 LESLPEEGLEGLSSLTELFVEHCNMLKCLPE-GLQHLTTLTSLKIRGCPQLIKRCEKGIG 976

Query: 325 QYWDLLTHIPRVEI 338
           + W  ++HIP V I
Sbjct: 977 EDWHKISHIPNVNI 990

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

Solanum bulbocastanum (taxid: 147425)

>sp|P23799|ESAG8_TRYBB Putative adenylate cyclase regulatory protein OS=Trypanosoma brucei brucei GN=ESAG8 PE=2 SV=1

 Score = 47.8 bits (112), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 82/302 (27%), Positives = 124/302 (41%), Gaps = 64/302 (21%)

Query: 5   NSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSL 64
           +  L++LDI  CH +T + A+    SL+KL +  C+N+ T  +EE  + S+         
Sbjct: 253 DGKLKMLDISSCHEITDLTAIGGVRSLEKLSLSGCWNV-TKGLEELCKFSN--------- 302

Query: 65  LEHLEIISCPSL-TCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIA--ERLDN 121
           L  L+I  C  L + +  KN               ++LK L V  C     +   ERL N
Sbjct: 303 LRELDISGCLVLGSAVVLKN--------------LINLKVLSVSNCKNFKDLNGLERLVN 348

Query: 122 NTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALP--KGMHNLTSLQ--YLR 177
              LE +++  C  + S        A L+ L  LD    E+L    G+ +L +L+  YLR
Sbjct: 349 ---LEKLNLSGCHGVSSLG----FVANLSNLKELDISGCESLVCFDGLQDLNNLEVLYLR 401

Query: 178 IGKG----GALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRC 233
             K     GA+ +L       + ++ LD+ G   I         G      L  L++  C
Sbjct: 402 DVKSFTNVGAIKNL-------SKMRELDLSGCERITSL-----SGLETLKGLEELSLEGC 449

Query: 234 DEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLK 293
            E M   P+              L  L++    NLE L S +  L  L E+YL GC K  
Sbjct: 450 GEIMSFDPIWS---------LYHLRVLYVSECGNLEDL-SGLQCLTGLEEMYLHGCRKCT 499

Query: 294 YF 295
            F
Sbjct: 500 NF 501

May be involved in the postranscriptional regulation of genes in VSG expression sites.

Trypanosoma brucei brucei (taxid: 5702)

>sp|Q9FKZ1|DRL42_ARATH Probable disease resistance protein At5g66900 OS=Arabidopsis thaliana GN=At5g66900 PE=3 SV=1

 Score = 47.0 bits (110), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 57/208 (27%), Positives = 94/208 (45%), Gaps = 29/208 (13%)

Query: 18  SLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLT 77
           +L  I  +QL SSLKKL +  C         E I  S++  +     L+ ++I  C  L 
Sbjct: 610 TLLDIPQLQL-SSLKKLSLVMCSFGEVFYDTEDIVVSNALSK-----LQEIDIDYCYDL- 662

Query: 78  CIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLV 137
                +ELP  +  +      +SLK+L +  C+KL  + E + N + LE + + S  NL 
Sbjct: 663 -----DELPYWISEI------VSLKTLSITNCNKLSQLPEAIGNLSRLEVLRLCSSMNLS 711

Query: 138 SFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGK--GGALPSLEEEDGLPT 195
             PE     + L  L I  C  L  LP+ +  L +L+ + + K  G  LP         T
Sbjct: 712 ELPEATEGLSNLRFLDISHCLGLRKLPQEIGKLQNLKKISMRKCSGCELPE------SVT 765

Query: 196 NLQSLDIWGNME---IWKSMIERGRGFH 220
           NL++L++  + E   +W+ +  + R   
Sbjct: 766 NLENLEVKCDEETGLLWERLKPKMRNLR 793

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKZ0|DRL43_ARATH Probable disease resistance protein At5g66910 OS=Arabidopsis thaliana GN=At5g66910 PE=2 SV=1

 Score = 45.8 bits (107), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 37/109 (33%), Positives = 55/109 (50%), Gaps = 7/109 (6%)

Query: 100 SLKSLFVYGCSKLGSI---AERLDNN---TSLETISIDSCGNLVSFPEGGLPCAKLTRLT 153
           SLK L  + CS  G +    E +D +   ++L+ I ID C +L   P        L  L+
Sbjct: 627 SLKKLSFFMCS-FGEVFYDTEDIDVSKALSNLQEIDIDYCYDLDELPYWIPEVVSLKTLS 685

Query: 154 ILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDI 202
           I +C +L  LP+ + NL+ L+ LR+     L  L E     +NL+SLDI
Sbjct: 686 ITNCNKLSQLPEAIGNLSRLEVLRMCSCMNLSELPEATERLSNLRSLDI 734

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	348
356554923	1399	PREDICTED: putative disease resistance R	0.933	0.232	0.403	5e-53
400131587	1388	FB_MR5 [Malus x robusta]	0.899	0.225	0.411	3e-51
284026888	1424	CC-NBS-LRR protein [Quercus suber]	0.936	0.228	0.380	3e-45
45826061	739	resistance protein [Quercus suber]	0.922	0.434	0.362	8e-41
224059584	1418	cc-nbs-lrr resistance protein [Populus t	0.910	0.223	0.367	3e-40
224132254	552	predicted protein [Populus trichocarpa]	0.913	0.576	0.378	3e-40
147805811	1341	hypothetical protein VITISV_006249 [Viti	0.933	0.242	0.350	1e-37
359496871	1284	PREDICTED: putative disease resistance p	0.925	0.250	0.353	1e-37
225449961	1318	PREDICTED: putative disease resistance p	0.919	0.242	0.371	4e-37
225465962	1290	PREDICTED: putative disease resistance R	0.916	0.247	0.365	5e-37

>gi|356554923|ref|XP_003545790.1| PREDICTED: putative disease resistance RPP13-like protein 1-like [Glycine max]

 Score =  214 bits (545), Expect = 5e-53,   Method: Compositional matrix adjust.
 Identities = 157/389 (40%), Positives = 216/389 (55%), Gaps = 64/389 (16%)

Query: 8    LEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSS-------RRY 60
            LE L I  C S+ ++   QLP SLK L+I +C N+R L ++ G  C+SSS        ++
Sbjct: 1023 LERLYICHCDSIVFVTMDQLPHSLKSLEISNCKNLRCL-LDNGT-CTSSSIIMHDDNVQH 1080

Query: 61   TSSLLEHLEIIS---CPSLTCIFSKNELPATLESLEV------------GNLPLSLKSLF 105
             S+++ HLE +    CPSLTCI    ELP +++ L +            G LP S++ L 
Sbjct: 1081 GSTIISHLEYVYIGWCPSLTCISRSGELPESVKHLFIWNCSELSCLSMKGQLPKSIERLE 1140

Query: 106  VYGCSKLGSIAERLDNNTSLETISIDSCGNL------------------------VSFPE 141
            +  C KL SIA RL  NTSLE+I I +C NL                        VSFPE
Sbjct: 1141 IQSCPKLESIANRLHRNTSLESIQIWNCENLKSLPEGLHFLVNLKEIKIIGCPNLVSFPE 1200

Query: 142  GGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEE--EDGLPTNLQS 199
             GLP + L+ L+I+ C++L ALP  M+NL SL+ L IG     PS++   E   P NL S
Sbjct: 1201 EGLPASSLSELSIMSCEKLVALPNSMYNLDSLKELEIG---YCPSIQYFPEINFPDNLTS 1257

Query: 200  LDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTS 259
            L I  +    ++M     G ++ S LR LTI   +  M   PLE  +LGT LP  ++LTS
Sbjct: 1258 LWI-NDHNACEAMF--NWGLYKLSFLRDLTIIGGNLFM---PLE--KLGTMLP--STLTS 1307

Query: 260  LWIEAFPNLERLSS-SIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEK 318
            L ++ FP+LE LSS     L +L++L ++ CPKL   PEKGLPSSLLEL I  CP + E+
Sbjct: 1308 LTVQGFPHLENLSSEGFHKLTSLSKLSIYNCPKLLCLPEKGLPSSLLELYIQDCPFLKEQ 1367

Query: 319  CRKDGGQYWDLLTHIPRVEIDWKSVFGDN 347
            CRKD G+ W  +  +P VEID K ++  +
Sbjct: 1368 CRKDKGRDWLKIADVPYVEIDGKFIYDSD 1396

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|400131587|emb|CCH50986.1| FB_MR5 [Malus x robusta]

 Score =  208 bits (530), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 142/345 (41%), Positives = 192/345 (55%), Gaps = 32/345 (9%)

Query: 7    SLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGI-QCSSSSRRYTSSLL 65
            SL+ ++I +CHSL Y A  Q+P +L+++QI DC ++R+L   E +  CSSSS     + L
Sbjct: 1068 SLKDIEITECHSLIYFAKSQIPQNLRRIQIRDCRSLRSLVDNEAVGSCSSSSH----NCL 1123

Query: 66   EHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAER--LDNNT 123
            E+L I  C SLT +   ++L   L  L++            Y C +L  +A      NNT
Sbjct: 1124 EYLNIERCQSLTLLSLSDQLVRALRELDI------------YDCEQLEFLAPDGLFCNNT 1171

Query: 124  S--LETISIDSCGNLVSFPE--GGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIG 179
            +  LE   I  C NL S P   GG+  + L  + I DC RLEALP+ MHN  SL+ L I 
Sbjct: 1172 NYFLENFRIRRCQNLKSLPRLSGGIRGSNLREIRITDCDRLEALPEDMHNFNSLEKLIID 1231

Query: 180  KGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVS 239
                L         P NL SL IW  ++  KS+ E   G HR +SLR L I   D DMVS
Sbjct: 1232 YREGLTC-----SFPANLTSLMIW-KVKSCKSLWELEWGLHRLTSLRYLWIGGEDPDMVS 1285

Query: 240  FPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVD-LQNLTELYLFGCPKLKYFPEK 298
            FP +  R+ T LP   SLT L I  FPNL++LSS     L +L  L L+ CPKL   P++
Sbjct: 1286 FPPDMVRMETLLP--KSLTELSIGGFPNLKKLSSKGFQFLTSLESLELWDCPKLASIPKE 1343

Query: 299  GLPSSLLELRISRCPLIAEKCRKDGGQYWDLLTHIPRVEIDWKSV 343
            GLP SL EL I  CP++ E+C+   G+YW  ++HIP ++IDWK +
Sbjct: 1344 GLPLSLTELCIYGCPVLKERCQPGKGRYWHKISHIPYIDIDWKMI 1388

Source: Malus x robusta

Species: Malus x robusta

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|284026888|gb|ADB66335.1| CC-NBS-LRR protein [Quercus suber]

 Score =  188 bits (478), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 148/389 (38%), Positives = 204/389 (52%), Gaps = 63/389 (16%)

Query: 5    NSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTL------------TVEEGIQ 52
            N+ LE L + +C S+  IA  QLP++LKKL+I  C N++ +              +E I 
Sbjct: 1034 NACLERLCVVRCDSMKSIARGQLPTTLKKLEISHCMNLQCVLDEGEGSSSSSGMHDEDIN 1093

Query: 53   CSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESL------------EVGNLPLS 100
              S +       L++L+I SCPSLT + S  +LPATL  L              G LP +
Sbjct: 1094 NRSKTH------LQYLDIKSCPSLTTLTSSGKLPATLTHLLLRECPKLMCLSSTGKLPAA 1147

Query: 101  LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNL------------------------ 136
            L+ L +   SKL  IAERL  NTSLE I I +C  L                        
Sbjct: 1148 LQYLEIQSISKLQKIAERLHQNTSLECIKIWNCHGLKSLPEDLHNLSKLRQFLIFWCQSF 1207

Query: 137  VSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIG-KGGALPSLEEEDGLPT 195
             SFP  GLP + L  L I +CK L+ALP GM NLTSLQ L I  +  +LPS +E  GLPT
Sbjct: 1208 SSFPAAGLP-SNLRVLGIKNCKNLKALPNGMRNLTSLQKLDISHRLDSLPSPQE--GLPT 1264

Query: 196  NLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPA 255
            NL  L++  +++ +K M E G    + +SL +L+I     D+ S+P E +  G  + LP 
Sbjct: 1265 NLIELNM-HDLKFYKPMFEWG--LQQPTSLIKLSIHGECLDVDSYPGEREN-GVMMLLPN 1320

Query: 256  SLTSLWIEAFPNLERLS-SSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPL 314
            SL+ L I  F NLE LS     +L +L +L ++ C KL   P++GLP SL +L I  CPL
Sbjct: 1321 SLSILCISYFQNLECLSPKGFQNLTSLNQLKIYNCLKLTSLPKEGLPPSLTQLEIRNCPL 1380

Query: 315  IAEKCRKDGGQYWDLLTHIPRVEIDWKSV 343
            +++ C  + GQ W  + HIP V ID K +
Sbjct: 1381 LSQHCNNEKGQEWSKIAHIPCVLIDNKFI 1409

Source: Quercus suber

Species: Quercus suber

Genus: Quercus

Family: Fagaceae

Order: Fagales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|45826061|gb|AAS77675.1| resistance protein [Quercus suber]

 Score =  173 bits (439), Expect = 8e-41,   Method: Compositional matrix adjust.
 Identities = 135/372 (36%), Positives = 191/372 (51%), Gaps = 51/372 (13%)

Query: 5   NSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIR------TLTVEEGIQCSSSSR 58
           N+ L  L + +C S+  IA  QLP++LK+L+I  C N++        +    +       
Sbjct: 375 NACLVRLCVVRCDSMKSIARGQLPTTLKRLEISHCMNLQCALDEGEGSSSSSVMHDEDIN 434

Query: 59  RYTSSLLEHLEIISCPSLTCIFSKNELPATLESL------------EVGNLPLSLKSLFV 106
             + + L++L+I SCPSLT + S  +LPATL  L              G LP +L+ L +
Sbjct: 435 NRSKTHLQYLDIKSCPSLTTLTSSGKLPATLTHLLLRECPKLMCLSSTGKLPAALQYLEI 494

Query: 107 YGCSKLGSIAERLDNNTSLETISIDSCGNL------------------------VSFPEG 142
               KL  IAERL  NT LE I I +C  L                         SFP  
Sbjct: 495 QSIPKLQKIAERLHQNTFLECIKIWNCHGLKSLPEDLHNLSKLRQFQIVWCTSFSSFPAA 554

Query: 143 GLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRI-GKGGALPSLEEEDGLPTNLQSLD 201
           GLP +    L I +CK L+ALP GM NLTSLQ L I  +  +LPS +E  GLPTNL  L+
Sbjct: 555 GLP-SNPRVLGIKNCKNLKALPNGMRNLTSLQKLDISNRLDSLPSPQE--GLPTNLIELN 611

Query: 202 IWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLW 261
           +  +++ +K M E G    + +SL +L+I     D+ SFP E +  G  + LP SL+ L 
Sbjct: 612 MI-DLKFYKPMFEWG--LQQLTSLIKLSIHGECLDVDSFPGEREN-GAMMLLPNSLSILC 667

Query: 262 IEAFPNLERLS-SSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCR 320
           I  F NLE LS     +L +L +L ++ C KL   P++GLP SL +L I  CPL+++ C 
Sbjct: 668 ISYFQNLECLSPKGFQNLTSLNQLKIYNCLKLTSLPKEGLPPSLTQLEIRNCPLLSQHCN 727

Query: 321 KDGGQYWDLLTH 332
            + GQ W  + H
Sbjct: 728 NEKGQEWSKIAH 739

Source: Quercus suber

Species: Quercus suber

Genus: Quercus

Family: Fagaceae

Order: Fagales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224059584|ref|XP_002299919.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222847177|gb|EEE84724.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  172 bits (435), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 131/356 (36%), Positives = 179/356 (50%), Gaps = 39/356 (10%)

Query: 4    TNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSS 63
            +N  LE L+IE+C SL       LP++LK L+I  C  +++L  +      + +   T  
Sbjct: 1077 SNCPLEDLEIEECPSLECFPGRMLPATLKGLKIRYCTELKSLPED---LMHNKNGPGTLC 1133

Query: 64   LLEHLEIISCPSLTCIFSKNELPATLESLEVGNLP-------------LSLKSLFVYGCS 110
              EHLEII CPSL   F   +LP  L++L++ +               +SL+ L +  C 
Sbjct: 1134 HFEHLEIIGCPSLKS-FPDGKLPTRLKTLKIWDCSQLKPLSEMMLHDDMSLEYLAISDCE 1192

Query: 111  KLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNL 170
             L S  E L +   L  +++ +C  L  FP  G P A L  LTI +CK L++LP  M  L
Sbjct: 1193 ALSSFPECLSSFKHLSELNLSNCSALKLFPGVGFPPANLRTLTIYNCKNLKSLPNEMRKL 1252

Query: 171  TSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIW------GNMEIWKSMIERGRGFHRFSS 224
            TSLQ L I    AL S    D +P +L SL+IW      G +  W             + 
Sbjct: 1253 TSLQELTICSCPALKSFPNGD-MPPHLTSLEIWDCDNLDGCLSEW--------NLQSLTC 1303

Query: 225  LRRLTISR-CDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTE 283
            LR  +I+  C    VSFP ++K L     LP +LTS+WI   PNLE LS  +  L  L E
Sbjct: 1304 LRDFSIAGGCFSHTVSFP-DEKCL-----LPTNLTSVWIGRLPNLESLSMQLQSLAYLEE 1357

Query: 284  LYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCRKDGGQYWDLLTHIPRVEID 339
            L +  CPKLK  P   LP +L    I  CPL+ ++C K  G YW L++HIP VEID
Sbjct: 1358 LEIVDCPKLKSLPRGCLPHALGRFSIRDCPLMTQRCSKLKGVYWPLISHIPCVEID 1413

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224132254|ref|XP_002328223.1| predicted protein [Populus trichocarpa] gi|222837738|gb|EEE76103.1| predicted protein [Populus trichocarpa]

 Score =  172 bits (435), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 145/383 (37%), Positives = 188/383 (49%), Gaps = 65/383 (16%)

Query: 8   LEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTL----------TVEEGIQCSSSS 57
           LE L IE C SL     +QLP +LKKL+I  C N+  L            +E   CS ++
Sbjct: 177 LEQLRIENCESLISFGRIQLPPTLKKLEIRYCENLLCLLDDGEGSSSKKSDENTSCSGNN 236

Query: 58  RRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEV------------GNLPLSLKSLF 105
               SSLLE+L +  C SLT I    ELP+ L+ L+V              LP  LK L 
Sbjct: 237 ----SSLLEYLYVGICNSLTSI---GELPSALKYLQVCSCSKLKSLSSRDKLPAGLKHLA 289

Query: 106 VYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEG----------------------- 142
           +  C  L S+ +R  +N SLE + I  C NL S PEG                       
Sbjct: 290 IDSCENLESMPDRFQDNMSLENLKIWFCFNLRSLPEGLHKLCHLREISIWYCPALVSFAA 349

Query: 143 -GLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLD 201
            GLP   L RL I+ C  L+A+P  MHNL SL+ L I     + S  EE G PT+L  L 
Sbjct: 350 EGLP-INLRRLFIIKCDGLKAIPDHMHNLMSLEELSIYYCPDIVSFPEE-GFPTSLTYL- 406

Query: 202 IWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLW 261
               +++    +    G H+ S+LR L I +     +SFP  D      + LP++L  L 
Sbjct: 407 --ATVDLKICELLFNWGMHKLSALRTLII-QGGFSHISFPSVD----MGVRLPSALNRLS 459

Query: 262 IEAFPNLERLS-SSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCR 320
           IE FPNLE LS S   +L +L  L +  CPKL  FP KGLPSSLLELRI  CPL+ ++  
Sbjct: 460 IEDFPNLEYLSYSGFQNLSSLERLSISDCPKLTSFPGKGLPSSLLELRIRACPLLVQQI- 518

Query: 321 KDGGQYWDLLTHIPRVEIDWKSV 343
           K   + W  + HIP + ID K V
Sbjct: 519 KGRVKEWLKIRHIPYINIDGKVV 541

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147805811|emb|CAN60543.1| hypothetical protein VITISV_006249 [Vitis vinifera]

 Score =  163 bits (413), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 129/368 (35%), Positives = 194/368 (52%), Gaps = 43/368 (11%)

Query: 6    SSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTL-TVEEGIQCSSSSRRYTSSL 64
            +SL+ L+IE C SL     + LP  L++L+IC C  + +L  ++        S  Y  SL
Sbjct: 978  TSLKKLNIEDCESLASFPEMALPPMLERLRICSCPILESLPEMQNNTTLQHLSIDYCDSL 1037

Query: 65   ---------LEHLEIISCPSLTCIFSKNELPATLESL----------EVGNLPLS----L 101
                     L+ L I  C  L     ++       SL             + PL+    L
Sbjct: 1038 RSLPRDIDSLKTLSICRCKKLELALQEDMTHNHYASLTELTIWGTGDSFTSFPLASFTKL 1097

Query: 102  KSLFVYGCSKLGS--IAERLDNN--TSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDC 157
            ++L ++ C+ L S  I + L +   TSL++++ID C NLVSFP GGLP   L  L I +C
Sbjct: 1098 ETLHLWNCTNLESLYIPDGLHHVDLTSLQSLNIDDCPNLVSFPRGGLPTPNLRLLLIRNC 1157

Query: 158  KRLEALPKGMHN-LTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGN-MEIWKSMIER 215
            ++L++LP+GMH  LTSLQ+L I     + S   E GLPTNL  L I GN  ++  + +E 
Sbjct: 1158 EKLKSLPQGMHTLLTSLQFLHISSCPEIDSF-PEGGLPTNLSKLSIIGNCSKLVANQME- 1215

Query: 216  GRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSS- 274
              G      LR L I  C+++   FP  ++R      LP++LTSL I  FPNL+ L +  
Sbjct: 1216 -WGLQTLPFLRTLAIVECEKE--RFP--EERF-----LPSTLTSLEIGGFPNLKSLDNKG 1265

Query: 275  IVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCRKDGGQYWDLLTHIP 334
               L +L  L ++ C  LK FP++GLPSSL  L I  CPL+ ++C+++ G+ W  ++HIP
Sbjct: 1266 FQHLTSLETLEIWKCGNLKSFPKQGLPSSLTRLYIKECPLLKKRCQRNKGKEWPNISHIP 1325

Query: 335  RVEIDWKS 342
             +  D ++
Sbjct: 1326 CIAFDRQT 1333

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359496871|ref|XP_002269699.2| PREDICTED: putative disease resistance protein At3g14460 [Vitis vinifera]

 Score =  163 bits (413), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 129/365 (35%), Positives = 192/365 (52%), Gaps = 43/365 (11%)

Query: 6    SSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTL-TVEEGIQCSSSSRRYTSSL 64
            +SL+ L+IE C SL     + LP  L++L+IC C  + +L  ++        S  Y  SL
Sbjct: 921  TSLKKLNIEDCESLASFPEMALPPMLERLRICSCPILESLPEMQNNTTLQHLSIDYCDSL 980

Query: 65   ---------LEHLEIISCPSLTCIFSKNELPATLESL----------EVGNLPLS----L 101
                     L+ L I  C  L     ++       SL             + PL+    L
Sbjct: 981  RSLPRDIDSLKTLSICRCKKLELALQEDMTHNHYASLTELTIWGTGDSFTSFPLASFTKL 1040

Query: 102  KSLFVYGCSKLGS--IAERLDNN--TSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDC 157
            ++L ++ C+ L S  I + L +   TSL++++ID C NLVSFP GGLP   L  L I +C
Sbjct: 1041 ETLHLWNCTNLESLYIPDGLHHVDLTSLQSLNIDDCPNLVSFPRGGLPTPNLRLLLIRNC 1100

Query: 158  KRLEALPKGMHN-LTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGN-MEIWKSMIER 215
            ++L++LP+GMH  LTSLQ+L I     + S   E GLPTNL  L I GN  ++  + +E 
Sbjct: 1101 EKLKSLPQGMHTLLTSLQFLHISSCPEIDSF-PEGGLPTNLSKLSIIGNCSKLVANQME- 1158

Query: 216  GRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSS- 274
              G      LR L I  C+++   FP  ++R      LP++LTSL I  FPNL+ L +  
Sbjct: 1159 -WGLQTLPFLRTLAIVECEKE--RFP--EERF-----LPSTLTSLEIGGFPNLKSLDNKG 1208

Query: 275  IVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCRKDGGQYWDLLTHIP 334
               L +L  L ++ C  LK FP++GLPSSL  L I  CPL+ ++C+++ G+ W  ++HIP
Sbjct: 1209 FQHLTSLETLEIWKCGNLKSFPKQGLPSSLTRLYIKECPLLKKRCQRNKGKEWPNISHIP 1268

Query: 335  RVEID 339
             +  D
Sbjct: 1269 CIAFD 1273

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225449961|ref|XP_002271133.1| PREDICTED: putative disease resistance protein At3g14460-like [Vitis vinifera]

 Score =  161 bits (408), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 137/369 (37%), Positives = 200/369 (54%), Gaps = 49/369 (13%)

Query: 7    SLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQ-------------C 53
            SL+ L I+KC SL+ ++ ++LPS L+ L+I  C  + +L   EG+              C
Sbjct: 952  SLKRLVIKKCPSLSSVSEMELPSMLEFLKIKKCNRLESLP--EGMMPNNNCLRSLIVKGC 1009

Query: 54   SSSSRRYTSSLLEHLEIISCPSLTCIFSKNELP---ATLESLEVGNLPLSLKSLFVYGC- 109
            SS       + L+ LEI +C  L    S+  +     +L +LE+ N   SL SLF  G  
Sbjct: 1010 SSLRSLPNVTSLKFLEIRNCGKLELPLSQEMMHDCYPSLTTLEIKNSCDSL-SLFSLGSF 1068

Query: 110  SKLGSIAERLDNN---------------TSLETISIDSCGNLVSFPEGGLPCAKLTRLTI 154
            +KL ++A R   N               TSL+ I I  C NLVSFP+GGLP   L  L I
Sbjct: 1069 TKLENLAFRKYANLEAIHIPDELHHVDLTSLQVIVIWDCPNLVSFPQGGLPAPNLRMLLI 1128

Query: 155  LDCKRLEALPKGMHNL-TSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMI 213
             DCK+L++LP+ MH L TSLQ L+IG    + S  +  GLPT+L  L I    ++ +  +
Sbjct: 1129 GDCKKLKSLPQQMHTLITSLQDLKIGYCPEIDSFPQ-GGLPTSLSRLTISDCYKLMQCRM 1187

Query: 214  ERGRGFHRFSSLRRLTISRCDED--MVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERL 271
            E G       SLR+L I   DE+  + SFP  +K L     LP++L+ + I  FPNL+ L
Sbjct: 1188 EWG--LQTLPSLRKLEIQDSDEEGKLESFP--EKWL-----LPSTLSFVGIYGFPNLKSL 1238

Query: 272  SS-SIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCRKDGGQYWDLL 330
             +  I DL +L  L + GC  LK FP++GLP+SL  L+I  CPL+ ++C++D G+ W  +
Sbjct: 1239 DNMGIHDLNSLETLKIRGCTMLKSFPKQGLPASLSCLKIRNCPLLKKRCQRDKGKEWPKI 1298

Query: 331  THIPRVEID 339
             HIP + ++
Sbjct: 1299 FHIPSIVLE 1307

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225465962|ref|XP_002269685.1| PREDICTED: putative disease resistance RPP13-like protein 1-like [Vitis vinifera]

 Score =  161 bits (407), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 138/378 (36%), Positives = 197/378 (52%), Gaps = 59/378 (15%)

Query: 2    CDTNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYT 61
            CD  +SL  L I++C SL+ +  + LP  L+ L+I  C+ + TL   EG+  +++S    
Sbjct: 926  CDELTSLRKLVIKECQSLSSLPEMGLPPMLETLEIEKCHILETLP--EGMTQNNTS---- 979

Query: 62   SSLLEHLEIISCPSLTCI-------------FSKNELPATLESLE--------------- 93
               L+ L I  C SLT +               K ELP   E+ +               
Sbjct: 980  ---LQSLYIEDCDSLTSLPIISSLKSLEIKQCRKVELPLPEETTQNYYPWLAYLRINRSC 1036

Query: 94   --VGNLPLS----LKSLFVYGCSKLGS--IAERLDNN--TSLETISIDSCGNLVSFPEGG 143
              + + PL+    LK+L ++ C  L S  I + L N   TSL  I ID C NLVSFP+GG
Sbjct: 1037 DSLTSFPLAFFTKLKTLHIWNCENLESFYIPDGLRNMDLTSLHKIKIDDCPNLVSFPQGG 1096

Query: 144  LPCAKLTRLTILDCKRLEALPKGMHNL-TSLQYLRIGKGGALPSLEEEDGLPTNLQSLDI 202
            L  + L  L I +CK+L++LP+ MH L TSL  L I     + S  E  GLPTNL SL I
Sbjct: 1097 LRASNLRELFISNCKKLKSLPQRMHTLLTSLDKLWISDCPEIVSFPE-GGLPTNLSSLHI 1155

Query: 203  WGNMEIWKSMIERGRGFHRFSSLRRLTISRCDED-MVSFPLEDKRLGTALPLPASLTSLW 261
                ++ +S  E G       SLRRL I    E  + SF  E       L LP++L SL 
Sbjct: 1156 GSCYKLMESRKEWG--LQTLPSLRRLVIVGGTEGGLESFSEE------WLLLPSTLFSLD 1207

Query: 262  IEAFPNLERLSS-SIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCR 320
            I  FP+L+ L +  + +L +L  L ++ C KLK FP++GLP+SL  L I RCPL+ ++C+
Sbjct: 1208 ISDFPDLKSLDNLGLENLTSLERLVIWNCDKLKSFPKQGLPASLSVLEIYRCPLLKKRCQ 1267

Query: 321  KDGGQYWDLLTHIPRVEI 338
            +D G+ W  + HIP +E+
Sbjct: 1268 RDKGKEWRKIAHIPSIEM 1285

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	348
TAIR|locus:2091662	1424	AT3G14460 [Arabidopsis thalian	0.663	0.162	0.365	1e-22
TAIR|locus:2094498	1981	AT3G25510 [Arabidopsis thalian	0.816	0.143	0.277	2.7e-12
TAIR|locus:2053405	1215	AT2G14080 [Arabidopsis thalian	0.652	0.186	0.298	1.5e-10
TAIR|locus:2028681	1161	AT1G31540 [Arabidopsis thalian	0.606	0.181	0.315	2.7e-10
TAIR|locus:2163426	1187	TAO1 "target of AVRB operation	0.594	0.174	0.276	7.7e-10
TAIR|locus:2151476	1168	VICTR "VARIATION IN COMPOUND T	0.594	0.177	0.302	4.6e-09
TAIR|locus:2098110	1219	AT3G44670 [Arabidopsis thalian	0.543	0.155	0.309	5.1e-09
TAIR|locus:2151466	1353	VICTL "VARIATION IN COMPOUND T	0.594	0.152	0.302	5.6e-09
UNIPROTKB|O48647	1802	O48647 "XA1" [Oryza sativa (ta	0.692	0.133	0.293	2.8e-08
TAIR|locus:2076043	1194	RPP1 "recognition of peronospo	0.494	0.144	0.304	8.9e-08

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

 Score = 277 (102.6 bits), Expect = 1.0e-22, P = 1.0e-22
 Identities = 92/252 (36%), Positives = 135/252 (53%)

Query:    96 NLPLSL----KSLFVYGCS--KLGSIAERL-DNNTSLETISIDSCGNLVSFPEGGLPCAK 148
             N PLSL    +SL +  C   K  SI   L D+  +LE++ I  C NL +FP+GGLP  K
Sbjct:  1181 NFPLSLFPKLRSLSIRDCESFKTFSIHAGLGDDRIALESLEIRDCPNLETFPQGGLPTPK 1240

Query:   149 LTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEI 208
             L+ + + +CK+L+ALP+ +  LTSL  L I K   + ++    G P+NL++L I    + 
Sbjct:  1241 LSSMLLSNCKKLQALPEKLFGLTSLLSLFIIKCPEIETIPG-GGFPSNLRTLCI-SLCDK 1298

Query:   209 WKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNL 268
                 IE G       +LR L I   +ED+ SFP E    G    LP S+ SL I  F NL
Sbjct:  1299 LTPRIEWG--LRDLENLRNLEIDGGNEDIESFPEE----GL---LPKSVFSLRISRFENL 1349

Query:   269 ERLS-SSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCRKDGGQYW 327
             + L+     D + +  + + GC KL+   ++ LP  L  LRIS C L+ E   +   +++
Sbjct:  1350 KTLNRKGFHDTKAIETMEISGCDKLQISIDEDLPP-LSCLRISSCSLLTETFAEVETEFF 1408

Query:   328 DLLTHIPRVEID 339
              +L +IP VEID
Sbjct:  1409 KVL-NIPYVEID 1419

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2094498 AT3G25510 [Arabidopsis thaliana (taxid:3702)]

 Score = 198 (74.8 bits), Expect = 2.7e-12, P = 2.7e-12
 Identities = 90/324 (27%), Positives = 138/324 (42%)

Query:     4 TNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCXXXXXXXXXX 63
             T ++LE L ++ C SL  + +      L KLQ+  C +  T  +E               
Sbjct:   685 TATNLEELILKYCVSLVKVPSCV--GKLGKLQVL-CLHGCTSILE------LPSFTKNVT 735

Query:    64 LLEHLEIISCPSLTCIFSKNELPATLESLEVG-----NLPLS------LKSLFVYGCSKL 112
              L+ L++  C SL  + S       L++L++G      LPLS      LK   + GCS L
Sbjct:   736 GLQSLDLNECSSLVELPSSIGNAINLQNLDLGCLRLLKLPLSIVKFTNLKKFILNGCSSL 795

Query:   113 GSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTS 172
               +   + N T+L+ + + +C +LV  P        L  L + +C  L  LP  + N T+
Sbjct:   796 VELPF-MGNATNLQNLDLGNCSSLVELPSSIGNAINLQNLDLSNCSSLVKLPSFIGNATN 854

Query:   173 LQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISR 232
             L+ L + K  +L  +    G  TNL  LD+ G      S++E        S L+ L +  
Sbjct:   855 LEILDLRKCSSLVEIPTSIGHVTNLWRLDLSG----CSSLVELPSSVGNISELQVLNLHN 910

Query:   233 CDEDMVSFPLEDKRLGTALPLPASLTSLW---IEAFPNLERLSSSIVDLQNLTELYLFGC 289
             C  ++V  P      G A       T+LW   +    +L  L SSI ++ NL EL L  C
Sbjct:   911 CS-NLVKLP---SSFGHA-------TNLWRLDLSGCSSLVELPSSIGNITNLQELNLCNC 959

Query:   290 PKLKYFPEK-GLPSSLLELRISRC 312
               L   P   G    L  L ++RC
Sbjct:   960 SNLVKLPSSIGNLHLLFTLSLARC 983

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2053405 AT2G14080 [Arabidopsis thaliana (taxid:3702)]

 Score = 182 (69.1 bits), Expect = 1.5e-10, Sum P(2) = 1.5e-10
 Identities = 75/251 (29%), Positives = 108/251 (43%)

Query:    65 LEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTS 124
             LE L +  C SL       ELP       +GN    LK L + GCS L  +   + N  +
Sbjct:   699 LEVLNLNGCSSLV------ELP-----FSIGNATKLLK-LELSGCSSLLELPSSIGNAIN 746

Query:   125 LETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGAL 184
             L+TI    C NLV  P        L  L +  C  L+ LP  + N T+L+ L +    +L
Sbjct:   747 LQTIDFSHCENLVELPSSIGNATNLKELDLSCCSSLKELPSSIGNCTNLKKLHLICCSSL 806

Query:   185 PSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLED 244
               L    G  TNL+ L    ++    S+I+         +L +L ++ C E +V  P   
Sbjct:   807 KELPSSIGNCTNLKEL----HLTCCSSLIKLPSSIGNAINLEKLILAGC-ESLVELP--- 858

Query:   245 KRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSL 304
               +G A     +L  L +     L  L S I +L  L+EL L GC KL+  P       L
Sbjct:   859 SFIGKA----TNLKILNLGYLSCLVELPSFIGNLHKLSELRLRGCKKLQVLPTNINLEFL 914

Query:   305 LELRISRCPLI 315
              EL ++ C L+
Sbjct:   915 NELDLTDCILL 925

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2028681 AT1G31540 [Arabidopsis thaliana (taxid:3702)]

 Score = 178 (67.7 bits), Expect = 2.7e-10, P = 2.7e-10
 Identities = 72/228 (31%), Positives = 108/228 (47%)

Query:    89 LESLEVGNLPLS-LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCA 147
             L  L  G  PL+ LK + ++G S L  I + L   T+LE +++  C +LV  P       
Sbjct:   617 LHKLWEGVAPLTCLKEMDLHGSSNLKVIPD-LSEATNLEILNLKFCESLVELPSSIRNLN 675

Query:   148 KLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDI-WGNM 206
             KL  L +L+CK L+ LP G  NL SL  L +     L +  +     TN+  L++   N+
Sbjct:   676 KLLNLDMLNCKSLKILPTGF-NLKSLDRLNLYHCSKLKTFPK---FSTNISVLNLNLTNI 731

Query:   207 EIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGT--ALPLPASLTSLWIEA 264
             E + S +      H   +L    IS+ + D   +  E+K L    A+ L  +LTSL +E 
Sbjct:   732 EDFPSNL------H-LENLVEFRISKEESDEKQWE-EEKPLTPFLAMMLSPTLTSLHLEN 783

Query:   265 FPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRC 312
              P+L  L+SS  +L  L +L +  C  L+  P      SL  L  S C
Sbjct:   784 LPSLVELTSSFQNLNQLKDLIIINCINLETLPTGINLQSLDYLCFSGC 831

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2163426 TAO1 "target of AVRB operation1" [Arabidopsis thaliana (taxid:3702)]

 Score = 172 (65.6 bits), Expect = 7.7e-10, Sum P(2) = 7.7e-10
 Identities = 63/228 (27%), Positives = 104/228 (45%)

Query:    94 VGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLT 153
             +GNL  +LK LF+  CS L  +     N TSL+ +++  C +L+  P        L ++ 
Sbjct:   724 IGNLT-NLKKLFLNRCSSLVKLPSSFGNVTSLKELNLSGCSSLLEIPSSIGNIVNLKKVY 782

Query:   154 ILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMI 213
                C  L  LP  + N T+L+ L +    +L          T L+ L++ G + + K + 
Sbjct:   783 ADGCSSLVQLPSSIGNNTNLKELHLLNCSSLMECPSSMLNLTRLEDLNLSGCLSLVK-LP 841

Query:   214 ERGRGFHRFSSLRRLTISRCDEDM-VSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLS 272
               G   +    L+ L +S C   M + F +E+           +L +L+++   NL  L 
Sbjct:   842 SIGNVIN----LQSLYLSDCSSLMELPFTIENA---------TNLDTLYLDGCSNLLELP 888

Query:   273 SSIVDLQNLTELYLFGCPKLKYFP---EKGLPSSLLELRISRCPLIAE 317
             SSI ++ NL  LYL GC  LK  P   E  +  +L  L + +C  + E
Sbjct:   889 SSIWNITNLQSLYLNGCSSLKELPSLVENAI--NLQSLSLMKCSSLVE 934

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0042742 "defense response to bacterium" evidence=IMP

TAIR|locus:2151476 VICTR "VARIATION IN COMPOUND TRIGGERED ROOT growth response" [Arabidopsis thaliana (taxid:3702)]

 Score = 167 (63.8 bits), Expect = 4.6e-09, P = 4.6e-09
 Identities = 69/228 (30%), Positives = 100/228 (43%)

Query:    89 LESLEVGNLPLS-LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCA 147
             LE L  G +  + LK L ++    L  I + L   T++E +    C +LV  P       
Sbjct:   619 LEKLWEGAMSFTCLKELDMWASKYLKEIPD-LSKATNIEKLDFGHCWSLVELPSSIRNLN 677

Query:   148 KLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNME 207
             KL  L +  C  LE LP G  NL SL YL   +   L +  E     TN+       N+ 
Sbjct:   678 KLLELNMEYCGELETLPTGF-NLKSLDYLNFNECWKLRTFPE---FATNIS------NLI 727

Query:   208 IWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTA--LP-LPASLTSLWIEA 264
             + ++ IE       F ++R L++ + D D      E+K  G    +P L  +LT L +  
Sbjct:   728 LAETSIEEYPSNLYFKNVRELSMGKADSD------ENKCQGVKPFMPMLSPTLTLLELWN 781

Query:   265 FPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRC 312
              PNL  LSSS  +L NL  L +  C  L+  P      SL+ L +  C
Sbjct:   782 IPNLVELSSSFQNLNNLERLDICYCRNLESLPTGINLESLVSLNLFGC 829

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

GO:0007165 "signal transduction" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2098110 AT3G44670 [Arabidopsis thaliana (taxid:3702)]

 Score = 166 (63.5 bits), Expect = 5.1e-09, Sum P(2) = 5.1e-09
 Identities = 64/207 (30%), Positives = 95/207 (45%)

Query:    93 EVGNLPLS--LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLT 150
             E+ NL  +  L+ L +  CS L  +   ++  TSL+ + +  C +LV  P  G    KL 
Sbjct:   731 ELPNLSTATNLEELKLRDCSSLVELPSSIEKLTSLQRLYLQRCSSLVELPSFG-NATKLE 789

Query:   151 RLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWK 210
              L + +C  LE LP  + N  +LQ L +     +  L   +   TNLQ LD+ GN     
Sbjct:   790 ELYLENCSSLEKLPPSI-NANNLQQLSLINCSRVVELPAIENA-TNLQKLDL-GNCS--- 843

Query:   211 SMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLER 270
             S+IE        ++L+ L IS C   +V  P     +G       +L    +    NL  
Sbjct:   844 SLIELPLSIGTATNLKELNISGCSS-LVKLP---SSIGDI----TNLKEFDLSNCSNLVE 895

Query:   271 LSSSIVDLQNLTELYLFGCPKLKYFPE 297
             L  +I +L+ L  L L GC +LK FPE
Sbjct:   896 LPINI-NLKFLDTLNLAGCSQLKSFPE 921

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

GO:0042742 "defense response to bacterium" evidence=ISS

TAIR|locus:2151466 VICTL "VARIATION IN COMPOUND TRIGGERED ROOT growth response-like" [Arabidopsis thaliana (taxid:3702)]

 Score = 167 (63.8 bits), Expect = 5.6e-09, P = 5.6e-09
 Identities = 69/228 (30%), Positives = 100/228 (43%)

Query:    89 LESLEVGNLPLS-LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCA 147
             LE L  G +  + LK L ++    L  I + L   T++E +    C +LV  P       
Sbjct:   618 LEKLWEGAMSFTCLKELDMWASKYLKEIPD-LSKATNIEKLDFGHCWSLVELPSSIRNLN 676

Query:   148 KLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNME 207
             KL  L +  C  LE LP G  NL SL YL   +   L +  E     TN+       N+ 
Sbjct:   677 KLLELNMEYCGELETLPTGF-NLKSLDYLNFNECWKLRTFPE---FATNIS------NLI 726

Query:   208 IWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTA--LP-LPASLTSLWIEA 264
             + ++ IE       F ++R L++ + D D      E+K  G    +P L  +LT L +  
Sbjct:   727 LAETSIEEYPSNLYFKNVRELSMGKADSD------ENKCQGVKPFMPMLSPTLTLLELWN 780

Query:   265 FPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRC 312
              PNL  LSSS  +L NL  L +  C  L+  P      SL+ L +  C
Sbjct:   781 IPNLVELSSSFQNLNNLERLDICYCRNLESLPTGINLESLVSLNLFGC 828

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 162 (62.1 bits), Expect = 2.8e-08, P = 2.8e-08
 Identities = 81/276 (29%), Positives = 121/276 (43%)

Query:    65 LEHLEIISCPSLTCIFSKNELPATLESLEV-----GN-------LPLSLKSLFV--YGCS 110
             LE L+I SC SL+ +    +L   L  L+      G+       LP SL+ LF+  Y   
Sbjct:  1526 LEELKIQSCESLSSLDGL-QLLGNLRLLQAHRCLSGHGEDGRCILPQSLEELFISEYSLE 1584

Query:   111 KLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNL 170
              L      L N T L+ + +    +L S       C  L  L I  C  L  L +G+  L
Sbjct:  1585 TLQPCF--LTNLTCLKQLEVSGTTSLKSLELQS--CTALEHLKIQGCASLATL-EGLQFL 1639

Query:   171 TSLQYLRIGKGGALPSL---EEEDG--LPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSL 225
              +L+++++ +   LP       E G  L   L+ LDI     +  S  +     H  +SL
Sbjct:  1640 HALRHMKVFRCPGLPPYLGSSSEQGYELCPRLERLDIDDPSILTTSFCK-----H-LTSL 1693

Query:   226 RRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELY 285
             +RL ++ C  ++     E +R   AL L  SL  L  +   NL  L + +  L +L  L 
Sbjct:  1694 QRLELNYCGSEVARLTDEQER---ALQLLTSLQELRFKYCYNLIDLPAGLHSLPSLKRLE 1750

Query:   286 LFGCPKLKYFPEKGLPSSLLELRISRCPL-IAEKCR 320
             +  C  +   PEKGLP S  EL I  C   +A++CR
Sbjct:  1751 IRSCRSIARLPEKGLPPSFEELDIIACSNELAQQCR 1786

GO:0006915 "apoptotic process" evidence=IGI

GO:0006952 "defense response" evidence=IGI

TAIR|locus:2076043 RPP1 "recognition of peronospora parasitica 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 154 (59.3 bits), Expect = 8.9e-08, Sum P(2) = 8.9e-08
 Identities = 59/194 (30%), Positives = 90/194 (46%)

Query:   119 LDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILD---CKRLEALPKGMHNLTSLQY 175
             L   T+LE + + +C +LV  P       KLT L ILD   C  LE LP  + N T L+ 
Sbjct:   733 LSTATNLEELKLRNCSSLVELPSS---IEKLTSLQILDLENCSSLEKLP-AIENATKLRE 788

Query:   176 LRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDE 235
             L++    +L  L    G  TNL+ L+I G      S+++        + L    +S C  
Sbjct:   789 LKLQNCSSLIELPLSIGTATNLKQLNISG----CSSLVKLPSSIGDITDLEVFDLSNCSS 844

Query:   236 DMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYF 295
              +V+ P     +G       +L  L +     LE L  +I +L++L  L L  C +LK F
Sbjct:   845 -LVTLP---SSIGNL----QNLCKLIMRGCSKLEALPINI-NLKSLDTLNLTDCSQLKSF 895

Query:   296 PEKGLPSSLLELRI 309
             PE  + + + ELR+
Sbjct:   896 PE--ISTHISELRL 907

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0002239 "response to oomycetes" evidence=IDA

GO:0000139 "Golgi membrane" evidence=IDA

GO:0005789 "endoplasmic reticulum membrane" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0009817 "defense response to fungus, incompatible interaction" evidence=IMP;TAS

GO:0030275 "LRR domain binding" evidence=ISS

---

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

Your Input: eugene3.00011712 cc-nbs-lrr resistance protein (1418 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	348
PLN03210	1153	PLN03210, PLN03210, Resistant to P	2e-09
PRK15386	426	PRK15386, PRK15386, type III secretion protein Gog	7e-04
PLN03210	1153	PLN03210, PLN03210, Resistant to P	8e-04

>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P

 Score = 59.1 bits (143), Expect = 2e-09
 Identities = 70/228 (30%), Positives = 102/228 (44%), Gaps = 19/228 (8%)

Query: 89  LESLEVGNLPLS-LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCA 147
           LE L  G   L+ L+++ + G   L  I + L   T+LET+ +  C +LV  P       
Sbjct: 623 LEKLWDGVHSLTGLRNIDLRGSKNLKEIPD-LSMATNLETLKLSDCSSLVELPSSIQYLN 681

Query: 148 KLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNME 207
           KL  L +  C+ LE LP G+ NL SL  L +     L S  +   + TN+  LD+     
Sbjct: 682 KLEDLDMSRCENLEILPTGI-NLKSLYRLNLSGCSRLKSFPD---ISTNISWLDLDE--- 734

Query: 208 IWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDK-RLGTAL--PLPASLTSLWIEA 264
              + IE      R  +L  L +     +M S  L ++ +  T L   L  SLT L++  
Sbjct: 735 ---TAIEEFPSNLRLENLDELILC----EMKSEKLWERVQPLTPLMTMLSPSLTRLFLSD 787

Query: 265 FPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRC 312
            P+L  L SSI +L  L  L +  C  L+  P      SL  L +S C
Sbjct: 788 IPSLVELPSSIQNLHKLEHLEIENCINLETLPTGINLESLESLDLSGC 835

syringae 6; Provisional. Length = 1153

>gnl|CDD|237954 PRK15386, PRK15386, type III secretion protein GogB; Provisional

 Score = 41.0 bits (96), Expect = 7e-04
 Identities = 34/140 (24%), Positives = 61/140 (43%), Gaps = 24/140 (17%)

Query: 10  ILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLT--VEEGIQCSSSSR-RYTSSLLE 66
            L I+ C  +  +    LP+ L ++ I +C N+ TL   + EG++  +       S L E
Sbjct: 56  RLYIKDCD-IESLP--VLPNELTEITIENCNNLTTLPGSIPEGLEKLTVCHCPEISGLPE 112

Query: 67  HLEIIS--CPSLTCIFSKNELPATLESLEVGN------------LPLSLKSLFVYGCSKL 112
            +  +     +   I  KN +P  L SL + +            +  SLK+L + GCS +
Sbjct: 113 SVRSLEIKGSATDSI--KN-VPNGLTSLSINSYNPENQARIDNLISPSLKTLSLTGCSNI 169

Query: 113 GSIAERLDNNTSLETISIDS 132
             + E+L  +    T+ I+ 
Sbjct: 170 -ILPEKLPESLQSITLHIEQ 188

Length = 426

>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P

 Score = 41.0 bits (96), Expect = 8e-04
 Identities = 74/284 (26%), Positives = 118/284 (41%), Gaps = 63/284 (22%)

Query: 8   LEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEH 67
           L  +D+    +L  I  + + ++L+ L++ DC ++  L          SS +Y +  LE 
Sbjct: 636 LRNIDLRGSKNLKEIPDLSMATNLETLKLSDCSSLVEL---------PSSIQYLNK-LED 685

Query: 68  LEIISCPSLTCIFSKNELPATLESLEVG-NLPLSLKSLFVYGCSKLGSIAERLDNNTSLE 126
           L++  C +             LE L  G NL  SL  L + GCS+L S     D +T++ 
Sbjct: 686 LDMSRCEN-------------LEILPTGINLK-SLYRLNLSGCSRLKSF---PDISTNIS 728

Query: 127 TISIDSCGNLVSFPEGGLPCAKLTRLTILDCK------RLEALPKGM----HNLTSLQYL 176
            + +D    +  FP   L    L  L + + K      R++ L   M     +LT L   
Sbjct: 729 WLDLDETA-IEEFPS-NLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLS 786

Query: 177 RIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIW--KSMIERGRGFHRFSSLRRLTISRCD 234
            I      PSL E   LP+++Q+L    ++EI    ++     G +   SL  L +S C 
Sbjct: 787 DI------PSLVE---LPSSIQNLHKLEHLEIENCINLETLPTGIN-LESLESLDLSGCS 836

Query: 235 EDMVSFP-----LEDKRL-GTALPLPASLTSLWIEAFPNLERLS 272
             + +FP     + D  L  T +         WIE F NL  L 
Sbjct: 837 R-LRTFPDISTNISDLNLSRTGI----EEVPWWIEKFSNLSFLD 875

syringae 6; Provisional. Length = 1153

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	348
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.9
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.88
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.87
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.87
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.84
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.74
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.73
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.62
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.62
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.61
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.58
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.55
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.51
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.5
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.41
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.38
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.33
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.26
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.21
KOG4341	483	consensus F-box protein containing LRR [General fu	99.16
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.03
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.02
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.99
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.92
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.9
KOG4341	483	consensus F-box protein containing LRR [General fu	98.87
PRK15386	426	type III secretion protein GogB; Provisional	98.81
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.81
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.8
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.55
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.54
PRK15386	426	type III secretion protein GogB; Provisional	98.47
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.46
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.45
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.41
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.4
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.35
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.29
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.25
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.19
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.05
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.02
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.01
PLN03150	623	hypothetical protein; Provisional	97.98
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.85
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.78
PLN03150	623	hypothetical protein; Provisional	97.65
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.59
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.32
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.28
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.27
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.23
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.21
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.18
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.16
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.12
KOG2982	418	consensus Uncharacterized conserved protein [Funct	96.94
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.85
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	96.77
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	96.33
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	95.86
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.1
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.05
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.88
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	94.72
KOG3864	221	consensus Uncharacterized conserved protein [Funct	94.53
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.27
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	93.91
KOG3864	221	consensus Uncharacterized conserved protein [Funct	93.89
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	93.15
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	92.57
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	92.54
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	92.54
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	88.46
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	83.43

>PLN03210 Resistant to P

Probab=99.90  E-value=1.7e-22  Score=207.83  Aligned_cols=248  Identities=22%  Similarity=0.308  Sum_probs=150.5

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEc
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVY  107 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~  107 (348)
                      +.+|+.|++.++. ++.++.+        ++.++  +|+.++++++..+.. +|.....           ++ |+.|++.
T Consensus       610 ~~~L~~L~L~~s~-l~~L~~~--------~~~l~--~Lk~L~Ls~~~~l~~-ip~ls~l-----------~~-Le~L~L~  665 (1153)
T PLN03210        610 PENLVKLQMQGSK-LEKLWDG--------VHSLT--GLRNIDLRGSKNLKE-IPDLSMA-----------TN-LETLKLS  665 (1153)
T ss_pred             ccCCcEEECcCcc-ccccccc--------cccCC--CCCEEECCCCCCcCc-CCccccC-----------Cc-ccEEEec
Confidence            3445555555543 4444443        34444  666666666554544 4432222           33 6666666


Q ss_pred             CCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCccc--------------------ccc
Q 039944          108 GCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALP--------------------KGM  167 (348)
Q Consensus       108 ~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~--------------------~~l  167 (348)
                      +|..+..+|..+..+++|+.|++++|..+..+|... .+++|+.|++++|..++.+|                    ..+
T Consensus       666 ~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~i-~l~sL~~L~Lsgc~~L~~~p~~~~nL~~L~L~~n~i~~lP~~~  744 (1153)
T PLN03210        666 DCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTGI-NLKSLYRLNLSGCSRLKSFPDISTNISWLDLDETAIEEFPSNL  744 (1153)
T ss_pred             CCCCccccchhhhccCCCCEEeCCCCCCcCccCCcC-CCCCCCEEeCCCCCCccccccccCCcCeeecCCCccccccccc
Confidence            666666666556666666666666666665555543 34555555555554443333                    211


Q ss_pred             ------------------------------cCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhcccc
Q 039944          168 ------------------------------HNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGR  217 (348)
Q Consensus       168 ------------------------------~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~  217 (348)
                                                    ..+++|++|++++|..+..+|..++.+++|+.|++.+|..+..++..   
T Consensus       745 ~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~LP~~---  821 (1153)
T PLN03210        745 RLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTG---  821 (1153)
T ss_pred             cccccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccChhhhCCCCCCEEECCCCCCcCeeCCC---
Confidence                                          01234555555555555555655566666666666666666555522   


Q ss_pred             ccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCC
Q 039944          218 GFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPE  297 (348)
Q Consensus       218 ~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~  297 (348)
                        ..+++|+.|++++ |..+..+|.          .+.+|+.|++++ +.++.+|..+..+++|+.|++.+|++++.+|.
T Consensus       822 --~~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        822 --INLESLESLDLSG-CSRLRTFPD----------ISTNISDLNLSR-TGIEEVPWWIEKFSNLSFLDMNGCNNLQRVSL  887 (1153)
T ss_pred             --CCccccCEEECCC-CCccccccc----------cccccCEeECCC-CCCccChHHHhcCCCCCEEECCCCCCcCccCc
Confidence              2456666666666 666655554          345677777776 56777888888899999999999999999887


Q ss_pred             C-CCCCCCcEEEEcCCchhHH
Q 039944          298 K-GLPSSLLELRISRCPLIAE  317 (348)
Q Consensus       298 ~-~~~~~L~~L~l~~c~~l~~  317 (348)
                      . .-.++|+.+++++|++|+.
T Consensus       888 ~~~~L~~L~~L~l~~C~~L~~  908 (1153)
T PLN03210        888 NISKLKHLETVDFSDCGALTE  908 (1153)
T ss_pred             ccccccCCCeeecCCCccccc
Confidence            3 2268899999999998864

syringae 6; Provisional

>PLN03210 Resistant to P

Probab=99.88  E-value=7e-22  Score=203.38  Aligned_cols=284  Identities=20%  Similarity=0.255  Sum_probs=207.2

Q ss_pred             CCCCcccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccC
Q 039944            3 DTNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSK   82 (348)
Q Consensus         3 ~~~~~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~   82 (348)
                      ..+++|+.|+++++..++.+|....+++|+.|++++|..+..+|..        ++.++  +|+.|++++|..+.. +|.
T Consensus       631 ~~l~~Lk~L~Ls~~~~l~~ip~ls~l~~Le~L~L~~c~~L~~lp~s--------i~~L~--~L~~L~L~~c~~L~~-Lp~  699 (1153)
T PLN03210        631 HSLTGLRNIDLRGSKNLKEIPDLSMATNLETLKLSDCSSLVELPSS--------IQYLN--KLEDLDMSRCENLEI-LPT  699 (1153)
T ss_pred             ccCCCCCEEECCCCCCcCcCCccccCCcccEEEecCCCCccccchh--------hhccC--CCCEEeCCCCCCcCc-cCC
Confidence            4577888888887777777776666888888888888878777765        67777  888888888887777 776


Q ss_pred             CCCCCCcceeEeccC---------CCCccEEEEcCCCCcccchhhhcCCCccceecccccccc------cccCC-CCCCC
Q 039944           83 NELPATLESLEVGNL---------PLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNL------VSFPE-GGLPC  146 (348)
Q Consensus        83 ~~~~~~L~~L~i~~l---------~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l------~~~~~-~~~~~  146 (348)
                      ...+++|+.|.+..+         +.+|+.|++.++. +..+|..+ .+++|+.|.+..+...      ..++. ....+
T Consensus       700 ~i~l~sL~~L~Lsgc~~L~~~p~~~~nL~~L~L~~n~-i~~lP~~~-~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~  777 (1153)
T PLN03210        700 GINLKSLYRLNLSGCSRLKSFPDISTNISWLDLDETA-IEEFPSNL-RLENLDELILCEMKSEKLWERVQPLTPLMTMLS  777 (1153)
T ss_pred             cCCCCCCCEEeCCCCCCccccccccCCcCeeecCCCc-cccccccc-cccccccccccccchhhccccccccchhhhhcc
Confidence            544455555555221         1235556665543 44444322 4556666666543211      00111 11224


Q ss_pred             CCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCcc
Q 039944          147 AKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLR  226 (348)
Q Consensus       147 ~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~  226 (348)
                      ++|+.|++++|..+..+|..++++++|++|++++|..++.+|. ...+++|+.|++++|..+...+       ....+|+
T Consensus       778 ~sL~~L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~LP~-~~~L~sL~~L~Ls~c~~L~~~p-------~~~~nL~  849 (1153)
T PLN03210        778 PSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPT-GINLESLESLDLSGCSRLRTFP-------DISTNIS  849 (1153)
T ss_pred             ccchheeCCCCCCccccChhhhCCCCCCEEECCCCCCcCeeCC-CCCccccCEEECCCCCcccccc-------ccccccC
Confidence            6899999999988899999999999999999999999999984 4478999999999998877655       2347899


Q ss_pred             EEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCCC------
Q 039944          227 RLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGL------  300 (348)
Q Consensus       227 ~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~------  300 (348)
                      .|++++  +.++.+|.+.       ..+++|+.|++.+|+.++.+|..+..+++|+.+++.+|+.++.++....      
T Consensus       850 ~L~Ls~--n~i~~iP~si-------~~l~~L~~L~L~~C~~L~~l~~~~~~L~~L~~L~l~~C~~L~~~~l~~~~~~~~~  920 (1153)
T PLN03210        850 DLNLSR--TGIEEVPWWI-------EKFSNLSFLDMNGCNNLQRVSLNISKLKHLETVDFSDCGALTEASWNGSPSEVAM  920 (1153)
T ss_pred             EeECCC--CCCccChHHH-------hcCCCCCEEECCCCCCcCccCcccccccCCCeeecCCCcccccccCCCCchhhhh
Confidence            999998  6888899877       4788999999999999999999889999999999999999986644221      


Q ss_pred             --------CCCCcEEEEcCCchhH
Q 039944          301 --------PSSLLELRISRCPLIA  316 (348)
Q Consensus       301 --------~~~L~~L~l~~c~~l~  316 (348)
                              .++...+.+.+|.+|.
T Consensus       921 ~~~n~~~~~p~~~~l~f~nC~~L~  944 (1153)
T PLN03210        921 ATDNIHSKLPSTVCINFINCFNLD  944 (1153)
T ss_pred             hcccccccCCchhccccccccCCC
Confidence                    1233445667776664

syringae 6; Provisional

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

Probab=99.87  E-value=1.7e-21  Score=199.45  Aligned_cols=128  Identities=23%  Similarity=0.160  Sum_probs=68.2

Q ss_pred             ccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEecc
Q 039944          101 LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGK  180 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~  180 (348)
                      |+.|++++|.....+|..+..+++|++|++++|.....+|..+..+++|+.|++.+|.....+|..+..+++|++|++++
T Consensus       166 L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~  245 (968)
T PLN00113        166 LKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVY  245 (968)
T ss_pred             CCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcC
Confidence            66666666554445555556666666666665544444555555555666666665544444555555566666666665


Q ss_pred             CCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecc
Q 039944          181 GGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISR  232 (348)
Q Consensus       181 ~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~  232 (348)
                      |.....+|..++.+++|+.|++.++......+    ..+..+++|+.|++++
T Consensus       246 n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p----~~l~~l~~L~~L~Ls~  293 (968)
T PLN00113        246 NNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIP----PSIFSLQKLISLDLSD  293 (968)
T ss_pred             ceeccccChhHhCCCCCCEEECcCCeeeccCc----hhHhhccCcCEEECcC
Confidence            53333444445555556666555543222222    1234455555555554

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

Probab=99.87  E-value=2.6e-21  Score=198.05  Aligned_cols=39  Identities=13%  Similarity=0.065  Sum_probs=22.3

Q ss_pred             CCCCCcccEEeecCcccccccCCCC--CCCCccEEEeccCc
Q 039944            2 CDTNSSLEILDIEKCHSLTYIAAVQ--LPSSLKKLQICDCY   40 (348)
Q Consensus         2 ~~~~~~L~~L~l~~~~~l~~l~~~~--~~~~L~~L~l~~~~   40 (348)
                      |..+++|+.|+++++.-...+|...  .+.+|++|++++|.
T Consensus        89 ~~~l~~L~~L~Ls~n~~~~~ip~~~~~~l~~L~~L~Ls~n~  129 (968)
T PLN00113         89 IFRLPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNN  129 (968)
T ss_pred             HhCCCCCCEEECCCCccCCcCChHHhccCCCCCEEECcCCc
Confidence            3456777777777643223455432  25666666666665

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

Probab=99.84  E-value=2.3e-22  Score=181.40  Aligned_cols=309  Identities=19%  Similarity=0.278  Sum_probs=197.7

Q ss_pred             CCCCCCcccEEeecCcccccccCCCCC-CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCcccc
Q 039944            1 MCDTNSSLEILDIEKCHSLTYIAAVQL-PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCI   79 (348)
Q Consensus         1 ~~~~~~~L~~L~l~~~~~l~~l~~~~~-~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~   79 (348)
                      +|.++++|+.+++.+ +.++.+|..+- ..+|+.|++.++. +..+..+       .++.+.  .||.++++. +.+.+ 
T Consensus        97 ~f~nl~nLq~v~l~~-N~Lt~IP~f~~~sghl~~L~L~~N~-I~sv~se-------~L~~l~--alrslDLSr-N~is~-  163 (873)
T KOG4194|consen   97 FFYNLPNLQEVNLNK-NELTRIPRFGHESGHLEKLDLRHNL-ISSVTSE-------ELSALP--ALRSLDLSR-NLISE-  163 (873)
T ss_pred             HHhcCCcceeeeecc-chhhhcccccccccceeEEeeeccc-cccccHH-------HHHhHh--hhhhhhhhh-chhhc-
Confidence            366789999999986 68888888766 5668888888886 6665544       344444  677777765 34554 


Q ss_pred             ccCCCCC--CCcceeEe-------------ccCCCCccEEEEcCCCCcccch-hhhcCCCccceeccccc----------
Q 039944           80 FSKNELP--ATLESLEV-------------GNLPLSLKSLFVYGCSKLGSIA-ERLDNNTSLETISIDSC----------  133 (348)
Q Consensus        80 ~~~~~~~--~~L~~L~i-------------~~l~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~----------  133 (348)
                      ++...+|  ..+++|.+             ..+- +|..|.+++++ ++.+| ..+.++++|+.|++..|          
T Consensus       164 i~~~sfp~~~ni~~L~La~N~It~l~~~~F~~ln-sL~tlkLsrNr-ittLp~r~Fk~L~~L~~LdLnrN~irive~ltF  241 (873)
T KOG4194|consen  164 IPKPSFPAKVNIKKLNLASNRITTLETGHFDSLN-SLLTLKLSRNR-ITTLPQRSFKRLPKLESLDLNRNRIRIVEGLTF  241 (873)
T ss_pred             ccCCCCCCCCCceEEeeccccccccccccccccc-hheeeecccCc-ccccCHHHhhhcchhhhhhccccceeeehhhhh
Confidence            5554444  24566555             2233 36666666554 33333 44444666666666542          


Q ss_pred             -------------ccccccCCC-CCCCCCccEEEEecCCCcCccc-ccccCCCCcceeEeccCCCCCcc-cccCCCCCCc
Q 039944          134 -------------GNLVSFPEG-GLPCAKLTRLTILDCKRLEALP-KGMHNLTSLQYLRIGKGGALPSL-EEEDGLPTNL  197 (348)
Q Consensus       134 -------------~~l~~~~~~-~~~~~~L~~L~l~~~~~l~~~~-~~l~~l~~L~~L~l~~~~~~~~~-~~~~~~~~~L  197 (348)
                                   +.+..+..+ +..+.++++|++..|. +..+- .++.+++.|++|+++++ .+..+ +..+..+++|
T Consensus       242 qgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~l~L~~N~-l~~vn~g~lfgLt~L~~L~lS~N-aI~rih~d~WsftqkL  319 (873)
T KOG4194|consen  242 QGLPSLQNLKLQRNDISKLDDGAFYGLEKMEHLNLETNR-LQAVNEGWLFGLTSLEQLDLSYN-AIQRIHIDSWSFTQKL  319 (873)
T ss_pred             cCchhhhhhhhhhcCcccccCcceeeecccceeecccch-hhhhhcccccccchhhhhccchh-hhheeecchhhhcccc
Confidence                         122222221 2236677888877743 44443 45678888888888876 44433 3367888899


Q ss_pred             CeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcc-cc---cc
Q 039944          198 QSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLE-RL---SS  273 (348)
Q Consensus       198 ~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~-~i---~~  273 (348)
                      +.|+++. +.+......   .+..+..|++|++++  +.+..+.+.      ++..+++|+.|+++. +.+. .+   ..
T Consensus       320 ~~LdLs~-N~i~~l~~~---sf~~L~~Le~LnLs~--Nsi~~l~e~------af~~lssL~~LdLr~-N~ls~~IEDaa~  386 (873)
T KOG4194|consen  320 KELDLSS-NRITRLDEG---SFRVLSQLEELNLSH--NSIDHLAEG------AFVGLSSLHKLDLRS-NELSWCIEDAAV  386 (873)
T ss_pred             eeEeccc-cccccCChh---HHHHHHHhhhhcccc--cchHHHHhh------HHHHhhhhhhhcCcC-CeEEEEEecchh
Confidence            9999988 456655543   566778888888887  666666553      235677888888887 3443 22   22


Q ss_pred             ccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEEEcCCchhHHHhhccCCccccCCCCcCEEEecceeeccC
Q 039944          274 SIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELRISRCPLIAEKCRKDGGQYWDLLTHIPRVEIDWKSVFGD  346 (348)
Q Consensus       274 ~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~l~~c~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~  346 (348)
                      .+..+++|++|++.| ++++.+|...+  ++.|+.|++.+++.-+     .....+..+ ++.++.++..++.||
T Consensus       387 ~f~gl~~LrkL~l~g-Nqlk~I~krAfsgl~~LE~LdL~~NaiaS-----Iq~nAFe~m-~Lk~Lv~nSssflCD  454 (873)
T KOG4194|consen  387 AFNGLPSLRKLRLTG-NQLKSIPKRAFSGLEALEHLDLGDNAIAS-----IQPNAFEPM-ELKELVMNSSSFLCD  454 (873)
T ss_pred             hhccchhhhheeecC-ceeeecchhhhccCcccceecCCCCccee-----ecccccccc-hhhhhhhcccceEEe
Confidence            466788888888888 57888887555  6888888888876322     233345555 777777777777665

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

Probab=99.74  E-value=3.3e-19  Score=161.26  Aligned_cols=280  Identities=19%  Similarity=0.211  Sum_probs=189.9

Q ss_pred             CCCcccEEeecCcccccccCCCCCC--CCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCcccccc
Q 039944            4 TNSSLEILDIEKCHSLTYIAAVQLP--SSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFS   81 (348)
Q Consensus         4 ~~~~L~~L~l~~~~~l~~l~~~~~~--~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~   81 (348)
                      .++.|++|+|+. +.+.+++...|+  .++++|+++++. +..+..+       -|..+.  +|-.|.++. +.++. +|
T Consensus       147 ~l~alrslDLSr-N~is~i~~~sfp~~~ni~~L~La~N~-It~l~~~-------~F~~ln--sL~tlkLsr-Nritt-Lp  213 (873)
T KOG4194|consen  147 ALPALRSLDLSR-NLISEIPKPSFPAKVNIKKLNLASNR-ITTLETG-------HFDSLN--SLLTLKLSR-NRITT-LP  213 (873)
T ss_pred             hHhhhhhhhhhh-chhhcccCCCCCCCCCceEEeecccc-ccccccc-------cccccc--hheeeeccc-Ccccc-cC
Confidence            345666777765 456666655552  456677776665 5555544       355555  566666655 33444 44


Q ss_pred             CCCC--CCCcceeEe-------------ccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCC-CCCC
Q 039944           82 KNEL--PATLESLEV-------------GNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPE-GGLP  145 (348)
Q Consensus        82 ~~~~--~~~L~~L~i-------------~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~-~~~~  145 (348)
                      ...+  .+.|+.|.+             .++|+ |+.|.+..+....---.++..+.++++|++.. +.+..+.. ++..
T Consensus       214 ~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~S-l~nlklqrN~I~kL~DG~Fy~l~kme~l~L~~-N~l~~vn~g~lfg  291 (873)
T KOG4194|consen  214 QRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPS-LQNLKLQRNDISKLDDGAFYGLEKMEHLNLET-NRLQAVNEGWLFG  291 (873)
T ss_pred             HHHhhhcchhhhhhccccceeeehhhhhcCchh-hhhhhhhhcCcccccCcceeeecccceeeccc-chhhhhhcccccc
Confidence            4321  233333333             34566 77777777653332245677899999999988 45555554 6778


Q ss_pred             CCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccc-cCCCCCCcCeeeecCCccchhhhhccccccCCCCC
Q 039944          146 CAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEE-EDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSS  224 (348)
Q Consensus       146 ~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~  224 (348)
                      ++.|+.|+++.|.--..-++++..+++|++|+++++ .++.+++ .+..+..|++|.+++ +++..+..   ..|.++++
T Consensus       292 Lt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N-~i~~l~~~sf~~L~~Le~LnLs~-Nsi~~l~e---~af~~lss  366 (873)
T KOG4194|consen  292 LTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSN-RITRLDEGSFRVLSQLEELNLSH-NSIDHLAE---GAFVGLSS  366 (873)
T ss_pred             cchhhhhccchhhhheeecchhhhcccceeEecccc-ccccCChhHHHHHHHhhhhcccc-cchHHHHh---hHHHHhhh
Confidence            999999999996543333567788999999999986 6777763 355678899999999 55776665   37889999


Q ss_pred             ccEEEecccCCcccc-cccchhccCCCCCCCCCccEEEeccCCCcccccc-ccccCCCcceEeccCCCCCCCCCCCCC-C
Q 039944          225 LRRLTISRCDEDMVS-FPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGCPKLKYFPEKGL-P  301 (348)
Q Consensus       225 L~~L~l~~~c~~l~~-~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c~~l~~l~~~~~-~  301 (348)
                      |+.|++..  +.+.- +.+.    .+++..+++|+.|.+.+ +.++.|+. .+..++.|+.|++.++ .+.++....+ +
T Consensus       367 L~~LdLr~--N~ls~~IEDa----a~~f~gl~~LrkL~l~g-Nqlk~I~krAfsgl~~LE~LdL~~N-aiaSIq~nAFe~  438 (873)
T KOG4194|consen  367 LHKLDLRS--NELSWCIEDA----AVAFNGLPSLRKLRLTG-NQLKSIPKRAFSGLEALEHLDLGDN-AIASIQPNAFEP  438 (873)
T ss_pred             hhhhcCcC--CeEEEEEecc----hhhhccchhhhheeecC-ceeeecchhhhccCcccceecCCCC-cceeeccccccc
Confidence            99999998  44432 2222    24566789999999999 78999988 7889999999999984 5665555333 3


Q ss_pred             CCCcEEEEcC
Q 039944          302 SSLLELRISR  311 (348)
Q Consensus       302 ~~L~~L~l~~  311 (348)
                      -.|++|-+..
T Consensus       439 m~Lk~Lv~nS  448 (873)
T KOG4194|consen  439 MELKELVMNS  448 (873)
T ss_pred             chhhhhhhcc
Confidence            3666666553

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

Probab=99.73  E-value=7.1e-20  Score=166.91  Aligned_cols=278  Identities=16%  Similarity=0.174  Sum_probs=181.6

Q ss_pred             CCCCcccEEeecCccccc--ccCCCCC-CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCcccc
Q 039944            3 DTNSSLEILDIEKCHSLT--YIAAVQL-PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCI   79 (348)
Q Consensus         3 ~~~~~L~~L~l~~~~~l~--~l~~~~~-~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~   79 (348)
                      ..+|.|+.+.+..+ +++  .+|...| +.-|..|+++++. +.++|.+        +..-+  ++-.|++++. .+.. 
T Consensus        75 s~Lp~LRsv~~R~N-~LKnsGiP~diF~l~dLt~lDLShNq-L~EvP~~--------LE~AK--n~iVLNLS~N-~Iet-  140 (1255)
T KOG0444|consen   75 SDLPRLRSVIVRDN-NLKNSGIPTDIFRLKDLTILDLSHNQ-LREVPTN--------LEYAK--NSIVLNLSYN-NIET-  140 (1255)
T ss_pred             ccchhhHHHhhhcc-ccccCCCCchhcccccceeeecchhh-hhhcchh--------hhhhc--CcEEEEcccC-cccc-
Confidence            45677888888763 443  4666655 7788888888876 7888876        56666  7777777763 3433 


Q ss_pred             ccCCC-------------------CCCCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccc-ccccc
Q 039944           80 FSKNE-------------------LPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCG-NLVSF  139 (348)
Q Consensus        80 ~~~~~-------------------~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~-~l~~~  139 (348)
                      +|..-                   +|+.+++|     . .|+.|.+++++.....-..+..+.+|++|.+++.. .+..+
T Consensus       141 IPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL-----~-~LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRTl~N~  214 (1255)
T KOG0444|consen  141 IPNSLFINLTDLLFLDLSNNRLEMLPPQIRRL-----S-MLQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRTLDNI  214 (1255)
T ss_pred             CCchHHHhhHhHhhhccccchhhhcCHHHHHH-----h-hhhhhhcCCChhhHHHHhcCccchhhhhhhcccccchhhcC
Confidence            44321                   11222222     2 25555666555322222333345555666665432 34556


Q ss_pred             CCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhcccccc
Q 039944          140 PEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGF  219 (348)
Q Consensus       140 ~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~  219 (348)
                      |.++-.+.||..++++. +++..+|..+..+++|+.|+++++ .++.+....+.-.+|++|+++. +.+...|    ..+
T Consensus       215 Ptsld~l~NL~dvDlS~-N~Lp~vPecly~l~~LrrLNLS~N-~iteL~~~~~~W~~lEtLNlSr-NQLt~LP----~av  287 (1255)
T KOG0444|consen  215 PTSLDDLHNLRDVDLSE-NNLPIVPECLYKLRNLRRLNLSGN-KITELNMTEGEWENLETLNLSR-NQLTVLP----DAV  287 (1255)
T ss_pred             CCchhhhhhhhhccccc-cCCCcchHHHhhhhhhheeccCcC-ceeeeeccHHHHhhhhhhcccc-chhccch----HHH
Confidence            66666677777777776 456777777777777778877775 4555544455566777777777 4566666    346


Q ss_pred             CCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCC-
Q 039944          220 HRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEK-  298 (348)
Q Consensus       220 ~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~-  298 (348)
                      ..++.|+.|.+.++--.++.+|.++|       .+.+|+.++..+ +.+.-+|.++..|..|+.|.++. +.+-.+|+. 
T Consensus       288 cKL~kL~kLy~n~NkL~FeGiPSGIG-------KL~~Levf~aan-N~LElVPEglcRC~kL~kL~L~~-NrLiTLPeaI  358 (1255)
T KOG0444|consen  288 CKLTKLTKLYANNNKLTFEGIPSGIG-------KLIQLEVFHAAN-NKLELVPEGLCRCVKLQKLKLDH-NRLITLPEAI  358 (1255)
T ss_pred             hhhHHHHHHHhccCcccccCCccchh-------hhhhhHHHHhhc-cccccCchhhhhhHHHHHhcccc-cceeechhhh
Confidence            67777777777763334567777774       666788888877 67888888888899999999976 456667873 


Q ss_pred             CCCCCCcEEEEcCCchhH
Q 039944          299 GLPSSLLELRISRCPLIA  316 (348)
Q Consensus       299 ~~~~~L~~L~l~~c~~l~  316 (348)
                      .+.+-|+.|+++.+|+|.
T Consensus       359 HlL~~l~vLDlreNpnLV  376 (1255)
T KOG0444|consen  359 HLLPDLKVLDLRENPNLV  376 (1255)
T ss_pred             hhcCCcceeeccCCcCcc
Confidence            237889999999988773

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

Probab=99.62  E-value=8.1e-18  Score=153.67  Aligned_cols=260  Identities=21%  Similarity=0.213  Sum_probs=176.2

Q ss_pred             CCcccEEeecCcccccccCCCC-CCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCC
Q 039944            5 NSSLEILDIEKCHSLTYIAAVQ-LPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKN   83 (348)
Q Consensus         5 ~~~L~~L~l~~~~~l~~l~~~~-~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~   83 (348)
                      +..|..|+++. +.+++.|... ..+++-+|.++++. ++.||..       ++-+++  .|-.|+++. +.+.. +|+.
T Consensus       102 l~dLt~lDLSh-NqL~EvP~~LE~AKn~iVLNLS~N~-IetIPn~-------lfinLt--DLLfLDLS~-NrLe~-LPPQ  168 (1255)
T KOG0444|consen  102 LKDLTILDLSH-NQLREVPTNLEYAKNSIVLNLSYNN-IETIPNS-------LFINLT--DLLFLDLSN-NRLEM-LPPQ  168 (1255)
T ss_pred             cccceeeecch-hhhhhcchhhhhhcCcEEEEcccCc-cccCCch-------HHHhhH--hHhhhcccc-chhhh-cCHH
Confidence            44566666665 4566666442 35666677777765 6666665       455555  555555554 33443 4432


Q ss_pred             -CCCCCcceeEe----------ccCCC--CccEEEEcCCCC-cccchhhhcCCCccceecccccccccccCCCCCCCCCc
Q 039944           84 -ELPATLESLEV----------GNLPL--SLKSLFVYGCSK-LGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKL  149 (348)
Q Consensus        84 -~~~~~L~~L~i----------~~l~~--~L~~L~l~~~~~-~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L  149 (348)
                       .....|+.|.+          ..+|+  +|..|++++... +..+|..+..+.+|..++++. +++..+|..+..+.+|
T Consensus       169 ~RRL~~LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvDlS~-N~Lp~vPecly~l~~L  247 (1255)
T KOG0444|consen  169 IRRLSMLQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVDLSE-NNLPIVPECLYKLRNL  247 (1255)
T ss_pred             HHHHhhhhhhhcCCChhhHHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhhccccc-cCCCcchHHHhhhhhh
Confidence             22233444333          12233  255666665332 345677788888888888887 6677788888888888


Q ss_pred             cEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCc-cchhhhhccccccCCCCCccEE
Q 039944          150 TRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNM-EIWKSMIERGRGFHRFSSLRRL  228 (348)
Q Consensus       150 ~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~-~l~~~~~~~~~~~~~l~~L~~L  228 (348)
                      +.|++++| .++.+.-....+.+|++|+++.+ .++.+|..+..++.|+.|.+.++. ..+.+|    ..+..+.+|+.+
T Consensus       248 rrLNLS~N-~iteL~~~~~~W~~lEtLNlSrN-QLt~LP~avcKL~kL~kLy~n~NkL~FeGiP----SGIGKL~~Levf  321 (1255)
T KOG0444|consen  248 RRLNLSGN-KITELNMTEGEWENLETLNLSRN-QLTVLPDAVCKLTKLTKLYANNNKLTFEGIP----SGIGKLIQLEVF  321 (1255)
T ss_pred             heeccCcC-ceeeeeccHHHHhhhhhhccccc-hhccchHHHhhhHHHHHHHhccCcccccCCc----cchhhhhhhHHH
Confidence            88888884 56666555566778888888876 677788778888888888777642 234455    356778888888


Q ss_pred             EecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCC
Q 039944          229 TISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKY  294 (348)
Q Consensus       229 ~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~  294 (348)
                      ..++  +.++-+|.+.       +.+..|+.|.++. +.+-.+|..+.-++.|+.|++..+|++.-
T Consensus       322 ~aan--N~LElVPEgl-------cRC~kL~kL~L~~-NrLiTLPeaIHlL~~l~vLDlreNpnLVM  377 (1255)
T KOG0444|consen  322 HAAN--NKLELVPEGL-------CRCVKLQKLKLDH-NRLITLPEAIHLLPDLKVLDLRENPNLVM  377 (1255)
T ss_pred             Hhhc--cccccCchhh-------hhhHHHHHhcccc-cceeechhhhhhcCCcceeeccCCcCccC
Confidence            8887  6778888776       6788888888876 67778888888888888888888887763

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.62  E-value=9.1e-15  Score=141.94  Aligned_cols=245  Identities=27%  Similarity=0.375  Sum_probs=148.0

Q ss_pred             ccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCC
Q 039944            8 LEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPA   87 (348)
Q Consensus         8 L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~   87 (348)
                      -..|+++++ .++++|.. +.++|+.|.+.+|. ++.+|..             +++|++|+++++ .++. +|.  .++
T Consensus       203 ~~~LdLs~~-~LtsLP~~-l~~~L~~L~L~~N~-Lt~LP~l-------------p~~Lk~LdLs~N-~Lts-LP~--lp~  262 (788)
T PRK15387        203 NAVLNVGES-GLTTLPDC-LPAHITTLVIPDNN-LTSLPAL-------------PPELRTLEVSGN-QLTS-LPV--LPP  262 (788)
T ss_pred             CcEEEcCCC-CCCcCCcc-hhcCCCEEEccCCc-CCCCCCC-------------CCCCcEEEecCC-ccCc-ccC--ccc
Confidence            446777764 66677653 34577777777765 6766643             237777777763 5655 553  455


Q ss_pred             CcceeEe--------ccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCC
Q 039944           88 TLESLEV--------GNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKR  159 (348)
Q Consensus        88 ~L~~L~i--------~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~  159 (348)
                      +|+.|.+        ..+|.+|+.|++++|. +..+|.   .+++|+.|++++| .+..+|..   ..+|+.|.+++| .
T Consensus       263 sL~~L~Ls~N~L~~Lp~lp~~L~~L~Ls~N~-Lt~LP~---~p~~L~~LdLS~N-~L~~Lp~l---p~~L~~L~Ls~N-~  333 (788)
T PRK15387        263 GLLELSIFSNPLTHLPALPSGLCKLWIFGNQ-LTSLPV---LPPGLQELSVSDN-QLASLPAL---PSELCKLWAYNN-Q  333 (788)
T ss_pred             ccceeeccCCchhhhhhchhhcCEEECcCCc-cccccc---cccccceeECCCC-ccccCCCC---cccccccccccC-c
Confidence            6666655        1233457777777664 555553   2467888888774 55566542   235677777764 4


Q ss_pred             cCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccc
Q 039944          160 LEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVS  239 (348)
Q Consensus       160 l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~  239 (348)
                      +..+|.   ..++|+.|++++| .+..+|.   .+++|+.|++.+ +.+..++.       ...+|+.|++++  +.+..
T Consensus       334 L~~LP~---lp~~Lq~LdLS~N-~Ls~LP~---lp~~L~~L~Ls~-N~L~~LP~-------l~~~L~~LdLs~--N~Lt~  396 (788)
T PRK15387        334 LTSLPT---LPSGLQELSVSDN-QLASLPT---LPSELYKLWAYN-NRLTSLPA-------LPSGLKELIVSG--NRLTS  396 (788)
T ss_pred             cccccc---cccccceEecCCC-ccCCCCC---CCcccceehhhc-cccccCcc-------cccccceEEecC--CcccC
Confidence            555553   1246777887765 5666662   245677777766 34444441       234677777776  45666


Q ss_pred             cccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCC-CCCCCcEEEEcCCc
Q 039944          240 FPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKG-LPSSLLELRISRCP  313 (348)
Q Consensus       240 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~-~~~~L~~L~l~~c~  313 (348)
                      +|.          .+++|+.|++++ +.++.+|..   ..+|+.|++++ +.++.+|... -.++|+.|++++|+
T Consensus       397 LP~----------l~s~L~~LdLS~-N~LssIP~l---~~~L~~L~Ls~-NqLt~LP~sl~~L~~L~~LdLs~N~  456 (788)
T PRK15387        397 LPV----------LPSELKELMVSG-NRLTSLPML---PSGLLSLSVYR-NQLTRLPESLIHLSSETTVNLEGNP  456 (788)
T ss_pred             CCC----------cccCCCEEEccC-CcCCCCCcc---hhhhhhhhhcc-CcccccChHHhhccCCCeEECCCCC
Confidence            654          335677777777 456666643   23566777776 4566676531 15677777777775

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

Probab=99.61  E-value=3.5e-18  Score=148.33  Aligned_cols=254  Identities=18%  Similarity=0.164  Sum_probs=149.4

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEe-------------
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEV-------------   94 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i-------------   94 (348)
                      +++|++|+...+- ++.+|..        ++.+.  +|.-|++.. +++.. +|....++.|+++.+             
T Consensus       182 m~~L~~ld~~~N~-L~tlP~~--------lg~l~--~L~~LyL~~-Nki~~-lPef~gcs~L~Elh~g~N~i~~lpae~~  248 (565)
T KOG0472|consen  182 MKRLKHLDCNSNL-LETLPPE--------LGGLE--SLELLYLRR-NKIRF-LPEFPGCSLLKELHVGENQIEMLPAEHL  248 (565)
T ss_pred             HHHHHhcccchhh-hhcCChh--------hcchh--hhHHHHhhh-ccccc-CCCCCccHHHHHHHhcccHHHhhHHHHh
Confidence            4455555555544 5555555        45555  555555554 34444 554444455555554             


Q ss_pred             ccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCccc----------
Q 039944           95 GNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALP----------  164 (348)
Q Consensus        95 ~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~----------  164 (348)
                      ..++. +..|++..+. ++++|..++-+++|++|++++ +.+..+|.+++++ +|+.|.+.|++- +.+.          
T Consensus       249 ~~L~~-l~vLDLRdNk-lke~Pde~clLrsL~rLDlSN-N~is~Lp~sLgnl-hL~~L~leGNPl-rTiRr~ii~~gT~~  323 (565)
T KOG0472|consen  249 KHLNS-LLVLDLRDNK-LKEVPDEICLLRSLERLDLSN-NDISSLPYSLGNL-HLKFLALEGNPL-RTIRREIISKGTQE  323 (565)
T ss_pred             ccccc-ceeeeccccc-cccCchHHHHhhhhhhhcccC-CccccCCcccccc-eeeehhhcCCch-HHHHHHHHcccHHH
Confidence            23565 8888888764 888888888899999999987 6788888888888 888888888641 1110          


Q ss_pred             ----------------------------c----cccCCCCcceeEeccCCCCCcccc-----------------------
Q 039944          165 ----------------------------K----GMHNLTSLQYLRIGKGGALPSLEE-----------------------  189 (348)
Q Consensus       165 ----------------------------~----~l~~l~~L~~L~l~~~~~~~~~~~-----------------------  189 (348)
                                                  +    ......+.+.|++++ ..++.+|.                       
T Consensus       324 vLKyLrs~~~~dglS~se~~~e~~~t~~~~~~~~~~~~i~tkiL~~s~-~qlt~VPdEVfea~~~~~Vt~VnfskNqL~e  402 (565)
T KOG0472|consen  324 VLKYLRSKIKDDGLSQSEGGTETAMTLPSESFPDIYAIITTKILDVSD-KQLTLVPDEVFEAAKSEIVTSVNFSKNQLCE  402 (565)
T ss_pred             HHHHHHHhhccCCCCCCcccccccCCCCCCcccchhhhhhhhhhcccc-cccccCCHHHHHHhhhcceEEEecccchHhh
Confidence                                        0    011223445555443 12233331                       


Q ss_pred             ---cCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccC-
Q 039944          190 ---EDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAF-  265 (348)
Q Consensus       190 ---~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~-  265 (348)
                         .+..+..+.+.-+.+++.+..++    ..+..+++|..|++++  +-+-.+|.+++       ....|+.|+++.+ 
T Consensus       403 lPk~L~~lkelvT~l~lsnn~isfv~----~~l~~l~kLt~L~L~N--N~Ln~LP~e~~-------~lv~Lq~LnlS~Nr  469 (565)
T KOG0472|consen  403 LPKRLVELKELVTDLVLSNNKISFVP----LELSQLQKLTFLDLSN--NLLNDLPEEMG-------SLVRLQTLNLSFNR  469 (565)
T ss_pred             hhhhhHHHHHHHHHHHhhcCccccch----HHHHhhhcceeeeccc--chhhhcchhhh-------hhhhhheecccccc
Confidence               00011112222222324445444    2356667777777776  55666776663       4445666666652 


Q ss_pred             ---------------------CCcccccc-ccccCCCcceEeccCCCCCCCCCC-CCCCCCCcEEEEcCCch
Q 039944          266 ---------------------PNLERLSS-SIVDLQNLTELYLFGCPKLKYFPE-KGLPSSLLELRISRCPL  314 (348)
Q Consensus       266 ---------------------~~l~~i~~-~~~~~~~L~~L~l~~c~~l~~l~~-~~~~~~L~~L~l~~c~~  314 (348)
                                           +.++.++. ++..+.+|..|++.+ +.+..+|. .+...+|++|+++|+|.
T Consensus       470 Fr~lP~~~y~lq~lEtllas~nqi~~vd~~~l~nm~nL~tLDL~n-Ndlq~IPp~LgnmtnL~hLeL~gNpf  540 (565)
T KOG0472|consen  470 FRMLPECLYELQTLETLLASNNQIGSVDPSGLKNMRNLTTLDLQN-NDLQQIPPILGNMTNLRHLELDGNPF  540 (565)
T ss_pred             cccchHHHhhHHHHHHHHhccccccccChHHhhhhhhcceeccCC-CchhhCChhhccccceeEEEecCCcc
Confidence                                 23333333 366677888888877 67888887 34578888888888874

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.58  E-value=2.3e-14  Score=139.12  Aligned_cols=226  Identities=30%  Similarity=0.385  Sum_probs=168.5

Q ss_pred             cccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCC
Q 039944            7 SLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELP   86 (348)
Q Consensus         7 ~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~   86 (348)
                      +|+.|.+.+ ++++.+|..  +++|++|++++|. ++.+|..             +++|+.|++.++ .+.. +|.  .+
T Consensus       223 ~L~~L~L~~-N~Lt~LP~l--p~~Lk~LdLs~N~-LtsLP~l-------------p~sL~~L~Ls~N-~L~~-Lp~--lp  281 (788)
T PRK15387        223 HITTLVIPD-NNLTSLPAL--PPELRTLEVSGNQ-LTSLPVL-------------PPGLLELSIFSN-PLTH-LPA--LP  281 (788)
T ss_pred             CCCEEEccC-CcCCCCCCC--CCCCcEEEecCCc-cCcccCc-------------ccccceeeccCC-chhh-hhh--ch
Confidence            689999987 578888864  7899999999985 8888753             237888888775 3555 554  45


Q ss_pred             CCcceeEe-----c---cCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCC
Q 039944           87 ATLESLEV-----G---NLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCK  158 (348)
Q Consensus        87 ~~L~~L~i-----~---~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~  158 (348)
                      ++|+.|.+     .   ..|.+|+.|++++|. +..+|..   ..+|+.|.+++ +.+..+|..   ..+|+.|++++| 
T Consensus       282 ~~L~~L~Ls~N~Lt~LP~~p~~L~~LdLS~N~-L~~Lp~l---p~~L~~L~Ls~-N~L~~LP~l---p~~Lq~LdLS~N-  352 (788)
T PRK15387        282 SGLCKLWIFGNQLTSLPVLPPGLQELSVSDNQ-LASLPAL---PSELCKLWAYN-NQLTSLPTL---PSGLQELSVSDN-  352 (788)
T ss_pred             hhcCEEECcCCccccccccccccceeECCCCc-cccCCCC---ccccccccccc-Ccccccccc---ccccceEecCCC-
Confidence            66777765     1   123459999999874 6666542   35688889987 466677752   248999999985 


Q ss_pred             CcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCccc
Q 039944          159 RLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMV  238 (348)
Q Consensus       159 ~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~  238 (348)
                      .++.+|..   .++|+.|++++| .+..+|.   .+.+|+.|+++++ .+..++.       ..++|+.|++++  +.+.
T Consensus       353 ~Ls~LP~l---p~~L~~L~Ls~N-~L~~LP~---l~~~L~~LdLs~N-~Lt~LP~-------l~s~L~~LdLS~--N~Ls  415 (788)
T PRK15387        353 QLASLPTL---PSELYKLWAYNN-RLTSLPA---LPSGLKELIVSGN-RLTSLPV-------LPSELKELMVSG--NRLT  415 (788)
T ss_pred             ccCCCCCC---Ccccceehhhcc-ccccCcc---cccccceEEecCC-cccCCCC-------cccCCCEEEccC--CcCC
Confidence            57777753   457888888876 5677773   2468999999985 5665552       246899999998  6788


Q ss_pred             ccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCC
Q 039944          239 SFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCP  290 (348)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~  290 (348)
                      .+|.          .+..|+.|++++ +.++.+|..+.++++|+.|++++|+
T Consensus       416 sIP~----------l~~~L~~L~Ls~-NqLt~LP~sl~~L~~L~~LdLs~N~  456 (788)
T PRK15387        416 SLPM----------LPSGLLSLSVYR-NQLTRLPESLIHLSSETTVNLEGNP  456 (788)
T ss_pred             CCCc----------chhhhhhhhhcc-CcccccChHHhhccCCCeEECCCCC
Confidence            7775          345789999998 6789999999999999999999965

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

Probab=99.55  E-value=1.5e-17  Score=144.36  Aligned_cols=242  Identities=22%  Similarity=0.265  Sum_probs=181.0

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEc
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVY  107 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~  107 (348)
                      ++.|.+|.+.++. +.+.|..        ++.+.  .++.++.+. +++.+ +|...          ++.+. +++++.+
T Consensus        67 L~~l~vl~~~~n~-l~~lp~a--------ig~l~--~l~~l~vs~-n~ls~-lp~~i----------~s~~~-l~~l~~s  122 (565)
T KOG0472|consen   67 LACLTVLNVHDNK-LSQLPAA--------IGELE--ALKSLNVSH-NKLSE-LPEQI----------GSLIS-LVKLDCS  122 (565)
T ss_pred             ccceeEEEeccch-hhhCCHH--------HHHHH--HHHHhhccc-chHhh-ccHHH----------hhhhh-hhhhhcc
Confidence            5556666666665 5555554        45555  566666654 33444 44321          23355 7777777


Q ss_pred             CCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcc
Q 039944          108 GCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSL  187 (348)
Q Consensus       108 ~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~  187 (348)
                      .+. +.++++.++.+..++.++-.+ +.+.++|..+..+.++..+++.+ +.++.+|+..-+++.|++++...+ .++.+
T Consensus       123 ~n~-~~el~~~i~~~~~l~dl~~~~-N~i~slp~~~~~~~~l~~l~~~~-n~l~~l~~~~i~m~~L~~ld~~~N-~L~tl  198 (565)
T KOG0472|consen  123 SNE-LKELPDSIGRLLDLEDLDATN-NQISSLPEDMVNLSKLSKLDLEG-NKLKALPENHIAMKRLKHLDCNSN-LLETL  198 (565)
T ss_pred             ccc-eeecCchHHHHhhhhhhhccc-cccccCchHHHHHHHHHHhhccc-cchhhCCHHHHHHHHHHhcccchh-hhhcC
Confidence            665 556677778888888888776 66778888888888888888888 457777776666899999987764 78889


Q ss_pred             cccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCC
Q 039944          188 EEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPN  267 (348)
Q Consensus       188 ~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~  267 (348)
                      |+.++.+.+|+.|++.. +++...|     .|.++..|.+|+++.  +.++.+|.+.+      ..++++..|++.+ +.
T Consensus       199 P~~lg~l~~L~~LyL~~-Nki~~lP-----ef~gcs~L~Elh~g~--N~i~~lpae~~------~~L~~l~vLDLRd-Nk  263 (565)
T KOG0472|consen  199 PPELGGLESLELLYLRR-NKIRFLP-----EFPGCSLLKELHVGE--NQIEMLPAEHL------KHLNSLLVLDLRD-NK  263 (565)
T ss_pred             ChhhcchhhhHHHHhhh-cccccCC-----CCCccHHHHHHHhcc--cHHHhhHHHHh------cccccceeeeccc-cc
Confidence            98999999999999988 5677776     568888999999997  78888888763      3678899999998 78


Q ss_pred             ccccccccccCCCcceEeccCCCCCCCCCCC-CCCCCCcEEEEcCCch
Q 039944          268 LERLSSSIVDLQNLTELYLFGCPKLKYFPEK-GLPSSLLELRISRCPL  314 (348)
Q Consensus       268 l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~-~~~~~L~~L~l~~c~~  314 (348)
                      ++++|.++--+++|++||+++ +.+..+|.. +.. .|+.|-+.|+|-
T Consensus       264 lke~Pde~clLrsL~rLDlSN-N~is~Lp~sLgnl-hL~~L~leGNPl  309 (565)
T KOG0472|consen  264 LKEVPDEICLLRSLERLDLSN-NDISSLPYSLGNL-HLKFLALEGNPL  309 (565)
T ss_pred             cccCchHHHHhhhhhhhcccC-CccccCCcccccc-eeeehhhcCCch
Confidence            999999988899999999998 688888773 334 788888889883

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

Probab=99.51  E-value=7.7e-16  Score=146.35  Aligned_cols=86  Identities=26%  Similarity=0.313  Sum_probs=51.3

Q ss_pred             cCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccc----------------------cc
Q 039944          219 FHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSS----------------------IV  276 (348)
Q Consensus       219 ~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~----------------------~~  276 (348)
                      +.++.+|+.|++++  +.+..||+..      ...+..|+.|.+++ ++++.+|..                      +.
T Consensus       379 l~~~~hLKVLhLsy--NrL~~fpas~------~~kle~LeeL~LSG-NkL~~Lp~tva~~~~L~tL~ahsN~l~~fPe~~  449 (1081)
T KOG0618|consen  379 LVNFKHLKVLHLSY--NRLNSFPASK------LRKLEELEELNLSG-NKLTTLPDTVANLGRLHTLRAHSNQLLSFPELA  449 (1081)
T ss_pred             hccccceeeeeecc--cccccCCHHH------HhchHHhHHHhccc-chhhhhhHHHHhhhhhHHHhhcCCceeechhhh
Confidence            45667777777776  6666676643      13455566666666 455555553                      44


Q ss_pred             cCCCcceEeccCCCCCCCCCC-CCCC-CCCcEEEEcCCch
Q 039944          277 DLQNLTELYLFGCPKLKYFPE-KGLP-SSLLELRISRCPL  314 (348)
Q Consensus       277 ~~~~L~~L~l~~c~~l~~l~~-~~~~-~~L~~L~l~~c~~  314 (348)
                      .++.|+.+|++. ++++.+-. ...+ ++|++|+++|++.
T Consensus       450 ~l~qL~~lDlS~-N~L~~~~l~~~~p~p~LkyLdlSGN~~  488 (1081)
T KOG0618|consen  450 QLPQLKVLDLSC-NNLSEVTLPEALPSPNLKYLDLSGNTR  488 (1081)
T ss_pred             hcCcceEEeccc-chhhhhhhhhhCCCcccceeeccCCcc
Confidence            455666666664 45544322 2234 7788888877763

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.50  E-value=1.4e-13  Score=134.31  Aligned_cols=244  Identities=20%  Similarity=0.291  Sum_probs=179.9

Q ss_pred             cccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCC
Q 039944            7 SLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELP   86 (348)
Q Consensus         7 ~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~   86 (348)
                      +...|.+++. .++.+|.. .+++|+.|++++|. ++.+|..        +  ..  +|+.|+++++ .++. +|.. + 
T Consensus       179 ~~~~L~L~~~-~LtsLP~~-Ip~~L~~L~Ls~N~-LtsLP~~--------l--~~--nL~~L~Ls~N-~Lts-LP~~-l-  239 (754)
T PRK15370        179 NKTELRLKIL-GLTTIPAC-IPEQITTLILDNNE-LKSLPEN--------L--QG--NIKTLYANSN-QLTS-IPAT-L-  239 (754)
T ss_pred             CceEEEeCCC-CcCcCCcc-cccCCcEEEecCCC-CCcCChh--------h--cc--CCCEEECCCC-cccc-CChh-h-
Confidence            5678888874 67888754 36789999999986 8888875        2  23  8999999875 4665 5542 2 


Q ss_pred             CCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCccccc
Q 039944           87 ATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKG  166 (348)
Q Consensus        87 ~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~  166 (348)
                                 |.+|+.|++++|. +..+|..+  ..+|+.|++++ +.+..+|..+.  ++|+.|++++| .++.+|..
T Consensus       240 -----------~~~L~~L~Ls~N~-L~~LP~~l--~s~L~~L~Ls~-N~L~~LP~~l~--~sL~~L~Ls~N-~Lt~LP~~  301 (754)
T PRK15370        240 -----------PDTIQEMELSINR-ITELPERL--PSALQSLDLFH-NKISCLPENLP--EELRYLSVYDN-SIRTLPAH  301 (754)
T ss_pred             -----------hccccEEECcCCc-cCcCChhH--hCCCCEEECcC-CccCccccccC--CCCcEEECCCC-ccccCccc
Confidence                       3458999999876 55777655  35899999986 56777887654  48999999996 57777764


Q ss_pred             ccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhc
Q 039944          167 MHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKR  246 (348)
Q Consensus       167 l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~  246 (348)
                      +  .++|++|++++| .+..+|.  ..+++|+.|++.+| .+..++.    .+  .++|+.|++++  +.+..+|..   
T Consensus       302 l--p~sL~~L~Ls~N-~Lt~LP~--~l~~sL~~L~Ls~N-~Lt~LP~----~l--~~sL~~L~Ls~--N~L~~LP~~---  364 (754)
T PRK15370        302 L--PSGITHLNVQSN-SLTALPE--TLPPGLKTLEAGEN-ALTSLPA----SL--PPELQVLDVSK--NQITVLPET---  364 (754)
T ss_pred             c--hhhHHHHHhcCC-ccccCCc--cccccceeccccCC-ccccCCh----hh--cCcccEEECCC--CCCCcCChh---
Confidence            4  357899999986 5666663  23578999999886 4555552    12  36899999998  567777763   


Q ss_pred             cCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCC-----CCCCCcEEEEcCCch
Q 039944          247 LGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKG-----LPSSLLELRISRCPL  314 (348)
Q Consensus       247 ~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~-----~~~~L~~L~l~~c~~  314 (348)
                            .++.|+.|++++| .+..+|..+.  +.|+.|++++ +.+..+|...     ..+++..|++.+++.
T Consensus       365 ------lp~~L~~LdLs~N-~Lt~LP~~l~--~sL~~LdLs~-N~L~~LP~sl~~~~~~~~~l~~L~L~~Npl  427 (754)
T PRK15370        365 ------LPPTITTLDVSRN-ALTNLPENLP--AALQIMQASR-NNLVRLPESLPHFRGEGPQPTRIIVEYNPF  427 (754)
T ss_pred             ------hcCCcCEEECCCC-cCCCCCHhHH--HHHHHHhhcc-CCcccCchhHHHHhhcCCCccEEEeeCCCc
Confidence                  3568999999985 6778887654  3799999998 4677777621     147889999999873

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.41  E-value=4.3e-13  Score=130.96  Aligned_cols=224  Identities=23%  Similarity=0.321  Sum_probs=161.3

Q ss_pred             CcccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCC
Q 039944            6 SSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNEL   85 (348)
Q Consensus         6 ~~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~   85 (348)
                      ++|+.|++++ +.++.+|... +++|+.|++++|. ++.+|..        +.  .  +|+.|+++++. +.. +|.. +
T Consensus       199 ~~L~~L~Ls~-N~LtsLP~~l-~~nL~~L~Ls~N~-LtsLP~~--------l~--~--~L~~L~Ls~N~-L~~-LP~~-l  260 (754)
T PRK15370        199 EQITTLILDN-NELKSLPENL-QGNIKTLYANSNQ-LTSIPAT--------LP--D--TIQEMELSINR-ITE-LPER-L  260 (754)
T ss_pred             cCCcEEEecC-CCCCcCChhh-ccCCCEEECCCCc-cccCChh--------hh--c--cccEEECcCCc-cCc-CChh-H
Confidence            3689999997 5788888643 5799999999987 8888865        21  2  79999999864 555 5542 2


Q ss_pred             CCCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccc
Q 039944           86 PATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPK  165 (348)
Q Consensus        86 ~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  165 (348)
                                  +.+|+.|++++| .+..+|..+  .++|+.|++++| .+..+|..+.  ++|+.|++++| .+..+|.
T Consensus       261 ------------~s~L~~L~Ls~N-~L~~LP~~l--~~sL~~L~Ls~N-~Lt~LP~~lp--~sL~~L~Ls~N-~Lt~LP~  321 (754)
T PRK15370        261 ------------PSALQSLDLFHN-KISCLPENL--PEELRYLSVYDN-SIRTLPAHLP--SGITHLNVQSN-SLTALPE  321 (754)
T ss_pred             ------------hCCCCEEECcCC-ccCcccccc--CCCCcEEECCCC-ccccCcccch--hhHHHHHhcCC-ccccCCc
Confidence                        345888888865 466677654  358999999884 6667776543  47889999885 4666765


Q ss_pred             cccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchh
Q 039944          166 GMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDK  245 (348)
Q Consensus       166 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~  245 (348)
                      .+  .++|+.|++++| .+..+|..  .+++|+.|++++| .+..++.    .+  .++|+.|++++  +.+..+|... 
T Consensus       322 ~l--~~sL~~L~Ls~N-~Lt~LP~~--l~~sL~~L~Ls~N-~L~~LP~----~l--p~~L~~LdLs~--N~Lt~LP~~l-  386 (754)
T PRK15370        322 TL--PPGLKTLEAGEN-ALTSLPAS--LPPELQVLDVSKN-QITVLPE----TL--PPTITTLDVSR--NALTNLPENL-  386 (754)
T ss_pred             cc--cccceeccccCC-ccccCChh--hcCcccEEECCCC-CCCcCCh----hh--cCCcCEEECCC--CcCCCCCHhH-
Confidence            44  468999999887 56667733  3479999999986 4555542    12  36899999998  5677787744 


Q ss_pred             ccCCCCCCCCCccEEEeccCCCcccccccc----ccCCCcceEeccCCC
Q 039944          246 RLGTALPLPASLTSLWIEAFPNLERLSSSI----VDLQNLTELYLFGCP  290 (348)
Q Consensus       246 ~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~----~~~~~L~~L~l~~c~  290 (348)
                              +..|+.|++++ +.+..+|..+    ..++.+..+++.+++
T Consensus       387 --------~~sL~~LdLs~-N~L~~LP~sl~~~~~~~~~l~~L~L~~Np  426 (754)
T PRK15370        387 --------PAALQIMQASR-NNLVRLPESLPHFRGEGPQPTRIIVEYNP  426 (754)
T ss_pred             --------HHHHHHHhhcc-CCcccCchhHHHHhhcCCCccEEEeeCCC
Confidence                    34688999988 5677777644    335778899998865

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

Probab=99.38  E-value=8.5e-15  Score=113.48  Aligned_cols=161  Identities=25%  Similarity=0.329  Sum_probs=109.0

Q ss_pred             hcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcC
Q 039944          119 LDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQ  198 (348)
Q Consensus       119 ~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~  198 (348)
                      +..+.+++.|.++. +.+..+|+.+..+.+|+.|++++ +.++++|..++.+++|++|+++-+ .+..+|+.+|.+|-|+
T Consensus        29 Lf~~s~ITrLtLSH-NKl~~vppnia~l~nlevln~~n-nqie~lp~~issl~klr~lnvgmn-rl~~lprgfgs~p~le  105 (264)
T KOG0617|consen   29 LFNMSNITRLTLSH-NKLTVVPPNIAELKNLEVLNLSN-NQIEELPTSISSLPKLRILNVGMN-RLNILPRGFGSFPALE  105 (264)
T ss_pred             ccchhhhhhhhccc-CceeecCCcHHHhhhhhhhhccc-chhhhcChhhhhchhhhheecchh-hhhcCccccCCCchhh
Confidence            44566677777776 56666777777777777777776 457777777777777777777643 5666777777777777


Q ss_pred             eeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccC
Q 039944          199 SLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDL  278 (348)
Q Consensus       199 ~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~  278 (348)
                      .|++..++--+....   ..|..+..|+.|.+++  +.++.+|.+.|       .+++||.|.+.. +.+-++|..++.+
T Consensus       106 vldltynnl~e~~lp---gnff~m~tlralyl~d--ndfe~lp~dvg-------~lt~lqil~lrd-ndll~lpkeig~l  172 (264)
T KOG0617|consen  106 VLDLTYNNLNENSLP---GNFFYMTTLRALYLGD--NDFEILPPDVG-------KLTNLQILSLRD-NDLLSLPKEIGDL  172 (264)
T ss_pred             hhhccccccccccCC---cchhHHHHHHHHHhcC--CCcccCChhhh-------hhcceeEEeecc-CchhhCcHHHHHH
Confidence            777776443222221   2345566777777777  67777777773       667777777777 5666777777777


Q ss_pred             CCcceEeccCCCCCCCCC
Q 039944          279 QNLTELYLFGCPKLKYFP  296 (348)
Q Consensus       279 ~~L~~L~l~~c~~l~~l~  296 (348)
                      +.|++|.+.+ +.++-+|
T Consensus       173 t~lrelhiqg-nrl~vlp  189 (264)
T KOG0617|consen  173 TRLRELHIQG-NRLTVLP  189 (264)
T ss_pred             HHHHHHhccc-ceeeecC
Confidence            8888888877 3455443

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

Probab=99.33  E-value=2.2e-14  Score=124.68  Aligned_cols=86  Identities=24%  Similarity=0.350  Sum_probs=59.4

Q ss_pred             ccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccccc-ccccCCCcceEeccCCCCCCCCC
Q 039944          218 GFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGCPKLKYFP  296 (348)
Q Consensus       218 ~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c~~l~~l~  296 (348)
                      .|.++++|+.|++++  +.++.+.+.      +|.....+++|.+.. +.+..+.. .+.++..|+.|++++ ++++-+.
T Consensus       269 cf~~L~~L~~lnlsn--N~i~~i~~~------aFe~~a~l~eL~L~~-N~l~~v~~~~f~~ls~L~tL~L~~-N~it~~~  338 (498)
T KOG4237|consen  269 CFKKLPNLRKLNLSN--NKITRIEDG------AFEGAAELQELYLTR-NKLEFVSSGMFQGLSGLKTLSLYD-NQITTVA  338 (498)
T ss_pred             HHhhcccceEeccCC--Cccchhhhh------hhcchhhhhhhhcCc-chHHHHHHHhhhccccceeeeecC-CeeEEEe
Confidence            467788888888887  666666553      245667788888877 56766655 567788888888888 4666655


Q ss_pred             CCCC--CCCCcEEEEcCCc
Q 039944          297 EKGL--PSSLLELRISRCP  313 (348)
Q Consensus       297 ~~~~--~~~L~~L~l~~c~  313 (348)
                      ...+  ..+|.+|.+-.+|
T Consensus       339 ~~aF~~~~~l~~l~l~~Np  357 (498)
T KOG4237|consen  339 PGAFQTLFSLSTLNLLSNP  357 (498)
T ss_pred             cccccccceeeeeehccCc
Confidence            5333  5677777777665

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

Probab=99.26  E-value=1.3e-13  Score=106.97  Aligned_cols=160  Identities=21%  Similarity=0.272  Sum_probs=134.2

Q ss_pred             ccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEecc
Q 039944          101 LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGK  180 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~  180 (348)
                      +++|.++.+ +++.+|..+..+.+|+.|++++ +.++++|..++.+++|+.|++.- +.+..+|.+++.+|.|+.|++.+
T Consensus        35 ITrLtLSHN-Kl~~vppnia~l~nlevln~~n-nqie~lp~~issl~klr~lnvgm-nrl~~lprgfgs~p~levldlty  111 (264)
T KOG0617|consen   35 ITRLTLSHN-KLTVVPPNIAELKNLEVLNLSN-NQIEELPTSISSLPKLRILNVGM-NRLNILPRGFGSFPALEVLDLTY  111 (264)
T ss_pred             hhhhhcccC-ceeecCCcHHHhhhhhhhhccc-chhhhcChhhhhchhhhheecch-hhhhcCccccCCCchhhhhhccc
Confidence            778888865 4778888899999999999987 78999999999999999999976 56788899999999999999997


Q ss_pred             CCCC-CcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccE
Q 039944          181 GGAL-PSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTS  259 (348)
Q Consensus       181 ~~~~-~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~  259 (348)
                      ++.- ..+|-.+..+..|+.|.++.+ ..+..+.    ....+++|+.|.+.+  +.+-.+|.+.|       .+.+|++
T Consensus       112 nnl~e~~lpgnff~m~tlralyl~dn-dfe~lp~----dvg~lt~lqil~lrd--ndll~lpkeig-------~lt~lre  177 (264)
T KOG0617|consen  112 NNLNENSLPGNFFYMTTLRALYLGDN-DFEILPP----DVGKLTNLQILSLRD--NDLLSLPKEIG-------DLTRLRE  177 (264)
T ss_pred             cccccccCCcchhHHHHHHHHHhcCC-CcccCCh----hhhhhcceeEEeecc--CchhhCcHHHH-------HHHHHHH
Confidence            6433 356766777889999999984 4677774    478899999999998  78889999884       6788999


Q ss_pred             EEeccCCCccccccccccC
Q 039944          260 LWIEAFPNLERLSSSIVDL  278 (348)
Q Consensus       260 L~l~~~~~l~~i~~~~~~~  278 (348)
                      |++.+ ++++.+|+.++++
T Consensus       178 lhiqg-nrl~vlppel~~l  195 (264)
T KOG0617|consen  178 LHIQG-NRLTVLPPELANL  195 (264)
T ss_pred             Hhccc-ceeeecChhhhhh
Confidence            99999 7899898766654

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

Probab=99.21  E-value=4.2e-13  Score=128.06  Aligned_cols=192  Identities=19%  Similarity=0.202  Sum_probs=98.5

Q ss_pred             CcccEEeecCcccccccCCCCC-CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCC
Q 039944            6 SSLEILDIEKCHSLTYIAAVQL-PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNE   84 (348)
Q Consensus         6 ~~L~~L~l~~~~~l~~l~~~~~-~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~   84 (348)
                      .+|++++++. +++..+|.+.. +.+|+.++..++. +..+|..        +-...  +|+.+.+..+ .+.. +|.. 
T Consensus       241 ~nl~~~dis~-n~l~~lp~wi~~~~nle~l~~n~N~-l~~lp~r--------i~~~~--~L~~l~~~~n-el~y-ip~~-  305 (1081)
T KOG0618|consen  241 LNLQYLDISH-NNLSNLPEWIGACANLEALNANHNR-LVALPLR--------ISRIT--SLVSLSAAYN-ELEY-IPPF-  305 (1081)
T ss_pred             ccceeeecch-hhhhcchHHHHhcccceEecccchh-HHhhHHH--------Hhhhh--hHHHHHhhhh-hhhh-CCCc-
Confidence            3788888886 57777885433 8899999998887 6777766        34445  6777777764 3554 4432 


Q ss_pred             CCCCcceeEeccCCCCccEEEEcCCCCcccchhhhcC--------------------------CCccceecccccccccc
Q 039944           85 LPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDN--------------------------NTSLETISIDSCGNLVS  138 (348)
Q Consensus        85 ~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~--------------------------l~~L~~L~l~~~~~l~~  138 (348)
                          ++.+     .. |+.|++..+. +..+|+.+..                          ++.|+.|.+.+|..-..
T Consensus       306 ----le~~-----~s-L~tLdL~~N~-L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~  374 (1081)
T KOG0618|consen  306 ----LEGL-----KS-LRTLDLQSNN-LPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDS  374 (1081)
T ss_pred             ----cccc-----ce-eeeeeehhcc-ccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCccccc
Confidence                1111     23 6666665543 4443332111                          22333333333222222


Q ss_pred             cCCCCCCCCCccEEEEecCCCcCcccc-cccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhcccc
Q 039944          139 FPEGGLPCAKLTRLTILDCKRLEALPK-GMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGR  217 (348)
Q Consensus       139 ~~~~~~~~~~L~~L~l~~~~~l~~~~~-~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~  217 (348)
                      ..+.+..+++|+.|++++| .+.++|. .+.++..|++|+++|| +++.+|..+..++.|++|...+ +.+...|     
T Consensus       375 c~p~l~~~~hLKVLhLsyN-rL~~fpas~~~kle~LeeL~LSGN-kL~~Lp~tva~~~~L~tL~ahs-N~l~~fP-----  446 (1081)
T KOG0618|consen  375 CFPVLVNFKHLKVLHLSYN-RLNSFPASKLRKLEELEELNLSGN-KLTTLPDTVANLGRLHTLRAHS-NQLLSFP-----  446 (1081)
T ss_pred             chhhhccccceeeeeeccc-ccccCCHHHHhchHHhHHHhcccc-hhhhhhHHHHhhhhhHHHhhcC-Cceeech-----
Confidence            2222223345555555552 3444443 2344555555555554 4455554455555555554444 3344443     


Q ss_pred             ccCCCCCccEEEec
Q 039944          218 GFHRFSSLRRLTIS  231 (348)
Q Consensus       218 ~~~~l~~L~~L~l~  231 (348)
                      .+..+++|+.+|++
T Consensus       447 e~~~l~qL~~lDlS  460 (1081)
T KOG0618|consen  447 ELAQLPQLKVLDLS  460 (1081)
T ss_pred             hhhhcCcceEEecc
Confidence            23444555555555

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

Probab=99.16  E-value=5.3e-13  Score=116.98  Aligned_cols=283  Identities=19%  Similarity=0.225  Sum_probs=150.0

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEc
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVY  107 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~  107 (348)
                      +++++.|.+.+|..+++..-.      +.-+.+.  +|+.+++..|..+++ ..       |+++ ..++|+ |+.|+++
T Consensus       163 CpnIehL~l~gc~~iTd~s~~------sla~~C~--~l~~l~L~~c~~iT~-~~-------Lk~l-a~gC~k-L~~lNlS  224 (483)
T KOG4341|consen  163 CPNIEHLALYGCKKITDSSLL------SLARYCR--KLRHLNLHSCSSITD-VS-------LKYL-AEGCRK-LKYLNLS  224 (483)
T ss_pred             CCchhhhhhhcceeccHHHHH------HHHHhcc--hhhhhhhcccchhHH-HH-------HHHH-HHhhhh-HHHhhhc
Confidence            555555555555544432211      1123333  555555555554443 11       1110 123444 5555555


Q ss_pred             CCCCccc--chhhhcCCCccceeccccccccc--ccCCCCCCCCCccEEEEecCCCcCcccc--cccCCCCcceeEeccC
Q 039944          108 GCSKLGS--IAERLDNNTSLETISIDSCGNLV--SFPEGGLPCAKLTRLTILDCKRLEALPK--GMHNLTSLQYLRIGKG  181 (348)
Q Consensus       108 ~~~~~~~--~~~~~~~l~~L~~L~l~~~~~l~--~~~~~~~~~~~L~~L~l~~~~~l~~~~~--~l~~l~~L~~L~l~~~  181 (348)
                      +|..++.  +-....+...++.+...+|....  .+-.....+.-+..+++..|..+++.--  .-..+..|+.|..++|
T Consensus       225 wc~qi~~~gv~~~~rG~~~l~~~~~kGC~e~~le~l~~~~~~~~~i~~lnl~~c~~lTD~~~~~i~~~c~~lq~l~~s~~  304 (483)
T KOG4341|consen  225 WCPQISGNGVQALQRGCKELEKLSLKGCLELELEALLKAAAYCLEILKLNLQHCNQLTDEDLWLIACGCHALQVLCYSSC  304 (483)
T ss_pred             cCchhhcCcchHHhccchhhhhhhhcccccccHHHHHHHhccChHhhccchhhhccccchHHHHHhhhhhHhhhhcccCC
Confidence            5554433  11222334444444444442211  1111111233455555556655544311  1144677888888877


Q ss_pred             CCCCccc--ccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccE
Q 039944          182 GALPSLE--EEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTS  259 (348)
Q Consensus       182 ~~~~~~~--~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~  259 (348)
                      ....+.+  +.....++|+.+-+.+|..+.+....  ..-.+.+.|+.+++.+ |....+-.  .   ...-..++.|+.
T Consensus       305 t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft--~l~rn~~~Le~l~~e~-~~~~~d~t--L---~sls~~C~~lr~  376 (483)
T KOG4341|consen  305 TDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFT--MLGRNCPHLERLDLEE-CGLITDGT--L---ASLSRNCPRLRV  376 (483)
T ss_pred             CCCchHHHHHHhcCCCceEEEeccccchhhhhhhh--hhhcCChhhhhhcccc-cceehhhh--H---hhhccCCchhcc
Confidence            6655443  12356788888888888776654421  1224557888888887 65433221  1   001136778999


Q ss_pred             EEeccCCCcccc-----ccccccCCCcceEeccCCCCCCCCCCC--CCCCCCcEEEEcCCchhHHHhhccCCccccCCCC
Q 039944          260 LWIEAFPNLERL-----SSSIVDLQNLTELYLFGCPKLKYFPEK--GLPSSLLELRISRCPLIAEKCRKDGGQYWDLLTH  332 (348)
Q Consensus       260 L~l~~~~~l~~i-----~~~~~~~~~L~~L~l~~c~~l~~l~~~--~~~~~L~~L~l~~c~~l~~~~~~~~~~~~~~i~~  332 (348)
                      +.++.|..++.-     ...-.....|+.+.+++||.+++-..+  ...+.|+.+++.+|...++...+.      ..+|
T Consensus       377 lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~Le~l~~c~~Leri~l~~~q~vtk~~i~~------~~~~  450 (483)
T KOG4341|consen  377 LSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDATLEHLSICRNLERIELIDCQDVTKEAISR------FATH  450 (483)
T ss_pred             CChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHHHHHHHhhCcccceeeeechhhhhhhhhHH------HHhh
Confidence            999988777643     223344567889999999988763222  237899999999998776532221      2356


Q ss_pred             cCEEEeccee
Q 039944          333 IPRVEIDWKS  342 (348)
Q Consensus       333 ~~~~~~~~~~  342 (348)
                      +|++++...+
T Consensus       451 lp~i~v~a~~  460 (483)
T KOG4341|consen  451 LPNIKVHAYF  460 (483)
T ss_pred             Cccceehhhc
Confidence            7776665543

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

Probab=99.03  E-value=1.4e-11  Score=110.40  Aligned_cols=132  Identities=19%  Similarity=0.144  Sum_probs=58.7

Q ss_pred             CCCccEEEEcCCCCcccchhhhcCCC---ccceeccccccccc----ccCCCCCCC-CCccEEEEecCCCcC----cccc
Q 039944           98 PLSLKSLFVYGCSKLGSIAERLDNNT---SLETISIDSCGNLV----SFPEGGLPC-AKLTRLTILDCKRLE----ALPK  165 (348)
Q Consensus        98 ~~~L~~L~l~~~~~~~~~~~~~~~l~---~L~~L~l~~~~~l~----~~~~~~~~~-~~L~~L~l~~~~~l~----~~~~  165 (348)
                      ++ |+.|++++|......+..+..+.   +|++|++++|....    .+...+..+ ++|+.|++.+|....    .++.
T Consensus        81 ~~-L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~  159 (319)
T cd00116          81 CG-LQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAK  159 (319)
T ss_pred             Cc-eeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHH
Confidence            44 77777766654433333333333   36777766643220    111122223 566666666654221    1222


Q ss_pred             cccCCCCcceeEeccCCCCC-----cccccCCCCCCcCeeeecCCccchhhhhc-cccccCCCCCccEEEecc
Q 039944          166 GMHNLTSLQYLRIGKGGALP-----SLEEEDGLPTNLQSLDIWGNMEIWKSMIE-RGRGFHRFSSLRRLTISR  232 (348)
Q Consensus       166 ~l~~l~~L~~L~l~~~~~~~-----~~~~~~~~~~~L~~L~l~~~~~l~~~~~~-~~~~~~~l~~L~~L~l~~  232 (348)
                      .+..+++|++|++++|. +.     .++..+...++|+.|++++|. +...... ....+..+++|++|++++
T Consensus       160 ~~~~~~~L~~L~l~~n~-l~~~~~~~l~~~l~~~~~L~~L~L~~n~-i~~~~~~~l~~~~~~~~~L~~L~ls~  230 (319)
T cd00116         160 ALRANRDLKELNLANNG-IGDAGIRALAEGLKANCNLEVLDLNNNG-LTDEGASALAETLASLKSLEVLNLGD  230 (319)
T ss_pred             HHHhCCCcCEEECcCCC-CchHHHHHHHHHHHhCCCCCEEeccCCc-cChHHHHHHHHHhcccCCCCEEecCC
Confidence            33445566666666542 22     111122333466666666542 2111000 001234455666666665

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

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

Probab=99.02  E-value=1.9e-11  Score=109.61  Aligned_cols=208  Identities=19%  Similarity=0.143  Sum_probs=123.3

Q ss_pred             ccEEEEcCCCCc------ccchhhhcCCCccceecccccccccccCCCCCCC---CCccEEEEecCCCcC----cccccc
Q 039944          101 LKSLFVYGCSKL------GSIAERLDNNTSLETISIDSCGNLVSFPEGGLPC---AKLTRLTILDCKRLE----ALPKGM  167 (348)
Q Consensus       101 L~~L~l~~~~~~------~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~---~~L~~L~l~~~~~l~----~~~~~l  167 (348)
                      ++++.++++...      ..++..+..+++|+.|++++|......+..+..+   ++|++|++++|....    .+...+
T Consensus        53 l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l  132 (319)
T cd00116          53 LKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGL  132 (319)
T ss_pred             ceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCccchHHHHHHHHHH
Confidence            666666554422      2334566778999999999865433222222222   459999999976331    222344


Q ss_pred             cCC-CCcceeEeccCCCCC-----cccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccc
Q 039944          168 HNL-TSLQYLRIGKGGALP-----SLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFP  241 (348)
Q Consensus       168 ~~l-~~L~~L~l~~~~~~~-----~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~  241 (348)
                      ..+ ++|++|++++|. +.     .+...+..+++|++|++.++.--..........+..+++|+.|++++ | .+....
T Consensus       133 ~~~~~~L~~L~L~~n~-l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~-n-~i~~~~  209 (319)
T cd00116         133 KDLPPALEKLVLGRNR-LEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNN-N-GLTDEG  209 (319)
T ss_pred             HhCCCCceEEEcCCCc-CCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccC-C-ccChHH
Confidence            556 899999999884 33     23334456678999999986432111100001244567999999998 5 333211


Q ss_pred             cchhccCCCCCCCCCccEEEeccCCCcccc--c---ccc-ccCCCcceEeccCCCCCCC-----CCC-CCCCCCCcEEEE
Q 039944          242 LEDKRLGTALPLPASLTSLWIEAFPNLERL--S---SSI-VDLQNLTELYLFGCPKLKY-----FPE-KGLPSSLLELRI  309 (348)
Q Consensus       242 ~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i--~---~~~-~~~~~L~~L~l~~c~~l~~-----l~~-~~~~~~L~~L~l  309 (348)
                      .  +.+...+..+++|++|++++| .++..  .   ..+ ...+.|+.|++.+|. +++     +.. ....++|+++++
T Consensus       210 ~--~~l~~~~~~~~~L~~L~ls~n-~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~-i~~~~~~~l~~~~~~~~~L~~l~l  285 (319)
T cd00116         210 A--SALAETLASLKSLEVLNLGDN-NLTDAGAAALASALLSPNISLLTLSLSCND-ITDDGAKDLAEVLAEKESLLELDL  285 (319)
T ss_pred             H--HHHHHHhcccCCCCEEecCCC-cCchHHHHHHHHHHhccCCCceEEEccCCC-CCcHHHHHHHHHHhcCCCccEEEC
Confidence            1  111122246788999999996 44421  1   111 124799999999974 431     111 001378999999


Q ss_pred             cCCchh
Q 039944          310 SRCPLI  315 (348)
Q Consensus       310 ~~c~~l  315 (348)
                      +++..-
T Consensus       286 ~~N~l~  291 (319)
T cd00116         286 RGNKFG  291 (319)
T ss_pred             CCCCCc
Confidence            998643

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).

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.99  E-value=3.6e-10  Score=112.44  Aligned_cols=62  Identities=19%  Similarity=0.147  Sum_probs=33.7

Q ss_pred             CCCCCcccEEeecCcccccccCCCC-CCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCC
Q 039944            2 CDTNSSLEILDIEKCHSLTYIAAVQ-LPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCP   74 (348)
Q Consensus         2 ~~~~~~L~~L~l~~~~~l~~l~~~~-~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~   74 (348)
                      |..+|.|+.|++++|..+.++|... -+-+||.|+++++. ++.+|.+        +++++  .|.+|++....
T Consensus       567 f~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~-I~~LP~~--------l~~Lk--~L~~Lnl~~~~  629 (889)
T KOG4658|consen  567 FRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTG-ISHLPSG--------LGNLK--KLIYLNLEVTG  629 (889)
T ss_pred             HhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCC-ccccchH--------HHHHH--hhheecccccc
Confidence            4455555555555555555555442 25555555555554 5555555        45555  55555555443

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.92  E-value=5.9e-10  Score=110.92  Aligned_cols=206  Identities=21%  Similarity=0.224  Sum_probs=111.0

Q ss_pred             CCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeE
Q 039944           98 PLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLR  177 (348)
Q Consensus        98 ~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~  177 (348)
                      |. |+.|++++|..+..+|..++.+-+|++|+++. ..+..+|.++.++..|.+|++..+..+..+|.....+++|++|.
T Consensus       571 ~~-LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~-t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~  648 (889)
T KOG4658|consen  571 PL-LRVLDLSGNSSLSKLPSSIGELVHLRYLDLSD-TGISHLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLR  648 (889)
T ss_pred             cc-eEEEECCCCCccCcCChHHhhhhhhhcccccC-CCccccchHHHHHHhhheeccccccccccccchhhhcccccEEE
Confidence            55 66666666666666666666666666666666 45666666666666666666666555555543334466666666


Q ss_pred             eccCCCCCc--ccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEeccc--CCcccccccchhccCCCCCC
Q 039944          178 IGKGGALPS--LEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRC--DEDMVSFPLEDKRLGTALPL  253 (348)
Q Consensus       178 l~~~~~~~~--~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~--c~~l~~~~~~~~~~~~~~~~  253 (348)
                      +.......+  .-..+..+.+|+.+.......  ...    ..+..+..|.....+-.  +..........       ..
T Consensus       649 l~~s~~~~~~~~l~el~~Le~L~~ls~~~~s~--~~~----e~l~~~~~L~~~~~~l~~~~~~~~~~~~~~-------~~  715 (889)
T KOG4658|consen  649 LPRSALSNDKLLLKELENLEHLENLSITISSV--LLL----EDLLGMTRLRSLLQSLSIEGCSKRTLISSL-------GS  715 (889)
T ss_pred             eeccccccchhhHHhhhcccchhhheeecchh--HhH----hhhhhhHHHHHHhHhhhhcccccceeeccc-------cc
Confidence            654320000  001223344444444433221  000    01122222322111110  01112222222       36


Q ss_pred             CCCccEEEeccCCCccccccc-----ccc-CCCcceEeccCCCCCCCCCCCCCCCCCcEEEEcCCchhHHH
Q 039944          254 PASLTSLWIEAFPNLERLSSS-----IVD-LQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEK  318 (348)
Q Consensus       254 ~~~L~~L~l~~~~~l~~i~~~-----~~~-~~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~c~~l~~~  318 (348)
                      +..|+.|.+.+|........+     ... ++++..+.+.+|...+.+....++++|+.|++.+|+.++..
T Consensus       716 l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~~~~~~r~l~~~~f~~~L~~l~l~~~~~~e~~  786 (889)
T KOG4658|consen  716 LGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSILNCHMLRDLTWLLFAPHLTSLSLVSCRLLEDI  786 (889)
T ss_pred             ccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhhccccccccchhhccCcccEEEEecccccccC
Confidence            778899999888654322111     122 55777888888888887766556899999999998876654

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

Probab=98.90  E-value=2.7e-11  Score=105.77  Aligned_cols=283  Identities=16%  Similarity=0.217  Sum_probs=146.3

Q ss_pred             cccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccC
Q 039944           18 SLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNL   97 (348)
Q Consensus        18 ~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l   97 (348)
                      +++++|.. .++.-..++|+.+. ++.+|.+       .|+.+.  +||.|+++. +.+.+ +..+.+         .++
T Consensus        57 GL~eVP~~-LP~~tveirLdqN~-I~~iP~~-------aF~~l~--~LRrLdLS~-N~Is~-I~p~AF---------~GL  114 (498)
T KOG4237|consen   57 GLTEVPAN-LPPETVEIRLDQNQ-ISSIPPG-------AFKTLH--RLRRLDLSK-NNISF-IAPDAF---------KGL  114 (498)
T ss_pred             CcccCccc-CCCcceEEEeccCC-cccCChh-------hccchh--hhceecccc-cchhh-cChHhh---------hhh
Confidence            34444432 24556667777665 6777776       566666  777777765 34555 444433         223


Q ss_pred             CCCccEEEEcCCCCcccch-hhhcCCCccceecccccccccccCC-CCCCCCCccEEEEecCCCcCcccc-cccCCCCcc
Q 039944           98 PLSLKSLFVYGCSKLGSIA-ERLDNNTSLETISIDSCGNLVSFPE-GGLPCAKLTRLTILDCKRLEALPK-GMHNLTSLQ  174 (348)
Q Consensus        98 ~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~l~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~-~l~~l~~L~  174 (348)
                      +. +..|.+.+++++++++ ..+..+.+++.|.+..+ .+.-++. .+..++++..|.++++ .++.++. .+..+..++
T Consensus       115 ~~-l~~Lvlyg~NkI~~l~k~~F~gL~slqrLllNan-~i~Cir~~al~dL~~l~lLslyDn-~~q~i~~~tf~~l~~i~  191 (498)
T KOG4237|consen  115 AS-LLSLVLYGNNKITDLPKGAFGGLSSLQRLLLNAN-HINCIRQDALRDLPSLSLLSLYDN-KIQSICKGTFQGLAAIK  191 (498)
T ss_pred             Hh-hhHHHhhcCCchhhhhhhHhhhHHHHHHHhcChh-hhcchhHHHHHHhhhcchhcccch-hhhhhccccccchhccc
Confidence            44 5555566655566665 44555666666666442 2222221 2334556666777663 4555554 445566666


Q ss_pred             eeEeccCCCCC--cccccC-----------CCCCCcCeeeecCCccchhhhhccccccCCCCCccEE--EecccCCcccc
Q 039944          175 YLRIGKGGALP--SLEEED-----------GLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRL--TISRCDEDMVS  239 (348)
Q Consensus       175 ~L~l~~~~~~~--~~~~~~-----------~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L--~l~~~c~~l~~  239 (348)
                      ++.+-.++...  .+| +.           +......-..+.. .++..+...  ....   .++.+  .++..|.-...
T Consensus       192 tlhlA~np~icdCnL~-wla~~~a~~~ietsgarc~~p~rl~~-~Ri~q~~a~--kf~c---~~esl~s~~~~~d~~d~~  264 (498)
T KOG4237|consen  192 TLHLAQNPFICDCNLP-WLADDLAMNPIETSGARCVSPYRLYY-KRINQEDAR--KFLC---SLESLPSRLSSEDFPDSI  264 (498)
T ss_pred             hHhhhcCccccccccc-hhhhHHhhchhhcccceecchHHHHH-HHhcccchh--hhhh---hHHhHHHhhccccCcCCc
Confidence            66554433211  111 00           0000000000111 011111100  0000   11111  11111222222


Q ss_pred             cccchhccCCCCCCCCCccEEEeccCCCcccccc-ccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEEEcCCchhH
Q 039944          240 FPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELRISRCPLIA  316 (348)
Q Consensus       240 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~l~~c~~l~  316 (348)
                      .|..      .+..+++|+.|++++ +.++.|.. +|.....++.|.+.. ++++.+....+  ...|+.|++.++..-.
T Consensus       265 cP~~------cf~~L~~L~~lnlsn-N~i~~i~~~aFe~~a~l~eL~L~~-N~l~~v~~~~f~~ls~L~tL~L~~N~it~  336 (498)
T KOG4237|consen  265 CPAK------CFKKLPNLRKLNLSN-NKITRIEDGAFEGAAELQELYLTR-NKLEFVSSGMFQGLSGLKTLSLYDNQITT  336 (498)
T ss_pred             ChHH------HHhhcccceEeccCC-CccchhhhhhhcchhhhhhhhcCc-chHHHHHHHhhhccccceeeeecCCeeEE
Confidence            2221      235688999999998 67776655 889999999999998 68888776433  6899999999875211


Q ss_pred             HHhhccCCccccCCCCcCEEEecceeecc
Q 039944          317 EKCRKDGGQYWDLLTHIPRVEIDWKSVFG  345 (348)
Q Consensus       317 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~~  345 (348)
                           ...-.+.+...+.++..-++.+-+
T Consensus       337 -----~~~~aF~~~~~l~~l~l~~Np~~C  360 (498)
T KOG4237|consen  337 -----VAPGAFQTLFSLSTLNLLSNPFNC  360 (498)
T ss_pred             -----EecccccccceeeeeehccCcccC
Confidence                 111123455666666665555444

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

Probab=98.87  E-value=3.7e-11  Score=105.63  Aligned_cols=272  Identities=16%  Similarity=0.200  Sum_probs=170.3

Q ss_pred             CCCCcccEEeecCcccccccCCC---CCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCcccc
Q 039944            3 DTNSSLEILDIEKCHSLTYIAAV---QLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCI   79 (348)
Q Consensus         3 ~~~~~L~~L~l~~~~~l~~l~~~---~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~   79 (348)
                      ..+|+++.|.+.+|..+++-...   .++.+|+.|.+..|..+++..-.+      ..+.++  +|+++++++|+.+.+ 
T Consensus       161 ~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~------la~gC~--kL~~lNlSwc~qi~~-  231 (483)
T KOG4341|consen  161 SNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKY------LAEGCR--KLKYLNLSWCPQISG-  231 (483)
T ss_pred             hhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHH------HHHhhh--hHHHhhhccCchhhc-
Confidence            46899999999999877643322   238999999999999887754321      224455  999999999986654 


Q ss_pred             ccCCCCCCCcceeEeccCCCCccEEEEcCCCCccc--chhhhcCCCccceecccccccccccC--CCCCCCCCccEEEEe
Q 039944           80 FSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGS--IAERLDNNTSLETISIDSCGNLVSFP--EGGLPCAKLTRLTIL  155 (348)
Q Consensus        80 ~~~~~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~--~~~~~~~l~~L~~L~l~~~~~l~~~~--~~~~~~~~L~~L~l~  155 (348)
                      -....+.        .++.. ++.+...+|...+.  +...-..++-+..+++..|+.+.+..  .....+..|+.+..+
T Consensus       232 ~gv~~~~--------rG~~~-l~~~~~kGC~e~~le~l~~~~~~~~~i~~lnl~~c~~lTD~~~~~i~~~c~~lq~l~~s  302 (483)
T KOG4341|consen  232 NGVQALQ--------RGCKE-LEKLSLKGCLELELEALLKAAAYCLEILKLNLQHCNQLTDEDLWLIACGCHALQVLCYS  302 (483)
T ss_pred             CcchHHh--------ccchh-hhhhhhcccccccHHHHHHHhccChHhhccchhhhccccchHHHHHhhhhhHhhhhccc
Confidence            1111111        11122 55555556664432  22222345556666766765554332  122335678888888


Q ss_pred             cCCCcCcccc-cc-cCCCCcceeEeccCCCCCccc--ccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEec
Q 039944          156 DCKRLEALPK-GM-HNLTSLQYLRIGKGGALPSLE--EEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTIS  231 (348)
Q Consensus       156 ~~~~l~~~~~-~l-~~l~~L~~L~l~~~~~~~~~~--~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~  231 (348)
                      +|..+...+- .+ .+.++|+.+.+.+|..+.+..  ....+++.|+.+++.++....+....  ....+.+.|+.+.++
T Consensus       303 ~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~--sls~~C~~lr~lsls  380 (483)
T KOG4341|consen  303 SCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDGTLA--SLSRNCPRLRVLSLS  380 (483)
T ss_pred             CCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhhhHh--hhccCCchhccCChh
Confidence            8877654431 22 567888888888887655432  12345778888888888766554221  223567888888888


Q ss_pred             ccCCcccccccchhccCCCCCCCCCccEEEeccCCCccc-cccccccCCCcceEeccCCCCCCCCCC
Q 039944          232 RCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLER-LSSSIVDLQNLTELYLFGCPKLKYFPE  297 (348)
Q Consensus       232 ~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~-i~~~~~~~~~L~~L~l~~c~~l~~l~~  297 (348)
                      . |..+.+-  ++-.++..-.....|+.+.+++|+.+.+ .-..+..+++|+.+++.+|..+..-+.
T Consensus       381 h-ce~itD~--gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~Le~l~~c~~Leri~l~~~q~vtk~~i  444 (483)
T KOG4341|consen  381 H-CELITDE--GIRHLSSSSCSLEGLEVLELDNCPLITDATLEHLSICRNLERIELIDCQDVTKEAI  444 (483)
T ss_pred             h-hhhhhhh--hhhhhhhccccccccceeeecCCCCchHHHHHHHhhCcccceeeeechhhhhhhhh
Confidence            7 7655432  0000011113556788899999887763 333667889999999999887766443

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.81  E-value=5.1e-08  Score=87.92  Aligned_cols=166  Identities=20%  Similarity=0.322  Sum_probs=79.9

Q ss_pred             cCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCe
Q 039944          120 DNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQS  199 (348)
Q Consensus       120 ~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~  199 (348)
                      ..+++++.|+++.| .+..+|. +  .++|++|.+.+|..+..+|..+  +++|++|.+++|..+..+|      ++|+.
T Consensus        49 ~~~~~l~~L~Is~c-~L~sLP~-L--P~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~sLP------~sLe~  116 (426)
T PRK15386         49 EEARASGRLYIKDC-DIESLPV-L--PNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEISGLP------ESVRS  116 (426)
T ss_pred             HHhcCCCEEEeCCC-CCcccCC-C--CCCCcEEEccCCCCcccCCchh--hhhhhheEccCcccccccc------cccce
Confidence            33566666666665 4555552 1  2356666666666666555433  3466666666664444333      34555


Q ss_pred             eeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCC
Q 039944          200 LDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQ  279 (348)
Q Consensus       200 L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~  279 (348)
                      |++.++ ....+.       .-.++|+.|.+.+ ++.........       ..|++|++|.+.+|..+ .+|..+.  .
T Consensus       117 L~L~~n-~~~~L~-------~LPssLk~L~I~~-~n~~~~~~lp~-------~LPsSLk~L~Is~c~~i-~LP~~LP--~  177 (426)
T PRK15386        117 LEIKGS-ATDSIK-------NVPNGLTSLSINS-YNPENQARIDN-------LISPSLKTLSLTGCSNI-ILPEKLP--E  177 (426)
T ss_pred             EEeCCC-CCcccc-------cCcchHhheeccc-ccccccccccc-------ccCCcccEEEecCCCcc-cCccccc--c
Confidence            555432 111111       0112455555543 11111110000       24566777777776544 2333333  4


Q ss_pred             CcceEeccCCCCC-CCCCCCCCCCCCcEEEEcCCchhHH
Q 039944          280 NLTELYLFGCPKL-KYFPEKGLPSSLLELRISRCPLIAE  317 (348)
Q Consensus       280 ~L~~L~l~~c~~l-~~l~~~~~~~~L~~L~l~~c~~l~~  317 (348)
                      +|+.|+++.+... -.++...+++++ .|++.+|-.+..
T Consensus       178 SLk~L~ls~n~~~sLeI~~~sLP~nl-~L~f~n~lkL~~  215 (426)
T PRK15386        178 SLQSITLHIEQKTTWNISFEGFPDGL-DIDLQNSVLLSP  215 (426)
T ss_pred             cCcEEEecccccccccCccccccccc-EechhhhcccCH
Confidence            6777776653211 123333455666 777777654433

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

Probab=98.81  E-value=2.7e-10  Score=103.93  Aligned_cols=189  Identities=26%  Similarity=0.292  Sum_probs=143.4

Q ss_pred             cEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccC
Q 039944          102 KSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKG  181 (348)
Q Consensus       102 ~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~  181 (348)
                      ...+++.++ ...+|..++.+..|+.+.++. +.+..+|..+..+..|..|+++. +.+..+|..++.++ |+.|.++++
T Consensus        78 ~~aDlsrNR-~~elp~~~~~f~~Le~liLy~-n~~r~ip~~i~~L~~lt~l~ls~-NqlS~lp~~lC~lp-Lkvli~sNN  153 (722)
T KOG0532|consen   78 VFADLSRNR-FSELPEEACAFVSLESLILYH-NCIRTIPEAICNLEALTFLDLSS-NQLSHLPDGLCDLP-LKVLIVSNN  153 (722)
T ss_pred             hhhhccccc-cccCchHHHHHHHHHHHHHHh-ccceecchhhhhhhHHHHhhhcc-chhhcCChhhhcCc-ceeEEEecC
Confidence            345666654 667777788888888888877 56777888888888888999888 46778888888887 888888875


Q ss_pred             CCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEE
Q 039944          182 GALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLW  261 (348)
Q Consensus       182 ~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~  261 (348)
                       +++.+|+.++..+.|..++.+.|. +...+    ..+.++..|+.|.+..  +++..+|.+.       ..+ .|..|+
T Consensus       154 -kl~~lp~~ig~~~tl~~ld~s~ne-i~slp----sql~~l~slr~l~vrR--n~l~~lp~El-------~~L-pLi~lD  217 (722)
T KOG0532|consen  154 -KLTSLPEEIGLLPTLAHLDVSKNE-IQSLP----SQLGYLTSLRDLNVRR--NHLEDLPEEL-------CSL-PLIRLD  217 (722)
T ss_pred             -ccccCCcccccchhHHHhhhhhhh-hhhch----HHhhhHHHHHHHHHhh--hhhhhCCHHH-------hCC-ceeeee
Confidence             678888888888889999888854 44444    2467788888888887  7888888876       333 478889


Q ss_pred             eccCCCccccccccccCCCcceEeccCCCCCCCCC----CCCCCCCCcEEEEcCC
Q 039944          262 IEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFP----EKGLPSSLLELRISRC  312 (348)
Q Consensus       262 l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~----~~~~~~~L~~L~l~~c  312 (348)
                      +++ +++..+|..|.+++.|++|-+.++| +++=|    ..|...=.++|+++-|
T Consensus       218 fSc-Nkis~iPv~fr~m~~Lq~l~LenNP-LqSPPAqIC~kGkVHIFKyL~~qA~  270 (722)
T KOG0532|consen  218 FSC-NKISYLPVDFRKMRHLQVLQLENNP-LQSPPAQICEKGKVHIFKYLSTQAC  270 (722)
T ss_pred             ccc-CceeecchhhhhhhhheeeeeccCC-CCCChHHHHhccceeeeeeecchhc
Confidence            885 7888999999999999999998755 44422    2444455677777776

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

Probab=98.80  E-value=1.2e-09  Score=96.78  Aligned_cols=210  Identities=18%  Similarity=0.123  Sum_probs=137.6

Q ss_pred             cccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEcCCCC--cccchhhhcCCCccceecccccccc
Q 039944           59 RYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSK--LGSIAERLDNNTSLETISIDSCGNL  136 (348)
Q Consensus        59 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~~~~--~~~~~~~~~~l~~L~~L~l~~~~~l  136 (348)
                      +++  +|++..+.+|. +.. .+..+.        ...+|. ++.|+++.+-.  +..+......+|+|+.|+++.|. +
T Consensus       119 n~k--kL~~IsLdn~~-V~~-~~~~~~--------~k~~~~-v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nr-l  184 (505)
T KOG3207|consen  119 NLK--KLREISLDNYR-VED-AGIEEY--------SKILPN-VRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNR-L  184 (505)
T ss_pred             hHH--hhhheeecCcc-ccc-cchhhh--------hhhCCc-ceeecchhhhHHhHHHHHHHHHhcccchhccccccc-c
Confidence            455  88888888864 443 222111        134577 99999988643  23345666789999999999853 3


Q ss_pred             cccCCC--CCCCCCccEEEEecCCCcC-cccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhh
Q 039944          137 VSFPEG--GLPCAKLTRLTILDCKRLE-ALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMI  213 (348)
Q Consensus       137 ~~~~~~--~~~~~~L~~L~l~~~~~l~-~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  213 (348)
                      ..+..+  ...+++|+.|.+.+|..-. ++-..+..+|+|+.|++.+|............++.|+.|+++++..+.....
T Consensus       185 ~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~~  264 (505)
T KOG3207|consen  185 SNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQG  264 (505)
T ss_pred             cCCccccchhhhhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHhhccccCCcccccccc
Confidence            332221  1246789999999987432 2222346789999999998753332222345578899999999766554322


Q ss_pred             ccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccccc--ccccCCCcceEeccC
Q 039944          214 ERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS--SIVDLQNLTELYLFG  288 (348)
Q Consensus       214 ~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~--~~~~~~~L~~L~l~~  288 (348)
                         .....++.|..|+++.  .++.++..--++..+....+++|++|.+.. +.+.+|+.  .+..+++|+.|.+..
T Consensus       265 ---~~~~~l~~L~~Lnls~--tgi~si~~~d~~s~~kt~~f~kL~~L~i~~-N~I~~w~sl~~l~~l~nlk~l~~~~  335 (505)
T KOG3207|consen  265 ---YKVGTLPGLNQLNLSS--TGIASIAEPDVESLDKTHTFPKLEYLNISE-NNIRDWRSLNHLRTLENLKHLRITL  335 (505)
T ss_pred             ---cccccccchhhhhccc--cCcchhcCCCccchhhhcccccceeeeccc-Cccccccccchhhccchhhhhhccc
Confidence               2457789999999998  355543222122234446789999999998 67877775  556677788887765

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

Probab=98.55  E-value=1.4e-08  Score=86.06  Aligned_cols=125  Identities=20%  Similarity=0.230  Sum_probs=66.0

Q ss_pred             CCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCC
Q 039944          170 LTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGT  249 (348)
Q Consensus       170 l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~  249 (348)
                      +..|.+++++++ .+..+.+.....|.++.|+++.+ .+..+.     .+..+++|+.||+++  +.+..+..+-     
T Consensus       283 Wq~LtelDLS~N-~I~~iDESvKL~Pkir~L~lS~N-~i~~v~-----nLa~L~~L~~LDLS~--N~Ls~~~Gwh-----  348 (490)
T KOG1259|consen  283 WQELTELDLSGN-LITQIDESVKLAPKLRRLILSQN-RIRTVQ-----NLAELPQLQLLDLSG--NLLAECVGWH-----  348 (490)
T ss_pred             Hhhhhhcccccc-chhhhhhhhhhccceeEEecccc-ceeeeh-----hhhhcccceEeeccc--chhHhhhhhH-----
Confidence            445666666654 45555555666666666666663 233322     345566666666665  4444444432     


Q ss_pred             CCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCC---CCCCCCCcEEEEcCCc
Q 039944          250 ALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPE---KGLPSSLLELRISRCP  313 (348)
Q Consensus       250 ~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~---~~~~~~L~~L~l~~c~  313 (348)
                        ..+-+.+.|.+.+ +.+.++. ++.++-+|..|++++ ++++.+.+   .|-.|.|+.+.+.++|
T Consensus       349 --~KLGNIKtL~La~-N~iE~LS-GL~KLYSLvnLDl~~-N~Ie~ldeV~~IG~LPCLE~l~L~~NP  410 (490)
T KOG1259|consen  349 --LKLGNIKTLKLAQ-NKIETLS-GLRKLYSLVNLDLSS-NQIEELDEVNHIGNLPCLETLRLTGNP  410 (490)
T ss_pred             --hhhcCEeeeehhh-hhHhhhh-hhHhhhhheeccccc-cchhhHHHhcccccccHHHHHhhcCCC
Confidence              2334555666655 3444433 455556666666665 34444333   2224556666666555

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

Probab=98.54  E-value=1.2e-08  Score=90.66  Aligned_cols=175  Identities=11%  Similarity=0.084  Sum_probs=95.9

Q ss_pred             ccEEEEcCCCCcccch--hhhcCCCccceecccccccccc---cCCCCCCCCCccEEEEecCCCcCcccccc-cCCCCcc
Q 039944          101 LKSLFVYGCSKLGSIA--ERLDNNTSLETISIDSCGNLVS---FPEGGLPCAKLTRLTILDCKRLEALPKGM-HNLTSLQ  174 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~--~~~~~l~~L~~L~l~~~~~l~~---~~~~~~~~~~L~~L~l~~~~~l~~~~~~l-~~l~~L~  174 (348)
                      |+.+.+.++. +...+  .....+++++.|+++.+ .+..   +-..+..+++|+.|+++.|...-...... .-+++|+
T Consensus       123 L~~IsLdn~~-V~~~~~~~~~k~~~~v~~LdLS~N-L~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK  200 (505)
T KOG3207|consen  123 LREISLDNYR-VEDAGIEEYSKILPNVRDLDLSRN-LFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSHLK  200 (505)
T ss_pred             hhheeecCcc-ccccchhhhhhhCCcceeecchhh-hHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhhhh
Confidence            6667776654 43333  35566777788877763 2211   22234456777777777754322211111 3456777


Q ss_pred             eeEeccCCCCC--cccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCC
Q 039944          175 YLRIGKGGALP--SLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALP  252 (348)
Q Consensus       175 ~L~l~~~~~~~--~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~  252 (348)
                      .|.++.| ++.  ++......+|+|+.|.+..+..+....    .....++.|++|++++  +++..++...     +..
T Consensus       201 ~L~l~~C-Gls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~----~~~~i~~~L~~LdLs~--N~li~~~~~~-----~~~  268 (505)
T KOG3207|consen  201 QLVLNSC-GLSWKDVQWILLTFPSLEVLYLEANEIILIKA----TSTKILQTLQELDLSN--NNLIDFDQGY-----KVG  268 (505)
T ss_pred             eEEeccC-CCCHHHHHHHHHhCCcHHHhhhhcccccceec----chhhhhhHHhhccccC--Cccccccccc-----ccc
Confidence            7777776 332  222234556777777777753221111    1234566777777777  5555555321     113


Q ss_pred             CCCCccEEEeccCCCcccc--ccc-----cccCCCcceEeccCCC
Q 039944          253 LPASLTSLWIEAFPNLERL--SSS-----IVDLQNLTELYLFGCP  290 (348)
Q Consensus       253 ~~~~L~~L~l~~~~~l~~i--~~~-----~~~~~~L~~L~l~~c~  290 (348)
                      .++.|+.|.++.| .+.++  |..     ...+++|++|++..++
T Consensus       269 ~l~~L~~Lnls~t-gi~si~~~d~~s~~kt~~f~kL~~L~i~~N~  312 (505)
T KOG3207|consen  269 TLPGLNQLNLSST-GIASIAEPDVESLDKTHTFPKLEYLNISENN  312 (505)
T ss_pred             cccchhhhhcccc-CcchhcCCCccchhhhcccccceeeecccCc
Confidence            5667777777764 44433  222     3456777777777743

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.47  E-value=1.1e-06  Score=79.48  Aligned_cols=135  Identities=30%  Similarity=0.415  Sum_probs=94.7

Q ss_pred             CCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCc
Q 039944          146 CAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSL  225 (348)
Q Consensus       146 ~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L  225 (348)
                      +.+++.|++++| .++.+|.   -.++|++|.+++|..++.+|..  .+++|+.|++.+|..+..++          ..|
T Consensus        51 ~~~l~~L~Is~c-~L~sLP~---LP~sLtsL~Lsnc~nLtsLP~~--LP~nLe~L~Ls~Cs~L~sLP----------~sL  114 (426)
T PRK15386         51 ARASGRLYIKDC-DIESLPV---LPNELTEITIENCNNLTTLPGS--IPEGLEKLTVCHCPEISGLP----------ESV  114 (426)
T ss_pred             hcCCCEEEeCCC-CCcccCC---CCCCCcEEEccCCCCcccCCch--hhhhhhheEccCcccccccc----------ccc
Confidence            568999999998 6888872   3457999999999888888733  36799999999987665444          357


Q ss_pred             cEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcc--ccccccccCCCcceEeccCCCCCCCCCCCCCCCC
Q 039944          226 RRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLE--RLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSS  303 (348)
Q Consensus       226 ~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~--~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~  303 (348)
                      +.|++..  +....++.          .|++|+.|.+.+++...  .++..+  -++|+.|.+.+|..+. +|. .++.+
T Consensus       115 e~L~L~~--n~~~~L~~----------LPssLk~L~I~~~n~~~~~~lp~~L--PsSLk~L~Is~c~~i~-LP~-~LP~S  178 (426)
T PRK15386        115 RSLEIKG--SATDSIKN----------VPNGLTSLSINSYNPENQARIDNLI--SPSLKTLSLTGCSNII-LPE-KLPES  178 (426)
T ss_pred             ceEEeCC--CCCccccc----------CcchHhheecccccccccccccccc--CCcccEEEecCCCccc-Ccc-ccccc
Confidence            7777764  33333332          56678888886533221  112111  1689999999988664 453 57899


Q ss_pred             CcEEEEcCC
Q 039944          304 LLELRISRC  312 (348)
Q Consensus       304 L~~L~l~~c  312 (348)
                      |+.|+++.+
T Consensus       179 Lk~L~ls~n  187 (426)
T PRK15386        179 LQSITLHIE  187 (426)
T ss_pred             CcEEEeccc
Confidence            999999865

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

Probab=98.46  E-value=7.1e-08  Score=77.62  Aligned_cols=104  Identities=23%  Similarity=0.325  Sum_probs=24.5

Q ss_pred             CCCcceeEeccCCCCCcccccCC-CCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccC
Q 039944          170 LTSLQYLRIGKGGALPSLEEEDG-LPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLG  248 (348)
Q Consensus       170 l~~L~~L~l~~~~~~~~~~~~~~-~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~  248 (348)
                      +.++++|++.++ .+..+. .++ .+.+|+.|++++| .++.+.     .+..+++|++|++++  +.++.+.....   
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~---   84 (175)
T PF14580_consen   18 PVKLRELNLRGN-QISTIE-NLGATLDKLEVLDLSNN-QITKLE-----GLPGLPRLKTLDLSN--NRISSISEGLD---   84 (175)
T ss_dssp             --------------------S--TT-TT--EEE-TTS---S--T-----T----TT--EEE--S--S---S-CHHHH---
T ss_pred             cccccccccccc-cccccc-chhhhhcCCCEEECCCC-CCcccc-----CccChhhhhhcccCC--CCCCccccchH---
Confidence            334555555543 333333 333 3445555555552 333332     334455566666655  44544432210   


Q ss_pred             CCCCCCCCccEEEeccCCCcccccc--ccccCCCcceEeccCCC
Q 039944          249 TALPLPASLTSLWIEAFPNLERLSS--SIVDLQNLTELYLFGCP  290 (348)
Q Consensus       249 ~~~~~~~~L~~L~l~~~~~l~~i~~--~~~~~~~L~~L~l~~c~  290 (348)
                         ..+++|++|++++ +.+.++..  .+..+++|+.|++.++|
T Consensus        85 ---~~lp~L~~L~L~~-N~I~~l~~l~~L~~l~~L~~L~L~~NP  124 (175)
T PF14580_consen   85 ---KNLPNLQELYLSN-NKISDLNELEPLSSLPKLRVLSLEGNP  124 (175)
T ss_dssp             ---HH-TT--EEE-TT-S---SCCCCGGGGG-TT--EEE-TT-G
T ss_pred             ---HhCCcCCEEECcC-CcCCChHHhHHHHcCCCcceeeccCCc
Confidence               0245566666655 44544333  34556666666666655

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

Probab=98.45  E-value=1.6e-07  Score=86.89  Aligned_cols=169  Identities=24%  Similarity=0.270  Sum_probs=87.3

Q ss_pred             ccEEEEcCCCCcccchhhhcCCC-ccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEec
Q 039944          101 LKSLFVYGCSKLGSIAERLDNNT-SLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIG  179 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~~~~~l~-~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~  179 (348)
                      ++.|.+.++. +..++.....+. +|+.|+++. +.+..+|..+..+++|+.|++++| .+.++|......+.|+.|+++
T Consensus       118 l~~L~l~~n~-i~~i~~~~~~~~~nL~~L~l~~-N~i~~l~~~~~~l~~L~~L~l~~N-~l~~l~~~~~~~~~L~~L~ls  194 (394)
T COG4886         118 LTSLDLDNNN-ITDIPPLIGLLKSNLKELDLSD-NKIESLPSPLRNLPNLKNLDLSFN-DLSDLPKLLSNLSNLNNLDLS  194 (394)
T ss_pred             eeEEecCCcc-cccCccccccchhhcccccccc-cchhhhhhhhhccccccccccCCc-hhhhhhhhhhhhhhhhheecc
Confidence            5555555433 444444444443 666666665 445555444555566666666663 355555443355666666666


Q ss_pred             cCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccE
Q 039944          180 KGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTS  259 (348)
Q Consensus       180 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~  259 (348)
                      ++ .+..+|...+.+..|+++.+.++..+....     .+..+.++..+.+.+  +.+..++...       ..++.++.
T Consensus       195 ~N-~i~~l~~~~~~~~~L~~l~~~~N~~~~~~~-----~~~~~~~l~~l~l~~--n~~~~~~~~~-------~~l~~l~~  259 (394)
T COG4886         195 GN-KISDLPPEIELLSALEELDLSNNSIIELLS-----SLSNLKNLSGLELSN--NKLEDLPESI-------GNLSNLET  259 (394)
T ss_pred             CC-ccccCchhhhhhhhhhhhhhcCCcceecch-----hhhhcccccccccCC--ceeeeccchh-------ccccccce
Confidence            54 455555333444556666666643222222     234444455454443  3444333333       24555666


Q ss_pred             EEeccCCCccccccccccCCCcceEeccCC
Q 039944          260 LWIEAFPNLERLSSSIVDLQNLTELYLFGC  289 (348)
Q Consensus       260 L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c  289 (348)
                      |++.+ +.+..++. +....+++.|++++.
T Consensus       260 L~~s~-n~i~~i~~-~~~~~~l~~L~~s~n  287 (394)
T COG4886         260 LDLSN-NQISSISS-LGSLTNLRELDLSGN  287 (394)
T ss_pred             ecccc-cccccccc-ccccCccCEEeccCc
Confidence            66665 45555554 556666666666653

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

Probab=98.41  E-value=3.1e-07  Score=84.95  Aligned_cols=191  Identities=25%  Similarity=0.277  Sum_probs=140.4

Q ss_pred             EEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCC-CccEEEEecCCCcCcccccccCCCCcceeEeccC
Q 039944          103 SLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCA-KLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKG  181 (348)
Q Consensus       103 ~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~-~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~  181 (348)
                      .+....+...... ..+...+.++.|.+.. ..+.+++....... +|+.|++++ ..+..+|..+..++.|+.|+++.|
T Consensus        97 ~l~~~~~~~~~~~-~~~~~~~~l~~L~l~~-n~i~~i~~~~~~~~~nL~~L~l~~-N~i~~l~~~~~~l~~L~~L~l~~N  173 (394)
T COG4886          97 SLDLNLNRLRSNI-SELLELTNLTSLDLDN-NNITDIPPLIGLLKSNLKELDLSD-NKIESLPSPLRNLPNLKNLDLSFN  173 (394)
T ss_pred             eeeccccccccCc-hhhhcccceeEEecCC-cccccCccccccchhhcccccccc-cchhhhhhhhhccccccccccCCc
Confidence            4555555432332 2344567899999987 67778888777774 899999999 467777767889999999999987


Q ss_pred             CCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEE
Q 039944          182 GALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLW  261 (348)
Q Consensus       182 ~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~  261 (348)
                       .+..++...+..++|+.+++++ ..+..++.    ......+|+++.+++  +.....+...       .....+..+.
T Consensus       174 -~l~~l~~~~~~~~~L~~L~ls~-N~i~~l~~----~~~~~~~L~~l~~~~--N~~~~~~~~~-------~~~~~l~~l~  238 (394)
T COG4886         174 -DLSDLPKLLSNLSNLNNLDLSG-NKISDLPP----EIELLSALEELDLSN--NSIIELLSSL-------SNLKNLSGLE  238 (394)
T ss_pred             -hhhhhhhhhhhhhhhhheeccC-CccccCch----hhhhhhhhhhhhhcC--Ccceecchhh-------hhcccccccc
Confidence             6777774444889999999999 56776663    223556699999998  4344444433       3566777777


Q ss_pred             eccCCCccccccccccCCCcceEeccCCCCCCCCCCCCCCCCCcEEEEcCCc
Q 039944          262 IEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCP  313 (348)
Q Consensus       262 l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~c~  313 (348)
                      +.+ +.+..++..+..+++++.|++++ +.+.+++..+-..+++.|++++..
T Consensus       239 l~~-n~~~~~~~~~~~l~~l~~L~~s~-n~i~~i~~~~~~~~l~~L~~s~n~  288 (394)
T COG4886         239 LSN-NKLEDLPESIGNLSNLETLDLSN-NQISSISSLGSLTNLRELDLSGNS  288 (394)
T ss_pred             cCC-ceeeeccchhccccccceecccc-ccccccccccccCccCEEeccCcc
Confidence            665 56666677888999999999998 578888774447899999999864

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

Probab=98.40  E-value=9.9e-08  Score=81.08  Aligned_cols=137  Identities=17%  Similarity=0.185  Sum_probs=101.3

Q ss_pred             hcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcC
Q 039944          119 LDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQ  198 (348)
Q Consensus       119 ~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~  198 (348)
                      +..+..|+.++++. +.+..+..+..-.|.++.|+++.|. +..+ +++..+++|++|+++++ .+....-+-..+.|++
T Consensus       280 ~dTWq~LtelDLS~-N~I~~iDESvKL~Pkir~L~lS~N~-i~~v-~nLa~L~~L~~LDLS~N-~Ls~~~Gwh~KLGNIK  355 (490)
T KOG1259|consen  280 ADTWQELTELDLSG-NLITQIDESVKLAPKLRRLILSQNR-IRTV-QNLAELPQLQLLDLSGN-LLAECVGWHLKLGNIK  355 (490)
T ss_pred             cchHhhhhhccccc-cchhhhhhhhhhccceeEEeccccc-eeee-hhhhhcccceEeecccc-hhHhhhhhHhhhcCEe
Confidence            34567899999998 6788888888778899999999954 5544 56888999999999987 4444442445677999


Q ss_pred             eeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccccc
Q 039944          199 SLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS  273 (348)
Q Consensus       199 ~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~  273 (348)
                      +|.+++ +.++...     .+..+-+|..||+++  ++++....-     ..+..+|.|+.+.+.++ -+..++.
T Consensus       356 tL~La~-N~iE~LS-----GL~KLYSLvnLDl~~--N~Ie~ldeV-----~~IG~LPCLE~l~L~~N-Pl~~~vd  416 (490)
T KOG1259|consen  356 TLKLAQ-NKIETLS-----GLRKLYSLVNLDLSS--NQIEELDEV-----NHIGNLPCLETLRLTGN-PLAGSVD  416 (490)
T ss_pred             eeehhh-hhHhhhh-----hhHhhhhheeccccc--cchhhHHHh-----cccccccHHHHHhhcCC-Cccccch
Confidence            999998 5566654     567778899999998  666654331     11247889999999984 4555544

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

Probab=98.35  E-value=4.2e-08  Score=89.94  Aligned_cols=168  Identities=24%  Similarity=0.327  Sum_probs=130.6

Q ss_pred             ccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEecc
Q 039944          101 LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGK  180 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~  180 (348)
                      |+.+.++.+. +..+|..+.++..|..++++. +.+..+|..++.++ |+.|.+++ ++++.+|..++..+.|.+|+++.
T Consensus       100 Le~liLy~n~-~r~ip~~i~~L~~lt~l~ls~-NqlS~lp~~lC~lp-Lkvli~sN-Nkl~~lp~~ig~~~tl~~ld~s~  175 (722)
T KOG0532|consen  100 LESLILYHNC-IRTIPEAICNLEALTFLDLSS-NQLSHLPDGLCDLP-LKVLIVSN-NKLTSLPEEIGLLPTLAHLDVSK  175 (722)
T ss_pred             HHHHHHHhcc-ceecchhhhhhhHHHHhhhcc-chhhcCChhhhcCc-ceeEEEec-CccccCCcccccchhHHHhhhhh
Confidence            5556665443 667788899999999999988 56778888888774 89998888 56889999999889999999998


Q ss_pred             CCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEE
Q 039944          181 GGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSL  260 (348)
Q Consensus       181 ~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L  260 (348)
                      | .+.++|.-++.+.+|+.+.+.. +.+..++..    +..+ .|..||++  |+.+..+|.++       ..+..|++|
T Consensus       176 n-ei~slpsql~~l~slr~l~vrR-n~l~~lp~E----l~~L-pLi~lDfS--cNkis~iPv~f-------r~m~~Lq~l  239 (722)
T KOG0532|consen  176 N-EIQSLPSQLGYLTSLRDLNVRR-NHLEDLPEE----LCSL-PLIRLDFS--CNKISYLPVDF-------RKMRHLQVL  239 (722)
T ss_pred             h-hhhhchHHhhhHHHHHHHHHhh-hhhhhCCHH----HhCC-ceeeeecc--cCceeecchhh-------hhhhhheee
Confidence            7 6777887888899999999988 456666642    3433 47778888  69999999987       689999999


Q ss_pred             EeccCCCcccccccc---ccCCCcceEeccCC
Q 039944          261 WIEAFPNLERLSSSI---VDLQNLTELYLFGC  289 (348)
Q Consensus       261 ~l~~~~~l~~i~~~~---~~~~~L~~L~l~~c  289 (348)
                      -+.+ +-+++-|..+   +...-.++|++..|
T Consensus       240 ~Len-NPLqSPPAqIC~kGkVHIFKyL~~qA~  270 (722)
T KOG0532|consen  240 QLEN-NPLQSPPAQICEKGKVHIFKYLSTQAC  270 (722)
T ss_pred             eecc-CCCCCChHHHHhccceeeeeeecchhc
Confidence            9997 5676655522   44555677777776

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

Probab=98.29  E-value=1e-06  Score=70.94  Aligned_cols=112  Identities=23%  Similarity=0.337  Sum_probs=39.6

Q ss_pred             CCcccccCCCCCCcCeeeecCCccchhhhhccccccC-CCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEe
Q 039944          184 LPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFH-RFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWI  262 (348)
Q Consensus       184 ~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~-~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l  262 (348)
                      ++..+ ....+.+++.|++.++ .+..+.     .+. .+.+|+.|++++  +.++.++.-        ..++.|+.|++
T Consensus         9 i~~~~-~~~n~~~~~~L~L~~n-~I~~Ie-----~L~~~l~~L~~L~Ls~--N~I~~l~~l--------~~L~~L~~L~L   71 (175)
T PF14580_consen    9 IEQIA-QYNNPVKLRELNLRGN-QISTIE-----NLGATLDKLEVLDLSN--NQITKLEGL--------PGLPRLKTLDL   71 (175)
T ss_dssp             ----------------------------------S--TT-TT--EEE-TT--S--S--TT------------TT--EEE-
T ss_pred             ccccc-cccccccccccccccc-cccccc-----chhhhhcCCCEEECCC--CCCccccCc--------cChhhhhhccc
Confidence            33444 5566778999999994 455543     233 578999999998  677777653        36789999999


Q ss_pred             ccCCCcccccccc-ccCCCcceEeccCCCCCCCCCCC-CC--CCCCcEEEEcCCch
Q 039944          263 EAFPNLERLSSSI-VDLQNLTELYLFGCPKLKYFPEK-GL--PSSLLELRISRCPL  314 (348)
Q Consensus       263 ~~~~~l~~i~~~~-~~~~~L~~L~l~~c~~l~~l~~~-~~--~~~L~~L~l~~c~~  314 (348)
                      ++ +.++.+...+ ..+++|+.|++++ +.+.++.+- .+  +++|+.|++.++|-
T Consensus        72 ~~-N~I~~i~~~l~~~lp~L~~L~L~~-N~I~~l~~l~~L~~l~~L~~L~L~~NPv  125 (175)
T PF14580_consen   72 SN-NRISSISEGLDKNLPNLQELYLSN-NKISDLNELEPLSSLPKLRVLSLEGNPV  125 (175)
T ss_dssp             -S-S---S-CHHHHHH-TT--EEE-TT-S---SCCCCGGGGG-TT--EEE-TT-GG
T ss_pred             CC-CCCCccccchHHhCCcCCEEECcC-CcCCChHHhHHHHcCCCcceeeccCCcc
Confidence            98 7898887655 4699999999998 577776652 12  79999999999984

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

Probab=98.25  E-value=1.8e-08  Score=85.30  Aligned_cols=176  Identities=15%  Similarity=0.127  Sum_probs=90.8

Q ss_pred             ccceecccccccc--cccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccc--cCCCCCCcCe
Q 039944          124 SLETISIDSCGNL--VSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEE--EDGLPTNLQS  199 (348)
Q Consensus       124 ~L~~L~l~~~~~l--~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~--~~~~~~~L~~  199 (348)
                      .+++|+++. ..+  ..+.-.+.+|.+|+.|.+.+...-+.+...+..-.+|+.|+++.|.+++....  .+..+..|..
T Consensus       186 Rlq~lDLS~-s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~  264 (419)
T KOG2120|consen  186 RLQHLDLSN-SVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDE  264 (419)
T ss_pred             hhHHhhcch-hheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhh
Confidence            366666665 222  11222334456666666666433333333444445677777776666554321  2345666777


Q ss_pred             eeecCCccchhhhhccccccCCCCCccEEEecccCCcc-c--ccccchhccCCCCCCCCCccEEEeccCCCccc-ccccc
Q 039944          200 LDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDM-V--SFPLEDKRLGTALPLPASLTSLWIEAFPNLER-LSSSI  275 (348)
Q Consensus       200 L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l-~--~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~-i~~~~  275 (348)
                      |++++|.........  ....--++|..|++++ |... .  .+..-.       ..+|+|..|++++|..++. .-..+
T Consensus       265 LNlsWc~l~~~~Vtv--~V~hise~l~~LNlsG-~rrnl~~sh~~tL~-------~rcp~l~~LDLSD~v~l~~~~~~~~  334 (419)
T KOG2120|consen  265 LNLSWCFLFTEKVTV--AVAHISETLTQLNLSG-YRRNLQKSHLSTLV-------RRCPNLVHLDLSDSVMLKNDCFQEF  334 (419)
T ss_pred             cCchHhhccchhhhH--HHhhhchhhhhhhhhh-hHhhhhhhHHHHHH-------HhCCceeeeccccccccCchHHHHH
Confidence            777766544332211  0111224666666666 4221 1  111111       2456777777777766653 22255


Q ss_pred             ccCCCcceEeccCCCCCCCCCCC----CCCCCCcEEEEcCC
Q 039944          276 VDLQNLTELYLFGCPKLKYFPEK----GLPSSLLELRISRC  312 (348)
Q Consensus       276 ~~~~~L~~L~l~~c~~l~~l~~~----~~~~~L~~L~l~~c  312 (348)
                      .+++.|++|.++.|-.+.  |..    .-.|+|.+|++.||
T Consensus       335 ~kf~~L~~lSlsRCY~i~--p~~~~~l~s~psl~yLdv~g~  373 (419)
T KOG2120|consen  335 FKFNYLQHLSLSRCYDII--PETLLELNSKPSLVYLDVFGC  373 (419)
T ss_pred             HhcchheeeehhhhcCCC--hHHeeeeccCcceEEEEeccc
Confidence            667777777777775442  221    11577777777776

>PF13855 LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RFS_A 3G39_A 3VQ2_A 3VQ1_B 2Z64_A 2Z66_C 3FXI_A 2Z63_A

Probab=98.19  E-value=3.4e-06  Score=55.56  Aligned_cols=57  Identities=19%  Similarity=0.289  Sum_probs=41.6

Q ss_pred             CcccEEeecCcccccccCCCCC--CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCC
Q 039944            6 SSLEILDIEKCHSLTYIAAVQL--PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISC   73 (348)
Q Consensus         6 ~~L~~L~l~~~~~l~~l~~~~~--~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~   73 (348)
                      |+|++|++++| .++.+|...+  +++|++|++++|. +..++.+       .|..++  +|++|+++++
T Consensus         1 p~L~~L~l~~n-~l~~i~~~~f~~l~~L~~L~l~~N~-l~~i~~~-------~f~~l~--~L~~L~l~~N   59 (61)
T PF13855_consen    1 PNLESLDLSNN-KLTEIPPDSFSNLPNLETLDLSNNN-LTSIPPD-------AFSNLP--NLRYLDLSNN   59 (61)
T ss_dssp             TTESEEEETSS-TESEECTTTTTTGTTESEEEETSSS-ESEEETT-------TTTTST--TESEEEETSS
T ss_pred             CcCcEEECCCC-CCCccCHHHHcCCCCCCEeEccCCc-cCccCHH-------HHcCCC--CCCEEeCcCC
Confidence            56778888874 6777776554  7788888888776 7777766       567776  7888887765

...

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

Probab=98.05  E-value=4.3e-07  Score=78.72  Aligned_cols=239  Identities=20%  Similarity=0.205  Sum_probs=142.6

Q ss_pred             CCCccEEEeccCccccc----cccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEe--ccCCCCc
Q 039944           28 PSSLKKLQICDCYNIRT----LTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEV--GNLPLSL  101 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~----~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i--~~l~~~L  101 (348)
                      ...+..|+++++..-..    +..        .+.+.+  +|++-++++.  ++. -+...+++.|.-|.=  ...|+ |
T Consensus        29 ~~s~~~l~lsgnt~G~EAa~~i~~--------~L~~~~--~L~~v~~sd~--ftG-R~~~Ei~e~L~~l~~aL~~~~~-L   94 (382)
T KOG1909|consen   29 MDSLTKLDLSGNTFGTEAARAIAK--------VLASKK--ELREVNLSDM--FTG-RLKDEIPEALKMLSKALLGCPK-L   94 (382)
T ss_pred             cCceEEEeccCCchhHHHHHHHHH--------HHhhcc--cceeeehHhh--hcC-CcHHHHHHHHHHHHHHHhcCCc-e
Confidence            56788999999872221    222        244555  7777777653  222 222223333322211  34576 9


Q ss_pred             cEEEEcCCCCcccc----hhhhcCCCccceecccccccccc--------------cCCCCCCCCCccEEEEecCCCcCcc
Q 039944          102 KSLFVYGCSKLGSI----AERLDNNTSLETISIDSCGNLVS--------------FPEGGLPCAKLTRLTILDCKRLEAL  163 (348)
Q Consensus       102 ~~L~l~~~~~~~~~----~~~~~~l~~L~~L~l~~~~~l~~--------------~~~~~~~~~~L~~L~l~~~~~l~~~  163 (348)
                      +.++|++|-.-...    ...+.++.+|++|.+.+|- +..              ...-...-++|+.+...+|. +..-
T Consensus        95 ~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~G-lg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNr-len~  172 (382)
T KOG1909|consen   95 QKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCG-LGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNR-LENG  172 (382)
T ss_pred             eEeeccccccCccchHHHHHHHHhccCHHHHhhhcCC-CChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccc-cccc
Confidence            99999987644433    3445668899999998863 211              11123345689999988854 3333


Q ss_pred             c-----ccccCCCCcceeEeccCCCC----CcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccC
Q 039944          164 P-----KGMHNLTSLQYLRIGKGGAL----PSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCD  234 (348)
Q Consensus       164 ~-----~~l~~l~~L~~L~l~~~~~~----~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c  234 (348)
                      +     ..+...+.|+.+.++.+.-.    +-+...+.++++|+.|++..+..-........-.+..+++|+++++++ |
T Consensus       173 ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~d-c  251 (382)
T KOG1909|consen  173 GATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGD-C  251 (382)
T ss_pred             cHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeecccc-c
Confidence            2     24456688999998865211    112335678999999999986432211110002467788999999999 7


Q ss_pred             Ccc----cccccchhccCCCCCCCCCccEEEeccCCCcc-----ccccccccCCCcceEeccCCC
Q 039944          235 EDM----VSFPLEDKRLGTALPLPASLTSLWIEAFPNLE-----RLSSSIVDLQNLTELYLFGCP  290 (348)
Q Consensus       235 ~~l----~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~-----~i~~~~~~~~~L~~L~l~~c~  290 (348)
                      .--    ..+.....      ...|+|+.+.+.+| .++     .+...+..-+.|.+|++++|.
T Consensus       252 ll~~~Ga~a~~~al~------~~~p~L~vl~l~gN-eIt~da~~~la~~~~ek~dL~kLnLngN~  309 (382)
T KOG1909|consen  252 LLENEGAIAFVDALK------ESAPSLEVLELAGN-EITRDAALALAACMAEKPDLEKLNLNGNR  309 (382)
T ss_pred             ccccccHHHHHHHHh------ccCCCCceeccCcc-hhHHHHHHHHHHHHhcchhhHHhcCCccc
Confidence            321    12222111      24678999999985 443     223356668999999999964

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

Probab=98.02  E-value=8.6e-07  Score=76.88  Aligned_cols=37  Identities=22%  Similarity=0.247  Sum_probs=18.0

Q ss_pred             CCCCCccEEEeccCCCcc-----ccccccccCCCcceEeccCC
Q 039944          252 PLPASLTSLWIEAFPNLE-----RLSSSIVDLQNLTELYLFGC  289 (348)
Q Consensus       252 ~~~~~L~~L~l~~~~~l~-----~i~~~~~~~~~L~~L~l~~c  289 (348)
                      ..++.|+.|++.++ .++     .+...+..|++|+.|++++|
T Consensus       210 ~~~~~LevLdl~DN-tft~egs~~LakaL~s~~~L~El~l~dc  251 (382)
T KOG1909|consen  210 EHCPHLEVLDLRDN-TFTLEGSVALAKALSSWPHLRELNLGDC  251 (382)
T ss_pred             HhCCcceeeecccc-hhhhHHHHHHHHHhcccchheeeccccc
Confidence            34555666666552 222     12223444555666666655

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

Probab=98.01  E-value=3e-07  Score=78.09  Aligned_cols=182  Identities=14%  Similarity=0.083  Sum_probs=121.5

Q ss_pred             CccEEEEcCCCCc-ccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccc--cccCCCCccee
Q 039944          100 SLKSLFVYGCSKL-GSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPK--GMHNLTSLQYL  176 (348)
Q Consensus       100 ~L~~L~l~~~~~~-~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~--~l~~l~~L~~L  176 (348)
                      .++.|++++.... ..+...+..+.+|+.|.+.+...-..+...+..-.+|+.|+++.|..+++..-  .+..++.|.+|
T Consensus       186 Rlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~L  265 (419)
T KOG2120|consen  186 RLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDEL  265 (419)
T ss_pred             hhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhhc
Confidence            4788888854322 12345566788888888887554444444555556899999999998876543  23788999999


Q ss_pred             EeccCCCCCccc-ccCC-CCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCC
Q 039944          177 RIGKGGALPSLE-EEDG-LPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLP  254 (348)
Q Consensus       177 ~l~~~~~~~~~~-~~~~-~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~  254 (348)
                      ++++|....... ..+. --++|..|+++|+.+.-...... --..++++|.+||+++ |..+..  +..    .++..+
T Consensus       266 NlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~-tL~~rcp~l~~LDLSD-~v~l~~--~~~----~~~~kf  337 (419)
T KOG2120|consen  266 NLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLS-TLVRRCPNLVHLDLSD-SVMLKN--DCF----QEFFKF  337 (419)
T ss_pred             CchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHH-HHHHhCCceeeecccc-ccccCc--hHH----HHHHhc
Confidence            999985444321 1122 23689999999875422111100 0235789999999999 765543  111    122467


Q ss_pred             CCccEEEeccCCCcccccc---ccccCCCcceEeccCCCC
Q 039944          255 ASLTSLWIEAFPNLERLSS---SIVDLQNLTELYLFGCPK  291 (348)
Q Consensus       255 ~~L~~L~l~~~~~l~~i~~---~~~~~~~L~~L~l~~c~~  291 (348)
                      +-|++|+++.|..+-  |.   .+...|+|.+|++.||-.
T Consensus       338 ~~L~~lSlsRCY~i~--p~~~~~l~s~psl~yLdv~g~vs  375 (419)
T KOG2120|consen  338 NYLQHLSLSRCYDII--PETLLELNSKPSLVYLDVFGCVS  375 (419)
T ss_pred             chheeeehhhhcCCC--hHHeeeeccCcceEEEEeccccC
Confidence            889999999998663  43   567889999999999843

>PLN03150 hypothetical protein; Provisional

Probab=97.98  E-value=1.2e-05  Score=78.42  Aligned_cols=105  Identities=16%  Similarity=0.163  Sum_probs=72.5

Q ss_pred             ccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeec
Q 039944          124 SLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIW  203 (348)
Q Consensus       124 ~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~  203 (348)
                      .++.|+++++.....+|..+..+++|+.|++++|.....+|..+..+++|+.|++++|.....+|..++.+++|+.|+++
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls  498 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLN  498 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECc
Confidence            36677777755545667777778888888888866555777777888888888888875555677677888888888888


Q ss_pred             CCccchhhhhccccccCC-CCCccEEEecc
Q 039944          204 GNMEIWKSMIERGRGFHR-FSSLRRLTISR  232 (348)
Q Consensus       204 ~~~~l~~~~~~~~~~~~~-l~~L~~L~l~~  232 (348)
                      +|.....++.    .+.. ..++..+++.+
T Consensus       499 ~N~l~g~iP~----~l~~~~~~~~~l~~~~  524 (623)
T PLN03150        499 GNSLSGRVPA----ALGGRLLHRASFNFTD  524 (623)
T ss_pred             CCcccccCCh----HHhhccccCceEEecC
Confidence            8653334442    2222 24566777776

>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=97.85  E-value=4.6e-05  Score=50.05  Aligned_cols=60  Identities=22%  Similarity=0.332  Sum_probs=36.8

Q ss_pred             CCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEcC
Q 039944           29 SSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYG  108 (348)
Q Consensus        29 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~  108 (348)
                      ++|++|++++|. +..++..       .|+.++  +|++|++++ +.+.. ++...+         ..+|+ |+.|++++
T Consensus         1 p~L~~L~l~~n~-l~~i~~~-------~f~~l~--~L~~L~l~~-N~l~~-i~~~~f---------~~l~~-L~~L~l~~   58 (61)
T PF13855_consen    1 PNLESLDLSNNK-LTEIPPD-------SFSNLP--NLETLDLSN-NNLTS-IPPDAF---------SNLPN-LRYLDLSN   58 (61)
T ss_dssp             TTESEEEETSST-ESEECTT-------TTTTGT--TESEEEETS-SSESE-EETTTT---------TTSTT-ESEEEETS
T ss_pred             CcCcEEECCCCC-CCccCHH-------HHcCCC--CCCEeEccC-CccCc-cCHHHH---------cCCCC-CCEEeCcC
Confidence            457777777774 6777766       466666  777777775 34555 554433         33355 66666666


Q ss_pred             CC
Q 039944          109 CS  110 (348)
Q Consensus       109 ~~  110 (348)
                      |.
T Consensus        59 N~   60 (61)
T PF13855_consen   59 NN   60 (61)
T ss_dssp             SS
T ss_pred             Cc
Confidence            53

...

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

Probab=97.78  E-value=1.2e-07  Score=89.45  Aligned_cols=127  Identities=23%  Similarity=0.259  Sum_probs=82.5

Q ss_pred             CccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeee
Q 039944          123 TSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDI  202 (348)
Q Consensus       123 ~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l  202 (348)
                      ..|..-+++. +.+..+..++.-++.++.|+++.|. +... +.+..+++|++|++++| .+..+|.....-..|..|.+
T Consensus       164 n~L~~a~fsy-N~L~~mD~SLqll~ale~LnLshNk-~~~v-~~Lr~l~~LkhLDlsyN-~L~~vp~l~~~gc~L~~L~l  239 (1096)
T KOG1859|consen  164 NKLATASFSY-NRLVLMDESLQLLPALESLNLSHNK-FTKV-DNLRRLPKLKHLDLSYN-CLRHVPQLSMVGCKLQLLNL  239 (1096)
T ss_pred             hhHhhhhcch-hhHHhHHHHHHHHHHhhhhccchhh-hhhh-HHHHhcccccccccccc-hhccccccchhhhhheeeee
Confidence            3455555654 5676777777667889999999854 4444 47788899999999986 56667633222234889999


Q ss_pred             cCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCC
Q 039944          203 WGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFP  266 (348)
Q Consensus       203 ~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  266 (348)
                      +++ .++...     .+.++.+|+.||++++|  +..+..-.     .+..+..|..|++.+++
T Consensus       240 rnN-~l~tL~-----gie~LksL~~LDlsyNl--l~~hseL~-----pLwsLs~L~~L~LeGNP  290 (1096)
T KOG1859|consen  240 RNN-ALTTLR-----GIENLKSLYGLDLSYNL--LSEHSELE-----PLWSLSSLIVLWLEGNP  290 (1096)
T ss_pred             ccc-HHHhhh-----hHHhhhhhhccchhHhh--hhcchhhh-----HHHHHHHHHHHhhcCCc
Confidence            884 455554     45788899999999833  33322100     00134567777777743

>PLN03150 hypothetical protein; Provisional

Probab=97.65  E-value=8.3e-05  Score=72.69  Aligned_cols=114  Identities=16%  Similarity=0.079  Sum_probs=85.8

Q ss_pred             CccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccE
Q 039944          148 KLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRR  227 (348)
Q Consensus       148 ~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~  227 (348)
                      .++.|++.++..-..+|..+..+++|+.|++++|.....+|..++.+++|+.|+++++.-...++    ..+..+++|+.
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~~  494 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIP----ESLGQLTSLRI  494 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCc----hHHhcCCCCCE
Confidence            37889999876656788888999999999999986555788778999999999999965444455    35788999999


Q ss_pred             EEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccc
Q 039944          228 LTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLS  272 (348)
Q Consensus       228 L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~  272 (348)
                      |++++ +.-...+|...+      ..+.++..+++.++..+...|
T Consensus       495 L~Ls~-N~l~g~iP~~l~------~~~~~~~~l~~~~N~~lc~~p  532 (623)
T PLN03150        495 LNLNG-NSLSGRVPAALG------GRLLHRASFNFTDNAGLCGIP  532 (623)
T ss_pred             EECcC-CcccccCChHHh------hccccCceEEecCCccccCCC
Confidence            99998 443346776552      123456788888866665444

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

Probab=97.59  E-value=3.1e-06  Score=80.29  Aligned_cols=137  Identities=26%  Similarity=0.369  Sum_probs=76.5

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCC-CCccccccCCCCCCCcceeEeccCCCCccEEEE
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISC-PSLTCIFSKNELPATLESLEVGNLPLSLKSLFV  106 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~-~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l  106 (348)
                      .+.|+.|.+.+|..+......      .....+.  +|+.|++++| ..... .+.... .     ....++. |+.+++
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~------~~~~~~~--~L~~L~l~~~~~~~~~-~~~~~~-~-----~~~~~~~-L~~l~l  250 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLD------ALALKCP--NLEELDLSGCCLLITL-SPLLLL-L-----LLSICRK-LKSLDL  250 (482)
T ss_pred             CchhhHhhhcccccCChhhHH------HHHhhCc--hhheecccCccccccc-chhHhh-h-----hhhhcCC-cCccch
Confidence            678888888888766652211      0134444  8888888873 22221 111000 0     0122344 888888


Q ss_pred             cCCCCcccch-hhh-cCCCccceecccccccc--cccCCCCCCCCCccEEEEecCCCcCc--ccccccCCCCcceeEecc
Q 039944          107 YGCSKLGSIA-ERL-DNNTSLETISIDSCGNL--VSFPEGGLPCAKLTRLTILDCKRLEA--LPKGMHNLTSLQYLRIGK  180 (348)
Q Consensus       107 ~~~~~~~~~~-~~~-~~l~~L~~L~l~~~~~l--~~~~~~~~~~~~L~~L~l~~~~~l~~--~~~~l~~l~~L~~L~l~~  180 (348)
                      +.+..+++.. ..+ ..+++|+.|.+..|..+  ..+......+++|++|++++|..+..  +.....++++|+.+.+..
T Consensus       251 ~~~~~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~d~~l~~~~~~c~~l~~l~~~~  330 (482)
T KOG1947|consen  251 SGCGLVTDIGLSALASRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLTDSGLEALLKNCPNLRELKLLS  330 (482)
T ss_pred             hhhhccCchhHHHHHhhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccchHHHHHHHHHhCcchhhhhhhh
Confidence            8777555432 222 33788888887777643  22333344567889999888877533  222234466666655443

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

Probab=97.32  E-value=6.2e-05  Score=70.08  Aligned_cols=99  Identities=19%  Similarity=0.312  Sum_probs=60.9

Q ss_pred             ccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEecc
Q 039944          101 LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGK  180 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~  180 (348)
                      ++.+++.++. +..+...+..+++|++|+++. +.+..+.. +..++.|+.|++.+| .+..+ ..+..++.|+.+++++
T Consensus        97 l~~l~l~~n~-i~~i~~~l~~~~~L~~L~ls~-N~I~~i~~-l~~l~~L~~L~l~~N-~i~~~-~~~~~l~~L~~l~l~~  171 (414)
T KOG0531|consen   97 LEALDLYDNK-IEKIENLLSSLVNLQVLDLSF-NKITKLEG-LSTLTLLKELNLSGN-LISDI-SGLESLKSLKLLDLSY  171 (414)
T ss_pred             eeeeeccccc-hhhcccchhhhhcchheeccc-cccccccc-hhhccchhhheeccC-cchhc-cCCccchhhhcccCCc
Confidence            7777777654 444443356678888888877 45555432 334456888888774 34444 3455577777777777


Q ss_pred             CCCCCccccc-CCCCCCcCeeeecCC
Q 039944          181 GGALPSLEEE-DGLPTNLQSLDIWGN  205 (348)
Q Consensus       181 ~~~~~~~~~~-~~~~~~L~~L~l~~~  205 (348)
                      + .+..+... ...+.+++.+++.++
T Consensus       172 n-~i~~ie~~~~~~~~~l~~l~l~~n  196 (414)
T KOG0531|consen  172 N-RIVDIENDELSELISLEELDLGGN  196 (414)
T ss_pred             c-hhhhhhhhhhhhccchHHHhccCC
Confidence            5 34444411 366677777777764

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

Probab=97.28  E-value=8.5e-06  Score=77.31  Aligned_cols=123  Identities=24%  Similarity=0.171  Sum_probs=86.8

Q ss_pred             CcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCC
Q 039944          172 SLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTAL  251 (348)
Q Consensus       172 ~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~  251 (348)
                      .|...+.++| .+..+.+.+..++.++.|++++ +++....     .+..+++|++||+++  +.+..+|.-..      
T Consensus       165 ~L~~a~fsyN-~L~~mD~SLqll~ale~LnLsh-Nk~~~v~-----~Lr~l~~LkhLDlsy--N~L~~vp~l~~------  229 (1096)
T KOG1859|consen  165 KLATASFSYN-RLVLMDESLQLLPALESLNLSH-NKFTKVD-----NLRRLPKLKHLDLSY--NCLRHVPQLSM------  229 (1096)
T ss_pred             hHhhhhcchh-hHHhHHHHHHHHHHhhhhccch-hhhhhhH-----HHHhccccccccccc--chhccccccch------
Confidence            4444444433 5566666777888999999999 4555554     457889999999998  45665554221      


Q ss_pred             CCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCC---CCCCCCCcEEEEcCCc
Q 039944          252 PLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPE---KGLPSSLLELRISRCP  313 (348)
Q Consensus       252 ~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~---~~~~~~L~~L~l~~c~  313 (348)
                      ..+ .|+.|.+.+ +.++++. ++.++.+|+.||++++ -+....+   .+...+|+.|++.|+|
T Consensus       230 ~gc-~L~~L~lrn-N~l~tL~-gie~LksL~~LDlsyN-ll~~hseL~pLwsLs~L~~L~LeGNP  290 (1096)
T KOG1859|consen  230 VGC-KLQLLNLRN-NALTTLR-GIENLKSLYGLDLSYN-LLSEHSELEPLWSLSSLIVLWLEGNP  290 (1096)
T ss_pred             hhh-hheeeeecc-cHHHhhh-hHHhhhhhhccchhHh-hhhcchhhhHHHHHHHHHHHhhcCCc
Confidence            123 489999998 6777766 7889999999999984 4444333   1226789999999988

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

Probab=97.27  E-value=0.00031  Score=42.59  Aligned_cols=39  Identities=21%  Similarity=0.279  Sum_probs=26.1

Q ss_pred             CccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCC
Q 039944          256 SLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFP  296 (348)
Q Consensus       256 ~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~  296 (348)
                      +|++|++++ +.++.+|..+.++++|+.|++++| .+++++
T Consensus         2 ~L~~L~l~~-N~i~~l~~~l~~l~~L~~L~l~~N-~i~~i~   40 (44)
T PF12799_consen    2 NLEELDLSN-NQITDLPPELSNLPNLETLNLSNN-PISDIS   40 (44)
T ss_dssp             T-SEEEETS-SS-SSHGGHGTTCTTSSEEEETSS-CCSBEG
T ss_pred             cceEEEccC-CCCcccCchHhCCCCCCEEEecCC-CCCCCc
Confidence            577777777 467777766777778888888775 455543

...

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.23  E-value=0.00027  Score=60.57  Aligned_cols=182  Identities=18%  Similarity=0.169  Sum_probs=107.2

Q ss_pred             ccEEEEcCCCC--cccchhhhcCCCccceecccccccccccCCCC-CCCCCccEEEEecCCCcCc--ccccccCCCCcce
Q 039944          101 LKSLFVYGCSK--LGSIAERLDNNTSLETISIDSCGNLVSFPEGG-LPCAKLTRLTILDCKRLEA--LPKGMHNLTSLQY  175 (348)
Q Consensus       101 L~~L~l~~~~~--~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~-~~~~~L~~L~l~~~~~l~~--~~~~l~~l~~L~~  175 (348)
                      ++.+++.++..  ++++...+.++|.|+.|+++.|. +.+..... .+..+|+.|.+.+.. +.+  .-..+..+|.+++
T Consensus        73 v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~-L~s~I~~lp~p~~nl~~lVLNgT~-L~w~~~~s~l~~lP~vte  150 (418)
T KOG2982|consen   73 VKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNS-LSSDIKSLPLPLKNLRVLVLNGTG-LSWTQSTSSLDDLPKVTE  150 (418)
T ss_pred             hhhhhcccchhccHHHHHHHHhcCccceEeeccCCc-CCCccccCcccccceEEEEEcCCC-CChhhhhhhhhcchhhhh
Confidence            78888887652  33455667789999999998753 32222222 356789999998854 322  1123467888888


Q ss_pred             eEeccCCCCCccc----ccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCC
Q 039944          176 LRIGKGGALPSLE----EEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTAL  251 (348)
Q Consensus       176 L~l~~~~~~~~~~----~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~  251 (348)
                      |.++.+ .+..+-    +....-+.+++++..+|....+....  .....++++..+-+.+ |+ +.....+-     ..
T Consensus       151 lHmS~N-~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~~w~~~~--~l~r~Fpnv~sv~v~e-~P-lK~~s~ek-----~s  220 (418)
T KOG2982|consen  151 LHMSDN-SLRQLNLDDNCIEDWSTEVLTLHQLPCLEQLWLNKN--KLSRIFPNVNSVFVCE-GP-LKTESSEK-----GS  220 (418)
T ss_pred             hhhccc-hhhhhccccccccccchhhhhhhcCCcHHHHHHHHH--hHHhhcccchheeeec-Cc-ccchhhcc-----cC
Confidence            888865 222211    01112345677777776543332211  1223467777777776 43 22222211     12


Q ss_pred             CCCCCccEEEeccCCCcccccc--ccccCCCcceEeccCCCCCCCC
Q 039944          252 PLPASLTSLWIEAFPNLERLSS--SIVDLQNLTELYLFGCPKLKYF  295 (348)
Q Consensus       252 ~~~~~L~~L~l~~~~~l~~i~~--~~~~~~~L~~L~l~~c~~l~~l  295 (348)
                      ..+|.+.-|.+.. +.+.+|.+  .+..++.|..|.+.+.|-...+
T Consensus       221 e~~p~~~~LnL~~-~~idswasvD~Ln~f~~l~dlRv~~~Pl~d~l  265 (418)
T KOG2982|consen  221 EPFPSLSCLNLGA-NNIDSWASVDALNGFPQLVDLRVSENPLSDPL  265 (418)
T ss_pred             CCCCcchhhhhcc-cccccHHHHHHHcCCchhheeeccCCcccccc
Confidence            3555566667766 56666655  6777888888888887766554

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

Probab=97.21  E-value=0.00016  Score=70.97  Aligned_cols=60  Identities=23%  Similarity=0.191  Sum_probs=26.0

Q ss_pred             cCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecc
Q 039944          168 HNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISR  232 (348)
Q Consensus       168 ~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~  232 (348)
                      .++|+|..|+++++ .+..+. ..+.+++|+.|.+.+-.--.....   -.+-.+++|+.||++.
T Consensus       170 ~sFpNL~sLDIS~T-nI~nl~-GIS~LknLq~L~mrnLe~e~~~~l---~~LF~L~~L~vLDIS~  229 (699)
T KOG3665|consen  170 ASFPNLRSLDISGT-NISNLS-GISRLKNLQVLSMRNLEFESYQDL---IDLFNLKKLRVLDISR  229 (699)
T ss_pred             hccCccceeecCCC-CccCcH-HHhccccHHHHhccCCCCCchhhH---HHHhcccCCCeeeccc
Confidence            34555555555543 333332 344455555555544221110000   0233455666666654

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

Probab=97.18  E-value=3.9e-05  Score=72.77  Aligned_cols=108  Identities=22%  Similarity=0.314  Sum_probs=52.8

Q ss_pred             ccEEEEcCCCCccc--chhhhcCCCccceeccccc-ccccccC----CCCCCCCCccEEEEecCCCcCccc-ccc-cCCC
Q 039944          101 LKSLFVYGCSKLGS--IAERLDNNTSLETISIDSC-GNLVSFP----EGGLPCAKLTRLTILDCKRLEALP-KGM-HNLT  171 (348)
Q Consensus       101 L~~L~l~~~~~~~~--~~~~~~~l~~L~~L~l~~~-~~l~~~~----~~~~~~~~L~~L~l~~~~~l~~~~-~~l-~~l~  171 (348)
                      |+.+.+.+|..+..  +......++.|+.|+++.+ ......+    .....+.+|+.|++..+..+.+.- ..+ ..++
T Consensus       190 L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~~~c~  269 (482)
T KOG1947|consen  190 LKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALASRCP  269 (482)
T ss_pred             hhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHHhhCC
Confidence            66666666655554  3344455666666666542 1111111    122234566666666655433321 111 2356


Q ss_pred             CcceeEeccCCCCCc--ccccCCCCCCcCeeeecCCccc
Q 039944          172 SLQYLRIGKGGALPS--LEEEDGLPTNLQSLDIWGNMEI  208 (348)
Q Consensus       172 ~L~~L~l~~~~~~~~--~~~~~~~~~~L~~L~l~~~~~l  208 (348)
                      +|++|.+.+|..+++  +......+++|++|++++|..+
T Consensus       270 ~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~  308 (482)
T KOG1947|consen  270 NLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGL  308 (482)
T ss_pred             CcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccc
Confidence            666666555543322  2223344566666666666554

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

Probab=97.16  E-value=6.6e-05  Score=69.91  Aligned_cols=81  Identities=19%  Similarity=0.197  Sum_probs=38.7

Q ss_pred             hcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcC
Q 039944          119 LDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQ  198 (348)
Q Consensus       119 ~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~  198 (348)
                      +..+.+|+.|++.. +.+..+...+..+++|+.|+++++ .++.+ ..+..++.|+.|++.+| .+..+. .+..+++|+
T Consensus        91 l~~~~~l~~l~l~~-n~i~~i~~~l~~~~~L~~L~ls~N-~I~~i-~~l~~l~~L~~L~l~~N-~i~~~~-~~~~l~~L~  165 (414)
T KOG0531|consen   91 LSKLKSLEALDLYD-NKIEKIENLLSSLVNLQVLDLSFN-KITKL-EGLSTLTLLKELNLSGN-LISDIS-GLESLKSLK  165 (414)
T ss_pred             cccccceeeeeccc-cchhhcccchhhhhcchheecccc-ccccc-cchhhccchhhheeccC-cchhcc-CCccchhhh
Confidence            44455555555555 344444332344455555555552 34433 23444445555555554 344333 333355555


Q ss_pred             eeeecC
Q 039944          199 SLDIWG  204 (348)
Q Consensus       199 ~L~l~~  204 (348)
                      .+++++
T Consensus       166 ~l~l~~  171 (414)
T KOG0531|consen  166 LLDLSY  171 (414)
T ss_pred             cccCCc
Confidence            555555

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

Probab=97.12  E-value=0.00075  Score=40.88  Aligned_cols=39  Identities=21%  Similarity=0.360  Sum_probs=24.5

Q ss_pred             CcccEEeecCcccccccCC-CCCCCCccEEEeccCccccccc
Q 039944            6 SSLEILDIEKCHSLTYIAA-VQLPSSLKKLQICDCYNIRTLT   46 (348)
Q Consensus         6 ~~L~~L~l~~~~~l~~l~~-~~~~~~L~~L~l~~~~~l~~~~   46 (348)
                      ++|++|++++ +.++++|+ ...+++|+.|++++|. +++++
T Consensus         1 ~~L~~L~l~~-N~i~~l~~~l~~l~~L~~L~l~~N~-i~~i~   40 (44)
T PF12799_consen    1 KNLEELDLSN-NQITDLPPELSNLPNLETLNLSNNP-ISDIS   40 (44)
T ss_dssp             TT-SEEEETS-SS-SSHGGHGTTCTTSSEEEETSSC-CSBEG
T ss_pred             CcceEEEccC-CCCcccCchHhCCCCCCEEEecCCC-CCCCc
Confidence            4677777776 36667766 4557777777777775 55544

...

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.94  E-value=0.00034  Score=59.96  Aligned_cols=87  Identities=22%  Similarity=0.324  Sum_probs=51.4

Q ss_pred             CCCCccEEEeccCCCcccccc--ccccCCCcceEeccCCCCCCCCCC---CCCCCCCcEEEEcCCchhHHHhhccCCc-c
Q 039944          253 LPASLTSLWIEAFPNLERLSS--SIVDLQNLTELYLFGCPKLKYFPE---KGLPSSLLELRISRCPLIAEKCRKDGGQ-Y  326 (348)
Q Consensus       253 ~~~~L~~L~l~~~~~l~~i~~--~~~~~~~L~~L~l~~c~~l~~l~~---~~~~~~L~~L~l~~c~~l~~~~~~~~~~-~  326 (348)
                      .+|++..+.+-.|+ +++...  +...+|.+..|++.. .++.+...   ..-+++|.-|.+.+.|-.... +  +++ -
T Consensus       197 ~Fpnv~sv~v~e~P-lK~~s~ek~se~~p~~~~LnL~~-~~idswasvD~Ln~f~~l~dlRv~~~Pl~d~l-~--~~err  271 (418)
T KOG2982|consen  197 IFPNVNSVFVCEGP-LKTESSEKGSEPFPSLSCLNLGA-NNIDSWASVDALNGFPQLVDLRVSENPLSDPL-R--GGERR  271 (418)
T ss_pred             hcccchheeeecCc-ccchhhcccCCCCCcchhhhhcc-cccccHHHHHHHcCCchhheeeccCCcccccc-c--CCcce
Confidence            45667666666653 333322  556677777888876 44544322   111689999999998855432 1  222 2


Q ss_pred             ccCCCCcCEEEe-cceeec
Q 039944          327 WDLLTHIPRVEI-DWKSVF  344 (348)
Q Consensus       327 ~~~i~~~~~~~~-~~~~~~  344 (348)
                      .--|+.++.|.+ +|+-|-
T Consensus       272 ~llIaRL~~v~vLNGskIs  290 (418)
T KOG2982|consen  272 FLLIARLTKVQVLNGSKIS  290 (418)
T ss_pred             EEEEeeccceEEecCcccc
Confidence            235688888887 454443

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

Probab=96.85  E-value=0.0025  Score=51.70  Aligned_cols=103  Identities=16%  Similarity=0.244  Sum_probs=70.7

Q ss_pred             CCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccccc-
Q 039944          195 TNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS-  273 (348)
Q Consensus       195 ~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-  273 (348)
                      -+...+++.++. +....     .+.+++.|.+|.+++  +++..+....+      ..+++|+.|.+.+ +.+..+.. 
T Consensus        42 d~~d~iDLtdNd-l~~l~-----~lp~l~rL~tLll~n--NrIt~I~p~L~------~~~p~l~~L~Ltn-Nsi~~l~dl  106 (233)
T KOG1644|consen   42 DQFDAIDLTDND-LRKLD-----NLPHLPRLHTLLLNN--NRITRIDPDLD------TFLPNLKTLILTN-NSIQELGDL  106 (233)
T ss_pred             cccceecccccc-hhhcc-----cCCCccccceEEecC--Ccceeeccchh------hhccccceEEecC-cchhhhhhc
Confidence            356677777744 33332     567788888888887  77877777653      4667888999888 56766554 


Q ss_pred             -ccccCCCcceEeccCCCCCCCCCCCC-----CCCCCcEEEEcCCc
Q 039944          274 -SIVDLQNLTELYLFGCPKLKYFPEKG-----LPSSLLELRISRCP  313 (348)
Q Consensus       274 -~~~~~~~L~~L~l~~c~~l~~l~~~~-----~~~~L~~L~l~~c~  313 (348)
                       .+..||.|++|.+-++| +++.....     ..|+|+.||.++-.
T Consensus       107 ~pLa~~p~L~~Ltll~Np-v~~k~~YR~yvl~klp~l~~LDF~kVt  151 (233)
T KOG1644|consen  107 DPLASCPKLEYLTLLGNP-VEHKKNYRLYVLYKLPSLRTLDFQKVT  151 (233)
T ss_pred             chhccCCccceeeecCCc-hhcccCceeEEEEecCcceEeehhhhh
Confidence             56788899999888855 33332211     16889999988754

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

Probab=96.77  E-value=0.001  Score=65.44  Aligned_cols=80  Identities=28%  Similarity=0.313  Sum_probs=39.6

Q ss_pred             CCccEEEEecCCCcC-cccccc-cCCCCcceeEeccCCCCC-cccccCCCCCCcCeeeecCCccchhhhhccccccCCCC
Q 039944          147 AKLTRLTILDCKRLE-ALPKGM-HNLTSLQYLRIGKGGALP-SLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFS  223 (348)
Q Consensus       147 ~~L~~L~l~~~~~l~-~~~~~l-~~l~~L~~L~l~~~~~~~-~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~  223 (348)
                      .+|++|++.|...+. ..|..+ ..+|+|+.|.+.+..... ++.....++|+|+.||+++. .++...     +...++
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~T-nI~nl~-----GIS~Lk  195 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGT-NISNLS-----GISRLK  195 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCC-CccCcH-----HHhccc
Confidence            356777776632221 112222 345677777666532211 12223345666666666663 334332     345666


Q ss_pred             CccEEEecc
Q 039944          224 SLRRLTISR  232 (348)
Q Consensus       224 ~L~~L~l~~  232 (348)
                      +|+.|.+.+
T Consensus       196 nLq~L~mrn  204 (699)
T KOG3665|consen  196 NLQVLSMRN  204 (699)
T ss_pred             cHHHHhccC
Confidence            666666554

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

Probab=96.33  E-value=0.0023  Score=54.31  Aligned_cols=183  Identities=17%  Similarity=0.196  Sum_probs=98.5

Q ss_pred             ccEEEEcCCCCcccc----hhhhcCCCccceecccccc----------cccccCCCCCCCCCccEEEEecCCCcCcccc-
Q 039944          101 LKSLFVYGCSKLGSI----AERLDNNTSLETISIDSCG----------NLVSFPEGGLPCAKLTRLTILDCKRLEALPK-  165 (348)
Q Consensus       101 L~~L~l~~~~~~~~~----~~~~~~l~~L~~L~l~~~~----------~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~-  165 (348)
                      +++++++++..-+..    ...+.+-.+|+..+++..-          ++.-+...+..||+|+..++++|..-...|+ 
T Consensus        32 ~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~~~~e~  111 (388)
T COG5238          32 LVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGSEFPEE  111 (388)
T ss_pred             eeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCcccchH
Confidence            777888887754443    3334445666666665421          1111222345678888888888765444443 


Q ss_pred             ---cccCCCCcceeEeccCCCCCccc--------------ccCCCCCCcCeeeecCCccchhhhhc-cccccCCCCCccE
Q 039944          166 ---GMHNLTSLQYLRIGKGGALPSLE--------------EEDGLPTNLQSLDIWGNMEIWKSMIE-RGRGFHRFSSLRR  227 (348)
Q Consensus       166 ---~l~~l~~L~~L~l~~~~~~~~~~--------------~~~~~~~~L~~L~l~~~~~l~~~~~~-~~~~~~~l~~L~~  227 (348)
                         .++.-+.|++|.+++| ++..+.              .....-|.|+++....++ +...+.. +-..++.-.+|++
T Consensus       112 L~d~is~~t~l~HL~l~Nn-GlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNR-lengs~~~~a~~l~sh~~lk~  189 (388)
T COG5238         112 LGDLISSSTDLVHLKLNNN-GLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNR-LENGSKELSAALLESHENLKE  189 (388)
T ss_pred             HHHHHhcCCCceeEEeecC-CCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccch-hccCcHHHHHHHHHhhcCcee
Confidence               3466678888888876 443321              012334677887776643 3222211 0012333467788


Q ss_pred             EEecccCCcccccccchhccC-CCCCCCCCccEEEeccCCCcc-----ccccccccCCCcceEeccCCC
Q 039944          228 LTISRCDEDMVSFPLEDKRLG-TALPLPASLTSLWIEAFPNLE-----RLSSSIVDLQNLTELYLFGCP  290 (348)
Q Consensus       228 L~l~~~c~~l~~~~~~~~~~~-~~~~~~~~L~~L~l~~~~~l~-----~i~~~~~~~~~L~~L~l~~c~  290 (348)
                      +.+.+  +.++.  .+...+. -....+.+|+.|++..+. .+     .+...+..|+.|+.|.+.+|-
T Consensus       190 vki~q--NgIrp--egv~~L~~~gl~y~~~LevLDlqDNt-ft~~gS~~La~al~~W~~lrEL~lnDCl  253 (388)
T COG5238         190 VKIQQ--NGIRP--EGVTMLAFLGLFYSHSLEVLDLQDNT-FTLEGSRYLADALCEWNLLRELRLNDCL  253 (388)
T ss_pred             EEeee--cCcCc--chhHHHHHHHHHHhCcceeeeccccc-hhhhhHHHHHHHhcccchhhhccccchh
Confidence            87776  44331  1100000 000245678888887742 32     222345667778888888874

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

Probab=95.86  E-value=0.021  Score=46.52  Aligned_cols=79  Identities=18%  Similarity=0.218  Sum_probs=38.1

Q ss_pred             CccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccC-CCCCCcCeeeecCCccchhhhhccccccCCCCCcc
Q 039944          148 KLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEED-GLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLR  226 (348)
Q Consensus       148 ~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~  226 (348)
                      +...+++.++. +..+ +.+.+++.|.+|.+++| .++.+...+ ...++|..|.+.++. +..+...  ..+..++.|+
T Consensus        43 ~~d~iDLtdNd-l~~l-~~lp~l~rL~tLll~nN-rIt~I~p~L~~~~p~l~~L~LtnNs-i~~l~dl--~pLa~~p~L~  116 (233)
T KOG1644|consen   43 QFDAIDLTDND-LRKL-DNLPHLPRLHTLLLNNN-RITRIDPDLDTFLPNLKTLILTNNS-IQELGDL--DPLASCPKLE  116 (233)
T ss_pred             ccceecccccc-hhhc-ccCCCccccceEEecCC-cceeeccchhhhccccceEEecCcc-hhhhhhc--chhccCCccc
Confidence            45566666632 3333 34455666666666654 444443232 334556666666632 2222211  1234455555


Q ss_pred             EEEecc
Q 039944          227 RLTISR  232 (348)
Q Consensus       227 ~L~l~~  232 (348)
                      .|.+-+
T Consensus       117 ~Ltll~  122 (233)
T KOG1644|consen  117 YLTLLG  122 (233)
T ss_pred             eeeecC
Confidence            555544

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.10  E-value=0.0012  Score=56.18  Aligned_cols=97  Identities=22%  Similarity=0.191  Sum_probs=54.5

Q ss_pred             ccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCC--
Q 039944           64 LLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPE--  141 (348)
Q Consensus        64 ~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~--  141 (348)
                      +.++|++.||. +.+ +..   +        .++|. |+.|.|+=| +++.+. .+..+.+|+.|++.. +.+.++.+  
T Consensus        20 ~vkKLNcwg~~-L~D-Isi---c--------~kMp~-lEVLsLSvN-kIssL~-pl~rCtrLkElYLRk-N~I~sldEL~   82 (388)
T KOG2123|consen   20 NVKKLNCWGCG-LDD-ISI---C--------EKMPL-LEVLSLSVN-KISSLA-PLQRCTRLKELYLRK-NCIESLDELE   82 (388)
T ss_pred             HhhhhcccCCC-ccH-HHH---H--------Hhccc-ceeEEeecc-ccccch-hHHHHHHHHHHHHHh-cccccHHHHH
Confidence            56667776664 433 221   1        23355 677766633 344442 356677777777766 34444433  


Q ss_pred             CCCCCCCccEEEEecCCCcCcccc-----cccCCCCcceeE
Q 039944          142 GGLPCAKLTRLTILDCKRLEALPK-----GMHNLTSLQYLR  177 (348)
Q Consensus       142 ~~~~~~~L~~L~l~~~~~l~~~~~-----~l~~l~~L~~L~  177 (348)
                      .+.++++|+.|.|..|+....-++     .+..+|+|++|+
T Consensus        83 YLknlpsLr~LWL~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   83 YLKNLPSLRTLWLDENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             HHhcCchhhhHhhccCCcccccchhHHHHHHHHcccchhcc
Confidence            345566777777777666554433     234567777775

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.05  E-value=0.00076  Score=57.33  Aligned_cols=101  Identities=23%  Similarity=0.274  Sum_probs=63.8

Q ss_pred             CCcccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCC
Q 039944            5 NSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNE   84 (348)
Q Consensus         5 ~~~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~   84 (348)
                      +.+.+.|+..+| .+.++..+..++.|++|.|+-++ ++.+..         ++.++  +|++|+|... .+.+ +..  
T Consensus        18 l~~vkKLNcwg~-~L~DIsic~kMp~lEVLsLSvNk-IssL~p---------l~rCt--rLkElYLRkN-~I~s-ldE--   80 (388)
T KOG2123|consen   18 LENVKKLNCWGC-GLDDISICEKMPLLEVLSLSVNK-ISSLAP---------LQRCT--RLKELYLRKN-CIES-LDE--   80 (388)
T ss_pred             HHHhhhhcccCC-CccHHHHHHhcccceeEEeeccc-cccchh---------HHHHH--HHHHHHHHhc-cccc-HHH--
Confidence            456777888876 56666656668888888888887 666553         47777  8888888752 3333 222  


Q ss_pred             CCCCcceeEeccCCCCccEEEEcCCCCcccc-----hhhhcCCCccceec
Q 039944           85 LPATLESLEVGNLPLSLKSLFVYGCSKLGSI-----AERLDNNTSLETIS  129 (348)
Q Consensus        85 ~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~-----~~~~~~l~~L~~L~  129 (348)
                          |++|  .++|+ |+.|.|..|.-...-     ...+..+|+|+.|+
T Consensus        81 ----L~YL--knlps-Lr~LWL~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   81 ----LEYL--KNLPS-LRTLWLDENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             ----HHHH--hcCch-hhhHhhccCCcccccchhHHHHHHHHcccchhcc
Confidence                1222  44476 888877766543332     23345577777775

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

Probab=94.88  E-value=0.18  Score=38.24  Aligned_cols=35  Identities=26%  Similarity=0.372  Sum_probs=13.3

Q ss_pred             hcCCCccceecccccccccccCCC-CCCCCCccEEEEec
Q 039944          119 LDNNTSLETISIDSCGNLVSFPEG-GLPCAKLTRLTILD  156 (348)
Q Consensus       119 ~~~l~~L~~L~l~~~~~l~~~~~~-~~~~~~L~~L~l~~  156 (348)
                      +..+++|+.+.+...  +..++.. +..+ +|+.+.+.+
T Consensus        77 F~~~~~l~~i~~~~~--~~~i~~~~f~~~-~l~~i~~~~  112 (129)
T PF13306_consen   77 FSNCTNLKNIDIPSN--ITEIGSSSFSNC-NLKEINIPS  112 (129)
T ss_dssp             TTT-TTECEEEETTT---BEEHTTTTTT--T--EEE-TT
T ss_pred             ccccccccccccCcc--ccEEchhhhcCC-CceEEEECC
Confidence            334566666666431  3333332 2233 566665543

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

Probab=94.72  E-value=0.0064  Score=46.36  Aligned_cols=59  Identities=15%  Similarity=0.188  Sum_probs=29.3

Q ss_pred             CCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccC
Q 039944          221 RFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFG  288 (348)
Q Consensus       221 ~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~  288 (348)
                      +...|...++++  +.+..||....      ..++-++.|++.+ +.+.++|..+..++.|+.|+++.
T Consensus        51 ~~~el~~i~ls~--N~fk~fp~kft------~kf~t~t~lNl~~-neisdvPeE~Aam~aLr~lNl~~  109 (177)
T KOG4579|consen   51 KGYELTKISLSD--NGFKKFPKKFT------IKFPTATTLNLAN-NEISDVPEELAAMPALRSLNLRF  109 (177)
T ss_pred             CCceEEEEeccc--chhhhCCHHHh------hccchhhhhhcch-hhhhhchHHHhhhHHhhhccccc
Confidence            334444555555  45555554331      1233445555554 45555555555555555555555

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.53  E-value=0.0085  Score=48.68  Aligned_cols=70  Identities=24%  Similarity=0.397  Sum_probs=46.1

Q ss_pred             cCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccccc-ccccCCCcceEeccCCCCCCC
Q 039944          219 FHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGCPKLKY  294 (348)
Q Consensus       219 ~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c~~l~~  294 (348)
                      +..++.++.|.+.+ |..+.++-.+.  ++   ...++|+.|++++|+.+++-.- ++.++++|+.|.+.+.+.+..
T Consensus       121 L~~l~~i~~l~l~~-ck~~dD~~L~~--l~---~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~l~~l~~v~~  191 (221)
T KOG3864|consen  121 LRDLRSIKSLSLAN-CKYFDDWCLER--LG---GLAPSLQDLDLSGCPRITDGGLACLLKLKNLRRLHLYDLPYVAN  191 (221)
T ss_pred             Hhccchhhhheecc-ccchhhHHHHH--hc---ccccchheeeccCCCeechhHHHHHHHhhhhHHHHhcCchhhhc
Confidence            45556666677777 76665543322  11   2557888888888888875443 677788888888887655543

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

Probab=94.27  E-value=0.33  Score=36.68  Aligned_cols=34  Identities=21%  Similarity=0.264  Sum_probs=10.5

Q ss_pred             CCCCcccEEeecCcccccccCCCCC--CCCccEEEecc
Q 039944            3 DTNSSLEILDIEKCHSLTYIAAVQL--PSSLKKLQICD   38 (348)
Q Consensus         3 ~~~~~L~~L~l~~~~~l~~l~~~~~--~~~L~~L~l~~   38 (348)
                      ..+.+|+.+.+..  .++.++...|  +.+|+.+.+.+
T Consensus         9 ~~~~~l~~i~~~~--~~~~I~~~~F~~~~~l~~i~~~~   44 (129)
T PF13306_consen    9 YNCSNLESITFPN--TIKKIGENAFSNCTSLKSINFPN   44 (129)
T ss_dssp             TT-TT--EEEETS--T--EE-TTTTTT-TT-SEEEESS
T ss_pred             hCCCCCCEEEECC--CeeEeChhhcccccccccccccc
Confidence            3344444444432  2334433333  33444444443

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

Probab=93.91  E-value=0.044  Score=46.40  Aligned_cols=106  Identities=22%  Similarity=0.209  Sum_probs=52.2

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCC-CccccccCCCCCCCcceeEeccCCCCccEEEE
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCP-SLTCIFSKNELPATLESLEVGNLPLSLKSLFV  106 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~-~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l  106 (348)
                      +..|+.|.+.++. ++.+-.         +..+.  +|++|.++... ++.  +   ++    ..| +..+|+ |+++.+
T Consensus        42 ~~~le~ls~~n~g-ltt~~~---------~P~Lp--~LkkL~lsdn~~~~~--~---~l----~vl-~e~~P~-l~~l~l   98 (260)
T KOG2739|consen   42 FVELELLSVINVG-LTTLTN---------FPKLP--KLKKLELSDNYRRVS--G---GL----EVL-AEKAPN-LKVLNL   98 (260)
T ss_pred             ccchhhhhhhccc-eeeccc---------CCCcc--hhhhhcccCCccccc--c---cc----eeh-hhhCCc-eeEEee
Confidence            5566666666665 444331         34444  77777776531 111  0   01    000 122365 777777


Q ss_pred             cCCCCcccc--hhhhcCCCccceecccccccccccCC----CCCCCCCccEEEEecCC
Q 039944          107 YGCSKLGSI--AERLDNNTSLETISIDSCGNLVSFPE----GGLPCAKLTRLTILDCK  158 (348)
Q Consensus       107 ~~~~~~~~~--~~~~~~l~~L~~L~l~~~~~l~~~~~----~~~~~~~L~~L~l~~~~  158 (348)
                      ++|. +..+  ...+..+.+|..|++..|.... +..    .+.-+++|+.|+-.+..
T Consensus        99 s~Nk-i~~lstl~pl~~l~nL~~Ldl~n~~~~~-l~dyre~vf~ll~~L~~LD~~dv~  154 (260)
T KOG2739|consen   99 SGNK-IKDLSTLRPLKELENLKSLDLFNCSVTN-LDDYREKVFLLLPSLKYLDGCDVD  154 (260)
T ss_pred             cCCc-cccccccchhhhhcchhhhhcccCCccc-cccHHHHHHHHhhhhccccccccC
Confidence            7765 3222  1234456667777777764332 111    11124567777655543

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.89  E-value=0.0069  Score=49.18  Aligned_cols=66  Identities=23%  Similarity=0.351  Sum_probs=39.9

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEc
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVY  107 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~  107 (348)
                      ++.++.|.+.+|..+.+..-+       .+.. ..|+|+.|++++|+.+++ ....    .|     ..+++ |+.|.++
T Consensus       124 l~~i~~l~l~~ck~~dD~~L~-------~l~~-~~~~L~~L~lsgC~rIT~-~GL~----~L-----~~lkn-Lr~L~l~  184 (221)
T KOG3864|consen  124 LRSIKSLSLANCKYFDDWCLE-------RLGG-LAPSLQDLDLSGCPRITD-GGLA----CL-----LKLKN-LRRLHLY  184 (221)
T ss_pred             cchhhhheeccccchhhHHHH-------Hhcc-cccchheeeccCCCeech-hHHH----HH-----HHhhh-hHHHHhc
Confidence            677788888888877765433       2333 245888888888887765 3322    12     22244 6666666


Q ss_pred             CCCCc
Q 039944          108 GCSKL  112 (348)
Q Consensus       108 ~~~~~  112 (348)
                      +...+
T Consensus       185 ~l~~v  189 (221)
T KOG3864|consen  185 DLPYV  189 (221)
T ss_pred             Cchhh
Confidence            54433

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

Probab=93.15  E-value=0.0064  Score=46.35  Aligned_cols=32  Identities=16%  Similarity=0.369  Sum_probs=13.2

Q ss_pred             CccEEEEecCCCcCcccccccCCCCcceeEecc
Q 039944          148 KLTRLTILDCKRLEALPKGMHNLTSLQYLRIGK  180 (348)
Q Consensus       148 ~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~  180 (348)
                      .++.|++.+ +.+.++|..+..++.|+.+++..
T Consensus        78 t~t~lNl~~-neisdvPeE~Aam~aLr~lNl~~  109 (177)
T KOG4579|consen   78 TATTLNLAN-NEISDVPEELAAMPALRSLNLRF  109 (177)
T ss_pred             hhhhhhcch-hhhhhchHHHhhhHHhhhccccc
Confidence            344444443 23334444444444444444443

>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=92.57  E-value=0.072  Score=26.68  Aligned_cols=17  Identities=24%  Similarity=0.419  Sum_probs=7.8

Q ss_pred             ccEEEEecCCCcCccccc
Q 039944          149 LTRLTILDCKRLEALPKG  166 (348)
Q Consensus       149 L~~L~l~~~~~l~~~~~~  166 (348)
                      |+.|++++| .++.+|+.
T Consensus         2 L~~Ldls~n-~l~~ip~~   18 (22)
T PF00560_consen    2 LEYLDLSGN-NLTSIPSS   18 (22)
T ss_dssp             ESEEEETSS-EESEEGTT
T ss_pred             ccEEECCCC-cCEeCChh
Confidence            445555554 34444443

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=92.54  E-value=0.099  Score=24.34  Aligned_cols=10  Identities=20%  Similarity=0.441  Sum_probs=3.6

Q ss_pred             ccEEEeccCc
Q 039944           31 LKKLQICDCY   40 (348)
Q Consensus        31 L~~L~l~~~~   40 (348)
                      |++|++++|.
T Consensus         3 L~~L~l~~n~   12 (17)
T PF13504_consen    3 LRTLDLSNNR   12 (17)
T ss_dssp             -SEEEETSS-
T ss_pred             cCEEECCCCC
Confidence            4444444444

...

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

Probab=92.54  E-value=0.067  Score=45.30  Aligned_cols=130  Identities=19%  Similarity=0.156  Sum_probs=74.5

Q ss_pred             ccEEEEcCCCCcc-cchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCC--CcCcccccccCCCCcceeE
Q 039944          101 LKSLFVYGCSKLG-SIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCK--RLEALPKGMHNLTSLQYLR  177 (348)
Q Consensus       101 L~~L~l~~~~~~~-~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~--~l~~~~~~l~~l~~L~~L~  177 (348)
                      .+.+.+.+|.... .+.........|+.|.+.++ .+..+ ..+..+++|+.|.+++|+  -...++.-...+|+|++++
T Consensus        20 v~~l~lD~~~s~~g~~~gl~d~~~~le~ls~~n~-gltt~-~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~   97 (260)
T KOG2739|consen   20 VDELFLDNARSGAGKLGGLTDEFVELELLSVINV-GLTTL-TNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLN   97 (260)
T ss_pred             hhhhhcchhhhcCCCcccccccccchhhhhhhcc-ceeec-ccCCCcchhhhhcccCCcccccccceehhhhCCceeEEe
Confidence            4555555544322 12233334566677766653 22222 223346799999999873  2223333335569999999


Q ss_pred             eccCCC--CCcccccCCCCCCcCeeeecCCccch--hhhhccccccCCCCCccEEEecccCCcc
Q 039944          178 IGKGGA--LPSLEEEDGLPTNLQSLDIWGNMEIW--KSMIERGRGFHRFSSLRRLTISRCDEDM  237 (348)
Q Consensus       178 l~~~~~--~~~~~~~~~~~~~L~~L~l~~~~~l~--~~~~~~~~~~~~l~~L~~L~l~~~c~~l  237 (348)
                      +++|+.  +.+++ .+...++|..|++.+|....  .-..   ..+.-+++|+.|+-.+ +...
T Consensus        98 ls~Nki~~lstl~-pl~~l~nL~~Ldl~n~~~~~l~dyre---~vf~ll~~L~~LD~~d-v~~~  156 (260)
T KOG2739|consen   98 LSGNKIKDLSTLR-PLKELENLKSLDLFNCSVTNLDDYRE---KVFLLLPSLKYLDGCD-VDGE  156 (260)
T ss_pred             ecCCccccccccc-hhhhhcchhhhhcccCCccccccHHH---HHHHHhhhhccccccc-cCCc
Confidence            998632  23333 45667788888888875432  2221   2456678888887766 4443

>smart00367 LRR_CC Leucine-rich repeat - CC (cysteine-containing) subfamily

Probab=88.46  E-value=0.31  Score=25.47  Aligned_cols=16  Identities=38%  Similarity=0.632  Sum_probs=7.7

Q ss_pred             CCCcEEEEcCCchhHH
Q 039944          302 SSLLELRISRCPLIAE  317 (348)
Q Consensus       302 ~~L~~L~l~~c~~l~~  317 (348)
                      ++|++|++++|+++++
T Consensus         2 ~~L~~L~l~~C~~itD   17 (26)
T smart00367        2 PNLRELDLSGCTNITD   17 (26)
T ss_pred             CCCCEeCCCCCCCcCH
Confidence            3445555555554443

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

Probab=83.43  E-value=0.27  Score=42.23  Aligned_cols=11  Identities=18%  Similarity=0.205  Sum_probs=6.2

Q ss_pred             CcccEEeecCc
Q 039944            6 SSLEILDIEKC   16 (348)
Q Consensus         6 ~~L~~L~l~~~   16 (348)
                      ..+..++++++
T Consensus        30 d~~~evdLSGN   40 (388)
T COG5238          30 DELVEVDLSGN   40 (388)
T ss_pred             cceeEEeccCC
Confidence            34556666654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	348
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	6e-18
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-09
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-10
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-08
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-04
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-07
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-04
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	1e-06
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	8e-04
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	8e-06
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	9e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	1e-05
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-05
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-05
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	3e-05
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	3e-05
1o6v_A	466	Internalin A; bacterial infection, extracellular r	4e-05
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-04
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	6e-05
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	9e-05
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	7e-04
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	9e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	5e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-04
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	3e-04
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	7e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-04
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	4e-04
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	6e-04
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	6e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	7e-04
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	9e-04

>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 = 82.3 bits (204), Expect = 6e-18
 Identities = 60/328 (18%), Positives = 102/328 (31%), Gaps = 45/328 (13%)

Query: 6   SSLEILDIEKCHSLTYIAAVQLPSSLKKLQ------ICDCYNIRTLTVEEGIQCSSSSRR 59
           S  E L  +   +L           L + Q          ++          Q  + + R
Sbjct: 12  SGRENLYFQGSTALR-----PYHDVLSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGR 66

Query: 60  YTSSLLEHLEIISCPSLTCI-FSKNELPATLESL--EVGNLPLSLKSLFVYGCSKLGSIA 116
              +  + LE  + P    +      L         +   L   L+ + +     L  + 
Sbjct: 67  ALKATADLLEDATQPGRVALELRSVPL----PQFPDQAFRLS-HLQHMTIDAA-GLMELP 120

Query: 117 ERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGM--------- 167
           + +     LET+++     L + P       +L  L+I  C  L  LP+ +         
Sbjct: 121 DTMQQFAGLETLTLARN-PLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEH 179

Query: 168 HNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRR 227
             L +LQ LR+     + SL        NL+SL I  +      +   G   H    L  
Sbjct: 180 QGLVNLQSLRLE-WTGIRSLPASIANLQNLKSLKIRNS-----PLSALGPAIHHLPKLEE 233

Query: 228 LTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLF 287
           L +  C   + ++P             A L  L ++   NL  L   I  L  L +L L 
Sbjct: 234 LDLRGC-TALRNYPPIFGGR-------APLKRLILKDCSNLLTLPLDIHRLTQLEKLDLR 285

Query: 288 GCPKLKYFPEK-GLPSSLLELRISRCPL 314
           GC  L   P       +   + +     
Sbjct: 286 GCVNLSRLPSLIAQLPANCIILVPPHLQ 313

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

 Score = 57.6 bits (140), Expect = 1e-09
 Identities = 41/217 (18%), Positives = 71/217 (32%), Gaps = 36/217 (16%)

Query: 112 LGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLT 171
           +GS      +++  E +       L  + +     ++  R    D  R         N  
Sbjct: 1   MGSSHHHHHHSSGRENLYFQGSTALRPYHDV---LSQWQRHYNADRNRWH-SAWRQANSN 56

Query: 172 SLQYLRIGKGGALPSLEE--EDGLPTNLQSLDIWGNM--EIWKSMIERGRGFHRFSSLRR 227
           + Q      G AL +  +  ED       +L++      +             R S L+ 
Sbjct: 57  NPQIETR-TGRALKATADLLEDATQPGRVALELRSVPLPQFPDQ-------AFRLSHLQH 108

Query: 228 LTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLF 287
           +TI      ++  P   ++        A L +L + A   L  L +SI  L  L EL + 
Sbjct: 109 MTIDAA--GLMELPDTMQQF-------AGLETLTL-ARNPLRALPASIASLNRLRELSIR 158

Query: 288 GCPKLKYFPE----------KGLPSSLLELRISRCPL 314
            CP+L   PE               +L  LR+    +
Sbjct: 159 ACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGI 195

>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 = 61.2 bits (149), Expect = 2e-10
 Identities = 43/343 (12%), Positives = 90/343 (26%), Gaps = 67/343 (19%)

Query: 6   SSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLL 65
           + LE+L +   H       +  P  +      +      +  ++          ++   L
Sbjct: 105 TELEVLALGS-HGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSD--L 161

Query: 66  EHLEIISCPSLTCIFSKNELPATLESL------------EVGNLPLSLKSLFVYGCSKLG 113
               I S P    I   + +      +             V  L   L+  ++     + 
Sbjct: 162 IKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNITFVSKAVMRLT-KLRQFYMGNSPFVA 220

Query: 114 SIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSL 173
                   N + E           +          LT + + +C  L  LP  +  L  +
Sbjct: 221 ENICEAWENENSEYAQ-----QYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEM 275

Query: 174 QYLRIG--KGGALPSLEEEDGLPT------NLQSLDIWGNMEIWKSMIERGRGFHRFSSL 225
           Q + +   +G +   L+++            +Q + I  N  +    +E      +   L
Sbjct: 276 QLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYN-NLKTFPVE--TSLQKMKKL 332

Query: 226 RRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERL-----------SSS 274
             L                 +L        +  S        L  L           ++ 
Sbjct: 333 GMLECLYN------------QLEG---KLPAFGSE-----IKLASLNLAYNQITEIPANF 372

Query: 275 IVDLQNLTELYLFGCPKLKYFP---EKGLPSSLLELRISRCPL 314
               + +  L      KLKY P   +    S +  +  S   +
Sbjct: 373 CGFTEQVENLSFAHN-KLKYIPNIFDAKSVSVMSAIDFSYNEI 414

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

 Score = 54.9 bits (132), Expect = 2e-08
 Identities = 41/324 (12%), Positives = 88/324 (27%), Gaps = 42/324 (12%)

Query: 6   SSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTS--- 62
           + L++L     HS T    +     L      +  +   +  ++           +    
Sbjct: 347 TELKVLSF-GTHSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQ 405

Query: 63  -SLLEHLEIISCPSLTCIFSKNE----LPATLESL--EVGNLPLSLKSLFVYGCSKLGSI 115
            ++  + E+      + I  K+     L   +  +   +  L   L+ ++          
Sbjct: 406 DAINRNPEMKPIKKDSRISLKDTQIGNLTNRITFISKAIQRLT-KLQIIYFANS-PFTYD 463

Query: 116 AERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQY 175
              +      E  + D      +          LT + + +C  +  LP  +++L  LQ 
Sbjct: 464 NIAV----DWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQS 519

Query: 176 LRIG---------KGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLR 226
           L I                 L +++     +Q   +  N  +            +   L 
Sbjct: 520 LNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYN-NL--EEFPASASLQKMVKLG 576

Query: 227 RLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSI-VDLQNLTELY 285
            L        +            A      LT L +  +  +E +          +  L 
Sbjct: 577 LLDCVHN--KVRHLE--------AFGTNVKLTDLKL-DYNQIEEIPEDFCAFTDQVEGLG 625

Query: 286 LFGCPKLKYFPEKGLPSSLLELRI 309
                KLKY P      S+  +  
Sbjct: 626 FSHN-KLKYIPNIFNAKSVYVMGS 648

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

 Score = 42.6 bits (100), Expect = 2e-04
 Identities = 33/219 (15%), Positives = 57/219 (26%), Gaps = 32/219 (14%)

Query: 2   CDTNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYT 61
           C     +E L       L YI  +    S+  +   D    +  +    I CS    +  
Sbjct: 615 CAFTDQVEGLGFSHNK-LKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGI 673

Query: 62  SSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCS-------KLGS 114
           +     + +          S NE+     +         + ++ +            L  
Sbjct: 674 N--ASTVTL----------SYNEI-QKFPTELFATGS-PISTIILSNNLMTSIPENSLKP 719

Query: 115 IAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCK--RLEALPKGMHNLTS 172
                 N   L TI +     L S  +       L  L+ +D       + P    N + 
Sbjct: 720 KDGNYKNTYLLTTIDLRFN-KLTSLSDD-FRATTLPYLSNMDVSYNCFSSFPTQPLNSSQ 777

Query: 173 LQYLRIGKGGALPSLEEEDGLP------TNLQSLDIWGN 205
           L+   I               P       +L  L I  N
Sbjct: 778 LKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSN 816

>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 = 52.6 bits (126), Expect = 1e-07
 Identities = 68/314 (21%), Positives = 99/314 (31%), Gaps = 85/314 (27%)

Query: 5   NSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCY---------NIRTLTVEEGIQCSS 55
           N+   +L++ +   LT +    LP+ +  L I D            +RTL V        
Sbjct: 39  NNGNAVLNVGESG-LTTLPD-CLPAHITTLVIPDNNLTSLPALPPELRTLEVSG------ 90

Query: 56  SSRRYTSSLLEHL--EIISCPSLTCIF-SKNELPATLESL-----------EVGNLPLSL 101
                  + L  L         L+        LPA    L            +  LP  L
Sbjct: 91  -------NQLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPVLPPGL 143

Query: 102 KSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCK--R 159
           + L V    +L S+         L          L S P         + L  L     +
Sbjct: 144 QELSVSDN-QLASLPALPSELCKLWA----YNNQLTSLPML------PSGLQELSVSDNQ 192

Query: 160 LEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNM--EIWKSMIERGR 217
           L +LP     L  L             L     LP+ L+ L + GN    +         
Sbjct: 193 LASLPTLPSELYKLWAYNN-------RLTSLPALPSGLKELIVSGNRLTSLPVLP----- 240

Query: 218 GFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALP-LPASLTSLWIEAFPNLERLSSSIV 276
                S L+ L +S              RL T+LP LP+ L SL +     L RL  S++
Sbjct: 241 -----SELKELMVSGN------------RL-TSLPMLPSGLLSLSVY-RNQLTRLPESLI 281

Query: 277 DLQNLTELYLFGCP 290
            L + T + L G P
Sbjct: 282 HLSSETTVNLEGNP 295

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 49.3 bits (118), Expect = 1e-06
 Identities = 56/322 (17%), Positives = 107/322 (33%), Gaps = 27/322 (8%)

Query: 6   SSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLL 65
             +  L +       ++  +     L  ++  +  +      +               L 
Sbjct: 172 RDIHHLTLHLSE-SAFLLEI-FADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLA 229

Query: 66  EHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAE-RLDNNTS 124
               +++  S   +         L  +E  +   +L  L  +  S+   ++E       +
Sbjct: 230 FRGSVLTDESFNELLKLLRYILELSEVEFDDC--TLNGLGDFNPSESDVVSELGKVETVT 287

Query: 125 LETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGM-HNLTSLQYLRIG---- 179
           +  + I                 K+ R+T+ + K +  +P     +L SL++L +     
Sbjct: 288 IRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSK-VFLVPCSFSQHLKSLEFLDLSENLM 346

Query: 180 KGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVS 239
               L +   +   P +LQ+L +  N  + +SM + G       +L  L ISR       
Sbjct: 347 VEEYLKNSACKGAWP-SLQTLVLSQN-HL-RSMQKTGEILLTLKNLTSLDISRNT--FHP 401

Query: 240 FPLEDKRLGTALPLPAS---LTSLWIEAFPNLE-------RLSSSIVDLQNLTELYLFGC 289
            P   +       L  S   +  +       LE        L S  + L  L ELY+   
Sbjct: 402 MPDSCQWPEKMRFLNLSSTGIRVVKTCIPQTLEVLDVSNNNLDSFSLFLPRLQELYISRN 461

Query: 290 PKLKYFPEKGLPSSLLELRISR 311
            KLK  P+  L   LL ++ISR
Sbjct: 462 -KLKTLPDASLFPVLLVMKISR 482

>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 = 42.4 bits (100), Expect = 2e-04
 Identities = 31/188 (16%), Positives = 55/188 (29%), Gaps = 52/188 (27%)

Query: 119 LDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCK--RLEALPKGMHNLTSLQYL 176
                SL+T+ +    +L S  + G     L  LT LD        +P        +++L
Sbjct: 357 KGAWPSLQTLVLSQN-HLRSMQKTGEILLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFL 415

Query: 177 RIGKGGALPSLEEEDGLPTNLQSLDIWGN--MEIWKSMIERGRGFHRFSSLRRLTISRCD 234
            +     +  ++    +P  L+ LD+  N                     L+ L ISR  
Sbjct: 416 NLS-STGIRVVK--TCIPQTLEVLDVSNNNLDSF----------SLFLPRLQELYISRN- 461

Query: 235 EDMVSFPLEDKRLGTALPLPASLTSLWIEAF-PNLERLS-----------SSIVDLQNLT 282
                                 L +L   +  P L  +                 L +L 
Sbjct: 462 ---------------------KLKTLPDASLFPVLLVMKISRNQLKSVPDGIFDRLTSLQ 500

Query: 283 ELYLFGCP 290
           +++L   P
Sbjct: 501 KIWLHTNP 508

>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 = 48.9 bits (117), Expect = 1e-06
 Identities = 58/335 (17%), Positives = 92/335 (27%), Gaps = 80/335 (23%)

Query: 5   NSSLEILDIEKCHSLTY-------IAAVQLPSSLKKLQICDCYN--IRTLTVE-----EG 50
             + + +  E+  +LT        I  +     L  L    C +  I TL +        
Sbjct: 30  MQATDTISEEQLATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNNITTLDLSQNTNLTY 89

Query: 51  IQCSSSSRRYTSSLLEHLEIISCPSLTCI-FSKNELPATLESLEVGNLPLSLKSLFVYGC 109
           + C S+        L +L++     LT +    N+L      L+V   P  L  L     
Sbjct: 90  LACDSNK-------LTNLDVTPLTKLTYLNCDTNKL----TKLDVSQNP-LLTYLNCARN 137

Query: 110 SKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCK--RLEALPKGM 167
             L  I   + +NT L  +       +       L     T+LT LDC   ++  L    
Sbjct: 138 -TLTEID--VSHNTQLTELDCHLNKKITK-----LDVTPQTQLTTLDCSFNKITELDVS- 188

Query: 168 HNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRR 227
                L  L       +  L+        L  LD   N ++  + I+        + L  
Sbjct: 189 -QNKLLNRLNCD-TNNITKLD--LNQNIQLTFLDCSSN-KL--TEID----VTPLTQLTY 237

Query: 228 LTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSS--------IVDLQ 279
              S                         LT L +     L  L           +    
Sbjct: 238 FDCSVN----------------------PLTELDVSTLSKLTTLHCIQTDLLEIDLTHNT 275

Query: 280 NLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPL 314
            L      GC K+K          L  L      +
Sbjct: 276 QLIYFQAEGCRKIKELDVTHNT-QLYLLDCQAAGI 309

>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 = 40.1 bits (94), Expect = 8e-04
 Identities = 53/297 (17%), Positives = 100/297 (33%), Gaps = 50/297 (16%)

Query: 4   TNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSS 63
           T++++  LD+ +  +LTY+A     + L  L +     +  L  +             ++
Sbjct: 72  TSNNITTLDLSQNTNLTYLACDS--NKLTNLDVTPLTKLTYLNCD-------------TN 116

Query: 64  LLEHLEIISCPSLTCIF-SKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNN 122
            L  L++   P LT +  ++N L      ++V +    L  L  +   K+  +   +   
Sbjct: 117 KLTKLDVSQNPLLTYLNCARNTL----TEIDVSHNT-QLTELDCHLNKKITKLD--VTPQ 169

Query: 123 TSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCK--RLEALPKGMHNLTSLQYLRIGK 180
           T L T+      N ++     L  ++   L  L+C    +  L   ++    L +L    
Sbjct: 170 TQLTTLDCS--FNKIT----ELDVSQNKLLNRLNCDTNNITKLD--LNQNIQLTFLDCS- 220

Query: 181 GGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSF 240
              L  ++      T L   D   N     + ++        S L  L   + D  ++  
Sbjct: 221 SNKLTEIDVTP--LTQLTYFDCSVNP---LTELD----VSTLSKLTTLHCIQTD--LLEI 269

Query: 241 PLEDKRLGTALPLPA--SLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYF 295
            L                +  L +     L  L         +TEL L   PKL Y 
Sbjct: 270 DLTHNTQLIYFQAEGCRKIKELDVTHNTQLYLLD---CQAAGITELDLSQNPKLVYL 323

>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 = 46.3 bits (110), Expect = 8e-06
 Identities = 44/245 (17%), Positives = 85/245 (34%), Gaps = 30/245 (12%)

Query: 89  LESLEVG---NLPLSLKSLFVYGCSKLGSIAERL-DNNTSLETISIDSCGNLVSFPEGGL 144
           + ++E     +L  SL+ L +     L +++       +SL  +++       +  E  L
Sbjct: 88  INTIEEDSFSSLG-SLEHLDLSYN-YLSNLSSSWFKPLSSLTFLNLLGN-PYKTLGETSL 144

Query: 145 --PCAKLTRLTILDCKRLEALPKGM-HNLTSLQYLRIGKGGALPSLEEE--DGLPTNLQS 199
                KL  L + +      + +     LT L+ L I     L S E +    +  N+  
Sbjct: 145 FSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEID-ASDLQSYEPKSLKSI-QNVSH 202

Query: 200 LDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTS 259
           L +    +    ++         SS+  L +   D D   F         +L    +  +
Sbjct: 203 LILHMK-QH--ILLLEI-FVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRN 258

Query: 260 LWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPE---KGLPSSLLELRISR----- 311
           + I     L ++   +  +  L EL      +LK  P+     L  SL ++ +       
Sbjct: 259 VKITDES-LFQVMKLLNQISGLLELEFSRN-QLKSVPDGIFDRLT-SLQKIWLHTNPWDC 315

Query: 312 -CPLI 315
            CP I
Sbjct: 316 SCPRI 320

>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 = 46.4 bits (110), Expect = 9e-06
 Identities = 42/239 (17%), Positives = 78/239 (32%), Gaps = 32/239 (13%)

Query: 65  LEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTS 124
           + +  I +   L       +   +  SL+     LS+  +         S    + +N +
Sbjct: 249 VWYFSISNV-KLQGQLDFRDFDYSGTSLKA----LSIHQVVSDVFGFPQSYIYEIFSNMN 303

Query: 125 LETISIDSCGNLVSFPEGGLPCAKLTRLTILDC--KRLEALPKGM-HNLTSLQYLRIGKG 181
           ++  +                 +K++    LD     L         +LT L+ L + + 
Sbjct: 304 IKNFT---VSGTRMVHML--CPSKISPFLHLDFSNNLLTDTVFENCGHLTELETLIL-QM 357

Query: 182 GALPSLEEEDGL---PTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMV 238
             L  L +   +     +LQ LDI  N     S  E+        SL  L +S       
Sbjct: 358 NQLKELSKIAEMTTQMKSLQQLDISQN---SVSYDEKKGDCSWTKSLLSLNMSSNILTDT 414

Query: 239 SFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPE 297
            F            LP  +  L +     ++ +   +V L+ L EL +    +LK  P+
Sbjct: 415 IFRC----------LPPRIKVLDLH-SNKIKSIPKQVVKLEALQELNVASN-QLKSVPD 461

>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 = 46.0 bits (108), Expect = 1e-05
 Identities = 51/378 (13%), Positives = 100/378 (26%), Gaps = 125/378 (33%)

Query: 48  EEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKS---L 104
            E  Q S  +R Y     +   + +      +F+K  +      L++    L L+    +
Sbjct: 100 TEQRQPSMMTRMYIE---QRDRLYNDNQ---VFAKYNVSRLQPYLKLRQALLELRPAKNV 153

Query: 105 FVYG---CSKLGSIAERLDNNTSLETISIDSCGN---LVSFPEGGLPCAKLTRLTILDCK 158
            + G     K           T +   ++D C +                   L + +C 
Sbjct: 154 LIDGVLGSGK-----------TWV---ALDVCLSYKVQCKMDFKIF------WLNLKNCN 193

Query: 159 RLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSL------------------ 200
             E + + +  L      +I         +    +   + S+                  
Sbjct: 194 SPETVLEMLQKL----LYQIDPNWT-SRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL 248

Query: 201 ---DIWGNMEIWK-----------------------------SMIERGRGFHRFSSLRRL 228
              ++  N + W                              S+               L
Sbjct: 249 VLLNVQ-NAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL 307

Query: 229 TISRC-DEDMVSFPLEDKRLGTALPLPASLTSLWIEAFP---------NLERLSSSI-VD 277
              +  D      P E     T  P   S+ +  I             N ++L++ I   
Sbjct: 308 --LKYLDCRPQDLPREVL---TTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS 362

Query: 278 LQNLT-----ELYLFGCPKLKYFPEK-GLPSSLLEL----RISRCP-LIAEKCRKDG--- 323
           L  L      +++     +L  FP    +P+ LL L     I     ++  K  K     
Sbjct: 363 LNVLEPAEYRKMFD----RLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVE 418

Query: 324 GQYWDLLTHIPRVEIDWK 341
            Q  +    IP + ++ K
Sbjct: 419 KQPKESTISIPSIYLELK 436

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 45.5 bits (108), Expect = 1e-05
 Identities = 42/242 (17%), Positives = 84/242 (34%), Gaps = 58/242 (23%)

Query: 96  NLPLSLKSLFVYGCSKLGSIAER-LDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTI 154
            +  + + L ++   ++  I      +   LE + +    ++ +   G      L  L  
Sbjct: 61  GISTNTRLLNLHEN-QIQIIKVNSFKHLRHLEILQLSRN-HIRTIEIGAF--NGLANLNT 116

Query: 155 LDCK--RLEALPKGM-HNLTSLQYLRIGKGGALPSLEEE--DGLPTNLQSLDIWGNMEIW 209
           L+    RL  +P G    L+ L+ L +     + S+     + +P +L+ LD+     + 
Sbjct: 117 LELFDNRLTTIPNGAFVYLSKLKELWLR-NNPIESIPSYAFNRIP-SLRRLDLGELKRL- 173

Query: 210 KSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLE 269
            S I  G  F   S+LR L ++ C                      +L    I     L 
Sbjct: 174 -SYISEG-AFEGLSNLRYLNLAMC----------------------NLRE--IPNLTPLI 207

Query: 270 RL--------------SSSIVDLQNLTELYLFGCPKLKYFPE---KGLPSSLLELRISRC 312
           +L                S   L +L +L++    +++         L  SL+E+ ++  
Sbjct: 208 KLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQS-QIQVIERNAFDNLQ-SLVEINLAHN 265

Query: 313 PL 314
            L
Sbjct: 266 NL 267

>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 = 45.5 bits (108), Expect = 2e-05
 Identities = 53/243 (21%), Positives = 90/243 (37%), Gaps = 31/243 (12%)

Query: 81  SKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAER-LDNNTSLETISIDSCGNLVSF 139
            KN +  TL   E  + P  L+ L +     + ++     +N  +L T+ + S   L   
Sbjct: 40  GKNRI-KTLNQDEFASFP-HLEELELNEN-IVSAVEPGAFNNLFNLRTLGLRSN-RLKLI 95

Query: 140 PEGGLPCAKLTRLTILDCK--RLEALPKGM-HNLTSLQYLRIGKGGALPSLEEE--DGLP 194
           P G      L+ LT LD    ++  L   M  +L +L+ L +G    L  +      GL 
Sbjct: 96  PLGVF--TGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVG-DNDLVYISHRAFSGLN 152

Query: 195 TNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLP 254
            +L+ L +     +  + I           L  L +           +   R  +   L 
Sbjct: 153 -SLEQLTLEKC-NL--TSIPTE-ALSHLHGLIVLRLRHL-------NINAIRDYSFKRLY 200

Query: 255 ASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPE---KGLPSSLLELRISR 311
             L  L I  +P L+ ++ + +   NLT L +  C  L   P    + L   L  L +S 
Sbjct: 201 -RLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHC-NLTAVPYLAVRHLV-YLRFLNLSY 257

Query: 312 CPL 314
            P+
Sbjct: 258 NPI 260

>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 = 45.3 bits (108), Expect = 2e-05
 Identities = 44/266 (16%), Positives = 74/266 (27%), Gaps = 84/266 (31%)

Query: 69  EIISCPSLTCI-FSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLD---NNTS 124
            + SC  L  +  S N L    +      L  SL+ L +   S  G+             
Sbjct: 121 SLGSCSGLKFLNVSSNTLDFPGKVSGGLKLN-SLEVLDLSANSISGANVVGWVLSDGCGE 179

Query: 125 LETISIDSCGNLVSFPEGGLPCAKLTRLTILD---------------CKRLEAL------ 163
           L+ ++I     +     G +  ++   L  LD               C  L+ L      
Sbjct: 180 LKHLAISGN-KI----SGDVDVSRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNK 234

Query: 164 -----PKGMHNLTSLQYLRIGK---GGALPSLEEEDGLPTNLQSLDIWGNM---EIWKSM 212
                 + +   T L+ L I      G +P          +LQ L +  N    EI   +
Sbjct: 235 LSGDFSRAISTCTELKLLNISSNQFVGPIPP-----LPLKSLQYLSLAENKFTGEIPDFL 289

Query: 213 IERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLS 272
                      +L  L +S                     +P    S        LE L+
Sbjct: 290 ------SGACDTLTGLDLSGNH-------FYG-------AVPPFFGSC-----SLLESLA 324

Query: 273 ------------SSIVDLQNLTELYL 286
                        +++ ++ L  L L
Sbjct: 325 LSSNNFSGELPMDTLLKMRGLKVLDL 350

>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 = 44.7 bits (106), Expect = 3e-05
 Identities = 39/242 (16%), Positives = 78/242 (32%), Gaps = 58/242 (23%)

Query: 96  NLPLSLKSLFVYGCSKLGSIAER-LDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTI 154
            +P + + L +   + +  I      +   LE + +    ++     G      L  L  
Sbjct: 72  GIPSNTRYLNLME-NNIQMIQADTFRHLHHLEVLQLGRN-SIRQIEVGAF--NGLASLNT 127

Query: 155 LDCK--RLEALPKGM-HNLTSLQYLRIGKGGALPSLEEE--DGLPTNLQSLDIWGNMEIW 209
           L+     L  +P G    L+ L+ L +     + S+     + +P +L  LD+    ++ 
Sbjct: 128 LELFDNWLTVIPSGAFEYLSKLRELWLR-NNPIESIPSYAFNRVP-SLMRLDLGELKKL- 184

Query: 210 KSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLE 269
              I  G  F    +L+ L +  C                      ++    +     L 
Sbjct: 185 -EYISEG-AFEGLFNLKYLNLGMC----------------------NIKD--MPNLTPLV 218

Query: 270 RL--------------SSSIVDLQNLTELYLFGCPKLKYFPEK---GLPSSLLELRISRC 312
            L                S   L +L +L++    ++         GL  SL+EL ++  
Sbjct: 219 GLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNS-QVSLIERNAFDGLA-SLVELNLAHN 276

Query: 313 PL 314
            L
Sbjct: 277 NL 278

>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 = 44.9 bits (106), Expect = 3e-05
 Identities = 49/264 (18%), Positives = 80/264 (30%), Gaps = 34/264 (12%)

Query: 65  LEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLG----SIAERLD 120
            + L + SC   +           L ++       +LK L +            ++   D
Sbjct: 132 FKVLVLSSCEGFS--------TDGLAAIAATCR--NLKELDLRESDVDDVSGHWLSHFPD 181

Query: 121 NNTSLETISIDSCGNLVSFPEGGLP-----CAKLTRLTILDCKRLEALPKGMHNLTSLQY 175
             TSL +++I    + VSF    L      C  L  L +     LE L   +     L+ 
Sbjct: 182 TYTSLVSLNISCLASEVSF--SALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEE 239

Query: 176 LRIGKGGALPSLEEEDGLPTNLQSL----DIWGNMEIWKSMIERGRGFHRFSSLRRLTIS 231
           L  G   A    +   GL   L        + G  +   + +     +   S L  L +S
Sbjct: 240 LGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAV--YSVCSRLTTLNLS 297

Query: 232 RCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPK 291
                     ++   L   L     L  LW+  +     L       ++L EL +F    
Sbjct: 298 YA-------TVQSYDLVKLLCQCPKLQRLWVLDYIEDAGLEVLASTCKDLRELRVFPSEP 350

Query: 292 LKYFPEKGLPSSLLELRISRCPLI 315
               P   L    L      CP +
Sbjct: 351 FVMEPNVALTEQGLVSVSMGCPKL 374

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 44.2 bits (105), Expect = 4e-05
 Identities = 57/331 (17%), Positives = 108/331 (32%), Gaps = 77/331 (23%)

Query: 6   SSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLL 65
             +  L  ++   +  I  V+  ++L ++   +   +  +T                   
Sbjct: 46  DQVTTLQADRL-GIKSIDGVEYLNNLTQINFSNN-QLTDIT------------------- 84

Query: 66  EHLEIISCPSLTCI-FSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTS 124
               + +   L  I  + N++ A +  L   NL  +L  L ++   ++  I + L N T+
Sbjct: 85  ---PLKNLTKLVDILMNNNQI-ADITPL--ANLT-NLTGLTLFNN-QITDI-DPLKNLTN 135

Query: 125 LETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGAL 184
           L  + + S   +            LT L  L         K + NLT+L+ L I     +
Sbjct: 136 LNRLELSSN-TISDISALS----GLTSLQQLSFGNQVTDLKPLANLTTLERLDIS-SNKV 189

Query: 185 PSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCD-EDMVSFPLE 243
             +     L TNL+SL    N       I         ++L  L+++    +D+ +    
Sbjct: 190 SDISVLAKL-TNLESLIATNNQ------ISDITPLGILTNLDELSLNGNQLKDIGTL--- 239

Query: 244 DKRLGTALPLPASLTSLW-----------IEAFPNLERLS---------SSIVDLQNLTE 283
                 +L    +LT L            +     L  L          S +  L  LT 
Sbjct: 240 -----ASLT---NLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTN 291

Query: 284 LYLFGCPKLKYFPEKGLPSSLLELRISRCPL 314
           L L    +L+         +L  L +    +
Sbjct: 292 LELNEN-QLEDISPISNLKNLTYLTLYFNNI 321

>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 = 42.6 bits (101), Expect = 1e-04
 Identities = 57/309 (18%), Positives = 113/309 (36%), Gaps = 58/309 (18%)

Query: 6   SSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLL 65
           ++L  L +     +T I  +    +L  L   +  +     +      +S  +    + +
Sbjct: 112 TNLTGLTLFNNQ-ITDIDPL---KNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQV 167

Query: 66  EHLEIIS-CPSLTCIF-SKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNT 123
             L+ ++   +L  +  S N++ + +  L    L  +L+SL      ++  I   L   T
Sbjct: 168 TDLKPLANLTTLERLDISSNKV-SDISVL--AKLT-NLESLIATNN-QISDITP-LGILT 221

Query: 124 SLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCK--RLEALPKGMHNLTSLQYLRIGKG 181
           +L+ +S++    L          A LT LT LD    ++  L   +  LT L  L++G  
Sbjct: 222 NLDELSLNGN-QLKDIG----TLASLTNLTDLDLANNQISNLA-PLSGLTKLTELKLG-A 274

Query: 182 GALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFP 241
             + ++    GL T L +L++  N       +E         +L  LT+   +   +S P
Sbjct: 275 NQISNISPLAGL-TALTNLELNENQ------LEDISPISNLKNLTYLTLYFNNISDIS-P 326

Query: 242 LEDKRLGTALPLPASLTSLW-----------IEAFPNLERLS---------SSIVDLQNL 281
           +          L   L  L+           +    N+  LS         + + +L  +
Sbjct: 327 VSS--------LT-KLQRLFFYNNKVSDVSSLANLTNINWLSAGHNQISDLTPLANLTRI 377

Query: 282 TELYLFGCP 290
           T+L L    
Sbjct: 378 TQLGLNDQA 386

>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 = 43.3 bits (102), Expect = 9e-05
 Identities = 52/335 (15%), Positives = 97/335 (28%), Gaps = 46/335 (13%)

Query: 5   NSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSL 64
           N  LEILD+      T        +++ K Q         +                   
Sbjct: 203 NMVLEILDVSGNG-WTVDITGNFSNAISKSQAFSLILAHHIMGA-----GFGFHNIKDPD 256

Query: 65  LEHLEIISCPSLTCI-FSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAER-LDNN 122
                 ++  S+  +  S   +  +L S     L   LK L +    K+  IA+      
Sbjct: 257 QNTFAGLARSSVRHLDLSHGFV-FSLNSRVFETLK-DLKVLNLAYN-KINKIADEAFYGL 313

Query: 123 TSLETISIDSCGNLVSFPEG---GLPCAKLTRLTILDCKRLEALPKGM-HNLTSLQYL-- 176
            +L+ +++     L         GLP  K+  + +     +  +       L  LQ L  
Sbjct: 314 DNLQVLNLSYN-LLGELYSSNFYGLP--KVAYIDLQKNH-IAIIQDQTFKFLEKLQTLDL 369

Query: 177 ---RIGKGGALPSLEE---EDGLPTNLQSLDIWGN----MEIWKSMIERGRGFHRFSSLR 226
               +     +PS+ +          L  +++  N     E     ++      R   L+
Sbjct: 370 RDNALTTIHFIPSIPDIFLSGNKLVTLPKINLTANLIHLSENRLENLDILYFLLRVPHLQ 429

Query: 227 RLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLW-----IEAFPNLERLSSSIVDLQNL 281
            L +++                       SL  L+     ++     E        L +L
Sbjct: 430 ILILNQNR-------FSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSHL 482

Query: 282 TELYLFGCPKLKYFPEKGLP--SSLLELRISRCPL 314
             LYL     L   P       ++L  L ++   L
Sbjct: 483 QVLYLNHN-YLNSLPPGVFSHLTALRGLSLNSNRL 516

>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 = 40.6 bits (95), Expect = 7e-04
 Identities = 41/216 (18%), Positives = 76/216 (35%), Gaps = 33/216 (15%)

Query: 6   SSLEILDIEKCHSLTYIAAVQLP--SSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSS 63
             +  +D++K H +  I          L+ L + D            +            
Sbjct: 338 PKVAYIDLQKNH-IAIIQDQTFKFLEKLQTLDLRDN----------ALTTIHFIPSIPDI 386

Query: 64  LLEHLEIISCPSLTCIFSKNEL---PATLESLEVGNLPLSLKSLFVYGCS--KLGSIAER 118
            L   ++++ P +    + N +      LE+L++    L +  L +   +  +  S +  
Sbjct: 387 FLSGNKLVTLPKIN--LTANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGD 444

Query: 119 --LDNNTSLETISIDSCG----NLVSFPEGGLPCAKLTRLTILDCK--RLEALPKGM-HN 169
                N SLE + +                      L+ L +L      L +LP G+  +
Sbjct: 445 QTPSENPSLEQLFLGENMLQLAWETELCWDVFEG--LSHLQVLYLNHNYLNSLPPGVFSH 502

Query: 170 LTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGN 205
           LT+L+ L +     L  L   + LP NL+ LDI  N
Sbjct: 503 LTALRGLSLN-SNRLTVLSH-NDLPANLEILDISRN 536

>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 = 42.7 bits (101), Expect = 9e-05
 Identities = 21/146 (14%), Positives = 45/146 (30%), Gaps = 17/146 (11%)

Query: 96  NLPLSLKSLFVYGCSKLGSIAER-LDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTI 154
            LP SL  L + G  K+  +    L    +L  + +    ++ +   G L  A    L  
Sbjct: 189 GLPPSLTELHLDGN-KITKVDAASLKGLNNLAKLGLSFN-SISAVDNGSL--ANTPHLRE 244

Query: 155 LDCK--RLEALPKGMHNLTSLQYLRIG-------KGGALPSLEEEDGLPTNLQSLDIWGN 205
           L     +L  +P G+ +   +Q + +                        +   + ++ N
Sbjct: 245 LHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKA-SYSGVSLFSN 303

Query: 206 MEIWKSMIERGRGFHRFSSLRRLTIS 231
             +    I+    F        + + 
Sbjct: 304 -PVQYWEIQPS-TFRCVYVRAAVQLG 327

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 40.4 bits (95), Expect = 5e-04
 Identities = 32/180 (17%), Positives = 59/180 (32%), Gaps = 44/180 (24%)

Query: 135 NLVSFPEGGLPCAKLTRLTILD--CKRLEALPKGM-HNLTSLQYLRIGKGGALPSLEEED 191
            +    +G      L  L  L     ++  +  G    L  L+ L +     L  L E  
Sbjct: 63  KITEIKDGDF--KNLKNLHTLILINNKISKISPGAFAPLVKLERLYLS-KNQLKELPE-- 117

Query: 192 GLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTAL 251
            +P  LQ L +  N EI  + + +   F+  + +  + +                     
Sbjct: 118 KMPKTLQELRVHEN-EI--TKVRKS-VFNGLNQMIVVELGTN------------------ 155

Query: 252 PLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISR 311
                L S  IE        + +   ++ L+ + +     +   P +GLP SL EL +  
Sbjct: 156 ----PLKSSGIE--------NGAFQGMKKLSYIRIADT-NITTIP-QGLPPSLTELHLDG 201

>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 = 41.8 bits (98), Expect = 2e-04
 Identities = 46/341 (13%), Positives = 95/341 (27%), Gaps = 85/341 (24%)

Query: 37  CDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCI-FSKNELPATLESLEVG 95
           C   N++   V   +     ++     +    E I+  +   + F  + +   L +  + 
Sbjct: 18  CIDSNLQYDCVFYDVHIDMQTQ----DVYFGFEDITLNNQKIVTFKNSTM-RKLPAALLD 72

Query: 96  NLPLSLKSLFVYGCSKLGSIAER-LDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTI 154
           +    ++ L +    ++  I         +++ + +     +   P        +  LT+
Sbjct: 73  SFR-QVELLNLNDL-QIEEIDTYAFAYAHTIQKLYMGFN-AIRYLPPHVF--QNVPLLTV 127

Query: 155 LDCK--RLEALPKGM-HNLTSLQYL--------RIGKG--GALPSLEE-----------E 190
           L  +   L +LP+G+ HN   L  L        RI      A  SL+            +
Sbjct: 128 LVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVD 187

Query: 191 DGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFP--------- 241
             L  +L   ++  N                  ++  L  S    ++V  P         
Sbjct: 188 LSLIPSLFHANVSYN---------LLSTLAIPIAVEELDASHNSINVVRGPVNVELTILK 238

Query: 242 LEDKRLGTALPLPASLTSLWI-------------EAFPNLERL-------------SSSI 275
           L+   L T      +   L                 F  ++RL             +   
Sbjct: 239 LQHNNL-TDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYG 297

Query: 276 VDLQNLTELYLFGCPKLKYFPE--KGLPSSLLELRISRCPL 314
             +  L  L L     L +           L  L +    +
Sbjct: 298 QPIPTLKVLDLSHN-HLLHVERNQPQFD-RLENLYLDHNSI 336

>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 = 41.5 bits (97), Expect = 3e-04
 Identities = 35/262 (13%), Positives = 74/262 (28%), Gaps = 43/262 (16%)

Query: 7   SLEILDIEKC--HSLTYIAAVQLPSSLKKLQ-----ICDCYNIRTLTVEEGIQCSSSSRR 59
            ++ L +E+            +L      L+     + +   I    +E   +   S   
Sbjct: 165 KIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRS--- 221

Query: 60  YTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNL------------PLSLKSLFVY 107
                L  +++     L  +         LE    G+L             +  + L   
Sbjct: 222 -----LVSVKVGDFEILELVGFFKAAAN-LEEFCGGSLNEDIGMPEKYMNLVFPRKLCRL 275

Query: 108 GCSKLG--SIAERLDNNTSLETISIDSCGNLV-SFPEGGLPCAKLTRLTILDCKRLEALP 164
           G S +G   +         +  + +                C  L  L   +      L 
Sbjct: 276 GLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGLE 335

Query: 165 KGMHNLTSLQYLRIGKGGALPSLEEEDGLPT------------NLQSLDIWGNMEIWKSM 212
                   L+ LRI +G     +E+E+GL +             L+ + ++ +    +S+
Sbjct: 336 VLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVSDITNESL 395

Query: 213 IERGRGFHRFSSLRRLTISRCD 234
              G         R + + R +
Sbjct: 396 ESIGTYLKNLCDFRLVLLDREE 417

>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 = 40.3 bits (94), Expect = 7e-04
 Identities = 43/317 (13%), Positives = 86/317 (27%), Gaps = 35/317 (11%)

Query: 6   SSLEILDIEKCHSLTYIAAVQLPSSLKKLQI-----CDCYNIRTLTVEEGIQCSSSSRRY 60
             LE L ++KC   T    + + +  +K++                + E  Q ++S    
Sbjct: 138 DDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVL 197

Query: 61  TSSLLEHLEI---------ISCPSLTCIFSKNELPATLESLEVGNLPL-SLKSLFVYGCS 110
              + E  +I          +C SL  +   +     L         L       +    
Sbjct: 198 NFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDI 257

Query: 111 KLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRL-EALPKGMHN 169
            +      L     L  + +   G     P      A++ +L +L      E     +  
Sbjct: 258 GMPEKYMNLVFPRKLCRLGLSYMGPN-EMPILFPFAAQIRKLDLLYALLETEDHCTLIQK 316

Query: 170 LTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGR----GFHRFS-- 223
             +L+ L          LE        L+ L I    +      E G     G    +  
Sbjct: 317 CPNLEVLETRNVIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQG 376

Query: 224 --SLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNL------ERLSSSI 275
              L  + +   D    S     + +GT L        + ++    +        + S +
Sbjct: 377 CQELEYMAVYVSDITNESL----ESIGTYLKNLCDFRLVLLDREERITDLPLDNGVRSLL 432

Query: 276 VDLQNLTELYLFGCPKL 292
           +  + L     +     
Sbjct: 433 IGCKKLRRFAFYLRQGG 449

>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 = 41.2 bits (97), Expect = 4e-04
 Identities = 47/267 (17%), Positives = 77/267 (28%), Gaps = 62/267 (23%)

Query: 72  SCPSLTCIF-SKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAER-LDNNTSLETIS 129
               L  +  +   L      L    L  +LK L +    K  ++ +    N  SL  +S
Sbjct: 276 CFSGLQELDLTATHLSELPSGL--VGLS-TLKKLVLSAN-KFENLCQISASNFPSLTHLS 331

Query: 130 IDSCGNLVSFPEGGLPCAKLTRLTILD-----CKRLEALPKGMHNLTSLQYLRIGKGGAL 184
           I      +    G L    L  L  LD      +  +     + NL+ LQ L +      
Sbjct: 332 IKGNTKRLELGTGCL--ENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLS-YNEP 388

Query: 185 PSLEEE--DGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPL 242
            SL+ E     P  L+ LD+     +   + +    F     L+ L +S           
Sbjct: 389 LSLKTEAFKECP-QLELLDLAFT-RL--KVKDAQSPFQNLHLLKVLNLSHS--------- 435

Query: 243 EDKRLGTALPLPASLTSLWIEAFPNLERL-----------------SSSIVDLQNLTELY 285
                         L     + F  L  L                 ++S+  L  L  L 
Sbjct: 436 -------------LLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILV 482

Query: 286 LFGCPKLKYFPEKGLP--SSLLELRIS 310
           L  C  L    +        +  + +S
Sbjct: 483 LSFC-DLSSIDQHAFTSLKMMNHVDLS 508

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 41.2 bits (97), Expect = 4e-04
 Identities = 54/342 (15%), Positives = 105/342 (30%), Gaps = 90/342 (26%)

Query: 6   SSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCY--NIRTLTVEEGIQCSSSSR----- 58
             L++LD +    + Y++  +  SSL++               +E G   S+  +     
Sbjct: 153 EKLKVLDFQNNA-IHYLSK-EDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFG 210

Query: 59  --RYTSSLLEHLEIISCPSLTCI-FSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSI 115
             +    + + L+  +  SL    F   +      ++  G   +S++S+           
Sbjct: 211 GTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESI----------- 259

Query: 116 AERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCK--RLEALPKGMHNLTSL 173
              L  +     IS ++                 + L  LD     L  LP G+  L++L
Sbjct: 260 --NLQKH-YFFNISSNTFHCF-------------SGLQELDLTATHLSELPSGLVGLSTL 303

Query: 174 QYLRIGK-------GGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLR 226
           + L +           +  +         +L  L I GN +     +  G       +LR
Sbjct: 304 KKLVLSANKFENLCQISASNF-------PSLTHLSIKGNTKR--LELGTG-CLENLENLR 353

Query: 227 RLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERL-----------SSSI 275
            L +S               + T+      L +L      +L+ L           + + 
Sbjct: 354 ELDLSHD------------DIETSDCCNLQLRNL-----SHLQSLNLSYNEPLSLKTEAF 396

Query: 276 VDLQNLTELYLFGCPKLKYFPEKGL---PSSLLELRISRCPL 314
            +   L  L L    +LK    +        L  L +S   L
Sbjct: 397 KECPQLELLDLAFT-RLKVKDAQSPFQNLHLLKVLNLSHSLL 437

>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 = 40.6 bits (95), Expect = 4e-04
 Identities = 38/178 (21%), Positives = 57/178 (32%), Gaps = 21/178 (11%)

Query: 143 GLPCAKLTRLTILDCKRLEALPKGM-HNLTSLQYLRIGKGGALPSLEEE--DGLPTNLQS 199
           G     L ++ I     LE +   +  NL  L  +RI K   L  +  E    LP NLQ 
Sbjct: 52  GFG--DLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLP-NLQY 108

Query: 200 LDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTS 259
           L I     I    +              L I           +      + + L      
Sbjct: 109 LLISNT-GI--KHLPDVH-KIHSLQKVLLDIQDNIN------IHTIERNSFVGLSFESVI 158

Query: 260 LWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPE---KGLPSSLLELRISRCPL 314
           LW+     ++ + +S  +   L EL L     L+  P     G     + L ISR  +
Sbjct: 159 LWLN-KNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGAS-GPVILDISRTRI 214

>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 = 40.9 bits (95), Expect = 6e-04
 Identities = 41/241 (17%), Positives = 86/241 (35%), Gaps = 50/241 (20%)

Query: 6   SSLEILDIEKCHSLTYIAAVQLPSSLKKL-----QICDCYNIRTLTVEEGIQCSSSSRRY 60
           +S++ +       +  +  +Q   ++ KL     ++ D   +  L               
Sbjct: 43  NSIDQIIANNSD-IKSVQGIQYLPNVTKLFLNGNKLTDIKPLTNLK-------------- 87

Query: 61  TSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLD 120
               L  L             +N++   L SL+  +L   LKSL +     +  I   L 
Sbjct: 88  ---NLGWL----------FLDENKI-KDLSSLK--DLK-KLKSLSLEHN-GISDI-NGLV 128

Query: 121 NNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCK--RLEALPKGMHNLTSLQYLRI 178
           +   LE++ +    N ++        ++LT+L  L  +  ++  +   +  LT LQ L +
Sbjct: 129 HLPQLESLYLG--NNKITDIT---VLSRLTKLDTLSLEDNQISDIV-PLAGLTKLQNLYL 182

Query: 179 GKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMV 238
                +  L    GL  NL  L+++   E     I         ++++    S    +++
Sbjct: 183 S-KNHISDLRALAGL-KNLDVLELFSQ-ECLNKPINHQSNLVVPNTVKNTDGSLVTPEII 239

Query: 239 S 239
           S
Sbjct: 240 S 240

>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 = 40.4 bits (95), Expect = 6e-04
 Identities = 49/231 (21%), Positives = 73/231 (31%), Gaps = 38/231 (16%)

Query: 96  NLPLSLKSLFVYGCSKLGSIAER-LDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTI 154
            +P S   L +    KL S+     D  T L  +S+ S   L             T L  
Sbjct: 25  GIPSSATRLELESN-KLQSLPHGVFDKLTQLTKLSLSSN-GLSFKGCCSQSDFGTTSLKY 82

Query: 155 LDCK--RLEALPKGMHNLTSLQYL--------RIGKGGALPSLEEEDGLPTNLQSLDIWG 204
           LD     +  +      L  L++L        ++ +     SL        NL  LDI  
Sbjct: 83  LDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSL-------RNLIYLDISH 135

Query: 205 NMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEA 264
                  +   G  F+  SSL  L ++           ++  L        +LT L +  
Sbjct: 136 T-HT--RVAFNGI-FNGLSSLEVLKMAGN-------SFQENFLPDIFTELRNLTFLDLS- 183

Query: 265 FPNLERLSSSI-VDLQNLTELYLFGCPKLKYFPE---KGLPSSLLELRISR 311
              LE+LS +    L +L  L +              K L  SL  L  S 
Sbjct: 184 QCQLEQLSPTAFNSLSSLQVLNMSHN-NFFSLDTFPYKCLN-SLQVLDYSL 232

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 40.3 bits (94), Expect = 7e-04
 Identities = 45/272 (16%), Positives = 74/272 (27%), Gaps = 52/272 (19%)

Query: 31  LKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLE 90
              L     YN  + T  +         +         E +S         K  L     
Sbjct: 10  NFSLSQNSFYNTISGTYADYFSAWDKWEKQALPGENRNEAVSLL-------KECLINQFS 62

Query: 91  SLEVGNLPL---------SLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPE 141
            L++  L L          +  L +     L S+ E   +   L+         L + PE
Sbjct: 63  ELQLNRLNLSSLPDNLPPQITVLEITQN-ALISLPELPASLEYLDA----CDNRLSTLPE 117

Query: 142 GGLPCAKLTRLTILDCK--RLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQS 199
                     L  LD    +L  LP+    L  +      +   LP L      PT+L+ 
Sbjct: 118 ------LPASLKHLDVDNNQLTMLPELPALLEYI-NADNNQLTMLPEL------PTSLEV 164

Query: 200 LDIWGN-MEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLT 258
           L +  N +     + E         SL  L +S     + S P              +  
Sbjct: 165 LSVRNNQLTFLPELPE---------SLEALDVSTNL--LESLPAV---PVRNHHSEETEI 210

Query: 259 SLWIEAFPNLERLSSSIVDLQNLTELYLFGCP 290
                    +  +  +I+ L     + L   P
Sbjct: 211 FFRCRE-NRITHIPENILSLDPTCTIILEDNP 241

>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 = 40.2 bits (94), Expect = 9e-04
 Identities = 33/224 (14%), Positives = 72/224 (32%), Gaps = 19/224 (8%)

Query: 63  SLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNN 122
             +E+L I +  ++T    + E   +  +L+     L ++ +              +   
Sbjct: 276 RPVEYLNIYNL-TITERIDREEFTYSETALKS----LMIEHVKNQVFLFSKEALYSVFAE 330

Query: 123 TSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGG 182
            +++ +SI     +          +  T L        +++ +G   L  LQ L + +  
Sbjct: 331 MNIKMLSISDTPFIHMVCPPSP--SSFTFLNFTQNVFTDSVFQGCSTLKRLQTLIL-QRN 387

Query: 183 ALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPL 242
            L +  +   +  N+ SL+         +     R      S+  L +S        F  
Sbjct: 388 GLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFR- 446

Query: 243 EDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYL 286
                     LP  +  L +     +  +   +  LQ L EL +
Sbjct: 447 ---------CLPPKVKVLDLHN-NRIMSIPKDVTHLQALQELNV 480

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	348
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.9
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.9
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.9
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.9
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.9
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.89
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.89
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.89
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.89
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.89
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.89
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.88
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.88
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.88
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.88
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.88
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.87
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.87
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.87
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.87
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.87
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.87
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.87
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.87
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.87
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.86
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.86
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.86
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.86
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.86
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.86
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.85
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.85
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.85
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.84
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.84
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.84
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.84
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.84
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.83
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.83
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.83
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.83
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.83
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.83
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.83
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.81
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.81
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.8
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.8
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.79
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.79
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.79
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.79
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.79
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.78
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.78
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.77
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.77
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.77
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.77
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.76
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.75
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.75
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.72
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.72
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.7
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.68
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.68
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.68
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.66
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.66
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.66
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.66
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.66
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.65
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.65
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.62
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.62
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.61
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.61
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.61
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.6
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.59
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.59
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.59
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.56
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.55
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.54
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.54
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.51
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.51
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.5
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.5
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.49
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.47
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.46
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.45
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.41
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.41
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.41
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.4
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.38
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.36
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.35
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.35
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.34
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.33
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.33
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.32
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.32
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.28
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.27
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.27
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.27
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.24
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.23
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.22
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.22
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.22
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.16
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	99.14
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.1
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.09
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.07
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	99.04
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.01
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.01
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.98
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.97
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.96
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.94
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.92
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.88
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.88
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.83
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.82
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.81
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.72
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	98.65
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.56
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.55
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.53
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.46
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	98.46
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.37
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.27
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.27
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.26
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.2
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	98.2
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.18
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.09
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	98.07
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	97.93
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	97.92
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	96.72
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	96.46
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	96.25
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	96.1
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.29
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	92.42
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	81.59

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=99.90  E-value=7.9e-23  Score=192.25  Aligned_cols=278  Identities=19%  Similarity=0.180  Sum_probs=179.3

Q ss_pred             CcccEEeecCcccccccCCCCC--CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCC
Q 039944            6 SSLEILDIEKCHSLTYIAAVQL--PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKN   83 (348)
Q Consensus         6 ~~L~~L~l~~~~~l~~l~~~~~--~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~   83 (348)
                      ++++.|+++++ .++.+++..+  +++|++|++++|. +..++..       .+..+.  +|++|+++++ .+.. ++..
T Consensus        32 ~~l~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~-i~~~~~~-------~~~~l~--~L~~L~L~~n-~l~~-~~~~   98 (477)
T 2id5_A           32 TETRLLDLGKN-RIKTLNQDEFASFPHLEELELNENI-VSAVEPG-------AFNNLF--NLRTLGLRSN-RLKL-IPLG   98 (477)
T ss_dssp             TTCSEEECCSS-CCCEECTTTTTTCTTCCEEECTTSC-CCEECTT-------TTTTCT--TCCEEECCSS-CCCS-CCTT
T ss_pred             CCCcEEECCCC-ccceECHhHccCCCCCCEEECCCCc-cCEeChh-------hhhCCc--cCCEEECCCC-cCCc-cCcc
Confidence            47888888874 6676765443  7888888888886 6666444       367777  8888888774 4555 5543


Q ss_pred             C--CCCCcceeEe-------------ccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCC-CCCCCC
Q 039944           84 E--LPATLESLEV-------------GNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPE-GGLPCA  147 (348)
Q Consensus        84 ~--~~~~L~~L~i-------------~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~-~~~~~~  147 (348)
                      .  ..++|++|.+             ..+++ |+.|++++|......+..+..+++|+.|++++| .+..++. .+..++
T Consensus        99 ~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~-L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~l~~l~  176 (477)
T 2id5_A           99 VFTGLSNLTKLDISENKIVILLDYMFQDLYN-LKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKC-NLTSIPTEALSHLH  176 (477)
T ss_dssp             SSTTCTTCCEEECTTSCCCEECTTTTTTCTT-CCEEEECCTTCCEECTTSSTTCTTCCEEEEESC-CCSSCCHHHHTTCT
T ss_pred             cccCCCCCCEEECCCCccccCChhHcccccc-CCEEECCCCccceeChhhccCCCCCCEEECCCC-cCcccChhHhcccC
Confidence            2  2344555544             22344 666666665533333445566666777776663 3434433 244556


Q ss_pred             CccEEEEecCCCcCccc-ccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCcc
Q 039944          148 KLTRLTILDCKRLEALP-KGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLR  226 (348)
Q Consensus       148 ~L~~L~l~~~~~l~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~  226 (348)
                      +|+.|++.+|. +..++ ..+..+++|++|++++|.....++.......+|+.|+++++ .+..++.   ..+..+++|+
T Consensus       177 ~L~~L~l~~n~-i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n-~l~~~~~---~~~~~l~~L~  251 (477)
T 2id5_A          177 GLIVLRLRHLN-INAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHC-NLTAVPY---LAVRHLVYLR  251 (477)
T ss_dssp             TCCEEEEESCC-CCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESS-CCCSCCH---HHHTTCTTCC
T ss_pred             CCcEEeCCCCc-CcEeChhhcccCcccceeeCCCCccccccCcccccCccccEEECcCC-cccccCH---HHhcCccccC
Confidence            67777776643 33333 35566777777777776666666655555567788888775 3444443   2467788888


Q ss_pred             EEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccc-ccccccCCCcceEeccCCCCCCCCCCCCC--CCC
Q 039944          227 RLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERL-SSSIVDLQNLTELYLFGCPKLKYFPEKGL--PSS  303 (348)
Q Consensus       227 ~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i-~~~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~  303 (348)
                      .|++++  +.+..++..      .+..+++|+.|+++++ .+..+ +..+..+++|+.|++++| .++.++...+  .++
T Consensus       252 ~L~Ls~--n~l~~~~~~------~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~  321 (477)
T 2id5_A          252 FLNLSY--NPISTIEGS------MLHELLRLQEIQLVGG-QLAVVEPYAFRGLNYLRVLNVSGN-QLTTLEESVFHSVGN  321 (477)
T ss_dssp             EEECCS--SCCCEECTT------SCTTCTTCCEEECCSS-CCSEECTTTBTTCTTCCEEECCSS-CCSCCCGGGBSCGGG
T ss_pred             eeECCC--CcCCccChh------hccccccCCEEECCCC-ccceECHHHhcCcccCCEEECCCC-cCceeCHhHcCCCcc
Confidence            888887  456555542      2346778999999885 55544 557888899999999985 6777776433  578


Q ss_pred             CcEEEEcCCc
Q 039944          304 LLELRISRCP  313 (348)
Q Consensus       304 L~~L~l~~c~  313 (348)
                      |++|++++++
T Consensus       322 L~~L~l~~N~  331 (477)
T 2id5_A          322 LETLILDSNP  331 (477)
T ss_dssp             CCEEECCSSC
T ss_pred             cCEEEccCCC
Confidence            9999998876

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=99.90  E-value=1.3e-22  Score=182.90  Aligned_cols=291  Identities=18%  Similarity=0.180  Sum_probs=191.3

Q ss_pred             CCCcccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCC
Q 039944            4 TNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKN   83 (348)
Q Consensus         4 ~~~~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~   83 (348)
                      .+++|+.|+++++ .++.++....+++|++|++++|. +..++.         +..++  +|++|+++++ .+.+ ++..
T Consensus        42 ~l~~L~~L~l~~~-~i~~~~~~~~~~~L~~L~l~~n~-i~~~~~---------~~~l~--~L~~L~L~~n-~i~~-~~~~  106 (347)
T 4fmz_A           42 ELESITKLVVAGE-KVASIQGIEYLTNLEYLNLNGNQ-ITDISP---------LSNLV--KLTNLYIGTN-KITD-ISAL  106 (347)
T ss_dssp             HHTTCSEEECCSS-CCCCCTTGGGCTTCCEEECCSSC-CCCCGG---------GTTCT--TCCEEECCSS-CCCC-CGGG
T ss_pred             hcccccEEEEeCC-ccccchhhhhcCCccEEEccCCc-cccchh---------hhcCC--cCCEEEccCC-cccC-chHH
Confidence            3567777777764 55666654557777777777775 565543         34555  7777777765 3554 5544


Q ss_pred             CCCCCcceeEe-----------ccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEE
Q 039944           84 ELPATLESLEV-----------GNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRL  152 (348)
Q Consensus        84 ~~~~~L~~L~i-----------~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L  152 (348)
                      ..+++|++|.+           ..++. |+.|++++|.....++. +..+++|++|++++|. +..++. +..+++|+.|
T Consensus       107 ~~l~~L~~L~l~~n~i~~~~~~~~l~~-L~~L~l~~n~~~~~~~~-~~~l~~L~~L~l~~~~-~~~~~~-~~~l~~L~~L  182 (347)
T 4fmz_A          107 QNLTNLRELYLNEDNISDISPLANLTK-MYSLNLGANHNLSDLSP-LSNMTGLNYLTVTESK-VKDVTP-IANLTDLYSL  182 (347)
T ss_dssp             TTCTTCSEEECTTSCCCCCGGGTTCTT-CCEEECTTCTTCCCCGG-GTTCTTCCEEECCSSC-CCCCGG-GGGCTTCSEE
T ss_pred             cCCCcCCEEECcCCcccCchhhccCCc-eeEEECCCCCCcccccc-hhhCCCCcEEEecCCC-cCCchh-hccCCCCCEE
Confidence            44566666666           23455 88889888876666554 7788889999988853 444443 5567789999


Q ss_pred             EEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecc
Q 039944          153 TILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISR  232 (348)
Q Consensus       153 ~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~  232 (348)
                      ++++|. +..++. +..+++|+.++++++ .+..++ .+..+++|+.|++++|. +...+     .+..+++|+.|++++
T Consensus       183 ~l~~n~-l~~~~~-~~~l~~L~~L~l~~n-~l~~~~-~~~~~~~L~~L~l~~n~-l~~~~-----~~~~l~~L~~L~l~~  252 (347)
T 4fmz_A          183 SLNYNQ-IEDISP-LASLTSLHYFTAYVN-QITDIT-PVANMTRLNSLKIGNNK-ITDLS-----PLANLSQLTWLEIGT  252 (347)
T ss_dssp             ECTTSC-CCCCGG-GGGCTTCCEEECCSS-CCCCCG-GGGGCTTCCEEECCSSC-CCCCG-----GGTTCTTCCEEECCS
T ss_pred             EccCCc-cccccc-ccCCCccceeecccC-CCCCCc-hhhcCCcCCEEEccCCc-cCCCc-----chhcCCCCCEEECCC
Confidence            988864 555544 677888888888876 455555 36778888888888853 44443     256788888888887


Q ss_pred             cCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEEEc
Q 039944          233 CDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELRIS  310 (348)
Q Consensus       233 ~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~l~  310 (348)
                        +.+..++. .       ..+++|++|++++| .++.++ .+..+++|+.|++++|+ ++..+...+  .++|++|+++
T Consensus       253 --n~l~~~~~-~-------~~l~~L~~L~l~~n-~l~~~~-~~~~l~~L~~L~L~~n~-l~~~~~~~l~~l~~L~~L~L~  319 (347)
T 4fmz_A          253 --NQISDINA-V-------KDLTKLKMLNVGSN-QISDIS-VLNNLSQLNSLFLNNNQ-LGNEDMEVIGGLTNLTTLFLS  319 (347)
T ss_dssp             --SCCCCCGG-G-------TTCTTCCEEECCSS-CCCCCG-GGGGCTTCSEEECCSSC-CCGGGHHHHHTCTTCSEEECC
T ss_pred             --CccCCChh-H-------hcCCCcCEEEccCC-ccCCCh-hhcCCCCCCEEECcCCc-CCCcChhHhhccccCCEEEcc
Confidence              35555543 2       36778888888885 566664 57778888888888864 443332212  5788888888


Q ss_pred             CCchhHHHhhccCCccccCCCCcCEEEecceee
Q 039944          311 RCPLIAEKCRKDGGQYWDLLTHIPRVEIDWKSV  343 (348)
Q Consensus       311 ~c~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~  343 (348)
                      +|+. +..      ..+..+.++..+.+.++.+
T Consensus       320 ~n~l-~~~------~~~~~l~~L~~L~l~~N~i  345 (347)
T 4fmz_A          320 QNHI-TDI------RPLASLSKMDSADFANQVI  345 (347)
T ss_dssp             SSSC-CCC------GGGGGCTTCSEESSSCC--
T ss_pred             CCcc-ccc------cChhhhhccceeehhhhcc
Confidence            8862 211      1134456666666666543

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

Probab=99.90  E-value=1.2e-23  Score=208.81  Aligned_cols=306  Identities=17%  Similarity=0.093  Sum_probs=156.8

Q ss_pred             cccEEeecCcccccccCCC-CC--CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCC
Q 039944            7 SLEILDIEKCHSLTYIAAV-QL--PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKN   83 (348)
Q Consensus         7 ~L~~L~l~~~~~l~~l~~~-~~--~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~   83 (348)
                      +|+.|+++++.-...++.. ..  +++|++|++++|.....+|..        +..++  +|++|+++++. +...+|..
T Consensus       369 ~L~~L~Ls~N~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~~p~~--------l~~l~--~L~~L~Ls~N~-l~~~~p~~  437 (768)
T 3rgz_A          369 SLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPT--------LSNCS--ELVSLHLSFNY-LSGTIPSS  437 (768)
T ss_dssp             TCSEEECCSSEEEEECCTTTTCSTTCCCCEEECCSSEEEEECCGG--------GGGCT--TCCEEECCSSE-EESCCCGG
T ss_pred             CCcEEEccCCCcCCCcChhhhhcccCCccEEECCCCccccccCHH--------HhcCC--CCCEEECcCCc-ccCcccHH
Confidence            6777777765333334433 22  566777777777632244443        55666  77777777653 33212221


Q ss_pred             -CCCCCcceeEe-------------ccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCc
Q 039944           84 -ELPATLESLEV-------------GNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKL  149 (348)
Q Consensus        84 -~~~~~L~~L~i-------------~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L  149 (348)
                       ...++|+.|.+             ..++. |+.|++++|.....+|..+..+++|++|++++|.....+|.++..+++|
T Consensus       438 l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~-L~~L~L~~N~l~~~~p~~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L  516 (768)
T 3rgz_A          438 LGSLSKLRDLKLWLNMLEGEIPQELMYVKT-LETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENL  516 (768)
T ss_dssp             GGGCTTCCEEECCSSCCCSCCCGGGGGCTT-CCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTC
T ss_pred             HhcCCCCCEEECCCCcccCcCCHHHcCCCC-ceEEEecCCcccCcCCHHHhcCCCCCEEEccCCccCCcCChHHhcCCCC
Confidence             12234444443             12343 6666666665444556666666666666666654444555555566666


Q ss_pred             cEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccc----------------------------------------
Q 039944          150 TRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEE----------------------------------------  189 (348)
Q Consensus       150 ~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~----------------------------------------  189 (348)
                      +.|++++|.....+|..+..+++|++|++++|.....+|.                                        
T Consensus       517 ~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  596 (768)
T 3rgz_A          517 AILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEF  596 (768)
T ss_dssp             CEEECCSSCCEEECCGGGGGCTTCCEEECCSSEEESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEEC
T ss_pred             CEEECCCCcccCcCCHHHcCCCCCCEEECCCCccCCcCChHHhcccchhhhhcccccccccccccccccccccccccccc
Confidence            6666666654445666666666666666665532222221                                        


Q ss_pred             ------------------------------cCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCccc-
Q 039944          190 ------------------------------EDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMV-  238 (348)
Q Consensus       190 ------------------------------~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~-  238 (348)
                                                    .++.+++|+.|+++++.-...++    ..+..+++|+.|++++  +.+. 
T Consensus       597 ~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~LdLs~N~l~g~ip----~~l~~l~~L~~L~Ls~--N~l~g  670 (768)
T 3rgz_A          597 QGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIP----KEIGSMPYLFILNLGH--NDISG  670 (768)
T ss_dssp             TTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEEECCSSCCBSCCC----GGGGGCTTCCEEECCS--SCCCS
T ss_pred             ccccchhhhccccccccccccceecccCchhhhccccccEEECcCCcccccCC----HHHhccccCCEEeCcC--CccCC
Confidence                                          12223455556665543222333    2345566666666665  2333 


Q ss_pred             ccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCCCCCCCcEEEEcCCchhH--
Q 039944          239 SFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIA--  316 (348)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~c~~l~--  316 (348)
                      .+|...       ..+++|+.|+++++.....+|..+.++++|++|++++|+--..+|..+.+.++....+.||+.|-  
T Consensus       671 ~ip~~l-------~~L~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~ls~N~l~g~iP~~~~~~~~~~~~~~gN~~Lcg~  743 (768)
T 3rgz_A          671 SIPDEV-------GDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLNNPGLCGY  743 (768)
T ss_dssp             CCCGGG-------GGCTTCCEEECCSSCCEECCCGGGGGCCCCSEEECCSSEEEEECCSSSSGGGSCGGGGCSCTEEEST
T ss_pred             CCChHH-------hCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECcCCcccccCCCchhhccCCHHHhcCCchhcCC
Confidence            455544       34556666666664433456666666666666666665444445554444444444455554321  


Q ss_pred             --HHhhccCCccccCCCCcCEEE
Q 039944          317 --EKCRKDGGQYWDLLTHIPRVE  337 (348)
Q Consensus       317 --~~~~~~~~~~~~~i~~~~~~~  337 (348)
                        ..|....+++|++++|.+.++
T Consensus       744 ~l~~C~~~~~~~~~~~~~~~~~~  766 (768)
T 3rgz_A          744 PLPRCDPSNADGYAHHQRSHHHH  766 (768)
T ss_dssp             TSCCCCSCC--------------
T ss_pred             CCcCCCCCccCCCCCCCCccccC
Confidence              157788899999999998754

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=99.90  E-value=4.4e-22  Score=187.16  Aligned_cols=302  Identities=15%  Similarity=0.152  Sum_probs=172.7

Q ss_pred             cEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCC--CCC
Q 039944            9 EILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKN--ELP   86 (348)
Q Consensus         9 ~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~--~~~   86 (348)
                      +.++..+ ..++.+|. .++++++.|+++++. +..++..       .+..++  +|++|+++++ .+.. +...  ...
T Consensus        14 ~~v~c~~-~~l~~ip~-~~~~~l~~L~L~~n~-l~~~~~~-------~~~~l~--~L~~L~L~~n-~i~~-~~~~~~~~l   79 (477)
T 2id5_A           14 RAVLCHR-KRFVAVPE-GIPTETRLLDLGKNR-IKTLNQD-------EFASFP--HLEELELNEN-IVSA-VEPGAFNNL   79 (477)
T ss_dssp             TEEECCS-CCCSSCCS-CCCTTCSEEECCSSC-CCEECTT-------TTTTCT--TCCEEECTTS-CCCE-ECTTTTTTC
T ss_pred             CEEEeCC-CCcCcCCC-CCCCCCcEEECCCCc-cceECHh-------HccCCC--CCCEEECCCC-ccCE-eChhhhhCC
Confidence            4566654 46777875 347899999999997 7887665       478887  9999999986 4665 4332  223


Q ss_pred             CCcceeEe-------------ccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEE
Q 039944           87 ATLESLEV-------------GNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLT  153 (348)
Q Consensus        87 ~~L~~L~i-------------~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~  153 (348)
                      ++|++|.+             ..+++ |+.|++++|......+..+..+++|++|++++|......+..+..+++|+.|+
T Consensus        80 ~~L~~L~L~~n~l~~~~~~~~~~l~~-L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~  158 (477)
T 2id5_A           80 FNLRTLGLRSNRLKLIPLGVFTGLSN-LTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLT  158 (477)
T ss_dssp             TTCCEEECCSSCCCSCCTTSSTTCTT-CCEEECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEE
T ss_pred             ccCCEEECCCCcCCccCcccccCCCC-CCEEECCCCccccCChhHccccccCCEEECCCCccceeChhhccCCCCCCEEE
Confidence            44555554             12233 55555555543333344455555555555555322222223444455566666


Q ss_pred             EecCCCcCcccc-cccCCCCcceeEeccCCCCCccc-ccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEec
Q 039944          154 ILDCKRLEALPK-GMHNLTSLQYLRIGKGGALPSLE-EEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTIS  231 (348)
Q Consensus       154 l~~~~~l~~~~~-~l~~l~~L~~L~l~~~~~~~~~~-~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~  231 (348)
                      +++|. +..++. .+..+++|+.|+++++. +..++ ..+..+++|+.|++.++..+...+.    ......+|+.|+++
T Consensus       159 l~~n~-l~~~~~~~l~~l~~L~~L~l~~n~-i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~----~~~~~~~L~~L~l~  232 (477)
T 2id5_A          159 LEKCN-LTSIPTEALSHLHGLIVLRLRHLN-INAIRDYSFKRLYRLKVLEISHWPYLDTMTP----NCLYGLNLTSLSIT  232 (477)
T ss_dssp             EESCC-CSSCCHHHHTTCTTCCEEEEESCC-CCEECTTCSCSCTTCCEEEEECCTTCCEECT----TTTTTCCCSEEEEE
T ss_pred             CCCCc-CcccChhHhcccCCCcEEeCCCCc-CcEeChhhcccCcccceeeCCCCccccccCc----ccccCccccEEECc
Confidence            65542 333332 34555566666665542 22222 2344556666666666544444332    12223366666666


Q ss_pred             ccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccccc-ccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEE
Q 039944          232 RCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELR  308 (348)
Q Consensus       232 ~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~  308 (348)
                      +  +.+..++...      +..+++|+.|+++++ .++.++. .+..+++|+.|++++| .++.++...+  .++|++|+
T Consensus       233 ~--n~l~~~~~~~------~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~  302 (477)
T 2id5_A          233 H--CNLTAVPYLA------VRHLVYLRFLNLSYN-PISTIEGSMLHELLRLQEIQLVGG-QLAVVEPYAFRGLNYLRVLN  302 (477)
T ss_dssp             S--SCCCSCCHHH------HTTCTTCCEEECCSS-CCCEECTTSCTTCTTCCEEECCSS-CCSEECTTTBTTCTTCCEEE
T ss_pred             C--CcccccCHHH------hcCccccCeeECCCC-cCCccChhhccccccCCEEECCCC-ccceECHHHhcCcccCCEEE
Confidence            6  3455555321      135677788888774 4555544 5677788888888874 5555544333  57888888


Q ss_pred             EcCCchhHHHhhccCCccccCCCCcCEEEecceeeccC
Q 039944          309 ISRCPLIAEKCRKDGGQYWDLLTHIPRVEIDWKSVFGD  346 (348)
Q Consensus       309 l~~c~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~  346 (348)
                      +++|.. +.    .....+..+.++..+.+.++.+.|+
T Consensus       303 L~~N~l-~~----~~~~~~~~l~~L~~L~l~~N~l~c~  335 (477)
T 2id5_A          303 VSGNQL-TT----LEESVFHSVGNLETLILDSNPLACD  335 (477)
T ss_dssp             CCSSCC-SC----CCGGGBSCGGGCCEEECCSSCEECS
T ss_pred             CCCCcC-ce----eCHhHcCCCcccCEEEccCCCccCc
Confidence            888742 21    1112334566788888888877664

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

Probab=99.90  E-value=1.3e-22  Score=201.27  Aligned_cols=320  Identities=17%  Similarity=0.092  Sum_probs=184.1

Q ss_pred             CCcccEEeecCcccccccCCC-CCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCC
Q 039944            5 NSSLEILDIEKCHSLTYIAAV-QLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKN   83 (348)
Q Consensus         5 ~~~L~~L~l~~~~~l~~l~~~-~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~   83 (348)
                      +++|++|++++|.-.+.+|.. +.+++|++|++++|.....+|..       .+..++  +|++|+++++. +...+|..
T Consensus       293 ~~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~ip~~-------~l~~l~--~L~~L~Ls~n~-l~~~~p~~  362 (768)
T 3rgz_A          293 CDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMD-------TLLKMR--GLKVLDLSFNE-FSGELPES  362 (768)
T ss_dssp             CTTCSEEECCSSEEEECCCGGGGGCTTCCEEECCSSEEEEECCHH-------HHTTCT--TCCEEECCSSE-EEECCCTT
T ss_pred             cCcCCEEECcCCcCCCccchHHhcCCCccEEECCCCcccCcCCHH-------HHhcCC--CCCEEeCcCCc-cCccccHH
Confidence            477788888775322234432 22677777777777622255543       234444  55555555432 22102211


Q ss_pred             --CC--------------------------CCCcceeEe-------------ccCCCCccEEEEcCCCCcccchhhhcCC
Q 039944           84 --EL--------------------------PATLESLEV-------------GNLPLSLKSLFVYGCSKLGSIAERLDNN  122 (348)
Q Consensus        84 --~~--------------------------~~~L~~L~i-------------~~l~~~L~~L~l~~~~~~~~~~~~~~~l  122 (348)
                        ..                          +++|++|.+             ..++. |+.|++++|.....+|..+..+
T Consensus       363 l~~l~~~L~~L~Ls~N~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~-L~~L~Ls~N~l~~~~p~~l~~l  441 (768)
T 3rgz_A          363 LTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSE-LVSLHLSFNYLSGTIPSSLGSL  441 (768)
T ss_dssp             HHHHTTTCSEEECCSSEEEEECCTTTTCSTTCCCCEEECCSSEEEEECCGGGGGCTT-CCEEECCSSEEESCCCGGGGGC
T ss_pred             HHhhhcCCcEEEccCCCcCCCcChhhhhcccCCccEEECCCCccccccCHHHhcCCC-CCEEECcCCcccCcccHHHhcC
Confidence              01                          234555544             22333 6666666655434455556666


Q ss_pred             CccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeee
Q 039944          123 TSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDI  202 (348)
Q Consensus       123 ~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l  202 (348)
                      ++|+.|++++|.....+|..+..+++|+.|++++|.....+|..+..+++|++|++++|.....+|..++.+++|+.|++
T Consensus       442 ~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L  521 (768)
T 3rgz_A          442 SKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKL  521 (768)
T ss_dssp             TTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEEC
T ss_pred             CCCCEEECCCCcccCcCCHHHcCCCCceEEEecCCcccCcCCHHHhcCCCCCEEEccCCccCCcCChHHhcCCCCCEEEC
Confidence            66666666665444455555666667777777776555566666777777777777777544466666677777778877


Q ss_pred             cCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhc------------------------------------
Q 039944          203 WGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKR------------------------------------  246 (348)
Q Consensus       203 ~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~------------------------------------  246 (348)
                      ++|.-...++    ..+..+++|+.|++++ |.-...+|.+...                                    
T Consensus       522 ~~N~l~~~~p----~~l~~l~~L~~L~Ls~-N~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  596 (768)
T 3rgz_A          522 SNNSFSGNIP----AELGDCRSLIWLDLNT-NLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEF  596 (768)
T ss_dssp             CSSCCEEECC----GGGGGCTTCCEEECCS-SEEESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEEC
T ss_pred             CCCcccCcCC----HHHcCCCCCCEEECCC-CccCCcCChHHhcccchhhhhcccccccccccccccccccccccccccc
Confidence            7764433444    2466777888888877 4222233332210                                    


Q ss_pred             ---------------------------cCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCC-
Q 039944          247 ---------------------------LGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEK-  298 (348)
Q Consensus       247 ---------------------------~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~-  298 (348)
                                                 +...+..+++|+.|+++++.....+|..+.++++|+.|++++|.--..+|.. 
T Consensus       597 ~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~Ls~N~l~g~ip~~l  676 (768)
T 3rgz_A          597 QGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEV  676 (768)
T ss_dssp             TTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEEECCSSCCBSCCCGGGGGCTTCCEEECCSSCCCSCCCGGG
T ss_pred             ccccchhhhccccccccccccceecccCchhhhccccccEEECcCCcccccCCHHHhccccCCEEeCcCCccCCCCChHH
Confidence                                       0112233566778888875544577778888888888888885433355552 


Q ss_pred             CCCCCCcEEEEcCCchhHHHhhccCCccccCCCCcCEEEecceeecc
Q 039944          299 GLPSSLLELRISRCPLIAEKCRKDGGQYWDLLTHIPRVEIDWKSVFG  345 (348)
Q Consensus       299 ~~~~~L~~L~l~~c~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~  345 (348)
                      +-.++|+.|++++|..-.     ...+.+..+..+..+.+.++.+.|
T Consensus       677 ~~L~~L~~LdLs~N~l~g-----~ip~~l~~l~~L~~L~ls~N~l~g  718 (768)
T 3rgz_A          677 GDLRGLNILDLSSNKLDG-----RIPQAMSALTMLTEIDLSNNNLSG  718 (768)
T ss_dssp             GGCTTCCEEECCSSCCEE-----CCCGGGGGCCCCSEEECCSSEEEE
T ss_pred             hCCCCCCEEECCCCcccC-----cCChHHhCCCCCCEEECcCCcccc
Confidence            225778888888775221     222334455666666666555544

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=99.89  E-value=2e-21  Score=188.05  Aligned_cols=61  Identities=18%  Similarity=0.255  Sum_probs=35.7

Q ss_pred             CCCCCcccEEeecCcccccccCCCCC--CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCC
Q 039944            2 CDTNSSLEILDIEKCHSLTYIAAVQL--PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISC   73 (348)
Q Consensus         2 ~~~~~~L~~L~l~~~~~l~~l~~~~~--~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~   73 (348)
                      |.++++|++|+++++ .++.+++..+  +++|++|++++|. +..++..       .+..++  +|++|+++++
T Consensus        53 ~~~l~~L~~L~Ls~n-~i~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~-------~~~~l~--~L~~L~L~~n  115 (606)
T 3t6q_A           53 FSRLINLTFLDLTRC-QIYWIHEDTFQSQHRLDTLVLTANP-LIFMAET-------ALSGPK--ALKHLFFIQT  115 (606)
T ss_dssp             STTCTTCSEEECTTC-CCCEECTTTTTTCTTCCEEECTTCC-CSEECTT-------TTSSCT--TCCEEECTTS
T ss_pred             hccCccceEEECCCC-ccceeChhhccCccccCeeeCCCCc-ccccChh-------hhcccc--cccEeecccc
Confidence            456677777777764 4555544333  6777777777765 4444333       245555  6666666553

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=99.89  E-value=5e-22  Score=185.61  Aligned_cols=280  Identities=18%  Similarity=0.126  Sum_probs=155.8

Q ss_pred             CcccEEeecCcccccccCCCCC--CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCC
Q 039944            6 SSLEILDIEKCHSLTYIAAVQL--PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKN   83 (348)
Q Consensus         6 ~~L~~L~l~~~~~l~~l~~~~~--~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~   83 (348)
                      ++|++|+++++ .++.+++..+  +++|++|++++|.....++..       .+..++  +|++|+++++. +.. +...
T Consensus        30 ~~l~~L~Ls~n-~i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~-------~~~~l~--~L~~L~Ls~n~-l~~-~~~~   97 (455)
T 3v47_A           30 AHVNYVDLSLN-SIAELNETSFSRLQDLQFLKVEQQTPGLVIRNN-------TFRGLS--SLIILKLDYNQ-FLQ-LETG   97 (455)
T ss_dssp             TTCCEEECCSS-CCCEECTTTTSSCTTCCEEECCCCSTTCEECTT-------TTTTCT--TCCEEECTTCT-TCE-ECTT
T ss_pred             CccCEEEecCC-ccCcCChhHhccCccccEEECcCCcccceECcc-------cccccc--cCCEEeCCCCc-cCc-cChh
Confidence            46777777764 5555543322  677777777777633345444       356666  77777777653 443 3221


Q ss_pred             --CCCCCcceeEe---------------ccCCCCccEEEEcCCCCcccchhh-hcCCCccceecccccccccccCCCCC-
Q 039944           84 --ELPATLESLEV---------------GNLPLSLKSLFVYGCSKLGSIAER-LDNNTSLETISIDSCGNLVSFPEGGL-  144 (348)
Q Consensus        84 --~~~~~L~~L~i---------------~~l~~~L~~L~l~~~~~~~~~~~~-~~~l~~L~~L~l~~~~~l~~~~~~~~-  144 (348)
                        ...++|++|.+               ..+++ |+.|++++|......+.. +..+++|++|++++|......+..+. 
T Consensus        98 ~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~-L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~  176 (455)
T 3v47_A           98 AFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTS-LEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSICEEDLLN  176 (455)
T ss_dssp             TTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTT-CCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCCBSCCCTTTSGG
T ss_pred             hccCcccCCEEeCCCCCCCccccCcccccCccc-CCEEECCCCccCccCcccccCCCCcccEEeCCCCcccccChhhhhc
Confidence              22345555554               12344 777777766543333433 56677777777766432222222211 


Q ss_pred             ---------------------------------CCCCccEEEEecCCCcCccccccc-----------------------
Q 039944          145 ---------------------------------PCAKLTRLTILDCKRLEALPKGMH-----------------------  168 (348)
Q Consensus       145 ---------------------------------~~~~L~~L~l~~~~~l~~~~~~l~-----------------------  168 (348)
                                                       .+++|++|++++|......|..+.                       
T Consensus       177 l~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~  256 (455)
T 3v47_A          177 FQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSF  256 (455)
T ss_dssp             GTTCEEEEEECTTCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHHHHTTTCCEEEEECTTCTTTSCCT
T ss_pred             cccccccccccccCcccccchhhccccccccccccceeeeEecCCCcccccchhhhhccccccceeeEeecccccccccc
Confidence                                             224566666666532222211110                       


Q ss_pred             ----------------CCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecc
Q 039944          169 ----------------NLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISR  232 (348)
Q Consensus       169 ----------------~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~  232 (348)
                                      ..++|++|++++|......+..++.+++|+.|+++++. +.....   ..+..+++|+.|++++
T Consensus       257 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~---~~~~~l~~L~~L~Ls~  332 (455)
T 3v47_A          257 GHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNE-INKIDD---NAFWGLTHLLKLNLSQ  332 (455)
T ss_dssp             TCCSSCCCCTTTTGGGTTSCCCEEECCSSCCCEECTTTTTTCTTCCEEECTTSC-CCEECT---TTTTTCTTCCEEECCS
T ss_pred             chhhhccCcccccccccccCceEEEecCccccccchhhcccCCCCCEEECCCCc-ccccCh---hHhcCcccCCEEECCC
Confidence                            12456666666553332334445667777777777743 333322   2456677777777776


Q ss_pred             cCCccccccc-chhccCCCCCCCCCccEEEeccCCCcccc-ccccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEE
Q 039944          233 CDEDMVSFPL-EDKRLGTALPLPASLTSLWIEAFPNLERL-SSSIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELR  308 (348)
Q Consensus       233 ~c~~l~~~~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~i-~~~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~  308 (348)
                        +.+..++. ..       ..+++|++|++++| .++.+ |..+..+++|++|++++| .++.+|...+  .++|++|+
T Consensus       333 --N~l~~~~~~~~-------~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~  401 (455)
T 3v47_A          333 --NFLGSIDSRMF-------ENLDKLEVLDLSYN-HIRALGDQSFLGLPNLKELALDTN-QLKSVPDGIFDRLTSLQKIW  401 (455)
T ss_dssp             --SCCCEECGGGG-------TTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEE
T ss_pred             --CccCCcChhHh-------cCcccCCEEECCCC-cccccChhhccccccccEEECCCC-ccccCCHhHhccCCcccEEE
Confidence              34444432 22       35677778888774 44444 556777777888888773 5666666433  57778888


Q ss_pred             EcCCc
Q 039944          309 ISRCP  313 (348)
Q Consensus       309 l~~c~  313 (348)
                      +++|+
T Consensus       402 l~~N~  406 (455)
T 3v47_A          402 LHTNP  406 (455)
T ss_dssp             CCSSC
T ss_pred             ccCCC
Confidence            77654

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=99.89  E-value=1.1e-21  Score=176.68  Aligned_cols=271  Identities=18%  Similarity=0.175  Sum_probs=204.4

Q ss_pred             CCCCCcccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCcccccc
Q 039944            2 CDTNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFS   81 (348)
Q Consensus         2 ~~~~~~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~   81 (348)
                      +..+++|++|++++| .++.++....+++|++|++++|. +..++.         +..++  +|++|+++++. +.+ ++
T Consensus        62 ~~~~~~L~~L~l~~n-~i~~~~~~~~l~~L~~L~L~~n~-i~~~~~---------~~~l~--~L~~L~l~~n~-i~~-~~  126 (347)
T 4fmz_A           62 IEYLTNLEYLNLNGN-QITDISPLSNLVKLTNLYIGTNK-ITDISA---------LQNLT--NLRELYLNEDN-ISD-IS  126 (347)
T ss_dssp             GGGCTTCCEEECCSS-CCCCCGGGTTCTTCCEEECCSSC-CCCCGG---------GTTCT--TCSEEECTTSC-CCC-CG
T ss_pred             hhhcCCccEEEccCC-ccccchhhhcCCcCCEEEccCCc-ccCchH---------HcCCC--cCCEEECcCCc-ccC-ch
Confidence            356789999999986 67777775558999999999996 777652         56777  99999998864 555 55


Q ss_pred             CCCCCCCcceeEe------------ccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCc
Q 039944           82 KNELPATLESLEV------------GNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKL  149 (348)
Q Consensus        82 ~~~~~~~L~~L~i------------~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L  149 (348)
                      .....++|+.|.+            ..++. |+.|++++|. +..++. +..+++|+.|++++| .+..++. +..+++|
T Consensus       127 ~~~~l~~L~~L~l~~n~~~~~~~~~~~l~~-L~~L~l~~~~-~~~~~~-~~~l~~L~~L~l~~n-~l~~~~~-~~~l~~L  201 (347)
T 4fmz_A          127 PLANLTKMYSLNLGANHNLSDLSPLSNMTG-LNYLTVTESK-VKDVTP-IANLTDLYSLSLNYN-QIEDISP-LASLTSL  201 (347)
T ss_dssp             GGTTCTTCCEEECTTCTTCCCCGGGTTCTT-CCEEECCSSC-CCCCGG-GGGCTTCSEEECTTS-CCCCCGG-GGGCTTC
T ss_pred             hhccCCceeEEECCCCCCcccccchhhCCC-CcEEEecCCC-cCCchh-hccCCCCCEEEccCC-ccccccc-ccCCCcc
Confidence            5555677888877            23455 9999999886 444443 778999999999985 4555554 5667899


Q ss_pred             cEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEE
Q 039944          150 TRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLT  229 (348)
Q Consensus       150 ~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~  229 (348)
                      +.|++++|. +..++. +..+++|++|++++| .+..++ .+..+++|+.|+++++ .+....     .+..+++|+.|+
T Consensus       202 ~~L~l~~n~-l~~~~~-~~~~~~L~~L~l~~n-~l~~~~-~~~~l~~L~~L~l~~n-~l~~~~-----~~~~l~~L~~L~  271 (347)
T 4fmz_A          202 HYFTAYVNQ-ITDITP-VANMTRLNSLKIGNN-KITDLS-PLANLSQLTWLEIGTN-QISDIN-----AVKDLTKLKMLN  271 (347)
T ss_dssp             CEEECCSSC-CCCCGG-GGGCTTCCEEECCSS-CCCCCG-GGTTCTTCCEEECCSS-CCCCCG-----GGTTCTTCCEEE
T ss_pred             ceeecccCC-CCCCch-hhcCCcCCEEEccCC-ccCCCc-chhcCCCCCEEECCCC-ccCCCh-----hHhcCCCcCEEE
Confidence            999999864 555543 778899999999987 566676 4888999999999986 455443     467889999999


Q ss_pred             ecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCCCCCCCcEEEE
Q 039944          230 ISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRI  309 (348)
Q Consensus       230 l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l  309 (348)
                      +++  +.+..++..        ..+++|+.|++++|......+..+..+++|+.|++++|+ ++.++.....++|++|++
T Consensus       272 l~~--n~l~~~~~~--------~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~L~~n~-l~~~~~~~~l~~L~~L~l  340 (347)
T 4fmz_A          272 VGS--NQISDISVL--------NNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNH-ITDIRPLASLSKMDSADF  340 (347)
T ss_dssp             CCS--SCCCCCGGG--------GGCTTCSEEECCSSCCCGGGHHHHHTCTTCSEEECCSSS-CCCCGGGGGCTTCSEESS
T ss_pred             ccC--CccCCChhh--------cCCCCCCEEECcCCcCCCcChhHhhccccCCEEEccCCc-cccccChhhhhccceeeh
Confidence            998  466666432        367889999999964434455578889999999999975 666655334789999999


Q ss_pred             cCCc
Q 039944          310 SRCP  313 (348)
Q Consensus       310 ~~c~  313 (348)
                      ++|+
T Consensus       341 ~~N~  344 (347)
T 4fmz_A          341 ANQV  344 (347)
T ss_dssp             SCC-
T ss_pred             hhhc
Confidence            9886

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=99.89  E-value=1.8e-21  Score=188.33  Aligned_cols=203  Identities=17%  Similarity=0.060  Sum_probs=145.5

Q ss_pred             CCCCccEEEEcCCCCcccc--hhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccc-cccCCCCc
Q 039944           97 LPLSLKSLFVYGCSKLGSI--AERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPK-GMHNLTSL  173 (348)
Q Consensus        97 l~~~L~~L~l~~~~~~~~~--~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~-~l~~l~~L  173 (348)
                      ++. |+.|++++|......  +..+..+++|++|++++|......+..+..+++|+.|++++|......+. .+..+++|
T Consensus       349 l~~-L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L  427 (606)
T 3t6q_A          349 LEN-LRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLL  427 (606)
T ss_dssp             CTT-CCEEECCSSCCCEEEESTTTTTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTTCCTTTTCTTC
T ss_pred             cCc-CCEEECCCCccccccCcchhcccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcccchhhhCcccC
Confidence            455 889999887644333  55678889999999988654444456677788999999988754433343 36788999


Q ss_pred             ceeEeccCCCCCcccccCCCCCCcCeeeecCCccchh-hhhccccccCCCCCccEEEecccCCcccccc-cchhccCCCC
Q 039944          174 QYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWK-SMIERGRGFHRFSSLRRLTISRCDEDMVSFP-LEDKRLGTAL  251 (348)
Q Consensus       174 ~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~-~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~-~~~~~~~~~~  251 (348)
                      ++|++++|......+..++.+++|+.|+++++.-... .+..  ..+..+++|+.|++++ | .+..++ ...       
T Consensus       428 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~--~~~~~l~~L~~L~Ls~-n-~l~~~~~~~~-------  496 (606)
T 3t6q_A          428 KVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKT--NSLQTLGRLEILVLSF-C-DLSSIDQHAF-------  496 (606)
T ss_dssp             CEEECTTCCCBTTCTTTTTTCTTCCEEECTTCBCGGGEECSS--CGGGGCTTCCEEECTT-S-CCCEECTTTT-------
T ss_pred             CEEECCCCccCCcCHHHHhCCCCCCEEECCCCCCCccccccc--hhhccCCCccEEECCC-C-ccCccChhhh-------
Confidence            9999998754444455677889999999998643221 1111  2467789999999998 4 555553 333       


Q ss_pred             CCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEEEcCCc
Q 039944          252 PLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELRISRCP  313 (348)
Q Consensus       252 ~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~l~~c~  313 (348)
                      ..+++|++|+++++......|..+.++++| .|++++| .++.++...+  .++|++|++++|+
T Consensus       497 ~~l~~L~~L~Ls~N~l~~~~~~~l~~l~~L-~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N~  558 (606)
T 3t6q_A          497 TSLKMMNHVDLSHNRLTSSSIEALSHLKGI-YLNLASN-HISIILPSLLPILSQQRTINLRQNP  558 (606)
T ss_dssp             TTCTTCCEEECCSSCCCGGGGGGGTTCCSC-EEECCSS-CCCCCCGGGHHHHHTSSEEECTTCC
T ss_pred             ccccCCCEEECCCCccCcCChhHhCccccc-EEECcCC-cccccCHhhcccCCCCCEEeCCCCC
Confidence            577899999999864444556688889999 9999985 5666665433  6889999999887

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.89  E-value=1.5e-21  Score=178.87  Aligned_cols=272  Identities=17%  Similarity=0.127  Sum_probs=161.0

Q ss_pred             CCcccEEeecCcccccccCCCCC--CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccC
Q 039944            5 NSSLEILDIEKCHSLTYIAAVQL--PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSK   82 (348)
Q Consensus         5 ~~~L~~L~l~~~~~l~~l~~~~~--~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~   82 (348)
                      +++++.|+++++ .++.+|...+  +++|++|++++|. +..++..       .+..++  +|++|+++++. +.. ++.
T Consensus        44 l~~l~~l~l~~~-~l~~l~~~~~~~l~~L~~L~L~~n~-i~~~~~~-------~~~~l~--~L~~L~L~~n~-l~~-~~~  110 (390)
T 3o6n_A           44 LNNQKIVTFKNS-TMRKLPAALLDSFRQVELLNLNDLQ-IEEIDTY-------AFAYAH--TIQKLYMGFNA-IRY-LPP  110 (390)
T ss_dssp             GCCCSEEEEESC-EESEECTHHHHHCCCCSEEECTTSC-CCEECTT-------TTTTCT--TCCEEECCSSC-CCC-CCT
T ss_pred             cCCceEEEecCC-chhhCChhHhcccccCcEEECCCCc-ccccChh-------hccCCC--CcCEEECCCCC-CCc-CCH
Confidence            467788888764 5677776433  7788888888876 6666654       366666  78888887753 554 433


Q ss_pred             CC--CCCCcceeEe-------------ccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCC
Q 039944           83 NE--LPATLESLEV-------------GNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCA  147 (348)
Q Consensus        83 ~~--~~~~L~~L~i-------------~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~  147 (348)
                      ..  ..++|++|.+             ..+++ |+.|++++|......+..+..+++|++|++++| .+..++  ...++
T Consensus       111 ~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~-L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~--~~~l~  186 (390)
T 3o6n_A          111 HVFQNVPLLTVLVLERNDLSSLPRGIFHNTPK-LTTLSMSNNNLERIEDDTFQATTSLQNLQLSSN-RLTHVD--LSLIP  186 (390)
T ss_dssp             TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT-CCEEECCSSCCCBCCTTTTSSCTTCCEEECCSS-CCSBCC--GGGCT
T ss_pred             HHhcCCCCCCEEECCCCccCcCCHHHhcCCCC-CcEEECCCCccCccChhhccCCCCCCEEECCCC-cCCccc--ccccc
Confidence            21  2233444333             12233 566666555433323344555566666666553 222221  11122


Q ss_pred             CccEEEEecCC------------------CcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccch
Q 039944          148 KLTRLTILDCK------------------RLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIW  209 (348)
Q Consensus       148 ~L~~L~l~~~~------------------~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~  209 (348)
                      +|+.|++++|.                  .+..+|.  ..+++|++|++++| .+...+ .+..+++|+.|+++++. +.
T Consensus       187 ~L~~L~l~~n~l~~~~~~~~L~~L~l~~n~l~~~~~--~~~~~L~~L~l~~n-~l~~~~-~l~~l~~L~~L~Ls~n~-l~  261 (390)
T 3o6n_A          187 SLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRG--PVNVELTILKLQHN-NLTDTA-WLLNYPGLVEVDLSYNE-LE  261 (390)
T ss_dssp             TCSEEECCSSCCSEEECCSSCSEEECCSSCCCEEEC--CCCSSCCEEECCSS-CCCCCG-GGGGCTTCSEEECCSSC-CC
T ss_pred             ccceeecccccccccCCCCcceEEECCCCeeeeccc--cccccccEEECCCC-CCcccH-HHcCCCCccEEECCCCc-CC
Confidence            33333332211                  1222221  12345666666665 344444 56667788888887753 44


Q ss_pred             hhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCC
Q 039944          210 KSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGC  289 (348)
Q Consensus       210 ~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c  289 (348)
                      ....   ..+..+++|+.|++++  +.+..++...       ..+++|++|++++| .++.+|..+..+++|+.|++++|
T Consensus       262 ~~~~---~~~~~l~~L~~L~L~~--n~l~~~~~~~-------~~l~~L~~L~L~~n-~l~~~~~~~~~l~~L~~L~L~~N  328 (390)
T 3o6n_A          262 KIMY---HPFVKMQRLERLYISN--NRLVALNLYG-------QPIPTLKVLDLSHN-HLLHVERNQPQFDRLENLYLDHN  328 (390)
T ss_dssp             EEES---GGGTTCSSCCEEECCS--SCCCEEECSS-------SCCTTCCEEECCSS-CCCCCGGGHHHHTTCSEEECCSS
T ss_pred             CcCh---hHccccccCCEEECCC--CcCcccCccc-------CCCCCCCEEECCCC-cceecCccccccCcCCEEECCCC
Confidence            3322   2567788888888887  5666666544       35678888888884 67778877888888888888885


Q ss_pred             CCCCCCCCCCCCCCCcEEEEcCCc
Q 039944          290 PKLKYFPEKGLPSSLLELRISRCP  313 (348)
Q Consensus       290 ~~l~~l~~~~~~~~L~~L~l~~c~  313 (348)
                       .++.++. ...++|++|++++++
T Consensus       329 -~i~~~~~-~~~~~L~~L~l~~N~  350 (390)
T 3o6n_A          329 -SIVTLKL-STHHTLKNLTLSHND  350 (390)
T ss_dssp             -CCCCCCC-CTTCCCSEEECCSSC
T ss_pred             -ccceeCc-hhhccCCEEEcCCCC
Confidence             4666654 335788999998876

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

Probab=99.89  E-value=1.9e-22  Score=196.05  Aligned_cols=62  Identities=8%  Similarity=0.129  Sum_probs=35.9

Q ss_pred             CCCCCcccEEeecCcccccc------------------cCCC-C--CCCCccEEEeccCccccccccccccccccccccc
Q 039944            2 CDTNSSLEILDIEKCHSLTY------------------IAAV-Q--LPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRY   60 (348)
Q Consensus         2 ~~~~~~L~~L~l~~~~~l~~------------------l~~~-~--~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~   60 (348)
                      ++++++|++|+++++ .++.                  +|.. +  .+++|++|++++|.....+|..        +..+
T Consensus       202 l~~l~~L~~L~Ls~n-~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~--------l~~l  272 (636)
T 4eco_A          202 VMRLTKLRQFYMGNS-PFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTF--------LKAL  272 (636)
T ss_dssp             GGGCTTCCEEEEESC-CCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTT--------TTTC
T ss_pred             HhcccCCCEEECcCC-ccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHH--------HhcC
Confidence            345667777777764 3444                  5543 3  3666777777776644455543        4555


Q ss_pred             cCCccceeeeeCCC
Q 039944           61 TSSLLEHLEIISCP   74 (348)
Q Consensus        61 ~~~~L~~L~l~~~~   74 (348)
                      +  +|++|+++++.
T Consensus       273 ~--~L~~L~Ls~n~  284 (636)
T 4eco_A          273 P--EMQLINVACNR  284 (636)
T ss_dssp             S--SCCEEECTTCT
T ss_pred             C--CCCEEECcCCC
Confidence            5  66666665543

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=99.88  E-value=1e-21  Score=183.48  Aligned_cols=302  Identities=18%  Similarity=0.171  Sum_probs=168.3

Q ss_pred             EEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCC--CCCC
Q 039944           10 ILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKN--ELPA   87 (348)
Q Consensus        10 ~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~--~~~~   87 (348)
                      .++..+ ..++++|.  .+++|++|+++++. +..++..       .+..++  +|++|+++++..... ++..  ...+
T Consensus        14 ~~~c~~-~~l~~lp~--l~~~l~~L~Ls~n~-i~~~~~~-------~~~~l~--~L~~L~L~~n~~~~~-i~~~~~~~l~   79 (455)
T 3v47_A           14 NAICIN-RGLHQVPE--LPAHVNYVDLSLNS-IAELNET-------SFSRLQ--DLQFLKVEQQTPGLV-IRNNTFRGLS   79 (455)
T ss_dssp             EEECCS-SCCSSCCC--CCTTCCEEECCSSC-CCEECTT-------TTSSCT--TCCEEECCCCSTTCE-ECTTTTTTCT
T ss_pred             ccCcCC-CCcccCCC--CCCccCEEEecCCc-cCcCChh-------HhccCc--cccEEECcCCcccce-ECcccccccc
Confidence            455554 46778887  57899999999997 7777554       478888  999999998753323 4433  2224


Q ss_pred             CcceeEe-------------ccCCCCccEEEEcCCCCcccchhh--hcCCCccceeccccccccccc-CCC-CCCCCCcc
Q 039944           88 TLESLEV-------------GNLPLSLKSLFVYGCSKLGSIAER--LDNNTSLETISIDSCGNLVSF-PEG-GLPCAKLT  150 (348)
Q Consensus        88 ~L~~L~i-------------~~l~~~L~~L~l~~~~~~~~~~~~--~~~l~~L~~L~l~~~~~l~~~-~~~-~~~~~~L~  150 (348)
                      +|++|.+             ..+++ |+.|++++|.....++..  +..+++|++|++++|. +..+ |.. +..+++|+
T Consensus        80 ~L~~L~Ls~n~l~~~~~~~~~~l~~-L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~~l~~L~  157 (455)
T 3v47_A           80 SLIILKLDYNQFLQLETGAFNGLAN-LEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNN-IKKIQPASFFLNMRRFH  157 (455)
T ss_dssp             TCCEEECTTCTTCEECTTTTTTCTT-CCEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSB-CCSCCCCGGGGGCTTCC
T ss_pred             cCCEEeCCCCccCccChhhccCccc-CCEEeCCCCCCCccccCcccccCcccCCEEECCCCc-cCccCcccccCCCCccc
Confidence            4444444             12333 555555554422222222  4445555555555532 2222 222 33445555


Q ss_pred             EEEEecCCCcCcccccccC----------------------------------CCCcceeEeccCCCCCcccccC-----
Q 039944          151 RLTILDCKRLEALPKGMHN----------------------------------LTSLQYLRIGKGGALPSLEEED-----  191 (348)
Q Consensus       151 ~L~l~~~~~l~~~~~~l~~----------------------------------l~~L~~L~l~~~~~~~~~~~~~-----  191 (348)
                      +|++++|......+..+..                                  +++|++|++++|......+..+     
T Consensus       158 ~L~L~~n~l~~~~~~~l~~l~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~  237 (455)
T 3v47_A          158 VLDLTFNKVKSICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIA  237 (455)
T ss_dssp             EEECTTCCBSCCCTTTSGGGTTCEEEEEECTTCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHHHHTT
T ss_pred             EEeCCCCcccccChhhhhccccccccccccccCcccccchhhccccccccccccceeeeEecCCCcccccchhhhhcccc
Confidence            5555554322111211111                                  1334444444331110000000     


Q ss_pred             ----------------------------------CCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcc
Q 039944          192 ----------------------------------GLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDM  237 (348)
Q Consensus       192 ----------------------------------~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l  237 (348)
                                                        ...++|+.++++++. +.....   ..+..+++|+.|++++  +.+
T Consensus       238 ~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~-l~~~~~---~~~~~l~~L~~L~Ls~--n~l  311 (455)
T 3v47_A          238 GTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSK-IFALLK---SVFSHFTDLEQLTLAQ--NEI  311 (455)
T ss_dssp             TCCEEEEECTTCTTTSCCTTCCSSCCCCTTTTGGGTTSCCCEEECCSSC-CCEECT---TTTTTCTTCCEEECTT--SCC
T ss_pred             ccceeeEeeccccccccccchhhhccCcccccccccccCceEEEecCcc-ccccch---hhcccCCCCCEEECCC--Ccc
Confidence                                              001234444444432 222111   2356677888888887  455


Q ss_pred             cccccchhccCCCCCCCCCccEEEeccCCCcccc-ccccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEEEcCCch
Q 039944          238 VSFPLEDKRLGTALPLPASLTSLWIEAFPNLERL-SSSIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELRISRCPL  314 (348)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i-~~~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~l~~c~~  314 (348)
                      ..++..      ++..+++|++|++++| .++.+ +..+..+++|++|++++| .++.++...+  .++|++|++++|.-
T Consensus       312 ~~~~~~------~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N~l  383 (455)
T 3v47_A          312 NKIDDN------AFWGLTHLLKLNLSQN-FLGSIDSRMFENLDKLEVLDLSYN-HIRALGDQSFLGLPNLKELALDTNQL  383 (455)
T ss_dssp             CEECTT------TTTTCTTCCEEECCSS-CCCEECGGGGTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSCC
T ss_pred             cccChh------HhcCcccCCEEECCCC-ccCCcChhHhcCcccCCEEECCCC-cccccChhhccccccccEEECCCCcc
Confidence            544331      1246788999999985 55655 557788999999999986 5666644333  68999999998752


Q ss_pred             hHHHhhccCCccccCCCCcCEEEecceeeccC
Q 039944          315 IAEKCRKDGGQYWDLLTHIPRVEIDWKSVFGD  346 (348)
Q Consensus       315 l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~  346 (348)
                       +    ....+.+..+.++..+.+.++.+.|+
T Consensus       384 -~----~~~~~~~~~l~~L~~L~l~~N~l~~~  410 (455)
T 3v47_A          384 -K----SVPDGIFDRLTSLQKIWLHTNPWDCS  410 (455)
T ss_dssp             -S----CCCTTTTTTCTTCCEEECCSSCBCCC
T ss_pred             -c----cCCHhHhccCCcccEEEccCCCcccC
Confidence             2    12223345678899999999888775

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

Probab=99.88  E-value=1.8e-21  Score=174.04  Aligned_cols=222  Identities=21%  Similarity=0.278  Sum_probs=146.1

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEc
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVY  107 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~  107 (348)
                      ..+++.|+++++. +..+|..        +..++  +|++|+++++. +.. +|.     .+     ..++. |+.|+++
T Consensus        80 ~~~l~~L~L~~n~-l~~lp~~--------l~~l~--~L~~L~L~~n~-l~~-lp~-----~~-----~~l~~-L~~L~Ls  135 (328)
T 4fcg_A           80 QPGRVALELRSVP-LPQFPDQ--------AFRLS--HLQHMTIDAAG-LME-LPD-----TM-----QQFAG-LETLTLA  135 (328)
T ss_dssp             STTCCEEEEESSC-CSSCCSC--------GGGGT--TCSEEEEESSC-CCC-CCS-----CG-----GGGTT-CSEEEEE
T ss_pred             ccceeEEEccCCC-chhcChh--------hhhCC--CCCEEECCCCC-ccc-hhH-----HH-----hccCC-CCEEECC
Confidence            3677788888776 6777765        45566  78888887753 433 442     22     23355 7888887


Q ss_pred             CCCCcccchhhhcCCCccceecccccccccccCCCCCC---------CCCccEEEEecCCCcCcccccccCCCCcceeEe
Q 039944          108 GCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLP---------CAKLTRLTILDCKRLEALPKGMHNLTSLQYLRI  178 (348)
Q Consensus       108 ~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~---------~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l  178 (348)
                      +|. +..+|..+..+++|++|++++|.....+|..+..         +++|+.|++++| .+..+|..+..+++|++|++
T Consensus       136 ~n~-l~~lp~~l~~l~~L~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n-~l~~lp~~l~~l~~L~~L~L  213 (328)
T 4fcg_A          136 RNP-LRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWT-GIRSLPASIANLQNLKSLKI  213 (328)
T ss_dssp             SCC-CCCCCGGGGGCTTCCEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEE-CCCCCCGGGGGCTTCCEEEE
T ss_pred             CCc-cccCcHHHhcCcCCCEEECCCCCCccccChhHhhccchhhhccCCCCCEEECcCC-CcCcchHhhcCCCCCCEEEc
Confidence            765 4466777777888888888777777777665543         667777777775 45566666777777777777


Q ss_pred             ccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCcc
Q 039944          179 GKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLT  258 (348)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~  258 (348)
                      ++| .+..+|..++.+++|+.|++++|......+    ..+..+++|+.|++++ |.....+|...       ..+++|+
T Consensus       214 ~~N-~l~~l~~~l~~l~~L~~L~Ls~n~~~~~~p----~~~~~l~~L~~L~L~~-n~~~~~~p~~~-------~~l~~L~  280 (328)
T 4fcg_A          214 RNS-PLSALGPAIHHLPKLEELDLRGCTALRNYP----PIFGGRAPLKRLILKD-CSNLLTLPLDI-------HRLTQLE  280 (328)
T ss_dssp             ESS-CCCCCCGGGGGCTTCCEEECTTCTTCCBCC----CCTTCCCCCCEEECTT-CTTCCBCCTTG-------GGCTTCC
T ss_pred             cCC-CCCcCchhhccCCCCCEEECcCCcchhhhH----HHhcCCCCCCEEECCC-CCchhhcchhh-------hcCCCCC
Confidence            766 445555556666777777777765555444    2456667777777776 55555666554       3556677


Q ss_pred             EEEeccCCCccccccccccCCCcceEeccC
Q 039944          259 SLWIEAFPNLERLSSSIVDLQNLTELYLFG  288 (348)
Q Consensus       259 ~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~  288 (348)
                      +|++++|+..+.+|..+.++++|+.+++..
T Consensus       281 ~L~L~~n~~~~~iP~~l~~L~~L~~l~l~~  310 (328)
T 4fcg_A          281 KLDLRGCVNLSRLPSLIAQLPANCIILVPP  310 (328)
T ss_dssp             EEECTTCTTCCCCCGGGGGSCTTCEEECCG
T ss_pred             EEeCCCCCchhhccHHHhhccCceEEeCCH
Confidence            777777666667777777777777776654

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=99.88  E-value=1.6e-20  Score=176.02  Aligned_cols=268  Identities=18%  Similarity=0.188  Sum_probs=137.6

Q ss_pred             CCCcccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCC---------
Q 039944            4 TNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCP---------   74 (348)
Q Consensus         4 ~~~~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~---------   74 (348)
                      .+++|++|+++++ .++.+++...+++|++|++++|. +..++.         +..+.  +|++|+++++.         
T Consensus        66 ~l~~L~~L~Ls~n-~l~~~~~~~~l~~L~~L~l~~n~-l~~~~~---------~~~l~--~L~~L~L~~n~l~~~~~~~~  132 (466)
T 1o6v_A           66 YLNNLTQINFSNN-QLTDITPLKNLTKLVDILMNNNQ-IADITP---------LANLT--NLTGLTLFNNQITDIDPLKN  132 (466)
T ss_dssp             GCTTCCEEECCSS-CCCCCGGGTTCTTCCEEECCSSC-CCCCGG---------GTTCT--TCCEEECCSSCCCCCGGGTT
T ss_pred             hhcCCCEEECCCC-ccCCchhhhccccCCEEECCCCc-cccChh---------hcCCC--CCCEEECCCCCCCCChHHcC
Confidence            4566667777654 45555543335666666666664 444332         23333  44444444431         


Q ss_pred             ------------CccccccCCCCCCCcceeEe----------ccCCCCccEEEEcCCCCcccchhhhcCCCccceecccc
Q 039944           75 ------------SLTCIFSKNELPATLESLEV----------GNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDS  132 (348)
Q Consensus        75 ------------~l~~~~~~~~~~~~L~~L~i----------~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~  132 (348)
                                  .+.+ ++.....++|+.|.+          ..++. |+.|++++|. +..++ .+..+++|++|++++
T Consensus       133 l~~L~~L~l~~n~l~~-~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~-L~~L~l~~n~-l~~~~-~l~~l~~L~~L~l~~  208 (466)
T 1o6v_A          133 LTNLNRLELSSNTISD-ISALSGLTSLQQLSFGNQVTDLKPLANLTT-LERLDISSNK-VSDIS-VLAKLTNLESLIATN  208 (466)
T ss_dssp             CTTCSEEEEEEEEECC-CGGGTTCTTCSEEEEEESCCCCGGGTTCTT-CCEEECCSSC-CCCCG-GGGGCTTCSEEECCS
T ss_pred             CCCCCEEECCCCccCC-ChhhccCCcccEeecCCcccCchhhccCCC-CCEEECcCCc-CCCCh-hhccCCCCCEEEecC
Confidence                        1222 222222234444433          22343 6666666554 33332 255566666666665


Q ss_pred             cccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhh
Q 039944          133 CGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSM  212 (348)
Q Consensus       133 ~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  212 (348)
                      |. +..++. ...+++|+.|++++|. +..+ +.+..+++|++|++++| .+..++ .+..+++|+.|+++++ .+...+
T Consensus       209 n~-l~~~~~-~~~l~~L~~L~l~~n~-l~~~-~~l~~l~~L~~L~l~~n-~l~~~~-~~~~l~~L~~L~l~~n-~l~~~~  281 (466)
T 1o6v_A          209 NQ-ISDITP-LGILTNLDELSLNGNQ-LKDI-GTLASLTNLTDLDLANN-QISNLA-PLSGLTKLTELKLGAN-QISNIS  281 (466)
T ss_dssp             SC-CCCCGG-GGGCTTCCEEECCSSC-CCCC-GGGGGCTTCSEEECCSS-CCCCCG-GGTTCTTCSEEECCSS-CCCCCG
T ss_pred             Cc-cccccc-ccccCCCCEEECCCCC-cccc-hhhhcCCCCCEEECCCC-ccccch-hhhcCCCCCEEECCCC-ccCccc
Confidence            42 222222 3345566666666643 3444 24556666666666665 344444 3556666666666664 233333


Q ss_pred             hccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCC
Q 039944          213 IERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKL  292 (348)
Q Consensus       213 ~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l  292 (348)
                           .+..+++|+.|++++  +.+..++..        ..+++|+.|++++| .+..++. +..+++|+.|++++| .+
T Consensus       282 -----~~~~l~~L~~L~L~~--n~l~~~~~~--------~~l~~L~~L~L~~n-~l~~~~~-~~~l~~L~~L~l~~n-~l  343 (466)
T 1o6v_A          282 -----PLAGLTALTNLELNE--NQLEDISPI--------SNLKNLTYLTLYFN-NISDISP-VSSLTKLQRLFFYNN-KV  343 (466)
T ss_dssp             -----GGTTCTTCSEEECCS--SCCSCCGGG--------GGCTTCSEEECCSS-CCSCCGG-GGGCTTCCEEECCSS-CC
T ss_pred             -----cccCCCccCeEEcCC--CcccCchhh--------cCCCCCCEEECcCC-cCCCchh-hccCccCCEeECCCC-cc
Confidence                 245566666666666  344444331        24556666666664 3444433 556666666666664 44


Q ss_pred             CCCCCCCCCCCCcEEEEcCCc
Q 039944          293 KYFPEKGLPSSLLELRISRCP  313 (348)
Q Consensus       293 ~~l~~~~~~~~L~~L~l~~c~  313 (348)
                      +.++...-.++|++|++++|.
T Consensus       344 ~~~~~l~~l~~L~~L~l~~n~  364 (466)
T 1o6v_A          344 SDVSSLANLTNINWLSAGHNQ  364 (466)
T ss_dssp             CCCGGGTTCTTCCEEECCSSC
T ss_pred             CCchhhccCCCCCEEeCCCCc
Confidence            444432235666666666664

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.88  E-value=7.3e-21  Score=180.74  Aligned_cols=134  Identities=19%  Similarity=0.204  Sum_probs=70.2

Q ss_pred             cCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccc-cccchhc
Q 039944          168 HNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVS-FPLEDKR  246 (348)
Q Consensus       168 ~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~-~~~~~~~  246 (348)
                      ..+++|++|++++|.-....|..++.+++|+.|+++++. +..++.. ...+..+++|+.|++++  +.+.. +|...  
T Consensus       321 ~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~-l~~l~~~-~~~~~~l~~L~~L~Ls~--N~l~~~l~~~~--  394 (520)
T 2z7x_B          321 SKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQ-LKELSKI-AEMTTQMKSLQQLDISQ--NSVSYDEKKGD--  394 (520)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTTTCCCCSSCCEEECCSSC-CCBHHHH-HHHHTTCTTCCEEECCS--SCCBCCGGGCS--
T ss_pred             hhCCcccEEEeECCccChhhhhhhccCCCCCEEEccCCc-cCccccc-hHHHhhCCCCCEEECCC--CcCCcccccch--
Confidence            345666666666653333344455566666666666643 2221100 01245556666666665  23333 33321  


Q ss_pred             cCCCCCCC----------------------CCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCCC--CC
Q 039944          247 LGTALPLP----------------------ASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGL--PS  302 (348)
Q Consensus       247 ~~~~~~~~----------------------~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~  302 (348)
                          +..+                      ++|+.|++++| .++.+|..+..+++|+.|++++| .++.+|...+  .+
T Consensus       395 ----~~~l~~L~~L~Ls~N~l~~~~~~~l~~~L~~L~Ls~N-~l~~ip~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~l~  468 (520)
T 2z7x_B          395 ----CSWTKSLLSLNMSSNILTDTIFRCLPPRIKVLDLHSN-KIKSIPKQVVKLEALQELNVASN-QLKSVPDGIFDRLT  468 (520)
T ss_dssp             ----CCCCTTCCEEECCSSCCCGGGGGSCCTTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCSS-CCCCCCTTTTTTCT
T ss_pred             ----hccCccCCEEECcCCCCCcchhhhhcccCCEEECCCC-cccccchhhhcCCCCCEEECCCC-cCCccCHHHhccCC
Confidence                0122                      45666666663 55566665556667777777664 5556665322  45


Q ss_pred             CCcEEEEcCCc
Q 039944          303 SLLELRISRCP  313 (348)
Q Consensus       303 ~L~~L~l~~c~  313 (348)
                      +|++|++++|+
T Consensus       469 ~L~~L~l~~N~  479 (520)
T 2z7x_B          469 SLQKIWLHTNP  479 (520)
T ss_dssp             TCCEEECCSSC
T ss_pred             cccEEECcCCC
Confidence            66777766654

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.88  E-value=3.3e-21  Score=186.48  Aligned_cols=268  Identities=16%  Similarity=0.115  Sum_probs=192.6

Q ss_pred             CCCCcccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccC
Q 039944            3 DTNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSK   82 (348)
Q Consensus         3 ~~~~~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~   82 (348)
                      ..+++|+.|+++++ .++.+|....+++|++|++++|. +..+| .        + .+.  +|++|++.++..... ++.
T Consensus       282 ~~l~~L~~L~l~~~-~~~~l~~l~~~~~L~~L~l~~n~-l~~lp-~--------~-~l~--~L~~L~l~~n~~~~~-~~~  346 (606)
T 3vq2_A          282 HCLANVSAMSLAGV-SIKYLEDVPKHFKWQSLSIIRCQ-LKQFP-T--------L-DLP--FLKSLTLTMNKGSIS-FKK  346 (606)
T ss_dssp             GGGTTCSEEEEESC-CCCCCCCCCTTCCCSEEEEESCC-CSSCC-C--------C-CCS--SCCEEEEESCSSCEE-CCC
T ss_pred             ccCCCCCEEEecCc-cchhhhhccccccCCEEEccccc-Ccccc-c--------C-CCC--ccceeeccCCcCccc-hhh
Confidence            34566666666654 44555533335666677776666 45555 2        2 444  666777766543332 221


Q ss_pred             CCCCCCcceeEeccCCCCccEEEEcCCCCcccc---hhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCC
Q 039944           83 NELPATLESLEVGNLPLSLKSLFVYGCSKLGSI---AERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKR  159 (348)
Q Consensus        83 ~~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~---~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~  159 (348)
                                  ..+++ |+.|++++|. +...   +..+..+++|++|++++| .+..+|..+..+++|+.|++++|..
T Consensus       347 ------------~~l~~-L~~L~ls~n~-l~~~~~~~~~~~~~~~L~~L~L~~n-~l~~~~~~~~~l~~L~~L~l~~n~l  411 (606)
T 3vq2_A          347 ------------VALPS-LSYLDLSRNA-LSFSGCCSYSDLGTNSLRHLDLSFN-GAIIMSANFMGLEELQHLDFQHSTL  411 (606)
T ss_dssp             ------------CCCTT-CCEEECCSSC-EEEEEECCHHHHCCSCCCEEECCSC-SEEEECCCCTTCTTCCEEECTTSEE
T ss_pred             ------------ccCCC-CCEEECcCCc-cCCCcchhhhhccCCcccEeECCCC-ccccchhhccCCCCCCeeECCCCcc
Confidence                        33466 9999999886 4333   677889999999999985 4777888888899999999999764


Q ss_pred             cCccc-ccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCccc
Q 039944          160 LEALP-KGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMV  238 (348)
Q Consensus       160 l~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~  238 (348)
                      ....| ..+..+++|++|++++|......+..++.+++|+.|+++++.-......   ..+..+++|+.|++++ | .+.
T Consensus       412 ~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~---~~~~~l~~L~~L~Ls~-n-~l~  486 (606)
T 3vq2_A          412 KRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLS---NVFANTTNLTFLDLSK-C-QLE  486 (606)
T ss_dssp             ESTTTTTTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEEC---SCCTTCTTCCEEECTT-S-CCC
T ss_pred             CCccChhhhhccccCCEEECcCCCCCccchhhhcCCCCCCEEECCCCcCCCcchH---HhhccCCCCCEEECCC-C-cCC
Confidence            44444 4678899999999999865555666788899999999999653332222   3578899999999998 4 555


Q ss_pred             cccc-chhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCC--CCCCCCcEEEEcCCc
Q 039944          239 SFPL-EDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEK--GLPSSLLELRISRCP  313 (348)
Q Consensus       239 ~~~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~--~~~~~L~~L~l~~c~  313 (348)
                      .++. ..       ..+++|++|++++|......|..+..+++|+.|++++| .++.+|..  .++.+|++|++++|+
T Consensus       487 ~~~~~~~-------~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~p~~~~~l~~~L~~l~l~~N~  556 (606)
T 3vq2_A          487 QISWGVF-------DTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFN-RIETSKGILQHFPKSLAFFNLTNNS  556 (606)
T ss_dssp             EECTTTT-------TTCTTCCEEECCSSCCSCEEGGGTTTCTTCCEEECTTS-CCCCEESCGGGSCTTCCEEECCSCC
T ss_pred             ccChhhh-------cccccCCEEECCCCcCCCcCHHHccCCCcCCEEECCCC-cCcccCHhHhhhcccCcEEEccCCC
Confidence            5543 33       57889999999996443444778999999999999996 58888874  223479999999976

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=99.87  E-value=6.3e-21  Score=182.34  Aligned_cols=159  Identities=23%  Similarity=0.264  Sum_probs=82.7

Q ss_pred             CCCCcceeEeccCCCCCccc---ccCCCCCCcCeeeecCCccchhhhh-ccccccCCCCCccEEEecccCCcccccccch
Q 039944          169 NLTSLQYLRIGKGGALPSLE---EEDGLPTNLQSLDIWGNMEIWKSMI-ERGRGFHRFSSLRRLTISRCDEDMVSFPLED  244 (348)
Q Consensus       169 ~l~~L~~L~l~~~~~~~~~~---~~~~~~~~L~~L~l~~~~~l~~~~~-~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~  244 (348)
                      .+++|++|++++|.....++   ..++.+++|+.|++++| .++..+. .  ..+..+++|+.|++++  +.+..+|...
T Consensus       332 ~l~~L~~L~Ls~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~--~~~~~l~~L~~L~Ls~--N~l~~lp~~~  406 (549)
T 2z81_A          332 HLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQN-HLRSMQKTG--EILLTLKNLTSLDISR--NTFHPMPDSC  406 (549)
T ss_dssp             HCTTCCEEECCSSCCCHHHHHHHTCTTSSTTCCEEECTTS-CCCCHHHHH--HHGGGCTTCCEEECTT--CCCCCCCSCC
T ss_pred             cCccccEEEccCCccccccccchhhhhccccCcEEEccCC-cccccccch--hhhhcCCCCCEEECCC--CCCccCChhh
Confidence            35555555555543222121   12345556666666664 2332221 0  1245566666666666  3555555433


Q ss_pred             hccCCCCCCCCCccEEEeccCCCccccccc------------------cccCCCcceEeccCCCCCCCCCCCCCCCCCcE
Q 039944          245 KRLGTALPLPASLTSLWIEAFPNLERLSSS------------------IVDLQNLTELYLFGCPKLKYFPEKGLPSSLLE  306 (348)
Q Consensus       245 ~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~------------------~~~~~~L~~L~l~~c~~l~~l~~~~~~~~L~~  306 (348)
                             ..+++|++|++++| .++.++..                  ...+++|++|++++| .++.+|.....++|++
T Consensus       407 -------~~~~~L~~L~Ls~N-~l~~l~~~~~~~L~~L~Ls~N~l~~~~~~l~~L~~L~Ls~N-~l~~ip~~~~l~~L~~  477 (549)
T 2z81_A          407 -------QWPEKMRFLNLSST-GIRVVKTCIPQTLEVLDVSNNNLDSFSLFLPRLQELYISRN-KLKTLPDASLFPVLLV  477 (549)
T ss_dssp             -------CCCTTCCEEECTTS-CCSCCCTTSCTTCSEEECCSSCCSCCCCCCTTCCEEECCSS-CCSSCCCGGGCTTCCE
T ss_pred             -------cccccccEEECCCC-CcccccchhcCCceEEECCCCChhhhcccCChhcEEECCCC-ccCcCCCcccCccCCE
Confidence                   24445555555553 33333221                  124666777777764 5666666444667777


Q ss_pred             EEEcCCchhHHHhhccCCccccCCCCcCEEEecceeeccC
Q 039944          307 LRISRCPLIAEKCRKDGGQYWDLLTHIPRVEIDWKSVFGD  346 (348)
Q Consensus       307 L~l~~c~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~  346 (348)
                      |++++|.- +.    ...+.+..+.++..+.+.++.+.|+
T Consensus       478 L~Ls~N~l-~~----~~~~~~~~l~~L~~L~l~~N~~~~~  512 (549)
T 2z81_A          478 MKISRNQL-KS----VPDGIFDRLTSLQKIWLHTNPWDCS  512 (549)
T ss_dssp             EECCSSCC-CC----CCTTGGGGCTTCCEEECCSSCBCCC
T ss_pred             EecCCCcc-CC----cCHHHHhcCcccCEEEecCCCccCC
Confidence            77777632 21    2222345567777888877776654

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

Probab=99.87  E-value=1.2e-21  Score=190.38  Aligned_cols=279  Identities=18%  Similarity=0.193  Sum_probs=153.2

Q ss_pred             CCCcccEEeecCcccccccCCCC-CCCCccEEEeccCcccc--ccccccccccccccccc------cCCccceeeeeCCC
Q 039944            4 TNSSLEILDIEKCHSLTYIAAVQ-LPSSLKKLQICDCYNIR--TLTVEEGIQCSSSSRRY------TSSLLEHLEIISCP   74 (348)
Q Consensus         4 ~~~~L~~L~l~~~~~l~~l~~~~-~~~~L~~L~l~~~~~l~--~~~~~~~~~~~~~~~~~------~~~~L~~L~l~~~~   74 (348)
                      ++++|++|++++|...+.+|... .+++|++|++++|..++  .+|..        +..+      +  +|++|+++++.
T Consensus       247 ~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~~l~~~~lp~~--------~~~L~~~~~l~--~L~~L~L~~n~  316 (636)
T 4eco_A          247 NLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDD--------WQALADAPVGE--KIQIIYIGYNN  316 (636)
T ss_dssp             GCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECTTCTTSCHHHHHHH--------HHHHHHSGGGG--TCCEEECCSSC
T ss_pred             ccCCCCEEEecCCcCCccChHHHhcCCCCCEEECcCCCCCccccchHH--------HHhhhccccCC--CCCEEECCCCc
Confidence            78899999999876566777543 38899999999986344  36654        3332      4  77777777653


Q ss_pred             CccccccC---CCCCCCcceeEe------ccCC-----CCccEEEEcCCCCcccchhhhcCCCc-cceeccccccccccc
Q 039944           75 SLTCIFSK---NELPATLESLEV------GNLP-----LSLKSLFVYGCSKLGSIAERLDNNTS-LETISIDSCGNLVSF  139 (348)
Q Consensus        75 ~l~~~~~~---~~~~~~L~~L~i------~~l~-----~~L~~L~l~~~~~~~~~~~~~~~l~~-L~~L~l~~~~~l~~~  139 (348)
                       +.. +|.   ...+++|+.|.+      +.+|     .+|+.|++++|. +..+|..+..+++ |++|++++|. +..+
T Consensus       317 -l~~-ip~~~~l~~l~~L~~L~L~~N~l~g~ip~~~~l~~L~~L~L~~N~-l~~lp~~l~~l~~~L~~L~Ls~N~-l~~l  392 (636)
T 4eco_A          317 -LKT-FPVETSLQKMKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAYNQ-ITEIPANFCGFTEQVENLSFAHNK-LKYI  392 (636)
T ss_dssp             -CSS-CCCHHHHTTCTTCCEEECCSCCCEEECCCCEEEEEESEEECCSSE-EEECCTTSEEECTTCCEEECCSSC-CSSC
T ss_pred             -CCc-cCchhhhccCCCCCEEeCcCCcCccchhhhCCCCCCCEEECCCCc-cccccHhhhhhcccCcEEEccCCc-Cccc
Confidence             444 554   233355555555      1121     125555565554 3345555555555 6666665532 3344


Q ss_pred             CCCCCCCC--CccEEEEecCCC------------------------------cCcccccc-cCCCCcceeEeccCCCCCc
Q 039944          140 PEGGLPCA--KLTRLTILDCKR------------------------------LEALPKGM-HNLTSLQYLRIGKGGALPS  186 (348)
Q Consensus       140 ~~~~~~~~--~L~~L~l~~~~~------------------------------l~~~~~~l-~~l~~L~~L~l~~~~~~~~  186 (348)
                      |..+...+  +|+.|++++|..                              +..+|..+ ..+++|++|++++| .+..
T Consensus       393 p~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~~~l~~L~~L~Ls~N-~l~~  471 (636)
T 4eco_A          393 PNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLMGN-MLTE  471 (636)
T ss_dssp             CSCCCTTCSSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEEEECCSSCCCSCCTHHHHTTCCCSEEECCSS-CCSB
T ss_pred             chhhhhcccCccCEEECcCCcCCCcchhhhcccccccccCCCCCEEECcCCccCcCCHHHHccCCCCCEEECCCC-CCCC
Confidence            44333222  444444444332                              23343322 23455555555554 2334


Q ss_pred             ccccCCC--------CCCcCeeeecCCccchhhhhccccccC--CCCCccEEEecccCCcccccccchhccCCCCCCCCC
Q 039944          187 LEEEDGL--------PTNLQSLDIWGNMEIWKSMIERGRGFH--RFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPAS  256 (348)
Q Consensus       187 ~~~~~~~--------~~~L~~L~l~~~~~l~~~~~~~~~~~~--~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~  256 (348)
                      +|.....        +++|+.|+++++ .+..++.    .+.  .+++|+.|++++  +.+..+|...       ..+++
T Consensus       472 i~~~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~lp~----~~~~~~l~~L~~L~Ls~--N~l~~ip~~~-------~~l~~  537 (636)
T 4eco_A          472 IPKNSLKDENENFKNTYLLTSIDLRFN-KLTKLSD----DFRATTLPYLVGIDLSY--NSFSKFPTQP-------LNSST  537 (636)
T ss_dssp             CCSSSSEETTEECTTGGGCCEEECCSS-CCCBCCG----GGSTTTCTTCCEEECCS--SCCSSCCCGG-------GGCSS
T ss_pred             cCHHHhccccccccccCCccEEECcCC-cCCccCh----hhhhccCCCcCEEECCC--CCCCCcChhh-------hcCCC
Confidence            4422211        115666666653 2334432    222  566666666666  3455555554       35566


Q ss_pred             ccEEEecc------CCCccccccccccCCCcceEeccCCCCCCCCCCCCCCCCCcEEEEcCCc
Q 039944          257 LTSLWIEA------FPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCP  313 (348)
Q Consensus       257 L~~L~l~~------~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~c~  313 (348)
                      |+.|++++      +.....+|..+.++++|++|++++| .++.+|.. +.++|++|++++|+
T Consensus       538 L~~L~Ls~N~~ls~N~l~~~~p~~l~~l~~L~~L~Ls~N-~l~~ip~~-~~~~L~~L~Ls~N~  598 (636)
T 4eco_A          538 LKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSN-DIRKVNEK-ITPNISVLDIKDNP  598 (636)
T ss_dssp             CCEEECCSCBCTTCCBCCCCCCTTGGGCSSCCEEECCSS-CCCBCCSC-CCTTCCEEECCSCT
T ss_pred             CCEEECCCCcccccCcccccChHHHhcCCCCCEEECCCC-cCCccCHh-HhCcCCEEECcCCC
Confidence            77777733      3334456666777777777777774 34666653 44677777777775

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

Probab=99.87  E-value=3.6e-21  Score=191.23  Aligned_cols=286  Identities=17%  Similarity=0.162  Sum_probs=173.1

Q ss_pred             CCCCcccEEeecCcccccccCCC-CCCCCccEEEeccCcccc--ccccccccccccccccccCCccceeeeeCCCCcccc
Q 039944            3 DTNSSLEILDIEKCHSLTYIAAV-QLPSSLKKLQICDCYNIR--TLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCI   79 (348)
Q Consensus         3 ~~~~~L~~L~l~~~~~l~~l~~~-~~~~~L~~L~l~~~~~l~--~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~   79 (348)
                      ..+++|+.|++++|...+.+|.. ..+++|+.|++++|..+.  .+|..++. ....+..+.  +|+.|+++++. +.. 
T Consensus       488 ~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~Ls~N~~lsg~~iP~~i~~-L~~~~~~l~--~L~~L~Ls~N~-L~~-  562 (876)
T 4ecn_A          488 SNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTR-LADDEDTGP--KIQIFYMGYNN-LEE-  562 (876)
T ss_dssp             GGCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEECTTCTTSCHHHHHHHHHH-HHHCTTTTT--TCCEEECCSSC-CCB-
T ss_pred             ccCCCCCEEECcCCCCCccChHHHhCCCCCCEEECcCCCCcccccchHHHHh-hhhcccccC--CccEEEeeCCc-CCc-
Confidence            37889999999887656677754 338889999998886344  35543100 000112223  67777776643 444 


Q ss_pred             ccC---CCCCCCcceeEe-----------ccCCCCccEEEEcCCCCcccchhhhcCCCc-cceecccccccccccCCCCC
Q 039944           80 FSK---NELPATLESLEV-----------GNLPLSLKSLFVYGCSKLGSIAERLDNNTS-LETISIDSCGNLVSFPEGGL  144 (348)
Q Consensus        80 ~~~---~~~~~~L~~L~i-----------~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~-L~~L~l~~~~~l~~~~~~~~  144 (348)
                      +|.   ...+++|+.|.+           ..++. |+.|++++|. +..+|..+..+++ |+.|++++|. +..+|..+.
T Consensus       563 ip~~~~l~~L~~L~~L~Ls~N~l~~lp~~~~L~~-L~~L~Ls~N~-l~~lp~~l~~l~~~L~~L~Ls~N~-L~~lp~~~~  639 (876)
T 4ecn_A          563 FPASASLQKMVKLGLLDCVHNKVRHLEAFGTNVK-LTDLKLDYNQ-IEEIPEDFCAFTDQVEGLGFSHNK-LKYIPNIFN  639 (876)
T ss_dssp             CCCHHHHTTCTTCCEEECTTSCCCBCCCCCTTSE-ESEEECCSSC-CSCCCTTSCEECTTCCEEECCSSC-CCSCCSCCC
T ss_pred             cCChhhhhcCCCCCEEECCCCCcccchhhcCCCc-ceEEECcCCc-cccchHHHhhccccCCEEECcCCC-CCcCchhhh
Confidence            554   233455665555           22333 6667776665 3356655666666 7777666643 335554333


Q ss_pred             CC-------------------------------CCccEEEEecCCCcCcccccc-cCCCCcceeEeccCCCCCcccccCC
Q 039944          145 PC-------------------------------AKLTRLTILDCKRLEALPKGM-HNLTSLQYLRIGKGGALPSLEEEDG  192 (348)
Q Consensus       145 ~~-------------------------------~~L~~L~l~~~~~l~~~~~~l-~~l~~L~~L~l~~~~~~~~~~~~~~  192 (348)
                      .+                               ++|+.|++++| .+..+|..+ ..+++|++|++++| .+..+|....
T Consensus       640 ~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N-~L~~lp~~~~~~l~~L~~L~Ls~N-~L~~ip~~~~  717 (876)
T 4ecn_A          640 AKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYN-EIQKFPTELFATGSPISTIILSNN-LMTSIPENSL  717 (876)
T ss_dssp             TTCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSS-CCCSCCHHHHHTTCCCSEEECCSC-CCSCCCTTSS
T ss_pred             ccccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccCC-cCCccCHHHHccCCCCCEEECCCC-cCCccChHHh
Confidence            22                               24555555553 233454433 35667777777765 4455554332


Q ss_pred             CC--------CCcCeeeecCCccchhhhhccccccC--CCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEe
Q 039944          193 LP--------TNLQSLDIWGNMEIWKSMIERGRGFH--RFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWI  262 (348)
Q Consensus       193 ~~--------~~L~~L~l~~~~~l~~~~~~~~~~~~--~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l  262 (348)
                      ..        ++|+.|++++| .+..++.    .+.  .+++|+.|++++  +.+..+|...       ..+++|+.|++
T Consensus       718 ~~~~~~l~nl~~L~~L~Ls~N-~L~~lp~----~l~~~~l~~L~~L~Ls~--N~L~~lp~~l-------~~L~~L~~L~L  783 (876)
T 4ecn_A          718 KPKDGNYKNTYLLTTIDLRFN-KLTSLSD----DFRATTLPYLSNMDVSY--NCFSSFPTQP-------LNSSQLKAFGI  783 (876)
T ss_dssp             SCTTSCCTTGGGCCEEECCSS-CCCCCCG----GGSTTTCTTCCEEECCS--SCCSSCCCGG-------GGCTTCCEEEC
T ss_pred             ccccccccccCCccEEECCCC-CCccchH----HhhhccCCCcCEEEeCC--CCCCccchhh-------hcCCCCCEEEC
Confidence            21        27777888775 4445543    233  677888888887  4566666655       36678888888


Q ss_pred             cc------CCCccccccccccCCCcceEeccCCCCCCCCCCCCCCCCCcEEEEcCCch
Q 039944          263 EA------FPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPL  314 (348)
Q Consensus       263 ~~------~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~c~~  314 (348)
                      ++      +.....+|..+.++++|+.|++++| .+..+|.. +.++|+.|++++|+.
T Consensus       784 s~N~~ls~N~l~~~ip~~l~~L~~L~~L~Ls~N-~L~~Ip~~-l~~~L~~LdLs~N~l  839 (876)
T 4ecn_A          784 RHQRDAEGNRILRQWPTGITTCPSLIQLQIGSN-DIRKVDEK-LTPQLYILDIADNPN  839 (876)
T ss_dssp             CCCBCTTCCBCCCCCCTTGGGCSSCCEEECCSS-CCCBCCSC-CCSSSCEEECCSCTT
T ss_pred             CCCCCcccccccccChHHHhcCCCCCEEECCCC-CCCccCHh-hcCCCCEEECCCCCC
Confidence            65      3334567777888888888888886 45777774 457888888888863

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

Probab=99.87  E-value=6.7e-21  Score=189.29  Aligned_cols=312  Identities=16%  Similarity=0.129  Sum_probs=159.6

Q ss_pred             CCCCCcccEEeecCcccccc------------------cCCCC---CCCCccEEEeccCccccccccccccccccccccc
Q 039944            2 CDTNSSLEILDIEKCHSLTY------------------IAAVQ---LPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRY   60 (348)
Q Consensus         2 ~~~~~~L~~L~l~~~~~l~~------------------l~~~~---~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~   60 (348)
                      ++++++|+.|+++++ .++.                  +|...   .+++|+.|++++|.....+|..        +..+
T Consensus       444 l~~L~~L~~L~Ls~N-~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~--------l~~L  514 (876)
T 4ecn_A          444 IQRLTKLQIIYFANS-PFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDF--------LYDL  514 (876)
T ss_dssp             GGGCTTCCEEEEESC-CCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGG--------GGGC
T ss_pred             HhcCCCCCEEECcCC-cCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHH--------HhCC
Confidence            467899999999986 5665                  77653   4899999999999866778865        7888


Q ss_pred             cCCccceeeeeCCCCccc-cccCCCCCCCccee--EeccCCCCccEEEEcCCCCcccchh--hhcCCCccceeccccccc
Q 039944           61 TSSLLEHLEIISCPSLTC-IFSKNELPATLESL--EVGNLPLSLKSLFVYGCSKLGSIAE--RLDNNTSLETISIDSCGN  135 (348)
Q Consensus        61 ~~~~L~~L~l~~~~~l~~-~~~~~~~~~~L~~L--~i~~l~~~L~~L~l~~~~~~~~~~~--~~~~l~~L~~L~l~~~~~  135 (348)
                      +  +|+.|+++++..+.. .+|..     +..+  ....+|+ |+.|++++|. +..+|.  .+..+++|+.|++++|. 
T Consensus       515 ~--~L~~L~Ls~N~~lsg~~iP~~-----i~~L~~~~~~l~~-L~~L~Ls~N~-L~~ip~~~~l~~L~~L~~L~Ls~N~-  584 (876)
T 4ecn_A          515 P--ELQSLNIACNRGISAAQLKAD-----WTRLADDEDTGPK-IQIFYMGYNN-LEEFPASASLQKMVKLGLLDCVHNK-  584 (876)
T ss_dssp             S--SCCEEECTTCTTSCHHHHHHH-----HHHHHHCTTTTTT-CCEEECCSSC-CCBCCCHHHHTTCTTCCEEECTTSC-
T ss_pred             C--CCCEEECcCCCCcccccchHH-----HHhhhhcccccCC-ccEEEeeCCc-CCccCChhhhhcCCCCCEEECCCCC-
Confidence            8  999999998752432 13321     0000  0011133 5555555443 224444  44455555555554432 


Q ss_pred             ccccCCCCCCCCCccEEEEecCCCcCcccccccCCCC-cceeEeccCCCCCcccccCCCC--------------------
Q 039944          136 LVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTS-LQYLRIGKGGALPSLEEEDGLP--------------------  194 (348)
Q Consensus       136 l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~-L~~L~l~~~~~~~~~~~~~~~~--------------------  194 (348)
                      +..+| .+..+++|+.|++++|. +..+|..+..+++ |++|++++|. +..+|..+...                    
T Consensus       585 l~~lp-~~~~L~~L~~L~Ls~N~-l~~lp~~l~~l~~~L~~L~Ls~N~-L~~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip  661 (876)
T 4ecn_A          585 VRHLE-AFGTNVKLTDLKLDYNQ-IEEIPEDFCAFTDQVEGLGFSHNK-LKYIPNIFNAKSVYVMGSVDFSYNKIGSEGR  661 (876)
T ss_dssp             CCBCC-CCCTTSEESEEECCSSC-CSCCCTTSCEECTTCCEEECCSSC-CCSCCSCCCTTCSSCEEEEECCSSCTTTTSS
T ss_pred             cccch-hhcCCCcceEEECcCCc-cccchHHHhhccccCCEEECcCCC-CCcCchhhhccccCCCCEEECcCCcCCCccc
Confidence            22444 34444445555554432 2344444444444 4444444442 22333222222                    


Q ss_pred             -----------CCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccC-CCCCCCCCccEEEe
Q 039944          195 -----------TNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLG-TALPLPASLTSLWI  262 (348)
Q Consensus       195 -----------~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~-~~~~~~~~L~~L~l  262 (348)
                                 ++|+.|++++|. +..++..   .+..+++|+.|++++  +.+..+|....... .....+++|+.|++
T Consensus       662 ~l~~~l~~~~~~~L~~L~Ls~N~-L~~lp~~---~~~~l~~L~~L~Ls~--N~L~~ip~~~~~~~~~~l~nl~~L~~L~L  735 (876)
T 4ecn_A          662 NISCSMDDYKGINASTVTLSYNE-IQKFPTE---LFATGSPISTIILSN--NLMTSIPENSLKPKDGNYKNTYLLTTIDL  735 (876)
T ss_dssp             SCSSCTTTCCCCCEEEEECCSSC-CCSCCHH---HHHTTCCCSEEECCS--CCCSCCCTTSSSCTTSCCTTGGGCCEEEC
T ss_pred             cchhhhccccCCCcCEEEccCCc-CCccCHH---HHccCCCCCEEECCC--CcCCccChHHhccccccccccCCccEEEC
Confidence                       245555554432 2233221   223456666666665  34555554321000 00001126777777


Q ss_pred             ccCCCccccccccc--cCCCcceEeccCCCCCCCCCCC-CCCCCCcEEEEcCCchhHH-HhhccCCccccCCCCcCEEEe
Q 039944          263 EAFPNLERLSSSIV--DLQNLTELYLFGCPKLKYFPEK-GLPSSLLELRISRCPLIAE-KCRKDGGQYWDLLTHIPRVEI  338 (348)
Q Consensus       263 ~~~~~l~~i~~~~~--~~~~L~~L~l~~c~~l~~l~~~-~~~~~L~~L~l~~c~~l~~-~~~~~~~~~~~~i~~~~~~~~  338 (348)
                      ++| .++.+|..+.  .+++|+.|++++| .++.+|.. .-.++|+.|++++|+.+.. .........+..+.++..+.+
T Consensus       736 s~N-~L~~lp~~l~~~~l~~L~~L~Ls~N-~L~~lp~~l~~L~~L~~L~Ls~N~~ls~N~l~~~ip~~l~~L~~L~~L~L  813 (876)
T 4ecn_A          736 RFN-KLTSLSDDFRATTLPYLSNMDVSYN-CFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQI  813 (876)
T ss_dssp             CSS-CCCCCCGGGSTTTCTTCCEEECCSS-CCSSCCCGGGGCTTCCEEECCCCBCTTCCBCCCCCCTTGGGCSSCCEEEC
T ss_pred             CCC-CCccchHHhhhccCCCcCEEEeCCC-CCCccchhhhcCCCCCEEECCCCCCcccccccccChHHHhcCCCCCEEEC
Confidence            763 5556666655  6677777777764 45555542 1256677777765442211 011112223334455555555


Q ss_pred             cceee
Q 039944          339 DWKSV  343 (348)
Q Consensus       339 ~~~~~  343 (348)
                      .++.+
T Consensus       814 s~N~L  818 (876)
T 4ecn_A          814 GSNDI  818 (876)
T ss_dssp             CSSCC
T ss_pred             CCCCC
Confidence            55444

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.87  E-value=1.5e-20  Score=180.21  Aligned_cols=150  Identities=21%  Similarity=0.188  Sum_probs=78.2

Q ss_pred             CCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCccc---ccCCCCCCcCeeeecCCccchhhhhccccccCCCC
Q 039944          147 AKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLE---EEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFS  223 (348)
Q Consensus       147 ~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~---~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~  223 (348)
                      ++|++|++++|.....+|..+..+++|++|++++| .+..++   ..++.+++|+.|+++++.-...++.   ..+..++
T Consensus       353 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~---~~~~~l~  428 (562)
T 3a79_B          353 SSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRN-GLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYD---RTCAWAE  428 (562)
T ss_dssp             CCCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSS-CCCBTTHHHHTTTTCTTCCEEECTTSCCBSCCSS---CCCCCCT
T ss_pred             CCceEEECCCCccccchhhhhcccCCCCEEECCCC-CcCCcccchhhhcCCCCCCEEECCCCcCCCccCh---hhhcCcc
Confidence            44444444443322223344444555555555544 233221   2244445555555555322111221   1234455


Q ss_pred             CccEEEecccCCccc-ccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCCC--
Q 039944          224 SLRRLTISRCDEDMV-SFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGL--  300 (348)
Q Consensus       224 ~L~~L~l~~~c~~l~-~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~--  300 (348)
                      +|+.|++++ | .+. ..+.         ..+++|++|+++++ .++.+|..+..+++|+.|++++| .++.+|...+  
T Consensus       429 ~L~~L~l~~-n-~l~~~~~~---------~l~~~L~~L~L~~N-~l~~ip~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~  495 (562)
T 3a79_B          429 SILVLNLSS-N-MLTGSVFR---------CLPPKVKVLDLHNN-RIMSIPKDVTHLQALQELNVASN-QLKSVPDGVFDR  495 (562)
T ss_dssp             TCCEEECCS-S-CCCGGGGS---------SCCTTCSEEECCSS-CCCCCCTTTTSSCCCSEEECCSS-CCCCCCTTSTTT
T ss_pred             cCCEEECCC-C-CCCcchhh---------hhcCcCCEEECCCC-cCcccChhhcCCCCCCEEECCCC-CCCCCCHHHHhc
Confidence            555555555 2 222 1221         12257778888774 67777776667788888888774 6667776422  


Q ss_pred             CCCCcEEEEcCCc
Q 039944          301 PSSLLELRISRCP  313 (348)
Q Consensus       301 ~~~L~~L~l~~c~  313 (348)
                      .++|+.|++++++
T Consensus       496 l~~L~~L~l~~N~  508 (562)
T 3a79_B          496 LTSLQYIWLHDNP  508 (562)
T ss_dssp             CTTCCCEECCSCC
T ss_pred             CCCCCEEEecCCC
Confidence            5778888888765

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.87  E-value=2.6e-20  Score=176.93  Aligned_cols=136  Identities=14%  Similarity=0.085  Sum_probs=83.9

Q ss_pred             CCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccc---cccchhccCCCCCCCCCccEEEeccCCCc
Q 039944          192 GLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVS---FPLEDKRLGTALPLPASLTSLWIEAFPNL  268 (348)
Q Consensus       192 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~---~~~~~~~~~~~~~~~~~L~~L~l~~~~~l  268 (348)
                      ..+++|+.|+++++.-....+    ..+..+++|+.|++++  +.+..   +|...       ..+++|++|+++++ .+
T Consensus       321 ~~l~~L~~L~Ls~n~l~~~~~----~~~~~l~~L~~L~L~~--N~l~~l~~~~~~~-------~~l~~L~~L~Ls~N-~l  386 (520)
T 2z7x_B          321 SKISPFLHLDFSNNLLTDTVF----ENCGHLTELETLILQM--NQLKELSKIAEMT-------TQMKSLQQLDISQN-SV  386 (520)
T ss_dssp             SSCCCCCEEECCSSCCCTTTT----TTCCCCSSCCEEECCS--SCCCBHHHHHHHH-------TTCTTCCEEECCSS-CC
T ss_pred             hhCCcccEEEeECCccChhhh----hhhccCCCCCEEEccC--CccCccccchHHH-------hhCCCCCEEECCCC-cC
Confidence            678899999999965333234    2568899999999998  45654   33434       47889999999995 55


Q ss_pred             cc-cccc-cccCCCcceEeccCCCC---------------------CCCCCCCC-CCCCCcEEEEcCCchhHHHhhccCC
Q 039944          269 ER-LSSS-IVDLQNLTELYLFGCPK---------------------LKYFPEKG-LPSSLLELRISRCPLIAEKCRKDGG  324 (348)
Q Consensus       269 ~~-i~~~-~~~~~~L~~L~l~~c~~---------------------l~~l~~~~-~~~~L~~L~l~~c~~l~~~~~~~~~  324 (348)
                      .. +|.. +..+++|+.|++++|.-                     ++.+|... -.++|++|++++|. ++.    ...
T Consensus       387 ~~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~L~~L~Ls~N~l~~ip~~~~~l~~L~~L~L~~N~-l~~----l~~  461 (520)
T 2z7x_B          387 SYDEKKGDCSWTKSLLSLNMSSNILTDTIFRCLPPRIKVLDLHSNKIKSIPKQVVKLEALQELNVASNQ-LKS----VPD  461 (520)
T ss_dssp             BCCGGGCSCCCCTTCCEEECCSSCCCGGGGGSCCTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSC-CCC----CCT
T ss_pred             CcccccchhccCccCCEEECcCCCCCcchhhhhcccCCEEECCCCcccccchhhhcCCCCCEEECCCCc-CCc----cCH
Confidence            54 7763 56666666666666532                     22333211 13445555555542 111    111


Q ss_pred             ccccCCCCcCEEEecceeeccC
Q 039944          325 QYWDLLTHIPRVEIDWKSVFGD  346 (348)
Q Consensus       325 ~~~~~i~~~~~~~~~~~~~~~~  346 (348)
                      ..+..+.++..+.+.++.+.|+
T Consensus       462 ~~~~~l~~L~~L~l~~N~~~c~  483 (520)
T 2z7x_B          462 GIFDRLTSLQKIWLHTNPWDCS  483 (520)
T ss_dssp             TTTTTCTTCCEEECCSSCBCCC
T ss_pred             HHhccCCcccEEECcCCCCccc
Confidence            1244556777777777777664

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.87  E-value=8.5e-21  Score=183.20  Aligned_cols=271  Identities=17%  Similarity=0.133  Sum_probs=154.8

Q ss_pred             CcccEEeecCcccccccCCCCC--CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCC
Q 039944            6 SSLEILDIEKCHSLTYIAAVQL--PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKN   83 (348)
Q Consensus         6 ~~L~~L~l~~~~~l~~l~~~~~--~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~   83 (348)
                      .+++.++++++ .++.+|...+  +++|++|++++|. +..++..       .+..+.  +|+.|+++++. +.. ++..
T Consensus        51 ~~l~~l~l~~~-~l~~lp~~~~~~l~~L~~L~L~~n~-l~~~~~~-------~~~~l~--~L~~L~L~~n~-l~~-~~~~  117 (597)
T 3oja_B           51 NNQKIVTFKNS-TMRKLPAALLDSFRQVELLNLNDLQ-IEEIDTY-------AFAYAH--TIQKLYMGFNA-IRY-LPPH  117 (597)
T ss_dssp             CCCSEEEESSC-EESEECTHHHHHCCCCSEEECTTSC-CCEECTT-------TTTTCT--TCCEEECCSSC-CCC-CCTT
T ss_pred             CCceEEEeeCC-CCCCcCHHHHccCCCCcEEECCCCC-CCCCChH-------HhcCCC--CCCEEECCCCc-CCC-CCHH
Confidence            45566666653 4555554432  5666666666665 5555443       245555  66666666542 443 3332


Q ss_pred             C--CCCCcceeEe-------------ccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCC
Q 039944           84 E--LPATLESLEV-------------GNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAK  148 (348)
Q Consensus        84 ~--~~~~L~~L~i-------------~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~  148 (348)
                      .  .+++|+.|.+             ..+++ |+.|++++|......+..+..+++|++|++++| .+..++.  ..+++
T Consensus       118 ~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~-L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~--~~l~~  193 (597)
T 3oja_B          118 VFQNVPLLTVLVLERNDLSSLPRGIFHNTPK-LTTLSMSNNNLERIEDDTFQATTSLQNLQLSSN-RLTHVDL--SLIPS  193 (597)
T ss_dssp             TTTTCTTCCEEECCSSCCCCCCTTTTTTCTT-CCEEECCSSCCCBCCTTTTTTCTTCCEEECTTS-CCSBCCG--GGCTT
T ss_pred             HHcCCCCCCEEEeeCCCCCCCCHHHhccCCC-CCEEEeeCCcCCCCChhhhhcCCcCcEEECcCC-CCCCcCh--hhhhh
Confidence            1  1122222222             12343 666666665533333445556666666666653 2322221  11223


Q ss_pred             ccEEEEecCC------------------CcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchh
Q 039944          149 LTRLTILDCK------------------RLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWK  210 (348)
Q Consensus       149 L~~L~l~~~~------------------~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~  210 (348)
                      |+.|++++|.                  .+..++..  ..++|+.|++++| .+...+ .++.+++|+.|+++++. +..
T Consensus       194 L~~L~l~~n~l~~l~~~~~L~~L~ls~n~l~~~~~~--~~~~L~~L~L~~n-~l~~~~-~l~~l~~L~~L~Ls~N~-l~~  268 (597)
T 3oja_B          194 LFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGP--VNVELTILKLQHN-NLTDTA-WLLNYPGLVEVDLSYNE-LEK  268 (597)
T ss_dssp             CSEEECCSSCCSEEECCTTCSEEECCSSCCCEEECS--CCSCCCEEECCSS-CCCCCG-GGGGCTTCSEEECCSSC-CCE
T ss_pred             hhhhhcccCccccccCCchhheeeccCCcccccccc--cCCCCCEEECCCC-CCCCCh-hhccCCCCCEEECCCCc-cCC
Confidence            3333333321                  12222211  1245666666665 344443 56777888888888854 443


Q ss_pred             hhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCC
Q 039944          211 SMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCP  290 (348)
Q Consensus       211 ~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~  290 (348)
                      ...   ..+..+++|+.|++++  +.+..++...       ..+++|+.|++++| .+..+|..+..+++|+.|++++| 
T Consensus       269 ~~~---~~~~~l~~L~~L~Ls~--N~l~~l~~~~-------~~l~~L~~L~Ls~N-~l~~i~~~~~~l~~L~~L~L~~N-  334 (597)
T 3oja_B          269 IMY---HPFVKMQRLERLYISN--NRLVALNLYG-------QPIPTLKVLDLSHN-HLLHVERNQPQFDRLENLYLDHN-  334 (597)
T ss_dssp             EES---GGGTTCSSCCEEECTT--SCCCEEECSS-------SCCTTCCEEECCSS-CCCCCGGGHHHHTTCSEEECCSS-
T ss_pred             CCH---HHhcCccCCCEEECCC--CCCCCCCccc-------ccCCCCcEEECCCC-CCCccCcccccCCCCCEEECCCC-
Confidence            322   2567788888888887  5666666654       35778999999884 67788888888899999999985 


Q ss_pred             CCCCCCCCCCCCCCcEEEEcCCc
Q 039944          291 KLKYFPEKGLPSSLLELRISRCP  313 (348)
Q Consensus       291 ~l~~l~~~~~~~~L~~L~l~~c~  313 (348)
                      .+..++. ..+++|+.|++++|+
T Consensus       335 ~l~~~~~-~~~~~L~~L~l~~N~  356 (597)
T 3oja_B          335 SIVTLKL-STHHTLKNLTLSHND  356 (597)
T ss_dssp             CCCCCCC-CTTCCCSEEECCSSC
T ss_pred             CCCCcCh-hhcCCCCEEEeeCCC
Confidence            4666654 335789999999886

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=99.87  E-value=3.7e-20  Score=173.54  Aligned_cols=266  Identities=20%  Similarity=0.218  Sum_probs=157.9

Q ss_pred             CCcccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCC
Q 039944            5 NSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNE   84 (348)
Q Consensus         5 ~~~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~   84 (348)
                      +++++.|++.++ .++.+|....+++|++|++++|. +..++.         +..+.  +|++|+++++. +.. ++...
T Consensus        45 l~~l~~L~l~~~-~i~~l~~~~~l~~L~~L~Ls~n~-l~~~~~---------~~~l~--~L~~L~l~~n~-l~~-~~~~~  109 (466)
T 1o6v_A           45 LDQVTTLQADRL-GIKSIDGVEYLNNLTQINFSNNQ-LTDITP---------LKNLT--KLVDILMNNNQ-IAD-ITPLA  109 (466)
T ss_dssp             HHTCCEEECCSS-CCCCCTTGGGCTTCCEEECCSSC-CCCCGG---------GTTCT--TCCEEECCSSC-CCC-CGGGT
T ss_pred             hccccEEecCCC-CCccCcchhhhcCCCEEECCCCc-cCCchh---------hhccc--cCCEEECCCCc-ccc-Chhhc
Confidence            468999999985 67788876669999999999997 777664         46777  99999999864 555 44444


Q ss_pred             CCCCcceeEe-----------ccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEE
Q 039944           85 LPATLESLEV-----------GNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLT  153 (348)
Q Consensus        85 ~~~~L~~L~i-----------~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~  153 (348)
                      ..++|++|.+           ..+++ |+.|++++|. +..++ .+..+++|+.|++.+  .+..++. +..+++|+.|+
T Consensus       110 ~l~~L~~L~L~~n~l~~~~~~~~l~~-L~~L~l~~n~-l~~~~-~~~~l~~L~~L~l~~--~~~~~~~-~~~l~~L~~L~  183 (466)
T 1o6v_A          110 NLTNLTGLTLFNNQITDIDPLKNLTN-LNRLELSSNT-ISDIS-ALSGLTSLQQLSFGN--QVTDLKP-LANLTTLERLD  183 (466)
T ss_dssp             TCTTCCEEECCSSCCCCCGGGTTCTT-CSEEEEEEEE-ECCCG-GGTTCTTCSEEEEEE--SCCCCGG-GTTCTTCCEEE
T ss_pred             CCCCCCEEECCCCCCCCChHHcCCCC-CCEEECCCCc-cCCCh-hhccCCcccEeecCC--cccCchh-hccCCCCCEEE
Confidence            5577777777           33555 8888887765 44443 255556666655542  1222221 33445555555


Q ss_pred             EecCCCcCcccccccCCCCcceeEeccCC---------------------CCCcccccCCCCCCcCeeeecCCccchhhh
Q 039944          154 ILDCKRLEALPKGMHNLTSLQYLRIGKGG---------------------ALPSLEEEDGLPTNLQSLDIWGNMEIWKSM  212 (348)
Q Consensus       154 l~~~~~l~~~~~~l~~l~~L~~L~l~~~~---------------------~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  212 (348)
                      +++|. +..++ .+..+++|++|++++|.                     .+..++ .+..+++|+.|+++++. +....
T Consensus       184 l~~n~-l~~~~-~l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~l~~n~-l~~~~  259 (466)
T 1o6v_A          184 ISSNK-VSDIS-VLAKLTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDIG-TLASLTNLTDLDLANNQ-ISNLA  259 (466)
T ss_dssp             CCSSC-CCCCG-GGGGCTTCSEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSSC-CCCCG
T ss_pred             CcCCc-CCCCh-hhccCCCCCEEEecCCcccccccccccCCCCEEECCCCCcccch-hhhcCCCCCEEECCCCc-cccch
Confidence            55543 33332 24444555555555442                     233333 33444555555555432 22222


Q ss_pred             hccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCC
Q 039944          213 IERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKL  292 (348)
Q Consensus       213 ~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l  292 (348)
                           .+..+++|+.|++++  +.+..++. .       ..+++|+.|++++| .++.++. +..+++|+.|++++| .+
T Consensus       260 -----~~~~l~~L~~L~l~~--n~l~~~~~-~-------~~l~~L~~L~L~~n-~l~~~~~-~~~l~~L~~L~L~~n-~l  321 (466)
T 1o6v_A          260 -----PLSGLTKLTELKLGA--NQISNISP-L-------AGLTALTNLELNEN-QLEDISP-ISNLKNLTYLTLYFN-NI  321 (466)
T ss_dssp             -----GGTTCTTCSEEECCS--SCCCCCGG-G-------TTCTTCSEEECCSS-CCSCCGG-GGGCTTCSEEECCSS-CC
T ss_pred             -----hhhcCCCCCEEECCC--CccCcccc-c-------cCCCccCeEEcCCC-cccCchh-hcCCCCCCEEECcCC-cC
Confidence                 134555666666665  34444433 2       35667777777764 4555553 667777888888775 45


Q ss_pred             CCCCCCCCCCCCcEEEEcCCc
Q 039944          293 KYFPEKGLPSSLLELRISRCP  313 (348)
Q Consensus       293 ~~l~~~~~~~~L~~L~l~~c~  313 (348)
                      ..++.....++|++|++++|.
T Consensus       322 ~~~~~~~~l~~L~~L~l~~n~  342 (466)
T 1o6v_A          322 SDISPVSSLTKLQRLFFYNNK  342 (466)
T ss_dssp             SCCGGGGGCTTCCEEECCSSC
T ss_pred             CCchhhccCccCCEeECCCCc
Confidence            544443336788888888774

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.87  E-value=2.3e-20  Score=180.51  Aligned_cols=57  Identities=23%  Similarity=0.050  Sum_probs=27.3

Q ss_pred             ccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecc
Q 039944          167 MHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISR  232 (348)
Q Consensus       167 l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~  232 (348)
                      +..+++|++|++++|. +..+| .+ .+++|+.|++.++......      .+..+++|+.|++++
T Consensus       303 l~~~~~L~~L~l~~n~-l~~lp-~~-~l~~L~~L~l~~n~~~~~~------~~~~l~~L~~L~ls~  359 (606)
T 3vq2_A          303 VPKHFKWQSLSIIRCQ-LKQFP-TL-DLPFLKSLTLTMNKGSISF------KKVALPSLSYLDLSR  359 (606)
T ss_dssp             CCTTCCCSEEEEESCC-CSSCC-CC-CCSSCCEEEEESCSSCEEC------CCCCCTTCCEEECCS
T ss_pred             ccccccCCEEEccccc-Ccccc-cC-CCCccceeeccCCcCccch------hhccCCCCCEEECcC
Confidence            3444455555555553 24455 33 4555555555554322221      233455555555555

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=99.86  E-value=2.8e-20  Score=166.42  Aligned_cols=286  Identities=14%  Similarity=0.192  Sum_probs=205.4

Q ss_pred             cccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCC
Q 039944            7 SLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELP   86 (348)
Q Consensus         7 ~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~   86 (348)
                      +++.++++++ .++.+|.. .++.|+.|+++++. ++.++..       .+..++  +|++|+++++ .+.. +....+ 
T Consensus        32 ~l~~l~~~~~-~l~~lp~~-~~~~l~~L~L~~n~-i~~~~~~-------~~~~l~--~L~~L~L~~n-~l~~-~~~~~~-   96 (330)
T 1xku_A           32 HLRVVQCSDL-GLEKVPKD-LPPDTALLDLQNNK-ITEIKDG-------DFKNLK--NLHTLILINN-KISK-ISPGAF-   96 (330)
T ss_dssp             ETTEEECTTS-CCCSCCCS-CCTTCCEEECCSSC-CCCBCTT-------TTTTCT--TCCEEECCSS-CCCC-BCTTTT-
T ss_pred             CCeEEEecCC-CccccCcc-CCCCCeEEECCCCc-CCEeChh-------hhccCC--CCCEEECCCC-cCCe-eCHHHh-
Confidence            7888988874 67777743 36789999999997 7888775       477777  9999999886 4555 432222 


Q ss_pred             CCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCC-CCCCCCCccEEEEecCCCcC--cc
Q 039944           87 ATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPE-GGLPCAKLTRLTILDCKRLE--AL  163 (348)
Q Consensus        87 ~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~-~~~~~~~L~~L~l~~~~~l~--~~  163 (348)
                              ..+++ |+.|++++|. +..++..+  .++|++|++++| .+..++. .+..+++|+.|++++|..-.  ..
T Consensus        97 --------~~l~~-L~~L~Ls~n~-l~~l~~~~--~~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~  163 (330)
T 1xku_A           97 --------APLVK-LERLYLSKNQ-LKELPEKM--PKTLQELRVHEN-EITKVRKSVFNGLNQMIVVELGTNPLKSSGIE  163 (330)
T ss_dssp             --------TTCTT-CCEEECCSSC-CSBCCSSC--CTTCCEEECCSS-CCCBBCHHHHTTCTTCCEEECCSSCCCGGGBC
T ss_pred             --------cCCCC-CCEEECCCCc-CCccChhh--cccccEEECCCC-cccccCHhHhcCCccccEEECCCCcCCccCcC
Confidence                    33466 9999999876 55666544  379999999985 4545544 45668899999999865421  34


Q ss_pred             cccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCccccccc-
Q 039944          164 PKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPL-  242 (348)
Q Consensus       164 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~-  242 (348)
                      +..+..+++|++|+++++ .+..+|..  ..++|+.|+++++. +.....   ..+..+++|+.|++++  +.+..++. 
T Consensus       164 ~~~~~~l~~L~~L~l~~n-~l~~l~~~--~~~~L~~L~l~~n~-l~~~~~---~~~~~l~~L~~L~Ls~--n~l~~~~~~  234 (330)
T 1xku_A          164 NGAFQGMKKLSYIRIADT-NITTIPQG--LPPSLTELHLDGNK-ITKVDA---ASLKGLNNLAKLGLSF--NSISAVDNG  234 (330)
T ss_dssp             TTGGGGCTTCCEEECCSS-CCCSCCSS--CCTTCSEEECTTSC-CCEECT---GGGTTCTTCCEEECCS--SCCCEECTT
T ss_pred             hhhccCCCCcCEEECCCC-ccccCCcc--ccccCCEEECCCCc-CCccCH---HHhcCCCCCCEEECCC--CcCceeChh
Confidence            456788999999999987 56677733  34899999999964 554432   2578899999999998  56666554 


Q ss_pred             chhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCCC--------CCCCcEEEEcCCch
Q 039944          243 EDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGL--------PSSLLELRISRCPL  314 (348)
Q Consensus       243 ~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~--------~~~L~~L~l~~c~~  314 (348)
                      ..       ..+++|++|++++| .++.+|..+..+++|++|++++| .++.++...+        .++++.+++++++.
T Consensus       235 ~~-------~~l~~L~~L~L~~N-~l~~lp~~l~~l~~L~~L~l~~N-~i~~~~~~~f~~~~~~~~~~~l~~l~l~~N~~  305 (330)
T 1xku_A          235 SL-------ANTPHLRELHLNNN-KLVKVPGGLADHKYIQVVYLHNN-NISAIGSNDFCPPGYNTKKASYSGVSLFSNPV  305 (330)
T ss_dssp             TG-------GGSTTCCEEECCSS-CCSSCCTTTTTCSSCCEEECCSS-CCCCCCTTSSSCSSCCTTSCCCSEEECCSSSS
T ss_pred             hc-------cCCCCCCEEECCCC-cCccCChhhccCCCcCEEECCCC-cCCccChhhcCCcccccccccccceEeecCcc
Confidence            23       46789999999995 78899999999999999999985 6777776433        36889999999874


Q ss_pred             hHHHhhccCCccccCCCCcCEEEecce
Q 039944          315 IAEKCRKDGGQYWDLLTHIPRVEIDWK  341 (348)
Q Consensus       315 l~~~~~~~~~~~~~~i~~~~~~~~~~~  341 (348)
                      ...   ......+..+..+..+.+.++
T Consensus       306 ~~~---~i~~~~f~~~~~l~~l~L~~N  329 (330)
T 1xku_A          306 QYW---EIQPSTFRCVYVRAAVQLGNY  329 (330)
T ss_dssp             CGG---GSCGGGGTTCCCGGGEEC---
T ss_pred             ccc---ccCccccccccceeEEEeccc
Confidence            211   122234445566666666543

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.86  E-value=1.6e-20  Score=180.30  Aligned_cols=114  Identities=23%  Similarity=0.186  Sum_probs=66.8

Q ss_pred             cCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCc-cccccccccCCCcceEeccCCCCCCCCCC
Q 039944          219 FHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNL-ERLSSSIVDLQNLTELYLFGCPKLKYFPE  297 (348)
Q Consensus       219 ~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l-~~i~~~~~~~~~L~~L~l~~c~~l~~l~~  297 (348)
                      +..+++|+.|++++ |.-....+...       ..+++|++|++++|... ..+|..+..+++|+.|++++| .++.++.
T Consensus       417 ~~~l~~L~~L~l~~-n~l~~~~~~~~-------~~l~~L~~L~l~~n~l~~~~~p~~~~~l~~L~~L~l~~n-~l~~~~~  487 (570)
T 2z63_A          417 FLSLRNLIYLDISH-THTRVAFNGIF-------NGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSP  487 (570)
T ss_dssp             TTTCTTCCEEECTT-SCCEECCTTTT-------TTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTS-CCCEECT
T ss_pred             hhcCCCCCEEeCcC-Ccccccchhhh-------hcCCcCcEEECcCCcCccccchhhhhcccCCCEEECCCC-ccccCCh
Confidence            45566666666666 32222222222       45677777777775332 246667777778888888775 4554433


Q ss_pred             CCC--CCCCcEEEEcCCchhHHHhhccCCccccCCCCcCEEEecceeeccC
Q 039944          298 KGL--PSSLLELRISRCPLIAEKCRKDGGQYWDLLTHIPRVEIDWKSVFGD  346 (348)
Q Consensus       298 ~~~--~~~L~~L~l~~c~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~  346 (348)
                      ..+  .++|++|++++|. ++.    ...+.+..+.++..+.+.++.+.|+
T Consensus       488 ~~~~~l~~L~~L~l~~n~-l~~----~~~~~~~~l~~L~~L~l~~N~~~~~  533 (570)
T 2z63_A          488 TAFNSLSSLQVLNMASNQ-LKS----VPDGIFDRLTSLQKIWLHTNPWDCS  533 (570)
T ss_dssp             TTTTTCTTCCEEECCSSC-CSC----CCTTTTTTCTTCCEEECCSSCBCCC
T ss_pred             hhhhcccCCCEEeCCCCc-CCC----CCHHHhhcccCCcEEEecCCcccCC
Confidence            222  5778888887774 221    1222345566777777777776654

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.86  E-value=8.4e-20  Score=175.08  Aligned_cols=161  Identities=16%  Similarity=0.066  Sum_probs=104.1

Q ss_pred             cCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccc-cccchhc
Q 039944          168 HNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVS-FPLEDKR  246 (348)
Q Consensus       168 ~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~-~~~~~~~  246 (348)
                      ..+++|++|++++|.-....|..++.+++|+.|+++++ .++.++.. ...+..+++|+.|++++  +.+.. +|...  
T Consensus       350 ~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~-~~~~~~l~~L~~L~l~~--N~l~~~~~~~~--  423 (562)
T 3a79_B          350 PSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRN-GLKNFFKV-ALMTKNMSSLETLDVSL--NSLNSHAYDRT--  423 (562)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSS-CCCBTTHH-HHTTTTCTTCCEEECTT--SCCBSCCSSCC--
T ss_pred             cCCCCceEEECCCCccccchhhhhcccCCCCEEECCCC-CcCCcccc-hhhhcCCCCCCEEECCC--CcCCCccChhh--
Confidence            45677777777776433335556677788888888774 34432210 02356778888888887  44544 55432  


Q ss_pred             cCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCCC-CCCCcEEEEcCCchhHHHhhccCCc
Q 039944          247 LGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGL-PSSLLELRISRCPLIAEKCRKDGGQ  325 (348)
Q Consensus       247 ~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~-~~~L~~L~l~~c~~l~~~~~~~~~~  325 (348)
                          +..+++|++|++++|.....++..+.  ++|+.|++++| .++.+|.... .++|++|++++|.- +.    ....
T Consensus       424 ----~~~l~~L~~L~l~~n~l~~~~~~~l~--~~L~~L~L~~N-~l~~ip~~~~~l~~L~~L~L~~N~l-~~----l~~~  491 (562)
T 3a79_B          424 ----CAWAESILVLNLSSNMLTGSVFRCLP--PKVKVLDLHNN-RIMSIPKDVTHLQALQELNVASNQL-KS----VPDG  491 (562)
T ss_dssp             ----CCCCTTCCEEECCSSCCCGGGGSSCC--TTCSEEECCSS-CCCCCCTTTTSSCCCSEEECCSSCC-CC----CCTT
T ss_pred             ----hcCcccCCEEECCCCCCCcchhhhhc--CcCCEEECCCC-cCcccChhhcCCCCCCEEECCCCCC-CC----CCHH
Confidence                24567888888888543334443333  68999999985 7888887433 68999999998852 21    1112


Q ss_pred             cccCCCCcCEEEecceeeccC
Q 039944          326 YWDLLTHIPRVEIDWKSVFGD  346 (348)
Q Consensus       326 ~~~~i~~~~~~~~~~~~~~~~  346 (348)
                      .+..+.++..+.+.++.+.|+
T Consensus       492 ~~~~l~~L~~L~l~~N~~~c~  512 (562)
T 3a79_B          492 VFDRLTSLQYIWLHDNPWDCT  512 (562)
T ss_dssp             STTTCTTCCCEECCSCCBCCC
T ss_pred             HHhcCCCCCEEEecCCCcCCC
Confidence            255677888888988887765

>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=99.86  E-value=7.2e-21  Score=170.09  Aligned_cols=221  Identities=19%  Similarity=0.252  Sum_probs=185.1

Q ss_pred             CCcccEEeecCcccccccCCCCC-CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCC
Q 039944            5 NSSLEILDIEKCHSLTYIAAVQL-PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKN   83 (348)
Q Consensus         5 ~~~L~~L~l~~~~~l~~l~~~~~-~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~   83 (348)
                      .++++.|+++++ .++.+|.... +++|++|++++|. +..+|..        +..+.  +|++|+++++. +.. +|. 
T Consensus        80 ~~~l~~L~L~~n-~l~~lp~~l~~l~~L~~L~L~~n~-l~~lp~~--------~~~l~--~L~~L~Ls~n~-l~~-lp~-  144 (328)
T 4fcg_A           80 QPGRVALELRSV-PLPQFPDQAFRLSHLQHMTIDAAG-LMELPDT--------MQQFA--GLETLTLARNP-LRA-LPA-  144 (328)
T ss_dssp             STTCCEEEEESS-CCSSCCSCGGGGTTCSEEEEESSC-CCCCCSC--------GGGGT--TCSEEEEESCC-CCC-CCG-
T ss_pred             ccceeEEEccCC-CchhcChhhhhCCCCCEEECCCCC-ccchhHH--------HhccC--CCCEEECCCCc-ccc-CcH-
Confidence            478999999984 7788887544 8999999999997 7788876        67877  99999999864 544 443 


Q ss_pred             CCCCCcceeEeccCCCCccEEEEcCCCCcccchhhhcC---------CCccceecccccccccccCCCCCCCCCccEEEE
Q 039944           84 ELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDN---------NTSLETISIDSCGNLVSFPEGGLPCAKLTRLTI  154 (348)
Q Consensus        84 ~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~---------l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l  154 (348)
                          .+     ..+++ |+.|++++|.....+|..+..         +++|++|++++| .+..+|..+..+++|+.|++
T Consensus       145 ----~l-----~~l~~-L~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n-~l~~lp~~l~~l~~L~~L~L  213 (328)
T 4fcg_A          145 ----SI-----ASLNR-LRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWT-GIRSLPASIANLQNLKSLKI  213 (328)
T ss_dssp             ----GG-----GGCTT-CCEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEE-CCCCCCGGGGGCTTCCEEEE
T ss_pred             ----HH-----hcCcC-CCEEECCCCCCccccChhHhhccchhhhccCCCCCEEECcCC-CcCcchHhhcCCCCCCEEEc
Confidence                22     33476 999999998888888766554         999999999995 56688888888999999999


Q ss_pred             ecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccC
Q 039944          155 LDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCD  234 (348)
Q Consensus       155 ~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c  234 (348)
                      ++|. +..+|+.+..+++|++|++++|.....+|..++.+++|+.|++++|.....++    ..+..+++|+.|++++ |
T Consensus       214 ~~N~-l~~l~~~l~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~~p----~~~~~l~~L~~L~L~~-n  287 (328)
T 4fcg_A          214 RNSP-LSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLP----LDIHRLTQLEKLDLRG-C  287 (328)
T ss_dssp             ESSC-CCCCCGGGGGCTTCCEEECTTCTTCCBCCCCTTCCCCCCEEECTTCTTCCBCC----TTGGGCTTCCEEECTT-C
T ss_pred             cCCC-CCcCchhhccCCCCCEEECcCCcchhhhHHHhcCCCCCCEEECCCCCchhhcc----hhhhcCCCCCEEeCCC-C
Confidence            9964 66788889999999999999998888888788999999999999988777766    3578899999999999 8


Q ss_pred             CcccccccchhccCCCCCCCCCccEEEecc
Q 039944          235 EDMVSFPLEDKRLGTALPLPASLTSLWIEA  264 (348)
Q Consensus       235 ~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~  264 (348)
                      .....+|.+.       ..+++|+.+.+..
T Consensus       288 ~~~~~iP~~l-------~~L~~L~~l~l~~  310 (328)
T 4fcg_A          288 VNLSRLPSLI-------AQLPANCIILVPP  310 (328)
T ss_dssp             TTCCCCCGGG-------GGSCTTCEEECCG
T ss_pred             CchhhccHHH-------hhccCceEEeCCH
Confidence            8888999887       4778899998875

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=99.86  E-value=4.8e-20  Score=180.73  Aligned_cols=204  Identities=16%  Similarity=0.058  Sum_probs=106.0

Q ss_pred             ccEEEEcCCCCcccchhhhcCCCccceecccccccccccC-CCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEec
Q 039944          101 LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFP-EGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIG  179 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~-~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~  179 (348)
                      |+.|++++|......+..+..+++|+.|++++|.....++ ..+..+++|+.|++++|......+..+..+++|++|+++
T Consensus       383 L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~L~~L~l~  462 (680)
T 1ziw_A          383 LHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLR  462 (680)
T ss_dssp             CCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCEEECCSGGGTTCTTCCEEECCSCSEEECCTTTTTTCTTCCEEECT
T ss_pred             CceEECCCCCCCeEChhhhhCCCCCCEEeCCCCcCccccCcccccCcccccEEecCCCCcceeChhhhhcCcccccchhc
Confidence            6666666665444445566677777777777754333344 244456677777776654322222344555666666665


Q ss_pred             cCCC--CCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccch--hccCCCCCCCC
Q 039944          180 KGGA--LPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLED--KRLGTALPLPA  255 (348)
Q Consensus       180 ~~~~--~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~--~~~~~~~~~~~  255 (348)
                      ++..  ....|..++.+++|+.|+++++ .+..++.   ..+.++++|+.|++++  +.+..++...  ++....+..++
T Consensus       463 ~n~l~~~~~~p~~~~~l~~L~~L~Ls~N-~l~~i~~---~~~~~l~~L~~L~Ls~--N~l~~~~~~~~~~~~~~~~~~l~  536 (680)
T 1ziw_A          463 RVALKNVDSSPSPFQPLRNLTILDLSNN-NIANIND---DMLEGLEKLEILDLQH--NNLARLWKHANPGGPIYFLKGLS  536 (680)
T ss_dssp             TSCCBCTTCSSCTTTTCTTCCEEECCSS-CCCCCCT---TTTTTCTTCCEEECCS--SCCGGGGSTTSTTSCCCTTTTCT
T ss_pred             cccccccccCCcccccCCCCCEEECCCC-CCCcCCh---hhhccccccCEEeCCC--CCccccchhhccCCcchhhcCCC
Confidence            5421  1233444555666666666663 2333332   1345566666666665  3444332210  00000123445


Q ss_pred             CccEEEeccCCCcccccc-ccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEEEcCC
Q 039944          256 SLTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELRISRC  312 (348)
Q Consensus       256 ~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~l~~c  312 (348)
                      +|++|++++ +.++.+|. .+..+++|+.|++++ +.++.+|...+  .++|++|++++|
T Consensus       537 ~L~~L~L~~-N~l~~i~~~~~~~l~~L~~L~Ls~-N~l~~l~~~~~~~l~~L~~L~L~~N  594 (680)
T 1ziw_A          537 HLHILNLES-NGFDEIPVEVFKDLFELKIIDLGL-NNLNTLPASVFNNQVSLKSLNLQKN  594 (680)
T ss_dssp             TCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECTTS
T ss_pred             CCCEEECCC-CCCCCCCHHHcccccCcceeECCC-CCCCcCCHhHhCCCCCCCEEECCCC
Confidence            566666665 34555554 355566666666655 35555555332  355666666555

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.86  E-value=1.5e-20  Score=175.34  Aligned_cols=200  Identities=21%  Similarity=0.190  Sum_probs=111.7

Q ss_pred             CCCcccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCC
Q 039944            4 TNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKN   83 (348)
Q Consensus         4 ~~~~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~   83 (348)
                      .+++|++|+++++ .++.+|....+++|++|++++|. ++.++          +..++  +|++|+++++ .++. ++. 
T Consensus        40 ~l~~L~~L~Ls~n-~l~~~~~l~~l~~L~~L~Ls~n~-l~~~~----------~~~l~--~L~~L~Ls~N-~l~~-~~~-  102 (457)
T 3bz5_A           40 QLATLTSLDCHNS-SITDMTGIEKLTGLTKLICTSNN-ITTLD----------LSQNT--NLTYLACDSN-KLTN-LDV-  102 (457)
T ss_dssp             HHTTCCEEECCSS-CCCCCTTGGGCTTCSEEECCSSC-CSCCC----------CTTCT--TCSEEECCSS-CCSC-CCC-
T ss_pred             HcCCCCEEEccCC-CcccChhhcccCCCCEEEccCCc-CCeEc----------cccCC--CCCEEECcCC-CCce-eec-
Confidence            4678888888874 66667644457888888888886 66654          34555  7778887764 3554 442 


Q ss_pred             CCCCCcceeEe----------ccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEE
Q 039944           84 ELPATLESLEV----------GNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLT  153 (348)
Q Consensus        84 ~~~~~L~~L~i----------~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~  153 (348)
                      ...++|++|.+          ..+++ |+.|++++|. +..++  +..+++|++|+++.|..+..+  .+..+++|+.|+
T Consensus       103 ~~l~~L~~L~L~~N~l~~l~~~~l~~-L~~L~l~~N~-l~~l~--l~~l~~L~~L~l~~n~~~~~~--~~~~l~~L~~L~  176 (457)
T 3bz5_A          103 TPLTKLTYLNCDTNKLTKLDVSQNPL-LTYLNCARNT-LTEID--VSHNTQLTELDCHLNKKITKL--DVTPQTQLTTLD  176 (457)
T ss_dssp             TTCTTCCEEECCSSCCSCCCCTTCTT-CCEEECTTSC-CSCCC--CTTCTTCCEEECTTCSCCCCC--CCTTCTTCCEEE
T ss_pred             CCCCcCCEEECCCCcCCeecCCCCCc-CCEEECCCCc-cceec--cccCCcCCEEECCCCCccccc--ccccCCcCCEEE
Confidence            22344444444          22344 6666666554 33332  455666666666655444444  234455666666


Q ss_pred             EecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEeccc
Q 039944          154 ILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRC  233 (348)
Q Consensus       154 l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~  233 (348)
                      +++| .++.+|  +..+++|++|++++| .+..++  ++.+++|+.|+++++ .+..++      +..+++|+.|++++ 
T Consensus       177 ls~n-~l~~l~--l~~l~~L~~L~l~~N-~l~~~~--l~~l~~L~~L~Ls~N-~l~~ip------~~~l~~L~~L~l~~-  242 (457)
T 3bz5_A          177 CSFN-KITELD--VSQNKLLNRLNCDTN-NITKLD--LNQNIQLTFLDCSSN-KLTEID------VTPLTQLTYFDCSV-  242 (457)
T ss_dssp             CCSS-CCCCCC--CTTCTTCCEEECCSS-CCSCCC--CTTCTTCSEEECCSS-CCSCCC------CTTCTTCSEEECCS-
T ss_pred             CCCC-ccceec--cccCCCCCEEECcCC-cCCeec--cccCCCCCEEECcCC-cccccC------ccccCCCCEEEeeC-
Confidence            6664 344443  455566666666654 334332  455566666666663 333322      34556666666665 


Q ss_pred             CCcccccc
Q 039944          234 DEDMVSFP  241 (348)
Q Consensus       234 c~~l~~~~  241 (348)
                       +.+..++
T Consensus       243 -N~l~~~~  249 (457)
T 3bz5_A          243 -NPLTELD  249 (457)
T ss_dssp             -SCCSCCC
T ss_pred             -CcCCCcC
Confidence             3444433

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

Probab=99.85  E-value=2e-21  Score=172.69  Aligned_cols=251  Identities=13%  Similarity=0.098  Sum_probs=185.9

Q ss_pred             CCccEEEeccCcccc---ccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEE
Q 039944           29 SSLKKLQICDCYNIR---TLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLF  105 (348)
Q Consensus        29 ~~L~~L~l~~~~~l~---~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~  105 (348)
                      .+++.|+++++. +.   .+|..        +..++  +|++|++++++.+...+|.     .+     ..++. |+.|+
T Consensus        50 ~~l~~L~L~~~~-l~~~~~~~~~--------l~~l~--~L~~L~L~~~n~l~~~~p~-----~l-----~~l~~-L~~L~  107 (313)
T 1ogq_A           50 YRVNNLDLSGLN-LPKPYPIPSS--------LANLP--YLNFLYIGGINNLVGPIPP-----AI-----AKLTQ-LHYLY  107 (313)
T ss_dssp             CCEEEEEEECCC-CSSCEECCGG--------GGGCT--TCSEEEEEEETTEESCCCG-----GG-----GGCTT-CSEEE
T ss_pred             ceEEEEECCCCC-ccCCcccChh--------HhCCC--CCCeeeCCCCCcccccCCh-----hH-----hcCCC-CCEEE
Confidence            579999999987 55   46654        67777  9999999865555531332     22     33466 99999


Q ss_pred             EcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCC-CcceeEeccCCCC
Q 039944          106 VYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLT-SLQYLRIGKGGAL  184 (348)
Q Consensus       106 l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~-~L~~L~l~~~~~~  184 (348)
                      +++|.....+|..+..+++|++|++++|.....+|..+..+++|++|++++|.....+|..+..++ +|++|++++|...
T Consensus       108 Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~  187 (313)
T 1ogq_A          108 ITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLT  187 (313)
T ss_dssp             EEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEE
T ss_pred             CcCCeeCCcCCHHHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeee
Confidence            998875557788888999999999998654446777778888999999999764447888888887 8999999987433


Q ss_pred             CcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEecc
Q 039944          185 PSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEA  264 (348)
Q Consensus       185 ~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~  264 (348)
                      ...|..++.++ |+.|+++++. +.....   ..+..+++|+.|++++  +.+...+...       ..+++|++|++++
T Consensus       188 ~~~~~~~~~l~-L~~L~Ls~N~-l~~~~~---~~~~~l~~L~~L~L~~--N~l~~~~~~~-------~~l~~L~~L~Ls~  253 (313)
T 1ogq_A          188 GKIPPTFANLN-LAFVDLSRNM-LEGDAS---VLFGSDKNTQKIHLAK--NSLAFDLGKV-------GLSKNLNGLDLRN  253 (313)
T ss_dssp             EECCGGGGGCC-CSEEECCSSE-EEECCG---GGCCTTSCCSEEECCS--SEECCBGGGC-------CCCTTCCEEECCS
T ss_pred             ccCChHHhCCc-ccEEECcCCc-ccCcCC---HHHhcCCCCCEEECCC--CceeeecCcc-------cccCCCCEEECcC
Confidence            35565666665 9999999864 443332   3578889999999998  4555333333       4678999999998


Q ss_pred             CCCccccccccccCCCcceEeccCCCCCCCCCCCCCCCCCcEEEEcCCchh
Q 039944          265 FPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLI  315 (348)
Q Consensus       265 ~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~c~~l  315 (348)
                      +.....+|..+..+++|+.|++++|+--..+|..+-.++|+.+++++++.+
T Consensus       254 N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~ip~~~~l~~L~~l~l~~N~~l  304 (313)
T 1ogq_A          254 NRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNKCL  304 (313)
T ss_dssp             SCCEECCCGGGGGCTTCCEEECCSSEEEEECCCSTTGGGSCGGGTCSSSEE
T ss_pred             CcccCcCChHHhcCcCCCEEECcCCcccccCCCCccccccChHHhcCCCCc
Confidence            644347888899999999999999754446777555788888888888754

>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=99.85  E-value=7.3e-20  Score=165.31  Aligned_cols=272  Identities=16%  Similarity=0.133  Sum_probs=200.2

Q ss_pred             CCcccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCC
Q 039944            5 NSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNE   84 (348)
Q Consensus         5 ~~~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~   84 (348)
                      |+.....+.++ ..++++|. ...++|++|+++++. ++.++..       .+..++  +|+.|+++++ .+.. ++...
T Consensus        30 C~~~~~c~~~~-~~l~~iP~-~~~~~L~~L~l~~n~-i~~~~~~-------~~~~l~--~L~~L~L~~n-~l~~-~~~~~   95 (353)
T 2z80_A           30 CDRNGICKGSS-GSLNSIPS-GLTEAVKSLDLSNNR-ITYISNS-------DLQRCV--NLQALVLTSN-GINT-IEEDS   95 (353)
T ss_dssp             ECTTSEEECCS-TTCSSCCT-TCCTTCCEEECTTSC-CCEECTT-------TTTTCT--TCCEEECTTS-CCCE-ECTTT
T ss_pred             CCCCeEeeCCC-CCcccccc-cccccCcEEECCCCc-CcccCHH-------HhccCC--CCCEEECCCC-ccCc-cCHhh
Confidence            34445566664 46778876 346799999999997 8888875       477777  9999999986 4665 44332


Q ss_pred             CCCCcceeEeccCCCCccEEEEcCCCCcccch-hhhcCCCccceecccccccccccCC--CCCCCCCccEEEEecCCCcC
Q 039944           85 LPATLESLEVGNLPLSLKSLFVYGCSKLGSIA-ERLDNNTSLETISIDSCGNLVSFPE--GGLPCAKLTRLTILDCKRLE  161 (348)
Q Consensus        85 ~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~l~~~~~--~~~~~~~L~~L~l~~~~~l~  161 (348)
                      +         ..+++ |+.|++++|. +..++ ..+..+++|++|++++| .+..+|.  .+..+++|++|++++|..+.
T Consensus        96 ~---------~~l~~-L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~~~~l~~L~~L~l~~n~~~~  163 (353)
T 2z80_A           96 F---------SSLGS-LEHLDLSYNY-LSNLSSSWFKPLSSLTFLNLLGN-PYKTLGETSLFSHLTKLQILRVGNMDTFT  163 (353)
T ss_dssp             T---------TTCTT-CCEEECCSSC-CSSCCHHHHTTCTTCSEEECTTC-CCSSSCSSCSCTTCTTCCEEEEEESSSCC
T ss_pred             c---------CCCCC-CCEEECCCCc-CCcCCHhHhCCCccCCEEECCCC-CCcccCchhhhccCCCCcEEECCCCcccc
Confidence            2         33466 9999999886 45555 44889999999999984 5667776  56778999999999986677


Q ss_pred             ccc-ccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCccccc
Q 039944          162 ALP-KGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSF  240 (348)
Q Consensus       162 ~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~  240 (348)
                      .++ ..+..+++|++|++++|.-....+..++.+++|+.|+++++. +...+..   .+..+++|+.|++++  +.+..+
T Consensus       164 ~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~-l~~~~~~---~~~~~~~L~~L~L~~--n~l~~~  237 (353)
T 2z80_A          164 KIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQ-HILLLEI---FVDVTSSVECLELRD--TDLDTF  237 (353)
T ss_dssp             EECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSC-STTHHHH---HHHHTTTEEEEEEES--CBCTTC
T ss_pred             ccCHHHccCCCCCCEEECCCCCcCccCHHHHhccccCCeecCCCCc-cccchhh---hhhhcccccEEECCC--Cccccc
Confidence            765 467889999999999884333346678889999999999965 5555432   345689999999998  456554


Q ss_pred             ccchhccCCCCCCCCCccEEEeccCCCcc-----ccccccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEEEcCCc
Q 039944          241 PLEDKRLGTALPLPASLTSLWIEAFPNLE-----RLSSSIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELRISRCP  313 (348)
Q Consensus       241 ~~~~~~~~~~~~~~~~L~~L~l~~~~~l~-----~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~l~~c~  313 (348)
                      +...-   ......+.++.+++.++ .+.     .+|..+..+++|+.|++++| .++.+|...+  .++|++|++++|+
T Consensus       238 ~~~~l---~~~~~~~~l~~l~L~~~-~l~~~~l~~l~~~l~~l~~L~~L~Ls~N-~l~~i~~~~~~~l~~L~~L~L~~N~  312 (353)
T 2z80_A          238 HFSEL---STGETNSLIKKFTFRNV-KITDESLFQVMKLLNQISGLLELEFSRN-QLKSVPDGIFDRLTSLQKIWLHTNP  312 (353)
T ss_dssp             CCC---------CCCCCCEEEEESC-BCCHHHHHHHHHHHHTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             ccccc---ccccccchhhccccccc-cccCcchhhhHHHHhcccCCCEEECCCC-CCCccCHHHHhcCCCCCEEEeeCCC
Confidence            43210   00124556778888774 333     46778889999999999995 7888887533  7899999999886

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.85  E-value=6.9e-20  Score=164.06  Aligned_cols=286  Identities=16%  Similarity=0.220  Sum_probs=199.2

Q ss_pred             cccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCC
Q 039944            7 SLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELP   86 (348)
Q Consensus         7 ~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~   86 (348)
                      +++.++++++ .++.+|.. .+++|+.|++++|. +..++..       .+..+.  +|++|+++++ .+.. ++...+ 
T Consensus        34 ~l~~l~~~~~-~l~~ip~~-~~~~l~~L~l~~n~-i~~~~~~-------~~~~l~--~L~~L~L~~n-~l~~-~~~~~~-   98 (332)
T 2ft3_A           34 HLRVVQCSDL-GLKAVPKE-ISPDTTLLDLQNND-ISELRKD-------DFKGLQ--HLYALVLVNN-KISK-IHEKAF-   98 (332)
T ss_dssp             ETTEEECCSS-CCSSCCSC-CCTTCCEEECCSSC-CCEECTT-------TTTTCT--TCCEEECCSS-CCCE-ECGGGS-
T ss_pred             cCCEEECCCC-CccccCCC-CCCCCeEEECCCCc-CCccCHh-------HhhCCC--CCcEEECCCC-ccCc-cCHhHh-
Confidence            6888888874 67777754 35789999999987 7777654       467777  8999999886 3555 432222 


Q ss_pred             CCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCC-CCCCCCCccEEEEecCCCc--Ccc
Q 039944           87 ATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPE-GGLPCAKLTRLTILDCKRL--EAL  163 (348)
Q Consensus        87 ~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~-~~~~~~~L~~L~l~~~~~l--~~~  163 (348)
                              ..+++ |+.|++++|. +..++..+.  ++|++|++++| .+..++. .+..+++|+.|++++|..-  ...
T Consensus        99 --------~~l~~-L~~L~L~~n~-l~~l~~~~~--~~L~~L~l~~n-~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~  165 (332)
T 2ft3_A           99 --------SPLRK-LQKLYISKNH-LVEIPPNLP--SSLVELRIHDN-RIRKVPKGVFSGLRNMNCIEMGGNPLENSGFE  165 (332)
T ss_dssp             --------TTCTT-CCEEECCSSC-CCSCCSSCC--TTCCEEECCSS-CCCCCCSGGGSSCSSCCEEECCSCCCBGGGSC
T ss_pred             --------hCcCC-CCEEECCCCc-CCccCcccc--ccCCEEECCCC-ccCccCHhHhCCCccCCEEECCCCccccCCCC
Confidence                    33466 8999998775 556665443  78999999884 5556655 3567889999999886532  133


Q ss_pred             cccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccc
Q 039944          164 PKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLE  243 (348)
Q Consensus       164 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~  243 (348)
                      +..+..+ +|++|+++++ .+..+|...  .++|+.|+++++ .+.....   ..+..+++|+.|++++  +.+..++..
T Consensus       166 ~~~~~~l-~L~~L~l~~n-~l~~l~~~~--~~~L~~L~l~~n-~i~~~~~---~~l~~l~~L~~L~L~~--N~l~~~~~~  235 (332)
T 2ft3_A          166 PGAFDGL-KLNYLRISEA-KLTGIPKDL--PETLNELHLDHN-KIQAIEL---EDLLRYSKLYRLGLGH--NQIRMIENG  235 (332)
T ss_dssp             TTSSCSC-CCSCCBCCSS-BCSSCCSSS--CSSCSCCBCCSS-CCCCCCT---TSSTTCTTCSCCBCCS--SCCCCCCTT
T ss_pred             cccccCC-ccCEEECcCC-CCCccCccc--cCCCCEEECCCC-cCCccCH---HHhcCCCCCCEEECCC--CcCCcCChh
Confidence            4455666 8999999887 566676333  479999999985 4454443   2578889999999998  566666542


Q ss_pred             hhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCCC--------CCCCcEEEEcCCchh
Q 039944          244 DKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGL--------PSSLLELRISRCPLI  315 (348)
Q Consensus       244 ~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~--------~~~L~~L~l~~c~~l  315 (348)
                      .      +..+++|++|++++ +.++.+|..+..+++|+.|+++++ .++.++...+        .++++.|++++++..
T Consensus       236 ~------~~~l~~L~~L~L~~-N~l~~lp~~l~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~~~  307 (332)
T 2ft3_A          236 S------LSFLPTLRELHLDN-NKLSRVPAGLPDLKLLQVVYLHTN-NITKVGVNDFCPVGFGVKRAYYNGISLFNNPVP  307 (332)
T ss_dssp             G------GGGCTTCCEEECCS-SCCCBCCTTGGGCTTCCEEECCSS-CCCBCCTTSSSCSSCCSSSCCBSEEECCSSSSC
T ss_pred             H------hhCCCCCCEEECCC-CcCeecChhhhcCccCCEEECCCC-CCCccChhHccccccccccccccceEeecCccc
Confidence            1      14678999999998 478899999999999999999995 6777766433        367899999999743


Q ss_pred             HHHhhccCCccccCCCCcCEEEecce
Q 039944          316 AEKCRKDGGQYWDLLTHIPRVEIDWK  341 (348)
Q Consensus       316 ~~~~~~~~~~~~~~i~~~~~~~~~~~  341 (348)
                      ..   ......+..+..+..+.+.++
T Consensus       308 ~~---~~~~~~~~~l~~L~~l~l~~n  330 (332)
T 2ft3_A          308 YW---EVQPATFRCVTDRLAIQFGNY  330 (332)
T ss_dssp             GG---GSCGGGGTTBCCSTTEEC---
T ss_pred             cc---ccCcccccccchhhhhhcccc
Confidence            11   112223445566666655543

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=99.84  E-value=2e-19  Score=160.86  Aligned_cols=263  Identities=14%  Similarity=0.132  Sum_probs=191.9

Q ss_pred             CcccEEeecCcccccccCCCCC--CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCC
Q 039944            6 SSLEILDIEKCHSLTYIAAVQL--PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKN   83 (348)
Q Consensus         6 ~~L~~L~l~~~~~l~~l~~~~~--~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~   83 (348)
                      ++|+.|+++++ .++.++...+  +++|++|++++|. +..++..       .+..++  +|++|+++++ .++. +|..
T Consensus        52 ~~l~~L~L~~n-~i~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~-------~~~~l~--~L~~L~Ls~n-~l~~-l~~~  118 (330)
T 1xku_A           52 PDTALLDLQNN-KITEIKDGDFKNLKNLHTLILINNK-ISKISPG-------AFAPLV--KLERLYLSKN-QLKE-LPEK  118 (330)
T ss_dssp             TTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSSC-CCCBCTT-------TTTTCT--TCCEEECCSS-CCSB-CCSS
T ss_pred             CCCeEEECCCC-cCCEeChhhhccCCCCCEEECCCCc-CCeeCHH-------HhcCCC--CCCEEECCCC-cCCc-cChh
Confidence            58999999985 6788876443  8999999999997 7777444       377877  9999999985 4665 6653


Q ss_pred             CCCCCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccc--cccCCCCCCCCCccEEEEecCCCcC
Q 039944           84 ELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNL--VSFPEGGLPCAKLTRLTILDCKRLE  161 (348)
Q Consensus        84 ~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l--~~~~~~~~~~~~L~~L~l~~~~~l~  161 (348)
                      ..            +. |+.|++++|......+..+..+++|+.|+++.|...  ...+..+..+++|+.|++++| .+.
T Consensus       119 ~~------------~~-L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n-~l~  184 (330)
T 1xku_A          119 MP------------KT-LQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADT-NIT  184 (330)
T ss_dssp             CC------------TT-CCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSS-CCC
T ss_pred             hc------------cc-ccEEECCCCcccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCC-ccc
Confidence            22            34 999999988754444567888999999999986432  134455667889999999985 467


Q ss_pred             cccccccCCCCcceeEeccCCCCCcc-cccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCccccc
Q 039944          162 ALPKGMHNLTSLQYLRIGKGGALPSL-EEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSF  240 (348)
Q Consensus       162 ~~~~~l~~l~~L~~L~l~~~~~~~~~-~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~  240 (348)
                      .+|..+.  ++|++|++++|. +..+ +..+..+++|+.|+++++. +.....   ..+..+++|+.|++++  +.+..+
T Consensus       185 ~l~~~~~--~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~---~~~~~l~~L~~L~L~~--N~l~~l  255 (330)
T 1xku_A          185 TIPQGLP--PSLTELHLDGNK-ITKVDAASLKGLNNLAKLGLSFNS-ISAVDN---GSLANTPHLRELHLNN--NKLVKV  255 (330)
T ss_dssp             SCCSSCC--TTCSEEECTTSC-CCEECTGGGTTCTTCCEEECCSSC-CCEECT---TTGGGSTTCCEEECCS--SCCSSC
T ss_pred             cCCcccc--ccCCEEECCCCc-CCccCHHHhcCCCCCCEEECCCCc-CceeCh---hhccCCCCCCEEECCC--CcCccC
Confidence            7776543  799999999874 5544 4567889999999999954 554443   2467889999999998  577788


Q ss_pred             ccchhccCCCCCCCCCccEEEeccCCCcccccc-ccc------cCCCcceEeccCCCCCC-CCCCCCC--CCCCcEEEEc
Q 039944          241 PLEDKRLGTALPLPASLTSLWIEAFPNLERLSS-SIV------DLQNLTELYLFGCPKLK-YFPEKGL--PSSLLELRIS  310 (348)
Q Consensus       241 ~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~------~~~~L~~L~l~~c~~l~-~l~~~~~--~~~L~~L~l~  310 (348)
                      |.+.       ..+++|++|++++ +.++.++. .+.      ..+.++.+++.+++... .++...+  ..+++.++++
T Consensus       256 p~~l-------~~l~~L~~L~l~~-N~i~~~~~~~f~~~~~~~~~~~l~~l~l~~N~~~~~~i~~~~f~~~~~l~~l~L~  327 (330)
T 1xku_A          256 PGGL-------ADHKYIQVVYLHN-NNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAVQLG  327 (330)
T ss_dssp             CTTT-------TTCSSCCEEECCS-SCCCCCCTTSSSCSSCCTTSCCCSEEECCSSSSCGGGSCGGGGTTCCCGGGEEC-
T ss_pred             Chhh-------ccCCCcCEEECCC-CcCCccChhhcCCcccccccccccceEeecCcccccccCccccccccceeEEEec
Confidence            7765       5778999999998 46777765 222      34788999999976321 1332222  5788888888


Q ss_pred             CC
Q 039944          311 RC  312 (348)
Q Consensus       311 ~c  312 (348)
                      ++
T Consensus       328 ~N  329 (330)
T 1xku_A          328 NY  329 (330)
T ss_dssp             --
T ss_pred             cc
Confidence            75

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.84  E-value=3e-19  Score=179.00  Aligned_cols=33  Identities=18%  Similarity=0.084  Sum_probs=17.9

Q ss_pred             ccEEEEcCCCCcccc-hhhhcCCCccceeccccc
Q 039944          101 LKSLFVYGCSKLGSI-AERLDNNTSLETISIDSC  133 (348)
Q Consensus       101 L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~  133 (348)
                      |+.|++++|...... +..+..+++|++|++++|
T Consensus       125 L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N  158 (844)
T 3j0a_A          125 LTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSN  158 (844)
T ss_dssp             CCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESS
T ss_pred             CCEEECCCCcccccccchhHhhCCCCCEEECCCC
Confidence            666666665533222 234556666666666553

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=99.84  E-value=2.3e-19  Score=175.93  Aligned_cols=263  Identities=17%  Similarity=0.118  Sum_probs=183.4

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCC-CccccccCCCC----CCCcceeEe--------
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCP-SLTCIFSKNEL----PATLESLEV--------   94 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~-~l~~~~~~~~~----~~~L~~L~i--------   94 (348)
                      +++|++|++++|. +..++..       .+..++  +|++|+++++. .... ++...+    .++|+.|.+        
T Consensus       328 l~~L~~L~l~~n~-l~~~~~~-------~~~~l~--~L~~L~Ls~n~~~~~~-l~~~~f~~~~~~~L~~L~L~~n~l~~~  396 (680)
T 1ziw_A          328 LKCLEHLNMEDND-IPGIKSN-------MFTGLI--NLKYLSLSNSFTSLRT-LTNETFVSLAHSPLHILNLTKNKISKI  396 (680)
T ss_dssp             CTTCCEEECCSCC-BCCCCTT-------TTTTCT--TCCEEECTTCBSCCCE-ECTTTTGGGTTSCCCEEECTTSCCCEE
T ss_pred             CCCCCEEECCCCc-cCCCChh-------Hhcccc--CCcEEECCCCchhhhh-cchhhhcccccCcCceEECCCCCCCeE
Confidence            3444444444443 3333333       345555  77777776643 1121 222111    135666655        


Q ss_pred             -----ccCCCCccEEEEcCCCCcccch-hhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCC--cCccccc
Q 039944           95 -----GNLPLSLKSLFVYGCSKLGSIA-ERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKR--LEALPKG  166 (348)
Q Consensus        95 -----~~l~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~--l~~~~~~  166 (348)
                           ..+++ |+.|++++|.....++ ..+..+++|+.|++++|......+..+..+++|+.|++.+|..  +..+|..
T Consensus       397 ~~~~~~~l~~-L~~L~L~~N~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~p~~  475 (680)
T 1ziw_A          397 ESDAFSWLGH-LEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSP  475 (680)
T ss_dssp             CTTTTTTCTT-CCEEECCSSCCEEECCSGGGTTCTTCCEEECCSCSEEECCTTTTTTCTTCCEEECTTSCCBCTTCSSCT
T ss_pred             ChhhhhCCCC-CCEEeCCCCcCccccCcccccCcccccEEecCCCCcceeChhhhhcCcccccchhccccccccccCCcc
Confidence                 23555 9999999987655554 6788899999999999654433445667789999999998753  3567778


Q ss_pred             ccCCCCcceeEeccCCCCCcccc-cCCCCCCcCeeeecCCccchhhhhc-----cccccCCCCCccEEEecccCCccccc
Q 039944          167 MHNLTSLQYLRIGKGGALPSLEE-EDGLPTNLQSLDIWGNMEIWKSMIE-----RGRGFHRFSSLRRLTISRCDEDMVSF  240 (348)
Q Consensus       167 l~~l~~L~~L~l~~~~~~~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~~-----~~~~~~~l~~L~~L~l~~~c~~l~~~  240 (348)
                      +..+++|++|++++| .+..++. .+..+++|+.|+++++. +..+...     ....+.++++|+.|++++  +.+..+
T Consensus       476 ~~~l~~L~~L~Ls~N-~l~~i~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~--N~l~~i  551 (680)
T 1ziw_A          476 FQPLRNLTILDLSNN-NIANINDDMLEGLEKLEILDLQHNN-LARLWKHANPGGPIYFLKGLSHLHILNLES--NGFDEI  551 (680)
T ss_dssp             TTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC-CGGGGSTTSTTSCCCTTTTCTTCCEEECCS--SCCCCC
T ss_pred             cccCCCCCEEECCCC-CCCcCChhhhccccccCEEeCCCCC-ccccchhhccCCcchhhcCCCCCCEEECCC--CCCCCC
Confidence            899999999999987 4555553 46789999999999964 4443211     001367889999999998  577777


Q ss_pred             ccchhccCCCCCCCCCccEEEeccCCCccccccc-cccCCCcceEeccCCCCCCCCCCCC---CCCCCcEEEEcCCch
Q 039944          241 PLEDKRLGTALPLPASLTSLWIEAFPNLERLSSS-IVDLQNLTELYLFGCPKLKYFPEKG---LPSSLLELRISRCPL  314 (348)
Q Consensus       241 ~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~-~~~~~~L~~L~l~~c~~l~~l~~~~---~~~~L~~L~l~~c~~  314 (348)
                      |...      +..+++|+.|++++ +.++.+|.. +..+++|+.|++++| .++.++...   ..++|++|++++||-
T Consensus       552 ~~~~------~~~l~~L~~L~Ls~-N~l~~l~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~~~~~L~~l~l~~N~~  621 (680)
T 1ziw_A          552 PVEV------FKDLFELKIIDLGL-NNLNTLPASVFNNQVSLKSLNLQKN-LITSVEKKVFGPAFRNLTELDMRFNPF  621 (680)
T ss_dssp             CTTT------TTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECTTS-CCCBCCHHHHHHHHTTCSEEECTTCCC
T ss_pred             CHHH------cccccCcceeECCC-CCCCcCCHhHhCCCCCCCEEECCCC-cCCccChhHhcccccccCEEEccCCCc
Confidence            7632      35788999999998 578888874 688999999999995 777777643   258999999999873

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.84  E-value=2e-19  Score=161.09  Aligned_cols=264  Identities=15%  Similarity=0.154  Sum_probs=190.6

Q ss_pred             CCcccEEeecCcccccccCCCCC--CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccC
Q 039944            5 NSSLEILDIEKCHSLTYIAAVQL--PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSK   82 (348)
Q Consensus         5 ~~~L~~L~l~~~~~l~~l~~~~~--~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~   82 (348)
                      .++|+.|+++++ .++.+++..+  +++|++|++++|. +..++..       .+..++  +|++|+++++ .+.. +|.
T Consensus        53 ~~~l~~L~l~~n-~i~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~-------~~~~l~--~L~~L~L~~n-~l~~-l~~  119 (332)
T 2ft3_A           53 SPDTTLLDLQNN-DISELRKDDFKGLQHLYALVLVNNK-ISKIHEK-------AFSPLR--KLQKLYISKN-HLVE-IPP  119 (332)
T ss_dssp             CTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSC-CCEECGG-------GSTTCT--TCCEEECCSS-CCCS-CCS
T ss_pred             CCCCeEEECCCC-cCCccCHhHhhCCCCCcEEECCCCc-cCccCHh-------HhhCcC--CCCEEECCCC-cCCc-cCc
Confidence            368999999985 6777866443  8999999999997 7777544       377877  9999999985 4665 665


Q ss_pred             CCCCCCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccc--cccCCCCCCCCCccEEEEecCCCc
Q 039944           83 NELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNL--VSFPEGGLPCAKLTRLTILDCKRL  160 (348)
Q Consensus        83 ~~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l--~~~~~~~~~~~~L~~L~l~~~~~l  160 (348)
                      ...            +. |+.|++++|......+..+..+++|++|++++|...  ...+..+..+ +|+.|++++| .+
T Consensus       120 ~~~------------~~-L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n-~l  184 (332)
T 2ft3_A          120 NLP------------SS-LVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRISEA-KL  184 (332)
T ss_dssp             SCC------------TT-CCEEECCSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCSS-BC
T ss_pred             ccc------------cc-CCEEECCCCccCccCHhHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEECcCC-CC
Confidence            322            34 999999988644333456888999999999985432  1334445555 8999999985 46


Q ss_pred             CcccccccCCCCcceeEeccCCCCCccc-ccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccc
Q 039944          161 EALPKGMHNLTSLQYLRIGKGGALPSLE-EEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVS  239 (348)
Q Consensus       161 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~-~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~  239 (348)
                      ..+|..+.  ++|++|++++| .+..++ ..+..+++|+.|+++++ .+...+.   ..+..+++|+.|++++  +.+..
T Consensus       185 ~~l~~~~~--~~L~~L~l~~n-~i~~~~~~~l~~l~~L~~L~L~~N-~l~~~~~---~~~~~l~~L~~L~L~~--N~l~~  255 (332)
T 2ft3_A          185 TGIPKDLP--ETLNELHLDHN-KIQAIELEDLLRYSKLYRLGLGHN-QIRMIEN---GSLSFLPTLRELHLDN--NKLSR  255 (332)
T ss_dssp             SSCCSSSC--SSCSCCBCCSS-CCCCCCTTSSTTCTTCSCCBCCSS-CCCCCCT---TGGGGCTTCCEEECCS--SCCCB
T ss_pred             CccCcccc--CCCCEEECCCC-cCCccCHHHhcCCCCCCEEECCCC-cCCcCCh---hHhhCCCCCCEEECCC--CcCee
Confidence            77776543  79999999987 445444 46788999999999995 4555443   2567889999999998  57788


Q ss_pred             cccchhccCCCCCCCCCccEEEeccCCCcccccc-cccc------CCCcceEeccCCCCCC-CCCCCCC--CCCCcEEEE
Q 039944          240 FPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS-SIVD------LQNLTELYLFGCPKLK-YFPEKGL--PSSLLELRI  309 (348)
Q Consensus       240 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~------~~~L~~L~l~~c~~l~-~l~~~~~--~~~L~~L~l  309 (348)
                      +|.+.       ..+++|+.|++++ +.++.++. .+..      .++|+.|++.+++... .++...+  .++|+.+++
T Consensus       256 lp~~l-------~~l~~L~~L~l~~-N~l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~~~~~~~~~~~~~~l~~L~~l~l  327 (332)
T 2ft3_A          256 VPAGL-------PDLKLLQVVYLHT-NNITKVGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEVQPATFRCVTDRLAIQF  327 (332)
T ss_dssp             CCTTG-------GGCTTCCEEECCS-SCCCBCCTTSSSCSSCCSSSCCBSEEECCSSSSCGGGSCGGGGTTBCCSTTEEC
T ss_pred             cChhh-------hcCccCCEEECCC-CCCCccChhHccccccccccccccceEeecCcccccccCcccccccchhhhhhc
Confidence            88766       4678999999998 56777765 2322      4679999999976431 2333222  688999999


Q ss_pred             cCCc
Q 039944          310 SRCP  313 (348)
Q Consensus       310 ~~c~  313 (348)
                      +++.
T Consensus       328 ~~n~  331 (332)
T 2ft3_A          328 GNYK  331 (332)
T ss_dssp             ----
T ss_pred             cccc
Confidence            8774

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.84  E-value=3.1e-19  Score=166.48  Aligned_cols=264  Identities=17%  Similarity=0.123  Sum_probs=178.4

Q ss_pred             CCCCCcccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCcccccc
Q 039944            2 CDTNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFS   81 (348)
Q Consensus         2 ~~~~~~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~   81 (348)
                      +..+++|++|+++++ .++.++ .+.+++|++|++++|. +..++          +..++  +|++|+++++ .+.. ++
T Consensus        60 l~~l~~L~~L~Ls~n-~l~~~~-~~~l~~L~~L~Ls~N~-l~~~~----------~~~l~--~L~~L~L~~N-~l~~-l~  122 (457)
T 3bz5_A           60 IEKLTGLTKLICTSN-NITTLD-LSQNTNLTYLACDSNK-LTNLD----------VTPLT--KLTYLNCDTN-KLTK-LD  122 (457)
T ss_dssp             GGGCTTCSEEECCSS-CCSCCC-CTTCTTCSEEECCSSC-CSCCC----------CTTCT--TCCEEECCSS-CCSC-CC
T ss_pred             hcccCCCCEEEccCC-cCCeEc-cccCCCCCEEECcCCC-Cceee----------cCCCC--cCCEEECCCC-cCCe-ec
Confidence            356789999999975 677775 4458889999999987 66654          35666  8888888875 4665 55


Q ss_pred             CCCCCCCcceeEe----------ccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccE
Q 039944           82 KNELPATLESLEV----------GNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTR  151 (348)
Q Consensus        82 ~~~~~~~L~~L~i----------~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~  151 (348)
                      . ...++|++|.+          ..++. |+.|++++|..+..+  .+..+++|+.|++++| .+..+|  +..+++|+.
T Consensus       123 ~-~~l~~L~~L~l~~N~l~~l~l~~l~~-L~~L~l~~n~~~~~~--~~~~l~~L~~L~ls~n-~l~~l~--l~~l~~L~~  195 (457)
T 3bz5_A          123 V-SQNPLLTYLNCARNTLTEIDVSHNTQ-LTELDCHLNKKITKL--DVTPQTQLTTLDCSFN-KITELD--VSQNKLLNR  195 (457)
T ss_dssp             C-TTCTTCCEEECTTSCCSCCCCTTCTT-CCEEECTTCSCCCCC--CCTTCTTCCEEECCSS-CCCCCC--CTTCTTCCE
T ss_pred             C-CCCCcCCEEECCCCccceeccccCCc-CCEEECCCCCccccc--ccccCCcCCEEECCCC-ccceec--cccCCCCCE
Confidence            3 34466777766          34565 999999988767666  3677899999999884 566666  566788999


Q ss_pred             EEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEec
Q 039944          152 LTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTIS  231 (348)
Q Consensus       152 L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~  231 (348)
                      |++++|. ++.+  .+..+++|++|++++| .+..+|  ++.+++|+.|+++++ .+...+      ...+++|+.|+++
T Consensus       196 L~l~~N~-l~~~--~l~~l~~L~~L~Ls~N-~l~~ip--~~~l~~L~~L~l~~N-~l~~~~------~~~l~~L~~L~l~  262 (457)
T 3bz5_A          196 LNCDTNN-ITKL--DLNQNIQLTFLDCSSN-KLTEID--VTPLTQLTYFDCSVN-PLTELD------VSTLSKLTTLHCI  262 (457)
T ss_dssp             EECCSSC-CSCC--CCTTCTTCSEEECCSS-CCSCCC--CTTCTTCSEEECCSS-CCSCCC------CTTCTTCCEEECT
T ss_pred             EECcCCc-CCee--ccccCCCCCEEECcCC-cccccC--ccccCCCCEEEeeCC-cCCCcC------HHHCCCCCEEecc
Confidence            9998854 5555  3677889999999887 566666  677888999999885 444433      2344555544444


Q ss_pred             cc---------CCcccccccchhccCCCCCCCCCccEEEeccCCCcccccc--------ccccCCCcceEeccCCCCCCC
Q 039944          232 RC---------DEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS--------SIVDLQNLTELYLFGCPKLKY  294 (348)
Q Consensus       232 ~~---------c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~--------~~~~~~~L~~L~l~~c~~l~~  294 (348)
                      .+         |.....+|.         ..+++|+.|++++|..++.+|.        .+.++++|+.|+++++ .++.
T Consensus       263 ~n~L~~L~l~~n~~~~~~~~---------~~l~~L~~L~Ls~n~~l~~l~~~~~~L~~L~l~~~~~L~~L~L~~N-~l~~  332 (457)
T 3bz5_A          263 QTDLLEIDLTHNTQLIYFQA---------EGCRKIKELDVTHNTQLYLLDCQAAGITELDLSQNPKLVYLYLNNT-ELTE  332 (457)
T ss_dssp             TCCCSCCCCTTCTTCCEEEC---------TTCTTCCCCCCTTCTTCCEEECTTCCCSCCCCTTCTTCCEEECTTC-CCSC
T ss_pred             CCCCCEEECCCCccCCcccc---------cccccCCEEECCCCcccceeccCCCcceEechhhcccCCEEECCCC-cccc
Confidence            30         322333332         2457788888888766665553        2444566777777663 5555


Q ss_pred             CCCCCCCCCCcEEEEcCCc
Q 039944          295 FPEKGLPSSLLELRISRCP  313 (348)
Q Consensus       295 l~~~~~~~~L~~L~l~~c~  313 (348)
                      ++ .+-+++|+.|+++++.
T Consensus       333 l~-l~~l~~L~~L~l~~N~  350 (457)
T 3bz5_A          333 LD-VSHNTKLKSLSCVNAH  350 (457)
T ss_dssp             CC-CTTCTTCSEEECCSSC
T ss_pred             cc-cccCCcCcEEECCCCC
Confidence            53 2235778888877653

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.83  E-value=2.5e-19  Score=163.96  Aligned_cols=268  Identities=15%  Similarity=0.128  Sum_probs=153.4

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEc
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVY  107 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~  107 (348)
                      +++++.|+++++. +..+|..       .++.++  +|++|+++++. +.. ++...+         ..++. |+.|+++
T Consensus        44 l~~l~~l~l~~~~-l~~l~~~-------~~~~l~--~L~~L~L~~n~-i~~-~~~~~~---------~~l~~-L~~L~L~  101 (390)
T 3o6n_A           44 LNNQKIVTFKNST-MRKLPAA-------LLDSFR--QVELLNLNDLQ-IEE-IDTYAF---------AYAHT-IQKLYMG  101 (390)
T ss_dssp             GCCCSEEEEESCE-ESEECTH-------HHHHCC--CCSEEECTTSC-CCE-ECTTTT---------TTCTT-CCEEECC
T ss_pred             cCCceEEEecCCc-hhhCChh-------Hhcccc--cCcEEECCCCc-ccc-cChhhc---------cCCCC-cCEEECC
Confidence            6899999999997 8999987       567777  99999999864 665 554322         11233 5555555


Q ss_pred             CCCCcccchhhhcCCCccceecccccccccccCCCC-CCCCCccEEEEecCCCcCcc-cccccCCCCcceeEeccCCCCC
Q 039944          108 GCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGG-LPCAKLTRLTILDCKRLEAL-PKGMHNLTSLQYLRIGKGGALP  185 (348)
Q Consensus       108 ~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~-~~~~~L~~L~l~~~~~l~~~-~~~l~~l~~L~~L~l~~~~~~~  185 (348)
                      +|......+..+..+++|++|++++| .+..+|... ..+++|++|++++|. +..+ +..+..+++|++|++++| .+.
T Consensus       102 ~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~l~~n-~l~  178 (390)
T 3o6n_A          102 FNAIRYLPPHVFQNVPLLTVLVLERN-DLSSLPRGIFHNTPKLTTLSMSNNN-LERIEDDTFQATTSLQNLQLSSN-RLT  178 (390)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC-CCBCCTTTTSSCTTCCEEECCSS-CCS
T ss_pred             CCCCCcCCHHHhcCCCCCCEEECCCC-ccCcCCHHHhcCCCCCcEEECCCCc-cCccChhhccCCCCCCEEECCCC-cCC
Confidence            44422222333444555555555442 333444332 334455555554432 2222 223344444555544443 122


Q ss_pred             cccc--------------------------------------cCCCCCCcCeeeecCCccchhhhhccccccCCCCCccE
Q 039944          186 SLEE--------------------------------------EDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRR  227 (348)
Q Consensus       186 ~~~~--------------------------------------~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~  227 (348)
                      .++.                                      ....+++|+.|+++++. +...+     .+..+++|+.
T Consensus       179 ~~~~~~l~~L~~L~l~~n~l~~~~~~~~L~~L~l~~n~l~~~~~~~~~~L~~L~l~~n~-l~~~~-----~l~~l~~L~~  252 (390)
T 3o6n_A          179 HVDLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNN-LTDTA-----WLLNYPGLVE  252 (390)
T ss_dssp             BCCGGGCTTCSEEECCSSCCSEEECCSSCSEEECCSSCCCEEECCCCSSCCEEECCSSC-CCCCG-----GGGGCTTCSE
T ss_pred             ccccccccccceeecccccccccCCCCcceEEECCCCeeeeccccccccccEEECCCCC-CcccH-----HHcCCCCccE
Confidence            1110                                      01123345555555532 33222     3466777888


Q ss_pred             EEecccCCccccc-ccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCC-CCCCCCc
Q 039944          228 LTISRCDEDMVSF-PLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEK-GLPSSLL  305 (348)
Q Consensus       228 L~l~~~c~~l~~~-~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~-~~~~~L~  305 (348)
                      |++++  +.+..+ +...       ..+++|++|++++ +.++.++..+..+++|+.|++++| .++.+|.. .-.++|+
T Consensus       253 L~Ls~--n~l~~~~~~~~-------~~l~~L~~L~L~~-n~l~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~l~~L~  321 (390)
T 3o6n_A          253 VDLSY--NELEKIMYHPF-------VKMQRLERLYISN-NRLVALNLYGQPIPTLKVLDLSHN-HLLHVERNQPQFDRLE  321 (390)
T ss_dssp             EECCS--SCCCEEESGGG-------TTCSSCCEEECCS-SCCCEEECSSSCCTTCCEEECCSS-CCCCCGGGHHHHTTCS
T ss_pred             EECCC--CcCCCcChhHc-------cccccCCEEECCC-CcCcccCcccCCCCCCCEEECCCC-cceecCccccccCcCC
Confidence            88887  345444 3333       4677888888887 467777777777888888888885 56666542 1157888


Q ss_pred             EEEEcCCchhHHHhhccCCccccCCCCcCEEEecceeecc
Q 039944          306 ELRISRCPLIAEKCRKDGGQYWDLLTHIPRVEIDWKSVFG  345 (348)
Q Consensus       306 ~L~l~~c~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~  345 (348)
                      +|++++|.. +.       .....+..+..+.+.++.+-|
T Consensus       322 ~L~L~~N~i-~~-------~~~~~~~~L~~L~l~~N~~~~  353 (390)
T 3o6n_A          322 NLYLDHNSI-VT-------LKLSTHHTLKNLTLSHNDWDC  353 (390)
T ss_dssp             EEECCSSCC-CC-------CCCCTTCCCSEEECCSSCEEH
T ss_pred             EEECCCCcc-ce-------eCchhhccCCEEEcCCCCccc
Confidence            888888762 11       124456678888888776654

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.83  E-value=4.7e-19  Score=164.76  Aligned_cols=241  Identities=19%  Similarity=0.250  Sum_probs=150.9

Q ss_pred             cEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCC
Q 039944            9 EILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPAT   88 (348)
Q Consensus         9 ~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~   88 (348)
                      +.++..+ ..++.+|. .+.++++.|+++++. +..++..       .+..++  +|++|+++++ .+.. ++...+   
T Consensus        46 ~~v~c~~-~~l~~iP~-~~~~~l~~L~L~~n~-i~~~~~~-------~~~~l~--~L~~L~Ls~n-~i~~-i~~~~~---  108 (440)
T 3zyj_A           46 SKVICVR-KNLREVPD-GISTNTRLLNLHENQ-IQIIKVN-------SFKHLR--HLEILQLSRN-HIRT-IEIGAF---  108 (440)
T ss_dssp             CEEECCS-CCCSSCCS-CCCTTCSEEECCSCC-CCEECTT-------TTSSCS--SCCEEECCSS-CCCE-ECGGGG---
T ss_pred             CEEEeCC-CCcCcCCC-CCCCCCcEEEccCCc-CCeeCHH-------HhhCCC--CCCEEECCCC-cCCc-cChhhc---
Confidence            3444443 35566664 235677777777776 6666654       466666  7777777764 3444 433222   


Q ss_pred             cceeEeccCCCCccEEEEcCCCCcccch-hhhcCCCccceecccccccccccCC-CCCCCCCccEEEEecCCCcCcccc-
Q 039944           89 LESLEVGNLPLSLKSLFVYGCSKLGSIA-ERLDNNTSLETISIDSCGNLVSFPE-GGLPCAKLTRLTILDCKRLEALPK-  165 (348)
Q Consensus        89 L~~L~i~~l~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~l~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~-  165 (348)
                            ..+++ |+.|++++|. +..++ ..+..+++|++|++++| .+..++. .+..+++|+.|++.+|..+..++. 
T Consensus       109 ------~~l~~-L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~N-~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~  179 (440)
T 3zyj_A          109 ------NGLAN-LNTLELFDNR-LTTIPNGAFVYLSKLKELWLRNN-PIESIPSYAFNRIPSLRRLDLGELKRLSYISEG  179 (440)
T ss_dssp             ------TTCSS-CCEEECCSSC-CSSCCTTTSCSCSSCCEEECCSC-CCCEECTTTTTTCTTCCEEECCCCTTCCEECTT
T ss_pred             ------cCCcc-CCEEECCCCc-CCeeCHhHhhccccCceeeCCCC-cccccCHHHhhhCcccCEeCCCCCCCcceeCcc
Confidence                  23355 7777777765 44443 45667777777777774 4545544 455677777777777666666654 


Q ss_pred             cccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchh
Q 039944          166 GMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDK  245 (348)
Q Consensus       166 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~  245 (348)
                      .+..+++|++|++++| .+..+| .+..+++|+.|+++++ .+.....   ..+..+++|+.|++++  +.+..++..  
T Consensus       180 ~~~~l~~L~~L~L~~n-~l~~~~-~~~~l~~L~~L~Ls~N-~l~~~~~---~~~~~l~~L~~L~L~~--n~l~~~~~~--  249 (440)
T 3zyj_A          180 AFEGLSNLRYLNLAMC-NLREIP-NLTPLIKLDELDLSGN-HLSAIRP---GSFQGLMHLQKLWMIQ--SQIQVIERN--  249 (440)
T ss_dssp             TTTTCSSCCEEECTTS-CCSSCC-CCTTCSSCCEEECTTS-CCCEECT---TTTTTCTTCCEEECTT--CCCCEECTT--
T ss_pred             hhhcccccCeecCCCC-cCcccc-ccCCCcccCEEECCCC-ccCccCh---hhhccCccCCEEECCC--CceeEEChh--
Confidence            4567777777777776 566666 5667777777777775 3444432   2566777777777776  455554432  


Q ss_pred             ccCCCCCCCCCccEEEeccCCCcccccc-ccccCCCcceEeccCCC
Q 039944          246 RLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGCP  290 (348)
Q Consensus       246 ~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c~  290 (348)
                          ++..+++|+.|++++ +.++.++. .+..+++|+.|++++++
T Consensus       250 ----~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~Np  290 (440)
T 3zyj_A          250 ----AFDNLQSLVEINLAH-NNLTLLPHDLFTPLHHLERIHLHHNP  290 (440)
T ss_dssp             ----SSTTCTTCCEEECTT-SCCCCCCTTTTSSCTTCCEEECCSSC
T ss_pred             ----hhcCCCCCCEEECCC-CCCCccChhHhccccCCCEEEcCCCC
Confidence                124566777777777 35665554 45667777777777654

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=99.83  E-value=5.4e-19  Score=168.89  Aligned_cols=145  Identities=19%  Similarity=0.244  Sum_probs=87.3

Q ss_pred             CCCCccEEEEecCCCcCccc---ccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCC
Q 039944          145 PCAKLTRLTILDCKRLEALP---KGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHR  221 (348)
Q Consensus       145 ~~~~L~~L~l~~~~~l~~~~---~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~  221 (348)
                      .+++|+.|++++| .++.++   ..+..+++|++|++++| .+..+|..++.+++|+.|+++++. +..++.      ..
T Consensus       359 ~l~~L~~L~Ls~N-~l~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~lp~~~~~~~~L~~L~Ls~N~-l~~l~~------~~  429 (549)
T 2z81_A          359 AWPSLQTLVLSQN-HLRSMQKTGEILLTLKNLTSLDISRN-TFHPMPDSCQWPEKMRFLNLSSTG-IRVVKT------CI  429 (549)
T ss_dssp             SSTTCCEEECTTS-CCCCHHHHHHHGGGCTTCCEEECTTC-CCCCCCSCCCCCTTCCEEECTTSC-CSCCCT------TS
T ss_pred             ccccCcEEEccCC-cccccccchhhhhcCCCCCEEECCCC-CCccCChhhcccccccEEECCCCC-cccccc------hh
Confidence            3445555555543 233332   12344555555555554 344455444455555555555532 332221      11


Q ss_pred             CCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCCC-
Q 039944          222 FSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGL-  300 (348)
Q Consensus       222 l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~-  300 (348)
                      .++|+.|++++  +.+..++          ..+++|++|++++| .++.+|. ...+++|+.|++++| .++.++...+ 
T Consensus       430 ~~~L~~L~Ls~--N~l~~~~----------~~l~~L~~L~Ls~N-~l~~ip~-~~~l~~L~~L~Ls~N-~l~~~~~~~~~  494 (549)
T 2z81_A          430 PQTLEVLDVSN--NNLDSFS----------LFLPRLQELYISRN-KLKTLPD-ASLFPVLLVMKISRN-QLKSVPDGIFD  494 (549)
T ss_dssp             CTTCSEEECCS--SCCSCCC----------CCCTTCCEEECCSS-CCSSCCC-GGGCTTCCEEECCSS-CCCCCCTTGGG
T ss_pred             cCCceEEECCC--CChhhhc----------ccCChhcEEECCCC-ccCcCCC-cccCccCCEEecCCC-ccCCcCHHHHh
Confidence            24556666665  3344333          25678999999994 7888886 567999999999995 7777776544 


Q ss_pred             -CCCCcEEEEcCCc
Q 039944          301 -PSSLLELRISRCP  313 (348)
Q Consensus       301 -~~~L~~L~l~~c~  313 (348)
                       .++|+.|++++|+
T Consensus       495 ~l~~L~~L~l~~N~  508 (549)
T 2z81_A          495 RLTSLQKIWLHTNP  508 (549)
T ss_dssp             GCTTCCEEECCSSC
T ss_pred             cCcccCEEEecCCC
Confidence             7899999999887

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.83  E-value=9.5e-19  Score=175.38  Aligned_cols=153  Identities=15%  Similarity=0.172  Sum_probs=82.5

Q ss_pred             CcccEEeecCcccccccCCCCC--CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCC
Q 039944            6 SSLEILDIEKCHSLTYIAAVQL--PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKN   83 (348)
Q Consensus         6 ~~L~~L~l~~~~~l~~l~~~~~--~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~   83 (348)
                      ++|++|+++++ .++.+++..+  +++|++|++++|.....++..       .++.++  +|++|+++++. +.. +...
T Consensus        24 ~~l~~LdLs~N-~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~-------~f~~L~--~L~~L~Ls~N~-l~~-~~p~   91 (844)
T 3j0a_A           24 NTTERLLLSFN-YIRTVTASSFPFLEQLQLLELGSQYTPLTIDKE-------AFRNLP--NLRILDLGSSK-IYF-LHPD   91 (844)
T ss_dssp             TTCCEEEEESC-CCCEECSSSCSSCCSCSEEEECTTCCCCEECTT-------TTSSCT--TCCEEECTTCC-CCE-ECTT
T ss_pred             CCcCEEECCCC-cCCccChhHCcccccCeEEeCCCCCCccccCHH-------HhcCCC--CCCEEECCCCc-Ccc-cCHh
Confidence            45666666653 4555543332  666666666666444455333       355555  66666666543 333 3222


Q ss_pred             CCCCCcceeEeccCCCCccEEEEcCCCCcccchhh--hcCCCccceeccccccccccc-C-CCCCCCCCccEEEEecCCC
Q 039944           84 ELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAER--LDNNTSLETISIDSCGNLVSF-P-EGGLPCAKLTRLTILDCKR  159 (348)
Q Consensus        84 ~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~--~~~l~~L~~L~l~~~~~l~~~-~-~~~~~~~~L~~L~l~~~~~  159 (348)
                      .+         ..+++ |+.|++++|.....++..  +..+++|++|+++.|. +..+ + ..+..+++|++|++++|..
T Consensus        92 ~~---------~~l~~-L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~-l~~~~~~~~~~~L~~L~~L~Ls~N~i  160 (844)
T 3j0a_A           92 AF---------QGLFH-LFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQ-IRSLYLHPSFGKLNSLKSIDFSSNQI  160 (844)
T ss_dssp             SS---------CSCSS-CCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCC-CCCCCCCGGGGTCSSCCEEEEESSCC
T ss_pred             Hc---------cCCcc-cCEeeCcCCCCCcccccCccccccCCCCEEECCCCc-ccccccchhHhhCCCCCEEECCCCcC
Confidence            11         23355 777777777644434433  6677777777777743 3333 2 2456677777777777543


Q ss_pred             cCcccccccCC--CCcceeEeccC
Q 039944          160 LEALPKGMHNL--TSLQYLRIGKG  181 (348)
Q Consensus       160 l~~~~~~l~~l--~~L~~L~l~~~  181 (348)
                      -...+..+..+  ++|+.|++++|
T Consensus       161 ~~~~~~~l~~l~~~~L~~L~L~~n  184 (844)
T 3j0a_A          161 FLVCEHELEPLQGKTLSFFSLAAN  184 (844)
T ss_dssp             CCCCSGGGHHHHHCSSCCCEECCS
T ss_pred             CeeCHHHcccccCCccceEECCCC
Confidence            33233333333  44555555444

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

Probab=99.83  E-value=3.6e-20  Score=164.54  Aligned_cols=251  Identities=16%  Similarity=0.095  Sum_probs=191.4

Q ss_pred             CcccEEeecCccccc---ccCCC-CCCCCccEEEecc-Ccccc-ccccccccccccccccccCCccceeeeeCCCCcccc
Q 039944            6 SSLEILDIEKCHSLT---YIAAV-QLPSSLKKLQICD-CYNIR-TLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCI   79 (348)
Q Consensus         6 ~~L~~L~l~~~~~l~---~l~~~-~~~~~L~~L~l~~-~~~l~-~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~   79 (348)
                      .+++.|+++++ .++   .+|.. ..+++|++|++++ +. +. .+|..        +..++  +|++|+++++. +...
T Consensus        50 ~~l~~L~L~~~-~l~~~~~~~~~l~~l~~L~~L~L~~~n~-l~~~~p~~--------l~~l~--~L~~L~Ls~n~-l~~~  116 (313)
T 1ogq_A           50 YRVNNLDLSGL-NLPKPYPIPSSLANLPYLNFLYIGGINN-LVGPIPPA--------IAKLT--QLHYLYITHTN-VSGA  116 (313)
T ss_dssp             CCEEEEEEECC-CCSSCEECCGGGGGCTTCSEEEEEEETT-EESCCCGG--------GGGCT--TCSEEEEEEEC-CEEE
T ss_pred             ceEEEEECCCC-CccCCcccChhHhCCCCCCeeeCCCCCc-ccccCChh--------HhcCC--CCCEEECcCCe-eCCc
Confidence            68999999986 454   46654 3389999999996 54 54 56655        77887  99999999864 5421


Q ss_pred             ccCCCCCCCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCC-CccEEEEecCC
Q 039944           80 FSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCA-KLTRLTILDCK  158 (348)
Q Consensus        80 ~~~~~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~-~L~~L~l~~~~  158 (348)
                      +|.     .+     ..+++ |+.|++++|.....+|..+..+++|++|++++|.....+|..+..++ +|+.|++++|.
T Consensus       117 ~p~-----~~-----~~l~~-L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~  185 (313)
T 1ogq_A          117 IPD-----FL-----SQIKT-LVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNR  185 (313)
T ss_dssp             CCG-----GG-----GGCTT-CCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSE
T ss_pred             CCH-----HH-----hCCCC-CCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCe
Confidence            332     22     33466 99999999875557788899999999999999655457888888887 99999999976


Q ss_pred             CcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCccc
Q 039944          159 RLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMV  238 (348)
Q Consensus       159 ~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~  238 (348)
                      ....+|..+..++ |++|++++|......+..+..+++|+.|+++++. +....    ..+..+++|++|++++  +.+.
T Consensus       186 l~~~~~~~~~~l~-L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~----~~~~~l~~L~~L~Ls~--N~l~  257 (313)
T 1ogq_A          186 LTGKIPPTFANLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNS-LAFDL----GKVGLSKNLNGLDLRN--NRIY  257 (313)
T ss_dssp             EEEECCGGGGGCC-CSEEECCSSEEEECCGGGCCTTSCCSEEECCSSE-ECCBG----GGCCCCTTCCEEECCS--SCCE
T ss_pred             eeccCChHHhCCc-ccEEECcCCcccCcCCHHHhcCCCCCEEECCCCc-eeeec----CcccccCCCCEEECcC--Cccc
Confidence            5557777888887 9999999874444566678889999999999964 44333    1357789999999998  4555


Q ss_pred             -ccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCC
Q 039944          239 -SFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFP  296 (348)
Q Consensus       239 -~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~  296 (348)
                       .+|...       ..+++|++|+++++.....+|.. .++++|+.+++.+++.+...|
T Consensus       258 ~~~p~~l-------~~l~~L~~L~Ls~N~l~~~ip~~-~~l~~L~~l~l~~N~~lc~~p  308 (313)
T 1ogq_A          258 GTLPQGL-------TQLKFLHSLNVSFNNLCGEIPQG-GNLQRFDVSAYANNKCLCGSP  308 (313)
T ss_dssp             ECCCGGG-------GGCTTCCEEECCSSEEEEECCCS-TTGGGSCGGGTCSSSEEESTT
T ss_pred             CcCChHH-------hcCcCCCEEECcCCcccccCCCC-ccccccChHHhcCCCCccCCC
Confidence             667665       46789999999996444477765 889999999999988666543

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.83  E-value=3.4e-19  Score=170.97  Aligned_cols=175  Identities=21%  Similarity=0.182  Sum_probs=121.0

Q ss_pred             CCCccceeccccccccccc---CCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCccc--ccCCCCC
Q 039944          121 NNTSLETISIDSCGNLVSF---PEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLE--EEDGLPT  195 (348)
Q Consensus       121 ~l~~L~~L~l~~~~~l~~~---~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~--~~~~~~~  195 (348)
                      .+++|++|++++|. +...   +..+..+++|+.|++++|. +..++..+..+++|++|++++|. +...+  ..+..++
T Consensus       345 ~~~~L~~L~l~~n~-l~~~~~~~~~~~~~~~L~~L~l~~n~-l~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~~l~  421 (570)
T 2z63_A          345 DLPSLEFLDLSRNG-LSFKGCCSQSDFGTTSLKYLDLSFNG-VITMSSNFLGLEQLEHLDFQHSN-LKQMSEFSVFLSLR  421 (570)
T ss_dssp             BCTTCCEEECCSSC-CBEEEEEEHHHHTCSCCCEEECCSCS-EEEEEEEEETCTTCCEEECTTSE-EESCTTSCTTTTCT
T ss_pred             cCCCCCEEeCcCCc-cCccccccccccccCccCEEECCCCc-cccccccccccCCCCEEEccCCc-cccccchhhhhcCC
Confidence            45555555555532 2222   2333445667777776643 44455556777888888888763 33332  2467788


Q ss_pred             CcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCccc--ccccchhccCCCCCCCCCccEEEeccCCCcccc-c
Q 039944          196 NLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMV--SFPLEDKRLGTALPLPASLTSLWIEAFPNLERL-S  272 (348)
Q Consensus       196 ~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~--~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i-~  272 (348)
                      +|+.|++++|......+    ..+..+++|+.|++++ | .+.  .+|...       ..+++|++|++++| .++.+ |
T Consensus       422 ~L~~L~l~~n~l~~~~~----~~~~~l~~L~~L~l~~-n-~l~~~~~p~~~-------~~l~~L~~L~l~~n-~l~~~~~  487 (570)
T 2z63_A          422 NLIYLDISHTHTRVAFN----GIFNGLSSLEVLKMAG-N-SFQENFLPDIF-------TELRNLTFLDLSQC-QLEQLSP  487 (570)
T ss_dssp             TCCEEECTTSCCEECCT----TTTTTCTTCCEEECTT-C-EEGGGEECSCC-------TTCTTCCEEECTTS-CCCEECT
T ss_pred             CCCEEeCcCCcccccch----hhhhcCCcCcEEECcC-C-cCccccchhhh-------hcccCCCEEECCCC-ccccCCh
Confidence            99999999875433333    3578899999999998 4 443  456544       57889999999996 55555 7


Q ss_pred             cccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEEEcCCc
Q 039944          273 SSIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELRISRCP  313 (348)
Q Consensus       273 ~~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~l~~c~  313 (348)
                      ..+..+++|++|++++| .++.++...+  .++|++|++++|+
T Consensus       488 ~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~N~  529 (570)
T 2z63_A          488 TAFNSLSSLQVLNMASN-QLKSVPDGIFDRLTSLQKIWLHTNP  529 (570)
T ss_dssp             TTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             hhhhcccCCCEEeCCCC-cCCCCCHHHhhcccCCcEEEecCCc
Confidence            78899999999999996 6777776444  6899999999876

>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=99.83  E-value=1e-18  Score=163.06  Aligned_cols=241  Identities=22%  Similarity=0.284  Sum_probs=157.0

Q ss_pred             cEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCC
Q 039944            9 EILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPAT   88 (348)
Q Consensus         9 ~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~   88 (348)
                      ..++..+ ..++.+|. ..+++++.|+++++. +..++..       .+..+.  +|++|+++++ .+.. ++...+   
T Consensus        57 ~~v~c~~-~~l~~iP~-~~~~~l~~L~L~~n~-i~~~~~~-------~~~~l~--~L~~L~Ls~n-~i~~-~~~~~~---  119 (452)
T 3zyi_A           57 SKVVCTR-RGLSEVPQ-GIPSNTRYLNLMENN-IQMIQAD-------TFRHLH--HLEVLQLGRN-SIRQ-IEVGAF---  119 (452)
T ss_dssp             CEEECCS-SCCSSCCS-CCCTTCSEEECCSSC-CCEECTT-------TTTTCT--TCCEEECCSS-CCCE-ECTTTT---
T ss_pred             cEEEECC-CCcCccCC-CCCCCccEEECcCCc-CceECHH-------HcCCCC--CCCEEECCCC-ccCC-cChhhc---
Confidence            4455443 35566663 335678888888876 6666554       466766  8888888775 4554 443322   


Q ss_pred             cceeEeccCCCCccEEEEcCCCCcccch-hhhcCCCccceecccccccccccCC-CCCCCCCccEEEEecCCCcCcccc-
Q 039944           89 LESLEVGNLPLSLKSLFVYGCSKLGSIA-ERLDNNTSLETISIDSCGNLVSFPE-GGLPCAKLTRLTILDCKRLEALPK-  165 (348)
Q Consensus        89 L~~L~i~~l~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~l~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~-  165 (348)
                            ..+++ |+.|++++|. +..++ ..+..+++|++|++++| .+..++. .+..+++|+.|++++|..+..++. 
T Consensus       120 ------~~l~~-L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~  190 (452)
T 3zyi_A          120 ------NGLAS-LNTLELFDNW-LTVIPSGAFEYLSKLRELWLRNN-PIESIPSYAFNRVPSLMRLDLGELKKLEYISEG  190 (452)
T ss_dssp             ------TTCTT-CCEEECCSSC-CSBCCTTTSSSCTTCCEEECCSC-CCCEECTTTTTTCTTCCEEECCCCTTCCEECTT
T ss_pred             ------cCccc-CCEEECCCCc-CCccChhhhcccCCCCEEECCCC-CcceeCHhHHhcCCcccEEeCCCCCCccccChh
Confidence                  23355 8888887776 44443 44667888888888774 4555554 455677888888887777777764 


Q ss_pred             cccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchh
Q 039944          166 GMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDK  245 (348)
Q Consensus       166 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~  245 (348)
                      .+..+++|++|++++| .+..+| .+..+++|+.|+++++. +.....   ..+..+++|+.|++++  +.+..++..  
T Consensus       191 ~~~~l~~L~~L~L~~n-~l~~~~-~~~~l~~L~~L~Ls~N~-l~~~~~---~~~~~l~~L~~L~L~~--n~l~~~~~~--  260 (452)
T 3zyi_A          191 AFEGLFNLKYLNLGMC-NIKDMP-NLTPLVGLEELEMSGNH-FPEIRP---GSFHGLSSLKKLWVMN--SQVSLIERN--  260 (452)
T ss_dssp             TTTTCTTCCEEECTTS-CCSSCC-CCTTCTTCCEEECTTSC-CSEECG---GGGTTCTTCCEEECTT--SCCCEECTT--
T ss_pred             hccCCCCCCEEECCCC-cccccc-cccccccccEEECcCCc-CcccCc---ccccCccCCCEEEeCC--CcCceECHH--
Confidence            4567788888888876 566666 66777788888887753 444332   2567777888888887  455544332  


Q ss_pred             ccCCCCCCCCCccEEEeccCCCcccccc-ccccCCCcceEeccCCC
Q 039944          246 RLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGCP  290 (348)
Q Consensus       246 ~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c~  290 (348)
                          ++..+++|+.|+++++ .++.++. .+..+++|+.|++++++
T Consensus       261 ----~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~Np  301 (452)
T 3zyi_A          261 ----AFDGLASLVELNLAHN-NLSSLPHDLFTPLRYLVELHLHHNP  301 (452)
T ss_dssp             ----TTTTCTTCCEEECCSS-CCSCCCTTSSTTCTTCCEEECCSSC
T ss_pred             ----HhcCCCCCCEEECCCC-cCCccChHHhccccCCCEEEccCCC
Confidence                1245677888888774 5666654 45667778888887754

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.81  E-value=1.2e-18  Score=168.19  Aligned_cols=269  Identities=14%  Similarity=0.107  Sum_probs=157.0

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEc
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVY  107 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~  107 (348)
                      +.+++.|+++++. +..+|..       .+..++  +|+.|+++++ .+.. ++...+         ..++. |+.|+++
T Consensus        50 l~~l~~l~l~~~~-l~~lp~~-------~~~~l~--~L~~L~L~~n-~l~~-~~~~~~---------~~l~~-L~~L~L~  107 (597)
T 3oja_B           50 LNNQKIVTFKNST-MRKLPAA-------LLDSFR--QVELLNLNDL-QIEE-IDTYAF---------AYAHT-IQKLYMG  107 (597)
T ss_dssp             GCCCSEEEESSCE-ESEECTH-------HHHHCC--CCSEEECTTS-CCCE-ECTTTT---------TTCTT-CCEEECC
T ss_pred             CCCceEEEeeCCC-CCCcCHH-------HHccCC--CCcEEECCCC-CCCC-CChHHh---------cCCCC-CCEEECC
Confidence            6789999999987 8889887       577777  9999999986 4666 554322         12233 5555555


Q ss_pred             CCCCcccchhhhcCCCccceecccccccccccCCCC-CCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCc
Q 039944          108 GCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGG-LPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPS  186 (348)
Q Consensus       108 ~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~-~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~  186 (348)
                      +|......+..+..+++|++|++++| .+..+|... ..+++|+.|++++|......|..+..+++|++|++++| .+..
T Consensus       108 ~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N-~l~~  185 (597)
T 3oja_B          108 FNAIRYLPPHVFQNVPLLTVLVLERN-DLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSN-RLTH  185 (597)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTS-CCSB
T ss_pred             CCcCCCCCHHHHcCCCCCCEEEeeCC-CCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCC-CCCC
Confidence            54422222333445555555555552 333444432 34455555555554322222223445555555555544 2222


Q ss_pred             ccc-----------------c---------------------CCCCCCcCeeeecCCccchhhhhccccccCCCCCccEE
Q 039944          187 LEE-----------------E---------------------DGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRL  228 (348)
Q Consensus       187 ~~~-----------------~---------------------~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L  228 (348)
                      ++.                 .                     ...+++|+.|+++++. +....     .+..+++|+.|
T Consensus       186 ~~~~~l~~L~~L~l~~n~l~~l~~~~~L~~L~ls~n~l~~~~~~~~~~L~~L~L~~n~-l~~~~-----~l~~l~~L~~L  259 (597)
T 3oja_B          186 VDLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNN-LTDTA-----WLLNYPGLVEV  259 (597)
T ss_dssp             CCGGGCTTCSEEECCSSCCSEEECCTTCSEEECCSSCCCEEECSCCSCCCEEECCSSC-CCCCG-----GGGGCTTCSEE
T ss_pred             cChhhhhhhhhhhcccCccccccCCchhheeeccCCcccccccccCCCCCEEECCCCC-CCCCh-----hhccCCCCCEE
Confidence            210                 0                     1112345555555532 22222     35667788888


Q ss_pred             EecccCCccccc-ccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCC-CCCCCCcE
Q 039944          229 TISRCDEDMVSF-PLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEK-GLPSSLLE  306 (348)
Q Consensus       229 ~l~~~c~~l~~~-~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~-~~~~~L~~  306 (348)
                      ++++  +.+..+ |...       ..+++|+.|++++ +.++.+|..+..+++|+.|++++| .+..+|.. +-+++|+.
T Consensus       260 ~Ls~--N~l~~~~~~~~-------~~l~~L~~L~Ls~-N~l~~l~~~~~~l~~L~~L~Ls~N-~l~~i~~~~~~l~~L~~  328 (597)
T 3oja_B          260 DLSY--NELEKIMYHPF-------VKMQRLERLYISN-NRLVALNLYGQPIPTLKVLDLSHN-HLLHVERNQPQFDRLEN  328 (597)
T ss_dssp             ECCS--SCCCEEESGGG-------TTCSSCCEEECTT-SCCCEEECSSSCCTTCCEEECCSS-CCCCCGGGHHHHTTCSE
T ss_pred             ECCC--CccCCCCHHHh-------cCccCCCEEECCC-CCCCCCCcccccCCCCcEEECCCC-CCCccCcccccCCCCCE
Confidence            8887  344443 3333       4677888888887 467777777777888888888885 56666652 11678888


Q ss_pred             EEEcCCchhHHHhhccCCccccCCCCcCEEEecceeecc
Q 039944          307 LRISRCPLIAEKCRKDGGQYWDLLTHIPRVEIDWKSVFG  345 (348)
Q Consensus       307 L~l~~c~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~  345 (348)
                      |++++|...        +.....+..+..+.+.++.+-|
T Consensus       329 L~L~~N~l~--------~~~~~~~~~L~~L~l~~N~~~~  359 (597)
T 3oja_B          329 LYLDHNSIV--------TLKLSTHHTLKNLTLSHNDWDC  359 (597)
T ss_dssp             EECCSSCCC--------CCCCCTTCCCSEEECCSSCEEH
T ss_pred             EECCCCCCC--------CcChhhcCCCCEEEeeCCCCCC
Confidence            888887631        1124456678888888877654

>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=99.81  E-value=6.8e-19  Score=155.71  Aligned_cols=241  Identities=19%  Similarity=0.099  Sum_probs=111.1

Q ss_pred             EEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCc
Q 039944           10 ILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATL   89 (348)
Q Consensus        10 ~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L   89 (348)
                      .++.++ ..++++|. .++++|++|+++++. ++.++..       .++.++  +|++|+++++. +.. +...  +...
T Consensus        11 ~l~c~~-~~l~~ip~-~~~~~l~~L~L~~n~-l~~i~~~-------~~~~l~--~L~~L~L~~n~-l~~-~~~~--~~~~   74 (306)
T 2z66_A           11 EIRCNS-KGLTSVPT-GIPSSATRLELESNK-LQSLPHG-------VFDKLT--QLTKLSLSSNG-LSF-KGCC--SQSD   74 (306)
T ss_dssp             EEECCS-SCCSSCCS-CCCTTCCEEECCSSC-CCCCCTT-------TTTTCT--TCSEEECCSSC-CCE-EEEE--EHHH
T ss_pred             EEEcCC-CCcccCCC-CCCCCCCEEECCCCc-cCccCHh-------Hhhccc--cCCEEECCCCc-cCc-ccCc--cccc
Confidence            455544 34555554 234567777777765 5666655       355555  66777766542 322 1100  0000


Q ss_pred             ceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCC--CCCCCCCccEEEEecCCCcCcccccc
Q 039944           90 ESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPE--GGLPCAKLTRLTILDCKRLEALPKGM  167 (348)
Q Consensus        90 ~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~--~~~~~~~L~~L~l~~~~~l~~~~~~l  167 (348)
                           ..+++ |+.|++++|. +..++..+..+++|++|++++| .+..++.  .+..+++|+.|++++|......+.. 
T Consensus        75 -----~~~~~-L~~L~Ls~n~-i~~l~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~-  145 (306)
T 2z66_A           75 -----FGTTS-LKYLDLSFNG-VITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGI-  145 (306)
T ss_dssp             -----HSCSC-CCEEECCSCS-EEEEEEEEETCTTCCEEECTTS-EEESSTTTTTTTTCTTCCEEECTTSCCEECSTTT-
T ss_pred             -----ccccc-cCEEECCCCc-cccChhhcCCCCCCCEEECCCC-cccccccchhhhhccCCCEEECCCCcCCccchhh-
Confidence                 11233 5666665553 3344444555555555555552 2333332  3334445555555443322222223 


Q ss_pred             cCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccch-hhhhccccccCCCCCccEEEecccCCcccccc-cchh
Q 039944          168 HNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIW-KSMIERGRGFHRFSSLRRLTISRCDEDMVSFP-LEDK  245 (348)
Q Consensus       168 ~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~-~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~-~~~~  245 (348)
                                             +..+++|+.|+++++.-.. ..+    ..+..+++|+.|++++  +.+..++ ... 
T Consensus       146 -----------------------~~~l~~L~~L~l~~n~l~~~~~~----~~~~~l~~L~~L~Ls~--n~l~~~~~~~~-  195 (306)
T 2z66_A          146 -----------------------FNGLSSLEVLKMAGNSFQENFLP----DIFTELRNLTFLDLSQ--CQLEQLSPTAF-  195 (306)
T ss_dssp             -----------------------TTTCTTCCEEECTTCEEGGGEEC----SCCTTCTTCCEEECTT--SCCCEECTTTT-
T ss_pred             -----------------------cccCcCCCEEECCCCccccccch----hHHhhCcCCCEEECCC--CCcCCcCHHHh-
Confidence                                   3444455555554432111 111    1344555555555555  2333332 222 


Q ss_pred             ccCCCCCCCCCccEEEeccCCCcccccc-ccccCCCcceEeccCCCCCCCCCCCC---CCCCCcEEEEcCCc
Q 039944          246 RLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGCPKLKYFPEKG---LPSSLLELRISRCP  313 (348)
Q Consensus       246 ~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c~~l~~l~~~~---~~~~L~~L~l~~c~  313 (348)
                            ..+++|++|+++++ .++.++. .+..+++|+.|++++| .+...+...   ++++|++|++++++
T Consensus       196 ------~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~~~~~L~~L~L~~N~  259 (306)
T 2z66_A          196 ------NSLSSLQVLNMSHN-NFFSLDTFPYKCLNSLQVLDYSLN-HIMTSKKQELQHFPSSLAFLNLTQND  259 (306)
T ss_dssp             ------TTCTTCCEEECTTS-CCSBCCSGGGTTCTTCCEEECTTS-CCCBCSSSSCCCCCTTCCEEECTTCC
T ss_pred             ------cCCCCCCEEECCCC-ccCccChhhccCcccCCEeECCCC-CCcccCHHHHHhhhccCCEEEccCCC
Confidence                  34455666666553 3443333 4455566666666664 333322211   12466666666654

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.80  E-value=7.5e-18  Score=163.42  Aligned_cols=157  Identities=19%  Similarity=0.131  Sum_probs=109.5

Q ss_pred             CCCCCccEEEEecCCCcCccc-ccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCC
Q 039944          144 LPCAKLTRLTILDCKRLEALP-KGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRF  222 (348)
Q Consensus       144 ~~~~~L~~L~l~~~~~l~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l  222 (348)
                      ..+++|+.+++.++......+ ..+..+++++.++++.+......+.....+++++.|+++++........   ..+..+
T Consensus       417 ~~l~~L~~l~l~~~~~~~~~~~~~~~~l~~l~~l~ls~n~l~~~~~~~~~~~~~L~~L~Ls~N~~~~~~~~---~~~~~l  493 (635)
T 4g8a_A          417 LGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLP---DIFTEL  493 (635)
T ss_dssp             TTCTTCCEEECTTSEEESTTSSCTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEEC---SCCTTC
T ss_pred             cccccccchhhhhccccccccccccccccccccccccccccccccccccccchhhhhhhhhhcccccccCc---hhhhhc
Confidence            334556666665544333322 2345667777777776643333444566788999999998765554433   357889


Q ss_pred             CCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccccc-ccccCCCcceEeccCCCCCCCCCCCCC-
Q 039944          223 SSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGCPKLKYFPEKGL-  300 (348)
Q Consensus       223 ~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c~~l~~l~~~~~-  300 (348)
                      ++|+.|++++  +.+..++...      +..+++|++|++++ +.++.++. .+..+++|+.|+++++ .++.++...+ 
T Consensus       494 ~~L~~L~Ls~--N~L~~l~~~~------f~~l~~L~~L~Ls~-N~l~~l~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~l~  563 (635)
T 4g8a_A          494 RNLTFLDLSQ--CQLEQLSPTA------FNSLSSLQVLNMSH-NNFFSLDTFPYKCLNSLQVLDYSLN-HIMTSKKQELQ  563 (635)
T ss_dssp             TTCCEEECTT--SCCCEECTTT------TTTCTTCCEEECTT-SCCCBCCCGGGTTCTTCCEEECTTS-CCCBCCSSCTT
T ss_pred             cccCEEECCC--CccCCcChHH------HcCCCCCCEEECCC-CcCCCCChhHHhCCCCCCEEECCCC-cCCCCCHHHHH
Confidence            9999999998  4677665422      25788999999999 46777655 6888999999999995 6777766443 


Q ss_pred             --CCCCcEEEEcCCc
Q 039944          301 --PSSLLELRISRCP  313 (348)
Q Consensus       301 --~~~L~~L~l~~c~  313 (348)
                        +++|++|+++++|
T Consensus       564 ~l~~~L~~L~L~~Np  578 (635)
T 4g8a_A          564 HFPSSLAFLNLTQND  578 (635)
T ss_dssp             CCCTTCCEEECTTCC
T ss_pred             hhhCcCCEEEeeCCC
Confidence              5789999999866

>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=99.80  E-value=1.3e-18  Score=162.17  Aligned_cols=154  Identities=27%  Similarity=0.348  Sum_probs=91.8

Q ss_pred             ccceeeeeCCCCccccccCCCCCCCcceeEe--------ccCCCCccEEEEcCCCCcccchhhhcCCCccceeccccccc
Q 039944           64 LLEHLEIISCPSLTCIFSKNELPATLESLEV--------GNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGN  135 (348)
Q Consensus        64 ~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i--------~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~  135 (348)
                      +|++|+++++ .++. +|.  .+++|+.|.+        ..+|.+|+.|++++|. +..+| .+..+++|++|++++| .
T Consensus        92 ~L~~L~l~~n-~l~~-lp~--~~~~L~~L~l~~n~l~~l~~~~~~L~~L~L~~n~-l~~lp-~~~~l~~L~~L~l~~N-~  164 (454)
T 1jl5_A           92 HLESLVASCN-SLTE-LPE--LPQSLKSLLVDNNNLKALSDLPPLLEYLGVSNNQ-LEKLP-ELQNSSFLKIIDVDNN-S  164 (454)
T ss_dssp             TCSEEECCSS-CCSS-CCC--CCTTCCEEECCSSCCSCCCSCCTTCCEEECCSSC-CSSCC-CCTTCTTCCEEECCSS-C
T ss_pred             CCCEEEccCC-cCCc-ccc--ccCCCcEEECCCCccCcccCCCCCCCEEECcCCC-CCCCc-ccCCCCCCCEEECCCC-c
Confidence            5555555542 3444 442  2355555555        1233347777777765 44565 4777788888888774 4


Q ss_pred             ccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhcc
Q 039944          136 LVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIER  215 (348)
Q Consensus       136 l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~  215 (348)
                      +..+|...   ++|++|++++| .+..+| .+..+++|++|++++| .+..+|.   .+++|+.|+++++ .+..++   
T Consensus       165 l~~lp~~~---~~L~~L~L~~n-~l~~l~-~~~~l~~L~~L~l~~N-~l~~l~~---~~~~L~~L~l~~n-~l~~lp---  231 (454)
T 1jl5_A          165 LKKLPDLP---PSLEFIAAGNN-QLEELP-ELQNLPFLTAIYADNN-SLKKLPD---LPLSLESIVAGNN-ILEELP---  231 (454)
T ss_dssp             CSCCCCCC---TTCCEEECCSS-CCSSCC-CCTTCTTCCEEECCSS-CCSSCCC---CCTTCCEEECCSS-CCSSCC---
T ss_pred             CcccCCCc---ccccEEECcCC-cCCcCc-cccCCCCCCEEECCCC-cCCcCCC---CcCcccEEECcCC-cCCccc---
Confidence            55565532   37778887775 455565 5677777777777776 3444442   2357777777775 344443   


Q ss_pred             ccccCCCCCccEEEecccCCcccccc
Q 039944          216 GRGFHRFSSLRRLTISRCDEDMVSFP  241 (348)
Q Consensus       216 ~~~~~~l~~L~~L~l~~~c~~l~~~~  241 (348)
                        .+..+++|+.|++++  +.+..+|
T Consensus       232 --~~~~l~~L~~L~l~~--N~l~~l~  253 (454)
T 1jl5_A          232 --ELQNLPFLTTIYADN--NLLKTLP  253 (454)
T ss_dssp             --CCTTCTTCCEEECCS--SCCSSCC
T ss_pred             --ccCCCCCCCEEECCC--CcCCccc
Confidence              245667777777776  3455444

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.79  E-value=1.1e-17  Score=155.47  Aligned_cols=241  Identities=17%  Similarity=0.211  Sum_probs=185.8

Q ss_pred             CccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEcCC
Q 039944           30 SLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGC  109 (348)
Q Consensus        30 ~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~~  109 (348)
                      ....++.++.. ++.+|..        +.  .  +++.|+++++ .+.. ++...+         ..+++ |+.|++++|
T Consensus        44 ~~~~v~c~~~~-l~~iP~~--------~~--~--~l~~L~L~~n-~i~~-~~~~~~---------~~l~~-L~~L~Ls~n   98 (440)
T 3zyj_A           44 QFSKVICVRKN-LREVPDG--------IS--T--NTRLLNLHEN-QIQI-IKVNSF---------KHLRH-LEILQLSRN   98 (440)
T ss_dssp             TSCEEECCSCC-CSSCCSC--------CC--T--TCSEEECCSC-CCCE-ECTTTT---------SSCSS-CCEEECCSS
T ss_pred             CCCEEEeCCCC-cCcCCCC--------CC--C--CCcEEEccCC-cCCe-eCHHHh---------hCCCC-CCEEECCCC
Confidence            45677776655 7888876        22  2  8999999985 4665 554333         33466 999999988


Q ss_pred             CCcccchhhhcCCCccceecccccccccccCC-CCCCCCCccEEEEecCCCcCcccc-cccCCCCcceeEeccCCCCCcc
Q 039944          110 SKLGSIAERLDNNTSLETISIDSCGNLVSFPE-GGLPCAKLTRLTILDCKRLEALPK-GMHNLTSLQYLRIGKGGALPSL  187 (348)
Q Consensus       110 ~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~-~l~~l~~L~~L~l~~~~~~~~~  187 (348)
                      ......+..+..+++|++|++++| .+..++. .+..+++|+.|++++|. +..++. .+..+++|++|+++++..+..+
T Consensus        99 ~i~~i~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~N~-i~~~~~~~~~~l~~L~~L~l~~~~~l~~i  176 (440)
T 3zyj_A           99 HIRTIEIGAFNGLANLNTLELFDN-RLTTIPNGAFVYLSKLKELWLRNNP-IESIPSYAFNRIPSLRRLDLGELKRLSYI  176 (440)
T ss_dssp             CCCEECGGGGTTCSSCCEEECCSS-CCSSCCTTTSCSCSSCCEEECCSCC-CCEECTTTTTTCTTCCEEECCCCTTCCEE
T ss_pred             cCCccChhhccCCccCCEEECCCC-cCCeeCHhHhhccccCceeeCCCCc-ccccCHHHhhhCcccCEeCCCCCCCccee
Confidence            744444577889999999999985 6667766 56778999999999964 666664 6788999999999998777777


Q ss_pred             cc-cCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCC
Q 039944          188 EE-EDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFP  266 (348)
Q Consensus       188 ~~-~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  266 (348)
                      +. .+..+++|+.|+++++ .+..++     .+..+++|+.|++++  +.+..++..      ++..+++|+.|+++++ 
T Consensus       177 ~~~~~~~l~~L~~L~L~~n-~l~~~~-----~~~~l~~L~~L~Ls~--N~l~~~~~~------~~~~l~~L~~L~L~~n-  241 (440)
T 3zyj_A          177 SEGAFEGLSNLRYLNLAMC-NLREIP-----NLTPLIKLDELDLSG--NHLSAIRPG------SFQGLMHLQKLWMIQS-  241 (440)
T ss_dssp             CTTTTTTCSSCCEEECTTS-CCSSCC-----CCTTCSSCCEEECTT--SCCCEECTT------TTTTCTTCCEEECTTC-
T ss_pred             CcchhhcccccCeecCCCC-cCcccc-----ccCCCcccCEEECCC--CccCccChh------hhccCccCCEEECCCC-
Confidence            64 4678999999999995 566655     467889999999998  566666432      2357889999999995 


Q ss_pred             Cccccc-cccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEEEcCCc
Q 039944          267 NLERLS-SSIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELRISRCP  313 (348)
Q Consensus       267 ~l~~i~-~~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~l~~c~  313 (348)
                      .++.++ ..+..+++|+.|++++| .++.++...+  .++|+.|+++++|
T Consensus       242 ~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~Np  290 (440)
T 3zyj_A          242 QIQVIERNAFDNLQSLVEINLAHN-NLTLLPHDLFTPLHHLERIHLHHNP  290 (440)
T ss_dssp             CCCEECTTSSTTCTTCCEEECTTS-CCCCCCTTTTSSCTTCCEEECCSSC
T ss_pred             ceeEEChhhhcCCCCCCEEECCCC-CCCccChhHhccccCCCEEEcCCCC
Confidence            666554 47889999999999995 7888887544  6899999999876

>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=99.79  E-value=6.7e-19  Score=158.99  Aligned_cols=249  Identities=17%  Similarity=0.174  Sum_probs=183.3

Q ss_pred             CcccEEeecCcccccccCCCCC--CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCC
Q 039944            6 SSLEILDIEKCHSLTYIAAVQL--PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKN   83 (348)
Q Consensus         6 ~~L~~L~l~~~~~l~~l~~~~~--~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~   83 (348)
                      ++|++|+++++ .++.++...+  +++|+.|++++|. +..++..       .+..++  +|++|+++++ .++. ++..
T Consensus        52 ~~L~~L~l~~n-~i~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~-------~~~~l~--~L~~L~Ls~n-~l~~-~~~~  118 (353)
T 2z80_A           52 EAVKSLDLSNN-RITYISNSDLQRCVNLQALVLTSNG-INTIEED-------SFSSLG--SLEHLDLSYN-YLSN-LSSS  118 (353)
T ss_dssp             TTCCEEECTTS-CCCEECTTTTTTCTTCCEEECTTSC-CCEECTT-------TTTTCT--TCCEEECCSS-CCSS-CCHH
T ss_pred             ccCcEEECCCC-cCcccCHHHhccCCCCCEEECCCCc-cCccCHh-------hcCCCC--CCCEEECCCC-cCCc-CCHh
Confidence            58999999985 6788877433  8999999999997 7877655       477777  9999999985 4555 4432


Q ss_pred             CCCCCcceeEeccCCCCccEEEEcCCCCcccchh--hhcCCCccceecccccccccccC-CCCCCCCCccEEEEecCCCc
Q 039944           84 ELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAE--RLDNNTSLETISIDSCGNLVSFP-EGGLPCAKLTRLTILDCKRL  160 (348)
Q Consensus        84 ~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~--~~~~l~~L~~L~l~~~~~l~~~~-~~~~~~~~L~~L~l~~~~~l  160 (348)
                      .+         ..+++ |+.|++++|. +..++.  .+..+++|++|++++|..+..++ ..+..+++|++|++++|...
T Consensus       119 ~~---------~~l~~-L~~L~L~~n~-l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~  187 (353)
T 2z80_A          119 WF---------KPLSS-LTFLNLLGNP-YKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQ  187 (353)
T ss_dssp             HH---------TTCTT-CSEEECTTCC-CSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCC
T ss_pred             Hh---------CCCcc-CCEEECCCCC-CcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcC
Confidence            11         33466 9999999886 555654  67889999999999976676664 46777899999999997644


Q ss_pred             CcccccccCCCCcceeEeccCCCCCccccc-CCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCccc-
Q 039944          161 EALPKGMHNLTSLQYLRIGKGGALPSLEEE-DGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMV-  238 (348)
Q Consensus       161 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~-~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~-  238 (348)
                      ...|..+..+++|++|+++++. +..++.. ...+++|+.|+++++. +.......-........++.+++.+ + .+. 
T Consensus       188 ~~~~~~l~~l~~L~~L~l~~n~-l~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~~~l~~~~~~~~l~~l~L~~-~-~l~~  263 (353)
T 2z80_A          188 SYEPKSLKSIQNVSHLILHMKQ-HILLLEIFVDVTSSVECLELRDTD-LDTFHFSELSTGETNSLIKKFTFRN-V-KITD  263 (353)
T ss_dssp             EECTTTTTTCSEEEEEEEECSC-STTHHHHHHHHTTTEEEEEEESCB-CTTCCCC------CCCCCCEEEEES-C-BCCH
T ss_pred             ccCHHHHhccccCCeecCCCCc-cccchhhhhhhcccccEEECCCCc-cccccccccccccccchhhcccccc-c-cccC
Confidence            4446788899999999999874 5666533 3457899999999964 4433211001123456778888876 2 332 


Q ss_pred             ----ccccchhccCCCCCCCCCccEEEeccCCCcccccccc-ccCCCcceEeccCCC
Q 039944          239 ----SFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSI-VDLQNLTELYLFGCP  290 (348)
Q Consensus       239 ----~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~-~~~~~L~~L~l~~c~  290 (348)
                          .+|...       ..+++|++|++++ +.++.+|..+ ..+++|++|++++|+
T Consensus       264 ~~l~~l~~~l-------~~l~~L~~L~Ls~-N~l~~i~~~~~~~l~~L~~L~L~~N~  312 (353)
T 2z80_A          264 ESLFQVMKLL-------NQISGLLELEFSR-NQLKSVPDGIFDRLTSLQKIWLHTNP  312 (353)
T ss_dssp             HHHHHHHHHH-------HTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             cchhhhHHHH-------hcccCCCEEECCC-CCCCccCHHHHhcCCCCCEEEeeCCC
Confidence                345444       4678999999999 4788898864 899999999999975

>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=99.79  E-value=2.4e-17  Score=158.60  Aligned_cols=246  Identities=26%  Similarity=0.360  Sum_probs=161.4

Q ss_pred             cccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCC
Q 039944            7 SLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELP   86 (348)
Q Consensus         7 ~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~   86 (348)
                      +++.|++++ +.++++|... +++|+.|++++|. ++.+|..           +.  +|++|+++++ .++. +|.  .+
T Consensus        41 ~l~~L~ls~-n~L~~lp~~l-~~~L~~L~L~~N~-l~~lp~~-----------l~--~L~~L~Ls~N-~l~~-lp~--~l  100 (622)
T 3g06_A           41 GNAVLNVGE-SGLTTLPDCL-PAHITTLVIPDNN-LTSLPAL-----------PP--ELRTLEVSGN-QLTS-LPV--LP  100 (622)
T ss_dssp             CCCEEECCS-SCCSCCCSCC-CTTCSEEEECSCC-CSCCCCC-----------CT--TCCEEEECSC-CCSC-CCC--CC
T ss_pred             CCcEEEecC-CCcCccChhh-CCCCcEEEecCCC-CCCCCCc-----------CC--CCCEEEcCCC-cCCc-CCC--CC
Confidence            477888876 4677777543 4788888888886 6766642           23  7888888875 3555 665  44


Q ss_pred             CCcceeEec--------cCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCC
Q 039944           87 ATLESLEVG--------NLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCK  158 (348)
Q Consensus        87 ~~L~~L~i~--------~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~  158 (348)
                      ++|++|.+.        ..+.+|+.|++++|. +..+|..   +++|++|++++| .+..+|..   +++|+.|++++| 
T Consensus       101 ~~L~~L~Ls~N~l~~l~~~l~~L~~L~L~~N~-l~~lp~~---l~~L~~L~Ls~N-~l~~l~~~---~~~L~~L~L~~N-  171 (622)
T 3g06_A          101 PGLLELSIFSNPLTHLPALPSGLCKLWIFGNQ-LTSLPVL---PPGLQELSVSDN-QLASLPAL---PSELCKLWAYNN-  171 (622)
T ss_dssp             TTCCEEEECSCCCCCCCCCCTTCCEEECCSSC-CSCCCCC---CTTCCEEECCSS-CCSCCCCC---CTTCCEEECCSS-
T ss_pred             CCCCEEECcCCcCCCCCCCCCCcCEEECCCCC-CCcCCCC---CCCCCEEECcCC-cCCCcCCc---cCCCCEEECCCC-
Confidence            555555551        112247777777664 4445432   467777777764 45555542   346777777774 


Q ss_pred             CcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCccc
Q 039944          159 RLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMV  238 (348)
Q Consensus       159 ~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~  238 (348)
                      .+..+|   ..+++|+.|++++| .+..+|.   .+++|+.|++.+| .+..++       ..+++|+.|++++  +.+.
T Consensus       172 ~l~~l~---~~~~~L~~L~Ls~N-~l~~l~~---~~~~L~~L~L~~N-~l~~l~-------~~~~~L~~L~Ls~--N~L~  234 (622)
T 3g06_A          172 QLTSLP---MLPSGLQELSVSDN-QLASLPT---LPSELYKLWAYNN-RLTSLP-------ALPSGLKELIVSG--NRLT  234 (622)
T ss_dssp             CCSCCC---CCCTTCCEEECCSS-CCSCCCC---CCTTCCEEECCSS-CCSSCC-------CCCTTCCEEECCS--SCCS
T ss_pred             CCCCCc---ccCCCCcEEECCCC-CCCCCCC---ccchhhEEECcCC-cccccC-------CCCCCCCEEEccC--CccC
Confidence            455565   34577888888876 4555552   3577888888774 444443       2347788888887  4666


Q ss_pred             ccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCC-CCCCCCcEEEEcCCc
Q 039944          239 SFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEK-GLPSSLLELRISRCP  313 (348)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~-~~~~~L~~L~l~~c~  313 (348)
                      .+|.          .+++|+.|++++ +.++.+|.   .+++|+.|++++| .++.+|.. .-.++|+.|++++|+
T Consensus       235 ~lp~----------~l~~L~~L~Ls~-N~L~~lp~---~~~~L~~L~Ls~N-~L~~lp~~l~~l~~L~~L~L~~N~  295 (622)
T 3g06_A          235 SLPV----------LPSELKELMVSG-NRLTSLPM---LPSGLLSLSVYRN-QLTRLPESLIHLSSETTVNLEGNP  295 (622)
T ss_dssp             CCCC----------CCTTCCEEECCS-SCCSCCCC---CCTTCCEEECCSS-CCCSCCGGGGGSCTTCEEECCSCC
T ss_pred             cCCC----------CCCcCcEEECCC-CCCCcCCc---ccccCcEEeCCCC-CCCcCCHHHhhccccCEEEecCCC
Confidence            6663          457888888888 46777775   5678888888885 67777752 126788888888886

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=99.79  E-value=1.2e-17  Score=155.77  Aligned_cols=239  Identities=19%  Similarity=0.188  Sum_probs=183.4

Q ss_pred             ccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEcCCC
Q 039944           31 LKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCS  110 (348)
Q Consensus        31 L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~~~  110 (348)
                      ...++.++.. +..+|..        +    +++++.|+++++ .+.. ++...+         ..++. |+.|++++|.
T Consensus        56 ~~~v~c~~~~-l~~iP~~--------~----~~~l~~L~L~~n-~i~~-~~~~~~---------~~l~~-L~~L~Ls~n~  110 (452)
T 3zyi_A           56 FSKVVCTRRG-LSEVPQG--------I----PSNTRYLNLMEN-NIQM-IQADTF---------RHLHH-LEVLQLGRNS  110 (452)
T ss_dssp             SCEEECCSSC-CSSCCSC--------C----CTTCSEEECCSS-CCCE-ECTTTT---------TTCTT-CCEEECCSSC
T ss_pred             CcEEEECCCC-cCccCCC--------C----CCCccEEECcCC-cCce-ECHHHc---------CCCCC-CCEEECCCCc
Confidence            4566666654 7777765        2    238999999885 4665 544333         34476 9999999886


Q ss_pred             CcccchhhhcCCCccceecccccccccccCCC-CCCCCCccEEEEecCCCcCcccc-cccCCCCcceeEeccCCCCCccc
Q 039944          111 KLGSIAERLDNNTSLETISIDSCGNLVSFPEG-GLPCAKLTRLTILDCKRLEALPK-GMHNLTSLQYLRIGKGGALPSLE  188 (348)
Q Consensus       111 ~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~-~~~~~~L~~L~l~~~~~l~~~~~-~l~~l~~L~~L~l~~~~~~~~~~  188 (348)
                      .....+..+..+++|++|++++| .+..++.. +..+++|++|++++|. +..+|. .+..+++|++|++++|..+..++
T Consensus       111 i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~  188 (452)
T 3zyi_A          111 IRQIEVGAFNGLASLNTLELFDN-WLTVIPSGAFEYLSKLRELWLRNNP-IESIPSYAFNRVPSLMRLDLGELKKLEYIS  188 (452)
T ss_dssp             CCEECTTTTTTCTTCCEEECCSS-CCSBCCTTTSSSCTTCCEEECCSCC-CCEECTTTTTTCTTCCEEECCCCTTCCEEC
T ss_pred             cCCcChhhccCcccCCEEECCCC-cCCccChhhhcccCCCCEEECCCCC-cceeCHhHHhcCCcccEEeCCCCCCccccC
Confidence            44444577889999999999985 56666664 6678999999999964 666664 57889999999999987888776


Q ss_pred             c-cCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCccccccc-chhccCCCCCCCCCccEEEeccCC
Q 039944          189 E-EDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPL-EDKRLGTALPLPASLTSLWIEAFP  266 (348)
Q Consensus       189 ~-~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~-~~~~~~~~~~~~~~L~~L~l~~~~  266 (348)
                      . .+..+++|+.|+++++ .+..++     .+..+++|+.|++++  +.+..++. ..       ..+++|+.|+++++ 
T Consensus       189 ~~~~~~l~~L~~L~L~~n-~l~~~~-----~~~~l~~L~~L~Ls~--N~l~~~~~~~~-------~~l~~L~~L~L~~n-  252 (452)
T 3zyi_A          189 EGAFEGLFNLKYLNLGMC-NIKDMP-----NLTPLVGLEELEMSG--NHFPEIRPGSF-------HGLSSLKKLWVMNS-  252 (452)
T ss_dssp             TTTTTTCTTCCEEECTTS-CCSSCC-----CCTTCTTCCEEECTT--SCCSEECGGGG-------TTCTTCCEEECTTS-
T ss_pred             hhhccCCCCCCEEECCCC-cccccc-----cccccccccEEECcC--CcCcccCcccc-------cCccCCCEEEeCCC-
Confidence            4 3678899999999995 456554     467889999999998  56666543 33       57889999999995 


Q ss_pred             Ccccc-ccccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEEEcCCc
Q 039944          267 NLERL-SSSIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELRISRCP  313 (348)
Q Consensus       267 ~l~~i-~~~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~l~~c~  313 (348)
                      .+..+ +..+..+++|+.|++++| .++.++...+  .++|++|++++++
T Consensus       253 ~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~Np  301 (452)
T 3zyi_A          253 QVSLIERNAFDGLASLVELNLAHN-NLSSLPHDLFTPLRYLVELHLHHNP  301 (452)
T ss_dssp             CCCEECTTTTTTCTTCCEEECCSS-CCSCCCTTSSTTCTTCCEEECCSSC
T ss_pred             cCceECHHHhcCCCCCCEEECCCC-cCCccChHHhccccCCCEEEccCCC
Confidence            56555 557889999999999995 7888887544  6899999999886

>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=99.79  E-value=6.3e-17  Score=150.79  Aligned_cols=219  Identities=25%  Similarity=0.290  Sum_probs=123.7

Q ss_pred             ccceeeeeCCCCccccccCCCCCCCcceeEec--------cCCCCccEEEEcCCCCcccchhhhcCCCccceeccccccc
Q 039944           64 LLEHLEIISCPSLTCIFSKNELPATLESLEVG--------NLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGN  135 (348)
Q Consensus        64 ~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~--------~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~  135 (348)
                      +|++|+++++ .++. +|.....++|++|.+.        ..+.+|+.|++++|. +..++ .+..+++|++|++++| .
T Consensus       132 ~L~~L~L~~n-~l~~-lp~~~~l~~L~~L~l~~N~l~~lp~~~~~L~~L~L~~n~-l~~l~-~~~~l~~L~~L~l~~N-~  206 (454)
T 1jl5_A          132 LLEYLGVSNN-QLEK-LPELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQ-LEELP-ELQNLPFLTAIYADNN-S  206 (454)
T ss_dssp             TCCEEECCSS-CCSS-CCCCTTCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSC-CSSCC-CCTTCTTCCEEECCSS-C
T ss_pred             CCCEEECcCC-CCCC-CcccCCCCCCCEEECCCCcCcccCCCcccccEEECcCCc-CCcCc-cccCCCCCCEEECCCC-c
Confidence            6777777664 3555 5544444566666651        112247777777764 44455 4677777888877774 4


Q ss_pred             ccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhcc
Q 039944          136 LVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIER  215 (348)
Q Consensus       136 l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~  215 (348)
                      +..+|...   ++|+.|++++| .+..+| .+..+++|++|++++| .+..+|.   .+++|+.|+++++ .+..++   
T Consensus       207 l~~l~~~~---~~L~~L~l~~n-~l~~lp-~~~~l~~L~~L~l~~N-~l~~l~~---~~~~L~~L~l~~N-~l~~l~---  273 (454)
T 1jl5_A          207 LKKLPDLP---LSLESIVAGNN-ILEELP-ELQNLPFLTTIYADNN-LLKTLPD---LPPSLEALNVRDN-YLTDLP---  273 (454)
T ss_dssp             CSSCCCCC---TTCCEEECCSS-CCSSCC-CCTTCTTCCEEECCSS-CCSSCCS---CCTTCCEEECCSS-CCSCCC---
T ss_pred             CCcCCCCc---CcccEEECcCC-cCCccc-ccCCCCCCCEEECCCC-cCCcccc---cccccCEEECCCC-cccccC---
Confidence            44455432   46777777775 455666 4677778888888776 4555552   2467777777764 344333   


Q ss_pred             ccccCCCCCccEEEecccCCcccccccc---h-------hccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEe
Q 039944          216 GRGFHRFSSLRRLTISRCDEDMVSFPLE---D-------KRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELY  285 (348)
Q Consensus       216 ~~~~~~l~~L~~L~l~~~c~~l~~~~~~---~-------~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~  285 (348)
                          ..+++|+.|++++  +.+..++..   .       ..+.+-...+++|++|++++ +.++.+|..   +++|+.|+
T Consensus       274 ----~~~~~L~~L~ls~--N~l~~l~~~~~~L~~L~l~~N~l~~i~~~~~~L~~L~Ls~-N~l~~lp~~---~~~L~~L~  343 (454)
T 1jl5_A          274 ----ELPQSLTFLDVSE--NIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSN-NKLIELPAL---PPRLERLI  343 (454)
T ss_dssp             ----CCCTTCCEEECCS--SCCSEESCCCTTCCEEECCSSCCSEECCCCTTCCEEECCS-SCCSCCCCC---CTTCCEEE
T ss_pred             ----cccCcCCEEECcC--CccCcccCcCCcCCEEECcCCcCCcccCCcCcCCEEECCC-Ccccccccc---CCcCCEEE
Confidence                1235666666665  233333210   0       00000001234566666666 345555533   46677777


Q ss_pred             ccCCCCCCCCCCCCCCCCCcEEEEcCCc
Q 039944          286 LFGCPKLKYFPEKGLPSSLLELRISRCP  313 (348)
Q Consensus       286 l~~c~~l~~l~~~~~~~~L~~L~l~~c~  313 (348)
                      +++| .++.+|.  .+++|++|++++|.
T Consensus       344 L~~N-~l~~lp~--~l~~L~~L~L~~N~  368 (454)
T 1jl5_A          344 ASFN-HLAEVPE--LPQNLKQLHVEYNP  368 (454)
T ss_dssp             CCSS-CCSCCCC--CCTTCCEEECCSSC
T ss_pred             CCCC-ccccccc--hhhhccEEECCCCC
Confidence            7764 5666665  45677777777664

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=99.78  E-value=7.4e-18  Score=149.04  Aligned_cols=223  Identities=19%  Similarity=0.127  Sum_probs=151.7

Q ss_pred             CccEEEEcCCCCcccchh-hhcCCCccceeccccccccccc---CCCCCCCCCccEEEEecCCCcCcccccccCCCCcce
Q 039944          100 SLKSLFVYGCSKLGSIAE-RLDNNTSLETISIDSCGNLVSF---PEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQY  175 (348)
Q Consensus       100 ~L~~L~l~~~~~~~~~~~-~~~~l~~L~~L~l~~~~~l~~~---~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~  175 (348)
                      +++.|+++++. +..++. .+..+++|++|++++| .+..+   +.....+++|++|++++| .+..+|..+..+++|++
T Consensus        29 ~l~~L~L~~n~-l~~i~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~~~~~~L~~L~Ls~n-~i~~l~~~~~~l~~L~~  105 (306)
T 2z66_A           29 SATRLELESNK-LQSLPHGVFDKLTQLTKLSLSSN-GLSFKGCCSQSDFGTTSLKYLDLSFN-GVITMSSNFLGLEQLEH  105 (306)
T ss_dssp             TCCEEECCSSC-CCCCCTTTTTTCTTCSEEECCSS-CCCEEEEEEHHHHSCSCCCEEECCSC-SEEEEEEEEETCTTCCE
T ss_pred             CCCEEECCCCc-cCccCHhHhhccccCCEEECCCC-ccCcccCcccccccccccCEEECCCC-ccccChhhcCCCCCCCE
Confidence            36666776655 344443 3566777777777664 23222   233334567778887775 35566666777888888


Q ss_pred             eEeccCCCCCcccc--cCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccc--cccchhccCCCC
Q 039944          176 LRIGKGGALPSLEE--EDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVS--FPLEDKRLGTAL  251 (348)
Q Consensus       176 L~l~~~~~~~~~~~--~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~--~~~~~~~~~~~~  251 (348)
                      |+++++ .+..++.  .+..+++|+.|+++++. +.....   ..+..+++|+.|++++  +.+..  ++...       
T Consensus       106 L~l~~n-~l~~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~---~~~~~l~~L~~L~l~~--n~l~~~~~~~~~-------  171 (306)
T 2z66_A          106 LDFQHS-NLKQMSEFSVFLSLRNLIYLDISHTH-TRVAFN---GIFNGLSSLEVLKMAG--NSFQENFLPDIF-------  171 (306)
T ss_dssp             EECTTS-EEESSTTTTTTTTCTTCCEEECTTSC-CEECST---TTTTTCTTCCEEECTT--CEEGGGEECSCC-------
T ss_pred             EECCCC-cccccccchhhhhccCCCEEECCCCc-CCccch---hhcccCcCCCEEECCC--CccccccchhHH-------
Confidence            888876 4444442  56778899999998864 333322   2567899999999998  45543  45544       


Q ss_pred             CCCCCccEEEeccCCCcccc-ccccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEEEcCCchhHHHhhccCCcccc
Q 039944          252 PLPASLTSLWIEAFPNLERL-SSSIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELRISRCPLIAEKCRKDGGQYWD  328 (348)
Q Consensus       252 ~~~~~L~~L~l~~~~~l~~i-~~~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~l~~c~~l~~~~~~~~~~~~~  328 (348)
                      ..+++|++|+++++ .++.+ +..+..+++|+.|++++| .++.++...+  .++|++|++++|....     .....+.
T Consensus       172 ~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N~l~~-----~~~~~~~  244 (306)
T 2z66_A          172 TELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMSHN-NFFSLDTFPYKCLNSLQVLDYSLNHIMT-----SKKQELQ  244 (306)
T ss_dssp             TTCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECTTS-CCSBCCSGGGTTCTTCCEEECTTSCCCB-----CSSSSCC
T ss_pred             hhCcCCCEEECCCC-CcCCcCHHHhcCCCCCCEEECCCC-ccCccChhhccCcccCCEeECCCCCCcc-----cCHHHHH
Confidence            57889999999995 56655 568889999999999995 5776665333  6899999999985321     2222334


Q ss_pred             CC-CCcCEEEecceeeccC
Q 039944          329 LL-THIPRVEIDWKSVFGD  346 (348)
Q Consensus       329 ~i-~~~~~~~~~~~~~~~~  346 (348)
                      .+ .++..+.+.++.+.|+
T Consensus       245 ~~~~~L~~L~L~~N~~~~~  263 (306)
T 2z66_A          245 HFPSSLAFLNLTQNDFACT  263 (306)
T ss_dssp             CCCTTCCEEECTTCCEECS
T ss_pred             hhhccCCEEEccCCCeecc
Confidence            44 4788899999888775

>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=99.78  E-value=4.5e-18  Score=144.98  Aligned_cols=201  Identities=15%  Similarity=0.139  Sum_probs=157.2

Q ss_pred             CCCccEEEEcCCCCcccch-hhhcCCCccceecccccccccccCC-CCCCCCCccEEEEecCCCcCcccc-cccCCCCcc
Q 039944           98 PLSLKSLFVYGCSKLGSIA-ERLDNNTSLETISIDSCGNLVSFPE-GGLPCAKLTRLTILDCKRLEALPK-GMHNLTSLQ  174 (348)
Q Consensus        98 ~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~l~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~-~l~~l~~L~  174 (348)
                      |.+++.|+++++. ++.++ ..+..+++|++|++++|..+..++. .+..+++|++|++++|+.++.+++ .+..+++|+
T Consensus        30 ~~~l~~L~l~~n~-l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~  108 (239)
T 2xwt_C           30 PPSTQTLKLIETH-LRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLK  108 (239)
T ss_dssp             CTTCCEEEEESCC-CSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTCC
T ss_pred             CCcccEEEEeCCc-ceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCC
Confidence            4458999999876 55554 4678899999999998655777776 556788999999998566777764 568899999


Q ss_pred             eeEeccCCCCCcccccCCCCCCcC---eeeecCCccchhhhhccccccCCCCCcc-EEEecccCCcccccccchhccCCC
Q 039944          175 YLRIGKGGALPSLEEEDGLPTNLQ---SLDIWGNMEIWKSMIERGRGFHRFSSLR-RLTISRCDEDMVSFPLEDKRLGTA  250 (348)
Q Consensus       175 ~L~l~~~~~~~~~~~~~~~~~~L~---~L~l~~~~~l~~~~~~~~~~~~~l~~L~-~L~l~~~c~~l~~~~~~~~~~~~~  250 (348)
                      +|++++| .+..+| .++.+++|+   .|+++++..+..++..   .+..+++|+ .|++++  +.+..++...      
T Consensus       109 ~L~l~~n-~l~~lp-~~~~l~~L~~L~~L~l~~N~~l~~i~~~---~~~~l~~L~~~L~l~~--n~l~~i~~~~------  175 (239)
T 2xwt_C          109 FLGIFNT-GLKMFP-DLTKVYSTDIFFILEITDNPYMTSIPVN---AFQGLCNETLTLKLYN--NGFTSVQGYA------  175 (239)
T ss_dssp             EEEEEEE-CCCSCC-CCTTCCBCCSEEEEEEESCTTCCEECTT---TTTTTBSSEEEEECCS--CCCCEECTTT------
T ss_pred             EEeCCCC-CCcccc-ccccccccccccEEECCCCcchhhcCcc---cccchhcceeEEEcCC--CCCcccCHhh------
Confidence            9999987 567788 478888888   9999997567766642   578899999 999998  5777777654      


Q ss_pred             CCCCCCccEEEeccCCCcccccc-ccccC-CCcceEeccCCCCCCCCCCCCCCCCCcEEEEcCCchh
Q 039944          251 LPLPASLTSLWIEAFPNLERLSS-SIVDL-QNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLI  315 (348)
Q Consensus       251 ~~~~~~L~~L~l~~~~~l~~i~~-~~~~~-~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~c~~l  315 (348)
                       ...++|++|+++++..++.++. .+..+ ++|+.|++++ +.++.+|.. .+++|+.|++++++.|
T Consensus       176 -~~~~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~~-N~l~~l~~~-~~~~L~~L~l~~~~~l  239 (239)
T 2xwt_C          176 -FNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQ-TSVTALPSK-GLEHLKELIARNTWTL  239 (239)
T ss_dssp             -TTTCEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECTT-CCCCCCCCT-TCTTCSEEECTTC---
T ss_pred             -cCCCCCCEEEcCCCCCcccCCHHHhhccccCCcEEECCC-CccccCChh-HhccCceeeccCccCC
Confidence             1336899999999645887765 57888 9999999999 578888875 5689999999998754

>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=99.77  E-value=1.1e-17  Score=142.58  Aligned_cols=196  Identities=17%  Similarity=0.220  Sum_probs=118.8

Q ss_pred             cccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEec
Q 039944           16 CHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVG   95 (348)
Q Consensus        16 ~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~   95 (348)
                      |..++++|.  +.++|+.|+++++. ++.++..       .+..++  +|++|+++++..++. ++...+         .
T Consensus        20 c~~l~~ip~--~~~~l~~L~l~~n~-l~~i~~~-------~~~~l~--~L~~L~l~~n~~l~~-i~~~~f---------~   77 (239)
T 2xwt_C           20 CKDIQRIPS--LPPSTQTLKLIETH-LRTIPSH-------AFSNLP--NISRIYVSIDVTLQQ-LESHSF---------Y   77 (239)
T ss_dssp             ECSCSSCCC--CCTTCCEEEEESCC-CSEECTT-------TTTTCT--TCCEEEEECCSSCCE-ECTTTE---------E
T ss_pred             ccCccccCC--CCCcccEEEEeCCc-ceEECHH-------HccCCC--CCcEEeCCCCCCcce-eCHhHc---------C
Confidence            555777776  56788888888887 7777765       466766  888888887644655 554332         3


Q ss_pred             cCCCCccEEEEcCCCCcccch-hhhcCCCccceecccccccccccCCCCCCCCCcc---EEEEecCCCcCcccc-cccCC
Q 039944           96 NLPLSLKSLFVYGCSKLGSIA-ERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLT---RLTILDCKRLEALPK-GMHNL  170 (348)
Q Consensus        96 ~l~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~---~L~l~~~~~l~~~~~-~l~~l  170 (348)
                      .+++ |+.|++++|..+..++ ..+..+++|++|++++| .+..+|. +..+++|+   .|++++|..++.+|+ .+..+
T Consensus        78 ~l~~-L~~L~l~~~n~l~~i~~~~f~~l~~L~~L~l~~n-~l~~lp~-~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l  154 (239)
T 2xwt_C           78 NLSK-VTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNT-GLKMFPD-LTKVYSTDIFFILEITDNPYMTSIPVNAFQGL  154 (239)
T ss_dssp             SCTT-CCEEEEEEETTCCEECTTSEECCTTCCEEEEEEE-CCCSCCC-CTTCCBCCSEEEEEEESCTTCCEECTTTTTTT
T ss_pred             CCcC-CcEEECCCCCCeeEcCHHHhCCCCCCCEEeCCCC-CCccccc-cccccccccccEEECCCCcchhhcCcccccch
Confidence            3465 8888888744455554 45667788888888774 4555665 55566666   777777645666654 35667


Q ss_pred             CCcc-eeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCC-CCccEEEecccCCccccccc
Q 039944          171 TSLQ-YLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRF-SSLRRLTISRCDEDMVSFPL  242 (348)
Q Consensus       171 ~~L~-~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l-~~L~~L~l~~~c~~l~~~~~  242 (348)
                      ++|+ +|+++++ .+..+|......++|+.|++.++..++.++..   .+..+ ++|+.|++++  +.+..+|.
T Consensus       155 ~~L~~~L~l~~n-~l~~i~~~~~~~~~L~~L~L~~n~~l~~i~~~---~~~~l~~~L~~L~l~~--N~l~~l~~  222 (239)
T 2xwt_C          155 CNETLTLKLYNN-GFTSVQGYAFNGTKLDAVYLNKNKYLTVIDKD---AFGGVYSGPSLLDVSQ--TSVTALPS  222 (239)
T ss_dssp             BSSEEEEECCSC-CCCEECTTTTTTCEEEEEECTTCTTCCEECTT---TTTTCSBCCSEEECTT--CCCCCCCC
T ss_pred             hcceeEEEcCCC-CCcccCHhhcCCCCCCEEEcCCCCCcccCCHH---HhhccccCCcEEECCC--CccccCCh
Confidence            7777 7777665 34455433222345555555554334333321   34444 5555555554  34444443

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=99.77  E-value=4.2e-18  Score=149.08  Aligned_cols=221  Identities=21%  Similarity=0.248  Sum_probs=165.0

Q ss_pred             cEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCC
Q 039944            9 EILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPAT   88 (348)
Q Consensus         9 ~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~   88 (348)
                      +.++.++ ..++.+|. ..+++|++|+++++. +..++..       .+..++  +|++|+++++ .+.. +....+   
T Consensus        14 ~~~~c~~-~~l~~ip~-~~~~~l~~L~l~~n~-i~~~~~~-------~~~~~~--~L~~L~l~~n-~l~~-~~~~~~---   76 (285)
T 1ozn_A           14 VTTSCPQ-QGLQAVPV-GIPAASQRIFLHGNR-ISHVPAA-------SFRACR--NLTILWLHSN-VLAR-IDAAAF---   76 (285)
T ss_dssp             CEEECCS-SCCSSCCT-TCCTTCSEEECTTSC-CCEECTT-------TTTTCT--TCCEEECCSS-CCCE-ECTTTT---
T ss_pred             eEEEcCc-CCcccCCc-CCCCCceEEEeeCCc-CCccCHH-------HcccCC--CCCEEECCCC-ccce-eCHhhc---
Confidence            4566665 56777774 347899999999997 7888765       477777  9999999985 4655 433222   


Q ss_pred             cceeEeccCCCCccEEEEcCCCCcccc-hhhhcCCCccceeccccccccccc-CCCCCCCCCccEEEEecCCCcCcccc-
Q 039944           89 LESLEVGNLPLSLKSLFVYGCSKLGSI-AERLDNNTSLETISIDSCGNLVSF-PEGGLPCAKLTRLTILDCKRLEALPK-  165 (348)
Q Consensus        89 L~~L~i~~l~~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~~~l~~~-~~~~~~~~~L~~L~l~~~~~l~~~~~-  165 (348)
                            ..++. |+.|++++|..+..+ +..+..+++|++|++++|. +..+ +..+..+++|++|++++|. +..++. 
T Consensus        77 ------~~l~~-L~~L~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~  147 (285)
T 1ozn_A           77 ------TGLAL-LEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCG-LQELGPGLFRGLAALQYLYLQDNA-LQALPDD  147 (285)
T ss_dssp             ------TTCTT-CCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECCSSC-CCCCCTT
T ss_pred             ------CCccC-CCEEeCCCCCCccccCHHHhcCCcCCCEEECCCCc-CCEECHhHhhCCcCCCEEECCCCc-ccccCHh
Confidence                  33466 999999988756665 6778889999999999854 4444 5566778999999999964 555654 


Q ss_pred             cccCCCCcceeEeccCCCCCcccc-cCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccch
Q 039944          166 GMHNLTSLQYLRIGKGGALPSLEE-EDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLED  244 (348)
Q Consensus       166 ~l~~l~~L~~L~l~~~~~~~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~  244 (348)
                      .+..+++|++|++++| .+..++. .+..+++|+.|+++++. +.....   ..+..+++|+.|++++  +.+..++...
T Consensus       148 ~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~---~~~~~l~~L~~L~l~~--n~l~~~~~~~  220 (285)
T 1ozn_A          148 TFRDLGNLTHLFLHGN-RISSVPERAFRGLHSLDRLLLHQNR-VAHVHP---HAFRDLGRLMTLYLFA--NNLSALPTEA  220 (285)
T ss_dssp             TTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSC-CCEECT---TTTTTCTTCCEEECCS--SCCSCCCHHH
T ss_pred             HhccCCCccEEECCCC-cccccCHHHhcCccccCEEECCCCc-ccccCH---hHccCcccccEeeCCC--CcCCcCCHHH
Confidence            4788999999999987 5666664 37788999999999964 444422   3577889999999998  5677666532


Q ss_pred             hccCCCCCCCCCccEEEeccCCCc
Q 039944          245 KRLGTALPLPASLTSLWIEAFPNL  268 (348)
Q Consensus       245 ~~~~~~~~~~~~L~~L~l~~~~~l  268 (348)
                            +..+++|++|++++++..
T Consensus       221 ------~~~l~~L~~L~l~~N~~~  238 (285)
T 1ozn_A          221 ------LAPLRALQYLRLNDNPWV  238 (285)
T ss_dssp             ------HTTCTTCCEEECCSSCEE
T ss_pred             ------cccCcccCEEeccCCCcc
Confidence                  146789999999986433

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.77  E-value=1.3e-19  Score=161.25  Aligned_cols=152  Identities=9%  Similarity=0.061  Sum_probs=62.9

Q ss_pred             CCccceeccccccccccc-CCCCCCCCCccEEEEecCCCcCcc-cccc-cCCCCcceeEeccCCCCCcccccCCCCCCcC
Q 039944          122 NTSLETISIDSCGNLVSF-PEGGLPCAKLTRLTILDCKRLEAL-PKGM-HNLTSLQYLRIGKGGALPSLEEEDGLPTNLQ  198 (348)
Q Consensus       122 l~~L~~L~l~~~~~l~~~-~~~~~~~~~L~~L~l~~~~~l~~~-~~~l-~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~  198 (348)
                      +++|++|++++| .+..+ +..+..+++|+.|++++|. +..+ +..+ ..+++|++|++++| .+..++ ....+++|+
T Consensus       119 ~~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~~l~~L~~L~L~~N-~l~~~~-~~~~l~~L~  194 (317)
T 3o53_A          119 GQGKKNIYLANN-KITMLRDLDEGCRSRVQYLDLKLNE-IDTVNFAELAASSDTLEHLNLQYN-FIYDVK-GQVVFAKLK  194 (317)
T ss_dssp             CSSCEEEECCSS-CCCSGGGBCTGGGSSEEEEECTTSC-CCEEEGGGGGGGTTTCCEEECTTS-CCCEEE-CCCCCTTCC
T ss_pred             cCCCCEEECCCC-CCCCccchhhhccCCCCEEECCCCC-CCcccHHHHhhccCcCCEEECCCC-cCcccc-cccccccCC
Confidence            344555555443 22222 2233334455555555432 2222 2222 23445555555544 233333 223344555


Q ss_pred             eeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCc-ccccccccc
Q 039944          199 SLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNL-ERLSSSIVD  277 (348)
Q Consensus       199 ~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l-~~i~~~~~~  277 (348)
                      .|+++++ .+..++.    .+..+++|+.|++++  +.+..+|...       ..+++|+.|++++++.. ..++..+..
T Consensus       195 ~L~Ls~N-~l~~l~~----~~~~l~~L~~L~L~~--N~l~~l~~~~-------~~l~~L~~L~l~~N~~~~~~~~~~~~~  260 (317)
T 3o53_A          195 TLDLSSN-KLAFMGP----EFQSAAGVTWISLRN--NKLVLIEKAL-------RFSQNLEHFDLRGNGFHCGTLRDFFSK  260 (317)
T ss_dssp             EEECCSS-CCCEECG----GGGGGTTCSEEECTT--SCCCEECTTC-------CCCTTCCEEECTTCCCBHHHHHHHHHT
T ss_pred             EEECCCC-cCCcchh----hhcccCcccEEECcC--CcccchhhHh-------hcCCCCCEEEccCCCccCcCHHHHHhc
Confidence            5555543 2333321    233444555555554  3444444332       23444555555543222 133334444


Q ss_pred             CCCcceEeccCCCC
Q 039944          278 LQNLTELYLFGCPK  291 (348)
Q Consensus       278 ~~~L~~L~l~~c~~  291 (348)
                      ++.|+.+++.+++.
T Consensus       261 ~~~L~~l~l~~~~~  274 (317)
T 3o53_A          261 NQRVQTVAKQTVKK  274 (317)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             cccceEEECCCchh
Confidence            44555555444333

>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=99.77  E-value=5.3e-17  Score=156.24  Aligned_cols=226  Identities=30%  Similarity=0.360  Sum_probs=179.2

Q ss_pred             CcccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCC
Q 039944            6 SSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNEL   85 (348)
Q Consensus         6 ~~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~   85 (348)
                      ++|+.|+++++ .++.+|.  .+++|++|++++|. ++.+|..             +++|++|+++++ .+.. ++.  .
T Consensus        61 ~~L~~L~L~~N-~l~~lp~--~l~~L~~L~Ls~N~-l~~lp~~-------------l~~L~~L~Ls~N-~l~~-l~~--~  119 (622)
T 3g06_A           61 AHITTLVIPDN-NLTSLPA--LPPELRTLEVSGNQ-LTSLPVL-------------PPGLLELSIFSN-PLTH-LPA--L  119 (622)
T ss_dssp             TTCSEEEECSC-CCSCCCC--CCTTCCEEEECSCC-CSCCCCC-------------CTTCCEEEECSC-CCCC-CCC--C
T ss_pred             CCCcEEEecCC-CCCCCCC--cCCCCCEEEcCCCc-CCcCCCC-------------CCCCCEEECcCC-cCCC-CCC--C
Confidence            68999999985 6888887  58999999999997 7877753             338999999885 5666 666  6


Q ss_pred             CCCcceeEec---------cCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEec
Q 039944           86 PATLESLEVG---------NLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILD  156 (348)
Q Consensus        86 ~~~L~~L~i~---------~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~  156 (348)
                      +++|+.|.+.         .+++ |+.|++++|. +..++.   .+++|+.|++++ +.+..+|   ..+++|+.|++++
T Consensus       120 l~~L~~L~L~~N~l~~lp~~l~~-L~~L~Ls~N~-l~~l~~---~~~~L~~L~L~~-N~l~~l~---~~~~~L~~L~Ls~  190 (622)
T 3g06_A          120 PSGLCKLWIFGNQLTSLPVLPPG-LQELSVSDNQ-LASLPA---LPSELCKLWAYN-NQLTSLP---MLPSGLQELSVSD  190 (622)
T ss_dssp             CTTCCEEECCSSCCSCCCCCCTT-CCEEECCSSC-CSCCCC---CCTTCCEEECCS-SCCSCCC---CCCTTCCEEECCS
T ss_pred             CCCcCEEECCCCCCCcCCCCCCC-CCEEECcCCc-CCCcCC---ccCCCCEEECCC-CCCCCCc---ccCCCCcEEECCC
Confidence            6888888772         2344 9999999885 555553   367899999998 5677777   3457999999999


Q ss_pred             CCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCc
Q 039944          157 CKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDED  236 (348)
Q Consensus       157 ~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~  236 (348)
                      | .+..+|..   +++|+.|++++| .+..+|.   .+++|+.|++++| .+..++       ..+++|+.|++++  +.
T Consensus       191 N-~l~~l~~~---~~~L~~L~L~~N-~l~~l~~---~~~~L~~L~Ls~N-~L~~lp-------~~l~~L~~L~Ls~--N~  252 (622)
T 3g06_A          191 N-QLASLPTL---PSELYKLWAYNN-RLTSLPA---LPSGLKELIVSGN-RLTSLP-------VLPSELKELMVSG--NR  252 (622)
T ss_dssp             S-CCSCCCCC---CTTCCEEECCSS-CCSSCCC---CCTTCCEEECCSS-CCSCCC-------CCCTTCCEEECCS--SC
T ss_pred             C-CCCCCCCc---cchhhEEECcCC-cccccCC---CCCCCCEEEccCC-ccCcCC-------CCCCcCcEEECCC--CC
Confidence            6 46667643   578999999987 5667762   3689999999995 566544       4568999999998  57


Q ss_pred             ccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCC
Q 039944          237 MVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCP  290 (348)
Q Consensus       237 l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~  290 (348)
                      +..+|.          .+++|+.|++++| .++.+|..+.++++|+.|++++|+
T Consensus       253 L~~lp~----------~~~~L~~L~Ls~N-~L~~lp~~l~~l~~L~~L~L~~N~  295 (622)
T 3g06_A          253 LTSLPM----------LPSGLLSLSVYRN-QLTRLPESLIHLSSETTVNLEGNP  295 (622)
T ss_dssp             CSCCCC----------CCTTCCEEECCSS-CCCSCCGGGGGSCTTCEEECCSCC
T ss_pred             CCcCCc----------ccccCcEEeCCCC-CCCcCCHHHhhccccCEEEecCCC
Confidence            777776          4578999999995 788999999999999999999975

>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=99.76  E-value=2.4e-17  Score=144.21  Aligned_cols=179  Identities=23%  Similarity=0.272  Sum_probs=72.0

Q ss_pred             hcCCCccceeccccccccccc-CCCCCCCCCccEEEEecCCCcCcc-cccccCCCCcceeEeccCCCCCcc-cccCCCCC
Q 039944          119 LDNNTSLETISIDSCGNLVSF-PEGGLPCAKLTRLTILDCKRLEAL-PKGMHNLTSLQYLRIGKGGALPSL-EEEDGLPT  195 (348)
Q Consensus       119 ~~~l~~L~~L~l~~~~~l~~~-~~~~~~~~~L~~L~l~~~~~l~~~-~~~l~~l~~L~~L~l~~~~~~~~~-~~~~~~~~  195 (348)
                      +..+++|++|++++| .+..+ +..+..+++|++|++++|..+..+ |..+..+++|++|++++|. +..+ +..+..++
T Consensus        52 ~~~~~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~  129 (285)
T 1ozn_A           52 FRACRNLTILWLHSN-VLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCG-LQELGPGLFRGLA  129 (285)
T ss_dssp             TTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSC-CCCCCTTTTTTCT
T ss_pred             cccCCCCCEEECCCC-ccceeCHhhcCCccCCCEEeCCCCCCccccCHHHhcCCcCCCEEECCCCc-CCEECHhHhhCCc
Confidence            344444444444442 22222 233334444444444443323333 2233444444444444432 2222 22234444


Q ss_pred             CcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccc-ccc
Q 039944          196 NLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERL-SSS  274 (348)
Q Consensus       196 ~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i-~~~  274 (348)
                      +|+.|+++++ .+...+.   ..+..+++|+.|++++  +.+..++...      +..+++|+.|+++++ .+..+ |..
T Consensus       130 ~L~~L~l~~n-~l~~~~~---~~~~~l~~L~~L~l~~--n~l~~~~~~~------~~~l~~L~~L~l~~n-~l~~~~~~~  196 (285)
T 1ozn_A          130 ALQYLYLQDN-ALQALPD---DTFRDLGNLTHLFLHG--NRISSVPERA------FRGLHSLDRLLLHQN-RVAHVHPHA  196 (285)
T ss_dssp             TCCEEECCSS-CCCCCCT---TTTTTCTTCCEEECCS--SCCCEECTTT------TTTCTTCCEEECCSS-CCCEECTTT
T ss_pred             CCCEEECCCC-cccccCH---hHhccCCCccEEECCC--CcccccCHHH------hcCccccCEEECCCC-cccccCHhH
Confidence            4444444442 2222221   1234444555555554  2333333311      123444555555543 23322 334


Q ss_pred             cccCCCcceEeccCCCCCCCCCCC--CCCCCCcEEEEcCCc
Q 039944          275 IVDLQNLTELYLFGCPKLKYFPEK--GLPSSLLELRISRCP  313 (348)
Q Consensus       275 ~~~~~~L~~L~l~~c~~l~~l~~~--~~~~~L~~L~l~~c~  313 (348)
                      +.++++|+.|++++| .++.++..  .-.++|++|++++++
T Consensus       197 ~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~N~  236 (285)
T 1ozn_A          197 FRDLGRLMTLYLFAN-NLSALPTEALAPLRALQYLRLNDNP  236 (285)
T ss_dssp             TTTCTTCCEEECCSS-CCSCCCHHHHTTCTTCCEEECCSSC
T ss_pred             ccCcccccEeeCCCC-cCCcCCHHHcccCcccCEEeccCCC
Confidence            444555555555543 33333321  113455555555443

>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=99.75  E-value=6.7e-17  Score=145.65  Aligned_cols=240  Identities=21%  Similarity=0.233  Sum_probs=180.9

Q ss_pred             cEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCC
Q 039944            9 EILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPAT   88 (348)
Q Consensus         9 ~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~   88 (348)
                      ++++.++ .+++++|.. .++++++|+++++. ++.++.+       .|..++  +|++|+++++..... ++...+   
T Consensus        12 ~~v~C~~-~~Lt~iP~~-l~~~l~~L~Ls~N~-i~~i~~~-------~f~~l~--~L~~L~Ls~N~i~~~-i~~~~f---   75 (350)
T 4ay9_X           12 RVFLCQE-SKVTEIPSD-LPRNAIELRFVLTK-LRVIQKG-------AFSGFG--DLEKIEISQNDVLEV-IEADVF---   75 (350)
T ss_dssp             TEEEEES-TTCCSCCTT-CCTTCSEEEEESCC-CSEECTT-------SSTTCT--TCCEEEEECCTTCCE-ECTTSB---
T ss_pred             CEEEecC-CCCCccCcC-cCCCCCEEEccCCc-CCCcCHH-------HHcCCC--CCCEEECcCCCCCCc-cChhHh---
Confidence            4566554 578888864 36789999999987 8999987       578888  999999998754443 555433   


Q ss_pred             cceeEeccCCCCccEEEEcCCCCcccc-hhhhcCCCccceecccccccccccCC-CCCCCCCccEEEEecCCCcCcccc-
Q 039944           89 LESLEVGNLPLSLKSLFVYGCSKLGSI-AERLDNNTSLETISIDSCGNLVSFPE-GGLPCAKLTRLTILDCKRLEALPK-  165 (348)
Q Consensus        89 L~~L~i~~l~~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~~~l~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~-  165 (348)
                            ..+++ +.++...++..+..+ +..+..+++|++|++++| .+..++. ......++..+++.++..+..++. 
T Consensus        76 ------~~L~~-l~~~l~~~~N~l~~l~~~~f~~l~~L~~L~l~~n-~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~  147 (350)
T 4ay9_X           76 ------SNLPK-LHEIRIEKANNLLYINPEAFQNLPNLQYLLISNT-GIKHLPDVHKIHSLQKVLLDIQDNINIHTIERN  147 (350)
T ss_dssp             ------CSCTT-CCEEEEEEETTCCEECTTSBCCCTTCCEEEEEEE-CCSSCCCCTTCCBSSCEEEEEESCTTCCEECTT
T ss_pred             ------hcchh-hhhhhcccCCcccccCchhhhhcccccccccccc-ccccCCchhhcccchhhhhhhcccccccccccc
Confidence                  23355 665544444556666 566788999999999984 5656655 334456788899988888888875 


Q ss_pred             cccCC-CCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccch
Q 039944          166 GMHNL-TSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLED  244 (348)
Q Consensus       166 ~l~~l-~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~  244 (348)
                      .+..+ ..++.|+++++ .++.++.......+|+.+.+.+++.++.++..   .+..+++|+.|++++  +.++.+|.+ 
T Consensus       148 ~f~~~~~~l~~L~L~~N-~i~~i~~~~f~~~~L~~l~l~~~n~l~~i~~~---~f~~l~~L~~LdLs~--N~l~~lp~~-  220 (350)
T 4ay9_X          148 SFVGLSFESVILWLNKN-GIQEIHNSAFNGTQLDELNLSDNNNLEELPND---VFHGASGPVILDISR--TRIHSLPSY-  220 (350)
T ss_dssp             SSTTSBSSCEEEECCSS-CCCEECTTSSTTEEEEEEECTTCTTCCCCCTT---TTTTEECCSEEECTT--SCCCCCCSS-
T ss_pred             chhhcchhhhhhccccc-cccCCChhhccccchhHHhhccCCcccCCCHH---HhccCcccchhhcCC--CCcCccChh-
Confidence            33444 46888999986 67777766666778999999887888887753   578899999999998  688888873 


Q ss_pred             hccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccC
Q 039944          245 KRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFG  288 (348)
Q Consensus       245 ~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~  288 (348)
                              .+..|+.|.+.+++.++.+| .+.++++|+.+++.+
T Consensus       221 --------~~~~L~~L~~l~~~~l~~lP-~l~~l~~L~~l~l~~  255 (350)
T 4ay9_X          221 --------GLENLKKLRARSTYNLKKLP-TLEKLVALMEASLTY  255 (350)
T ss_dssp             --------SCTTCCEEECTTCTTCCCCC-CTTTCCSCCEEECSC
T ss_pred             --------hhccchHhhhccCCCcCcCC-CchhCcChhhCcCCC
Confidence                    46788999988888899988 478899999998864

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.75  E-value=2.3e-16  Score=152.89  Aligned_cols=113  Identities=17%  Similarity=0.116  Sum_probs=74.2

Q ss_pred             CCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccc-ccccccCCCcceEeccCCCCCCCCCCC
Q 039944          220 HRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERL-SSSIVDLQNLTELYLFGCPKLKYFPEK  298 (348)
Q Consensus       220 ~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i-~~~~~~~~~L~~L~l~~c~~l~~l~~~  298 (348)
                      ..++.|+.|++++ +.....+..      +.+..+++|++|++++| .++.+ |..+.++++|++|++++| +++.++..
T Consensus       466 ~~~~~L~~L~Ls~-N~~~~~~~~------~~~~~l~~L~~L~Ls~N-~L~~l~~~~f~~l~~L~~L~Ls~N-~l~~l~~~  536 (635)
T 4g8a_A          466 NGLSSLEVLKMAG-NSFQENFLP------DIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMSHN-NFFSLDTF  536 (635)
T ss_dssp             TTCTTCCEEECTT-CEEGGGEEC------SCCTTCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECTTS-CCCBCCCG
T ss_pred             ccchhhhhhhhhh-cccccccCc------hhhhhccccCEEECCCC-ccCCcChHHHcCCCCCCEEECCCC-cCCCCChh
Confidence            4445566666655 322222221      22356788999999985 56655 557888999999999985 77777764


Q ss_pred             CC--CCCCcEEEEcCCchhHHHhhccCCccccCC-CCcCEEEecceeeccC
Q 039944          299 GL--PSSLLELRISRCPLIAEKCRKDGGQYWDLL-THIPRVEIDWKSVFGD  346 (348)
Q Consensus       299 ~~--~~~L~~L~l~~c~~l~~~~~~~~~~~~~~i-~~~~~~~~~~~~~~~~  346 (348)
                      .+  .++|++|+++++.-..     ...+....+ .++..+.+.++.+.||
T Consensus       537 ~~~~l~~L~~L~Ls~N~l~~-----~~~~~l~~l~~~L~~L~L~~Np~~C~  582 (635)
T 4g8a_A          537 PYKCLNSLQVLDYSLNHIMT-----SKKQELQHFPSSLAFLNLTQNDFACT  582 (635)
T ss_dssp             GGTTCTTCCEEECTTSCCCB-----CCSSCTTCCCTTCCEEECTTCCBCCS
T ss_pred             HHhCCCCCCEEECCCCcCCC-----CCHHHHHhhhCcCCEEEeeCCCCccc
Confidence            33  6899999999885211     122223334 5788889999888775

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.72  E-value=9.7e-18  Score=157.72  Aligned_cols=168  Identities=8%  Similarity=0.016  Sum_probs=78.4

Q ss_pred             ccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCccccccc-CCCCcceeEec
Q 039944          101 LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMH-NLTSLQYLRIG  179 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~-~l~~L~~L~l~  179 (348)
                      |+.|++++|. +..++.  ..+++|+.|++++|......|..+..+++|+.|++++|..-...|..+. .+++|++|+++
T Consensus       101 L~~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          101 IETLHAANNN-ISRVSC--SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQ  177 (487)
T ss_dssp             CCEEECCSSC-CCCEEE--CCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECT
T ss_pred             cCEEECcCCc-CCCCCc--cccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecC
Confidence            5555555554 222221  1245555555555332222233444455556666555432222333332 45556666655


Q ss_pred             cCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccE
Q 039944          180 KGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTS  259 (348)
Q Consensus       180 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~  259 (348)
                      +| .+..++ ....+++|+.|+++++ .+..++.    .+..+++|+.|++++  +.+..+|...       ..+++|+.
T Consensus       178 ~N-~l~~~~-~~~~l~~L~~L~Ls~N-~l~~~~~----~~~~l~~L~~L~Ls~--N~l~~lp~~l-------~~l~~L~~  241 (487)
T 3oja_A          178 YN-FIYDVK-GQVVFAKLKTLDLSSN-KLAFMGP----EFQSAAGVTWISLRN--NKLVLIEKAL-------RFSQNLEH  241 (487)
T ss_dssp             TS-CCCEEE-CCCCCTTCCEEECCSS-CCCEECG----GGGGGTTCSEEECTT--SCCCEECTTC-------CCCTTCCE
T ss_pred             CC-cccccc-ccccCCCCCEEECCCC-CCCCCCH----hHcCCCCccEEEecC--CcCcccchhh-------ccCCCCCE
Confidence            54 344444 3334555566665553 2333331    234555555566555  3444444433       34455555


Q ss_pred             EEeccCCCc-cccccccccCCCcceEecc
Q 039944          260 LWIEAFPNL-ERLSSSIVDLQNLTELYLF  287 (348)
Q Consensus       260 L~l~~~~~l-~~i~~~~~~~~~L~~L~l~  287 (348)
                      |++++++.. ..+|..+..++.|+.+++.
T Consensus       242 L~l~~N~l~c~~~~~~~~~l~~L~~l~~~  270 (487)
T 3oja_A          242 FDLRGNGFHCGTLRDFFSKNQRVQTVAKQ  270 (487)
T ss_dssp             EECTTCCBCHHHHHHHHTTCHHHHHHHHH
T ss_pred             EEcCCCCCcCcchHHHHHhCCCCcEEecc
Confidence            555553322 1344444555555555543

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.72  E-value=2.1e-17  Score=146.90  Aligned_cols=213  Identities=18%  Similarity=0.178  Sum_probs=122.6

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEc
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVY  107 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~  107 (348)
                      +++|++|++++|. +..++..       .+..++  +|+.|+++++. +.. .+.           +..++. |+.|+++
T Consensus        33 ~~~L~~L~L~~n~-l~~~~~~-------~~~~l~--~L~~L~Ls~n~-l~~-~~~-----------~~~l~~-L~~L~Ls   88 (317)
T 3o53_A           33 AWNVKELDLSGNP-LSQISAA-------DLAPFT--KLELLNLSSNV-LYE-TLD-----------LESLST-LRTLDLN   88 (317)
T ss_dssp             GGGCSEEECTTSC-CCCCCHH-------HHTTCT--TCCEEECTTSC-CEE-EEE-----------ETTCTT-CCEEECC
T ss_pred             CCCCCEEECcCCc-cCcCCHH-------HhhCCC--cCCEEECCCCc-CCc-chh-----------hhhcCC-CCEEECc
Confidence            5577777777775 5665543       356666  77777777643 433 221           123355 7777777


Q ss_pred             CCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCccc-ccccCCCCcceeEeccCCCCCc
Q 039944          108 GCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALP-KGMHNLTSLQYLRIGKGGALPS  186 (348)
Q Consensus       108 ~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~-~~l~~l~~L~~L~l~~~~~~~~  186 (348)
                      +|. +..++    ..++|++|++++| .+..++...  +++|+.|++++|. +..++ ..+..+++|++|++++| .+..
T Consensus        89 ~n~-l~~l~----~~~~L~~L~l~~n-~l~~~~~~~--~~~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~Ls~N-~l~~  158 (317)
T 3o53_A           89 NNY-VQELL----VGPSIETLHAANN-NISRVSCSR--GQGKKNIYLANNK-ITMLRDLDEGCRSRVQYLDLKLN-EIDT  158 (317)
T ss_dssp             SSE-EEEEE----ECTTCCEEECCSS-CCSEEEECC--CSSCEEEECCSSC-CCSGGGBCTGGGSSEEEEECTTS-CCCE
T ss_pred             CCc-ccccc----CCCCcCEEECCCC-ccCCcCccc--cCCCCEEECCCCC-CCCccchhhhccCCCCEEECCCC-CCCc
Confidence            664 43332    3467777777763 344444332  4567777777754 34343 35566677777777765 3333


Q ss_pred             cc-ccC-CCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEecc
Q 039944          187 LE-EED-GLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEA  264 (348)
Q Consensus       187 ~~-~~~-~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~  264 (348)
                      ++ ..+ ..+++|+.|+++++. +...+.     ...+++|+.|++++  +.+..++...       ..+++|+.|++++
T Consensus       159 ~~~~~~~~~l~~L~~L~L~~N~-l~~~~~-----~~~l~~L~~L~Ls~--N~l~~l~~~~-------~~l~~L~~L~L~~  223 (317)
T 3o53_A          159 VNFAELAASSDTLEHLNLQYNF-IYDVKG-----QVVFAKLKTLDLSS--NKLAFMGPEF-------QSAAGVTWISLRN  223 (317)
T ss_dssp             EEGGGGGGGTTTCCEEECTTSC-CCEEEC-----CCCCTTCCEEECCS--SCCCEECGGG-------GGGTTCSEEECTT
T ss_pred             ccHHHHhhccCcCCEEECCCCc-Cccccc-----ccccccCCEEECCC--CcCCcchhhh-------cccCcccEEECcC
Confidence            32 122 345677777776643 444331     23466777777776  4555555544       3456677777776


Q ss_pred             CCCccccccccccCCCcceEeccCCC
Q 039944          265 FPNLERLSSSIVDLQNLTELYLFGCP  290 (348)
Q Consensus       265 ~~~l~~i~~~~~~~~~L~~L~l~~c~  290 (348)
                       +.++.+|..+..+++|+.|++++|+
T Consensus       224 -N~l~~l~~~~~~l~~L~~L~l~~N~  248 (317)
T 3o53_A          224 -NKLVLIEKALRFSQNLEHFDLRGNG  248 (317)
T ss_dssp             -SCCCEECTTCCCCTTCCEEECTTCC
T ss_pred             -CcccchhhHhhcCCCCCEEEccCCC
Confidence             3566666666666777777777654

>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=99.70  E-value=6.6e-16  Score=135.39  Aligned_cols=131  Identities=21%  Similarity=0.249  Sum_probs=54.9

Q ss_pred             ccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCccc-ccccCCCCcceeEec
Q 039944          101 LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALP-KGMHNLTSLQYLRIG  179 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~-~~l~~l~~L~~L~l~  179 (348)
                      |+.|+++++. +..++.. ..+++|++|++++ +.+..+|..+..+++|+.|++++| .++.+| ..+..+++|++|+++
T Consensus        57 L~~L~L~~n~-l~~~~~~-~~l~~L~~L~Ls~-N~l~~l~~~~~~l~~L~~L~l~~N-~l~~l~~~~~~~l~~L~~L~L~  132 (290)
T 1p9a_G           57 LTQLNLDRAE-LTKLQVD-GTLPVLGTLDLSH-NQLQSLPLLGQTLPALTVLDVSFN-RLTSLPLGALRGLGELQELYLK  132 (290)
T ss_dssp             CCEEECTTSC-CCEEECC-SCCTTCCEEECCS-SCCSSCCCCTTTCTTCCEEECCSS-CCCCCCSSTTTTCTTCCEEECT
T ss_pred             CCEEECCCCc-cCcccCC-CCCCcCCEEECCC-CcCCcCchhhccCCCCCEEECCCC-cCcccCHHHHcCCCCCCEEECC
Confidence            5555554443 3333221 3444555555544 233444444444445555555443 233333 233444455555554


Q ss_pred             cCCCCCccccc-CCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCccccccc
Q 039944          180 KGGALPSLEEE-DGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPL  242 (348)
Q Consensus       180 ~~~~~~~~~~~-~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~  242 (348)
                      +| .+..++.. +..+++|+.|+++++ .++.++..   .+..+++|+.|++++  +.+..+|.
T Consensus       133 ~N-~l~~~~~~~~~~l~~L~~L~L~~N-~l~~l~~~---~~~~l~~L~~L~L~~--N~l~~ip~  189 (290)
T 1p9a_G          133 GN-ELKTLPPGLLTPTPKLEKLSLANN-NLTELPAG---LLNGLENLDTLLLQE--NSLYTIPK  189 (290)
T ss_dssp             TS-CCCCCCTTTTTTCTTCCEEECTTS-CCSCCCTT---TTTTCTTCCEEECCS--SCCCCCCT
T ss_pred             CC-CCCccChhhcccccCCCEEECCCC-cCCccCHH---HhcCcCCCCEEECCC--CcCCccCh
Confidence            44 23333311 233444555555442 23333321   233444455555544  34444444

>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=99.68  E-value=1.2e-15  Score=133.83  Aligned_cols=200  Identities=19%  Similarity=0.180  Sum_probs=148.4

Q ss_pred             cccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccc
Q 039944           57 SRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNL  136 (348)
Q Consensus        57 ~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l  136 (348)
                      ++++.  +++++++.+. .++. +|.. +            |.+++.|+++++......+..+..+++|++|++++ +.+
T Consensus         6 ~~~l~--~l~~l~~~~~-~l~~-ip~~-~------------~~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~-n~l   67 (290)
T 1p9a_G            6 VSKVA--SHLEVNCDKR-NLTA-LPPD-L------------PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDR-AEL   67 (290)
T ss_dssp             EECST--TCCEEECTTS-CCSS-CCSC-C------------CTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTT-SCC
T ss_pred             ccccC--CccEEECCCC-CCCc-CCCC-C------------CCCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCC-Ccc
Confidence            46666  8999999874 5666 6643 2            34589999998875444467788899999999998 456


Q ss_pred             cccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCccc-ccCCCCCCcCeeeecCCccchhhhhcc
Q 039944          137 VSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLE-EEDGLPTNLQSLDIWGNMEIWKSMIER  215 (348)
Q Consensus       137 ~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~-~~~~~~~~L~~L~l~~~~~l~~~~~~~  215 (348)
                      ..++.. ..+++|+.|++++| .+..+|..+..+++|++|++++| .++.++ ..+..+++|+.|+++++ .+..++.. 
T Consensus        68 ~~~~~~-~~l~~L~~L~Ls~N-~l~~l~~~~~~l~~L~~L~l~~N-~l~~l~~~~~~~l~~L~~L~L~~N-~l~~~~~~-  142 (290)
T 1p9a_G           68 TKLQVD-GTLPVLGTLDLSHN-QLQSLPLLGQTLPALTVLDVSFN-RLTSLPLGALRGLGELQELYLKGN-ELKTLPPG-  142 (290)
T ss_dssp             CEEECC-SCCTTCCEEECCSS-CCSSCCCCTTTCTTCCEEECCSS-CCCCCCSSTTTTCTTCCEEECTTS-CCCCCCTT-
T ss_pred             CcccCC-CCCCcCCEEECCCC-cCCcCchhhccCCCCCEEECCCC-cCcccCHHHHcCCCCCCEEECCCC-CCCccChh-
Confidence            666654 56789999999985 57788877788899999999987 555655 34677888888888885 45555432 


Q ss_pred             ccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCC
Q 039944          216 GRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCP  290 (348)
Q Consensus       216 ~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~  290 (348)
                        .+..+++|+.|++++  +.+..++...      +..+++|+.|++++ +.++.+|..+...++|+.+++++++
T Consensus       143 --~~~~l~~L~~L~L~~--N~l~~l~~~~------~~~l~~L~~L~L~~-N~l~~ip~~~~~~~~L~~l~L~~Np  206 (290)
T 1p9a_G          143 --LLTPTPKLEKLSLAN--NNLTELPAGL------LNGLENLDTLLLQE-NSLYTIPKGFFGSHLLPFAFLHGNP  206 (290)
T ss_dssp             --TTTTCTTCCEEECTT--SCCSCCCTTT------TTTCTTCCEEECCS-SCCCCCCTTTTTTCCCSEEECCSCC
T ss_pred             --hcccccCCCEEECCC--CcCCccCHHH------hcCcCCCCEEECCC-CcCCccChhhcccccCCeEEeCCCC
Confidence              467788888888887  5677776643      24567888888887 5777888877777888888888765

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.68  E-value=1e-17  Score=148.56  Aligned_cols=201  Identities=15%  Similarity=0.091  Sum_probs=137.5

Q ss_pred             CCCccEEEEcCCCCcccchhhh--cCCCccceecccccccccccCCCCCCC-----CCccEEEEecCCCcCccc-ccccC
Q 039944           98 PLSLKSLFVYGCSKLGSIAERL--DNNTSLETISIDSCGNLVSFPEGGLPC-----AKLTRLTILDCKRLEALP-KGMHN  169 (348)
Q Consensus        98 ~~~L~~L~l~~~~~~~~~~~~~--~~l~~L~~L~l~~~~~l~~~~~~~~~~-----~~L~~L~l~~~~~l~~~~-~~l~~  169 (348)
                      +. |++|++++|.....+|..+  ..+++|++|++++| .+..+|..+..+     ++|++|++++|. +..++ ..+..
T Consensus        95 ~~-L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~l~~~~~~~L~~L~L~~N~-l~~~~~~~~~~  171 (312)
T 1wwl_A           95 SG-LQELTLENLEVTGTAPPPLLEATGPDLNILNLRNV-SWATRDAWLAELQQWLKPGLKVLSIAQAH-SLNFSCEQVRV  171 (312)
T ss_dssp             SC-CCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESC-BCSSSSSHHHHHHTTCCTTCCEEEEESCS-CCCCCTTTCCC
T ss_pred             CC-ccEEEccCCcccchhHHHHHHhcCCCccEEEccCC-CCcchhHHHHHHHHhhcCCCcEEEeeCCC-CccchHHHhcc
Confidence            55 8888888887555666555  77888888888884 454445433333     789999998865 44444 67788


Q ss_pred             CCCcceeEeccCCCCCc--ccccC--CCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchh
Q 039944          170 LTSLQYLRIGKGGALPS--LEEED--GLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDK  245 (348)
Q Consensus       170 l~~L~~L~l~~~~~~~~--~~~~~--~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~  245 (348)
                      +++|++|++++|.....  ++...  +.+++|+.|+++++. +...+......+..+++|+.|++++  +.+...+... 
T Consensus       172 l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~~~~l~~L~~L~Ls~--N~l~~~~~~~-  247 (312)
T 1wwl_A          172 FPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAG-METPSGVCSALAAARVQLQGLDLSH--NSLRDAAGAP-  247 (312)
T ss_dssp             CSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSC-CCCHHHHHHHHHHTTCCCSEEECTT--SCCCSSCCCS-
T ss_pred             CCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCc-CcchHHHHHHHHhcCCCCCEEECCC--CcCCcccchh-
Confidence            88999999988753322  22233  678899999998853 4422211002345778999999998  4555543110 


Q ss_pred             ccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCCCCCCCcEEEEcCCc
Q 039944          246 RLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCP  313 (348)
Q Consensus       246 ~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~c~  313 (348)
                          .+..+++|++|++++ +.++.+|..+.  ++|++|+++++ .++.+|...-.++|++|++++++
T Consensus       248 ----~~~~l~~L~~L~Ls~-N~l~~ip~~~~--~~L~~L~Ls~N-~l~~~p~~~~l~~L~~L~L~~N~  307 (312)
T 1wwl_A          248 ----SCDWPSQLNSLNLSF-TGLKQVPKGLP--AKLSVLDLSYN-RLDRNPSPDELPQVGNLSLKGNP  307 (312)
T ss_dssp             ----CCCCCTTCCEEECTT-SCCSSCCSSCC--SEEEEEECCSS-CCCSCCCTTTSCEEEEEECTTCT
T ss_pred             ----hhhhcCCCCEEECCC-CccChhhhhcc--CCceEEECCCC-CCCCChhHhhCCCCCEEeccCCC
Confidence                113567899999998 46778887666  88999999984 67777764447889999998875

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.68  E-value=2.5e-16  Score=148.03  Aligned_cols=214  Identities=18%  Similarity=0.155  Sum_probs=125.4

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEc
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVY  107 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~  107 (348)
                      +++|+.|++++|. +..++..       .+..++  +|+.|+++++. +.. .+.           +..++. |+.|+++
T Consensus        33 ~~~L~~L~Ls~n~-l~~~~~~-------~~~~l~--~L~~L~Ls~N~-l~~-~~~-----------l~~l~~-L~~L~Ls   88 (487)
T 3oja_A           33 AWNVKELDLSGNP-LSQISAA-------DLAPFT--KLELLNLSSNV-LYE-TLD-----------LESLST-LRTLDLN   88 (487)
T ss_dssp             GGGCCEEECCSSC-CCCCCGG-------GGTTCT--TCCEEECTTSC-CEE-EEE-----------CTTCTT-CCEEECC
T ss_pred             CCCccEEEeeCCc-CCCCCHH-------HHhCCC--CCCEEEeeCCC-CCC-Ccc-----------cccCCC-CCEEEec
Confidence            4477888887776 6665544       356666  77788777653 443 221           123355 7777777


Q ss_pred             CCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCc-
Q 039944          108 GCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPS-  186 (348)
Q Consensus       108 ~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~-  186 (348)
                      +|. +..++    ..++|++|++++| .+..++..  .+++|+.|++++|..-...|..+..+++|++|++++|. +.. 
T Consensus        89 ~N~-l~~l~----~~~~L~~L~L~~N-~l~~~~~~--~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~  159 (487)
T 3oja_A           89 NNY-VQELL----VGPSIETLHAANN-NISRVSCS--RGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNE-IDTV  159 (487)
T ss_dssp             SSE-EEEEE----ECTTCCEEECCSS-CCCCEEEC--CCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSC-CCEE
T ss_pred             CCc-CCCCC----CCCCcCEEECcCC-cCCCCCcc--ccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCC-CCCc
Confidence            664 44433    2367777777764 34444332  24567777777754333334455667777777777663 333 


Q ss_pred             ccccCC-CCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccC
Q 039944          187 LEEEDG-LPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAF  265 (348)
Q Consensus       187 ~~~~~~-~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~  265 (348)
                      .|..+. .+++|+.|++++|. +...+     ....+++|+.|++++  +.+..++...       ..+++|+.|++++ 
T Consensus       160 ~~~~l~~~l~~L~~L~Ls~N~-l~~~~-----~~~~l~~L~~L~Ls~--N~l~~~~~~~-------~~l~~L~~L~Ls~-  223 (487)
T 3oja_A          160 NFAELAASSDTLEHLNLQYNF-IYDVK-----GQVVFAKLKTLDLSS--NKLAFMGPEF-------QSAAGVTWISLRN-  223 (487)
T ss_dssp             EGGGGGGGTTTCCEEECTTSC-CCEEE-----CCCCCTTCCEEECCS--SCCCEECGGG-------GGGTTCSEEECTT-
T ss_pred             ChHHHhhhCCcccEEecCCCc-ccccc-----ccccCCCCCEEECCC--CCCCCCCHhH-------cCCCCccEEEecC-
Confidence            232332 46677777777643 44433     123466777777776  4555555544       3456677777776 


Q ss_pred             CCccccccccccCCCcceEeccCCC
Q 039944          266 PNLERLSSSIVDLQNLTELYLFGCP  290 (348)
Q Consensus       266 ~~l~~i~~~~~~~~~L~~L~l~~c~  290 (348)
                      +.+..+|..+..+++|+.|++++|+
T Consensus       224 N~l~~lp~~l~~l~~L~~L~l~~N~  248 (487)
T 3oja_A          224 NKLVLIEKALRFSQNLEHFDLRGNG  248 (487)
T ss_dssp             SCCCEECTTCCCCTTCCEEECTTCC
T ss_pred             CcCcccchhhccCCCCCEEEcCCCC
Confidence            4566666666666777777777654

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.66  E-value=2.9e-16  Score=139.19  Aligned_cols=207  Identities=17%  Similarity=0.142  Sum_probs=143.0

Q ss_pred             CCCccceecccccccccccCCCC--CCCCCccEEEEecCCCcCcccccccCC-----CCcceeEeccCCCCCccc-ccCC
Q 039944          121 NNTSLETISIDSCGNLVSFPEGG--LPCAKLTRLTILDCKRLEALPKGMHNL-----TSLQYLRIGKGGALPSLE-EEDG  192 (348)
Q Consensus       121 ~l~~L~~L~l~~~~~l~~~~~~~--~~~~~L~~L~l~~~~~l~~~~~~l~~l-----~~L~~L~l~~~~~~~~~~-~~~~  192 (348)
                      .+++|++|++++|.....+|..+  ..+++|++|++++|. +..+|..+..+     ++|++|++++|. +..++ ..++
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 GISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVS-WATRDAWLAELQQWLKPGLKVLSIAQAH-SLNFSCEQVR  170 (312)
T ss_dssp             TTSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCB-CSSSSSHHHHHHTTCCTTCCEEEEESCS-CCCCCTTTCC
T ss_pred             CcCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCC-CcchhHHHHHHHHhhcCCCcEEEeeCCC-CccchHHHhc
Confidence            68899999999865444677765  678899999999864 55556655555     899999999874 45554 5678


Q ss_pred             CCCCcCeeeecCCccchh--hhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccc
Q 039944          193 LPTNLQSLDIWGNMEIWK--SMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLER  270 (348)
Q Consensus       193 ~~~~L~~L~l~~~~~l~~--~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~  270 (348)
                      .+++|+.|+++++.....  .+..  ..+..+++|++|++++  +.+..++....   ..+..+++|++|+++++ .++.
T Consensus       171 ~l~~L~~L~Ls~N~l~~~~~~~~~--~~~~~l~~L~~L~L~~--N~l~~~~~~~~---~~~~~l~~L~~L~Ls~N-~l~~  242 (312)
T 1wwl_A          171 VFPALSTLDLSDNPELGERGLISA--LCPLKFPTLQVLALRN--AGMETPSGVCS---ALAAARVQLQGLDLSHN-SLRD  242 (312)
T ss_dssp             CCSSCCEEECCSCTTCHHHHHHHH--SCTTSCTTCCEEECTT--SCCCCHHHHHH---HHHHTTCCCSEEECTTS-CCCS
T ss_pred             cCCCCCEEECCCCCcCcchHHHHH--HHhccCCCCCEEECCC--CcCcchHHHHH---HHHhcCCCCCEEECCCC-cCCc
Confidence            889999999998754332  1211  2347889999999998  45653322110   00024578999999984 5655


Q ss_pred             cc--cccccCCCcceEeccCCCCCCCCCCCCCCCCCcEEEEcCCchhHHHhhccCCccccCCCCcCEEEecceeeccC
Q 039944          271 LS--SSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCRKDGGQYWDLLTHIPRVEIDWKSVFGD  346 (348)
Q Consensus       271 i~--~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~  346 (348)
                      .+  ..+..+++|++|++++| .++.+|.. ++++|++|++++|.- +..      ..+..+.++..+.+.++.+.+.
T Consensus       243 ~~~~~~~~~l~~L~~L~Ls~N-~l~~ip~~-~~~~L~~L~Ls~N~l-~~~------p~~~~l~~L~~L~L~~N~l~~~  311 (312)
T 1wwl_A          243 AAGAPSCDWPSQLNSLNLSFT-GLKQVPKG-LPAKLSVLDLSYNRL-DRN------PSPDELPQVGNLSLKGNPFLDS  311 (312)
T ss_dssp             SCCCSCCCCCTTCCEEECTTS-CCSSCCSS-CCSEEEEEECCSSCC-CSC------CCTTTSCEEEEEECTTCTTTCC
T ss_pred             ccchhhhhhcCCCCEEECCCC-ccChhhhh-ccCCceEEECCCCCC-CCC------hhHhhCCCCCEEeccCCCCCCC
Confidence            43  35566789999999985 67788774 338999999998852 211      1255667788888888776654

>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=99.66  E-value=7.8e-15  Score=132.13  Aligned_cols=241  Identities=16%  Similarity=0.121  Sum_probs=178.1

Q ss_pred             cEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEcCCCC
Q 039944           32 KKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSK  111 (348)
Q Consensus        32 ~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~~~~  111 (348)
                      ++++.++.. ++++|..        +  .+  ++++|++++ +.++. ++.+.+         ..+++ |+.|++++|..
T Consensus        12 ~~v~C~~~~-Lt~iP~~--------l--~~--~l~~L~Ls~-N~i~~-i~~~~f---------~~l~~-L~~L~Ls~N~i   66 (350)
T 4ay9_X           12 RVFLCQESK-VTEIPSD--------L--PR--NAIELRFVL-TKLRV-IQKGAF---------SGFGD-LEKIEISQNDV   66 (350)
T ss_dssp             TEEEEESTT-CCSCCTT--------C--CT--TCSEEEEES-CCCSE-ECTTSS---------TTCTT-CCEEEEECCTT
T ss_pred             CEEEecCCC-CCccCcC--------c--CC--CCCEEEccC-CcCCC-cCHHHH---------cCCCC-CCEEECcCCCC
Confidence            456666654 8888876        2  23  899999998 46777 776544         34476 99999999987


Q ss_pred             cccch-hhhcCCCccceecccccccccccCC-CCCCCCCccEEEEecCCCcCcccc-cccCCCCcceeEeccCCCCCccc
Q 039944          112 LGSIA-ERLDNNTSLETISIDSCGNLVSFPE-GGLPCAKLTRLTILDCKRLEALPK-GMHNLTSLQYLRIGKGGALPSLE  188 (348)
Q Consensus       112 ~~~~~-~~~~~l~~L~~L~l~~~~~l~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~-~l~~l~~L~~L~l~~~~~~~~~~  188 (348)
                      .+.++ ..+.+++++..+.+..++.+..++. .+..+++|+.|++++|. +..+|+ ......++..+++.++..+..++
T Consensus        67 ~~~i~~~~f~~L~~l~~~l~~~~N~l~~l~~~~f~~l~~L~~L~l~~n~-l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~  145 (350)
T 4ay9_X           67 LEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTG-IKHLPDVHKIHSLQKVLLDIQDNINIHTIE  145 (350)
T ss_dssp             CCEECTTSBCSCTTCCEEEEEEETTCCEECTTSBCCCTTCCEEEEEEEC-CSSCCCCTTCCBSSCEEEEEESCTTCCEEC
T ss_pred             CCccChhHhhcchhhhhhhcccCCcccccCchhhhhccccccccccccc-cccCCchhhcccchhhhhhhcccccccccc
Confidence            67665 4567888888776666677878765 55678999999999964 566654 33456678888888776777766


Q ss_pred             cc-CCC-CCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCC
Q 039944          189 EE-DGL-PTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFP  266 (348)
Q Consensus       189 ~~-~~~-~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  266 (348)
                      .. +.. ...++.|++++ +.++.++.    ......+|+.+++.+ ++.++.+|.+.      +..+++|++|++++ +
T Consensus       146 ~~~f~~~~~~l~~L~L~~-N~i~~i~~----~~f~~~~L~~l~l~~-~n~l~~i~~~~------f~~l~~L~~LdLs~-N  212 (350)
T 4ay9_X          146 RNSFVGLSFESVILWLNK-NGIQEIHN----SAFNGTQLDELNLSD-NNNLEELPNDV------FHGASGPVILDISR-T  212 (350)
T ss_dssp             TTSSTTSBSSCEEEECCS-SCCCEECT----TSSTTEEEEEEECTT-CTTCCCCCTTT------TTTEECCSEEECTT-S
T ss_pred             ccchhhcchhhhhhcccc-ccccCCCh----hhccccchhHHhhcc-CCcccCCCHHH------hccCcccchhhcCC-C
Confidence            32 233 35688999998 45666653    233457899999988 78888888743      35778999999998 5


Q ss_pred             CccccccccccCCCcceEeccCCCCCCCCCCCCCCCCCcEEEEcCCc
Q 039944          267 NLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCP  313 (348)
Q Consensus       267 ~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~c~  313 (348)
                      .++.+|..  .+.+|+.|.+.+++.++.+|...-+++|+.+++.+..
T Consensus       213 ~l~~lp~~--~~~~L~~L~~l~~~~l~~lP~l~~l~~L~~l~l~~~~  257 (350)
T 4ay9_X          213 RIHSLPSY--GLENLKKLRARSTYNLKKLPTLEKLVALMEASLTYPS  257 (350)
T ss_dssp             CCCCCCSS--SCTTCCEEECTTCTTCCCCCCTTTCCSCCEEECSCHH
T ss_pred             CcCccChh--hhccchHhhhccCCCcCcCCCchhCcChhhCcCCCCc
Confidence            89989863  3678889998889999999985457899999997543

>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=99.66  E-value=1.4e-15  Score=132.35  Aligned_cols=53  Identities=17%  Similarity=0.181  Sum_probs=28.0

Q ss_pred             EEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccc-cccCCCcceEeccCC
Q 039944          227 RLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSS-IVDLQNLTELYLFGC  289 (348)
Q Consensus       227 ~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~-~~~~~~L~~L~l~~c  289 (348)
                      .|++++  +.+..++...       ....+|++|+++++ .++.+|.. +..+++|+.|+++++
T Consensus       181 ~L~ls~--n~l~~~~~~~-------~~~~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~l~~N  234 (276)
T 2z62_A          181 SLDLSL--NPMNFIQPGA-------FKEIRLKELALDTN-QLKSVPDGIFDRLTSLQKIWLHTN  234 (276)
T ss_dssp             EEECCS--SCCCEECTTS-------SCSCCEEEEECCSS-CCSCCCTTTTTTCCSCCEEECCSS
T ss_pred             eeecCC--CcccccCccc-------cCCCcccEEECCCC-ceeecCHhHhcccccccEEEccCC
Confidence            556665  4444444432       12235666666663 45555542 355666666666654

>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=99.66  E-value=1.6e-15  Score=134.14  Aligned_cols=197  Identities=15%  Similarity=0.161  Sum_probs=144.2

Q ss_pred             ccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceeccccccccc
Q 039944           58 RRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLV  137 (348)
Q Consensus        58 ~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~  137 (348)
                      ..+.  +|++|++.++. +.. ++.      +     ..++. |+.|++++|. +..++. +..+++|++|++++| .+.
T Consensus        38 ~~l~--~L~~L~l~~~~-i~~-l~~------~-----~~l~~-L~~L~L~~n~-i~~~~~-~~~l~~L~~L~L~~n-~l~   98 (308)
T 1h6u_A           38 ADLD--GITTLSAFGTG-VTT-IEG------V-----QYLNN-LIGLELKDNQ-ITDLAP-LKNLTKITELELSGN-PLK   98 (308)
T ss_dssp             HHHH--TCCEEECTTSC-CCC-CTT------G-----GGCTT-CCEEECCSSC-CCCCGG-GTTCCSCCEEECCSC-CCS
T ss_pred             HHcC--CcCEEEeeCCC-ccC-chh------h-----hccCC-CCEEEccCCc-CCCChh-HccCCCCCEEEccCC-cCC
Confidence            4566  89999998863 544 432      2     33466 9999998875 555655 888999999999885 465


Q ss_pred             ccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhcccc
Q 039944          138 SFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGR  217 (348)
Q Consensus       138 ~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~  217 (348)
                      .++ .+..+++|+.|++++|. +..++ .+..+++|++|++++| .+..++ .++.+++|+.|+++++ .+...+     
T Consensus        99 ~~~-~~~~l~~L~~L~l~~n~-l~~~~-~l~~l~~L~~L~l~~n-~l~~~~-~l~~l~~L~~L~l~~n-~l~~~~-----  167 (308)
T 1h6u_A           99 NVS-AIAGLQSIKTLDLTSTQ-ITDVT-PLAGLSNLQVLYLDLN-QITNIS-PLAGLTNLQYLSIGNA-QVSDLT-----  167 (308)
T ss_dssp             CCG-GGTTCTTCCEEECTTSC-CCCCG-GGTTCTTCCEEECCSS-CCCCCG-GGGGCTTCCEEECCSS-CCCCCG-----
T ss_pred             Cch-hhcCCCCCCEEECCCCC-CCCch-hhcCCCCCCEEECCCC-ccCcCc-cccCCCCccEEEccCC-cCCCCh-----
Confidence            554 46667889999998864 56665 3788899999999887 566666 4777889999999885 455544     


Q ss_pred             ccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCC
Q 039944          218 GFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPE  297 (348)
Q Consensus       218 ~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~  297 (348)
                      .+..+++|+.|++++  +.+..++..        ..+++|++|++++| .+..++ .+..+++|+.|++++|+ ++..|.
T Consensus       168 ~l~~l~~L~~L~l~~--n~l~~~~~l--------~~l~~L~~L~L~~N-~l~~~~-~l~~l~~L~~L~l~~N~-i~~~~~  234 (308)
T 1h6u_A          168 PLANLSKLTTLKADD--NKISDISPL--------ASLPNLIEVHLKNN-QISDVS-PLANTSNLFIVTLTNQT-ITNQPV  234 (308)
T ss_dssp             GGTTCTTCCEEECCS--SCCCCCGGG--------GGCTTCCEEECTTS-CCCBCG-GGTTCTTCCEEEEEEEE-EECCCE
T ss_pred             hhcCCCCCCEEECCC--CccCcChhh--------cCCCCCCEEEccCC-ccCccc-cccCCCCCCEEEccCCe-eecCCe
Confidence            267888999999988  566666552        36778999999884 677666 37888999999998853 555443

>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=99.66  E-value=1.7e-15  Score=131.72  Aligned_cols=196  Identities=21%  Similarity=0.254  Sum_probs=144.9

Q ss_pred             CCCccEEEEcCCCCcccc-hhhhcCCCccceecccccccccccCC-CCCCCCCccEEEEecCCCcCccc-ccccCCCCcc
Q 039944           98 PLSLKSLFVYGCSKLGSI-AERLDNNTSLETISIDSCGNLVSFPE-GGLPCAKLTRLTILDCKRLEALP-KGMHNLTSLQ  174 (348)
Q Consensus        98 ~~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~~~l~~~~~-~~~~~~~L~~L~l~~~~~l~~~~-~~l~~l~~L~  174 (348)
                      |.+++.|+++++. +..+ +..+..+++|++|++++| .+..++. .+..+++|++|++++|. +..++ ..+..+++|+
T Consensus        27 ~~~l~~L~ls~n~-l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~  103 (276)
T 2z62_A           27 PFSTKNLDLSFNP-LRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLILTGNP-IQSLALGAFSGLSSLQ  103 (276)
T ss_dssp             CTTCCEEECTTCC-CCEECTTTTTTCTTCSEEECTTC-CCCEECTTTTTTCTTCCEEECTTCC-CCEECTTTTTTCTTCC
T ss_pred             CCCccEEECCCCc-ccccCHhHhccccCCcEEECCCC-cCCccCHHHccCCcCCCEEECCCCc-cCccChhhhcCCcccc
Confidence            4458999998876 4444 447888999999999985 5555554 56778899999999865 45554 5678899999


Q ss_pred             eeEeccCCCCCcccc-cCCCCCCcCeeeecCCccchh--hhhccccccCCCCCccEEEecccCCcccccccchhccCCCC
Q 039944          175 YLRIGKGGALPSLEE-EDGLPTNLQSLDIWGNMEIWK--SMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTAL  251 (348)
Q Consensus       175 ~L~l~~~~~~~~~~~-~~~~~~~L~~L~l~~~~~l~~--~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~  251 (348)
                      +|+++++ .+..++. .++.+++|+.|+++++. +..  ++    ..+..+++|+.|++++  +.+..++...      +
T Consensus       104 ~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~l~----~~~~~l~~L~~L~Ls~--N~l~~~~~~~------~  169 (276)
T 2z62_A          104 KLVAVET-NLASLENFPIGHLKTLKELNVAHNL-IQSFKLP----EYFSNLTNLEHLDLSS--NKIQSIYCTD------L  169 (276)
T ss_dssp             EEECTTS-CCCCSTTCCCTTCTTCCEEECCSSC-CCCCCCC----GGGGGCTTCCEEECCS--SCCCEECGGG------G
T ss_pred             EEECCCC-CccccCchhcccCCCCCEEECcCCc-cceecCc----hhhccCCCCCEEECCC--CCCCcCCHHH------h
Confidence            9999987 4555543 47788999999999854 443  23    3577899999999998  5666655421      0


Q ss_pred             CCCCCcc----EEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEEEcCC
Q 039944          252 PLPASLT----SLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELRISRC  312 (348)
Q Consensus       252 ~~~~~L~----~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~l~~c  312 (348)
                      ..+++|+    .|++++ +.++.++.......+|+.|++++| .++.++...+  .++|++|+++++
T Consensus       170 ~~l~~L~~l~l~L~ls~-n~l~~~~~~~~~~~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~l~~N  234 (276)
T 2z62_A          170 RVLHQMPLLNLSLDLSL-NPMNFIQPGAFKEIRLKELALDTN-QLKSVPDGIFDRLTSLQKIWLHTN  234 (276)
T ss_dssp             HHHHTCTTCCEEEECCS-SCCCEECTTSSCSCCEEEEECCSS-CCSCCCTTTTTTCCSCCEEECCSS
T ss_pred             hhhhhccccceeeecCC-CcccccCccccCCCcccEEECCCC-ceeecCHhHhcccccccEEEccCC
Confidence            1233444    899998 577777776666679999999995 5888887543  789999999954

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.65  E-value=9.6e-15  Score=126.63  Aligned_cols=173  Identities=25%  Similarity=0.303  Sum_probs=79.4

Q ss_pred             ccEEEEcCCCCcccc-hhhhcCCCccceecccccccccccCCCC-CCCCCccEEEEecCCCcCcccc-cccCCCCcceeE
Q 039944          101 LKSLFVYGCSKLGSI-AERLDNNTSLETISIDSCGNLVSFPEGG-LPCAKLTRLTILDCKRLEALPK-GMHNLTSLQYLR  177 (348)
Q Consensus       101 L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~~~l~~~~~~~-~~~~~L~~L~l~~~~~l~~~~~-~l~~l~~L~~L~  177 (348)
                      ++.|+++++. +..+ +..+..+++|++|++++ +.+..++... ..+++|++|++++|. +..+|. .+..+++|++|+
T Consensus        39 l~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~-n~l~~i~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~  115 (270)
T 2o6q_A           39 TKKLDLQSNK-LSSLPSKAFHRLTKLRLLYLND-NKLQTLPAGIFKELKNLETLWVTDNK-LQALPIGVFDQLVNLAELR  115 (270)
T ss_dssp             CSEEECCSSC-CSCCCTTSSSSCTTCCEEECCS-SCCSCCCTTTTSSCTTCCEEECCSSC-CCCCCTTTTTTCSSCCEEE
T ss_pred             CCEEECcCCC-CCeeCHHHhcCCCCCCEEECCC-CccCeeChhhhcCCCCCCEEECCCCc-CCcCCHhHcccccCCCEEE
Confidence            5555555444 2222 23445555555555555 2333444332 334555555555532 333332 234555555555


Q ss_pred             eccCCCCCccc-ccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCC
Q 039944          178 IGKGGALPSLE-EEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPAS  256 (348)
Q Consensus       178 l~~~~~~~~~~-~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~  256 (348)
                      ++++ .+..++ ..++.+++|+.|+++++ .+..++.   ..+..+++|+.|++++  +.+..++...      +..+++
T Consensus       116 l~~n-~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~---~~~~~l~~L~~L~L~~--n~l~~~~~~~------~~~l~~  182 (270)
T 2o6q_A          116 LDRN-QLKSLPPRVFDSLTKLTYLSLGYN-ELQSLPK---GVFDKLTSLKELRLYN--NQLKRVPEGA------FDKLTE  182 (270)
T ss_dssp             CCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCCCCCT---TTTTTCTTCCEEECCS--SCCSCCCTTT------TTTCTT
T ss_pred             CCCC-ccCeeCHHHhCcCcCCCEEECCCC-cCCccCH---hHccCCcccceeEecC--CcCcEeChhH------hccCCC
Confidence            5554 233332 12344555555555553 2333332   1244555555555555  3344443321      123455


Q ss_pred             ccEEEeccCCCcccccc-ccccCCCcceEeccCCC
Q 039944          257 LTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGCP  290 (348)
Q Consensus       257 L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c~  290 (348)
                      |++|+++++ .++.++. .+..+++|+.|++++++
T Consensus       183 L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N~  216 (270)
T 2o6q_A          183 LKTLKLDNN-QLKRVPEGAFDSLEKLKMLQLQENP  216 (270)
T ss_dssp             CCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             cCEEECCCC-cCCcCCHHHhccccCCCEEEecCCC
Confidence            555555553 4444443 24455555555555543

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.65  E-value=1.3e-14  Score=125.88  Aligned_cols=131  Identities=22%  Similarity=0.311  Sum_probs=56.4

Q ss_pred             cCCCccceecccccccccccCC-CCCCCCCccEEEEecCCCcCcccc-cccCCCCcceeEeccCCCCCccccc-CCCCCC
Q 039944          120 DNNTSLETISIDSCGNLVSFPE-GGLPCAKLTRLTILDCKRLEALPK-GMHNLTSLQYLRIGKGGALPSLEEE-DGLPTN  196 (348)
Q Consensus       120 ~~l~~L~~L~l~~~~~l~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~-~l~~l~~L~~L~l~~~~~~~~~~~~-~~~~~~  196 (348)
                      ..+++|++|++++| .+..++. .+..+++|+.|++++|. +..+++ .+..+++|++|++++| .+..++.. +..+++
T Consensus        82 ~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~  158 (270)
T 2o6q_A           82 KELKNLETLWVTDN-KLQALPIGVFDQLVNLAELRLDRNQ-LKSLPPRVFDSLTKLTYLSLGYN-ELQSLPKGVFDKLTS  158 (270)
T ss_dssp             SSCTTCCEEECCSS-CCCCCCTTTTTTCSSCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTT
T ss_pred             cCCCCCCEEECCCC-cCCcCCHhHcccccCCCEEECCCCc-cCeeCHHHhCcCcCCCEEECCCC-cCCccCHhHccCCcc
Confidence            34444444444442 2333332 22334445555554432 222322 2344555555555544 23333321 344455


Q ss_pred             cCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccC
Q 039944          197 LQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAF  265 (348)
Q Consensus       197 L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~  265 (348)
                      |+.|+++++ .+..++.   ..+..+++|+.|++++  +.+..++...      +..+++|+.|+++++
T Consensus       159 L~~L~L~~n-~l~~~~~---~~~~~l~~L~~L~L~~--N~l~~~~~~~------~~~l~~L~~L~l~~N  215 (270)
T 2o6q_A          159 LKELRLYNN-QLKRVPE---GAFDKLTELKTLKLDN--NQLKRVPEGA------FDSLEKLKMLQLQEN  215 (270)
T ss_dssp             CCEEECCSS-CCSCCCT---TTTTTCTTCCEEECCS--SCCSCCCTTT------TTTCTTCCEEECCSS
T ss_pred             cceeEecCC-cCcEeCh---hHhccCCCcCEEECCC--CcCCcCCHHH------hccccCCCEEEecCC
Confidence            555555553 2333222   1244555555555555  3444444321      123455556666553

>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=99.62  E-value=4.1e-15  Score=131.52  Aligned_cols=195  Identities=16%  Similarity=0.184  Sum_probs=137.4

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEc
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVY  107 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~  107 (348)
                      +++|++|++++|. +..++.         +..++  +|++|+++++ .+.+ ++.      +     ..+++ |+.|+++
T Consensus        40 l~~L~~L~l~~~~-i~~l~~---------~~~l~--~L~~L~L~~n-~i~~-~~~------~-----~~l~~-L~~L~L~   93 (308)
T 1h6u_A           40 LDGITTLSAFGTG-VTTIEG---------VQYLN--NLIGLELKDN-QITD-LAP------L-----KNLTK-ITELELS   93 (308)
T ss_dssp             HHTCCEEECTTSC-CCCCTT---------GGGCT--TCCEEECCSS-CCCC-CGG------G-----TTCCS-CCEEECC
T ss_pred             cCCcCEEEeeCCC-ccCchh---------hhccC--CCCEEEccCC-cCCC-Chh------H-----ccCCC-CCEEEcc
Confidence            6778888888886 666652         46666  8888888875 3544 332      1     33365 8888888


Q ss_pred             CCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcc
Q 039944          108 GCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSL  187 (348)
Q Consensus       108 ~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~  187 (348)
                      +|. +..++ .+..+++|++|++++| .+..++. +..+++|+.|++++| .+..++. +..+++|++|++++| .+..+
T Consensus        94 ~n~-l~~~~-~~~~l~~L~~L~l~~n-~l~~~~~-l~~l~~L~~L~l~~n-~l~~~~~-l~~l~~L~~L~l~~n-~l~~~  166 (308)
T 1h6u_A           94 GNP-LKNVS-AIAGLQSIKTLDLTST-QITDVTP-LAGLSNLQVLYLDLN-QITNISP-LAGLTNLQYLSIGNA-QVSDL  166 (308)
T ss_dssp             SCC-CSCCG-GGTTCTTCCEEECTTS-CCCCCGG-GTTCTTCCEEECCSS-CCCCCGG-GGGCTTCCEEECCSS-CCCCC
T ss_pred             CCc-CCCch-hhcCCCCCCEEECCCC-CCCCchh-hcCCCCCCEEECCCC-ccCcCcc-ccCCCCccEEEccCC-cCCCC
Confidence            776 55554 5777888888888874 4555554 566788888888885 4555654 778888889988887 56666


Q ss_pred             cccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCC
Q 039944          188 EEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPN  267 (348)
Q Consensus       188 ~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~  267 (348)
                      + .+..+++|+.|+++++ .+...+     .+..+++|+.|++++  +.+..++. .       ..+++|+.|+++++ .
T Consensus       167 ~-~l~~l~~L~~L~l~~n-~l~~~~-----~l~~l~~L~~L~L~~--N~l~~~~~-l-------~~l~~L~~L~l~~N-~  228 (308)
T 1h6u_A          167 T-PLANLSKLTTLKADDN-KISDIS-----PLASLPNLIEVHLKN--NQISDVSP-L-------ANTSNLFIVTLTNQ-T  228 (308)
T ss_dssp             G-GGTTCTTCCEEECCSS-CCCCCG-----GGGGCTTCCEEECTT--SCCCBCGG-G-------TTCTTCCEEEEEEE-E
T ss_pred             h-hhcCCCCCCEEECCCC-ccCcCh-----hhcCCCCCCEEEccC--CccCcccc-c-------cCCCCCCEEEccCC-e
Confidence            6 4778888999988885 455544     256788899999988  46666654 2       36788999999884 5


Q ss_pred             cccccc
Q 039944          268 LERLSS  273 (348)
Q Consensus       268 l~~i~~  273 (348)
                      +...|.
T Consensus       229 i~~~~~  234 (308)
T 1h6u_A          229 ITNQPV  234 (308)
T ss_dssp             EECCCE
T ss_pred             eecCCe
Confidence            655554

>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=99.62  E-value=1.7e-16  Score=142.04  Aligned_cols=244  Identities=14%  Similarity=0.078  Sum_probs=162.4

Q ss_pred             CCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEcC
Q 039944           29 SSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYG  108 (348)
Q Consensus        29 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~  108 (348)
                      ..++.++++++. +.  +.        .+..+..++++.+++.++ .+.. .+..     +     ..++. |+.|++++
T Consensus        47 ~~~~~l~l~~~~-~~--~~--------~~~~~~~~~l~~L~l~~n-~l~~-~~~~-----~-----~~~~~-L~~L~L~~  102 (336)
T 2ast_B           47 SLWQTLDLTGKN-LH--PD--------VTGRLLSQGVIAFRCPRS-FMDQ-PLAE-----H-----FSPFR-VQHMDLSN  102 (336)
T ss_dssp             TTSSEEECTTCB-CC--HH--------HHHHHHHTTCSEEECTTC-EECS-CCCS-----C-----CCCBC-CCEEECTT
T ss_pred             hhheeecccccc-CC--HH--------HHHhhhhccceEEEcCCc-cccc-cchh-----h-----ccCCC-CCEEEccC
Confidence            347888888765 33  11        134441127888888774 3443 2211     1     23365 99999998


Q ss_pred             CCCccc-chhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCc--ccccccCCCCcceeEeccCCCCC
Q 039944          109 CSKLGS-IAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEA--LPKGMHNLTSLQYLRIGKGGALP  185 (348)
Q Consensus       109 ~~~~~~-~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~--~~~~l~~l~~L~~L~l~~~~~~~  185 (348)
                      |..... ++..+..+++|++|++++|......+..+..+++|++|++++|..+..  ++..+..+++|++|++++|..+.
T Consensus       103 ~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~  182 (336)
T 2ast_B          103 SVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFT  182 (336)
T ss_dssp             CEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCC
T ss_pred             CCcCHHHHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcC
Confidence            863323 667788899999999998754334555556688999999999866663  55556788999999999885555


Q ss_pred             c--ccccCCCCC-CcCeeeecCCc-cch--hhhhccccccCCCCCccEEEecccCCccc-ccccchhccCCCCCCCCCcc
Q 039944          186 S--LEEEDGLPT-NLQSLDIWGNM-EIW--KSMIERGRGFHRFSSLRRLTISRCDEDMV-SFPLEDKRLGTALPLPASLT  258 (348)
Q Consensus       186 ~--~~~~~~~~~-~L~~L~l~~~~-~l~--~~~~~~~~~~~~l~~L~~L~l~~~c~~l~-~~~~~~~~~~~~~~~~~~L~  258 (348)
                      .  ++..+..++ +|+.|++++|. .+.  .++    ..+..+++|+.|++++ |..+. ..+...       ..+++|+
T Consensus       183 ~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~----~~~~~~~~L~~L~l~~-~~~l~~~~~~~l-------~~l~~L~  250 (336)
T 2ast_B          183 EKHVQVAVAHVSETITQLNLSGYRKNLQKSDLS----TLVRRCPNLVHLDLSD-SVMLKNDCFQEF-------FQLNYLQ  250 (336)
T ss_dssp             HHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHH----HHHHHCTTCSEEECTT-CTTCCGGGGGGG-------GGCTTCC
T ss_pred             hHHHHHHHHhcccCCCEEEeCCCcccCCHHHHH----HHHhhCCCCCEEeCCC-CCcCCHHHHHHH-------hCCCCCC
Confidence            3  454566788 99999999975 343  222    2456788999999998 65343 333333       3568899


Q ss_pred             EEEeccCCCcccc-ccccccCCCcceEeccCCCCCCCCCCCCC---CCCCcEEEEcCCc
Q 039944          259 SLWIEAFPNLERL-SSSIVDLQNLTELYLFGCPKLKYFPEKGL---PSSLLELRISRCP  313 (348)
Q Consensus       259 ~L~l~~~~~l~~i-~~~~~~~~~L~~L~l~~c~~l~~l~~~~~---~~~L~~L~l~~c~  313 (348)
                      +|++++|..+... ...+.++++|+.|++++|     ++..++   ..++..|+++++.
T Consensus       251 ~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~-----i~~~~~~~l~~~l~~L~l~~n~  304 (336)
T 2ast_B          251 HLSLSRCYDIIPETLLELGEIPTLKTLQVFGI-----VPDGTLQLLKEALPHLQINCSH  304 (336)
T ss_dssp             EEECTTCTTCCGGGGGGGGGCTTCCEEECTTS-----SCTTCHHHHHHHSTTSEESCCC
T ss_pred             EeeCCCCCCCCHHHHHHHhcCCCCCEEeccCc-----cCHHHHHHHHhhCcceEEeccc
Confidence            9999998644321 125778999999999987     444333   3457777886543

>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=99.61  E-value=7.3e-17  Score=155.47  Aligned_cols=287  Identities=15%  Similarity=0.073  Sum_probs=146.2

Q ss_pred             CCCCcccEEeecCccccccc---CC-CC------------CCCCccEEEeccCcccccccccccccccccccc-ccCCcc
Q 039944            3 DTNSSLEILDIEKCHSLTYI---AA-VQ------------LPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRR-YTSSLL   65 (348)
Q Consensus         3 ~~~~~L~~L~l~~~~~l~~l---~~-~~------------~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~-~~~~~L   65 (348)
                      .++++|+.|++++|+.+..+   |. .+            .+++|++|++++|. +......       .+.. +. .+|
T Consensus        70 ~~~~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~-i~~~~~~-------~l~~~~~-~~L  140 (592)
T 3ogk_B           70 RRFPNLRSLKLKGKPRAAMFNLIPENWGGYVTPWVTEISNNLRQLKSVHFRRMI-VSDLDLD-------RLAKARA-DDL  140 (592)
T ss_dssp             HHCTTCSEEEEECSCGGGGGTCSCTTSCCBCHHHHHHHHHHCTTCCEEEEESCB-CCHHHHH-------HHHHHHG-GGC
T ss_pred             HhCCCCeEEEecCCcchhhcccccccccccchHHHHHHHhhCCCCCeEEeeccE-ecHHHHH-------HHHHhcc-ccC
Confidence            35778888888877654322   11 11            26788888888875 4432211       1122 11 036


Q ss_pred             ceeeeeCCCCcccc-ccCC-CCCCCcceeEec-----------------cCCCCccEEEEcCCCCc----ccchhhhcCC
Q 039944           66 EHLEIISCPSLTCI-FSKN-ELPATLESLEVG-----------------NLPLSLKSLFVYGCSKL----GSIAERLDNN  122 (348)
Q Consensus        66 ~~L~l~~~~~l~~~-~~~~-~~~~~L~~L~i~-----------------~l~~~L~~L~l~~~~~~----~~~~~~~~~l  122 (348)
                      ++|++.+|..+... ++.. ..+++|++|.+.                 .++. |+.|+++++...    ..++..+..+
T Consensus       141 ~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~-L~~L~L~~n~~~~~~~~~l~~~~~~~  219 (592)
T 3ogk_B          141 ETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTS-LEVLNFYMTEFAKISPKDLETIARNC  219 (592)
T ss_dssp             CEEEEESCEEEEHHHHHHHHHHCTTCSEEECTTCEEECCCSHHHHHHHHHCCC-CCEEECTTCCCSSCCHHHHHHHHHHC
T ss_pred             cEEECcCCCCcCHHHHHHHHhhCCCCCEEECccccccCcchhHHHHHHhcCCC-ccEEEeeccCCCccCHHHHHHHHhhC
Confidence            66666665432210 0000 122445555441                 1344 666666554422    1223334455


Q ss_pred             CccceecccccccccccC---------------------------CCCCCCCCccEEEEecCCCcCcccccccCCCCcce
Q 039944          123 TSLETISIDSCGNLVSFP---------------------------EGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQY  175 (348)
Q Consensus       123 ~~L~~L~l~~~~~l~~~~---------------------------~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~  175 (348)
                      ++|+.|++++|. +..++                           ..+..+++|+.|.+.++ ....+|..+..+++|++
T Consensus       220 ~~L~~L~L~~~~-~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~-~~~~l~~~~~~~~~L~~  297 (592)
T 3ogk_B          220 RSLVSVKVGDFE-ILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYM-GPNEMPILFPFAAQIRK  297 (592)
T ss_dssp             TTCCEEECSSCB-GGGGHHHHHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTC-CTTTGGGGGGGGGGCCE
T ss_pred             CCCcEEeccCcc-HHHHHHHHhhhhHHHhhcccccccccchHHHHHHhhccccccccCcccc-chhHHHHHHhhcCCCcE
Confidence            666666665532 22222                           23333445555555542 23344444556667777


Q ss_pred             eEeccCCCCCc--ccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEeccc---------CCcccc--ccc
Q 039944          176 LRIGKGGALPS--LEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRC---------DEDMVS--FPL  242 (348)
Q Consensus       176 L~l~~~~~~~~--~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~---------c~~l~~--~~~  242 (348)
                      |++++|. +..  +...+..+++|+.|++.++..-....    .....+++|++|++++.         |+.+..  +..
T Consensus       298 L~Ls~~~-l~~~~~~~~~~~~~~L~~L~L~~~~~~~~l~----~~~~~~~~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~  372 (592)
T 3ogk_B          298 LDLLYAL-LETEDHCTLIQKCPNLEVLETRNVIGDRGLE----VLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIA  372 (592)
T ss_dssp             EEETTCC-CCHHHHHHHHTTCTTCCEEEEEGGGHHHHHH----HHHHHCTTCCEEEEECCCCSSTTSSTTCCCCHHHHHH
T ss_pred             EecCCCc-CCHHHHHHHHHhCcCCCEEeccCccCHHHHH----HHHHhCCCCCEEEeecCccccccccccCccCHHHHHH
Confidence            7777664 322  11224566777777776322111111    12345667777777720         223321  111


Q ss_pred             chhccCCCCCCCCCccEEEeccCCCccc-ccccccc-CCCcceEeccC---CCCCCCCCCC-CC------CCCCcEEEEc
Q 039944          243 EDKRLGTALPLPASLTSLWIEAFPNLER-LSSSIVD-LQNLTELYLFG---CPKLKYFPEK-GL------PSSLLELRIS  310 (348)
Q Consensus       243 ~~~~~~~~~~~~~~L~~L~l~~~~~l~~-i~~~~~~-~~~L~~L~l~~---c~~l~~l~~~-~~------~~~L~~L~l~  310 (348)
                      ..       ..+++|++|++. |+.++. .+..+.. +++|+.|++.+   |+.++..|.. ++      +++|++|+++
T Consensus       373 l~-------~~~~~L~~L~l~-~~~l~~~~~~~l~~~~~~L~~L~l~~~~~~n~l~~~p~~~~~~~~~~~~~~L~~L~L~  444 (592)
T 3ogk_B          373 LA-------QGCQELEYMAVY-VSDITNESLESIGTYLKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFY  444 (592)
T ss_dssp             HH-------HHCTTCSEEEEE-ESCCCHHHHHHHHHHCCSCCEEEEEECSCCSCCSSCCCHHHHHHHHHHCTTCCEEEEE
T ss_pred             HH-------hhCccCeEEEee-cCCccHHHHHHHHhhCCCCcEEEEeecCCCccccCchHHHHHHHHHHhCCCCCEEEEe
Confidence            11       135788888884 355542 2224433 88999999973   5677765432 11      6899999998


Q ss_pred             CCch
Q 039944          311 RCPL  314 (348)
Q Consensus       311 ~c~~  314 (348)
                      +|..
T Consensus       445 ~~~~  448 (592)
T 3ogk_B          445 LRQG  448 (592)
T ss_dssp             CCGG
T ss_pred             cCCC
Confidence            8763

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.61  E-value=3.8e-15  Score=131.88  Aligned_cols=204  Identities=14%  Similarity=0.069  Sum_probs=130.2

Q ss_pred             CCCccEEEEcCCCCcccchhhh--cCCCccceecccccccccccC----CCCCCCCCccEEEEecCCCcCcccccccCCC
Q 039944           98 PLSLKSLFVYGCSKLGSIAERL--DNNTSLETISIDSCGNLVSFP----EGGLPCAKLTRLTILDCKRLEALPKGMHNLT  171 (348)
Q Consensus        98 ~~~L~~L~l~~~~~~~~~~~~~--~~l~~L~~L~l~~~~~l~~~~----~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~  171 (348)
                      +. |++|++++|......+..+  ..+++|++|++++|......+    .....+++|++|++++|......+..+..++
T Consensus        91 ~~-L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~  169 (310)
T 4glp_A           91 SR-LKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFP  169 (310)
T ss_dssp             SC-CCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCT
T ss_pred             Cc-eeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCC
Confidence            44 8888888887555566555  778888888888754332222    1223467888888888654333335667888


Q ss_pred             CcceeEeccCCCCCc--ccc--cCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCccccc-ccchhc
Q 039944          172 SLQYLRIGKGGALPS--LEE--EDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSF-PLEDKR  246 (348)
Q Consensus       172 ~L~~L~l~~~~~~~~--~~~--~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~-~~~~~~  246 (348)
                      +|++|++++|.....  ++.  ..+.+++|++|++++|. ++..+....+.+..+++|++|++++  +.+... |...+ 
T Consensus       170 ~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~-l~~l~~~~~~l~~~l~~L~~L~Ls~--N~l~~~~p~~~~-  245 (310)
T 4glp_A          170 ALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTG-METPTGVCAALAAAGVQPHSLDLSH--NSLRATVNPSAP-  245 (310)
T ss_dssp             TCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSC-CCCHHHHHHHHHHHTCCCSSEECTT--SCCCCCCCSCCS-
T ss_pred             CCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCC-CCchHHHHHHHHhcCCCCCEEECCC--CCCCccchhhHH-
Confidence            888888888743221  221  23567788888888853 4433211001235678888888887  455554 44331 


Q ss_pred             cCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCCCCCCCcEEEEcCCc
Q 039944          247 LGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCP  313 (348)
Q Consensus       247 ~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~c~  313 (348)
                         ....+++|++|++++ +.++.+|..+.  ++|+.|++++| .++.+|.....++|+.|++++++
T Consensus       246 ---~~~~~~~L~~L~Ls~-N~l~~lp~~~~--~~L~~L~Ls~N-~l~~~~~~~~l~~L~~L~L~~N~  305 (310)
T 4glp_A          246 ---RCMWSSALNSLNLSF-AGLEQVPKGLP--AKLRVLDLSSN-RLNRAPQPDELPEVDNLTLDGNP  305 (310)
T ss_dssp             ---SCCCCTTCCCEECCS-SCCCSCCSCCC--SCCSCEECCSC-CCCSCCCTTSCCCCSCEECSSTT
T ss_pred             ---hccCcCcCCEEECCC-CCCCchhhhhc--CCCCEEECCCC-cCCCCchhhhCCCccEEECcCCC
Confidence               112236888888887 46777777664  78888888884 66666654446788888888775

>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=99.61  E-value=1.4e-16  Score=153.50  Aligned_cols=202  Identities=14%  Similarity=0.064  Sum_probs=112.0

Q ss_pred             ccEEEEcCCCCccc--chhhhcCCCccceecccccccccccCCCCCCCCCccEEEEec----------CCCcCcc--ccc
Q 039944          101 LKSLFVYGCSKLGS--IAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILD----------CKRLEAL--PKG  166 (348)
Q Consensus       101 L~~L~l~~~~~~~~--~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~----------~~~l~~~--~~~  166 (348)
                      |+.|++++|. +..  +...+..+++|++|+++.+.....++.....+++|++|++.+          |..+...  +..
T Consensus       295 L~~L~Ls~~~-l~~~~~~~~~~~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~l  373 (592)
T 3ogk_B          295 IRKLDLLYAL-LETEDHCTLIQKCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIAL  373 (592)
T ss_dssp             CCEEEETTCC-CCHHHHHHHHTTCTTCCEEEEEGGGHHHHHHHHHHHCTTCCEEEEECCCCSSTTSSTTCCCCHHHHHHH
T ss_pred             CcEEecCCCc-CCHHHHHHHHHhCcCCCEEeccCccCHHHHHHHHHhCCCCCEEEeecCccccccccccCccCHHHHHHH
Confidence            7777777766 322  223356677777777764322222333233456788888774          5544431  112


Q ss_pred             ccCCCCcceeEeccCCCCCc-ccccCC-CCCCcCeeeecC---Cccchhhhhc--cccccCCCCCccEEEecccCCc-cc
Q 039944          167 MHNLTSLQYLRIGKGGALPS-LEEEDG-LPTNLQSLDIWG---NMEIWKSMIE--RGRGFHRFSSLRRLTISRCDED-MV  238 (348)
Q Consensus       167 l~~l~~L~~L~l~~~~~~~~-~~~~~~-~~~~L~~L~l~~---~~~l~~~~~~--~~~~~~~l~~L~~L~l~~~c~~-l~  238 (348)
                      ...+++|++|+++.+ .+.. .+..++ .+++|+.|++.+   ++.++..+..  ....+.++++|+.|++++ |.+ +.
T Consensus       374 ~~~~~~L~~L~l~~~-~l~~~~~~~l~~~~~~L~~L~l~~~~~~n~l~~~p~~~~~~~~~~~~~~L~~L~L~~-~~~~l~  451 (592)
T 3ogk_B          374 AQGCQELEYMAVYVS-DITNESLESIGTYLKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFYL-RQGGLT  451 (592)
T ss_dssp             HHHCTTCSEEEEEES-CCCHHHHHHHHHHCCSCCEEEEEECSCCSCCSSCCCHHHHHHHHHHCTTCCEEEEEC-CGGGCC
T ss_pred             HhhCccCeEEEeecC-CccHHHHHHHHhhCCCCcEEEEeecCCCccccCchHHHHHHHHHHhCCCCCEEEEec-CCCCcc
Confidence            245677888877433 3332 111222 367788888863   3444432100  001245577888888876 543 21


Q ss_pred             c-cccchhccCCCCCCCCCccEEEeccCCCcc--ccccccccCCCcceEeccCCCCCCC--CCCC-CCCCCCcEEEEcCC
Q 039944          239 S-FPLEDKRLGTALPLPASLTSLWIEAFPNLE--RLSSSIVDLQNLTELYLFGCPKLKY--FPEK-GLPSSLLELRISRC  312 (348)
Q Consensus       239 ~-~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~--~i~~~~~~~~~L~~L~l~~c~~l~~--l~~~-~~~~~L~~L~l~~c  312 (348)
                      . .....+      ..+++|++|++++|. ++  .++..+..+++|++|++++|+ ++.  ++.. ...++|++|++++|
T Consensus       452 ~~~~~~~~------~~~~~L~~L~L~~n~-l~~~~~~~~~~~~~~L~~L~l~~n~-l~~~~~~~~~~~l~~L~~L~ls~n  523 (592)
T 3ogk_B          452 DLGLSYIG------QYSPNVRWMLLGYVG-ESDEGLMEFSRGCPNLQKLEMRGCC-FSERAIAAAVTKLPSLRYLWVQGY  523 (592)
T ss_dssp             HHHHHHHH------HSCTTCCEEEECSCC-SSHHHHHHHHTCCTTCCEEEEESCC-CBHHHHHHHHHHCSSCCEEEEESC
T ss_pred             HHHHHHHH------HhCccceEeeccCCC-CCHHHHHHHHhcCcccCeeeccCCC-CcHHHHHHHHHhcCccCeeECcCC
Confidence            1 111111      246778888888753 44  244456778889999998886 432  1110 11578889999888


Q ss_pred             c
Q 039944          313 P  313 (348)
Q Consensus       313 ~  313 (348)
                      .
T Consensus       524 ~  524 (592)
T 3ogk_B          524 R  524 (592)
T ss_dssp             B
T ss_pred             c
Confidence            7

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.60  E-value=1.2e-14  Score=126.18  Aligned_cols=206  Identities=20%  Similarity=0.162  Sum_probs=144.3

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEc
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVY  107 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~  107 (348)
                      +++|+.|+++++. +..++.         ++.++  +|++|+++++. +.. ++.      +     ..++. |+.|+++
T Consensus        40 l~~L~~L~l~~~~-i~~~~~---------l~~l~--~L~~L~l~~n~-l~~-~~~------l-----~~l~~-L~~L~L~   93 (272)
T 3rfs_A           40 LNSIDQIIANNSD-IKSVQG---------IQYLP--NVRYLALGGNK-LHD-ISA------L-----KELTN-LTYLILT   93 (272)
T ss_dssp             HTTCCEEECTTSC-CCCCTT---------GGGCT--TCCEEECTTSC-CCC-CGG------G-----TTCTT-CCEEECT
T ss_pred             ccceeeeeeCCCC-cccccc---------cccCC--CCcEEECCCCC-CCC-chh------h-----cCCCC-CCEEECC
Confidence            7788999998886 666553         46666  89999998753 444 331      1     33466 8899998


Q ss_pred             CCCCcccchhhhcCCCccceecccccccccccCC-CCCCCCCccEEEEecCCCcCccccc-ccCCCCcceeEeccCCCCC
Q 039944          108 GCSKLGSIAERLDNNTSLETISIDSCGNLVSFPE-GGLPCAKLTRLTILDCKRLEALPKG-MHNLTSLQYLRIGKGGALP  185 (348)
Q Consensus       108 ~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~~-l~~l~~L~~L~l~~~~~~~  185 (348)
                      +|......+..+..+++|++|++++| .+..++. .+..+++|+.|++++| .+..+++. +..+++|++|++++| .+.
T Consensus        94 ~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~l~~n-~l~  170 (272)
T 3rfs_A           94 GNQLQSLPNGVFDKLTNLKELVLVEN-QLQSLPDGVFDKLTNLTYLNLAHN-QLQSLPKGVFDKLTNLTELDLSYN-QLQ  170 (272)
T ss_dssp             TSCCCCCCTTTTTTCTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCC
T ss_pred             CCccCccChhHhcCCcCCCEEECCCC-cCCccCHHHhccCCCCCEEECCCC-ccCccCHHHhccCccCCEEECCCC-CcC
Confidence            87643333455678899999999885 4555555 3567889999999886 45666543 578899999999987 455


Q ss_pred             ccccc-CCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEecc
Q 039944          186 SLEEE-DGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEA  264 (348)
Q Consensus       186 ~~~~~-~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~  264 (348)
                      .++.. ++.+++|+.|+++++. +...+.   ..+..+++|+.|++++ + .+.             +.++.|+.++++.
T Consensus       171 ~~~~~~~~~l~~L~~L~L~~N~-l~~~~~---~~~~~l~~L~~L~l~~-N-~~~-------------~~~~~l~~l~~~~  231 (272)
T 3rfs_A          171 SLPEGVFDKLTQLKDLRLYQNQ-LKSVPD---GVFDRLTSLQYIWLHD-N-PWD-------------CTCPGIRYLSEWI  231 (272)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSC-CSCCCT---TTTTTCTTCCEEECCS-S-CBC-------------CCTTTTHHHHHHH
T ss_pred             ccCHHHhcCCccCCEEECCCCc-CCccCH---HHHhCCcCCCEEEccC-C-Ccc-------------ccCcHHHHHHHHH
Confidence            55533 5778999999999854 555443   2467889999999998 4 221             2456788888887


Q ss_pred             CCCccccccccccCCCc
Q 039944          265 FPNLERLSSSIVDLQNL  281 (348)
Q Consensus       265 ~~~l~~i~~~~~~~~~L  281 (348)
                      +.....+|.++..++..
T Consensus       232 n~~~g~ip~~~~~~~~~  248 (272)
T 3rfs_A          232 NKHSGVVRNSAGSVAPD  248 (272)
T ss_dssp             HHTGGGBBCTTSCBCGG
T ss_pred             HhCCCcccCcccccCCC
Confidence            65556788777765543

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.59  E-value=1.3e-16  Score=142.77  Aligned_cols=201  Identities=13%  Similarity=0.095  Sum_probs=148.0

Q ss_pred             ccEEEEcCCCCcccchhhhcCCCccceecccccccccc-cCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEec
Q 039944          101 LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVS-FPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIG  179 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~-~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~  179 (348)
                      ++.|++.++. +...+..+..+++|++|++++|..... ++..+..+++|++|++++|..-...+..+..+++|++|+++
T Consensus        72 l~~L~l~~n~-l~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~  150 (336)
T 2ast_B           72 VIAFRCPRSF-MDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLS  150 (336)
T ss_dssp             CSEEECTTCE-ECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECT
T ss_pred             ceEEEcCCcc-ccccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECC
Confidence            8899998775 444444466799999999999753222 56666778899999999986444566677889999999999


Q ss_pred             cCCCCCc--ccccCCCCCCcCeeeecCCccchhhhhccccccCCCC-CccEEEecccCC-cc--cccccchhccCCCCCC
Q 039944          180 KGGALPS--LEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFS-SLRRLTISRCDE-DM--VSFPLEDKRLGTALPL  253 (348)
Q Consensus       180 ~~~~~~~--~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~-~L~~L~l~~~c~-~l--~~~~~~~~~~~~~~~~  253 (348)
                      +|..+..  ++..+..+++|+.|++++|..+......  ..+..++ +|++|++++ |. .+  ..++...       ..
T Consensus       151 ~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~--~~~~~l~~~L~~L~l~~-~~~~~~~~~l~~~~-------~~  220 (336)
T 2ast_B          151 GCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQ--VAVAHVSETITQLNLSG-YRKNLQKSDLSTLV-------RR  220 (336)
T ss_dssp             TCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHH--HHHHHSCTTCCEEECCS-CGGGSCHHHHHHHH-------HH
T ss_pred             CCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHH--HHHHhcccCCCEEEeCC-CcccCCHHHHHHHH-------hh
Confidence            9865653  5645677899999999998566542111  2457788 999999998 53 33  3344433       35


Q ss_pred             CCCccEEEeccCCCcc-ccccccccCCCcceEeccCCCCCCCCC--CCCCCCCCcEEEEcCC
Q 039944          254 PASLTSLWIEAFPNLE-RLSSSIVDLQNLTELYLFGCPKLKYFP--EKGLPSSLLELRISRC  312 (348)
Q Consensus       254 ~~~L~~L~l~~~~~l~-~i~~~~~~~~~L~~L~l~~c~~l~~l~--~~~~~~~L~~L~l~~c  312 (348)
                      +++|++|++++|..++ ..+..+.++++|+.|++++|..+..-.  ...-.++|++|++++|
T Consensus       221 ~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~  282 (336)
T 2ast_B          221 CPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI  282 (336)
T ss_dssp             CTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS
T ss_pred             CCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEeeCCCCCCCCHHHHHHHhcCCCCCEEeccCc
Confidence            7899999999986554 556678899999999999987443321  1112789999999998

>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=99.59  E-value=1.4e-17  Score=155.59  Aligned_cols=215  Identities=19%  Similarity=0.231  Sum_probs=102.7

Q ss_pred             CCCcccEEeecCccccc-----ccCCC-CCCCCccEEEeccCcccccccccccccccccccccc--CCccceeeeeCCCC
Q 039944            4 TNSSLEILDIEKCHSLT-----YIAAV-QLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYT--SSLLEHLEIISCPS   75 (348)
Q Consensus         4 ~~~~L~~L~l~~~~~l~-----~l~~~-~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~--~~~L~~L~l~~~~~   75 (348)
                      .+++|++|++++|. ++     .++.. ..+++|++|++++|. +.......      +.+.+.  .++|++|++++|. 
T Consensus        26 ~~~~L~~L~L~~~~-l~~~~~~~l~~~l~~~~~L~~L~Ls~n~-l~~~~~~~------l~~~l~~~~~~L~~L~L~~n~-   96 (461)
T 1z7x_W           26 LLQQCQVVRLDDCG-LTEARCKDISSALRVNPALAELNLRSNE-LGDVGVHC------VLQGLQTPSCKIQKLSLQNCC-   96 (461)
T ss_dssp             HHTTCSEEEEESSC-CCHHHHHHHHHHHHTCTTCCEEECTTCC-CHHHHHHH------HHHTTCSTTCCCCEEECTTSC-
T ss_pred             hcCCccEEEccCCC-CCHHHHHHHHHHHHhCCCcCEEeCCCCc-CChHHHHH------HHHHHhhCCCceeEEEccCCC-
Confidence            45677777777653 33     22221 125667777777765 43321110      111111  0136667666653 


Q ss_pred             ccc----cccC-CCCCCCcceeEec------------------cCCCCccEEEEcCCCCccc----chhhhcCCCcccee
Q 039944           76 LTC----IFSK-NELPATLESLEVG------------------NLPLSLKSLFVYGCSKLGS----IAERLDNNTSLETI  128 (348)
Q Consensus        76 l~~----~~~~-~~~~~~L~~L~i~------------------~l~~~L~~L~l~~~~~~~~----~~~~~~~l~~L~~L  128 (348)
                      +.+    .++. ....++|++|.+.                  ..++ |++|++++|.....    ++..+..+++|++|
T Consensus        97 i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~-L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L  175 (461)
T 1z7x_W           97 LTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCR-LEKLQLEYCSLSAASCEPLASVLRAKPDFKEL  175 (461)
T ss_dssp             CBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCC-CCEEECTTSCCBGGGHHHHHHHHHHCTTCCEE
T ss_pred             CCHHHHHHHHHHHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCc-ceEEECCCCCCCHHHHHHHHHHHhhCCCCCEE
Confidence            321    0111 1223455555551                  0123 77777777653332    24445556777777


Q ss_pred             ccccccccccc-CCCCC-----CCCCccEEEEecCCCcCc-----ccccccCCCCcceeEeccCCCCCcc------cccC
Q 039944          129 SIDSCGNLVSF-PEGGL-----PCAKLTRLTILDCKRLEA-----LPKGMHNLTSLQYLRIGKGGALPSL------EEED  191 (348)
Q Consensus       129 ~l~~~~~l~~~-~~~~~-----~~~~L~~L~l~~~~~l~~-----~~~~l~~l~~L~~L~l~~~~~~~~~------~~~~  191 (348)
                      ++++|. +... +..+.     ..++|++|++++|. +..     ++..+..+++|++|++++| .+...      +...
T Consensus       176 ~L~~n~-i~~~~~~~l~~~l~~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~Ls~n-~l~~~~~~~l~~~~~  252 (461)
T 1z7x_W          176 TVSNND-INEAGVRVLCQGLKDSPCQLEALKLESCG-VTSDNCRDLCGIVASKASLRELALGSN-KLGDVGMAELCPGLL  252 (461)
T ss_dssp             ECCSSB-CHHHHHHHHHHHHHHSCCCCCEEECTTSC-CBTTHHHHHHHHHHHCTTCCEEECCSS-BCHHHHHHHHHHHHT
T ss_pred             ECcCCC-cchHHHHHHHHHHhcCCCCceEEEccCCC-CcHHHHHHHHHHHHhCCCccEEeccCC-cCChHHHHHHHHHHh
Confidence            777654 2221 11110     13467777777653 332     3444556667777777665 23221      1112


Q ss_pred             CCCCCcCeeeecCCccchhhhhc-cccccCCCCCccEEEecc
Q 039944          192 GLPTNLQSLDIWGNMEIWKSMIE-RGRGFHRFSSLRRLTISR  232 (348)
Q Consensus       192 ~~~~~L~~L~l~~~~~l~~~~~~-~~~~~~~l~~L~~L~l~~  232 (348)
                      ..+++|+.|++++| .+...... ....+..+++|++|++++
T Consensus       253 ~~~~~L~~L~L~~n-~l~~~~~~~l~~~l~~~~~L~~L~Ls~  293 (461)
T 1z7x_W          253 HPSSRLRTLWIWEC-GITAKGCGDLCRVLRAKESLKELSLAG  293 (461)
T ss_dssp             STTCCCCEEECTTS-CCCHHHHHHHHHHHHHCTTCCEEECTT
T ss_pred             cCCCCceEEECcCC-CCCHHHHHHHHHHHhhCCCcceEECCC
Confidence            24566777777665 33331100 001234456666666666

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.59  E-value=3.2e-15  Score=129.85  Aligned_cols=220  Identities=19%  Similarity=0.226  Sum_probs=152.8

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEc
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVY  107 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~  107 (348)
                      +..+..+.+.++. +.....         ...+.  +|+.|++.++. +.. ++.      +     ..++. |+.|+++
T Consensus        18 ~~~l~~l~l~~~~-~~~~~~---------~~~l~--~L~~L~l~~~~-i~~-~~~------l-----~~l~~-L~~L~l~   71 (272)
T 3rfs_A           18 FAETIKANLKKKS-VTDAVT---------QNELN--SIDQIIANNSD-IKS-VQG------I-----QYLPN-VRYLALG   71 (272)
T ss_dssp             HHHHHHHHHTCSC-TTSEEC---------HHHHT--TCCEEECTTSC-CCC-CTT------G-----GGCTT-CCEEECT
T ss_pred             HHHHHHHHhcCcc-cccccc---------ccccc--ceeeeeeCCCC-ccc-ccc------c-----ccCCC-CcEEECC
Confidence            3345555555554 343332         35566  89999998864 443 332      1     33466 9999999


Q ss_pred             CCCCcccchhhhcCCCccceecccccccccccCC-CCCCCCCccEEEEecCCCcCcccc-cccCCCCcceeEeccCCCCC
Q 039944          108 GCSKLGSIAERLDNNTSLETISIDSCGNLVSFPE-GGLPCAKLTRLTILDCKRLEALPK-GMHNLTSLQYLRIGKGGALP  185 (348)
Q Consensus       108 ~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~-~l~~l~~L~~L~l~~~~~~~  185 (348)
                      +|. +..++ .+..+++|++|++++| .+..++. .+..+++|++|++++|. +..+++ .+..+++|++|++++| .+.
T Consensus        72 ~n~-l~~~~-~l~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n-~l~  146 (272)
T 3rfs_A           72 GNK-LHDIS-ALKELTNLTYLILTGN-QLQSLPNGVFDKLTNLKELVLVENQ-LQSLPDGVFDKLTNLTYLNLAHN-QLQ  146 (272)
T ss_dssp             TSC-CCCCG-GGTTCTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECCSS-CCC
T ss_pred             CCC-CCCch-hhcCCCCCCEEECCCC-ccCccChhHhcCCcCCCEEECCCCc-CCccCHHHhccCCCCCEEECCCC-ccC
Confidence            876 55554 6788999999999985 5556555 45678899999999965 555654 4688999999999987 566


Q ss_pred             ccccc-CCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEecc
Q 039944          186 SLEEE-DGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEA  264 (348)
Q Consensus       186 ~~~~~-~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~  264 (348)
                      .++.. ++.+++|+.|+++++ .+...+.   ..+..+++|+.|++++  +.+..++...      +..+++|+.|++++
T Consensus       147 ~~~~~~~~~l~~L~~L~l~~n-~l~~~~~---~~~~~l~~L~~L~L~~--N~l~~~~~~~------~~~l~~L~~L~l~~  214 (272)
T 3rfs_A          147 SLPKGVFDKLTNLTELDLSYN-QLQSLPE---GVFDKLTQLKDLRLYQ--NQLKSVPDGV------FDRLTSLQYIWLHD  214 (272)
T ss_dssp             CCCTTTTTTCTTCCEEECCSS-CCCCCCT---TTTTTCTTCCEEECCS--SCCSCCCTTT------TTTCTTCCEEECCS
T ss_pred             ccCHHHhccCccCCEEECCCC-CcCccCH---HHhcCCccCCEEECCC--CcCCccCHHH------HhCCcCCCEEEccC
Confidence            66533 578899999999996 4555543   2467889999999998  5666666532      24678999999998


Q ss_pred             CCCccccccccccCCCcceEeccCCCCCCCCCC
Q 039944          265 FPNLERLSSSIVDLQNLTELYLFGCPKLKYFPE  297 (348)
Q Consensus       265 ~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~  297 (348)
                      ++..       ..+++|+.++++.+.-...+|.
T Consensus       215 N~~~-------~~~~~l~~l~~~~n~~~g~ip~  240 (272)
T 3rfs_A          215 NPWD-------CTCPGIRYLSEWINKHSGVVRN  240 (272)
T ss_dssp             SCBC-------CCTTTTHHHHHHHHHTGGGBBC
T ss_pred             CCcc-------ccCcHHHHHHHHHHhCCCcccC
Confidence            6422       3567888888877543334444

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=99.56  E-value=1.3e-13  Score=118.19  Aligned_cols=170  Identities=20%  Similarity=0.266  Sum_probs=72.8

Q ss_pred             cceecccccccccccCCCCCCCCCccEEEEecCCCcCccc-ccccCCCCcceeEeccCCCCCccc-ccCCCCCCcCeeee
Q 039944          125 LETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALP-KGMHNLTSLQYLRIGKGGALPSLE-EEDGLPTNLQSLDI  202 (348)
Q Consensus       125 L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~-~~l~~l~~L~~L~l~~~~~~~~~~-~~~~~~~~L~~L~l  202 (348)
                      .+++++++ ..+..+|..+.  ++++.|++++|. +..++ ..+..+++|++|++++| .+..++ ..+..+++|+.|++
T Consensus        16 ~~~l~~~~-~~l~~~p~~~~--~~l~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L   90 (251)
T 3m19_A           16 KKEVDCQG-KSLDSVPSGIP--ADTEKLDLQSTG-LATLSDATFRGLTKLTWLNLDYN-QLQTLSAGVFDDLTELGTLGL   90 (251)
T ss_dssp             GTEEECTT-CCCSSCCSCCC--TTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEEC
T ss_pred             CeEEecCC-CCccccCCCCC--CCCCEEEccCCC-cCccCHhHhcCcccCCEEECCCC-cCCccCHhHhccCCcCCEEEC
Confidence            33444443 33444444332  244555554432 22222 23444455555555544 222222 12344455555555


Q ss_pred             cCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccccc-ccccCCCc
Q 039944          203 WGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQNL  281 (348)
Q Consensus       203 ~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~~L  281 (348)
                      +++ .+...+..   .+..+++|+.|++++  +.+..++...      +..+++|++|++++ +.++.++. .+..+++|
T Consensus        91 ~~n-~l~~~~~~---~~~~l~~L~~L~L~~--N~l~~~~~~~------~~~l~~L~~L~Ls~-N~l~~~~~~~~~~l~~L  157 (251)
T 3m19_A           91 ANN-QLASLPLG---VFDHLTQLDKLYLGG--NQLKSLPSGV------FDRLTKLKELRLNT-NQLQSIPAGAFDKLTNL  157 (251)
T ss_dssp             TTS-CCCCCCTT---TTTTCTTCCEEECCS--SCCCCCCTTT------TTTCTTCCEEECCS-SCCCCCCTTTTTTCTTC
T ss_pred             CCC-cccccChh---HhcccCCCCEEEcCC--CcCCCcChhH------hccCCcccEEECcC-CcCCccCHHHcCcCcCC
Confidence            542 22322221   234455555555554  3444443321      12344555555555 24444443 34455555


Q ss_pred             ceEeccCCCCCCCCCCCCC--CCCCcEEEEcCCc
Q 039944          282 TELYLFGCPKLKYFPEKGL--PSSLLELRISRCP  313 (348)
Q Consensus       282 ~~L~l~~c~~l~~l~~~~~--~~~L~~L~l~~c~  313 (348)
                      +.|+++++ .++.++...+  .++|+.|++++++
T Consensus       158 ~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N~  190 (251)
T 3m19_A          158 QTLSLSTN-QLQSVPHGAFDRLGKLQTITLFGNQ  190 (251)
T ss_dssp             CEEECCSS-CCSCCCTTTTTTCTTCCEEECCSCC
T ss_pred             CEEECCCC-cCCccCHHHHhCCCCCCEEEeeCCc
Confidence            55555552 4444443222  3455555555543

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.55  E-value=2.1e-14  Score=127.07  Aligned_cols=201  Identities=20%  Similarity=0.126  Sum_probs=139.7

Q ss_pred             ccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEcCCCCcccch----hhhcCCCccceeccccccccccc
Q 039944           64 LLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIA----ERLDNNTSLETISIDSCGNLVSF  139 (348)
Q Consensus        64 ~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~----~~~~~l~~L~~L~l~~~~~l~~~  139 (348)
                      +|++|+++++. +....+.. +..       ..+++ |+.|++++|......+    ..+..+++|++|++++|......
T Consensus        92 ~L~~L~l~~n~-l~~~~~~~-~~~-------~~~~~-L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~  161 (310)
T 4glp_A           92 RLKELTLEDLK-ITGTMPPL-PLE-------ATGLA-LSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFS  161 (310)
T ss_dssp             CCCEEEEESCC-CBSCCCCC-SSS-------CCCBC-CSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCC
T ss_pred             ceeEEEeeCCE-eccchhhh-hhh-------ccCCC-CCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhh
Confidence            79999999864 44313321 100       12255 9999999887544322    34457999999999986543333


Q ss_pred             CCCCCCCCCccEEEEecCCCcCc--ccc--cccCCCCcceeEeccCCCCCccccc----CCCCCCcCeeeecCCccchhh
Q 039944          140 PEGGLPCAKLTRLTILDCKRLEA--LPK--GMHNLTSLQYLRIGKGGALPSLEEE----DGLPTNLQSLDIWGNMEIWKS  211 (348)
Q Consensus       140 ~~~~~~~~~L~~L~l~~~~~l~~--~~~--~l~~l~~L~~L~l~~~~~~~~~~~~----~~~~~~L~~L~l~~~~~l~~~  211 (348)
                      +..+..+++|++|++++|.....  ++.  .+..+++|++|++++| .++.++..    ++.+++|++|+++++. +...
T Consensus       162 ~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~l~~~~~~l~~~l~~L~~L~Ls~N~-l~~~  239 (310)
T 4glp_A          162 CEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNT-GMETPTGVCAALAAAGVQPHSLDLSHNS-LRAT  239 (310)
T ss_dssp             TTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSS-CCCCHHHHHHHHHHHTCCCSSEECTTSC-CCCC
T ss_pred             HHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCC-CCCchHHHHHHHHhcCCCCCEEECCCCC-CCcc
Confidence            45677889999999999764321  322  3367899999999987 56655532    3567999999999964 4443


Q ss_pred             -hhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCC
Q 039944          212 -MIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCP  290 (348)
Q Consensus       212 -~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~  290 (348)
                       +... ..+..+++|++|++++  +.++.+|...         +++|+.|++++ +.++.+|. +..+++|+.|++++++
T Consensus       240 ~p~~~-~~~~~~~~L~~L~Ls~--N~l~~lp~~~---------~~~L~~L~Ls~-N~l~~~~~-~~~l~~L~~L~L~~N~  305 (310)
T 4glp_A          240 VNPSA-PRCMWSSALNSLNLSF--AGLEQVPKGL---------PAKLRVLDLSS-NRLNRAPQ-PDELPEVDNLTLDGNP  305 (310)
T ss_dssp             CCSCC-SSCCCCTTCCCEECCS--SCCCSCCSCC---------CSCCSCEECCS-CCCCSCCC-TTSCCCCSCEECSSTT
T ss_pred             chhhH-HhccCcCcCCEEECCC--CCCCchhhhh---------cCCCCEEECCC-CcCCCCch-hhhCCCccEEECcCCC
Confidence             3210 1122347999999998  6788887743         47999999998 57887764 7888999999999964

>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=99.54  E-value=4e-16  Score=150.30  Aligned_cols=14  Identities=43%  Similarity=0.752  Sum_probs=10.2

Q ss_pred             CCCCcEEEEcCCch
Q 039944          301 PSSLLELRISRCPL  314 (348)
Q Consensus       301 ~~~L~~L~l~~c~~  314 (348)
                      +++|++|++++|+.
T Consensus       480 ~~~L~~L~L~~n~~  493 (594)
T 2p1m_B          480 CDSLRKLEIRDCPF  493 (594)
T ss_dssp             CTTCCEEEEESCSC
T ss_pred             CCCcCEEECcCCCC
Confidence            46777777777764

>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=99.54  E-value=3.4e-17  Score=152.94  Aligned_cols=111  Identities=16%  Similarity=0.208  Sum_probs=63.3

Q ss_pred             CCcccEEeecCcccccccCCC---CCCCCccEEEeccCccccc-----cccccccccccccccccCCccceeeeeCCCCc
Q 039944            5 NSSLEILDIEKCHSLTYIAAV---QLPSSLKKLQICDCYNIRT-----LTVEEGIQCSSSSRRYTSSLLEHLEIISCPSL   76 (348)
Q Consensus         5 ~~~L~~L~l~~~~~l~~l~~~---~~~~~L~~L~l~~~~~l~~-----~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l   76 (348)
                      .++|++|+++++ .++..+..   ..+++|++|++++|. +..     ++..        ++.++  +|++|+++++. +
T Consensus         2 ~~~l~~L~Ls~~-~l~~~~~~~~~~~~~~L~~L~L~~~~-l~~~~~~~l~~~--------l~~~~--~L~~L~Ls~n~-l   68 (461)
T 1z7x_W            2 SLDIQSLDIQCE-ELSDARWAELLPLLQQCQVVRLDDCG-LTEARCKDISSA--------LRVNP--ALAELNLRSNE-L   68 (461)
T ss_dssp             CEEEEEEEEESC-CCCHHHHHHHHHHHTTCSEEEEESSC-CCHHHHHHHHHH--------HHTCT--TCCEEECTTCC-C
T ss_pred             Cccceehhhhhc-ccCchhHHHHHhhcCCccEEEccCCC-CCHHHHHHHHHH--------HHhCC--CcCEEeCCCCc-C
Confidence            358999999864 55544322   227899999999998 653     2332        55666  99999999864 4


Q ss_pred             cccccCCCCCCCcceeEeccCCCCccEEEEcCCCCcc----cchhhhcCCCccceecccccc
Q 039944           77 TCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLG----SIAERLDNNTSLETISIDSCG  134 (348)
Q Consensus        77 ~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~----~~~~~~~~l~~L~~L~l~~~~  134 (348)
                      .+ .....+...+..     ...+|++|++++|....    .++..+..+++|++|++++|.
T Consensus        69 ~~-~~~~~l~~~l~~-----~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~  124 (461)
T 1z7x_W           69 GD-VGVHCVLQGLQT-----PSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNL  124 (461)
T ss_dssp             HH-HHHHHHHHTTCS-----TTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSB
T ss_pred             Ch-HHHHHHHHHHhh-----CCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCc
Confidence            33 111101000000     01026666666665321    234555666666666666543

>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=99.51  E-value=5.5e-16  Score=149.37  Aligned_cols=287  Identities=14%  Similarity=0.090  Sum_probs=144.7

Q ss_pred             CCCcccEEeecCcccccccCC---C-------------CCCCCccEEEeccCccccccccccccccccccccccCCccce
Q 039944            4 TNSSLEILDIEKCHSLTYIAA---V-------------QLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEH   67 (348)
Q Consensus         4 ~~~~L~~L~l~~~~~l~~l~~---~-------------~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~   67 (348)
                      ++++|+.|++.+|+.+.++..   .             ..+++|++|++++|. +.......      +.+.++  +|++
T Consensus        64 ~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~-~~~~~~~~------l~~~~~--~L~~  134 (594)
T 2p1m_B           64 RFPKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRMV-VTDDCLEL------IAKSFK--NFKV  134 (594)
T ss_dssp             HCTTCCEEEEECSCGGGGGTCSCTTSCCBCHHHHHHHHHHCTTCCEEEEESCB-CCHHHHHH------HHHHCT--TCCE
T ss_pred             hCCCceEEeccCCCchhhcccccccccchhhHHHHHHHHhCCCCCeEEeeCcE-EcHHHHHH------HHHhCC--CCcE
Confidence            568888888888765543321   0             126788888888876 44322110      112344  7778


Q ss_pred             eeeeCCCCcccc-ccCC-CCCCCcceeEec-----------------cCCCCccEEEEcCCC-Ccc--cchhhhcCCCcc
Q 039944           68 LEIISCPSLTCI-FSKN-ELPATLESLEVG-----------------NLPLSLKSLFVYGCS-KLG--SIAERLDNNTSL  125 (348)
Q Consensus        68 L~l~~~~~l~~~-~~~~-~~~~~L~~L~i~-----------------~l~~~L~~L~l~~~~-~~~--~~~~~~~~l~~L  125 (348)
                      |++.+|..+.+. ++.. ...++|++|.+.                 .+++ |+.|++++|. .+.  .+...+..+++|
T Consensus       135 L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~~~-L~~L~l~~~~~~~~~~~l~~l~~~~~~L  213 (594)
T 2p1m_B          135 LVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTYTS-LVSLNISCLASEVSFSALERLVTRCPNL  213 (594)
T ss_dssp             EEEESCEEEEHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCTTCCC-CCEEECTTCCSCCCHHHHHHHHHHCTTC
T ss_pred             EeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhhcCCc-CcEEEecccCCcCCHHHHHHHHHhCCCC
Confidence            877777543320 1110 122444444441                 2233 6666666554 111  112222345666


Q ss_pred             ceecccccccccccCCCCCCCCCccEEEEecCC-------------------Cc-----------CcccccccCCCCcce
Q 039944          126 ETISIDSCGNLVSFPEGGLPCAKLTRLTILDCK-------------------RL-----------EALPKGMHNLTSLQY  175 (348)
Q Consensus       126 ~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~-------------------~l-----------~~~~~~l~~l~~L~~  175 (348)
                      ++|++++|..+..++..+..+++|+.|.+.++.                   .+           ..++..+..+++|++
T Consensus       214 ~~L~L~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~l~~~l~~~~~L~~Ls~~~~~~~~~l~~~~~~~~~L~~  293 (594)
T 2p1m_B          214 KSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTT  293 (594)
T ss_dssp             CEEECCTTSCHHHHHHHHHHCTTCSEEECSBCCCCCCHHHHHHHHHHHHTCTTCCEEECCBTCCGGGGGGGHHHHTTCCE
T ss_pred             cEEecCCCCcHHHHHHHHhcCCcceEcccccccCccchhhHHHHHHHHhcCCCcccccCCcccchhhHHHHHHhhCCCCE
Confidence            666666654444444333344455555533221                   11           112222234567777


Q ss_pred             eEeccCCCCCc--ccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecc-------cCCcccccccchhc
Q 039944          176 LRIGKGGALPS--LEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISR-------CDEDMVSFPLEDKR  246 (348)
Q Consensus       176 L~l~~~~~~~~--~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~-------~c~~l~~~~~~~~~  246 (348)
                      |++++|. +..  +......+++|+.|++.++.......    .....+++|++|++.+       .|..+.......  
T Consensus       294 L~L~~~~-l~~~~l~~~~~~~~~L~~L~l~~~~~~~~l~----~l~~~~~~L~~L~L~~~~~~g~~~~~~l~~~~l~~--  366 (594)
T 2p1m_B          294 LNLSYAT-VQSYDLVKLLCQCPKLQRLWVLDYIEDAGLE----VLASTCKDLRELRVFPSEPFVMEPNVALTEQGLVS--  366 (594)
T ss_dssp             EECTTCC-CCHHHHHHHHTTCTTCCEEEEEGGGHHHHHH----HHHHHCTTCCEEEEECSCTTCSSCSSCCCHHHHHH--
T ss_pred             EEccCCC-CCHHHHHHHHhcCCCcCEEeCcCccCHHHHH----HHHHhCCCCCEEEEecCcccccccCCCCCHHHHHH--
Confidence            7777664 332  22224466777777777652111111    1223467777777733       022322111000  


Q ss_pred             cCCCCCCCCCccEEEeccCCCcccc-cccc-ccCCCcceEecc-----CCCCCCCCCCC-C------CCCCCcEEEEcC
Q 039944          247 LGTALPLPASLTSLWIEAFPNLERL-SSSI-VDLQNLTELYLF-----GCPKLKYFPEK-G------LPSSLLELRISR  311 (348)
Q Consensus       247 ~~~~~~~~~~L~~L~l~~~~~l~~i-~~~~-~~~~~L~~L~l~-----~c~~l~~l~~~-~------~~~~L~~L~l~~  311 (348)
                      +   ...+++|+.|.+.. +.++.. ...+ ..+++|+.|++.     +|+.++..|.. +      -+++|++|++++
T Consensus       367 l---~~~~~~L~~L~~~~-~~l~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~L~~  441 (594)
T 2p1m_B          367 V---SMGCPKLESVLYFC-RQMTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSG  441 (594)
T ss_dssp             H---HHHCTTCCEEEEEE-SCCCHHHHHHHHHHCTTCCEEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEECCS
T ss_pred             H---HHhchhHHHHHHhc-CCcCHHHHHHHHhhCCCcceeEeecccCCCcccccCCchhhHHHHHHhhCCCccEEeecC
Confidence            0   01256788886543 555432 1223 358899999998     67777765541 1      157899999977

>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=99.51  E-value=4.4e-13  Score=114.84  Aligned_cols=172  Identities=19%  Similarity=0.196  Sum_probs=105.4

Q ss_pred             ccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCC-C
Q 039944           64 LLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPE-G  142 (348)
Q Consensus        64 ~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~-~  142 (348)
                      +.+++++++. .+.. +|.. +            |.+++.|+++++......+..+..+++|++|++++| .+..++. .
T Consensus        15 ~~~~l~~~~~-~l~~-~p~~-~------------~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~   78 (251)
T 3m19_A           15 GKKEVDCQGK-SLDS-VPSG-I------------PADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYN-QLQTLSAGV   78 (251)
T ss_dssp             GGTEEECTTC-CCSS-CCSC-C------------CTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTS-CCCCCCTTT
T ss_pred             CCeEEecCCC-Cccc-cCCC-C------------CCCCCEEEccCCCcCccCHhHhcCcccCCEEECCCC-cCCccCHhH
Confidence            6777777763 4555 5542 2            334888888877644444556777888888888874 4444443 4


Q ss_pred             CCCCCCccEEEEecCCCcCccc-ccccCCCCcceeEeccCCCCCccccc-CCCCCCcCeeeecCCccchhhhhccccccC
Q 039944          143 GLPCAKLTRLTILDCKRLEALP-KGMHNLTSLQYLRIGKGGALPSLEEE-DGLPTNLQSLDIWGNMEIWKSMIERGRGFH  220 (348)
Q Consensus       143 ~~~~~~L~~L~l~~~~~l~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~-~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~  220 (348)
                      +..+++|+.|++++|. +..++ ..+..+++|++|++++| .+..++.. +..+++|+.|+++++ .+..++..   .+.
T Consensus        79 ~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~---~~~  152 (251)
T 3m19_A           79 FDDLTELGTLGLANNQ-LASLPLGVFDHLTQLDKLYLGGN-QLKSLPSGVFDRLTKLKELRLNTN-QLQSIPAG---AFD  152 (251)
T ss_dssp             TTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTT---TTT
T ss_pred             hccCCcCCEEECCCCc-ccccChhHhcccCCCCEEEcCCC-cCCCcChhHhccCCcccEEECcCC-cCCccCHH---HcC
Confidence            5667788888887754 44554 34567777777777776 45555532 455677777777764 44444421   355


Q ss_pred             CCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccC
Q 039944          221 RFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAF  265 (348)
Q Consensus       221 ~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~  265 (348)
                      .+++|+.|++++  +.+..++...      +..+++|+.|+++++
T Consensus       153 ~l~~L~~L~L~~--N~l~~~~~~~------~~~l~~L~~L~l~~N  189 (251)
T 3m19_A          153 KLTNLQTLSLST--NQLQSVPHGA------FDRLGKLQTITLFGN  189 (251)
T ss_dssp             TCTTCCEEECCS--SCCSCCCTTT------TTTCTTCCEEECCSC
T ss_pred             cCcCCCEEECCC--CcCCccCHHH------HhCCCCCCEEEeeCC
Confidence            666777777776  4555554421      134566667777664

>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=99.50  E-value=1.2e-13  Score=121.05  Aligned_cols=172  Identities=16%  Similarity=0.226  Sum_probs=134.3

Q ss_pred             CCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCccee
Q 039944           97 LPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYL  176 (348)
Q Consensus        97 l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L  176 (348)
                      ++. |+.|++++|. +..++ .+..+++|++|++++| .+..++. +..+++|+.|++++|. +..++ .+..+++|++|
T Consensus        45 l~~-L~~L~l~~~~-i~~~~-~~~~l~~L~~L~L~~n-~l~~~~~-l~~l~~L~~L~l~~n~-l~~~~-~l~~l~~L~~L  117 (291)
T 1h6t_A           45 LNS-IDQIIANNSD-IKSVQ-GIQYLPNVTKLFLNGN-KLTDIKP-LANLKNLGWLFLDENK-VKDLS-SLKDLKKLKSL  117 (291)
T ss_dssp             HHT-CCEEECTTSC-CCCCT-TGGGCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSC-CCCGG-GGTTCTTCCEE
T ss_pred             cCc-ccEEEccCCC-cccCh-hHhcCCCCCEEEccCC-ccCCCcc-cccCCCCCEEECCCCc-CCCCh-hhccCCCCCEE
Confidence            466 9999999875 55554 4788999999999985 5656655 6778899999999964 66664 58889999999


Q ss_pred             EeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCC
Q 039944          177 RIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPAS  256 (348)
Q Consensus       177 ~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~  256 (348)
                      ++++| .+..++ .+..+++|+.|+++++ .+....     .+..+++|+.|++++  +.+..++. .       ..+++
T Consensus       118 ~L~~n-~i~~~~-~l~~l~~L~~L~l~~n-~l~~~~-----~l~~l~~L~~L~L~~--N~l~~~~~-l-------~~l~~  179 (291)
T 1h6t_A          118 SLEHN-GISDIN-GLVHLPQLESLYLGNN-KITDIT-----VLSRLTKLDTLSLED--NQISDIVP-L-------AGLTK  179 (291)
T ss_dssp             ECTTS-CCCCCG-GGGGCTTCCEEECCSS-CCCCCG-----GGGGCTTCSEEECCS--SCCCCCGG-G-------TTCTT
T ss_pred             ECCCC-cCCCCh-hhcCCCCCCEEEccCC-cCCcch-----hhccCCCCCEEEccC--Cccccchh-h-------cCCCc
Confidence            99987 566666 6788899999999985 455543     467889999999998  46666655 3       47789


Q ss_pred             ccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCC
Q 039944          257 LTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFP  296 (348)
Q Consensus       257 L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~  296 (348)
                      |+.|++++ +.++.++ .+..+++|+.|++++++ +...|
T Consensus       180 L~~L~L~~-N~i~~l~-~l~~l~~L~~L~l~~n~-i~~~~  216 (291)
T 1h6t_A          180 LQNLYLSK-NHISDLR-ALAGLKNLDVLELFSQE-CLNKP  216 (291)
T ss_dssp             CCEEECCS-SCCCBCG-GGTTCTTCSEEEEEEEE-EECCC
T ss_pred             cCEEECCC-CcCCCCh-hhccCCCCCEEECcCCc-ccCCc
Confidence            99999998 4788777 48889999999999853 44433

>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=99.50  E-value=1.5e-13  Score=120.38  Aligned_cols=174  Identities=17%  Similarity=0.216  Sum_probs=132.8

Q ss_pred             ccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceeccccccccc
Q 039944           58 RRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLV  137 (348)
Q Consensus        58 ~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~  137 (348)
                      ..+.  +|+.|+++++. +.. ++.      +     ..++. |+.|++++|. +..++. +..+++|++|++++| .+.
T Consensus        43 ~~l~--~L~~L~l~~~~-i~~-~~~------~-----~~l~~-L~~L~L~~n~-l~~~~~-l~~l~~L~~L~l~~n-~l~  103 (291)
T 1h6t_A           43 NELN--SIDQIIANNSD-IKS-VQG------I-----QYLPN-VTKLFLNGNK-LTDIKP-LANLKNLGWLFLDEN-KVK  103 (291)
T ss_dssp             HHHH--TCCEEECTTSC-CCC-CTT------G-----GGCTT-CCEEECCSSC-CCCCGG-GTTCTTCCEEECCSS-CCC
T ss_pred             hhcC--cccEEEccCCC-ccc-Chh------H-----hcCCC-CCEEEccCCc-cCCCcc-cccCCCCCEEECCCC-cCC
Confidence            5666  99999998863 554 432      2     33466 9999999886 555555 889999999999985 566


Q ss_pred             ccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhcccc
Q 039944          138 SFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGR  217 (348)
Q Consensus       138 ~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~  217 (348)
                      .++. +..+++|+.|++++| .+..+ +.+..+++|++|++++| .+..++ .+..+++|+.|++++| .+...+     
T Consensus       104 ~~~~-l~~l~~L~~L~L~~n-~i~~~-~~l~~l~~L~~L~l~~n-~l~~~~-~l~~l~~L~~L~L~~N-~l~~~~-----  172 (291)
T 1h6t_A          104 DLSS-LKDLKKLKSLSLEHN-GISDI-NGLVHLPQLESLYLGNN-KITDIT-VLSRLTKLDTLSLEDN-QISDIV-----  172 (291)
T ss_dssp             CGGG-GTTCTTCCEEECTTS-CCCCC-GGGGGCTTCCEEECCSS-CCCCCG-GGGGCTTCSEEECCSS-CCCCCG-----
T ss_pred             CChh-hccCCCCCEEECCCC-cCCCC-hhhcCCCCCCEEEccCC-cCCcch-hhccCCCCCEEEccCC-ccccch-----
Confidence            6554 677889999999996 46666 46788999999999987 566665 7888999999999996 455554     


Q ss_pred             ccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccc
Q 039944          218 GFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLS  272 (348)
Q Consensus       218 ~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~  272 (348)
                      .+..+++|+.|++++  +.+..++. .       ..+++|+.|+++++ .+...|
T Consensus       173 ~l~~l~~L~~L~L~~--N~i~~l~~-l-------~~l~~L~~L~l~~n-~i~~~~  216 (291)
T 1h6t_A          173 PLAGLTKLQNLYLSK--NHISDLRA-L-------AGLKNLDVLELFSQ-ECLNKP  216 (291)
T ss_dssp             GGTTCTTCCEEECCS--SCCCBCGG-G-------TTCTTCSEEEEEEE-EEECCC
T ss_pred             hhcCCCccCEEECCC--CcCCCChh-h-------ccCCCCCEEECcCC-cccCCc
Confidence            267889999999998  57777764 3       47889999999985 454444

>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=99.49  E-value=3.9e-15  Score=135.87  Aligned_cols=238  Identities=16%  Similarity=0.081  Sum_probs=152.8

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCC--CccccccCCCCCCCcceeE--eccCCCCccE
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCP--SLTCIFSKNELPATLESLE--VGNLPLSLKS  103 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~--~l~~~~~~~~~~~~L~~L~--i~~l~~~L~~  103 (348)
                      +++|++|++++|. +.......   -...+..++  +|++|++++|.  .+...+|.     .++.+.  +..++. |+.
T Consensus        31 ~~~L~~L~L~~n~-i~~~~~~~---l~~~l~~~~--~L~~L~Ls~~~~~~l~~~~~~-----~~~~l~~~l~~~~~-L~~   98 (386)
T 2ca6_A           31 DDSVKEIVLSGNT-IGTEAARW---LSENIASKK--DLEIAEFSDIFTGRVKDEIPE-----ALRLLLQALLKCPK-LHT   98 (386)
T ss_dssp             CSCCCEEECTTSE-ECHHHHHH---HHHTTTTCT--TCCEEECCSCCTTSCGGGSHH-----HHHHHHHHHTTCTT-CCE
T ss_pred             CCCccEEECCCCC-CCHHHHHH---HHHHHHhCC--CccEEeCcccccCccccchhH-----HHHHHHHHHhhCCc-ccE
Confidence            6889999999986 55432110   000245566  89999998863  22211121     111000  023366 999


Q ss_pred             EEEcCCCCcc----cchhhhcCCCccceeccccccccc----ccCCCCCCC---------CCccEEEEecCCCc-Cccc-
Q 039944          104 LFVYGCSKLG----SIAERLDNNTSLETISIDSCGNLV----SFPEGGLPC---------AKLTRLTILDCKRL-EALP-  164 (348)
Q Consensus       104 L~l~~~~~~~----~~~~~~~~l~~L~~L~l~~~~~l~----~~~~~~~~~---------~~L~~L~l~~~~~l-~~~~-  164 (348)
                      |++++|....    .++..+..+++|++|++++|....    .++..+..+         ++|++|++++|..- ..++ 
T Consensus        99 L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~  178 (386)
T 2ca6_A           99 VRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKE  178 (386)
T ss_dssp             EECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHH
T ss_pred             EECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHH
Confidence            9999887444    256778889999999999864321    122222222         68999999987532 2333 


Q ss_pred             --ccccCCCCcceeEeccCCCCCc------ccccCCCCCCcCeeeecCCccc----hhhhhccccccCCCCCccEEEecc
Q 039944          165 --KGMHNLTSLQYLRIGKGGALPS------LEEEDGLPTNLQSLDIWGNMEI----WKSMIERGRGFHRFSSLRRLTISR  232 (348)
Q Consensus       165 --~~l~~l~~L~~L~l~~~~~~~~------~~~~~~~~~~L~~L~l~~~~~l----~~~~~~~~~~~~~l~~L~~L~l~~  232 (348)
                        ..+..+++|++|++++| .+..      .+..+..+++|+.|++++|.--    ..++    ..+..+++|+.|++++
T Consensus       179 l~~~l~~~~~L~~L~L~~n-~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~----~~l~~~~~L~~L~L~~  253 (386)
T 2ca6_A          179 WAKTFQSHRLLHTVKMVQN-GIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALA----IALKSWPNLRELGLND  253 (386)
T ss_dssp             HHHHHHHCTTCCEEECCSS-CCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHH----HHGGGCTTCCEEECTT
T ss_pred             HHHHHHhCCCcCEEECcCC-CCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHH----HHHccCCCcCEEECCC
Confidence              35567889999999987 4441      2225677899999999996531    3333    2467889999999998


Q ss_pred             cCCccccc-----ccchhccCCCCCCCCCccEEEeccCCCccc-----ccccc-ccCCCcceEeccCCC
Q 039944          233 CDEDMVSF-----PLEDKRLGTALPLPASLTSLWIEAFPNLER-----LSSSI-VDLQNLTELYLFGCP  290 (348)
Q Consensus       233 ~c~~l~~~-----~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~-----i~~~~-~~~~~L~~L~l~~c~  290 (348)
                       | .+...     +....     ...+++|++|++++| .++.     +|..+ .++++|+.|++++|+
T Consensus       254 -n-~i~~~~~~~l~~~l~-----~~~~~~L~~L~L~~n-~i~~~g~~~l~~~l~~~l~~L~~L~l~~N~  314 (386)
T 2ca6_A          254 -C-LLSARGAAAVVDAFS-----KLENIGLQTLRLQYN-EIELDAVRTLKTVIDEKMPDLLFLELNGNR  314 (386)
T ss_dssp             -C-CCCHHHHHHHHHHHH-----TCSSCCCCEEECCSS-CCBHHHHHHHHHHHHHHCTTCCEEECTTSB
T ss_pred             -C-CCchhhHHHHHHHHh-----hccCCCeEEEECcCC-cCCHHHHHHHHHHHHhcCCCceEEEccCCc
Confidence             4 44432     33220     013678999999985 5655     77766 668999999999964

>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=99.47  E-value=7.4e-13  Score=109.10  Aligned_cols=147  Identities=16%  Similarity=0.112  Sum_probs=65.0

Q ss_pred             CccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccE
Q 039944          148 KLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRR  227 (348)
Q Consensus       148 ~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~  227 (348)
                      +|+.|++++| .+..+| .+..+++|++|++++| .+..++ .+..+++|+.|+++++. +.....   ..+..+++|+.
T Consensus        45 ~L~~L~l~~n-~i~~l~-~l~~l~~L~~L~l~~n-~~~~~~-~l~~l~~L~~L~l~~n~-l~~~~~---~~l~~l~~L~~  116 (197)
T 4ezg_A           45 SLTYITLANI-NVTDLT-GIEYAHNIKDLTINNI-HATNYN-PISGLSNLERLRIMGKD-VTSDKI---PNLSGLTSLTL  116 (197)
T ss_dssp             TCCEEEEESS-CCSCCT-TGGGCTTCSEEEEESC-CCSCCG-GGTTCTTCCEEEEECTT-CBGGGS---CCCTTCTTCCE
T ss_pred             CccEEeccCC-CccChH-HHhcCCCCCEEEccCC-CCCcch-hhhcCCCCCEEEeECCc-cCcccC---hhhcCCCCCCE
Confidence            4444444442 233333 3444444555555444 333333 34444555555555432 222111   13444555555


Q ss_pred             EEecccCCcccc-cccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCCCCCCCcE
Q 039944          228 LTISRCDEDMVS-FPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLE  306 (348)
Q Consensus       228 L~l~~~c~~l~~-~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~L~~  306 (348)
                      |++++  +.+.. .+...       ..+++|++|++++|..++.++ .+..+++|+.|++++| .+++++...-.++|++
T Consensus       117 L~Ls~--n~i~~~~~~~l-------~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l~~n-~i~~~~~l~~l~~L~~  185 (197)
T 4ezg_A          117 LDISH--SAHDDSILTKI-------NTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQFD-GVHDYRGIEDFPKLNQ  185 (197)
T ss_dssp             EECCS--SBCBGGGHHHH-------TTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEECTTB-CCCCCTTGGGCSSCCE
T ss_pred             EEecC--CccCcHhHHHH-------hhCCCCCEEEccCCCCccccH-hhcCCCCCCEEECCCC-CCcChHHhccCCCCCE
Confidence            55554  22322 22222       244555555555543344444 4555555555555553 3444432122455566


Q ss_pred             EEEcCCc
Q 039944          307 LRISRCP  313 (348)
Q Consensus       307 L~l~~c~  313 (348)
                      |++++++
T Consensus       186 L~l~~N~  192 (197)
T 4ezg_A          186 LYAFSQT  192 (197)
T ss_dssp             EEECBC-
T ss_pred             EEeeCcc
Confidence            6655543

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=99.46  E-value=4.8e-13  Score=110.25  Aligned_cols=149  Identities=19%  Similarity=0.171  Sum_probs=84.4

Q ss_pred             CCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeee
Q 039944          122 NTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLD  201 (348)
Q Consensus       122 l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~  201 (348)
                      +++|+.|++++ +.+..++ .+..+++|++|++++| .+..+ +.+..+++|++|++++|.-....+..++.+++|+.|+
T Consensus        43 l~~L~~L~l~~-n~i~~l~-~l~~l~~L~~L~l~~n-~~~~~-~~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~  118 (197)
T 4ezg_A           43 MNSLTYITLAN-INVTDLT-GIEYAHNIKDLTINNI-HATNY-NPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLD  118 (197)
T ss_dssp             HHTCCEEEEES-SCCSCCT-TGGGCTTCSEEEEESC-CCSCC-GGGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEEE
T ss_pred             cCCccEEeccC-CCccChH-HHhcCCCCCEEEccCC-CCCcc-hhhhcCCCCCEEEeECCccCcccChhhcCCCCCCEEE
Confidence            44555555554 2333444 3444555666666655 33333 2455566666666666532222333556666777777


Q ss_pred             ecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCc
Q 039944          202 IWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNL  281 (348)
Q Consensus       202 l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L  281 (348)
                      ++++.-....+    ..+..+++|+.|++++ |..+..++. .       ..+++|++|++++| .++.++ .+..+++|
T Consensus       119 Ls~n~i~~~~~----~~l~~l~~L~~L~L~~-n~~i~~~~~-l-------~~l~~L~~L~l~~n-~i~~~~-~l~~l~~L  183 (197)
T 4ezg_A          119 ISHSAHDDSIL----TKINTLPKVNSIDLSY-NGAITDIMP-L-------KTLPELKSLNIQFD-GVHDYR-GIEDFPKL  183 (197)
T ss_dssp             CCSSBCBGGGH----HHHTTCSSCCEEECCS-CTBCCCCGG-G-------GGCSSCCEEECTTB-CCCCCT-TGGGCSSC
T ss_pred             ecCCccCcHhH----HHHhhCCCCCEEEccC-CCCccccHh-h-------cCCCCCCEEECCCC-CCcChH-HhccCCCC
Confidence            76643222222    1356677777777777 433555553 2       25667777777774 566665 66777788


Q ss_pred             ceEeccCC
Q 039944          282 TELYLFGC  289 (348)
Q Consensus       282 ~~L~l~~c  289 (348)
                      +.|+++++
T Consensus       184 ~~L~l~~N  191 (197)
T 4ezg_A          184 NQLYAFSQ  191 (197)
T ss_dssp             CEEEECBC
T ss_pred             CEEEeeCc
Confidence            88888774

>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=99.45  E-value=4.9e-13  Score=128.45  Aligned_cols=173  Identities=16%  Similarity=0.216  Sum_probs=134.3

Q ss_pred             CCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCccee
Q 039944           97 LPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYL  176 (348)
Q Consensus        97 l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L  176 (348)
                      ++. |+.|++++|. +..++ .+..+++|+.|+++.| .+..++. +..+++|+.|++++| .+..++ .+..+++|++|
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~~L  114 (605)
T 1m9s_A           42 LNS-IDQIIANNSD-IKSVQ-GIQYLPNVTKLFLNGN-KLTDIKP-LTNLKNLGWLFLDEN-KIKDLS-SLKDLKKLKSL  114 (605)
T ss_dssp             HTT-CCCCBCTTCC-CCCCT-TGGGCTTCCEEECTTS-CCCCCGG-GGGCTTCCEEECCSS-CCCCCT-TSTTCTTCCEE
T ss_pred             CCC-CCEEECcCCC-CCCCh-HHccCCCCCEEEeeCC-CCCCChh-hccCCCCCEEECcCC-CCCCCh-hhccCCCCCEE
Confidence            366 8888998776 55555 4788999999999985 4555555 667889999999996 466664 68889999999


Q ss_pred             EeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCC
Q 039944          177 RIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPAS  256 (348)
Q Consensus       177 ~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~  256 (348)
                      ++++| .+..++ .+..+++|+.|++++| .+..+.     .+..+++|+.|++++  +.+..++. .       ..+++
T Consensus       115 ~Ls~N-~l~~l~-~l~~l~~L~~L~Ls~N-~l~~l~-----~l~~l~~L~~L~Ls~--N~l~~~~~-l-------~~l~~  176 (605)
T 1m9s_A          115 SLEHN-GISDIN-GLVHLPQLESLYLGNN-KITDIT-----VLSRLTKLDTLSLED--NQISDIVP-L-------AGLTK  176 (605)
T ss_dssp             ECTTS-CCCCCG-GGGGCTTCSEEECCSS-CCCCCG-----GGGSCTTCSEEECCS--SCCCCCGG-G-------TTCTT
T ss_pred             EecCC-CCCCCc-cccCCCccCEEECCCC-ccCCch-----hhcccCCCCEEECcC--CcCCCchh-h-------ccCCC
Confidence            99987 566666 6888999999999996 455543     467899999999998  46666555 3       47789


Q ss_pred             ccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCC
Q 039944          257 LTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPE  297 (348)
Q Consensus       257 L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~  297 (348)
                      |+.|++++| .+..++ .+..+++|+.|++++|+ +...|.
T Consensus       177 L~~L~Ls~N-~i~~l~-~l~~l~~L~~L~L~~N~-l~~~p~  214 (605)
T 1m9s_A          177 LQNLYLSKN-HISDLR-ALAGLKNLDVLELFSQE-CLNKPI  214 (605)
T ss_dssp             CCEEECCSS-CCCBCG-GGTTCTTCSEEECCSEE-EECCCC
T ss_pred             CCEEECcCC-CCCCCh-HHccCCCCCEEEccCCc-CcCCcc
Confidence            999999985 677775 68889999999999864 444443

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.41  E-value=4.2e-12  Score=120.83  Aligned_cols=152  Identities=22%  Similarity=0.270  Sum_probs=66.8

Q ss_pred             ccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEecc
Q 039944          101 LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGK  180 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~  180 (348)
                      |+.|++++|. +..+|   ..+++|++|++++| .+..+|. +..  +|+.|++++| .+..+|.   .+++|+.|++++
T Consensus        82 L~~L~Ls~N~-l~~ip---~~l~~L~~L~Ls~N-~l~~ip~-l~~--~L~~L~Ls~N-~l~~lp~---~l~~L~~L~Ls~  149 (571)
T 3cvr_A           82 ITVLEITQNA-LISLP---ELPASLEYLDACDN-RLSTLPE-LPA--SLKHLDVDNN-QLTMLPE---LPALLEYINADN  149 (571)
T ss_dssp             CSEEECCSSC-CSCCC---CCCTTCCEEECCSS-CCSCCCC-CCT--TCCEEECCSS-CCSCCCC---CCTTCCEEECCS
T ss_pred             CCEEECcCCC-Ccccc---cccCCCCEEEccCC-CCCCcch-hhc--CCCEEECCCC-cCCCCCC---cCccccEEeCCC
Confidence            4555554443 33333   23445555555542 3333444 222  4555555553 2333443   344555555554


Q ss_pred             CCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCc---
Q 039944          181 GGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASL---  257 (348)
Q Consensus       181 ~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L---  257 (348)
                      | .++.+|.   .+++|+.|++++| .+..++    . +.  ++|+.|++++  +.+..+|. ..         .+|   
T Consensus       150 N-~l~~lp~---~l~~L~~L~Ls~N-~L~~lp----~-l~--~~L~~L~Ls~--N~L~~lp~-~~---------~~L~~~  205 (571)
T 3cvr_A          150 N-QLTMLPE---LPTSLEVLSVRNN-QLTFLP----E-LP--ESLEALDVST--NLLESLPA-VP---------VRNHHS  205 (571)
T ss_dssp             S-CCSCCCC---CCTTCCEEECCSS-CCSCCC----C-CC--TTCCEEECCS--SCCSSCCC-CC---------------
T ss_pred             C-ccCcCCC---cCCCcCEEECCCC-CCCCcc----h-hh--CCCCEEECcC--CCCCchhh-HH---------Hhhhcc
Confidence            4 3333442   3445555555553 233332    1 11  4555555554  34444443 20         133   


Q ss_pred             ----cEEEeccCCCccccccccccCCCcceEeccCC
Q 039944          258 ----TSLWIEAFPNLERLSSSIVDLQNLTELYLFGC  289 (348)
Q Consensus       258 ----~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c  289 (348)
                          +.|++++ +.++.+|..+..+++|+.|++++|
T Consensus       206 ~~~L~~L~Ls~-N~l~~lp~~l~~l~~L~~L~L~~N  240 (571)
T 3cvr_A          206 EETEIFFRCRE-NRITHIPENILSLDPTCTIILEDN  240 (571)
T ss_dssp             --CCEEEECCS-SCCCCCCGGGGGSCTTEEEECCSS
T ss_pred             cccceEEecCC-CcceecCHHHhcCCCCCEEEeeCC
Confidence                5555555 344555554544555555555554

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.41  E-value=2.5e-12  Score=122.35  Aligned_cols=175  Identities=24%  Similarity=0.294  Sum_probs=137.4

Q ss_pred             CccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEec
Q 039944          100 SLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIG  179 (348)
Q Consensus       100 ~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~  179 (348)
                      +++.|+++++. +..+|..+  .++|++|++++| .+..+|   ..+++|+.|++++| .+..+|. +..  +|++|+++
T Consensus        60 ~L~~L~Ls~n~-L~~lp~~l--~~~L~~L~Ls~N-~l~~ip---~~l~~L~~L~Ls~N-~l~~ip~-l~~--~L~~L~Ls  128 (571)
T 3cvr_A           60 QFSELQLNRLN-LSSLPDNL--PPQITVLEITQN-ALISLP---ELPASLEYLDACDN-RLSTLPE-LPA--SLKHLDVD  128 (571)
T ss_dssp             TCSEEECCSSC-CSCCCSCC--CTTCSEEECCSS-CCSCCC---CCCTTCCEEECCSS-CCSCCCC-CCT--TCCEEECC
T ss_pred             CccEEEeCCCC-CCccCHhH--cCCCCEEECcCC-CCcccc---cccCCCCEEEccCC-CCCCcch-hhc--CCCEEECC
Confidence            38999999876 56677655  488999999984 566888   34679999999996 5677877 544  99999999


Q ss_pred             cCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccE
Q 039944          180 KGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTS  259 (348)
Q Consensus       180 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~  259 (348)
                      +| .+..+|.   .+++|+.|+++++ .++.++       ..+++|+.|++++  +.+..+|. .       .  ++|+.
T Consensus       129 ~N-~l~~lp~---~l~~L~~L~Ls~N-~l~~lp-------~~l~~L~~L~Ls~--N~L~~lp~-l-------~--~~L~~  184 (571)
T 3cvr_A          129 NN-QLTMLPE---LPALLEYINADNN-QLTMLP-------ELPTSLEVLSVRN--NQLTFLPE-L-------P--ESLEA  184 (571)
T ss_dssp             SS-CCSCCCC---CCTTCCEEECCSS-CCSCCC-------CCCTTCCEEECCS--SCCSCCCC-C-------C--TTCCE
T ss_pred             CC-cCCCCCC---cCccccEEeCCCC-ccCcCC-------CcCCCcCEEECCC--CCCCCcch-h-------h--CCCCE
Confidence            87 5777884   7899999999995 466554       2578999999998  56777776 4       2  78999


Q ss_pred             EEeccCCCccccccccccCCCc-------ceEeccCCCCCCCCCCCCC-CCCCcEEEEcCCch
Q 039944          260 LWIEAFPNLERLSSSIVDLQNL-------TELYLFGCPKLKYFPEKGL-PSSLLELRISRCPL  314 (348)
Q Consensus       260 L~l~~~~~l~~i~~~~~~~~~L-------~~L~l~~c~~l~~l~~~~~-~~~L~~L~l~~c~~  314 (348)
                      |++++ +.++.+|. +..  +|       +.|++++| .++.+|.... .++|+.|++++|+.
T Consensus       185 L~Ls~-N~L~~lp~-~~~--~L~~~~~~L~~L~Ls~N-~l~~lp~~l~~l~~L~~L~L~~N~l  242 (571)
T 3cvr_A          185 LDVST-NLLESLPA-VPV--RNHHSEETEIFFRCREN-RITHIPENILSLDPTCTIILEDNPL  242 (571)
T ss_dssp             EECCS-SCCSSCCC-CC----------CCEEEECCSS-CCCCCCGGGGGSCTTEEEECCSSSC
T ss_pred             EECcC-CCCCchhh-HHH--hhhcccccceEEecCCC-cceecCHHHhcCCCCCEEEeeCCcC
Confidence            99998 57888887 554  77       99999995 7888887322 78999999999973

>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=99.41  E-value=8.8e-13  Score=126.66  Aligned_cols=192  Identities=16%  Similarity=0.189  Sum_probs=142.3

Q ss_pred             CccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEcCC
Q 039944           30 SLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGC  109 (348)
Q Consensus        30 ~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~~  109 (348)
                      .+..+.+.... +..+..         ...+.  +|+.|++.++. +.. ++.      +     ..++. |+.|++++|
T Consensus        22 ~l~~l~l~~~~-i~~~~~---------~~~L~--~L~~L~l~~n~-i~~-l~~------l-----~~l~~-L~~L~Ls~N   75 (605)
T 1m9s_A           22 ETIKDNLKKKS-VTDAVT---------QNELN--SIDQIIANNSD-IKS-VQG------I-----QYLPN-VTKLFLNGN   75 (605)
T ss_dssp             HHHHHHTTCSC-TTSEEC---------HHHHT--TCCCCBCTTCC-CCC-CTT------G-----GGCTT-CCEEECTTS
T ss_pred             HHHHHhccCCC-cccccc---------hhcCC--CCCEEECcCCC-CCC-ChH------H-----ccCCC-CCEEEeeCC
Confidence            44455555544 444433         35666  99999998864 554 432      2     33476 999999988


Q ss_pred             CCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccc
Q 039944          110 SKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEE  189 (348)
Q Consensus       110 ~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~  189 (348)
                      . +..++. +..+++|+.|+++.| .+..++ .+..+++|+.|++++|. +..+ +.+..+++|+.|++++| .+..++ 
T Consensus        76 ~-l~~~~~-l~~l~~L~~L~Ls~N-~l~~l~-~l~~l~~L~~L~Ls~N~-l~~l-~~l~~l~~L~~L~Ls~N-~l~~l~-  147 (605)
T 1m9s_A           76 K-LTDIKP-LTNLKNLGWLFLDEN-KIKDLS-SLKDLKKLKSLSLEHNG-ISDI-NGLVHLPQLESLYLGNN-KITDIT-  147 (605)
T ss_dssp             C-CCCCGG-GGGCTTCCEEECCSS-CCCCCT-TSTTCTTCCEEECTTSC-CCCC-GGGGGCTTCSEEECCSS-CCCCCG-
T ss_pred             C-CCCChh-hccCCCCCEEECcCC-CCCCCh-hhccCCCCCEEEecCCC-CCCC-ccccCCCccCEEECCCC-ccCCch-
Confidence            6 555554 889999999999985 566665 57778999999999964 5665 46888999999999987 566675 


Q ss_pred             cCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcc
Q 039944          190 EDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLE  269 (348)
Q Consensus       190 ~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~  269 (348)
                      .+..+++|+.|++++| .+....     .+..+++|+.|++++  +.+..++. .       ..+++|+.|++++| .+.
T Consensus       148 ~l~~l~~L~~L~Ls~N-~l~~~~-----~l~~l~~L~~L~Ls~--N~i~~l~~-l-------~~l~~L~~L~L~~N-~l~  210 (605)
T 1m9s_A          148 VLSRLTKLDTLSLEDN-QISDIV-----PLAGLTKLQNLYLSK--NHISDLRA-L-------AGLKNLDVLELFSQ-ECL  210 (605)
T ss_dssp             GGGSCTTCSEEECCSS-CCCCCG-----GGTTCTTCCEEECCS--SCCCBCGG-G-------TTCTTCSEEECCSE-EEE
T ss_pred             hhcccCCCCEEECcCC-cCCCch-----hhccCCCCCEEECcC--CCCCCChH-H-------ccCCCCCEEEccCC-cCc
Confidence            7888999999999996 455544     267899999999998  56777654 3       47889999999985 444


Q ss_pred             ccc
Q 039944          270 RLS  272 (348)
Q Consensus       270 ~i~  272 (348)
                      ..|
T Consensus       211 ~~p  213 (605)
T 1m9s_A          211 NKP  213 (605)
T ss_dssp             CCC
T ss_pred             CCc
Confidence            433

>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=99.40  E-value=7.1e-15  Score=134.17  Aligned_cols=232  Identities=12%  Similarity=0.070  Sum_probs=152.5

Q ss_pred             cccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEcCCC--Ccc-cchh-------hhcCCCccc
Q 039944           57 SRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCS--KLG-SIAE-------RLDNNTSLE  126 (348)
Q Consensus        57 ~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~~~--~~~-~~~~-------~~~~l~~L~  126 (348)
                      ++.++  +|++|+++++. +.. .....+...+     ..++. |+.|++++|.  .+. .+|.       .+..+++|+
T Consensus        28 l~~~~--~L~~L~L~~n~-i~~-~~~~~l~~~l-----~~~~~-L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~   97 (386)
T 2ca6_A           28 LLEDD--SVKEIVLSGNT-IGT-EAARWLSENI-----ASKKD-LEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLH   97 (386)
T ss_dssp             HHHCS--CCCEEECTTSE-ECH-HHHHHHHHTT-----TTCTT-CCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCC
T ss_pred             HhcCC--CccEEECCCCC-CCH-HHHHHHHHHH-----HhCCC-ccEEeCcccccCccccchhHHHHHHHHHHhhCCccc
Confidence            45566  89999999864 433 2111111112     22366 9999998873  221 2233       346899999


Q ss_pred             eeccccccccc----ccCCCCCCCCCccEEEEecCCCcC----cccccccCC---------CCcceeEeccCCCC-Cccc
Q 039944          127 TISIDSCGNLV----SFPEGGLPCAKLTRLTILDCKRLE----ALPKGMHNL---------TSLQYLRIGKGGAL-PSLE  188 (348)
Q Consensus       127 ~L~l~~~~~l~----~~~~~~~~~~~L~~L~l~~~~~l~----~~~~~l~~l---------~~L~~L~l~~~~~~-~~~~  188 (348)
                      +|++++|....    .++..+..+++|++|++++|..-.    .++..+..+         ++|++|++++|.-. ..++
T Consensus        98 ~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~  177 (386)
T 2ca6_A           98 TVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMK  177 (386)
T ss_dssp             EEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHH
T ss_pred             EEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHH
Confidence            99999864332    255556667899999999976421    222233344         89999999987432 2333


Q ss_pred             ---ccCCCCCCcCeeeecCCccchh-----hhhccccccCCCCCccEEEecccCCcc-----cccccchhccCCCCCCCC
Q 039944          189 ---EEDGLPTNLQSLDIWGNMEIWK-----SMIERGRGFHRFSSLRRLTISRCDEDM-----VSFPLEDKRLGTALPLPA  255 (348)
Q Consensus       189 ---~~~~~~~~L~~L~l~~~~~l~~-----~~~~~~~~~~~l~~L~~L~l~~~c~~l-----~~~~~~~~~~~~~~~~~~  255 (348)
                         ..+..+++|+.|++++|. +..     ...   ..+..+++|+.|++++ | .+     ..++...       ..++
T Consensus       178 ~l~~~l~~~~~L~~L~L~~n~-l~~~g~~~l~~---~~l~~~~~L~~L~Ls~-n-~l~~~g~~~l~~~l-------~~~~  244 (386)
T 2ca6_A          178 EWAKTFQSHRLLHTVKMVQNG-IRPEGIEHLLL---EGLAYCQELKVLDLQD-N-TFTHLGSSALAIAL-------KSWP  244 (386)
T ss_dssp             HHHHHHHHCTTCCEEECCSSC-CCHHHHHHHHH---TTGGGCTTCCEEECCS-S-CCHHHHHHHHHHHG-------GGCT
T ss_pred             HHHHHHHhCCCcCEEECcCCC-CCHhHHHHHHH---HHhhcCCCccEEECcC-C-CCCcHHHHHHHHHH-------ccCC
Confidence               244567899999999974 441     111   1467889999999998 4 45     3455444       4678


Q ss_pred             CccEEEeccCCCccc-----cccccc--cCCCcceEeccCCCCCCC-----CCCCC--CCCCCcEEEEcCCc
Q 039944          256 SLTSLWIEAFPNLER-----LSSSIV--DLQNLTELYLFGCPKLKY-----FPEKG--LPSSLLELRISRCP  313 (348)
Q Consensus       256 ~L~~L~l~~~~~l~~-----i~~~~~--~~~~L~~L~l~~c~~l~~-----l~~~~--~~~~L~~L~l~~c~  313 (348)
                      +|++|++++| .++.     ++..+.  .+++|+.|++++| .++.     ++...  .+++|++|++++|+
T Consensus       245 ~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          245 NLRELGLNDC-LLSARGAAAVVDAFSKLENIGLQTLRLQYN-EIELDAVRTLKTVIDEKMPDLLFLELNGNR  314 (386)
T ss_dssp             TCCEEECTTC-CCCHHHHHHHHHHHHTCSSCCCCEEECCSS-CCBHHHHHHHHHHHHHHCTTCCEEECTTSB
T ss_pred             CcCEEECCCC-CCchhhHHHHHHHHhhccCCCeEEEECcCC-cCCHHHHHHHHHHHHhcCCCceEEEccCCc
Confidence            8999999996 4553     355553  3899999999996 4554     55421  15899999999986

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.38  E-value=7.2e-13  Score=114.30  Aligned_cols=143  Identities=15%  Similarity=0.108  Sum_probs=93.2

Q ss_pred             CCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCccee
Q 039944           97 LPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYL  176 (348)
Q Consensus        97 l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L  176 (348)
                      ++. |+.|++++|. +..++ .+..+++|+.|++++| .+..++. +..+++|+.|++++| .++.+|.. .. ++|++|
T Consensus        40 l~~-L~~L~l~~n~-i~~l~-~l~~l~~L~~L~L~~N-~i~~~~~-l~~l~~L~~L~L~~N-~l~~l~~~-~~-~~L~~L  111 (263)
T 1xeu_A           40 LSG-VQNFNGDNSN-IQSLA-GMQFFTNLKELHLSHN-QISDLSP-LKDLTKLEELSVNRN-RLKNLNGI-PS-ACLSRL  111 (263)
T ss_dssp             HTT-CSEEECTTSC-CCCCT-TGGGCTTCCEEECCSS-CCCCCGG-GTTCSSCCEEECCSS-CCSCCTTC-CC-SSCCEE
T ss_pred             cCc-CcEEECcCCC-cccch-HHhhCCCCCEEECCCC-ccCCChh-hccCCCCCEEECCCC-ccCCcCcc-cc-CcccEE
Confidence            355 8888887764 55555 5677788888888774 4555555 566777888888775 45555532 22 777888


Q ss_pred             EeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCC
Q 039944          177 RIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPAS  256 (348)
Q Consensus       177 ~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~  256 (348)
                      ++++| .+..++ .+..+++|+.|+++++ .++..+     .+..+++|+.|++++  +.+..+ ...       ..+++
T Consensus       112 ~L~~N-~l~~~~-~l~~l~~L~~L~Ls~N-~i~~~~-----~l~~l~~L~~L~L~~--N~i~~~-~~l-------~~l~~  173 (263)
T 1xeu_A          112 FLDNN-ELRDTD-SLIHLKNLEILSIRNN-KLKSIV-----MLGFLSKLEVLDLHG--NEITNT-GGL-------TRLKK  173 (263)
T ss_dssp             ECCSS-CCSBSG-GGTTCTTCCEEECTTS-CCCBCG-----GGGGCTTCCEEECTT--SCCCBC-TTS-------TTCCC
T ss_pred             EccCC-ccCCCh-hhcCcccccEEECCCC-cCCCCh-----HHccCCCCCEEECCC--CcCcch-HHh-------ccCCC
Confidence            88776 556665 5677777777777774 344443     346677777777776  455544 222       35667


Q ss_pred             ccEEEeccC
Q 039944          257 LTSLWIEAF  265 (348)
Q Consensus       257 L~~L~l~~~  265 (348)
                      |+.|+++++
T Consensus       174 L~~L~l~~N  182 (263)
T 1xeu_A          174 VNWIDLTGQ  182 (263)
T ss_dssp             CCEEEEEEE
T ss_pred             CCEEeCCCC
Confidence            777777774

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.36  E-value=1.8e-12  Score=111.86  Aligned_cols=168  Identities=17%  Similarity=0.185  Sum_probs=127.0

Q ss_pred             ccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEecc
Q 039944          101 LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGK  180 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~  180 (348)
                      +..+++.++. +..++ .+..+++|++|++++| .+..++ .+..+++|+.|++++| .+..+++ +..+++|++|++++
T Consensus        21 l~~l~l~~~~-i~~~~-~~~~l~~L~~L~l~~n-~i~~l~-~l~~l~~L~~L~L~~N-~i~~~~~-l~~l~~L~~L~L~~   94 (263)
T 1xeu_A           21 AVKQNLGKQS-VTDLV-SQKELSGVQNFNGDNS-NIQSLA-GMQFFTNLKELHLSHN-QISDLSP-LKDLTKLEELSVNR   94 (263)
T ss_dssp             HHHHHHTCSC-TTSEE-CHHHHTTCSEEECTTS-CCCCCT-TGGGCTTCCEEECCSS-CCCCCGG-GTTCSSCCEEECCS
T ss_pred             HHHHHhcCCC-ccccc-chhhcCcCcEEECcCC-Ccccch-HHhhCCCCCEEECCCC-ccCCChh-hccCCCCCEEECCC
Confidence            5556666554 55554 4677899999999985 666776 5667889999999986 5777766 88899999999998


Q ss_pred             CCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEE
Q 039944          181 GGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSL  260 (348)
Q Consensus       181 ~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L  260 (348)
                      | .+..++ .... ++|+.|+++++ .+...+     .+..+++|+.|++++  +.+..++. .       ..+++|+.|
T Consensus        95 N-~l~~l~-~~~~-~~L~~L~L~~N-~l~~~~-----~l~~l~~L~~L~Ls~--N~i~~~~~-l-------~~l~~L~~L  155 (263)
T 1xeu_A           95 N-RLKNLN-GIPS-ACLSRLFLDNN-ELRDTD-----SLIHLKNLEILSIRN--NKLKSIVM-L-------GFLSKLEVL  155 (263)
T ss_dssp             S-CCSCCT-TCCC-SSCCEEECCSS-CCSBSG-----GGTTCTTCCEEECTT--SCCCBCGG-G-------GGCTTCCEE
T ss_pred             C-ccCCcC-cccc-CcccEEEccCC-ccCCCh-----hhcCcccccEEECCC--CcCCCChH-H-------ccCCCCCEE
Confidence            7 567776 3444 89999999995 455554     467889999999998  56777653 3       367899999


Q ss_pred             EeccCCCccccccccccCCCcceEeccCCCCCCCCC
Q 039944          261 WIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFP  296 (348)
Q Consensus       261 ~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~  296 (348)
                      ++++ +.++.+ ..+..+++|+.|++++++ +...|
T Consensus       156 ~L~~-N~i~~~-~~l~~l~~L~~L~l~~N~-~~~~~  188 (263)
T 1xeu_A          156 DLHG-NEITNT-GGLTRLKKVNWIDLTGQK-CVNEP  188 (263)
T ss_dssp             ECTT-SCCCBC-TTSTTCCCCCEEEEEEEE-EECCC
T ss_pred             ECCC-CcCcch-HHhccCCCCCEEeCCCCc-ccCCc
Confidence            9998 467766 578889999999999853 44333

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.35  E-value=4.6e-14  Score=127.67  Aligned_cols=178  Identities=14%  Similarity=0.059  Sum_probs=81.5

Q ss_pred             ccEEEEcCCCCcccchh----hhcCC-CccceecccccccccccCC-----CCCC-CCCccEEEEecCCCcC----cccc
Q 039944          101 LKSLFVYGCSKLGSIAE----RLDNN-TSLETISIDSCGNLVSFPE-----GGLP-CAKLTRLTILDCKRLE----ALPK  165 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~----~~~~l-~~L~~L~l~~~~~l~~~~~-----~~~~-~~~L~~L~l~~~~~l~----~~~~  165 (348)
                      |+.|++++|......+.    .+..+ ++|++|++++|. +...+.     .+.. .++|++|++++|..-.    .++.
T Consensus        82 L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~  160 (362)
T 3goz_A           82 VTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWND-FSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQ  160 (362)
T ss_dssp             CCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSC-GGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHH
T ss_pred             ccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCc-CCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHH
Confidence            66666666653222222    22333 566666666643 322221     1111 2366666666643211    2222


Q ss_pred             cccCCC-CcceeEeccCCCCCcccc-----cCCCC-CCcCeeeecCCccchh-----hhhccccccCC-CCCccEEEecc
Q 039944          166 GMHNLT-SLQYLRIGKGGALPSLEE-----EDGLP-TNLQSLDIWGNMEIWK-----SMIERGRGFHR-FSSLRRLTISR  232 (348)
Q Consensus       166 ~l~~l~-~L~~L~l~~~~~~~~~~~-----~~~~~-~~L~~L~l~~~~~l~~-----~~~~~~~~~~~-l~~L~~L~l~~  232 (348)
                      .+..++ +|++|++++| .+.....     .+... ++|+.|++++|. +..     ++.    .+.. .++|+.|++++
T Consensus       161 ~l~~~~~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-i~~~~~~~l~~----~l~~~~~~L~~L~Ls~  234 (362)
T 3goz_A          161 ILAAIPANVNSLNLRGN-NLASKNCAELAKFLASIPASVTSLDLSANL-LGLKSYAELAY----IFSSIPNHVVSLNLCL  234 (362)
T ss_dssp             HHHTSCTTCCEEECTTS-CGGGSCHHHHHHHHHTSCTTCCEEECTTSC-GGGSCHHHHHH----HHHHSCTTCCEEECCS
T ss_pred             HHhcCCccccEeeecCC-CCchhhHHHHHHHHHhCCCCCCEEECCCCC-CChhHHHHHHH----HHhcCCCCceEEECcC
Confidence            333343 6666666665 2322210     12223 466677766643 332     221    1222 34677777766


Q ss_pred             cCCcccccccchhccCCCCCCCCCccEEEeccCC-------CccccccccccCCCcceEeccCC
Q 039944          233 CDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFP-------NLERLSSSIVDLQNLTELYLFGC  289 (348)
Q Consensus       233 ~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~-------~l~~i~~~~~~~~~L~~L~l~~c  289 (348)
                        +.+...+...  +......+++|+.|++++|.       .+..++..+..+++|+.|+++++
T Consensus       235 --N~l~~~~~~~--l~~~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~~~l~~L~~LdL~~N  294 (362)
T 3goz_A          235 --NCLHGPSLEN--LKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDKNGK  294 (362)
T ss_dssp             --SCCCCCCHHH--HHHTTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTSTTCCEEEEECTTSC
T ss_pred             --CCCCcHHHHH--HHHHHhcCCCccEEEeccCCccccCHHHHHHHHHHhccCCceEEEecCCC
Confidence              3443322210  01112345567777776642       02223334556666777777664

>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=99.35  E-value=1.9e-11  Score=103.10  Aligned_cols=146  Identities=24%  Similarity=0.267  Sum_probs=71.9

Q ss_pred             ceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccc-cCCCCCCcCeeeecC
Q 039944          126 ETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEE-EDGLPTNLQSLDIWG  204 (348)
Q Consensus       126 ~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~-~~~~~~~L~~L~l~~  204 (348)
                      +.++.++ ..+..+|..+.  ++|+.|++++|..-...|..+..+++|++|++++| .+..++. .+..+++|+.|++++
T Consensus        22 ~~v~c~~-~~l~~ip~~~~--~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N-~l~~i~~~~~~~l~~L~~L~Ls~   97 (229)
T 3e6j_A           22 TTVDCRS-KRHASVPAGIP--TNAQILYLHDNQITKLEPGVFDSLINLKELYLGSN-QLGALPVGVFDSLTQLTVLDLGT   97 (229)
T ss_dssp             TEEECTT-SCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CEeEccC-CCcCccCCCCC--CCCCEEEcCCCccCccCHHHhhCccCCcEEECCCC-CCCCcChhhcccCCCcCEEECCC
Confidence            3455544 44555665443  46666666664322222344556666666666665 3444442 234555555555555


Q ss_pred             CccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccccc-ccccCCCcce
Q 039944          205 NMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQNLTE  283 (348)
Q Consensus       205 ~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~  283 (348)
                      + .+..++..   .+..+++|+.|++++  +.+..+|...       ..+++|+.|++++ +.++.++. .+..+++|+.
T Consensus        98 N-~l~~l~~~---~~~~l~~L~~L~Ls~--N~l~~lp~~~-------~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~  163 (229)
T 3e6j_A           98 N-QLTVLPSA---VFDRLVHLKELFMCC--NKLTELPRGI-------ERLTHLTHLALDQ-NQLKSIPHGAFDRLSSLTH  163 (229)
T ss_dssp             S-CCCCCCTT---TTTTCTTCCEEECCS--SCCCSCCTTG-------GGCTTCSEEECCS-SCCCCCCTTTTTTCTTCCE
T ss_pred             C-cCCccChh---HhCcchhhCeEeccC--CcccccCccc-------ccCCCCCEEECCC-CcCCccCHHHHhCCCCCCE
Confidence            3 33333321   234555555555554  3444444433       2444555555555 34444443 3444555555


Q ss_pred             EeccCC
Q 039944          284 LYLFGC  289 (348)
Q Consensus       284 L~l~~c  289 (348)
                      |++.++
T Consensus       164 L~l~~N  169 (229)
T 3e6j_A          164 AYLFGN  169 (229)
T ss_dssp             EECTTS
T ss_pred             EEeeCC
Confidence            555543

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.34  E-value=1.3e-11  Score=102.45  Aligned_cols=162  Identities=21%  Similarity=0.296  Sum_probs=93.3

Q ss_pred             cEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCC
Q 039944            9 EILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPAT   88 (348)
Q Consensus         9 ~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~   88 (348)
                      +.++.++ ..++.+|. ..+++|++|+++++. ++.++..       .++.+.  +|++|+++++ .+.. ++...+   
T Consensus        10 ~~v~c~~-~~l~~~p~-~~~~~l~~L~l~~n~-l~~~~~~-------~~~~l~--~L~~L~l~~n-~l~~-~~~~~~---   72 (208)
T 2o6s_A           10 TTVECYS-QGRTSVPT-GIPAQTTYLDLETNS-LKSLPNG-------VFDELT--SLTQLYLGGN-KLQS-LPNGVF---   72 (208)
T ss_dssp             TEEECCS-SCCSSCCS-CCCTTCSEEECCSSC-CCCCCTT-------TTTTCT--TCSEEECCSS-CCCC-CCTTTT---
T ss_pred             CEEEecC-CCccCCCC-CCCCCCcEEEcCCCc-cCcCChh-------hhcccc--cCcEEECCCC-ccCc-cChhhc---
Confidence            3455554 34555653 235678888888876 6666655       456666  7888888764 4544 443222   


Q ss_pred             cceeEeccCCCCccEEEEcCCCCcccch-hhhcCCCccceecccccccccccCCC-CCCCCCccEEEEecCCCcCccccc
Q 039944           89 LESLEVGNLPLSLKSLFVYGCSKLGSIA-ERLDNNTSLETISIDSCGNLVSFPEG-GLPCAKLTRLTILDCKRLEALPKG  166 (348)
Q Consensus        89 L~~L~i~~l~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~l~~~~~~-~~~~~~L~~L~l~~~~~l~~~~~~  166 (348)
                            ..++. |+.|++++|. +..++ ..+..+++|++|++++| .+..++.. +..+++|+.|++++| .+..++..
T Consensus        73 ------~~l~~-L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~  142 (208)
T 2o6s_A           73 ------NKLTS-LTYLNLSTNQ-LQSLPNGVFDKLTQLKELALNTN-QLQSLPDGVFDKLTQLKDLRLYQN-QLKSVPDG  142 (208)
T ss_dssp             ------TTCTT-CCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCSCCCTT
T ss_pred             ------CCCCC-cCEEECCCCc-CCccCHhHhcCccCCCEEEcCCC-cCcccCHhHhccCCcCCEEECCCC-ccceeCHH
Confidence                  22354 7777777665 33333 34566777777777763 44455443 445667777777664 34444433


Q ss_pred             -ccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecC
Q 039944          167 -MHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWG  204 (348)
Q Consensus       167 -l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~  204 (348)
                       +..+++|++|++++|+       ..+.+++|+.|+++.
T Consensus       143 ~~~~l~~L~~L~l~~N~-------~~~~~~~l~~L~~~~  174 (208)
T 2o6s_A          143 VFDRLTSLQYIWLHDNP-------WDCTCPGIRYLSEWI  174 (208)
T ss_dssp             TTTTCTTCCEEECCSCC-------BCCCTTTTHHHHHHH
T ss_pred             HhccCCCccEEEecCCC-------eecCCCCHHHHHHHH
Confidence             4566667777666652       223445566665555

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.33  E-value=3.6e-14  Score=128.39  Aligned_cols=229  Identities=17%  Similarity=0.079  Sum_probs=137.8

Q ss_pred             ccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEcCCCCcccchhhhcCC-----Cccceecccccccccc
Q 039944           64 LLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNN-----TSLETISIDSCGNLVS  138 (348)
Q Consensus        64 ~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l-----~~L~~L~l~~~~~l~~  138 (348)
                      +|++|+++++. +.+ .+...+...+     ..+|.+|+.|++++|......+..+..+     ++|++|++++|. +..
T Consensus        23 ~L~~L~Ls~n~-l~~-~~~~~l~~~l-----~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~-l~~   94 (362)
T 3goz_A           23 GVTSLDLSLNN-LYS-ISTVELIQAF-----ANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNF-LSY   94 (362)
T ss_dssp             TCCEEECTTSC-GGG-SCHHHHHHHH-----HTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSC-GGG
T ss_pred             CceEEEccCCC-CCh-HHHHHHHHHH-----HhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCc-CCh
Confidence            57777777653 443 3221111111     2235238888888876433334444443     999999999964 433


Q ss_pred             cCC-----CCCCC-CCccEEEEecCCCcCcccc-c----ccC-CCCcceeEeccCCCCC-----cccccCCCC-CCcCee
Q 039944          139 FPE-----GGLPC-AKLTRLTILDCKRLEALPK-G----MHN-LTSLQYLRIGKGGALP-----SLEEEDGLP-TNLQSL  200 (348)
Q Consensus       139 ~~~-----~~~~~-~~L~~L~l~~~~~l~~~~~-~----l~~-l~~L~~L~l~~~~~~~-----~~~~~~~~~-~~L~~L  200 (348)
                      .+.     .+..+ ++|++|++++|. +...+. .    +.. .++|++|++++| .+.     .++..+... ++|+.|
T Consensus        95 ~~~~~l~~~l~~~~~~L~~L~Ls~N~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N-~l~~~~~~~l~~~l~~~~~~L~~L  172 (362)
T 3goz_A           95 KSSDELVKTLAAIPFTITVLDLGWND-FSSKSSSEFKQAFSNLPASITSLNLRGN-DLGIKSSDELIQILAAIPANVNSL  172 (362)
T ss_dssp             SCHHHHHHHHHTSCTTCCEEECCSSC-GGGSCHHHHHHHHTTSCTTCCEEECTTS-CGGGSCHHHHHHHHHTSCTTCCEE
T ss_pred             HHHHHHHHHHHhCCCCccEEECcCCc-CCcHHHHHHHHHHHhCCCceeEEEccCC-cCCHHHHHHHHHHHhcCCccccEe
Confidence            222     12233 689999999976 444432 2    333 369999999987 444     222233344 499999


Q ss_pred             eecCCccchhhhhc-cccccCCC-CCccEEEecccCCcccc-----cccchhccCCCCCCCCCccEEEeccCCCcccccc
Q 039944          201 DIWGNMEIWKSMIE-RGRGFHRF-SSLRRLTISRCDEDMVS-----FPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS  273 (348)
Q Consensus       201 ~l~~~~~l~~~~~~-~~~~~~~l-~~L~~L~l~~~c~~l~~-----~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~  273 (348)
                      ++++|. +...... ....+..+ ++|++|++++  +.+..     ++....      ..+++|++|++++| .++..+.
T Consensus       173 ~Ls~n~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~--N~i~~~~~~~l~~~l~------~~~~~L~~L~Ls~N-~l~~~~~  242 (362)
T 3goz_A          173 NLRGNN-LASKNCAELAKFLASIPASVTSLDLSA--NLLGLKSYAELAYIFS------SIPNHVVSLNLCLN-CLHGPSL  242 (362)
T ss_dssp             ECTTSC-GGGSCHHHHHHHHHTSCTTCCEEECTT--SCGGGSCHHHHHHHHH------HSCTTCCEEECCSS-CCCCCCH
T ss_pred             eecCCC-CchhhHHHHHHHHHhCCCCCCEEECCC--CCCChhHHHHHHHHHh------cCCCCceEEECcCC-CCCcHHH
Confidence            999964 4332211 00123455 5999999998  45554     333331      12468999999985 5655432


Q ss_pred             -----ccccCCCcceEeccCCCCCCCCC--------C-CCCCCCCcEEEEcCCc
Q 039944          274 -----SIVDLQNLTELYLFGCPKLKYFP--------E-KGLPSSLLELRISRCP  313 (348)
Q Consensus       274 -----~~~~~~~L~~L~l~~c~~l~~l~--------~-~~~~~~L~~L~l~~c~  313 (348)
                           .+..+++|+.|++++|. +..+.        . ....++|+.|+++++.
T Consensus       243 ~~l~~~~~~l~~L~~L~L~~n~-l~~i~~~~~~~l~~~~~~l~~L~~LdL~~N~  295 (362)
T 3goz_A          243 ENLKLLKDSLKHLQTVYLDYDI-VKNMSKEQCKALGAAFPNIQKIILVDKNGKE  295 (362)
T ss_dssp             HHHHHTTTTTTTCSEEEEEHHH-HTTCCHHHHHHHHTTSTTCCEEEEECTTSCB
T ss_pred             HHHHHHHhcCCCccEEEeccCC-ccccCHHHHHHHHHHhccCCceEEEecCCCc
Confidence                 45778999999999864 22222        1 1125779999999886

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.33  E-value=1.9e-11  Score=103.14  Aligned_cols=127  Identities=22%  Similarity=0.219  Sum_probs=52.4

Q ss_pred             CCcceeEeccCCCCCcc-cccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCC
Q 039944          171 TSLQYLRIGKGGALPSL-EEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGT  249 (348)
Q Consensus       171 ~~L~~L~l~~~~~~~~~-~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~  249 (348)
                      ++|++|++++| .+..+ +..+..+++|+.|+++++. +..++..   .+..+++|+.|++++  +.+..++...     
T Consensus        40 ~~L~~L~Ls~n-~i~~~~~~~~~~l~~L~~L~L~~N~-l~~i~~~---~~~~l~~L~~L~Ls~--N~l~~l~~~~-----  107 (229)
T 3e6j_A           40 TNAQILYLHDN-QITKLEPGVFDSLINLKELYLGSNQ-LGALPVG---VFDSLTQLTVLDLGT--NQLTVLPSAV-----  107 (229)
T ss_dssp             TTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTT---TTTTCTTCCEEECCS--SCCCCCCTTT-----
T ss_pred             CCCCEEEcCCC-ccCccCHHHhhCccCCcEEECCCCC-CCCcChh---hcccCCCcCEEECCC--CcCCccChhH-----
Confidence            44444544443 22222 2233444445555544422 2332211   234444445555544  2333333321     


Q ss_pred             CCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEEEcCC
Q 039944          250 ALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELRISRC  312 (348)
Q Consensus       250 ~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~l~~c  312 (348)
                       +..+++|+.|++++ +.++.+|..+..+++|+.|+++++ .++.++...+  .++|+.|+++++
T Consensus       108 -~~~l~~L~~L~Ls~-N~l~~lp~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N  169 (229)
T 3e6j_A          108 -FDRLVHLKELFMCC-NKLTELPRGIERLTHLTHLALDQN-QLKSIPHGAFDRLSSLTHAYLFGN  169 (229)
T ss_dssp             -TTTCTTCCEEECCS-SCCCSCCTTGGGCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECTTS
T ss_pred             -hCcchhhCeEeccC-CcccccCcccccCCCCCEEECCCC-cCCccCHHHHhCCCCCCEEEeeCC
Confidence             12344444555544 234444444444444555555442 3444443222  344444444443

>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=99.32  E-value=3.3e-11  Score=100.97  Aligned_cols=147  Identities=13%  Similarity=0.203  Sum_probs=72.5

Q ss_pred             cEEeecCcccccccCCCCCCCCccEEEeccCccccccc-cccccccccccccccCCccceeeeeCCCCccccccCCCCCC
Q 039944            9 EILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLT-VEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPA   87 (348)
Q Consensus         9 ~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~-~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~   87 (348)
                      +.+++++ +.++++|. ..++.+++|+++++. +..++ ..       .+..++  +|+.|+++++ .++. ++...+  
T Consensus        14 ~~l~~s~-n~l~~iP~-~~~~~~~~L~L~~N~-l~~~~~~~-------~~~~l~--~L~~L~L~~N-~i~~-i~~~~~--   77 (220)
T 2v70_A           14 TTVDCSN-QKLNKIPE-HIPQYTAELRLNNNE-FTVLEATG-------IFKKLP--QLRKINFSNN-KITD-IEEGAF--   77 (220)
T ss_dssp             TEEECCS-SCCSSCCS-CCCTTCSEEECCSSC-CCEECCCC-------CGGGCT--TCCEEECCSS-CCCE-ECTTTT--
T ss_pred             CEeEeCC-CCcccCcc-CCCCCCCEEEcCCCc-CCccCchh-------hhccCC--CCCEEECCCC-cCCE-ECHHHh--
Confidence            4556654 34555554 224456666666665 55553 22       245555  6666666653 3444 333222  


Q ss_pred             CcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceeccccccccccc-CCCCCCCCCccEEEEecCCCcCcc-cc
Q 039944           88 TLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSF-PEGGLPCAKLTRLTILDCKRLEAL-PK  165 (348)
Q Consensus        88 ~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~-~~~~~~~~~L~~L~l~~~~~l~~~-~~  165 (348)
                             ..++. |+.|++++|......+..+..+++|++|++++| .+..+ |..+..+++|+.|++++|. +..+ |.
T Consensus        78 -------~~l~~-L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~  147 (220)
T 2v70_A           78 -------EGASG-VNEILLTSNRLENVQHKMFKGLESLKTLMLRSN-RITCVGNDSFIGLSSVRLLSLYDNQ-ITTVAPG  147 (220)
T ss_dssp             -------TTCTT-CCEEECCSSCCCCCCGGGGTTCSSCCEEECTTS-CCCCBCTTSSTTCTTCSEEECTTSC-CCCBCTT
T ss_pred             -------CCCCC-CCEEECCCCccCccCHhHhcCCcCCCEEECCCC-cCCeECHhHcCCCccCCEEECCCCc-CCEECHH
Confidence                   22244 666666655533333344555666666666653 23333 3344445555555555532 3333 33


Q ss_pred             cccCCCCcceeEeccC
Q 039944          166 GMHNLTSLQYLRIGKG  181 (348)
Q Consensus       166 ~l~~l~~L~~L~l~~~  181 (348)
                      .+..+++|++|++++|
T Consensus       148 ~~~~l~~L~~L~L~~N  163 (220)
T 2v70_A          148 AFDTLHSLSTLNLLAN  163 (220)
T ss_dssp             TTTTCTTCCEEECCSC
T ss_pred             HhcCCCCCCEEEecCc
Confidence            4445555555555544

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.32  E-value=1e-11  Score=103.13  Aligned_cols=160  Identities=19%  Similarity=0.188  Sum_probs=119.4

Q ss_pred             CCcccEEeecCcccccccCCCCC--CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccC
Q 039944            5 NSSLEILDIEKCHSLTYIAAVQL--PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSK   82 (348)
Q Consensus         5 ~~~L~~L~l~~~~~l~~l~~~~~--~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~   82 (348)
                      .++|++|+++++ .++.++...+  +++|++|+++++. +..++..       .+..+.  +|++|+++++ .+.. ++.
T Consensus        27 ~~~l~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~-------~~~~l~--~L~~L~Ls~n-~l~~-~~~   93 (208)
T 2o6s_A           27 PAQTTYLDLETN-SLKSLPNGVFDELTSLTQLYLGGNK-LQSLPNG-------VFNKLT--SLTYLNLSTN-QLQS-LPN   93 (208)
T ss_dssp             CTTCSEEECCSS-CCCCCCTTTTTTCTTCSEEECCSSC-CCCCCTT-------TTTTCT--TCCEEECCSS-CCCC-CCT
T ss_pred             CCCCcEEEcCCC-ccCcCChhhhcccccCcEEECCCCc-cCccChh-------hcCCCC--CcCEEECCCC-cCCc-cCH
Confidence            458999999985 6777876543  8999999999987 7888776       467777  9999999985 4655 554


Q ss_pred             CCCCCCcceeEeccCCCCccEEEEcCCCCcccch-hhhcCCCccceecccccccccccCCC-CCCCCCccEEEEecCCCc
Q 039944           83 NELPATLESLEVGNLPLSLKSLFVYGCSKLGSIA-ERLDNNTSLETISIDSCGNLVSFPEG-GLPCAKLTRLTILDCKRL  160 (348)
Q Consensus        83 ~~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~l~~~~~~-~~~~~~L~~L~l~~~~~l  160 (348)
                      ..+         ..+++ |+.|++++|. +..++ ..+..+++|++|++++| .+..++.. +..+++|+.|++++|.. 
T Consensus        94 ~~~---------~~l~~-L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~l~~N~~-  160 (208)
T 2o6s_A           94 GVF---------DKLTQ-LKELALNTNQ-LQSLPDGVFDKLTQLKDLRLYQN-QLKSVPDGVFDRLTSLQYIWLHDNPW-  160 (208)
T ss_dssp             TTT---------TTCTT-CCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSCCB-
T ss_pred             hHh---------cCccC-CCEEEcCCCc-CcccCHhHhccCCcCCEEECCCC-ccceeCHHHhccCCCccEEEecCCCe-
Confidence            322         33466 9999999886 44444 45788999999999985 56666664 56789999999999742 


Q ss_pred             CcccccccCCCCcceeEeccCCCCCcccccCCCCCC
Q 039944          161 EALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTN  196 (348)
Q Consensus       161 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~  196 (348)
                            .+.++.|++|+++.+.....+|..++.++.
T Consensus       161 ------~~~~~~l~~L~~~~n~~~g~ip~~~~~l~~  190 (208)
T 2o6s_A          161 ------DCTCPGIRYLSEWINKHSGVVRNSAGSVAP  190 (208)
T ss_dssp             ------CCCTTTTHHHHHHHHHCTTTBBCTTSSBCT
T ss_pred             ------ecCCCCHHHHHHHHHhCCceeeccCccccC
Confidence                  245678999988877555567755554443

>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=99.28  E-value=5.2e-11  Score=99.75  Aligned_cols=15  Identities=27%  Similarity=0.273  Sum_probs=6.4

Q ss_pred             cccCCCCcceeEecc
Q 039944          166 GMHNLTSLQYLRIGK  180 (348)
Q Consensus       166 ~l~~l~~L~~L~l~~  180 (348)
                      .+..+++|++|++++
T Consensus        75 ~~~~l~~L~~L~Ls~   89 (220)
T 2v9t_B           75 AFQGLRSLNSLVLYG   89 (220)
T ss_dssp             TTTTCSSCCEEECCS
T ss_pred             HhhCCcCCCEEECCC
Confidence            334444444444444

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.27  E-value=1.8e-11  Score=110.49  Aligned_cols=78  Identities=17%  Similarity=0.216  Sum_probs=33.6

Q ss_pred             ccceecccccccccccCCCC-C-CCCCccEEEEecCCCcCccc-ccccCCCCcceeEeccCCCCCcccc-cCCCCCCcCe
Q 039944          124 SLETISIDSCGNLVSFPEGG-L-PCAKLTRLTILDCKRLEALP-KGMHNLTSLQYLRIGKGGALPSLEE-EDGLPTNLQS  199 (348)
Q Consensus       124 ~L~~L~l~~~~~l~~~~~~~-~-~~~~L~~L~l~~~~~l~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~-~~~~~~~L~~  199 (348)
                      .++.|++++ +.+..++... . .+++|+.|++++| .+..++ ..+..+++|++|++++| .+..++. .+..+++|+.
T Consensus        40 ~l~~L~Ls~-N~l~~l~~~~~~~~l~~L~~L~L~~N-~i~~i~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~  116 (361)
T 2xot_A           40 YTALLDLSH-NNLSRLRAEWTPTRLTNLHSLLLSHN-HLNFISSEAFVPVPNLRYLDLSSN-HLHTLDEFLFSDLQALEV  116 (361)
T ss_dssp             TCSEEECCS-SCCCEECTTSSSSCCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCE
T ss_pred             CCCEEECCC-CCCCccChhhhhhcccccCEEECCCC-cCCccChhhccCCCCCCEEECCCC-cCCcCCHHHhCCCcCCCE
Confidence            345555554 2333333322 2 4445555555543 233333 23444555555555544 2333321 2334444555


Q ss_pred             eeecC
Q 039944          200 LDIWG  204 (348)
Q Consensus       200 L~l~~  204 (348)
                      |++++
T Consensus       117 L~L~~  121 (361)
T 2xot_A          117 LLLYN  121 (361)
T ss_dssp             EECCS
T ss_pred             EECCC
Confidence            55544

>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=99.27  E-value=7.8e-11  Score=98.67  Aligned_cols=102  Identities=14%  Similarity=0.176  Sum_probs=56.5

Q ss_pred             ccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCC-CCCCCCccEEEEecCCCcCcc-cccccCCCCcceeEe
Q 039944          101 LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEG-GLPCAKLTRLTILDCKRLEAL-PKGMHNLTSLQYLRI  178 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~-~~~~~~L~~L~l~~~~~l~~~-~~~l~~l~~L~~L~l  178 (348)
                      |+.|++++|......+..+..+++|++|++++ +.+..+|.. +..+++|+.|++++|. +..+ |..+..+++|++|++
T Consensus        58 L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~-N~l~~l~~~~f~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L  135 (220)
T 2v9t_B           58 LRRIDLSNNQISELAPDAFQGLRSLNSLVLYG-NKITELPKSLFEGLFSLQLLLLNANK-INCLRVDAFQDLHNLNLLSL  135 (220)
T ss_dssp             CCEEECCSSCCCEECTTTTTTCSSCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEEC
T ss_pred             CCEEECCCCcCCCcCHHHhhCCcCCCEEECCC-CcCCccCHhHccCCCCCCEEECCCCC-CCEeCHHHcCCCCCCCEEEC
Confidence            55566655543222245555666666666665 344455543 2445666666666643 3333 344566666777777


Q ss_pred             ccCCCCCcccc-cCCCCCCcCeeeecCC
Q 039944          179 GKGGALPSLEE-EDGLPTNLQSLDIWGN  205 (348)
Q Consensus       179 ~~~~~~~~~~~-~~~~~~~L~~L~l~~~  205 (348)
                      ++| .+..++. .+..+++|+.|++.++
T Consensus       136 ~~N-~l~~~~~~~~~~l~~L~~L~L~~N  162 (220)
T 2v9t_B          136 YDN-KLQTIAKGTFSPLRAIQTMHLAQN  162 (220)
T ss_dssp             CSS-CCSCCCTTTTTTCTTCCEEECCSS
T ss_pred             CCC-cCCEECHHHHhCCCCCCEEEeCCC
Confidence            665 3444442 3555667777777664

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.27  E-value=3.1e-11  Score=108.99  Aligned_cols=169  Identities=20%  Similarity=0.233  Sum_probs=98.6

Q ss_pred             cEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccc-cccCCccceeeeeCCCCccccccCCCCCC
Q 039944            9 EILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSR-RYTSSLLEHLEIISCPSLTCIFSKNELPA   87 (348)
Q Consensus         9 ~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~-~~~~~~L~~L~l~~~~~l~~~~~~~~~~~   87 (348)
                      +.+++++ ..++.+|. .+++.++.|+++++. +..++..       .+. .+.  +|+.|+++++ .+.. ++...+  
T Consensus        21 ~~l~c~~-~~l~~iP~-~~~~~l~~L~Ls~N~-l~~l~~~-------~~~~~l~--~L~~L~L~~N-~i~~-i~~~~~--   84 (361)
T 2xot_A           21 NILSCSK-QQLPNVPQ-SLPSYTALLDLSHNN-LSRLRAE-------WTPTRLT--NLHSLLLSHN-HLNF-ISSEAF--   84 (361)
T ss_dssp             TEEECCS-SCCSSCCS-SCCTTCSEEECCSSC-CCEECTT-------SSSSCCT--TCCEEECCSS-CCCE-ECTTTT--
T ss_pred             CEEEeCC-CCcCccCc-cCCCCCCEEECCCCC-CCccChh-------hhhhccc--ccCEEECCCC-cCCc-cChhhc--
Confidence            4566665 45666664 235567777777775 6666655       344 555  7777777764 4555 443322  


Q ss_pred             CcceeEeccCCCCccEEEEcCCCCcccc-hhhhcCCCccceeccccccccccc-CCCCCCCCCccEEEEecCCCcCcccc
Q 039944           88 TLESLEVGNLPLSLKSLFVYGCSKLGSI-AERLDNNTSLETISIDSCGNLVSF-PEGGLPCAKLTRLTILDCKRLEALPK  165 (348)
Q Consensus        88 ~L~~L~i~~l~~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~~~l~~~-~~~~~~~~~L~~L~l~~~~~l~~~~~  165 (348)
                             ..++. |+.|++++|. +..+ +..+..+++|+.|++++| .+..+ +..+..+++|+.|++++| .+..+|.
T Consensus        85 -------~~l~~-L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~N-~i~~~~~~~~~~l~~L~~L~L~~N-~l~~l~~  153 (361)
T 2xot_A           85 -------VPVPN-LRYLDLSSNH-LHTLDEFLFSDLQALEVLLLYNN-HIVVVDRNAFEDMAQLQKLYLSQN-QISRFPV  153 (361)
T ss_dssp             -------TTCTT-CCEEECCSSC-CCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSS-CCCSCCG
T ss_pred             -------cCCCC-CCEEECCCCc-CCcCCHHHhCCCcCCCEEECCCC-cccEECHHHhCCcccCCEEECCCC-cCCeeCH
Confidence                   23355 7777777765 4443 345666777777777774 34444 345566677777777774 4555654


Q ss_pred             cc----cCCCCcceeEeccCCCCCcccc-cCCCCCC--cCeeeecCC
Q 039944          166 GM----HNLTSLQYLRIGKGGALPSLEE-EDGLPTN--LQSLDIWGN  205 (348)
Q Consensus       166 ~l----~~l~~L~~L~l~~~~~~~~~~~-~~~~~~~--L~~L~l~~~  205 (348)
                      .+    ..+++|++|++++| .+..++. .+..++.  ++.|++.++
T Consensus       154 ~~~~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~l~~~~l~~l~l~~N  199 (361)
T 2xot_A          154 ELIKDGNKLPKLMLLDLSSN-KLKKLPLTDLQKLPAWVKNGLYLHNN  199 (361)
T ss_dssp             GGTC----CTTCCEEECCSS-CCCCCCHHHHHHSCHHHHTTEECCSS
T ss_pred             HHhcCcccCCcCCEEECCCC-CCCccCHHHhhhccHhhcceEEecCC
Confidence            43    45677777777765 4444441 2333443  356666664

>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=99.24  E-value=1.1e-10  Score=97.64  Aligned_cols=145  Identities=14%  Similarity=0.188  Sum_probs=63.9

Q ss_pred             eecccccccccccCCCCCCCCCccEEEEecCCCcCcccc--cccCCCCcceeEeccCCCCCcccc-cCCCCCCcCeeeec
Q 039944          127 TISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPK--GMHNLTSLQYLRIGKGGALPSLEE-EDGLPTNLQSLDIW  203 (348)
Q Consensus       127 ~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~--~l~~l~~L~~L~l~~~~~~~~~~~-~~~~~~~L~~L~l~  203 (348)
                      .+++++ +.+..+|..+..  .++.|++++| .+..+++  .+..+++|++|+++++ .+..++. .+..+++|+.|+++
T Consensus        15 ~l~~s~-n~l~~iP~~~~~--~~~~L~L~~N-~l~~~~~~~~~~~l~~L~~L~L~~N-~i~~i~~~~~~~l~~L~~L~Ls   89 (220)
T 2v70_A           15 TVDCSN-QKLNKIPEHIPQ--YTAELRLNNN-EFTVLEATGIFKKLPQLRKINFSNN-KITDIEEGAFEGASGVNEILLT   89 (220)
T ss_dssp             EEECCS-SCCSSCCSCCCT--TCSEEECCSS-CCCEECCCCCGGGCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECC
T ss_pred             EeEeCC-CCcccCccCCCC--CCCEEEcCCC-cCCccCchhhhccCCCCCEEECCCC-cCCEECHHHhCCCCCCCEEECC
Confidence            444444 334444443322  3455555553 2333321  2345555555555554 2333332 34445555555555


Q ss_pred             CCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccc-ccccccCCCcc
Q 039944          204 GNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERL-SSSIVDLQNLT  282 (348)
Q Consensus       204 ~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i-~~~~~~~~~L~  282 (348)
                      ++ .+..++.   ..+..+++|+.|++++  +.+..++..      ++..+++|+.|++++ +.++.+ |..+..+++|+
T Consensus        90 ~N-~l~~~~~---~~~~~l~~L~~L~Ls~--N~l~~~~~~------~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~  156 (220)
T 2v70_A           90 SN-RLENVQH---KMFKGLESLKTLMLRS--NRITCVGND------SFIGLSSVRLLSLYD-NQITTVAPGAFDTLHSLS  156 (220)
T ss_dssp             SS-CCCCCCG---GGGTTCSSCCEEECTT--SCCCCBCTT------SSTTCTTCSEEECTT-SCCCCBCTTTTTTCTTCC
T ss_pred             CC-ccCccCH---hHhcCCcCCCEEECCC--CcCCeECHh------HcCCCccCCEEECCC-CcCCEECHHHhcCCCCCC
Confidence            53 2333222   1344555555555555  334433221      112444555555555 234433 33455555555


Q ss_pred             eEeccCC
Q 039944          283 ELYLFGC  289 (348)
Q Consensus       283 ~L~l~~c  289 (348)
                      .|+++++
T Consensus       157 ~L~L~~N  163 (220)
T 2v70_A          157 TLNLLAN  163 (220)
T ss_dssp             EEECCSC
T ss_pred             EEEecCc
Confidence            5555553

>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=99.23  E-value=1.8e-11  Score=109.09  Aligned_cols=99  Identities=15%  Similarity=0.117  Sum_probs=58.0

Q ss_pred             CCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCcc-EEEeccCCCccccc
Q 039944          194 PTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLT-SLWIEAFPNLERLS  272 (348)
Q Consensus       194 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~-~L~l~~~~~l~~i~  272 (348)
                      +++|+.+++.++ .+..++.   ..|.++.+|+.+++.+  + +..++.      .+|..+++|+ .+.+.+  .++.++
T Consensus       225 ~~~L~~l~L~~n-~i~~I~~---~aF~~~~~L~~l~l~~--n-i~~I~~------~aF~~~~~L~~~l~l~~--~l~~I~  289 (329)
T 3sb4_A          225 MPNLVSLDISKT-NATTIPD---FTFAQKKYLLKIKLPH--N-LKTIGQ------RVFSNCGRLAGTLELPA--SVTAIE  289 (329)
T ss_dssp             CTTCCEEECTTB-CCCEECT---TTTTTCTTCCEEECCT--T-CCEECT------TTTTTCTTCCEEEEECT--TCCEEC
T ss_pred             cCCCeEEECCCC-CcceecH---hhhhCCCCCCEEECCc--c-cceehH------HHhhCChhccEEEEEcc--cceEEc
Confidence            566777777663 3444443   2566677777777765  2 555444      2345566676 777764  455555


Q ss_pred             c-ccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEE
Q 039944          273 S-SIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELR  308 (348)
Q Consensus       273 ~-~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~  308 (348)
                      . .|.+|++|+.+++.+ +.++.++...+  +++|+.++
T Consensus       290 ~~aF~~c~~L~~l~l~~-n~i~~I~~~aF~~~~~L~~ly  327 (329)
T 3sb4_A          290 FGAFMGCDNLRYVLATG-DKITTLGDELFGNGVPSKLIY  327 (329)
T ss_dssp             TTTTTTCTTEEEEEECS-SCCCEECTTTTCTTCCCCEEE
T ss_pred             hhhhhCCccCCEEEeCC-CccCccchhhhcCCcchhhhc
Confidence            3 566677777777655 45666655433  45555554

>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=99.22  E-value=1e-13  Score=132.29  Aligned_cols=190  Identities=14%  Similarity=0.046  Sum_probs=119.0

Q ss_pred             CCCCccEEEEcCCCCcccchhhhcCCCccceecccccc-------------cccccCCCCCCCCCccEEE-EecCCCcCc
Q 039944           97 LPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCG-------------NLVSFPEGGLPCAKLTRLT-ILDCKRLEA  162 (348)
Q Consensus        97 l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~-------------~l~~~~~~~~~~~~L~~L~-l~~~~~l~~  162 (348)
                      .+. |+.|+++++. ++.+|..++.+++|+.|+++++.             .....|..+..+++|+.|+ +.. ..+..
T Consensus       348 ~~~-L~~L~Ls~n~-L~~Lp~~i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~~l~~l~~L~~L~~l~~-n~~~~  424 (567)
T 1dce_A          348 DEQ-LFRCELSVEK-STVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRA-AYLDD  424 (567)
T ss_dssp             TTT-SSSCCCCHHH-HHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGH-HHHHH
T ss_pred             Ccc-ceeccCChhh-HHhhHHHHHHHHHHHHhccccchhhhhHHHHHHhcccccCCHHHHHHHHhcccCcchhh-cccch
Confidence            455 7777777664 66778888888888888876543             1222233333445566655 222 11111


Q ss_pred             ccc------ccc--CCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccC
Q 039944          163 LPK------GMH--NLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCD  234 (348)
Q Consensus       163 ~~~------~l~--~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c  234 (348)
                      ++.      .+.  ....|+.|++++| .++.+| .++.+++|+.|+++++ .+..++    ..+..+++|+.|++++  
T Consensus       425 L~~l~l~~n~i~~l~~~~L~~L~Ls~n-~l~~lp-~~~~l~~L~~L~Ls~N-~l~~lp----~~~~~l~~L~~L~Ls~--  495 (567)
T 1dce_A          425 LRSKFLLENSVLKMEYADVRVLHLAHK-DLTVLC-HLEQLLLVTHLDLSHN-RLRALP----PALAALRCLEVLQASD--  495 (567)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSEEECTTS-CCSSCC-CGGGGTTCCEEECCSS-CCCCCC----GGGGGCTTCCEEECCS--
T ss_pred             hhhhhhhcccccccCccCceEEEecCC-CCCCCc-CccccccCcEeecCcc-cccccc----hhhhcCCCCCEEECCC--
Confidence            111      010  1125778888876 566677 4777788888888874 455555    2467788888888887  


Q ss_pred             CcccccccchhccCCCCCCCCCccEEEeccCCCcccc--ccccccCCCcceEeccCCCCCCCCCCCCC-----CCCCcEE
Q 039944          235 EDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERL--SSSIVDLQNLTELYLFGCPKLKYFPEKGL-----PSSLLEL  307 (348)
Q Consensus       235 ~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i--~~~~~~~~~L~~L~l~~c~~l~~l~~~~~-----~~~L~~L  307 (348)
                      +.+..+| ..       ..+++|+.|++++ +.++.+  |..+..+++|+.|++++| .++.+|....     .++|+.|
T Consensus       496 N~l~~lp-~l-------~~l~~L~~L~Ls~-N~l~~~~~p~~l~~l~~L~~L~L~~N-~l~~~~~~~~~l~~~lp~L~~L  565 (567)
T 1dce_A          496 NALENVD-GV-------ANLPRLQELLLCN-NRLQQSAAIQPLVSCPRLVLLNLQGN-SLCQEEGIQERLAEMLPSVSSI  565 (567)
T ss_dssp             SCCCCCG-GG-------TTCSSCCEEECCS-SCCCSSSTTGGGGGCTTCCEEECTTS-GGGGSSSCTTHHHHHCTTCSEE
T ss_pred             CCCCCCc-cc-------CCCCCCcEEECCC-CCCCCCCCcHHHhcCCCCCEEEecCC-cCCCCccHHHHHHHHCcccCcc
Confidence            5666666 44       3677888888887 466666  677888888888888874 4555554221     5677776


Q ss_pred             E
Q 039944          308 R  308 (348)
Q Consensus       308 ~  308 (348)
                      +
T Consensus       566 ~  566 (567)
T 1dce_A          566 L  566 (567)
T ss_dssp             E
T ss_pred             C
Confidence            5

>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=99.22  E-value=1.5e-13  Score=131.19  Aligned_cols=199  Identities=18%  Similarity=0.146  Sum_probs=126.6

Q ss_pred             CCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCC------------CccccccCCCCCCCcceeEe
Q 039944           27 LPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCP------------SLTCIFSKNELPATLESLEV   94 (348)
Q Consensus        27 ~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~------------~l~~~~~~~~~~~~L~~L~i   94 (348)
                      ..++|+.|+++++. ++.+|..        ++.++  +|++|++.++-            ......|.     .+     
T Consensus       347 ~~~~L~~L~Ls~n~-L~~Lp~~--------i~~l~--~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~-----~l-----  405 (567)
T 1dce_A          347 TDEQLFRCELSVEK-STVLQSE--------LESCK--ELQELEPENKWCLLTIILLMRALDPLLYEKE-----TL-----  405 (567)
T ss_dssp             TTTTSSSCCCCHHH-HHHHHHH--------HHHHH--HHHHHCTTCHHHHHHHHHHHHHHCTGGGHHH-----HH-----
T ss_pred             cCccceeccCChhh-HHhhHHH--------HHHHH--HHHHhccccchhhhhHHHHHHhcccccCCHH-----HH-----
Confidence            37788888888887 7888876        67777  88888874421            01110111     11     


Q ss_pred             ccCCCCccEEE-EcCCCCcccchh------hhcC--CCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccc
Q 039944           95 GNLPLSLKSLF-VYGCSKLGSIAE------RLDN--NTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPK  165 (348)
Q Consensus        95 ~~l~~~L~~L~-l~~~~~~~~~~~------~~~~--l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  165 (348)
                      ..+++ |+.|+ ++.+ .+..++.      .+..  ...|+.|++++ +.+..+|. +..+++|+.|++++| .+..+|.
T Consensus       406 ~~l~~-L~~L~~l~~n-~~~~L~~l~l~~n~i~~l~~~~L~~L~Ls~-n~l~~lp~-~~~l~~L~~L~Ls~N-~l~~lp~  480 (567)
T 1dce_A          406 QYFST-LKAVDPMRAA-YLDDLRSKFLLENSVLKMEYADVRVLHLAH-KDLTVLCH-LEQLLLVTHLDLSHN-RLRALPP  480 (567)
T ss_dssp             HHHHH-HHHHCGGGHH-HHHHHHHHHHHHHHHHHHHHTTCSEEECTT-SCCSSCCC-GGGGTTCCEEECCSS-CCCCCCG
T ss_pred             HHHHh-cccCcchhhc-ccchhhhhhhhcccccccCccCceEEEecC-CCCCCCcC-ccccccCcEeecCcc-cccccch
Confidence            11122 44433 2111 1111100      0111  13588888888 46667776 777888999999885 4668888


Q ss_pred             cccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhh-hccccccCCCCCccEEEecccCCcccccccch
Q 039944          166 GMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSM-IERGRGFHRFSSLRRLTISRCDEDMVSFPLED  244 (348)
Q Consensus       166 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~-~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~  244 (348)
                      .+..+++|++|++++| .++.+| .++.+++|+.|++++| .+.... .   ..+..+++|+.|++++  +.+...+...
T Consensus       481 ~~~~l~~L~~L~Ls~N-~l~~lp-~l~~l~~L~~L~Ls~N-~l~~~~~p---~~l~~l~~L~~L~L~~--N~l~~~~~~~  552 (567)
T 1dce_A          481 ALAALRCLEVLQASDN-ALENVD-GVANLPRLQELLLCNN-RLQQSAAI---QPLVSCPRLVLLNLQG--NSLCQEEGIQ  552 (567)
T ss_dssp             GGGGCTTCCEEECCSS-CCCCCG-GGTTCSSCCEEECCSS-CCCSSSTT---GGGGGCTTCCEEECTT--SGGGGSSSCT
T ss_pred             hhhcCCCCCEEECCCC-CCCCCc-ccCCCCCCcEEECCCC-CCCCCCCc---HHHhcCCCCCEEEecC--CcCCCCccHH
Confidence            8888999999999887 566787 7888899999999885 455552 1   3577889999999998  5677666533


Q ss_pred             hccCCCCCCCCCccEEEe
Q 039944          245 KRLGTALPLPASLTSLWI  262 (348)
Q Consensus       245 ~~~~~~~~~~~~L~~L~l  262 (348)
                      ..   ....+++|+.|++
T Consensus       553 ~~---l~~~lp~L~~L~l  567 (567)
T 1dce_A          553 ER---LAEMLPSVSSILT  567 (567)
T ss_dssp             TH---HHHHCTTCSEEEC
T ss_pred             HH---HHHHCcccCccCC
Confidence            10   0013677887753

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=99.22  E-value=3.7e-11  Score=96.11  Aligned_cols=129  Identities=22%  Similarity=0.236  Sum_probs=69.3

Q ss_pred             CccEEEEcCCCCc-ccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEe
Q 039944          100 SLKSLFVYGCSKL-GSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRI  178 (348)
Q Consensus       100 ~L~~L~l~~~~~~-~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l  178 (348)
                      +++.|++++|... ..++..+..+++|++|++++|. +..+ ..+..+++|+.|++++|.....+|..+..+++|++|++
T Consensus        25 ~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~-l~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  102 (168)
T 2ell_A           25 AVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVG-LISV-SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNL  102 (168)
T ss_dssp             SCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSC-CCCC-SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEEC
T ss_pred             cCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCC-CCCh-hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEec
Confidence            3666666666522 2455555666667777776643 4444 44555666777777765432224444455667777777


Q ss_pred             ccCCCCCccc--ccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecc
Q 039944          179 GKGGALPSLE--EEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISR  232 (348)
Q Consensus       179 ~~~~~~~~~~--~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~  232 (348)
                      ++| .+..++  ..+..+++|+.|+++++ .+...+......+..+++|+.|++++
T Consensus       103 s~N-~l~~~~~~~~l~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~l~~L~~L~l~~  156 (168)
T 2ell_A          103 SGN-KLKDISTLEPLKKLECLKSLDLFNC-EVTNLNDYRESVFKLLPQLTYLDGYD  156 (168)
T ss_dssp             BSS-SCCSSGGGGGGSSCSCCCEEECCSS-GGGTSTTHHHHHHTTCSSCCEETTEE
T ss_pred             cCC-ccCcchhHHHHhcCCCCCEEEeeCC-cCcchHHHHHHHHHhCccCcEecCCC
Confidence            665 444443  34555566666666664 23333310001344556666666655

>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=99.16  E-value=1.3e-10  Score=92.88  Aligned_cols=131  Identities=19%  Similarity=0.175  Sum_probs=70.2

Q ss_pred             CCccEEEEecCCCcC--cccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchh-hhhccccccCCCC
Q 039944          147 AKLTRLTILDCKRLE--ALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWK-SMIERGRGFHRFS  223 (348)
Q Consensus       147 ~~L~~L~l~~~~~l~--~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~-~~~~~~~~~~~l~  223 (348)
                      ++|+.|++++|. +.  .+|..+..+++|++|++++|. +..+ ..++.+++|+.|+++++. +.. .+    ..+..++
T Consensus        24 ~~L~~L~l~~n~-l~~~~i~~~~~~l~~L~~L~l~~n~-l~~~-~~~~~l~~L~~L~Ls~N~-l~~~~~----~~~~~l~   95 (168)
T 2ell_A           24 AAVRELVLDNCK-SNDGKIEGLTAEFVNLEFLSLINVG-LISV-SNLPKLPKLKKLELSENR-IFGGLD----MLAEKLP   95 (168)
T ss_dssp             TSCSEEECCSCB-CBTTBCSSCCGGGGGCCEEEEESSC-CCCC-SSCCCCSSCCEEEEESCC-CCSCCC----HHHHHCT
T ss_pred             ccCCEEECCCCC-CChhhHHHHHHhCCCCCEEeCcCCC-CCCh-hhhccCCCCCEEECcCCc-CchHHH----HHHhhCC
Confidence            355555555543 33  444444555556666665542 4444 245555666666666543 222 22    1233466


Q ss_pred             CccEEEecccCCcccccc--cchhccCCCCCCCCCccEEEeccCCCcccccc----ccccCCCcceEeccCCCCCCCCC
Q 039944          224 SLRRLTISRCDEDMVSFP--LEDKRLGTALPLPASLTSLWIEAFPNLERLSS----SIVDLQNLTELYLFGCPKLKYFP  296 (348)
Q Consensus       224 ~L~~L~l~~~c~~l~~~~--~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~----~~~~~~~L~~L~l~~c~~l~~l~  296 (348)
                      +|+.|++++  +.+..++  ...       ..+++|+.|++++| .+..++.    .+..+++|+.|++.+| .+..+|
T Consensus        96 ~L~~L~Ls~--N~l~~~~~~~~l-------~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~l~~L~~L~l~~n-~~~~~~  163 (168)
T 2ell_A           96 NLTHLNLSG--NKLKDISTLEPL-------KKLECLKSLDLFNC-EVTNLNDYRESVFKLLPQLTYLDGYDR-EDQEAP  163 (168)
T ss_dssp             TCCEEECBS--SSCCSSGGGGGG-------SSCSCCCEEECCSS-GGGTSTTHHHHHHTTCSSCCEETTEET-TSCBCC
T ss_pred             CCCEEeccC--CccCcchhHHHH-------hcCCCCCEEEeeCC-cCcchHHHHHHHHHhCccCcEecCCCC-Chhhcc
Confidence            677777766  3455544  222       35566777777763 4555554    5666777777777775 334444

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=99.14  E-value=8.7e-09  Score=94.03  Aligned_cols=257  Identities=12%  Similarity=0.121  Sum_probs=144.0

Q ss_pred             CcccEEeecCcccccccCCCCC-CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCC
Q 039944            6 SSLEILDIEKCHSLTYIAAVQL-PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNE   84 (348)
Q Consensus         6 ~~L~~L~l~~~~~l~~l~~~~~-~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~   84 (348)
                      ..++.+.+-+  .++.++...| -.+|+.+.+...  ++.++..       .|.++   +|+.+.+..  .+.. ++...
T Consensus       113 ~~l~~i~ip~--~i~~I~~~aF~~~~L~~i~l~~~--i~~I~~~-------aF~~~---~L~~i~lp~--~l~~-I~~~a  175 (401)
T 4fdw_A          113 KGYNEIILPN--SVKSIPKDAFRNSQIAKVVLNEG--LKSIGDM-------AFFNS---TVQEIVFPS--TLEQ-LKEDI  175 (401)
T ss_dssp             SSCSEEECCT--TCCEECTTTTTTCCCSEEECCTT--CCEECTT-------TTTTC---CCCEEECCT--TCCE-ECSST
T ss_pred             CCccEEEECC--ccCEehHhhcccCCccEEEeCCC--ccEECHH-------hcCCC---CceEEEeCC--CccE-ehHHH
Confidence            3445555542  4555555444 235666666543  4555554       34442   466666653  3444 44433


Q ss_pred             CCCCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCC-CCCCCCCccEEEEecCCCcCcc
Q 039944           85 LPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPE-GGLPCAKLTRLTILDCKRLEAL  163 (348)
Q Consensus        85 ~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~-~~~~~~~L~~L~l~~~~~l~~~  163 (348)
                      +         ..+++ |+.+.+.++. +..++.......+|+.+.+..  .+..++. .+..|++|+.+.+.+  .++.+
T Consensus       176 F---------~~c~~-L~~l~l~~n~-l~~I~~~aF~~~~L~~l~lp~--~l~~I~~~aF~~~~~L~~l~l~~--~l~~I  240 (401)
T 4fdw_A          176 F---------YYCYN-LKKADLSKTK-ITKLPASTFVYAGIEEVLLPV--TLKEIGSQAFLKTSQLKTIEIPE--NVSTI  240 (401)
T ss_dssp             T---------TTCTT-CCEEECTTSC-CSEECTTTTTTCCCSEEECCT--TCCEECTTTTTTCTTCCCEECCT--TCCEE
T ss_pred             h---------hCccc-CCeeecCCCc-ceEechhhEeecccCEEEeCC--chheehhhHhhCCCCCCEEecCC--CccCc
Confidence            3         23344 6666666443 455544333456777777753  2555554 334566777777765  24555


Q ss_pred             cc-cccCCCCcceeEeccCCCCCccc-ccCCCCCCcCeeeecCCccc----hhhhhccccccCCCCCccEEEecccCCcc
Q 039944          164 PK-GMHNLTSLQYLRIGKGGALPSLE-EEDGLPTNLQSLDIWGNMEI----WKSMIERGRGFHRFSSLRRLTISRCDEDM  237 (348)
Q Consensus       164 ~~-~l~~l~~L~~L~l~~~~~~~~~~-~~~~~~~~L~~L~l~~~~~l----~~~~~~~~~~~~~l~~L~~L~l~~~c~~l  237 (348)
                      +. .+.+ .+|+.+.+..  .+..++ ..+..+++|+.+++.++...    ..+..   ..|.++++|+.+.+.+   ++
T Consensus       241 ~~~aF~~-~~L~~i~lp~--~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~---~aF~~c~~L~~l~l~~---~i  311 (401)
T 4fdw_A          241 GQEAFRE-SGITTVKLPN--GVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHP---YCLEGCPKLARFEIPE---SI  311 (401)
T ss_dssp             CTTTTTT-CCCSEEEEET--TCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECT---TTTTTCTTCCEECCCT---TC
T ss_pred             ccccccc-CCccEEEeCC--CccEEChhHhhCCCCCCEEEeCCccccCCcccEECH---HHhhCCccCCeEEeCC---ce
Confidence            43 2333 5677777743  344443 24556777777777663221    11222   3567777888887775   35


Q ss_pred             cccccchhccCCCCCCCCCccEEEeccCCCcccccc-ccccCCCcceEeccCCCCCCCCCCCC---CCCCCcEEEEcCCc
Q 039944          238 VSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGCPKLKYFPEKG---LPSSLLELRISRCP  313 (348)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c~~l~~l~~~~---~~~~L~~L~l~~c~  313 (348)
                      ..++.      .++..+++|+.+.+..  .++.+.. .+.++ +|+.+++.++ .+..++...   ++.+++.|++....
T Consensus       312 ~~I~~------~aF~~c~~L~~l~lp~--~l~~I~~~aF~~~-~L~~l~l~~n-~~~~l~~~~F~~~~~~l~~l~vp~~~  381 (401)
T 4fdw_A          312 RILGQ------GLLGGNRKVTQLTIPA--NVTQINFSAFNNT-GIKEVKVEGT-TPPQVFEKVWYGFPDDITVIRVPAES  381 (401)
T ss_dssp             CEECT------TTTTTCCSCCEEEECT--TCCEECTTSSSSS-CCCEEEECCS-SCCBCCCSSCCCSCTTCCEEEECGGG
T ss_pred             EEEhh------hhhcCCCCccEEEECc--cccEEcHHhCCCC-CCCEEEEcCC-CCcccccccccCCCCCccEEEeCHHH
Confidence            55544      2345667888888864  4666655 67777 8888888874 455555432   24577888887643

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.10  E-value=7.9e-11  Score=92.19  Aligned_cols=101  Identities=23%  Similarity=0.227  Sum_probs=46.3

Q ss_pred             ccEEEEcCCCCc-ccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEec
Q 039944          101 LKSLFVYGCSKL-GSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIG  179 (348)
Q Consensus       101 L~~L~l~~~~~~-~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~  179 (348)
                      ++.|++++|... ..++..+..+++|+.|++++| .+..+ ..+..+++|+.|++++|.....+|..+..+++|++|+++
T Consensus        19 l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n-~l~~~-~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~ls   96 (149)
T 2je0_A           19 VKELVLDNSRSNEGKLEGLTDEFEELEFLSTINV-GLTSI-ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLS   96 (149)
T ss_dssp             CSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTS-CCCCC-TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEEECT
T ss_pred             CeEEEccCCcCChhHHHHHHhhcCCCcEEECcCC-CCCCc-hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEEECC
Confidence            555555555422 134444445555555555553 33333 334444555555555543222244333445555555555


Q ss_pred             cCCCCCccc--ccCCCCCCcCeeeecC
Q 039944          180 KGGALPSLE--EEDGLPTNLQSLDIWG  204 (348)
Q Consensus       180 ~~~~~~~~~--~~~~~~~~L~~L~l~~  204 (348)
                      +| .+..++  ..++.+++|+.|++++
T Consensus        97 ~N-~i~~~~~~~~~~~l~~L~~L~l~~  122 (149)
T 2je0_A           97 GN-KIKDLSTIEPLKKLENLKSLDLFN  122 (149)
T ss_dssp             TS-CCCSHHHHGGGGGCTTCCEEECTT
T ss_pred             CC-cCCChHHHHHHhhCCCCCEEeCcC
Confidence            54 233322  2344444455555544

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.09  E-value=1.9e-10  Score=89.96  Aligned_cols=122  Identities=16%  Similarity=0.123  Sum_probs=61.1

Q ss_pred             CccEEEEecCCCcC--cccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchh-hhhccccccCCCCC
Q 039944          148 KLTRLTILDCKRLE--ALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWK-SMIERGRGFHRFSS  224 (348)
Q Consensus       148 ~L~~L~l~~~~~l~--~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~-~~~~~~~~~~~l~~  224 (348)
                      +++.|++++|. +.  .+|..+..+++|++|++++| .+..+ ..++.+++|+.|+++++. +.. .+    ..+..+++
T Consensus        18 ~l~~L~l~~n~-l~~~~~~~~~~~l~~L~~L~l~~n-~l~~~-~~~~~l~~L~~L~Ls~n~-i~~~~~----~~~~~l~~   89 (149)
T 2je0_A           18 DVKELVLDNSR-SNEGKLEGLTDEFEELEFLSTINV-GLTSI-ANLPKLNKLKKLELSDNR-VSGGLE----VLAEKCPN   89 (149)
T ss_dssp             GCSEEECTTCB-CBTTBCCSCCTTCTTCCEEECTTS-CCCCC-TTCCCCTTCCEEECCSSC-CCSCTH----HHHHHCTT
T ss_pred             cCeEEEccCCc-CChhHHHHHHhhcCCCcEEECcCC-CCCCc-hhhhcCCCCCEEECCCCc-ccchHH----HHhhhCCC
Confidence            45555555543 22  44444455555555555554 33333 244555555555555533 222 22    12334566


Q ss_pred             ccEEEecccCCcccccc--cchhccCCCCCCCCCccEEEeccCCCcccccc----ccccCCCcceEecc
Q 039944          225 LRRLTISRCDEDMVSFP--LEDKRLGTALPLPASLTSLWIEAFPNLERLSS----SIVDLQNLTELYLF  287 (348)
Q Consensus       225 L~~L~l~~~c~~l~~~~--~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~----~~~~~~~L~~L~l~  287 (348)
                      |+.|++++  +.+..++  ...       ..+++|++|++++| .++.++.    .+..+++|+.|+++
T Consensus        90 L~~L~ls~--N~i~~~~~~~~~-------~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           90 LTHLNLSG--NKIKDLSTIEPL-------KKLENLKSLDLFNC-EVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             CCEEECTT--SCCCSHHHHGGG-------GGCTTCCEEECTTC-GGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             CCEEECCC--CcCCChHHHHHH-------hhCCCCCEEeCcCC-cccchHHHHHHHHHHCCCcccccCC
Confidence            66666665  3444432  222       24556666666663 4554443    45566666666654

>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=99.07  E-value=2.1e-09  Score=95.66  Aligned_cols=102  Identities=14%  Similarity=0.103  Sum_probs=79.1

Q ss_pred             CCCCcceeEeccCCCCCcccc-cCCCCCCcCeeeecCCccchhhhhccccccCCCCCcc-EEEecccCCcccccccchhc
Q 039944          169 NLTSLQYLRIGKGGALPSLEE-EDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLR-RLTISRCDEDMVSFPLEDKR  246 (348)
Q Consensus       169 ~l~~L~~L~l~~~~~~~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~-~L~l~~~c~~l~~~~~~~~~  246 (348)
                      .+++|+.+++.++ .+..++. .+..+++|+.+++.++  +..+..   ..|.++.+|+ .+++.+   .++.++.    
T Consensus       224 ~~~~L~~l~L~~n-~i~~I~~~aF~~~~~L~~l~l~~n--i~~I~~---~aF~~~~~L~~~l~l~~---~l~~I~~----  290 (329)
T 3sb4_A          224 YMPNLVSLDISKT-NATTIPDFTFAQKKYLLKIKLPHN--LKTIGQ---RVFSNCGRLAGTLELPA---SVTAIEF----  290 (329)
T ss_dssp             HCTTCCEEECTTB-CCCEECTTTTTTCTTCCEEECCTT--CCEECT---TTTTTCTTCCEEEEECT---TCCEECT----
T ss_pred             hcCCCeEEECCCC-CcceecHhhhhCCCCCCEEECCcc--cceehH---HHhhCChhccEEEEEcc---cceEEch----
Confidence            3789999999976 4666664 4677899999999885  555554   3789999999 999986   4556554    


Q ss_pred             cCCCCCCCCCccEEEeccCCCcccccc-ccccCCCcceEec
Q 039944          247 LGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQNLTELYL  286 (348)
Q Consensus       247 ~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l  286 (348)
                        .++..+++|+.+++.. +.++.++. .|.++++|+.++.
T Consensus       291 --~aF~~c~~L~~l~l~~-n~i~~I~~~aF~~~~~L~~ly~  328 (329)
T 3sb4_A          291 --GAFMGCDNLRYVLATG-DKITTLGDELFGNGVPSKLIYK  328 (329)
T ss_dssp             --TTTTTCTTEEEEEECS-SCCCEECTTTTCTTCCCCEEEC
T ss_pred             --hhhhCCccCCEEEeCC-CccCccchhhhcCCcchhhhcc
Confidence              3457888999999977 57888877 7888999998864

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=99.04  E-value=3.1e-08  Score=90.36  Aligned_cols=238  Identities=10%  Similarity=0.100  Sum_probs=166.2

Q ss_pred             CCCCCcccEEeecCcccccccCCCCC-CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccc
Q 039944            2 CDTNSSLEILDIEKCHSLTYIAAVQL-PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIF   80 (348)
Q Consensus         2 ~~~~~~L~~L~l~~~~~l~~l~~~~~-~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~   80 (348)
                      |..+ +|+.+.+..  +++.++...| -.+|+.+.+..  .++.++..       .|..+.  +|+.+++.+ +.++. +
T Consensus       132 F~~~-~L~~i~l~~--~i~~I~~~aF~~~~L~~i~lp~--~l~~I~~~-------aF~~c~--~L~~l~l~~-n~l~~-I  195 (401)
T 4fdw_A          132 FRNS-QIAKVVLNE--GLKSIGDMAFFNSTVQEIVFPS--TLEQLKED-------IFYYCY--NLKKADLSK-TKITK-L  195 (401)
T ss_dssp             TTTC-CCSEEECCT--TCCEECTTTTTTCCCCEEECCT--TCCEECSS-------TTTTCT--TCCEEECTT-SCCSE-E
T ss_pred             cccC-CccEEEeCC--CccEECHHhcCCCCceEEEeCC--CccEehHH-------HhhCcc--cCCeeecCC-CcceE-e
Confidence            4454 799999874  5888887766 45799999987  57888877       688888  999999976 35666 6


Q ss_pred             cCCCCCCCcceeEeccCCCCccEEEEcCCCCcccch-hhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCC
Q 039944           81 SKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIA-ERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKR  159 (348)
Q Consensus        81 ~~~~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~  159 (348)
                      +...+.          ... |+.+.+...  +..++ ..+..+++|+.+.+..  .+..++.....-.+|+.+.+..  .
T Consensus       196 ~~~aF~----------~~~-L~~l~lp~~--l~~I~~~aF~~~~~L~~l~l~~--~l~~I~~~aF~~~~L~~i~lp~--~  258 (401)
T 4fdw_A          196 PASTFV----------YAG-IEEVLLPVT--LKEIGSQAFLKTSQLKTIEIPE--NVSTIGQEAFRESGITTVKLPN--G  258 (401)
T ss_dssp             CTTTTT----------TCC-CSEEECCTT--CCEECTTTTTTCTTCCCEECCT--TCCEECTTTTTTCCCSEEEEET--T
T ss_pred             chhhEe----------ecc-cCEEEeCCc--hheehhhHhhCCCCCCEEecCC--CccCccccccccCCccEEEeCC--C
Confidence            665441          133 777777532  55553 5677889999999976  3666666554447899999954  4


Q ss_pred             cCccc-ccccCCCCcceeEeccCCCC----Cccc-ccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEeccc
Q 039944          160 LEALP-KGMHNLTSLQYLRIGKGGAL----PSLE-EEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRC  233 (348)
Q Consensus       160 l~~~~-~~l~~l~~L~~L~l~~~~~~----~~~~-~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~  233 (348)
                      ++.++ ..+.++++|+.+.+.++...    ..++ ..+..+++|+.+.+..  .+..+..   ..|.++++|+.+.+.. 
T Consensus       259 i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~~--~i~~I~~---~aF~~c~~L~~l~lp~-  332 (401)
T 4fdw_A          259 VTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIPE--SIRILGQ---GLLGGNRKVTQLTIPA-  332 (401)
T ss_dssp             CCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCCT--TCCEECT---TTTTTCCSCCEEEECT-
T ss_pred             ccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeCC--ceEEEhh---hhhcCCCCccEEEECc-
Confidence            66665 36688999999999865221    1232 2467788999999985  3555544   3688899999999976 


Q ss_pred             CCcccccccchhccCCCCCCCCCccEEEeccCCCcccccc-ccccCC-CcceEeccC
Q 039944          234 DEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQ-NLTELYLFG  288 (348)
Q Consensus       234 c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~-~L~~L~l~~  288 (348)
                        ++..+..      .++..+ +|+.+.+.++ .+..++. .+..++ +++.|.+-.
T Consensus       333 --~l~~I~~------~aF~~~-~L~~l~l~~n-~~~~l~~~~F~~~~~~l~~l~vp~  379 (401)
T 4fdw_A          333 --NVTQINF------SAFNNT-GIKEVKVEGT-TPPQVFEKVWYGFPDDITVIRVPA  379 (401)
T ss_dssp             --TCCEECT------TSSSSS-CCCEEEECCS-SCCBCCCSSCCCSCTTCCEEEECG
T ss_pred             --cccEEcH------HhCCCC-CCCEEEEcCC-CCcccccccccCCCCCccEEEeCH
Confidence              3555544      234567 8999999884 4554444 456664 677777754

>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=99.01  E-value=6.3e-10  Score=89.63  Aligned_cols=128  Identities=18%  Similarity=0.182  Sum_probs=61.8

Q ss_pred             CCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCC
Q 039944          170 LTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGT  249 (348)
Q Consensus       170 l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~  249 (348)
                      +++|++|++++| .+..++......++|+.|+++++ .+..+.     .+..+++|+.|++++  +.+..++...     
T Consensus        18 ~~~L~~L~l~~n-~l~~i~~~~~~~~~L~~L~Ls~N-~l~~~~-----~l~~l~~L~~L~Ls~--N~l~~~~~~~-----   83 (176)
T 1a9n_A           18 AVRDRELDLRGY-KIPVIENLGATLDQFDAIDFSDN-EIRKLD-----GFPLLRRLKTLLVNN--NRICRIGEGL-----   83 (176)
T ss_dssp             TTSCEEEECTTS-CCCSCCCGGGGTTCCSEEECCSS-CCCEEC-----CCCCCSSCCEEECCS--SCCCEECSCH-----
T ss_pred             cCCceEEEeeCC-CCchhHHhhhcCCCCCEEECCCC-CCCccc-----ccccCCCCCEEECCC--CcccccCcch-----
Confidence            444444444443 23333311122225555555553 233221     344555666666665  3444444321     


Q ss_pred             CCCCCCCccEEEeccCCCcccccc--ccccCCCcceEeccCCCCCCCCCCC-----CCCCCCcEEEEcCCch
Q 039944          250 ALPLPASLTSLWIEAFPNLERLSS--SIVDLQNLTELYLFGCPKLKYFPEK-----GLPSSLLELRISRCPL  314 (348)
Q Consensus       250 ~~~~~~~L~~L~l~~~~~l~~i~~--~~~~~~~L~~L~l~~c~~l~~l~~~-----~~~~~L~~L~l~~c~~  314 (348)
                       +..+++|++|++++ +.++.+|.  .+..+++|+.|++++| .+..+|..     ...++|+.|+++++..
T Consensus        84 -~~~l~~L~~L~L~~-N~i~~~~~~~~l~~l~~L~~L~l~~N-~i~~~~~~~~~~~~~l~~L~~Ld~~~n~~  152 (176)
T 1a9n_A           84 -DQALPDLTELILTN-NSLVELGDLDPLASLKSLTYLCILRN-PVTNKKHYRLYVIYKVPQVRVLDFQKVKL  152 (176)
T ss_dssp             -HHHCTTCCEEECCS-CCCCCGGGGGGGGGCTTCCEEECCSS-GGGGSTTHHHHHHHHCTTCSEETTEECCH
T ss_pred             -hhcCCCCCEEECCC-CcCCcchhhHhhhcCCCCCEEEecCC-CCCCcHhHHHHHHHHCCccceeCCCcCCH
Confidence             01345566666665 34555554  5556666666666664 34444441     1156667776666653

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.01  E-value=1.2e-10  Score=114.51  Aligned_cols=109  Identities=19%  Similarity=0.256  Sum_probs=54.2

Q ss_pred             hhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCC
Q 039944          116 AERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPT  195 (348)
Q Consensus       116 ~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~  195 (348)
                      +..+..+++|+.|++++| .+..+|..++.+++|+.|++++| .+..+|..+..+++|++|++++| .+..+|..++.++
T Consensus       217 ~~~~~~l~~L~~L~Ls~n-~l~~l~~~~~~l~~L~~L~Ls~N-~l~~lp~~~~~l~~L~~L~Ls~N-~l~~lp~~~~~l~  293 (727)
T 4b8c_D          217 KDSKYDDQLWHALDLSNL-QIFNISANIFKYDFLTRLYLNGN-SLTELPAEIKNLSNLRVLDLSHN-RLTSLPAELGSCF  293 (727)
T ss_dssp             -----CCCCCCEEECTTS-CCSCCCGGGGGCCSCSCCBCTTS-CCSCCCGGGGGGTTCCEEECTTS-CCSSCCSSGGGGT
T ss_pred             hhhhccCCCCcEEECCCC-CCCCCChhhcCCCCCCEEEeeCC-cCcccChhhhCCCCCCEEeCcCC-cCCccChhhcCCC
Confidence            344455555555555553 33345554445555555555553 34455555555555555555554 3445554455555


Q ss_pred             CcCeeeecCCccchhhhhccccccCCCCCccEEEecc
Q 039944          196 NLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISR  232 (348)
Q Consensus       196 ~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~  232 (348)
                      +|+.|++++| .+..++    ..+..+++|+.|++++
T Consensus       294 ~L~~L~L~~N-~l~~lp----~~~~~l~~L~~L~L~~  325 (727)
T 4b8c_D          294 QLKYFYFFDN-MVTTLP----WEFGNLCNLQFLGVEG  325 (727)
T ss_dssp             TCSEEECCSS-CCCCCC----SSTTSCTTCCCEECTT
T ss_pred             CCCEEECCCC-CCCccC----hhhhcCCCccEEeCCC
Confidence            5555555553 333333    2345555555555555

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=98.98  E-value=3.9e-09  Score=86.32  Aligned_cols=123  Identities=20%  Similarity=0.238  Sum_probs=77.7

Q ss_pred             ceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCccc-ccCCCCCCcCeeeecC
Q 039944          126 ETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLE-EEDGLPTNLQSLDIWG  204 (348)
Q Consensus       126 ~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~-~~~~~~~~L~~L~l~~  204 (348)
                      +.+++++ +.+..+|..+.  ++|+.|++++| .++.+|..+..+++|++|++++| .+..++ ..+..+++|+.|++++
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 TVVRCSN-KGLKVLPKGIP--RDVTELYLDGN-QFTLVPKELSNYKHLTLIDLSNN-RISTLSNQSFSNMTQLLTLILSY   87 (193)
T ss_dssp             TEEECTT-SCCSSCCSCCC--TTCCEEECCSS-CCCSCCGGGGGCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CEEEcCC-CCCCcCCCCCC--CCCCEEECCCC-cCchhHHHhhcccCCCEEECCCC-cCCEeCHhHccCCCCCCEEECCC
Confidence            4566665 45667776553  47888888774 46677777777788888888776 444444 2356677777777777


Q ss_pred             CccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccC
Q 039944          205 NMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAF  265 (348)
Q Consensus       205 ~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~  265 (348)
                      + .+..++..   .+..+++|+.|++++  +.+..++...      +..+++|+.|+++++
T Consensus        88 N-~l~~i~~~---~f~~l~~L~~L~L~~--N~l~~~~~~~------~~~l~~L~~L~L~~N  136 (193)
T 2wfh_A           88 N-RLRCIPPR---TFDGLKSLRLLSLHG--NDISVVPEGA------FNDLSALSHLAIGAN  136 (193)
T ss_dssp             S-CCCBCCTT---TTTTCTTCCEEECCS--SCCCBCCTTT------TTTCTTCCEEECCSS
T ss_pred             C-ccCEeCHH---HhCCCCCCCEEECCC--CCCCeeChhh------hhcCccccEEEeCCC
Confidence            4 34444432   456677777777776  5566555531      234566777777663

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=98.97  E-value=6.2e-09  Score=85.12  Aligned_cols=121  Identities=17%  Similarity=0.233  Sum_probs=59.5

Q ss_pred             cEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCccc-ccccCCCCcceeEecc
Q 039944          102 KSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALP-KGMHNLTSLQYLRIGK  180 (348)
Q Consensus       102 ~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~-~~l~~l~~L~~L~l~~  180 (348)
                      +.++++++. +..+|..+  .++++.|++++ +.+..+|..+..+++|+.|++++|. +..++ ..+..+++|++|++++
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 TVVRCSNKG-LKVLPKGI--PRDVTELYLDG-NQFTLVPKELSNYKHLTLIDLSNNR-ISTLSNQSFSNMTQLLTLILSY   87 (193)
T ss_dssp             TEEECTTSC-CSSCCSCC--CTTCCEEECCS-SCCCSCCGGGGGCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCS
T ss_pred             CEEEcCCCC-CCcCCCCC--CCCCCEEECCC-CcCchhHHHhhcccCCCEEECCCCc-CCEeCHhHccCCCCCCEEECCC
Confidence            344444433 44444332  24556666655 3444555445555566666665533 33333 2345556666666665


Q ss_pred             CCCCCcccc-cCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecc
Q 039944          181 GGALPSLEE-EDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISR  232 (348)
Q Consensus       181 ~~~~~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~  232 (348)
                      | .+..++. .+..+++|+.|+++++ .+..++..   .+..+++|+.|++++
T Consensus        88 N-~l~~i~~~~f~~l~~L~~L~L~~N-~l~~~~~~---~~~~l~~L~~L~L~~  135 (193)
T 2wfh_A           88 N-RLRCIPPRTFDGLKSLRLLSLHGN-DISVVPEG---AFNDLSALSHLAIGA  135 (193)
T ss_dssp             S-CCCBCCTTTTTTCTTCCEEECCSS-CCCBCCTT---TTTTCTTCCEEECCS
T ss_pred             C-ccCEeCHHHhCCCCCCCEEECCCC-CCCeeChh---hhhcCccccEEEeCC
Confidence            4 3333332 3445556666666553 33333321   344555666666655

>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=98.96  E-value=9.8e-10  Score=88.50  Aligned_cols=129  Identities=13%  Similarity=0.099  Sum_probs=101.3

Q ss_pred             CCCCCccEEEEecCCCcCcccccccCC-CCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCC
Q 039944          144 LPCAKLTRLTILDCKRLEALPKGMHNL-TSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRF  222 (348)
Q Consensus       144 ~~~~~L~~L~l~~~~~l~~~~~~l~~l-~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l  222 (348)
                      ..+.+|+.|++++| .++.++. +..+ ++|++|++++| .+..++ .++.+++|+.|+++++ .+..++..   .+..+
T Consensus        16 ~~~~~L~~L~l~~n-~l~~i~~-~~~~~~~L~~L~Ls~N-~l~~~~-~l~~l~~L~~L~Ls~N-~l~~~~~~---~~~~l   87 (176)
T 1a9n_A           16 TNAVRDRELDLRGY-KIPVIEN-LGATLDQFDAIDFSDN-EIRKLD-GFPLLRRLKTLLVNNN-RICRIGEG---LDQAL   87 (176)
T ss_dssp             ECTTSCEEEECTTS-CCCSCCC-GGGGTTCCSEEECCSS-CCCEEC-CCCCCSSCCEEECCSS-CCCEECSC---HHHHC
T ss_pred             CCcCCceEEEeeCC-CCchhHH-hhhcCCCCCEEECCCC-CCCccc-ccccCCCCCEEECCCC-cccccCcc---hhhcC
Confidence            45679999999996 5667754 4444 59999999997 566774 7888999999999995 46655532   34788


Q ss_pred             CCccEEEecccCCccccccc--chhccCCCCCCCCCccEEEeccCCCccccccc----cccCCCcceEeccCCC
Q 039944          223 SSLRRLTISRCDEDMVSFPL--EDKRLGTALPLPASLTSLWIEAFPNLERLSSS----IVDLQNLTELYLFGCP  290 (348)
Q Consensus       223 ~~L~~L~l~~~c~~l~~~~~--~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~----~~~~~~L~~L~l~~c~  290 (348)
                      ++|+.|++++  +.+..++.  ..       ..+++|+.|+++++ .+..+|..    +..+++|+.|+++++.
T Consensus        88 ~~L~~L~L~~--N~i~~~~~~~~l-------~~l~~L~~L~l~~N-~i~~~~~~~~~~~~~l~~L~~Ld~~~n~  151 (176)
T 1a9n_A           88 PDLTELILTN--NSLVELGDLDPL-------ASLKSLTYLCILRN-PVTNKKHYRLYVIYKVPQVRVLDFQKVK  151 (176)
T ss_dssp             TTCCEEECCS--CCCCCGGGGGGG-------GGCTTCCEEECCSS-GGGGSTTHHHHHHHHCTTCSEETTEECC
T ss_pred             CCCCEEECCC--CcCCcchhhHhh-------hcCCCCCEEEecCC-CCCCcHhHHHHHHHHCCccceeCCCcCC
Confidence            9999999998  57777775  33       46789999999994 67777774    8899999999999864

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.94  E-value=1.1e-09  Score=107.75  Aligned_cols=190  Identities=15%  Similarity=0.101  Sum_probs=99.7

Q ss_pred             ccEEEEcCCCCcccchhhhcCCCccceeccccc----ccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCccee
Q 039944          101 LKSLFVYGCSKLGSIAERLDNNTSLETISIDSC----GNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYL  176 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~----~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L  176 (348)
                      ++.|.+.++. +...+..+.....|..+.+...    +.+...+..+..+++|+.|++++|. +..+|..+..+++|++|
T Consensus       175 ~~~l~L~~n~-~~~~~~~~l~~l~Ls~~~i~~~~~~~n~~~~~~~~~~~l~~L~~L~Ls~n~-l~~l~~~~~~l~~L~~L  252 (727)
T 4b8c_D          175 TPKIELFANG-KDEANQALLQHKKLSQYSIDEDDDIENRMVMPKDSKYDDQLWHALDLSNLQ-IFNISANIFKYDFLTRL  252 (727)
T ss_dssp             ------------------------------------------------CCCCCCEEECTTSC-CSCCCGGGGGCCSCSCC
T ss_pred             cceEEeeCCC-CCcchhhHhhcCccCcccccCccccccceecChhhhccCCCCcEEECCCCC-CCCCChhhcCCCCCCEE
Confidence            6777776554 3334433333444444444321    2333345566678889999999864 66788888889999999


Q ss_pred             EeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCC
Q 039944          177 RIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPAS  256 (348)
Q Consensus       177 ~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~  256 (348)
                      ++++| .+..+|..++.+++|+.|++++|. +..++    ..+..+++|+.|++++  +.+..+|..+       ..+++
T Consensus       253 ~Ls~N-~l~~lp~~~~~l~~L~~L~Ls~N~-l~~lp----~~~~~l~~L~~L~L~~--N~l~~lp~~~-------~~l~~  317 (727)
T 4b8c_D          253 YLNGN-SLTELPAEIKNLSNLRVLDLSHNR-LTSLP----AELGSCFQLKYFYFFD--NMVTTLPWEF-------GNLCN  317 (727)
T ss_dssp             BCTTS-CCSCCCGGGGGGTTCCEEECTTSC-CSSCC----SSGGGGTTCSEEECCS--SCCCCCCSST-------TSCTT
T ss_pred             EeeCC-cCcccChhhhCCCCCCEEeCcCCc-CCccC----hhhcCCCCCCEEECCC--CCCCccChhh-------hcCCC
Confidence            99987 566888778889999999999854 55665    3577889999999998  5777888765       57788


Q ss_pred             ccEEEeccCCCccccccccccCCC-cceEeccCCCCCCCCCCCCCCCCCcEEEEcCC
Q 039944          257 LTSLWIEAFPNLERLSSSIVDLQN-LTELYLFGCPKLKYFPEKGLPSSLLELRISRC  312 (348)
Q Consensus       257 L~~L~l~~~~~l~~i~~~~~~~~~-L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~c  312 (348)
                      |+.|+++++.....+|..+..... +..+++.++. +.    ..++..|+.|+++.+
T Consensus       318 L~~L~L~~N~l~~~~p~~~~~~~~~~~~l~l~~N~-l~----~~~p~~l~~l~l~~n  369 (727)
T 4b8c_D          318 LQFLGVEGNPLEKQFLKILTEKSVTGLIFYLRDNR-PE----IPLPHERRFIEINTD  369 (727)
T ss_dssp             CCCEECTTSCCCSHHHHHHHHHHHHHHHHHHHHCC-CC----CCCCCC---------
T ss_pred             ccEEeCCCCccCCCChHHHhhcchhhhHHhhccCc-cc----CcCccccceeEeecc
Confidence            999999985433455554433221 2235666642 22    123567777777765

>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=98.92  E-value=6.9e-09  Score=84.77  Aligned_cols=123  Identities=20%  Similarity=0.195  Sum_probs=79.7

Q ss_pred             ceecccccccccccCCCCCCCCCccEEEEecCCCcCccccc--ccCCCCcceeEeccCCCCCcc-cccCCCCCCcCeeee
Q 039944          126 ETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKG--MHNLTSLQYLRIGKGGALPSL-EEEDGLPTNLQSLDI  202 (348)
Q Consensus       126 ~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~--l~~l~~L~~L~l~~~~~~~~~-~~~~~~~~~L~~L~l  202 (348)
                      +.+++++ +.+..+|..+..  +++.|++++| .+..++..  +..+++|++|++++| .+..+ |..+..+++|+.|++
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 TTVDCTG-RGLKEIPRDIPL--HTTELLLNDN-ELGRISSDGLFGRLPHLVKLELKRN-QLTGIEPNAFEGASHIQELQL   85 (192)
T ss_dssp             TEEECTT-SCCSSCCSCCCT--TCSEEECCSC-CCCSBCCSCSGGGCTTCCEEECCSS-CCCCBCTTTTTTCTTCCEEEC
T ss_pred             CEEEcCC-CCcCcCccCCCC--CCCEEECCCC-cCCccCCccccccCCCCCEEECCCC-CCCCcCHhHcCCcccCCEEEC
Confidence            5677776 566777776544  7888888885 45656542  677888888888876 44444 445667778888888


Q ss_pred             cCCccchhhhhccccccCCCCCccEEEecccCCccccccc-chhccCCCCCCCCCccEEEeccCC
Q 039944          203 WGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPL-EDKRLGTALPLPASLTSLWIEAFP  266 (348)
Q Consensus       203 ~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~-~~~~~~~~~~~~~~L~~L~l~~~~  266 (348)
                      +++ .+...+.   ..+..+++|+.|++++  +.+..++. ..       ..+++|++|++++++
T Consensus        86 s~N-~l~~~~~---~~~~~l~~L~~L~L~~--N~l~~~~~~~~-------~~l~~L~~L~L~~N~  137 (192)
T 1w8a_A           86 GEN-KIKEISN---KMFLGLHQLKTLNLYD--NQISCVMPGSF-------EHLNSLTSLNLASNP  137 (192)
T ss_dssp             CSC-CCCEECS---SSSTTCTTCCEEECCS--SCCCEECTTSS-------TTCTTCCEEECTTCC
T ss_pred             CCC-cCCccCH---HHhcCCCCCCEEECCC--CcCCeeCHHHh-------hcCCCCCEEEeCCCC
Confidence            774 3444443   2466777777777777  45554432 22       456677777777743

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.88  E-value=1.7e-08  Score=81.17  Aligned_cols=123  Identities=20%  Similarity=0.287  Sum_probs=55.2

Q ss_pred             cEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCC
Q 039944            9 EILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPAT   88 (348)
Q Consensus         9 ~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~   88 (348)
                      +.+++++ ++++.+|. ..+++|++|+++++. +..++..       .+..++  +|++|+++++ .+.. ++...+   
T Consensus        10 ~~l~~~~-~~l~~~p~-~~~~~l~~L~l~~n~-l~~~~~~-------~~~~l~--~L~~L~l~~n-~l~~-~~~~~~---   72 (177)
T 2o6r_A           10 TEIRCNS-KGLTSVPT-GIPSSATRLELESNK-LQSLPHG-------VFDKLT--QLTKLSLSQN-QIQS-LPDGVF---   72 (177)
T ss_dssp             TEEECCS-SCCSSCCT-TCCTTCSEEECCSSC-CCCCCTT-------TTTTCT--TCSEEECCSS-CCCC-CCTTTT---
T ss_pred             CEEEecC-CCCccCCC-CCCCCCcEEEeCCCc-ccEeCHH-------HhcCcc--cccEEECCCC-cceE-eChhHc---
Confidence            4555554 34555542 234566666666655 5555544       344444  5666666553 3333 332211   


Q ss_pred             cceeEeccCCCCccEEEEcCCCCcccch-hhhcCCCccceecccccccccccCCCC-CCCCCccEEEEecC
Q 039944           89 LESLEVGNLPLSLKSLFVYGCSKLGSIA-ERLDNNTSLETISIDSCGNLVSFPEGG-LPCAKLTRLTILDC  157 (348)
Q Consensus        89 L~~L~i~~l~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~l~~~~~~~-~~~~~L~~L~l~~~  157 (348)
                            ..++. |+.|++++|. +..++ ..+..+++|++|++++| .+..+|... ..+++|+.|++++|
T Consensus        73 ------~~l~~-L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~l~~N  134 (177)
T 2o6r_A           73 ------DKLTK-LTILYLHENK-LQSLPNGVFDKLTQLKELALDTN-QLKSVPDGIFDRLTSLQKIWLHTN  134 (177)
T ss_dssp             ------TTCTT-CCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSS
T ss_pred             ------cCCCc-cCEEECCCCC-ccccCHHHhhCCcccCEEECcCC-cceEeCHHHhcCCcccCEEEecCC
Confidence                  11233 5555555443 22222 22344455555555442 333333322 23444444444443

>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=98.88  E-value=1.3e-08  Score=83.03  Aligned_cols=83  Identities=13%  Similarity=0.191  Sum_probs=34.3

Q ss_pred             hcCCCccceeccccccccccc-CCCCCCCCCccEEEEecCCCcCcccc-cccCCCCcceeEeccCCCCCcc-cccCCCCC
Q 039944          119 LDNNTSLETISIDSCGNLVSF-PEGGLPCAKLTRLTILDCKRLEALPK-GMHNLTSLQYLRIGKGGALPSL-EEEDGLPT  195 (348)
Q Consensus       119 ~~~l~~L~~L~l~~~~~l~~~-~~~~~~~~~L~~L~l~~~~~l~~~~~-~l~~l~~L~~L~l~~~~~~~~~-~~~~~~~~  195 (348)
                      +..+++|++|++++| .+..+ |..+..+++|+.|++++|. +..+++ .+..+++|++|++++| .+..+ |..+..++
T Consensus        50 ~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~  126 (192)
T 1w8a_A           50 FGRLPHLVKLELKRN-QLTGIEPNAFEGASHIQELQLGENK-IKEISNKMFLGLHQLKTLNLYDN-QISCVMPGSFEHLN  126 (192)
T ss_dssp             GGGCTTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSCC-CCEECSSSSTTCTTCCEEECCSS-CCCEECTTSSTTCT
T ss_pred             cccCCCCCEEECCCC-CCCCcCHhHcCCcccCCEEECCCCc-CCccCHHHhcCCCCCCEEECCCC-cCCeeCHHHhhcCC
Confidence            444455555555442 22222 3334444455555554432 232222 2344445555555444 22222 22333444


Q ss_pred             CcCeeeecC
Q 039944          196 NLQSLDIWG  204 (348)
Q Consensus       196 ~L~~L~l~~  204 (348)
                      +|+.|++++
T Consensus       127 ~L~~L~L~~  135 (192)
T 1w8a_A          127 SLTSLNLAS  135 (192)
T ss_dssp             TCCEEECTT
T ss_pred             CCCEEEeCC
Confidence            444444444

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.83  E-value=8e-07  Score=80.91  Aligned_cols=265  Identities=13%  Similarity=0.097  Sum_probs=139.5

Q ss_pred             CCCCCcccEEeecCcccccccCCCCC--CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCcccc
Q 039944            2 CDTNSSLEILDIEKCHSLTYIAAVQL--PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCI   79 (348)
Q Consensus         2 ~~~~~~L~~L~l~~~~~l~~l~~~~~--~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~   79 (348)
                      |..|.+|+.+.+.  +.++.++...|  +.+|+.+.+..+  ++.++..       .|..+.  +|+.+.+..  .+.. 
T Consensus        67 F~~c~~L~~i~lp--~~i~~I~~~aF~~c~~L~~i~lp~~--l~~I~~~-------aF~~c~--~L~~i~~p~--~l~~-  130 (394)
T 4fs7_A           67 FQGCRKVTEIKIP--STVREIGEFAFENCSKLEIINIPDS--VKMIGRC-------TFSGCY--ALKSILLPL--MLKS-  130 (394)
T ss_dssp             TTTCTTEEEEECC--TTCCEECTTTTTTCTTCCEECCCTT--CCEECTT-------TTTTCT--TCCCCCCCT--TCCE-
T ss_pred             hhCCCCceEEEeC--CCccCcchhHhhCCCCCcEEEeCCC--ceEccch-------hhcccc--cchhhcccC--ceee-
Confidence            5677888888885  35777777666  778888888653  5666665       344444  555544432  1111 


Q ss_pred             ccCCCCC----------CCcceeEe---ccCCCCccEEEEcCCCCcccch-hhhcCCCccceecccccccccccCC----
Q 039944           80 FSKNELP----------ATLESLEV---GNLPLSLKSLFVYGCSKLGSIA-ERLDNNTSLETISIDSCGNLVSFPE----  141 (348)
Q Consensus        80 ~~~~~~~----------~~L~~L~i---~~l~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~l~~~~~----  141 (348)
                      +....+.          .....+.-   ..+.+ |+.+.+.+.  +..+. ..+..+.+|+.+.+..+  +..++.    
T Consensus       131 i~~~aF~~~~~~~~~~~~~~~~i~~~aF~~c~~-L~~i~l~~~--~~~I~~~~F~~c~~L~~i~l~~~--~~~I~~~~F~  205 (394)
T 4fs7_A          131 IGVEAFKGCDFKEITIPEGVTVIGDEAFATCES-LEYVSLPDS--METLHNGLFSGCGKLKSIKLPRN--LKIIRDYCFA  205 (394)
T ss_dssp             ECTTTTTTCCCSEEECCTTCCEECTTTTTTCTT-CCEEECCTT--CCEECTTTTTTCTTCCBCCCCTT--CCEECTTTTT
T ss_pred             ecceeeecccccccccCccccccchhhhcccCC-CcEEecCCc--cceeccccccCCCCceEEEcCCC--ceEeCchhhc
Confidence            1111110          00100000   12233 555555322  22222 33444555665555431  222221    


Q ss_pred             -------------------CCCCCCCccEEEEecCCCcCcccc-cccCCCCcceeEeccCCCCCccc-ccCCCCCCcCee
Q 039944          142 -------------------GGLPCAKLTRLTILDCKRLEALPK-GMHNLTSLQYLRIGKGGALPSLE-EEDGLPTNLQSL  200 (348)
Q Consensus       142 -------------------~~~~~~~L~~L~l~~~~~l~~~~~-~l~~l~~L~~L~l~~~~~~~~~~-~~~~~~~~L~~L  200 (348)
                                         ......+|+.+.+...  +..+.. .+..++.|+.+.+...  ...+. ..+..+..++.+
T Consensus       206 ~~~~L~~i~~~~~~~~i~~~~~~~~~l~~i~ip~~--~~~i~~~~f~~~~~l~~~~~~~~--~~~i~~~~F~~~~~l~~~  281 (394)
T 4fs7_A          206 ECILLENMEFPNSLYYLGDFALSKTGVKNIIIPDS--FTELGKSVFYGCTDLESISIQNN--KLRIGGSLFYNCSGLKKV  281 (394)
T ss_dssp             TCTTCCBCCCCTTCCEECTTTTTTCCCCEEEECTT--CCEECSSTTTTCSSCCEEEECCT--TCEECSCTTTTCTTCCEE
T ss_pred             cccccceeecCCCceEeehhhcccCCCceEEECCC--ceecccccccccccceeEEcCCC--cceeecccccccccccee
Confidence                               1222334555554331  222221 3345556666655532  12221 123445556655


Q ss_pred             eecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccccc-ccccCC
Q 039944          201 DIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQ  279 (348)
Q Consensus       201 ~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~  279 (348)
                      ..... .+..      ..+..+.+|+.+.+.+   ++..+..      .++..+.+|+.+.+..  .++.+.. .+.+|+
T Consensus       282 ~~~~~-~i~~------~~F~~~~~L~~i~l~~---~i~~I~~------~aF~~c~~L~~i~lp~--~v~~I~~~aF~~c~  343 (394)
T 4fs7_A          282 IYGSV-IVPE------KTFYGCSSLTEVKLLD---SVKFIGE------EAFESCTSLVSIDLPY--LVEEIGKRSFRGCT  343 (394)
T ss_dssp             EECSS-EECT------TTTTTCTTCCEEEECT---TCCEECT------TTTTTCTTCCEECCCT--TCCEECTTTTTTCT
T ss_pred             ccCce-eecc------cccccccccccccccc---ccceech------hhhcCCCCCCEEEeCC--cccEEhHHhccCCC
Confidence            55442 1111      2456777888887765   3444443      2356778899998864  4677765 678899


Q ss_pred             CcceEeccCCCCCCCCCCCCC--CCCCcEEEEcC
Q 039944          280 NLTELYLFGCPKLKYFPEKGL--PSSLLELRISR  311 (348)
Q Consensus       280 ~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~l~~  311 (348)
                      +|+.+++..  .++.++...+  +.+|+.+++..
T Consensus       344 ~L~~i~lp~--~l~~I~~~aF~~C~~L~~i~lp~  375 (394)
T 4fs7_A          344 SLSNINFPL--SLRKIGANAFQGCINLKKVELPK  375 (394)
T ss_dssp             TCCEECCCT--TCCEECTTTBTTCTTCCEEEEEG
T ss_pred             CCCEEEECc--cccEehHHHhhCCCCCCEEEECC
Confidence            999998865  4777776555  67899998864

>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=98.82  E-value=3.2e-11  Score=99.31  Aligned_cols=99  Identities=13%  Similarity=0.101  Sum_probs=50.7

Q ss_pred             ccEEEEcCC-CCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEec
Q 039944          101 LKSLFVYGC-SKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIG  179 (348)
Q Consensus       101 L~~L~l~~~-~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~  179 (348)
                      ++...+.+. ..++.++..+..+++|++|++++| .+..+| .+..+++|+.|++++| .+..+|..+..+++|++|+++
T Consensus        25 l~~~~l~~~~~~l~~l~~~~~~l~~L~~L~ls~n-~l~~l~-~~~~l~~L~~L~l~~n-~l~~l~~~~~~~~~L~~L~L~  101 (198)
T 1ds9_A           25 AEKVELHGMIPPIEKMDATLSTLKACKHLALSTN-NIEKIS-SLSGMENLRILSLGRN-LIKKIENLDAVADTLEELWIS  101 (198)
T ss_dssp             CSEEECCBCCTTCCCCHHHHHHTTTCSEEECSEE-EESCCC-CHHHHTTCCEEEEEEE-EECSCSSHHHHHHHCSEEEEE
T ss_pred             hheeEeccccCcHhhhhHHHhcCCCCCEEECCCC-CCcccc-ccccCCCCCEEECCCC-CcccccchhhcCCcCCEEECc
Confidence            444455432 124444545666666666666653 344454 4444556666666664 344555444445556666665


Q ss_pred             cCCCCCcccccCCCCCCcCeeeecC
Q 039944          180 KGGALPSLEEEDGLPTNLQSLDIWG  204 (348)
Q Consensus       180 ~~~~~~~~~~~~~~~~~L~~L~l~~  204 (348)
                      +| .+..++ .+..+++|+.|++++
T Consensus       102 ~N-~l~~l~-~~~~l~~L~~L~l~~  124 (198)
T 1ds9_A          102 YN-QIASLS-GIEKLVNLRVLYMSN  124 (198)
T ss_dssp             EE-ECCCHH-HHHHHHHSSEEEESE
T ss_pred             CC-cCCcCC-ccccCCCCCEEECCC
Confidence            54 334443 334444555555544

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.81  E-value=4.8e-08  Score=78.48  Aligned_cols=79  Identities=25%  Similarity=0.336  Sum_probs=34.6

Q ss_pred             CccEEEEecCCCcCcccc-cccCCCCcceeEeccCCCCCccccc-CCCCCCcCeeeecCCccchhhhhccccccCCCCCc
Q 039944          148 KLTRLTILDCKRLEALPK-GMHNLTSLQYLRIGKGGALPSLEEE-DGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSL  225 (348)
Q Consensus       148 ~L~~L~l~~~~~l~~~~~-~l~~l~~L~~L~l~~~~~~~~~~~~-~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L  225 (348)
                      +|+.|+++++. +..++. .+..+++|++|+++++ .+..++.. ++.+++|+.|+++++ .++..+..   .+..+++|
T Consensus        29 ~l~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~---~~~~l~~L  102 (177)
T 2o6r_A           29 SATRLELESNK-LQSLPHGVFDKLTQLTKLSLSQN-QIQSLPDGVFDKLTKLTILYLHEN-KLQSLPNG---VFDKLTQL  102 (177)
T ss_dssp             TCSEEECCSSC-CCCCCTTTTTTCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTT---TTTTCTTC
T ss_pred             CCcEEEeCCCc-ccEeCHHHhcCcccccEEECCCC-cceEeChhHccCCCccCEEECCCC-CccccCHH---HhhCCccc
Confidence            55555555532 333332 2344555555555544 33333321 344455555555542 23332211   23444555


Q ss_pred             cEEEecc
Q 039944          226 RRLTISR  232 (348)
Q Consensus       226 ~~L~l~~  232 (348)
                      +.|++++
T Consensus       103 ~~L~l~~  109 (177)
T 2o6r_A          103 KELALDT  109 (177)
T ss_dssp             CEEECCS
T ss_pred             CEEECcC
Confidence            5555554

>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=98.72  E-value=3.3e-10  Score=93.16  Aligned_cols=98  Identities=18%  Similarity=0.220  Sum_probs=45.0

Q ss_pred             ccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEecc
Q 039944          101 LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGK  180 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~  180 (348)
                      |+.|++++|. +..++ .+..+++|+.|++++| .+..+|.....+++|+.|++++| .+..+| .+..+++|++|++++
T Consensus        50 L~~L~ls~n~-l~~l~-~~~~l~~L~~L~l~~n-~l~~l~~~~~~~~~L~~L~L~~N-~l~~l~-~~~~l~~L~~L~l~~  124 (198)
T 1ds9_A           50 CKHLALSTNN-IEKIS-SLSGMENLRILSLGRN-LIKKIENLDAVADTLEELWISYN-QIASLS-GIEKLVNLRVLYMSN  124 (198)
T ss_dssp             CSEEECSEEE-ESCCC-CHHHHTTCCEEEEEEE-EECSCSSHHHHHHHCSEEEEEEE-ECCCHH-HHHHHHHSSEEEESE
T ss_pred             CCEEECCCCC-Ccccc-ccccCCCCCEEECCCC-CcccccchhhcCCcCCEEECcCC-cCCcCC-ccccCCCCCEEECCC
Confidence            5555555443 33343 4444555555555552 33344443333345555555553 333343 344455555555554


Q ss_pred             CCCCCcccc--cCCCCCCcCeeeecC
Q 039944          181 GGALPSLEE--EDGLPTNLQSLDIWG  204 (348)
Q Consensus       181 ~~~~~~~~~--~~~~~~~L~~L~l~~  204 (348)
                      | .+..++.  .+..+++|+.|++.+
T Consensus       125 N-~i~~~~~~~~l~~l~~L~~L~l~~  149 (198)
T 1ds9_A          125 N-KITNWGEIDKLAALDKLEDLLLAG  149 (198)
T ss_dssp             E-ECCCHHHHHHHTTTTTCSEEEECS
T ss_pred             C-cCCchhHHHHHhcCCCCCEEEecC
Confidence            4 2333221  234444555555544

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=98.65  E-value=1.2e-05  Score=72.98  Aligned_cols=104  Identities=14%  Similarity=0.187  Sum_probs=66.7

Q ss_pred             CCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccc
Q 039944          192 GLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERL  271 (348)
Q Consensus       192 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i  271 (348)
                      ..+.+|+.+.+....  ..+..   ..+.++++|+.+.+..   .+..++.      .++..+.+|+.+.+..  .++.+
T Consensus       262 ~~c~~L~~i~lp~~~--~~I~~---~aF~~c~~L~~i~l~~---~i~~I~~------~aF~~c~~L~~i~lp~--~v~~I  325 (394)
T 4gt6_A          262 DSCAYLASVKMPDSV--VSIGT---GAFMNCPALQDIEFSS---RITELPE------SVFAGCISLKSIDIPE--GITQI  325 (394)
T ss_dssp             TTCSSCCEEECCTTC--CEECT---TTTTTCTTCCEEECCT---TCCEECT------TTTTTCTTCCEEECCT--TCCEE
T ss_pred             eecccccEEeccccc--ceecC---cccccccccccccCCC---cccccCc------eeecCCCCcCEEEeCC--cccEe
Confidence            445566666664421  11221   3456667777777754   3444444      2456677888888864  46666


Q ss_pred             cc-ccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEEEcCCc
Q 039944          272 SS-SIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELRISRCP  313 (348)
Q Consensus       272 ~~-~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~l~~c~  313 (348)
                      .. .+.+|++|+.+.+..  .++.++...+  +.+|+.+++.+..
T Consensus       326 ~~~aF~~C~~L~~i~ip~--sv~~I~~~aF~~C~~L~~i~~~~~~  368 (394)
T 4gt6_A          326 LDDAFAGCEQLERIAIPS--SVTKIPESAFSNCTALNNIEYSGSR  368 (394)
T ss_dssp             CTTTTTTCTTCCEEEECT--TCCBCCGGGGTTCTTCCEEEESSCH
T ss_pred             hHhHhhCCCCCCEEEECc--ccCEEhHhHhhCCCCCCEEEECCce
Confidence            55 678889999998864  4677766444  6889999988764

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.56  E-value=3.9e-07  Score=73.02  Aligned_cols=83  Identities=23%  Similarity=0.288  Sum_probs=36.8

Q ss_pred             cEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcc-cccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEE
Q 039944          150 TRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSL-EEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRL  228 (348)
Q Consensus       150 ~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~-~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L  228 (348)
                      +.+++++ ..+..+|..+  .++|++|+++++ .+..+ +..++.+++|+.|+++++ .+..++..   .+..+++|+.|
T Consensus        15 ~~l~~~~-n~l~~iP~~~--~~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~i~~~---~~~~l~~L~~L   86 (174)
T 2r9u_A           15 TLVNCQN-IRLASVPAGI--PTDKQRLWLNNN-QITKLEPGVFDHLVNLQQLYFNSN-KLTAIPTG---VFDKLTQLTQL   86 (174)
T ss_dssp             SEEECCS-SCCSSCCSCC--CTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTT---TTTTCTTCCEE
T ss_pred             cEEEeCC-CCCCccCCCc--CCCCcEEEeCCC-CccccCHHHhcCCcCCCEEECCCC-CCCccChh---HhCCcchhhEE
Confidence            3455544 2345555433  245555555554 23333 223444555555555552 33333321   23444555555


Q ss_pred             EecccCCccccccc
Q 039944          229 TISRCDEDMVSFPL  242 (348)
Q Consensus       229 ~l~~~c~~l~~~~~  242 (348)
                      ++++  +.+..++.
T Consensus        87 ~L~~--N~l~~l~~   98 (174)
T 2r9u_A           87 DLND--NHLKSIPR   98 (174)
T ss_dssp             ECCS--SCCCCCCT
T ss_pred             ECCC--CccceeCH
Confidence            5554  34444433

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=98.55  E-value=4.4e-07  Score=72.38  Aligned_cols=100  Identities=23%  Similarity=0.297  Sum_probs=48.9

Q ss_pred             ccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcc-cccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccE
Q 039944          149 LTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSL-EEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRR  227 (348)
Q Consensus       149 L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~-~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~  227 (348)
                      .+.+++++ ..++.+|..+  .++|++|+++++ .+..+ +..+..+++|+.|+++++ .++.++..   .+..+++|+.
T Consensus        11 ~~~l~~s~-n~l~~ip~~~--~~~l~~L~L~~N-~i~~~~~~~~~~l~~L~~L~Ls~N-~l~~l~~~---~f~~l~~L~~   82 (170)
T 3g39_A           11 GTTVDCSG-KSLASVPTGI--PTTTQVLYLYDN-QITKLEPGVFDRLTQLTRLDLDNN-QLTVLPAG---VFDKLTQLTQ   82 (170)
T ss_dssp             TTEEECTT-SCCSSCCSCC--CTTCSEEECCSS-CCCCCCTTTTTTCTTCSEEECCSS-CCCCCCTT---TTTTCTTCCE
T ss_pred             CCEEEeCC-CCcCccCccC--CCCCcEEEcCCC-cCCccChhhhcCcccCCEEECCCC-CcCccChh---hccCCCCCCE
Confidence            44555555 3455555443  255666666654 33333 323455555666666553 34443321   3445555555


Q ss_pred             EEecccCCcccccccchhccCCCCCCCCCccEEEecc
Q 039944          228 LTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEA  264 (348)
Q Consensus       228 L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~  264 (348)
                      |++++  +.+..++...      +..+++|+.|++++
T Consensus        83 L~L~~--N~l~~~~~~~------~~~l~~L~~L~L~~  111 (170)
T 3g39_A           83 LSLND--NQLKSIPRGA------FDNLKSLTHIWLLN  111 (170)
T ss_dssp             EECCS--SCCCCCCTTT------TTTCTTCCEEECCS
T ss_pred             EECCC--CccCEeCHHH------hcCCCCCCEEEeCC
Confidence            55555  3444444321      12445555555555

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.53  E-value=5.4e-07  Score=72.17  Aligned_cols=98  Identities=21%  Similarity=0.252  Sum_probs=51.3

Q ss_pred             ceecccccccccccCCCCCCCCCccEEEEecCCCcCcc-cccccCCCCcceeEeccCCCCCccccc-CCCCCCcCeeeec
Q 039944          126 ETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEAL-PKGMHNLTSLQYLRIGKGGALPSLEEE-DGLPTNLQSLDIW  203 (348)
Q Consensus       126 ~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~-~~~l~~l~~L~~L~l~~~~~~~~~~~~-~~~~~~L~~L~l~  203 (348)
                      +.+++++ +.+..+|..+.  ++|+.|++++|. +..+ |..+..+++|++|++++| .+..++.. +..+++|+.|+++
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 TLVNCQN-IRLASVPAGIP--TDKQRLWLNNNQ-ITKLEPGVFDHLVNLQQLYFNSN-KLTAIPTGVFDKLTQLTQLDLN   89 (174)
T ss_dssp             SEEECCS-SCCSSCCSCCC--TTCSEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECC
T ss_pred             cEEEeCC-CCCCccCCCcC--CCCcEEEeCCCC-ccccCHHHhcCCcCCCEEECCCC-CCCccChhHhCCcchhhEEECC
Confidence            3445544 34455555443  356666666543 3333 334555666666666655 44455432 3456666666666


Q ss_pred             CCccchhhhhccccccCCCCCccEEEecc
Q 039944          204 GNMEIWKSMIERGRGFHRFSSLRRLTISR  232 (348)
Q Consensus       204 ~~~~l~~~~~~~~~~~~~l~~L~~L~l~~  232 (348)
                      ++ .+..++..   .+..+++|+.|++++
T Consensus        90 ~N-~l~~l~~~---~~~~l~~L~~L~L~~  114 (174)
T 2r9u_A           90 DN-HLKSIPRG---AFDNLKSLTHIYLYN  114 (174)
T ss_dssp             SS-CCCCCCTT---TTTTCTTCSEEECCS
T ss_pred             CC-ccceeCHH---HhccccCCCEEEeCC
Confidence            63 34444321   355566666666665

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=98.46  E-value=1.1e-06  Score=70.05  Aligned_cols=98  Identities=22%  Similarity=0.264  Sum_probs=50.2

Q ss_pred             ceecccccccccccCCCCCCCCCccEEEEecCCCcCcc-cccccCCCCcceeEeccCCCCCccccc-CCCCCCcCeeeec
Q 039944          126 ETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEAL-PKGMHNLTSLQYLRIGKGGALPSLEEE-DGLPTNLQSLDIW  203 (348)
Q Consensus       126 ~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~-~~~l~~l~~L~~L~l~~~~~~~~~~~~-~~~~~~L~~L~l~  203 (348)
                      +.+++++ +.+..+|..+.  ++|+.|++++| .++.+ |..+..+++|++|++++| .+..++.. +..+++|+.|+++
T Consensus        12 ~~l~~s~-n~l~~ip~~~~--~~l~~L~L~~N-~i~~~~~~~~~~l~~L~~L~Ls~N-~l~~l~~~~f~~l~~L~~L~L~   86 (170)
T 3g39_A           12 TTVDCSG-KSLASVPTGIP--TTTQVLYLYDN-QITKLEPGVFDRLTQLTRLDLDNN-QLTVLPAGVFDKLTQLTQLSLN   86 (170)
T ss_dssp             TEEECTT-SCCSSCCSCCC--TTCSEEECCSS-CCCCCCTTTTTTCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECC
T ss_pred             CEEEeCC-CCcCccCccCC--CCCcEEEcCCC-cCCccChhhhcCcccCCEEECCCC-CcCccChhhccCCCCCCEEECC
Confidence            4455554 34445554442  35666666553 23333 334555666666666654 34444432 3455666666666


Q ss_pred             CCccchhhhhccccccCCCCCccEEEecc
Q 039944          204 GNMEIWKSMIERGRGFHRFSSLRRLTISR  232 (348)
Q Consensus       204 ~~~~l~~~~~~~~~~~~~l~~L~~L~l~~  232 (348)
                      ++ .+..++..   .+..+++|+.|++++
T Consensus        87 ~N-~l~~~~~~---~~~~l~~L~~L~L~~  111 (170)
T 3g39_A           87 DN-QLKSIPRG---AFDNLKSLTHIWLLN  111 (170)
T ss_dssp             SS-CCCCCCTT---TTTTCTTCCEEECCS
T ss_pred             CC-ccCEeCHH---HhcCCCCCCEEEeCC
Confidence            53 34443321   355566666666665

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=98.46  E-value=1.8e-05  Score=71.91  Aligned_cols=106  Identities=13%  Similarity=0.131  Sum_probs=74.8

Q ss_pred             cccCCCCcceeEeccCCCCCccc-ccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccch
Q 039944          166 GMHNLTSLQYLRIGKGGALPSLE-EEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLED  244 (348)
Q Consensus       166 ~l~~l~~L~~L~l~~~~~~~~~~-~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~  244 (348)
                      .+..++.|+.+.+...  ...+. ..+..+++|+.+.+..  .+..+..   ..|.++.+|+.+.+.+   +++.+..  
T Consensus       260 aF~~c~~L~~i~lp~~--~~~I~~~aF~~c~~L~~i~l~~--~i~~I~~---~aF~~c~~L~~i~lp~---~v~~I~~--  327 (394)
T 4gt6_A          260 AFDSCAYLASVKMPDS--VVSIGTGAFMNCPALQDIEFSS--RITELPE---SVFAGCISLKSIDIPE---GITQILD--  327 (394)
T ss_dssp             TTTTCSSCCEEECCTT--CCEECTTTTTTCTTCCEEECCT--TCCEECT---TTTTTCTTCCEEECCT---TCCEECT--
T ss_pred             eeeecccccEEecccc--cceecCcccccccccccccCCC--cccccCc---eeecCCCCcCEEEeCC---cccEehH--
Confidence            3456777888877542  23332 2356688999998864  3444443   3688899999999986   3555544  


Q ss_pred             hccCCCCCCCCCccEEEeccCCCcccccc-ccccCCCcceEeccCC
Q 039944          245 KRLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGC  289 (348)
Q Consensus       245 ~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c  289 (348)
                          .++..+.+|+.+.+..  .++.+.. .+.+|++|+.+++.+.
T Consensus       328 ----~aF~~C~~L~~i~ip~--sv~~I~~~aF~~C~~L~~i~~~~~  367 (394)
T 4gt6_A          328 ----DAFAGCEQLERIAIPS--SVTKIPESAFSNCTALNNIEYSGS  367 (394)
T ss_dssp             ----TTTTTCTTCCEEEECT--TCCBCCGGGGTTCTTCCEEEESSC
T ss_pred             ----hHhhCCCCCCEEEECc--ccCEEhHhHhhCCCCCCEEEECCc
Confidence                3456788999999974  4777765 7899999999999873

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.37  E-value=1.8e-05  Score=71.92  Aligned_cols=219  Identities=14%  Similarity=0.111  Sum_probs=99.3

Q ss_pred             ccccCCCCC--CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEecc
Q 039944           19 LTYIAAVQL--PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGN   96 (348)
Q Consensus        19 l~~l~~~~~--~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~   96 (348)
                      +..+....|  +.+|+.+.+.+.  +..++..       .|..+.  +|+.+.+..  .++. ++...+         ..
T Consensus       150 ~~~i~~~aF~~c~~L~~i~l~~~--~~~I~~~-------~F~~c~--~L~~i~l~~--~~~~-I~~~~F---------~~  206 (394)
T 4fs7_A          150 VTVIGDEAFATCESLEYVSLPDS--METLHNG-------LFSGCG--KLKSIKLPR--NLKI-IRDYCF---------AE  206 (394)
T ss_dssp             CCEECTTTTTTCTTCCEEECCTT--CCEECTT-------TTTTCT--TCCBCCCCT--TCCE-ECTTTT---------TT
T ss_pred             ccccchhhhcccCCCcEEecCCc--cceeccc-------cccCCC--CceEEEcCC--CceE-eCchhh---------cc
Confidence            344444444  678888888653  4566666       566666  777777754  2333 333322         11


Q ss_pred             CCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCC-CCCCCCCccEEEEecCCCcCccc-ccccCCCCcc
Q 039944           97 LPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPE-GGLPCAKLTRLTILDCKRLEALP-KGMHNLTSLQ  174 (348)
Q Consensus        97 l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~-~~~~~~~L~~L~l~~~~~l~~~~-~~l~~l~~L~  174 (348)
                      ++. |+.+.+...  ...+........+|+.+.+..  ....+.. ....+.+++.+.+..+  ...+. ..+..++.++
T Consensus       207 ~~~-L~~i~~~~~--~~~i~~~~~~~~~l~~i~ip~--~~~~i~~~~f~~~~~l~~~~~~~~--~~~i~~~~F~~~~~l~  279 (394)
T 4fs7_A          207 CIL-LENMEFPNS--LYYLGDFALSKTGVKNIIIPD--SFTELGKSVFYGCTDLESISIQNN--KLRIGGSLFYNCSGLK  279 (394)
T ss_dssp             CTT-CCBCCCCTT--CCEECTTTTTTCCCCEEEECT--TCCEECSSTTTTCSSCCEEEECCT--TCEECSCTTTTCTTCC
T ss_pred             ccc-cceeecCCC--ceEeehhhcccCCCceEEECC--CceecccccccccccceeEEcCCC--cceeeccccccccccc
Confidence            111 222222211  111112222334455554432  1222222 2233455666655442  22222 2334455555


Q ss_pred             eeEeccCCCCCccc-ccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCC
Q 039944          175 YLRIGKGGALPSLE-EEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPL  253 (348)
Q Consensus       175 ~L~l~~~~~~~~~~-~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~  253 (348)
                      .+.....    .++ ..+..+.+|+.+.+...  ++.+..   ..|.++.+|+.+++.+   .++.+..      .++..
T Consensus       280 ~~~~~~~----~i~~~~F~~~~~L~~i~l~~~--i~~I~~---~aF~~c~~L~~i~lp~---~v~~I~~------~aF~~  341 (394)
T 4fs7_A          280 KVIYGSV----IVPEKTFYGCSSLTEVKLLDS--VKFIGE---EAFESCTSLVSIDLPY---LVEEIGK------RSFRG  341 (394)
T ss_dssp             EEEECSS----EECTTTTTTCTTCCEEEECTT--CCEECT---TTTTTCTTCCEECCCT---TCCEECT------TTTTT
T ss_pred             eeccCce----eeccccccccccccccccccc--cceech---hhhcCCCCCCEEEeCC---cccEEhH------HhccC
Confidence            5544321    111 12344555666655432  222222   2455566666666653   2333332      23345


Q ss_pred             CCCccEEEeccCCCcccccc-ccccCCCcceEecc
Q 039944          254 PASLTSLWIEAFPNLERLSS-SIVDLQNLTELYLF  287 (348)
Q Consensus       254 ~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~  287 (348)
                      +.+|+.+.+..  .++.+.. .+.+|++|+.+++.
T Consensus       342 c~~L~~i~lp~--~l~~I~~~aF~~C~~L~~i~lp  374 (394)
T 4fs7_A          342 CTSLSNINFPL--SLRKIGANAFQGCINLKKVELP  374 (394)
T ss_dssp             CTTCCEECCCT--TCCEECTTTBTTCTTCCEEEEE
T ss_pred             CCCCCEEEECc--cccEehHHHhhCCCCCCEEEEC
Confidence            55666666653  2444444 45666666666654

>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=98.27  E-value=9e-07  Score=70.29  Aligned_cols=39  Identities=23%  Similarity=0.282  Sum_probs=17.4

Q ss_pred             CccEEEeccCCCcccccc-ccccCCCcceEeccCCCCCCC
Q 039944          256 SLTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGCPKLKY  294 (348)
Q Consensus       256 ~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c~~l~~  294 (348)
                      +|++|++++|..+++-.- .+.++++|+.|++++|+.+++
T Consensus       115 ~L~~L~Ls~C~~ITD~Gl~~L~~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          115 SMLEMEIISCGNVTDKGIIALHHFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             HCCEEEEESCTTCCHHHHHHGGGCTTCCEEEEESCTTCCC
T ss_pred             CCCEEEcCCCCcCCHHHHHHHhcCCCCCEEECCCCCCCCc
Confidence            355555555544442111 233445555555555544443

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=98.27  E-value=2.1e-06  Score=76.58  Aligned_cols=79  Identities=22%  Similarity=0.174  Sum_probs=47.5

Q ss_pred             ccEEEEcCCCCcccch-hhhcCCCccceecccccccccccCC-CCCCCCCccEEEEecCCCcCcccccccCCCCcceeEe
Q 039944          101 LKSLFVYGCSKLGSIA-ERLDNNTSLETISIDSCGNLVSFPE-GGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRI  178 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~l~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l  178 (348)
                      |+.|+|++++.+..++ ..+..+++|+.|++++| .+..++. .+..+++|+.|+|++| .+..+|+.+.....|+.|++
T Consensus        33 L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~~~L~~l~l  110 (347)
T 2ifg_A           33 LTELYIENQQHLQHLELRDLRGLGELRNLTIVKS-GLRFVAPDAFHFTPRLSRLNLSFN-ALESLSWKTVQGLSLQELVL  110 (347)
T ss_dssp             CSEEECCSCSSCCEECGGGSCSCCCCSEEECCSS-CCCEECTTGGGSCSCCCEEECCSS-CCSCCCSTTTCSCCCCEEEC
T ss_pred             eeEEEccCCCCCCCcChhHhccccCCCEEECCCC-ccceeCHHHhcCCcCCCEEeCCCC-ccceeCHHHcccCCceEEEe
Confidence            7777777533355444 55667777777777774 4555544 3456677777777774 45566554322223777777


Q ss_pred             ccC
Q 039944          179 GKG  181 (348)
Q Consensus       179 ~~~  181 (348)
                      .+|
T Consensus       111 ~~N  113 (347)
T 2ifg_A          111 SGN  113 (347)
T ss_dssp             CSS
T ss_pred             eCC
Confidence            765

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.26  E-value=3.1e-07  Score=82.42  Aligned_cols=36  Identities=17%  Similarity=0.133  Sum_probs=20.5

Q ss_pred             CCCCccEEEeccCCCccc-----cccccccCCCcceEeccCC
Q 039944          253 LPASLTSLWIEAFPNLER-----LSSSIVDLQNLTELYLFGC  289 (348)
Q Consensus       253 ~~~~L~~L~l~~~~~l~~-----i~~~~~~~~~L~~L~l~~c  289 (348)
                      .+++|++|+++. +.++.     ++..+.++++|+.|++++|
T Consensus       277 ~~~~L~~LdLs~-n~L~d~G~~~L~~~L~~l~~L~~L~L~~n  317 (362)
T 2ra8_A          277 ILPQLETMDISA-GVLTDEGARLLLDHVDKIKHLKFINMKYN  317 (362)
T ss_dssp             SGGGCSEEECCS-SCCBHHHHHHHHTTHHHHTTCSEEECCSB
T ss_pred             cCCCCCEEECCC-CCCChHHHHHHHhhcccCCcceEEECCCC
Confidence            345667777755 34443     2334455667777777665

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=98.20  E-value=5.7e-06  Score=73.77  Aligned_cols=104  Identities=22%  Similarity=0.190  Sum_probs=79.7

Q ss_pred             EEEEecCCCcCcccccccCCCCcceeEeccCCCCCccc-ccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEE
Q 039944          151 RLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLE-EEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLT  229 (348)
Q Consensus       151 ~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~-~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~  229 (348)
                      .++.++.+.+..+|. +..+++|++|++++++.+..++ ..++.+++|+.|+++++ .+..++..   .|..+++|+.|+
T Consensus        12 ~v~~~~~n~l~~ip~-l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~---~~~~l~~L~~L~   86 (347)
T 2ifg_A           12 GLRCTRDGALDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS-GLRFVAPD---AFHFTPRLSRLN   86 (347)
T ss_dssp             CEECCSSCCCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSS-CCCEECTT---GGGSCSCCCEEE
T ss_pred             EEEcCCCCCCCccCC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCC-ccceeCHH---HhcCCcCCCEEe
Confidence            456666436888998 9899999999999634677776 35888999999999995 56666543   678899999999


Q ss_pred             ecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcc
Q 039944          230 ISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLE  269 (348)
Q Consensus       230 l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~  269 (348)
                      |++  +.+..+|...      +..+ .|+.|++.++ .+.
T Consensus        87 l~~--N~l~~~~~~~------~~~~-~L~~l~l~~N-~~~  116 (347)
T 2ifg_A           87 LSF--NALESLSWKT------VQGL-SLQELVLSGN-PLH  116 (347)
T ss_dssp             CCS--SCCSCCCSTT------TCSC-CCCEEECCSS-CCC
T ss_pred             CCC--CccceeCHHH------cccC-CceEEEeeCC-Ccc
Confidence            998  7888888754      1233 3999999984 444

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=98.20  E-value=7.8e-05  Score=67.21  Aligned_cols=40  Identities=8%  Similarity=0.228  Sum_probs=25.0

Q ss_pred             CCcccEEeecCcccccccCCCCC--CCCccEEEeccCccccccccc
Q 039944            5 NSSLEILDIEKCHSLTYIAAVQL--PSSLKKLQICDCYNIRTLTVE   48 (348)
Q Consensus         5 ~~~L~~L~l~~~~~l~~l~~~~~--~~~L~~L~l~~~~~l~~~~~~   48 (348)
                      ..+|+.+.+.  ..+++++...|  +.+|+.+.+...  ++.++..
T Consensus        45 ~~~i~~v~ip--~~vt~Ig~~aF~~C~~L~~I~lp~~--v~~Ig~~   86 (379)
T 4h09_A           45 RDRISEVRVN--SGITSIGEANFNSCYNMTKVTVAST--VTSIGDG   86 (379)
T ss_dssp             GGGCSEEEEC--TTEEEECTTTTTTCTTCCEEEECTT--CCEECTT
T ss_pred             ccCCEEEEeC--CCccChHHHHhhCCCCCCEEEeCCc--ceEechh
Confidence            3466777765  35667766655  667777777542  5566655

>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=98.18  E-value=1.7e-06  Score=68.71  Aligned_cols=88  Identities=16%  Similarity=0.163  Sum_probs=50.3

Q ss_pred             CCccEEEEecCCCcCcc-cccccCCCCcceeEeccCCCCCccc-ccCCC----CCCcCeeeecCCccchhhhhccccccC
Q 039944          147 AKLTRLTILDCKRLEAL-PKGMHNLTSLQYLRIGKGGALPSLE-EEDGL----PTNLQSLDIWGNMEIWKSMIERGRGFH  220 (348)
Q Consensus       147 ~~L~~L~l~~~~~l~~~-~~~l~~l~~L~~L~l~~~~~~~~~~-~~~~~----~~~L~~L~l~~~~~l~~~~~~~~~~~~  220 (348)
                      .+|+.|++++|. ++.. ...+..+++|++|++++|..+++.. ..+..    +++|+.|++++|..+++....   .+.
T Consensus        61 ~~L~~LDLs~~~-Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~---~L~  136 (176)
T 3e4g_A           61 YKIQAIDATDSC-IMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGII---ALH  136 (176)
T ss_dssp             CCEEEEEEESCC-CCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHH---HGG
T ss_pred             ceEeEEeCcCCC-ccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHH---HHh
Confidence            367888888775 3321 2344667777777777776555321 01222    235677777776666554432   345


Q ss_pred             CCCCccEEEecccCCcccc
Q 039944          221 RFSSLRRLTISRCDEDMVS  239 (348)
Q Consensus       221 ~l~~L~~L~l~~~c~~l~~  239 (348)
                      .+++|+.|++++ |..+++
T Consensus       137 ~~~~L~~L~L~~-c~~Itd  154 (176)
T 3e4g_A          137 HFRNLKYLFLSD-LPGVKE  154 (176)
T ss_dssp             GCTTCCEEEEES-CTTCCC
T ss_pred             cCCCCCEEECCC-CCCCCc
Confidence            566666666666 655543

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.09  E-value=5.8e-06  Score=74.09  Aligned_cols=158  Identities=17%  Similarity=0.101  Sum_probs=91.8

Q ss_pred             CCCCccEEEEcCCCC---------cccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccc
Q 039944           97 LPLSLKSLFVYGCSK---------LGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGM  167 (348)
Q Consensus        97 l~~~L~~L~l~~~~~---------~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l  167 (348)
                      +|+ |+.|.+.....         ...+...+..+|+|+.|.++++..+ .++. + ..++|++|++..|..-......+
T Consensus       138 l~~-L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l-~l~~-~-~~~~L~~L~L~~~~l~~~~l~~l  213 (362)
T 2ra8_A          138 FAH-FEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNL-SIGK-K-PRPNLKSLEIISGGLPDSVVEDI  213 (362)
T ss_dssp             HTT-CSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTC-BCCS-C-BCTTCSEEEEECSBCCHHHHHHH
T ss_pred             cch-hhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCc-eecc-c-cCCCCcEEEEecCCCChHHHHHH
Confidence            355 77777754321         1124455567889999999876333 3343 2 26789999998764222111223


Q ss_pred             --cCCCCcceeEeccCC-------CCCcccccC--CCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCc
Q 039944          168 --HNLTSLQYLRIGKGG-------ALPSLEEED--GLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDED  236 (348)
Q Consensus       168 --~~l~~L~~L~l~~~~-------~~~~~~~~~--~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~  236 (348)
                        ..+|+|++|+++.+.       .+..+...+  ..+++|+.|.+.+|.......... .....+++|++|+++.  +.
T Consensus       214 ~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~l-a~a~~~~~L~~LdLs~--n~  290 (362)
T 2ra8_A          214 LGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMF-LESDILPQLETMDISA--GV  290 (362)
T ss_dssp             HHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEESCTTHHHHHHHH-HHCSSGGGCSEEECCS--SC
T ss_pred             HHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCCCCCchHHHHHH-HhCccCCCCCEEECCC--CC
Confidence              368899999885311       111222122  357899999998865432221110 1124578999999986  45


Q ss_pred             ccc-----cccchhccCCCCCCCCCccEEEeccCCCcc
Q 039944          237 MVS-----FPLEDKRLGTALPLPASLTSLWIEAFPNLE  269 (348)
Q Consensus       237 l~~-----~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~  269 (348)
                      +..     +....       ..+++|+.|++++| .+.
T Consensus       291 L~d~G~~~L~~~L-------~~l~~L~~L~L~~n-~i~  320 (362)
T 2ra8_A          291 LTDEGARLLLDHV-------DKIKHLKFINMKYN-YLS  320 (362)
T ss_dssp             CBHHHHHHHHTTH-------HHHTTCSEEECCSB-BCC
T ss_pred             CChHHHHHHHhhc-------ccCCcceEEECCCC-cCC
Confidence            543     22221       24578999999886 344

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=98.07  E-value=0.0012  Score=59.33  Aligned_cols=57  Identities=9%  Similarity=0.118  Sum_probs=39.8

Q ss_pred             CCCCCcccEEeecCcccccccCCCCC-CCCccEEEeccCccccccccccccccccccccccCCccceeeeeC
Q 039944            2 CDTNSSLEILDIEKCHSLTYIAAVQL-PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIIS   72 (348)
Q Consensus         2 ~~~~~~L~~L~l~~~~~l~~l~~~~~-~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~   72 (348)
                      |..|.+|+.+.+..  .++.++...| -.+|+.+.+..  +++.+...       .|...   +|+.+.+.+
T Consensus        65 F~~C~~L~~I~lp~--~v~~Ig~~aF~~c~l~~i~~~~--~l~~I~~~-------aF~~~---~L~~i~lp~  122 (379)
T 4h09_A           65 FNSCYNMTKVTVAS--TVTSIGDGAFADTKLQSYTGME--RVKKFGDY-------VFQGT---DLDDFEFPG  122 (379)
T ss_dssp             TTTCTTCCEEEECT--TCCEECTTTTTTCCCCEEEECT--TCCEECTT-------TTTTC---CCSEEECCT
T ss_pred             hhCCCCCCEEEeCC--cceEechhhhcCCCCceEECCc--eeeEeccc-------eeccC---CcccccCCC
Confidence            67889999999963  5788877766 23677777754  36666665       34443   588888764

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=97.93  E-value=4.5e-07  Score=81.82  Aligned_cols=129  Identities=19%  Similarity=0.120  Sum_probs=70.3

Q ss_pred             CccEEEEcCCCCcccchhh-hcCCCccceecccccccccc-----cCCCC-CCCCCccEEEEecCCCcCc-----ccccc
Q 039944          100 SLKSLFVYGCSKLGSIAER-LDNNTSLETISIDSCGNLVS-----FPEGG-LPCAKLTRLTILDCKRLEA-----LPKGM  167 (348)
Q Consensus       100 ~L~~L~l~~~~~~~~~~~~-~~~l~~L~~L~l~~~~~l~~-----~~~~~-~~~~~L~~L~l~~~~~l~~-----~~~~l  167 (348)
                      +|+.|++++|......... ...+++|+.|++++|. +..     +...+ ...++|++|++++|. +..     ++..+
T Consensus       102 ~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~-l~~~~~~~L~~~L~~~~~~L~~L~Ls~n~-l~~~~~~~l~~~L  179 (372)
T 3un9_A          102 ALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNS-LGPEACKDLRDLLLHDQCQITTLRLSNNP-LTAAGVAVLMEGL  179 (372)
T ss_dssp             CEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSC-CCHHHHHHHHHHHHSTTCCCCEEECCSSC-CHHHHHHHHHHHH
T ss_pred             CceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCC-CCHHHHHHHHHHHHhcCCccceeeCCCCC-CChHHHHHHHHHH
Confidence            3777777776532221111 2234577777777753 221     11111 124578888888764 322     33344


Q ss_pred             cCCCCcceeEeccCCCCCc-----ccccCCCCCCcCeeeecCCccchhhhhc-cccccCCCCCccEEEecc
Q 039944          168 HNLTSLQYLRIGKGGALPS-----LEEEDGLPTNLQSLDIWGNMEIWKSMIE-RGRGFHRFSSLRRLTISR  232 (348)
Q Consensus       168 ~~l~~L~~L~l~~~~~~~~-----~~~~~~~~~~L~~L~l~~~~~l~~~~~~-~~~~~~~l~~L~~L~l~~  232 (348)
                      ...++|++|++++|. +..     +...+..+++|+.|++++|. +...... ....+...++|++|++++
T Consensus       180 ~~~~~L~~L~Ls~N~-l~~~g~~~L~~~L~~~~~L~~L~Ls~N~-i~~~g~~~l~~~L~~~~~L~~L~Ls~  248 (372)
T 3un9_A          180 AGNTSVTHLSLLHTG-LGDEGLELLAAQLDRNRQLQELNVAYNG-AGDTAALALARAAREHPSLELLHLYF  248 (372)
T ss_dssp             HTCSSCCEEECTTSS-CHHHHHHHHHHHGGGCSCCCEEECCSSC-CCHHHHHHHHHHHHHCSSCCEEECTT
T ss_pred             hcCCCcCEEeCCCCC-CCcHHHHHHHHHHhcCCCcCeEECCCCC-CCHHHHHHHHHHHHhCCCCCEEeccC
Confidence            567778888888763 332     12234556678888888854 3322110 001234557788888887

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=97.92  E-value=4.2e-07  Score=82.05  Aligned_cols=35  Identities=17%  Similarity=0.087  Sum_probs=18.1

Q ss_pred             CCCccEEEeccCCCccc-----cccccccCCCcceEeccCC
Q 039944          254 PASLTSLWIEAFPNLER-----LSSSIVDLQNLTELYLFGC  289 (348)
Q Consensus       254 ~~~L~~L~l~~~~~l~~-----i~~~~~~~~~L~~L~l~~c  289 (348)
                      ++.|+.|++++| .++.     +...+...++|++|++++|
T Consensus       210 ~~~L~~L~Ls~N-~i~~~g~~~l~~~L~~~~~L~~L~Ls~N  249 (372)
T 3un9_A          210 NRQLQELNVAYN-GAGDTAALALARAAREHPSLELLHLYFN  249 (372)
T ss_dssp             CSCCCEEECCSS-CCCHHHHHHHHHHHHHCSSCCEEECTTS
T ss_pred             CCCcCeEECCCC-CCCHHHHHHHHHHHHhCCCCCEEeccCC
Confidence            345666666653 3332     2223444566666666664

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=96.72  E-value=0.00069  Score=54.38  Aligned_cols=11  Identities=18%  Similarity=0.262  Sum_probs=5.2

Q ss_pred             CCCcEEEEcCC
Q 039944          302 SSLLELRISRC  312 (348)
Q Consensus       302 ~~L~~L~l~~c  312 (348)
                      ++|++|++++|
T Consensus       151 ~~L~~L~L~~n  161 (185)
T 1io0_A          151 TTLLKFGYHFT  161 (185)
T ss_dssp             SSCCEEECCCS
T ss_pred             CCcCEEeccCC
Confidence            34455555444

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=96.46  E-value=0.00044  Score=55.57  Aligned_cols=15  Identities=20%  Similarity=0.523  Sum_probs=7.1

Q ss_pred             hcCCCccceeccccc
Q 039944          119 LDNNTSLETISIDSC  133 (348)
Q Consensus       119 ~~~l~~L~~L~l~~~  133 (348)
                      +...++|++|++++|
T Consensus        32 l~~~~~L~~L~L~~n   46 (185)
T 1io0_A           32 QNNDPDLEEVNLNNI   46 (185)
T ss_dssp             HTTCTTCCEEECTTC
T ss_pred             HhcCCCCCEEEecCC
Confidence            334445555555443

>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=96.25  E-value=0.0019  Score=54.89  Aligned_cols=79  Identities=14%  Similarity=0.163  Sum_probs=45.2

Q ss_pred             cCCCccceecccccccccc---cCCCCCCCCCccEEEEecCCCcCcccccccCCC--CcceeEeccCCCCCccc------
Q 039944          120 DNNTSLETISIDSCGNLVS---FPEGGLPCAKLTRLTILDCKRLEALPKGMHNLT--SLQYLRIGKGGALPSLE------  188 (348)
Q Consensus       120 ~~l~~L~~L~l~~~~~l~~---~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~--~L~~L~l~~~~~~~~~~------  188 (348)
                      ..+++|+.|++++| .+..   ++..+..+++|+.|++++| .+..+ ..+..+.  +|++|++.+|+-...+|      
T Consensus       167 ~~l~~L~~L~Ls~N-~l~~l~~l~~~~~~l~~L~~L~Ls~N-~i~~~-~~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y~  243 (267)
T 3rw6_A          167 ENIPELLSLNLSNN-RLYRLDDMSSIVQKAPNLKILNLSGN-ELKSE-RELDKIKGLKLEELWLDGNSLCDTFRDQSTYI  243 (267)
T ss_dssp             HHCTTCCEEECTTS-CCCCCGGGTTHHHHSTTCCEEECTTS-CCCSG-GGGGGGTTSCCSEEECTTSTTGGGCSSHHHHH
T ss_pred             hhCCCCCEEECCCC-CCCCCccchhHHhhCCCCCEEECCCC-ccCCc-hhhhhcccCCcceEEccCCcCccccCcchhHH
Confidence            34677788888774 3333   3333345677888888774 34443 2233333  77888887775433332      


Q ss_pred             -ccCCCCCCcCeee
Q 039944          189 -EEDGLPTNLQSLD  201 (348)
Q Consensus       189 -~~~~~~~~L~~L~  201 (348)
                       ..+..+|+|+.|+
T Consensus       244 ~~il~~~P~L~~LD  257 (267)
T 3rw6_A          244 SAIRERFPKLLRLD  257 (267)
T ss_dssp             HHHHHHCTTCCEES
T ss_pred             HHHHHHCcccCeEC
Confidence             1244567777665

>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=96.10  E-value=0.0029  Score=53.83  Aligned_cols=13  Identities=15%  Similarity=0.314  Sum_probs=6.2

Q ss_pred             CCCCcceeEeccC
Q 039944          169 NLTSLQYLRIGKG  181 (348)
Q Consensus       169 ~l~~L~~L~l~~~  181 (348)
                      .+++|+.|++++|
T Consensus       194 ~l~~L~~L~Ls~N  206 (267)
T 3rw6_A          194 KAPNLKILNLSGN  206 (267)
T ss_dssp             HSTTCCEEECTTS
T ss_pred             hCCCCCEEECCCC
Confidence            4445555555443

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.29  E-value=0.081  Score=39.42  Aligned_cols=35  Identities=26%  Similarity=0.230  Sum_probs=19.0

Q ss_pred             CCCccEEEeccCCCcccccc-ccccCCCcceEeccCC
Q 039944          254 PASLTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGC  289 (348)
Q Consensus       254 ~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c  289 (348)
                      +++|+.|+|++ +.++.++. .+..+++|+.|++.++
T Consensus        30 p~~l~~L~Ls~-N~l~~l~~~~f~~l~~L~~L~L~~N   65 (130)
T 3rfe_A           30 PVDTTELVLTG-NNLTALPPGLLDALPALRTAHLGAN   65 (130)
T ss_dssp             CTTCSEEECTT-SCCSSCCTTTGGGCTTCCEEECCSS
T ss_pred             CcCCCEEECCC-CcCCccChhhhhhccccCEEEecCC
Confidence            44566666655 45555554 3455555666655554

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=92.42  E-value=0.22  Score=37.05  Aligned_cols=53  Identities=15%  Similarity=0.236  Sum_probs=36.2

Q ss_pred             EEeecCccccc--ccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCC
Q 039944           10 ILDIEKCHSLT--YIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCP   74 (348)
Q Consensus        10 ~L~l~~~~~l~--~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~   74 (348)
                      .++.++ .+++  .+|.. ++++|+.|+|+++. ++.++.+       .|..+.  +|+.|+|.+.+
T Consensus        12 ~v~Cs~-~~L~~~~vP~~-lp~~l~~L~Ls~N~-l~~l~~~-------~f~~l~--~L~~L~L~~NP   66 (130)
T 3rfe_A           12 LVDCGR-RGLTWASLPTA-FPVDTTELVLTGNN-LTALPPG-------LLDALP--ALRTAHLGANP   66 (130)
T ss_dssp             EEECCS-SCCCTTTSCSC-CCTTCSEEECTTSC-CSSCCTT-------TGGGCT--TCCEEECCSSC
T ss_pred             EEEeCC-CCCccccCCCC-CCcCCCEEECCCCc-CCccChh-------hhhhcc--ccCEEEecCCC
Confidence            444444 4555  66633 46678888888887 7888877       567776  78888887643

>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=81.59  E-value=0.81  Score=36.62  Aligned_cols=10  Identities=40%  Similarity=0.564  Sum_probs=5.0

Q ss_pred             CCccEEEecc
Q 039944          223 SSLRRLTISR  232 (348)
Q Consensus       223 ~~L~~L~l~~  232 (348)
                      +.|++|++++
T Consensus        98 ~tL~~L~L~~  107 (197)
T 1pgv_A           98 PSLRVLNVES  107 (197)
T ss_dssp             SSCCEEECCS
T ss_pred             CccCeEecCC
Confidence            4455555554

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	348
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.81
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.76
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.73
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.72
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.71
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.69
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.65
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.62
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.61
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.59
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.57
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.51
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.51
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.49
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.49
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.45
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.45
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.45
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.44
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.41
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.4
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.38
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.02
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.0
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.95
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.94
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.94
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.91
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.6
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.58
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.57
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.43
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.4
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.22
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.14
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.04
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	96.37
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	95.35
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	95.29
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	94.87
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	93.61
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	93.03

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.81  E-value=1.1e-18  Score=156.69  Aligned_cols=290  Identities=16%  Similarity=0.152  Sum_probs=181.7

Q ss_pred             CCcccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCC
Q 039944            5 NSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNE   84 (348)
Q Consensus         5 ~~~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~   84 (348)
                      +.+|++|+++++ .++++.....+++|++|++++|. ++.++.         ++.++  +|++|+++++. +.+ ++..+
T Consensus        43 l~~l~~L~l~~~-~I~~l~gl~~L~nL~~L~Ls~N~-l~~l~~---------l~~L~--~L~~L~L~~n~-i~~-i~~l~  107 (384)
T d2omza2          43 LDQVTTLQADRL-GIKSIDGVEYLNNLTQINFSNNQ-LTDITP---------LKNLT--KLVDILMNNNQ-IAD-ITPLA  107 (384)
T ss_dssp             HTTCCEEECCSS-CCCCCTTGGGCTTCCEEECCSSC-CCCCGG---------GTTCT--TCCEEECCSSC-CCC-CGGGT
T ss_pred             hCCCCEEECCCC-CCCCccccccCCCCCEEeCcCCc-CCCCcc---------ccCCc--ccccccccccc-ccc-ccccc
Confidence            356778888764 56666544457788888888875 777653         46666  78888887753 444 44333


Q ss_pred             CCCCcceeEecc----------CCCCccEEEEcCCC-----------------------------------------Ccc
Q 039944           85 LPATLESLEVGN----------LPLSLKSLFVYGCS-----------------------------------------KLG  113 (348)
Q Consensus        85 ~~~~L~~L~i~~----------l~~~L~~L~l~~~~-----------------------------------------~~~  113 (348)
                      .+++|+.|.+..          ....+.......+.                                         ...
T Consensus       108 ~l~~L~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  187 (384)
T d2omza2         108 NLTNLTGLTLFNNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKV  187 (384)
T ss_dssp             TCTTCCEEECCSSCCCCCGGGTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCC
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhcccccccccccccccc
Confidence            445566655510          00001111110000                                         000


Q ss_pred             cchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCC
Q 039944          114 SIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGL  193 (348)
Q Consensus       114 ~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~  193 (348)
                      ........+++++.+.++.+ .+..++. ...+++|+.|++.+| .++.++ .+..+++|+.++++++ .+..++ .++.
T Consensus       188 ~~~~~~~~l~~~~~l~l~~n-~i~~~~~-~~~~~~L~~L~l~~n-~l~~~~-~l~~l~~L~~L~l~~n-~l~~~~-~~~~  261 (384)
T d2omza2         188 SDISVLAKLTNLESLIATNN-QISDITP-LGILTNLDELSLNGN-QLKDIG-TLASLTNLTDLDLANN-QISNLA-PLSG  261 (384)
T ss_dssp             CCCGGGGGCTTCSEEECCSS-CCCCCGG-GGGCTTCCEEECCSS-CCCCCG-GGGGCTTCSEEECCSS-CCCCCG-GGTT
T ss_pred             ccccccccccccceeeccCC-ccCCCCc-ccccCCCCEEECCCC-CCCCcc-hhhcccccchhccccC-ccCCCC-cccc
Confidence            11233455777888888774 3444433 233568999999886 456554 5678889999999987 466666 5778


Q ss_pred             CCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccccc
Q 039944          194 PTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS  273 (348)
Q Consensus       194 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~  273 (348)
                      +++|++++++++ .+...+     .+..++.++.+.+..  +.+..++..        ..++.++.|+++++ .++.++ 
T Consensus       262 ~~~L~~L~l~~~-~l~~~~-----~~~~~~~l~~l~~~~--n~l~~~~~~--------~~~~~l~~L~ls~n-~l~~l~-  323 (384)
T d2omza2         262 LTKLTELKLGAN-QISNIS-----PLAGLTALTNLELNE--NQLEDISPI--------SNLKNLTYLTLYFN-NISDIS-  323 (384)
T ss_dssp             CTTCSEEECCSS-CCCCCG-----GGTTCTTCSEEECCS--SCCSCCGGG--------GGCTTCSEEECCSS-CCSCCG-
T ss_pred             cccCCEeeccCc-ccCCCC-----ccccccccccccccc--ccccccccc--------chhcccCeEECCCC-CCCCCc-
Confidence            889999999875 344443     346677888888876  455544432        25677888888874 666665 


Q ss_pred             ccccCCCcceEeccCCCCCCCCCCCCCCCCCcEEEEcCCchhHHHhhccCCccccCCCCcCEEEecce
Q 039944          274 SIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCRKDGGQYWDLLTHIPRVEIDWK  341 (348)
Q Consensus       274 ~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~~~~i~~~~~~~~~~~  341 (348)
                      .+..+++|++|++++| .++.++...-.++|++|++++|. ++..      ..+..+.++..+.+.++
T Consensus       324 ~l~~l~~L~~L~L~~n-~l~~l~~l~~l~~L~~L~l~~N~-l~~l------~~l~~l~~L~~L~L~~N  383 (384)
T d2omza2         324 PVSSLTKLQRLFFANN-KVSDVSSLANLTNINWLSAGHNQ-ISDL------TPLANLTRITQLGLNDQ  383 (384)
T ss_dssp             GGGGCTTCCEEECCSS-CCCCCGGGGGCTTCCEEECCSSC-CCBC------GGGTTCTTCSEEECCCE
T ss_pred             ccccCCCCCEEECCCC-CCCCChhHcCCCCCCEEECCCCc-CCCC------hhhccCCCCCEeeCCCC
Confidence            4778888888888886 67776642236788888888774 2221      12445667888877765

>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=99.76  E-value=3.6e-17  Score=142.44  Aligned_cols=261  Identities=15%  Similarity=0.239  Sum_probs=187.4

Q ss_pred             ccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCC
Q 039944            8 LEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPA   87 (348)
Q Consensus         8 L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~   87 (348)
                      .+.++=++ .+++++|. .+++++++|++++|. ++.++..       .|..+.  +|++|++.++. +.. ++...+  
T Consensus        12 ~~~~~C~~-~~L~~lP~-~l~~~l~~L~Ls~N~-i~~l~~~-------~f~~l~--~L~~L~l~~n~-~~~-i~~~~f--   75 (305)
T d1xkua_          12 LRVVQCSD-LGLEKVPK-DLPPDTALLDLQNNK-ITEIKDG-------DFKNLK--NLHTLILINNK-ISK-ISPGAF--   75 (305)
T ss_dssp             TTEEECTT-SCCCSCCC-SCCTTCCEEECCSSC-CCCBCTT-------TTTTCT--TCCEEECCSSC-CCC-BCTTTT--
T ss_pred             CCEEEecC-CCCCccCC-CCCCCCCEEECcCCc-CCCcChh-------Hhhccc--ccccccccccc-ccc-cchhhh--
Confidence            45554443 45788887 457899999999996 8999876       578888  99999999875 444 544333  


Q ss_pred             CcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCC-CCCCCCccEEEEecCCCcC--ccc
Q 039944           88 TLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEG-GLPCAKLTRLTILDCKRLE--ALP  164 (348)
Q Consensus        88 ~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~-~~~~~~L~~L~l~~~~~l~--~~~  164 (348)
                             ..++. |+.|++++|. ++.++..  ....++.|.+..+ .+..++.. ......+..+....+....  ..+
T Consensus        76 -------~~l~~-L~~L~l~~n~-l~~l~~~--~~~~l~~L~~~~n-~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~  143 (305)
T d1xkua_          76 -------APLVK-LERLYLSKNQ-LKELPEK--MPKTLQELRVHEN-EITKVRKSVFNGLNQMIVVELGTNPLKSSGIEN  143 (305)
T ss_dssp             -------TTCTT-CCEEECCSSC-CSBCCSS--CCTTCCEEECCSS-CCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCT
T ss_pred             -------hCCCc-cCEecccCCc-cCcCccc--hhhhhhhhhcccc-chhhhhhhhhhccccccccccccccccccCCCc
Confidence                   33366 9999999885 6666643  3567888888773 44444432 2234466777766643221  222


Q ss_pred             ccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccch
Q 039944          165 KGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLED  244 (348)
Q Consensus       165 ~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~  244 (348)
                      ..+..+++|+.+++.++ .+..++  ...+++|+.|++.++......+    ..+..++.++.|++++  +.+..++...
T Consensus       144 ~~~~~l~~L~~l~l~~n-~l~~l~--~~~~~~L~~L~l~~n~~~~~~~----~~~~~~~~l~~L~~s~--n~l~~~~~~~  214 (305)
T d1xkua_         144 GAFQGMKKLSYIRIADT-NITTIP--QGLPPSLTELHLDGNKITKVDA----ASLKGLNNLAKLGLSF--NSISAVDNGS  214 (305)
T ss_dssp             TGGGGCTTCCEEECCSS-CCCSCC--SSCCTTCSEEECTTSCCCEECT----GGGTTCTTCCEEECCS--SCCCEECTTT
T ss_pred             cccccccccCccccccC-CccccC--cccCCccCEEECCCCcCCCCCh----hHhhcccccccccccc--cccccccccc
Confidence            35577889999999887 455665  3457899999999866544433    3578889999999998  4666665432


Q ss_pred             hccCCCCCCCCCccEEEeccCCCccccccccccCCCcceEeccCCCCCCCCCCCCC--------CCCCcEEEEcCCc
Q 039944          245 KRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGL--------PSSLLELRISRCP  313 (348)
Q Consensus       245 ~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~--------~~~L~~L~l~~c~  313 (348)
                            +..+++|++|++++| .++.+|.++.++++|++|++++| +++.++...+        .++|+.|++++++
T Consensus       215 ------~~~l~~L~~L~L~~N-~L~~lp~~l~~l~~L~~L~Ls~N-~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~  283 (305)
T d1xkua_         215 ------LANTPHLRELHLNNN-KLVKVPGGLADHKYIQVVYLHNN-NISAIGSNDFCPPGYNTKKASYSGVSLFSNP  283 (305)
T ss_dssp             ------GGGSTTCCEEECCSS-CCSSCCTTTTTCSSCCEEECCSS-CCCCCCTTSSSCSSCCTTSCCCSEEECCSSS
T ss_pred             ------ccccccceeeecccc-cccccccccccccCCCEEECCCC-ccCccChhhccCcchhcccCCCCEEECCCCc
Confidence                  146789999999995 78899999999999999999995 6888865322        5789999999987

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.73  E-value=4.5e-18  Score=148.83  Aligned_cols=249  Identities=14%  Similarity=0.117  Sum_probs=163.4

Q ss_pred             CccEEEeccCcccc---ccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEE
Q 039944           30 SLKKLQICDCYNIR---TLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFV  106 (348)
Q Consensus        30 ~L~~L~l~~~~~l~---~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l  106 (348)
                      +++.|+++++. +.   .+|..        +.+++  +|++|++++++.+...+|.     .+     ..+++ |+.|++
T Consensus        51 ~v~~L~L~~~~-l~g~~~lp~~--------l~~L~--~L~~L~Ls~~N~l~g~iP~-----~i-----~~L~~-L~~L~L  108 (313)
T d1ogqa_          51 RVNNLDLSGLN-LPKPYPIPSS--------LANLP--YLNFLYIGGINNLVGPIPP-----AI-----AKLTQ-LHYLYI  108 (313)
T ss_dssp             CEEEEEEECCC-CSSCEECCGG--------GGGCT--TCSEEEEEEETTEESCCCG-----GG-----GGCTT-CSEEEE
T ss_pred             EEEEEECCCCC-CCCCCCCChH--------HhcCc--ccccccccccccccccccc-----cc-----ccccc-cchhhh
Confidence            58888888875 33   35555        67777  8888888876666532443     22     33365 888888


Q ss_pred             cCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCc-ceeEeccCCCCC
Q 039944          107 YGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSL-QYLRIGKGGALP  185 (348)
Q Consensus       107 ~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L-~~L~l~~~~~~~  185 (348)
                      ++|......+..+..+.+|+.++++.+.....+|..+..+++++.++++++.....+|..+..+..+ +.+.++++....
T Consensus       109 s~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~  188 (313)
T d1ogqa_         109 THTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTG  188 (313)
T ss_dssp             EEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEE
T ss_pred             ccccccccccccccchhhhcccccccccccccCchhhccCcccceeeccccccccccccccccccccccccccccccccc
Confidence            8877555556667778888888888776666677777778888888888876555677766666665 566666542222


Q ss_pred             cccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccC
Q 039944          186 SLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAF  265 (348)
Q Consensus       186 ~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~  265 (348)
                      ..+..++.+ ....+++..+......+    ..+..+++++.+++.+ + .+...+...       ..+++|+.|+++++
T Consensus       189 ~~~~~~~~l-~~~~l~l~~~~~~~~~~----~~~~~~~~l~~l~~~~-~-~l~~~~~~~-------~~~~~L~~L~Ls~N  254 (313)
T d1ogqa_         189 KIPPTFANL-NLAFVDLSRNMLEGDAS----VLFGSDKNTQKIHLAK-N-SLAFDLGKV-------GLSKNLNGLDLRNN  254 (313)
T ss_dssp             ECCGGGGGC-CCSEEECCSSEEEECCG----GGCCTTSCCSEEECCS-S-EECCBGGGC-------CCCTTCCEEECCSS
T ss_pred             ccccccccc-ccccccccccccccccc----cccccccccccccccc-c-ccccccccc-------ccccccccccCccC
Confidence            233233333 33356666654433333    2456678888888887 3 444333333       36678888888885


Q ss_pred             CCccccccccccCCCcceEeccCCCCCC-CCCCCCCCCCCcEEEEcCCchh
Q 039944          266 PNLERLSSSIVDLQNLTELYLFGCPKLK-YFPEKGLPSSLLELRISRCPLI  315 (348)
Q Consensus       266 ~~l~~i~~~~~~~~~L~~L~l~~c~~l~-~l~~~~~~~~L~~L~l~~c~~l  315 (348)
                      .....+|..+.++++|++|++++| +++ .+|..+...+|+.+++++++.+
T Consensus       255 ~l~g~iP~~l~~L~~L~~L~Ls~N-~l~g~iP~~~~L~~L~~l~l~~N~~l  304 (313)
T d1ogqa_         255 RIYGTLPQGLTQLKFLHSLNVSFN-NLCGEIPQGGNLQRFDVSAYANNKCL  304 (313)
T ss_dssp             CCEECCCGGGGGCTTCCEEECCSS-EEEEECCCSTTGGGSCGGGTCSSSEE
T ss_pred             eecccCChHHhCCCCCCEEECcCC-cccccCCCcccCCCCCHHHhCCCccc
Confidence            433378888888888999998885 455 6776544677777777777643

>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=99.72  E-value=1.8e-17  Score=144.99  Aligned_cols=250  Identities=18%  Similarity=0.102  Sum_probs=184.8

Q ss_pred             CcccEEeecCccccc---ccCCC-CCCCCccEEEeccCcccc-ccccccccccccccccccCCccceeeeeCCCCccccc
Q 039944            6 SSLEILDIEKCHSLT---YIAAV-QLPSSLKKLQICDCYNIR-TLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIF   80 (348)
Q Consensus         6 ~~L~~L~l~~~~~l~---~l~~~-~~~~~L~~L~l~~~~~l~-~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~   80 (348)
                      .+++.|+++++ .+.   .+|.. +.+++|++|++++|.++. .+|..        +.+++  +|++|+++++. +.. .
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~~-~  116 (313)
T d1ogqa_          50 YRVNNLDLSGL-NLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPA--------IAKLT--QLHYLYITHTN-VSG-A  116 (313)
T ss_dssp             CCEEEEEEECC-CCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGG--------GGGCT--TCSEEEEEEEC-CEE-E
T ss_pred             EEEEEEECCCC-CCCCCCCCChHHhcCccccccccccccccccccccc--------ccccc--ccchhhhcccc-ccc-c
Confidence            36899999986 333   46654 349999999999865565 68876        78888  99999999864 444 3


Q ss_pred             cCCCCCCCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCc-cEEEEecCCC
Q 039944           81 SKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKL-TRLTILDCKR  159 (348)
Q Consensus        81 ~~~~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L-~~L~l~~~~~  159 (348)
                      +...+         ..++. |+.+++..+.....+|..+..+++++.++++.+.....+|.....+.++ +.+.+.++..
T Consensus       117 ~~~~~---------~~~~~-L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l  186 (313)
T d1ogqa_         117 IPDFL---------SQIKT-LVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRL  186 (313)
T ss_dssp             CCGGG---------GGCTT-CCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEE
T ss_pred             ccccc---------cchhh-hcccccccccccccCchhhccCcccceeeccccccccccccccccccccccccccccccc
Confidence            33211         23355 9999999888777788889999999999999976666778777666665 7777777544


Q ss_pred             cCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCccc-
Q 039944          160 LEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMV-  238 (348)
Q Consensus       160 l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~-  238 (348)
                      ....|..+..+. ...+++..+......+...+.+++++.+++.++. +...+    ..+..+++|+.|++++  +.+. 
T Consensus       187 ~~~~~~~~~~l~-~~~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~~-l~~~~----~~~~~~~~L~~L~Ls~--N~l~g  258 (313)
T d1ogqa_         187 TGKIPPTFANLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNS-LAFDL----GKVGLSKNLNGLDLRN--NRIYG  258 (313)
T ss_dssp             EEECCGGGGGCC-CSEEECCSSEEEECCGGGCCTTSCCSEEECCSSE-ECCBG----GGCCCCTTCCEEECCS--SCCEE
T ss_pred             cccccccccccc-cccccccccccccccccccccccccccccccccc-ccccc----cccccccccccccCcc--Ceecc
Confidence            334455555554 3467777765555667677889999999999865 33333    2467789999999998  5565 


Q ss_pred             ccccchhccCCCCCCCCCccEEEeccCCCcc-ccccccccCCCcceEeccCCCCCCCC
Q 039944          239 SFPLEDKRLGTALPLPASLTSLWIEAFPNLE-RLSSSIVDLQNLTELYLFGCPKLKYF  295 (348)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~-~i~~~~~~~~~L~~L~l~~c~~l~~l  295 (348)
                      .+|.+.       ..+++|++|+++++ .++ .+| .+.++++|+.+++.+++.+...
T Consensus       259 ~iP~~l-------~~L~~L~~L~Ls~N-~l~g~iP-~~~~L~~L~~l~l~~N~~l~g~  307 (313)
T d1ogqa_         259 TLPQGL-------TQLKFLHSLNVSFN-NLCGEIP-QGGNLQRFDVSAYANNKCLCGS  307 (313)
T ss_dssp             CCCGGG-------GGCTTCCEEECCSS-EEEEECC-CSTTGGGSCGGGTCSSSEEEST
T ss_pred             cCChHH-------hCCCCCCEEECcCC-cccccCC-CcccCCCCCHHHhCCCccccCC
Confidence            788877       47789999999995 565 777 4577899999999998766543

>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=99.71  E-value=5.9e-16  Score=134.61  Aligned_cols=242  Identities=16%  Similarity=0.122  Sum_probs=175.5

Q ss_pred             CcccEEeecCcccccccCCCCC--CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCC
Q 039944            6 SSLEILDIEKCHSLTYIAAVQL--PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKN   83 (348)
Q Consensus         6 ~~L~~L~l~~~~~l~~l~~~~~--~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~   83 (348)
                      +++++|+++++ .++++++..+  +++|++|++++|. +..++..       .|..++  +|+.|++.++ .++. ++..
T Consensus        31 ~~l~~L~Ls~N-~i~~l~~~~f~~l~~L~~L~l~~n~-~~~i~~~-------~f~~l~--~L~~L~l~~n-~l~~-l~~~   97 (305)
T d1xkua_          31 PDTALLDLQNN-KITEIKDGDFKNLKNLHTLILINNK-ISKISPG-------AFAPLV--KLERLYLSKN-QLKE-LPEK   97 (305)
T ss_dssp             TTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSSC-CCCBCTT-------TTTTCT--TCCEEECCSS-CCSB-CCSS
T ss_pred             CCCCEEECcCC-cCCCcChhHhhcccccccccccccc-ccccchh-------hhhCCC--ccCEecccCC-ccCc-Cccc
Confidence            57999999985 7899987654  8999999999998 6777655       478888  9999999986 4666 6653


Q ss_pred             CCCCCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccc--cccCCCCCCCCCccEEEEecCCCcC
Q 039944           84 ELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNL--VSFPEGGLPCAKLTRLTILDCKRLE  161 (348)
Q Consensus        84 ~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l--~~~~~~~~~~~~L~~L~l~~~~~l~  161 (348)
                      ..            +. ++.|.+.++.........+........+....+...  ...+..+..+++|+.+++.+| .+.
T Consensus        98 ~~------------~~-l~~L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n-~l~  163 (305)
T d1xkua_          98 MP------------KT-LQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADT-NIT  163 (305)
T ss_dssp             CC------------TT-CCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSS-CCC
T ss_pred             hh------------hh-hhhhhccccchhhhhhhhhhccccccccccccccccccCCCccccccccccCccccccC-Ccc
Confidence            22            33 788887776533333344556677777777654322  222334455678999999885 456


Q ss_pred             cccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccc
Q 039944          162 ALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFP  241 (348)
Q Consensus       162 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~  241 (348)
                      .+|..  .+++|++|+++++......+..+..++.++.|+++++ .+...+..   .+.++++|++|++++  +.++.+|
T Consensus       164 ~l~~~--~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n-~l~~~~~~---~~~~l~~L~~L~L~~--N~L~~lp  235 (305)
T d1xkua_         164 TIPQG--LPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFN-SISAVDNG---SLANTPHLRELHLNN--NKLVKVP  235 (305)
T ss_dssp             SCCSS--CCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSS-CCCEECTT---TGGGSTTCCEEECCS--SCCSSCC
T ss_pred             ccCcc--cCCccCEEECCCCcCCCCChhHhhccccccccccccc-cccccccc---cccccccceeeeccc--ccccccc
Confidence            66654  3678999999987555555556778889999999885 45555432   567889999999998  4788887


Q ss_pred             cchhccCCCCCCCCCccEEEeccCCCcccccc-------ccccCCCcceEeccCCC
Q 039944          242 LEDKRLGTALPLPASLTSLWIEAFPNLERLSS-------SIVDLQNLTELYLFGCP  290 (348)
Q Consensus       242 ~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-------~~~~~~~L~~L~l~~c~  290 (348)
                      .+.       ..+++|++|++++ +.++.++.       .....++|+.|++++++
T Consensus       236 ~~l-------~~l~~L~~L~Ls~-N~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~  283 (305)
T d1xkua_         236 GGL-------ADHKYIQVVYLHN-NNISAIGSNDFCPPGYNTKKASYSGVSLFSNP  283 (305)
T ss_dssp             TTT-------TTCSSCCEEECCS-SCCCCCCTTSSSCSSCCTTSCCCSEEECCSSS
T ss_pred             ccc-------ccccCCCEEECCC-CccCccChhhccCcchhcccCCCCEEECCCCc
Confidence            765       5788999999998 47887764       23446789999999965

>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=99.69  E-value=2.1e-15  Score=135.07  Aligned_cols=260  Identities=19%  Similarity=0.171  Sum_probs=179.2

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEc
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVY  107 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~  107 (348)
                      +.+|++|+++++. ++.+. +        ++.++  +|++|+++++ .+++ ++..+.           +++ |+.|+++
T Consensus        43 l~~l~~L~l~~~~-I~~l~-g--------l~~L~--nL~~L~Ls~N-~l~~-l~~l~~-----------L~~-L~~L~L~   96 (384)
T d2omza2          43 LDQVTTLQADRLG-IKSID-G--------VEYLN--NLTQINFSNN-QLTD-ITPLKN-----------LTK-LVDILMN   96 (384)
T ss_dssp             HTTCCEEECCSSC-CCCCT-T--------GGGCT--TCCEEECCSS-CCCC-CGGGTT-----------CTT-CCEEECC
T ss_pred             hCCCCEEECCCCC-CCCcc-c--------cccCC--CCCEEeCcCC-cCCC-CccccC-----------Ccc-ccccccc
Confidence            6789999999997 77764 3        57777  9999999986 5776 654222           244 6666666


Q ss_pred             CCCCcccchhhhcCCCccceecccccccc---------------------------------------------------
Q 039944          108 GCSKLGSIAERLDNNTSLETISIDSCGNL---------------------------------------------------  136 (348)
Q Consensus       108 ~~~~~~~~~~~~~~l~~L~~L~l~~~~~l---------------------------------------------------  136 (348)
                      +|. +..++ .+..+++|+.|+++++...                                                   
T Consensus        97 ~n~-i~~i~-~l~~l~~L~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  174 (384)
T d2omza2          97 NNQ-IADIT-PLANLTNLTGLTLFNNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANL  174 (384)
T ss_dssp             SSC-CCCCG-GGTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTC
T ss_pred             ccc-ccccc-cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhccc
Confidence            554 33332 2455566666555432100                                                   


Q ss_pred             ------------cccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecC
Q 039944          137 ------------VSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWG  204 (348)
Q Consensus       137 ------------~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~  204 (348)
                                  .........+++++.+.++++. +..+++ ...+++|++|+++++ .++.++ .+..+++|+.+++.+
T Consensus       175 ~~~~~~~~~~~~~~~~~~~~~l~~~~~l~l~~n~-i~~~~~-~~~~~~L~~L~l~~n-~l~~~~-~l~~l~~L~~L~l~~  250 (384)
T d2omza2         175 TTLERLDISSNKVSDISVLAKLTNLESLIATNNQ-ISDITP-LGILTNLDELSLNGN-QLKDIG-TLASLTNLTDLDLAN  250 (384)
T ss_dssp             TTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSC-CCCCGG-GGGCTTCCEEECCSS-CCCCCG-GGGGCTTCSEEECCS
T ss_pred             cccccccccccccccccccccccccceeeccCCc-cCCCCc-ccccCCCCEEECCCC-CCCCcc-hhhcccccchhcccc
Confidence                        0000112236789999998854 555543 466789999999987 567776 678889999999999


Q ss_pred             CccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCCcceE
Q 039944          205 NMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQNLTEL  284 (348)
Q Consensus       205 ~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~L~~L  284 (348)
                      +. +...+     .+..+++|+.|++++  ..+..++...        .++.++.+.+..+ .+..++ .+..+++++.|
T Consensus       251 n~-l~~~~-----~~~~~~~L~~L~l~~--~~l~~~~~~~--------~~~~l~~l~~~~n-~l~~~~-~~~~~~~l~~L  312 (384)
T d2omza2         251 NQ-ISNLA-----PLSGLTKLTELKLGA--NQISNISPLA--------GLTALTNLELNEN-QLEDIS-PISNLKNLTYL  312 (384)
T ss_dssp             SC-CCCCG-----GGTTCTTCSEEECCS--SCCCCCGGGT--------TCTTCSEEECCSS-CCSCCG-GGGGCTTCSEE
T ss_pred             Cc-cCCCC-----cccccccCCEeeccC--cccCCCCccc--------ccccccccccccc-cccccc-ccchhcccCeE
Confidence            64 55544     357889999999997  5666665433        6678999999874 566554 57889999999


Q ss_pred             eccCCCCCCCCCCCCCCCCCcEEEEcCCchhHHHhhccCCccccCCCCcCEEEecceeecc
Q 039944          285 YLFGCPKLKYFPEKGLPSSLLELRISRCPLIAEKCRKDGGQYWDLLTHIPRVEIDWKSVFG  345 (348)
Q Consensus       285 ~l~~c~~l~~l~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~  345 (348)
                      +++++ .++.++....+++|++|++++|. ++..      .....++++..+.+.++.+.+
T Consensus       313 ~ls~n-~l~~l~~l~~l~~L~~L~L~~n~-l~~l------~~l~~l~~L~~L~l~~N~l~~  365 (384)
T d2omza2         313 TLYFN-NISDISPVSSLTKLQRLFFANNK-VSDV------SSLANLTNINWLSAGHNQISD  365 (384)
T ss_dssp             ECCSS-CCSCCGGGGGCTTCCEEECCSSC-CCCC------GGGGGCTTCCEEECCSSCCCB
T ss_pred             ECCCC-CCCCCcccccCCCCCEEECCCCC-CCCC------hhHcCCCCCCEEECCCCcCCC
Confidence            99985 77777653347899999999994 3321      124557788888887776543

>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=99.65  E-value=3.3e-15  Score=127.20  Aligned_cols=176  Identities=19%  Similarity=0.180  Sum_probs=116.0

Q ss_pred             CCCccEEEEcCCCCcccch-hhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCccee
Q 039944           98 PLSLKSLFVYGCSKLGSIA-ERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYL  176 (348)
Q Consensus        98 ~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L  176 (348)
                      |.+++.|+++++. ++.++ ..+..+++|++|++++| .+..++.. ..+++|+.|++++| .+...+..+..+++|+.|
T Consensus        30 p~~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_          30 PKDTTILHLSENL-LYTFSLATLMPYTRLTQLNLDRA-ELTKLQVD-GTLPVLGTLDLSHN-QLQSLPLLGQTLPALTVL  105 (266)
T ss_dssp             CTTCCEEECTTSC-CSEEEGGGGTTCTTCCEEECTTS-CCCEEECC-SCCTTCCEEECCSS-CCSSCCCCTTTCTTCCEE
T ss_pred             CcCCCEEECcCCc-CCCcCHHHhhccccccccccccc-cccccccc-cccccccccccccc-cccccccccccccccccc
Confidence            4458888888775 55554 56788889999999884 56666653 45778888888885 466666667778888888


Q ss_pred             EeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCC
Q 039944          177 RIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPAS  256 (348)
Q Consensus       177 ~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~  256 (348)
                      +++++....-.+.....+.+++.+++.++ .+..++..   .+..+++++.+++++  +.+..++.+.      +..+++
T Consensus       106 ~l~~~~~~~~~~~~~~~l~~l~~L~l~~n-~l~~l~~~---~~~~l~~l~~l~l~~--N~l~~~~~~~------~~~l~~  173 (266)
T d1p9ag_         106 DVSFNRLTSLPLGALRGLGELQELYLKGN-ELKTLPPG---LLTPTPKLEKLSLAN--NNLTELPAGL------LNGLEN  173 (266)
T ss_dssp             ECCSSCCCCCCSSTTTTCTTCCEEECTTS-CCCCCCTT---TTTTCTTCCEEECTT--SCCSCCCTTT------TTTCTT
T ss_pred             cccccccceeecccccccccccccccccc-ccceeccc---cccccccchhccccc--ccccccCccc------cccccc
Confidence            88876433323334456677777777764 34444332   455667777777776  4555555432      235667


Q ss_pred             ccEEEeccCCCccccccccccCCCcceEeccCCC
Q 039944          257 LTSLWIEAFPNLERLSSSIVDLQNLTELYLFGCP  290 (348)
Q Consensus       257 L~~L~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~  290 (348)
                      |++|++++ +.++.+|..+..+++|+.|+++++|
T Consensus       174 L~~L~Ls~-N~L~~lp~~~~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         174 LDTLLLQE-NSLYTIPKGFFGSHLLPFAFLHGNP  206 (266)
T ss_dssp             CCEEECCS-SCCCCCCTTTTTTCCCSEEECCSCC
T ss_pred             cceeeccc-CCCcccChhHCCCCCCCEEEecCCC
Confidence            77777776 4566777666667777777777654

>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=99.62  E-value=5.7e-15  Score=126.98  Aligned_cols=200  Identities=21%  Similarity=0.259  Sum_probs=141.5

Q ss_pred             CCCccEEEEcCCCCcccch-hhhcCCCccceecccccccccccCC-CCCCCCCccEEEEecCCCcCccc-ccccCCCCcc
Q 039944           98 PLSLKSLFVYGCSKLGSIA-ERLDNNTSLETISIDSCGNLVSFPE-GGLPCAKLTRLTILDCKRLEALP-KGMHNLTSLQ  174 (348)
Q Consensus        98 ~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~l~~~~~-~~~~~~~L~~L~l~~~~~l~~~~-~~l~~l~~L~  174 (348)
                      |.++++|+++++. ++.++ ..+..+++|++|+++.+ .+..++. ....++.++.+.+..+..+..++ ..+..+++|+
T Consensus        31 p~~~~~L~Ls~N~-i~~i~~~~f~~l~~L~~L~ls~n-~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~L~  108 (284)
T d1ozna_          31 PAASQRIFLHGNR-ISHVPAASFRACRNLTILWLHSN-VLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLH  108 (284)
T ss_dssp             CTTCSEEECTTSC-CCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCC
T ss_pred             CCCCCEEECcCCc-CCCCCHHHhhccccccccccccc-cccccccccccccccccccccccccccccccchhhcccccCC
Confidence            5558888888775 55665 46788889999999874 4555544 34456778888777666677664 4567888999


Q ss_pred             eeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCC
Q 039944          175 YLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLP  254 (348)
Q Consensus       175 ~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~  254 (348)
                      +|+++++......+..+..+++|+.+++.++ .++.++..   .+..+++|+.|++++  +.+..++...      +..+
T Consensus       109 ~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N-~l~~i~~~---~f~~~~~L~~L~l~~--N~l~~l~~~~------f~~l  176 (284)
T d1ozna_         109 TLHLDRCGLQELGPGLFRGLAALQYLYLQDN-ALQALPDD---TFRDLGNLTHLFLHG--NRISSVPERA------FRGL  176 (284)
T ss_dssp             EEECTTSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTT---TTTTCTTCCEEECCS--SCCCEECTTT------TTTC
T ss_pred             EEecCCcccccccccccchhcccchhhhccc-cccccChh---Hhccccchhhccccc--Ccccccchhh------hccc
Confidence            9999887443333335667788999999884 45655532   567788899999988  5677665532      3567


Q ss_pred             CCccEEEeccCCCcccc-ccccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEEEcCCc
Q 039944          255 ASLTSLWIEAFPNLERL-SSSIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELRISRCP  313 (348)
Q Consensus       255 ~~L~~L~l~~~~~l~~i-~~~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~l~~c~  313 (348)
                      ++|+.+++.++ .+..+ |..+..+++|+.|+++++ .+..++...+  .++|++|++++++
T Consensus       177 ~~L~~l~l~~N-~l~~i~~~~f~~l~~L~~L~l~~N-~i~~~~~~~~~~~~~L~~L~l~~N~  236 (284)
T d1ozna_         177 HSLDRLLLHQN-RVAHVHPHAFRDLGRLMTLYLFAN-NLSALPTEALAPLRALQYLRLNDNP  236 (284)
T ss_dssp             TTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSS-CCSCCCHHHHTTCTTCCEEECCSSC
T ss_pred             cccchhhhhhc-cccccChhHhhhhhhccccccccc-ccccccccccccccccCEEEecCCC
Confidence            88999999885 45444 567888899999999884 5666665322  6789999998754

>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=99.61  E-value=4.1e-15  Score=127.88  Aligned_cols=218  Identities=21%  Similarity=0.221  Sum_probs=157.4

Q ss_pred             EeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcc
Q 039944           11 LDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLE   90 (348)
Q Consensus        11 L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~   90 (348)
                      +..++ .+++++|.. .++.+++|+++++. ++.++..       .|..++  +|+.|++++. .+.. ++...+     
T Consensus        16 v~c~~-~~L~~iP~~-ip~~~~~L~Ls~N~-i~~i~~~-------~f~~l~--~L~~L~ls~n-~l~~-i~~~~~-----   76 (284)
T d1ozna_          16 TSCPQ-QGLQAVPVG-IPAASQRIFLHGNR-ISHVPAA-------SFRACR--NLTILWLHSN-VLAR-IDAAAF-----   76 (284)
T ss_dssp             EECCS-SCCSSCCTT-CCTTCSEEECTTSC-CCEECTT-------TTTTCT--TCCEEECCSS-CCCE-ECTTTT-----
T ss_pred             EEcCC-CCCCccCCC-CCCCCCEEECcCCc-CCCCCHH-------Hhhccc--cccccccccc-cccc-cccccc-----
Confidence            44443 357788753 46789999999987 8999877       588888  9999999874 4655 544322     


Q ss_pred             eeEeccCCCCccEEEEcCCCCcccc-hhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccc-ccc
Q 039944           91 SLEVGNLPLSLKSLFVYGCSKLGSI-AERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPK-GMH  168 (348)
Q Consensus        91 ~L~i~~l~~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~-~l~  168 (348)
                          ..++. ++.+....+..+..+ +..+.++++|++|+++.+......+.....+++|+.+++.++ .++.+|+ .+.
T Consensus        77 ----~~~~~-~~~l~~~~~~~~~~l~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N-~l~~i~~~~f~  150 (284)
T d1ozna_          77 ----TGLAL-LEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDN-ALQALPDDTFR  150 (284)
T ss_dssp             ----TTCTT-CCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTT
T ss_pred             ----ccccc-ccccccccccccccccchhhcccccCCEEecCCcccccccccccchhcccchhhhccc-cccccChhHhc
Confidence                22244 777777666666665 566788999999999985433223334556788999999985 5677764 567


Q ss_pred             CCCCcceeEeccCCCCCccc-ccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhcc
Q 039944          169 NLTSLQYLRIGKGGALPSLE-EEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRL  247 (348)
Q Consensus       169 ~l~~L~~L~l~~~~~~~~~~-~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~  247 (348)
                      .+++|++|+++++ .+..++ ..+..+++|+.+++.++. +..+..   ..+..+++|+.|++++  +.+..++...   
T Consensus       151 ~~~~L~~L~l~~N-~l~~l~~~~f~~l~~L~~l~l~~N~-l~~i~~---~~f~~l~~L~~L~l~~--N~i~~~~~~~---  220 (284)
T d1ozna_         151 DLGNLTHLFLHGN-RISSVPERAFRGLHSLDRLLLHQNR-VAHVHP---HAFRDLGRLMTLYLFA--NNLSALPTEA---  220 (284)
T ss_dssp             TCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSC-CCEECT---TTTTTCTTCCEEECCS--SCCSCCCHHH---
T ss_pred             cccchhhcccccC-cccccchhhhccccccchhhhhhcc-ccccCh---hHhhhhhhcccccccc--cccccccccc---
Confidence            8899999999987 566664 346778999999999864 444433   3678899999999998  5666665532   


Q ss_pred             CCCCCCCCCccEEEeccCC
Q 039944          248 GTALPLPASLTSLWIEAFP  266 (348)
Q Consensus       248 ~~~~~~~~~L~~L~l~~~~  266 (348)
                         +..+++|++|++++++
T Consensus       221 ---~~~~~~L~~L~l~~N~  236 (284)
T d1ozna_         221 ---LAPLRALQYLRLNDNP  236 (284)
T ss_dssp             ---HTTCTTCCEEECCSSC
T ss_pred             ---cccccccCEEEecCCC
Confidence               1467889999999843

>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=99.59  E-value=2.2e-14  Score=122.03  Aligned_cols=195  Identities=19%  Similarity=0.168  Sum_probs=148.8

Q ss_pred             CCCcccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCC
Q 039944            4 TNSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKN   83 (348)
Q Consensus         4 ~~~~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~   83 (348)
                      ....+.+++.++ .+++++|.. +++++++|+++++. +..++..       .|..++  +|++|+++++ .++. ++..
T Consensus         8 ~~~~~~~v~C~~-~~L~~iP~~-lp~~l~~L~Ls~N~-i~~l~~~-------~f~~l~--~L~~L~L~~N-~l~~-l~~~   73 (266)
T d1p9ag_           8 KVASHLEVNCDK-RNLTALPPD-LPKDTTILHLSENL-LYTFSLA-------TLMPYT--RLTQLNLDRA-ELTK-LQVD   73 (266)
T ss_dssp             CSTTCCEEECTT-SCCSSCCSC-CCTTCCEEECTTSC-CSEEEGG-------GGTTCT--TCCEEECTTS-CCCE-EECC
T ss_pred             ccCCCeEEEccC-CCCCeeCcC-cCcCCCEEECcCCc-CCCcCHH-------Hhhccc--cccccccccc-cccc-cccc
Confidence            344566677765 568888754 36789999999997 8888876       578888  9999999985 5666 6643


Q ss_pred             CCCCCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcc
Q 039944           84 ELPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEAL  163 (348)
Q Consensus        84 ~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~  163 (348)
                      +           .++. |+.|++++|. +...+..+..+++|+.|+++.+......+.....+.+++.|.+.++ .+..+
T Consensus        74 ~-----------~l~~-L~~L~Ls~N~-l~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n-~l~~l  139 (266)
T d1p9ag_          74 G-----------TLPV-LGTLDLSHNQ-LQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGN-ELKTL  139 (266)
T ss_dssp             S-----------CCTT-CCEEECCSSC-CSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTS-CCCCC
T ss_pred             c-----------cccc-cccccccccc-ccccccccccccccccccccccccceeecccccccccccccccccc-cccee
Confidence            2           2365 9999999875 6666777888999999999986544333445566789999999985 46666


Q ss_pred             cc-cccCCCCcceeEeccCCCCCcccc-cCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecc
Q 039944          164 PK-GMHNLTSLQYLRIGKGGALPSLEE-EDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISR  232 (348)
Q Consensus       164 ~~-~l~~l~~L~~L~l~~~~~~~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~  232 (348)
                      ++ .+..+++|+.+++++| .+..++. .++.+++|+.|+++++ .++.++.    .+..+++|+.|++++
T Consensus       140 ~~~~~~~l~~l~~l~l~~N-~l~~~~~~~~~~l~~L~~L~Ls~N-~L~~lp~----~~~~~~~L~~L~L~~  204 (266)
T d1p9ag_         140 PPGLLTPTPKLEKLSLANN-NLTELPAGLLNGLENLDTLLLQEN-SLYTIPK----GFFGSHLLPFAFLHG  204 (266)
T ss_dssp             CTTTTTTCTTCCEEECTTS-CCSCCCTTTTTTCTTCCEEECCSS-CCCCCCT----TTTTTCCCSEEECCS
T ss_pred             ccccccccccchhcccccc-cccccCccccccccccceeecccC-CCcccCh----hHCCCCCCCEEEecC
Confidence            65 4467899999999987 5666653 4678999999999995 5777763    456789999999997

>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=99.57  E-value=5.7e-13  Score=117.24  Aligned_cols=251  Identities=24%  Similarity=0.248  Sum_probs=133.0

Q ss_pred             cccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCC
Q 039944            7 SLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELP   86 (348)
Q Consensus         7 ~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~   86 (348)
                      ++++|+++++ .++++|..  +++|++|+++++. ++++|..           ..  +|++|++.++ .++. ++.  + 
T Consensus        39 ~l~~LdLs~~-~L~~lp~~--~~~L~~L~Ls~N~-l~~lp~~-----------~~--~L~~L~l~~n-~l~~-l~~--l-   96 (353)
T d1jl5a_          39 QAHELELNNL-GLSSLPEL--PPHLESLVASCNS-LTELPEL-----------PQ--SLKSLLVDNN-NLKA-LSD--L-   96 (353)
T ss_dssp             TCSEEECTTS-CCSCCCSC--CTTCSEEECCSSC-CSSCCCC-----------CT--TCCEEECCSS-CCSC-CCS--C-
T ss_pred             CCCEEEeCCC-CCCCCCCC--CCCCCEEECCCCC-Ccccccc-----------hh--hhhhhhhhhc-ccch-hhh--h-
Confidence            5889999975 68888864  7899999999875 8888754           22  7888888774 3443 332  3 


Q ss_pred             CCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceeccccccccccc-------------------CCCCCCCC
Q 039944           87 ATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSF-------------------PEGGLPCA  147 (348)
Q Consensus        87 ~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~-------------------~~~~~~~~  147 (348)
                                 |.+|++|+++++. +..+|. +..+++|++|+++++.. ...                   ...+..++
T Consensus        97 -----------p~~L~~L~L~~n~-l~~lp~-~~~l~~L~~L~l~~~~~-~~~~~~~~~l~~l~~~~~~~~~~~~l~~l~  162 (353)
T d1jl5a_          97 -----------PPLLEYLGVSNNQ-LEKLPE-LQNSSFLKIIDVDNNSL-KKLPDLPPSLEFIAAGNNQLEELPELQNLP  162 (353)
T ss_dssp             -----------CTTCCEEECCSSC-CSSCCC-CTTCTTCCEEECCSSCC-SCCCCCCTTCCEEECCSSCCSSCCCCTTCT
T ss_pred             -----------ccccccccccccc-cccccc-hhhhccceeeccccccc-cccccccccccchhhccccccccccccccc
Confidence                       3336666666554 444442 34556666666654321 111                   11223345


Q ss_pred             CccEEEEecCCCc-------------------CcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccc
Q 039944          148 KLTRLTILDCKRL-------------------EALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEI  208 (348)
Q Consensus       148 ~L~~L~l~~~~~l-------------------~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l  208 (348)
                      .++.+.+.++...                   ..++ ....++.|+.++++++. ...++   ....++..+.+..+. +
T Consensus       163 ~l~~L~l~~n~~~~~~~~~~~~~~l~~~~~~~~~~~-~~~~l~~L~~l~l~~n~-~~~~~---~~~~~l~~~~~~~~~-~  236 (353)
T d1jl5a_         163 FLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELP-ELQNLPFLTTIYADNNL-LKTLP---DLPPSLEALNVRDNY-L  236 (353)
T ss_dssp             TCCEEECCSSCCSSCCCCCTTCCEEECCSSCCSSCC-CCTTCTTCCEEECCSSC-CSSCC---SCCTTCCEEECCSSC-C
T ss_pred             cceecccccccccccccccccccccccccccccccc-ccccccccccccccccc-ccccc---ccccccccccccccc-c
Confidence            5666666554321                   1111 23445566666666542 22222   222334444443321 1


Q ss_pred             hhhhhccccccCCCCCccEEEeccc-CCcccccccch-------hccCCCCCCCCCccEEEeccCCCccccccccccCCC
Q 039944          209 WKSMIERGRGFHRFSSLRRLTISRC-DEDMVSFPLED-------KRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQN  280 (348)
Q Consensus       209 ~~~~~~~~~~~~~l~~L~~L~l~~~-c~~l~~~~~~~-------~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~  280 (348)
                      ....       .....+...++... +..+..++...       ..+......+++|++|++++| .++.+|..   +++
T Consensus       237 ~~~~-------~~~~~l~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~N-~l~~lp~~---~~~  305 (353)
T d1jl5a_         237 TDLP-------ELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNN-KLIELPAL---PPR  305 (353)
T ss_dssp             SCCC-------CCCTTCCEEECCSSCCSEESCCCTTCCEEECCSSCCSEECCCCTTCCEEECCSS-CCSCCCCC---CTT
T ss_pred             cccc-------cccccccccccccccccccccccchhcccccccCccccccccCCCCCEEECCCC-ccCccccc---cCC
Confidence            1110       11122333322210 01111111100       001111135678888888885 67777743   568


Q ss_pred             cceEeccCCCCCCCCCCCCCCCCCcEEEEcCCc
Q 039944          281 LTELYLFGCPKLKYFPEKGLPSSLLELRISRCP  313 (348)
Q Consensus       281 L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~c~  313 (348)
                      |+.|++++| .++++|.  .+++|++|++++|+
T Consensus       306 L~~L~L~~N-~L~~l~~--~~~~L~~L~L~~N~  335 (353)
T d1jl5a_         306 LERLIASFN-HLAEVPE--LPQNLKQLHVEYNP  335 (353)
T ss_dssp             CCEEECCSS-CCSCCCC--CCTTCCEEECCSSC
T ss_pred             CCEEECCCC-cCCcccc--ccCCCCEEECcCCc
Confidence            888888875 6778875  56788888888886

>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=99.51  E-value=2.3e-13  Score=112.76  Aligned_cols=183  Identities=17%  Similarity=0.205  Sum_probs=101.5

Q ss_pred             ccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEecc
Q 039944          101 LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGK  180 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~  180 (348)
                      |+.|.+.+|. ++++. .+..+++|++|++++| .+..+++ +..+++++.+++++|. ++.++ .+..+++|+.+.+++
T Consensus        43 L~~L~l~~~~-i~~l~-~l~~l~~L~~L~ls~n-~i~~~~~-l~~l~~l~~l~~~~n~-~~~i~-~l~~l~~L~~l~l~~  116 (227)
T d1h6ua2          43 ITTLSAFGTG-VTTIE-GVQYLNNLIGLELKDN-QITDLAP-LKNLTKITELELSGNP-LKNVS-AIAGLQSIKTLDLTS  116 (227)
T ss_dssp             CCEEECTTSC-CCCCT-TGGGCTTCCEEECCSS-CCCCCGG-GTTCCSCCEEECCSCC-CSCCG-GGTTCTTCCEEECTT
T ss_pred             cCEEECCCCC-CCcch-hHhcCCCCcEeecCCc-eeecccc-cccccccccccccccc-ccccc-ccccccccccccccc
Confidence            5666665554 44442 3555666666666653 2333322 3445566666666542 34442 455666677776665


Q ss_pred             CCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEE
Q 039944          181 GGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSL  260 (348)
Q Consensus       181 ~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L  260 (348)
                      +. ..... .+...+.++.+.+.++. +....     .+..+++|+.|++++  +.+..++. .       ..+++|++|
T Consensus       117 ~~-~~~~~-~~~~~~~~~~l~~~~~~-~~~~~-----~~~~~~~L~~L~l~~--n~~~~~~~-l-------~~l~~L~~L  178 (227)
T d1h6ua2         117 TQ-ITDVT-PLAGLSNLQVLYLDLNQ-ITNIS-----PLAGLTNLQYLSIGN--AQVSDLTP-L-------ANLSKLTTL  178 (227)
T ss_dssp             SC-CCCCG-GGTTCTTCCEEECCSSC-CCCCG-----GGGGCTTCCEEECCS--SCCCCCGG-G-------TTCTTCCEE
T ss_pred             cc-ccccc-hhccccchhhhhchhhh-hchhh-----hhccccccccccccc--cccccchh-h-------cccccceec
Confidence            53 22333 34455666666665543 22222     235566777777765  33333332 1       255677777


Q ss_pred             EeccCCCccccccccccCCCcceEeccCCCCCCCCCCCCCCCCCcEEEEc
Q 039944          261 WIEAFPNLERLSSSIVDLQNLTELYLFGCPKLKYFPEKGLPSSLLELRIS  310 (348)
Q Consensus       261 ~l~~~~~l~~i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~  310 (348)
                      ++++| .++.++ .+.++++|++|++++| ++++++.-.-.++|+.|+++
T Consensus       179 ~Ls~n-~l~~l~-~l~~l~~L~~L~Ls~N-~lt~i~~l~~l~~L~~L~ls  225 (227)
T d1h6ua2         179 KADDN-KISDIS-PLASLPNLIEVHLKNN-QISDVSPLANTSNLFIVTLT  225 (227)
T ss_dssp             ECCSS-CCCCCG-GGGGCTTCCEEECTTS-CCCBCGGGTTCTTCCEEEEE
T ss_pred             ccCCC-ccCCCh-hhcCCCCCCEEECcCC-cCCCCcccccCCCCCEEEee
Confidence            77764 566665 3666777777777775 56666653335677777765

>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=99.51  E-value=6.6e-13  Score=110.93  Aligned_cols=107  Identities=20%  Similarity=0.266  Sum_probs=64.8

Q ss_pred             cEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCC
Q 039944            9 EILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPAT   88 (348)
Q Consensus         9 ~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~   88 (348)
                      +.++.++ .+++++|.. .+.++++|+++++. ++.++..       .|..++  +|++|+++++..... ++...+   
T Consensus        11 ~~i~c~~-~~l~~iP~~-l~~~l~~L~Ls~n~-i~~l~~~-------~f~~l~--~L~~L~ls~n~~~~~-i~~~~f---   74 (242)
T d1xwdc1          11 RVFLCQE-SKVTEIPSD-LPRNAIELRFVLTK-LRVIQKG-------AFSGFG--DLEKIEISQNDVLEV-IEADVF---   74 (242)
T ss_dssp             SEEEEES-CSCSSCCSC-SCSCCSEEEEESCC-CCEECTT-------TTTTCT--TCCEEEEESCTTCCE-ECSSSE---
T ss_pred             CEEEEeC-CCCCCcCCC-CCCCCCEEECcCCc-CCccChh-------Hhhccc--hhhhhhhccccccce-eecccc---
Confidence            4556654 456777753 35678888888876 7777766       466766  888888877653332 333322   


Q ss_pred             cceeEeccCCCCccEEEEcCCCCcccc-hhhhcCCCccceeccccccccccc
Q 039944           89 LESLEVGNLPLSLKSLFVYGCSKLGSI-AERLDNNTSLETISIDSCGNLVSF  139 (348)
Q Consensus        89 L~~L~i~~l~~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~~~l~~~  139 (348)
                            ..++. ++.+.+..+..+... +..+..+++|++++++++ .+...
T Consensus        75 ------~~l~~-l~~l~~~~~n~l~~~~~~~~~~l~~L~~l~l~~~-~l~~~  118 (242)
T d1xwdc1          75 ------SNLPK-LHEIRIEKANNLLYINPEAFQNLPNLQYLLISNT-GIKHL  118 (242)
T ss_dssp             ------ESCTT-CCEEEEECCTTCCEECTTSEECCTTCCEEEEESC-CCCSC
T ss_pred             ------ccccc-cccccccccccccccccccccccccccccccchh-hhccc
Confidence                  22344 677766655444443 344566777777777763 34443

>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=99.49  E-value=3.7e-12  Score=111.89  Aligned_cols=94  Identities=24%  Similarity=0.275  Sum_probs=69.6

Q ss_pred             CCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEcC
Q 039944           29 SSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYG  108 (348)
Q Consensus        29 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~  108 (348)
                      .++++|+++++. ++.+|..             +|+|++|++++ +.+++ +|..              +.+|+.|++.+
T Consensus        38 ~~l~~LdLs~~~-L~~lp~~-------------~~~L~~L~Ls~-N~l~~-lp~~--------------~~~L~~L~l~~   87 (353)
T d1jl5a_          38 RQAHELELNNLG-LSSLPEL-------------PPHLESLVASC-NSLTE-LPEL--------------PQSLKSLLVDN   87 (353)
T ss_dssp             HTCSEEECTTSC-CSCCCSC-------------CTTCSEEECCS-SCCSS-CCCC--------------CTTCCEEECCS
T ss_pred             cCCCEEEeCCCC-CCCCCCC-------------CCCCCEEECCC-CCCcc-cccc--------------hhhhhhhhhhh
Confidence            468999999987 8888854             34899999986 56776 6642              23488999887


Q ss_pred             CCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCC
Q 039944          109 CSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCK  158 (348)
Q Consensus       109 ~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~  158 (348)
                      +. ++.++. +  .+.|++|++++| .+..+|. ...+++|+.|++.++.
T Consensus        88 n~-l~~l~~-l--p~~L~~L~L~~n-~l~~lp~-~~~l~~L~~L~l~~~~  131 (353)
T d1jl5a_          88 NN-LKALSD-L--PPLLEYLGVSNN-QLEKLPE-LQNSSFLKIIDVDNNS  131 (353)
T ss_dssp             SC-CSCCCS-C--CTTCCEEECCSS-CCSSCCC-CTTCTTCCEEECCSSC
T ss_pred             cc-cchhhh-h--cccccccccccc-ccccccc-hhhhccceeecccccc
Confidence            65 444432 1  357999999984 5777875 4668899999998864

>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=99.49  E-value=5.4e-13  Score=111.46  Aligned_cols=218  Identities=19%  Similarity=0.135  Sum_probs=146.2

Q ss_pred             cceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEcCCCCcccch-hhhcCCCccceecccccccccccCC-C
Q 039944           65 LEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLGSIA-ERLDNNTSLETISIDSCGNLVSFPE-G  142 (348)
Q Consensus        65 L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~l~~~~~-~  142 (348)
                      .+.++.++. .++. +|.. +            |.+++.|+++++. ++.++ ..+.++++|++|++++|.....++. .
T Consensus        10 ~~~i~c~~~-~l~~-iP~~-l------------~~~l~~L~Ls~n~-i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~   73 (242)
T d1xwdc1          10 NRVFLCQES-KVTE-IPSD-L------------PRNAIELRFVLTK-LRVIQKGAFSGFGDLEKIEISQNDVLEVIEADV   73 (242)
T ss_dssp             SSEEEEESC-SCSS-CCSC-S------------CSCCSEEEEESCC-CCEECTTTTTTCTTCCEEEEESCTTCCEECSSS
T ss_pred             CCEEEEeCC-CCCC-cCCC-C------------CCCCCEEECcCCc-CCccChhHhhccchhhhhhhccccccceeeccc
Confidence            456666653 4565 6542 2            4458999999875 66665 4578899999999998765555555 3


Q ss_pred             CCCCCCccEEEEecCCCcCcccc-cccCCCCcceeEeccCCCCCcccccCCCCCCcCeeee--cCCccchhhhhcccccc
Q 039944          143 GLPCAKLTRLTILDCKRLEALPK-GMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDI--WGNMEIWKSMIERGRGF  219 (348)
Q Consensus       143 ~~~~~~L~~L~l~~~~~l~~~~~-~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l--~~~~~l~~~~~~~~~~~  219 (348)
                      +..+++++++.+.++..+..++. .+..+++|++++++++ .+...+ ....+.+++.+..  ..+..+..+...   .+
T Consensus        74 f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L~~l~l~~~-~l~~~~-~~~~~~~l~~l~~~~~~n~~l~~i~~~---~~  148 (242)
T d1xwdc1          74 FSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNT-GIKHLP-DVHKIHSLQKVLLDIQDNINIHTIERN---SF  148 (242)
T ss_dssp             EESCTTCCEEEEECCTTCCEECTTSEECCTTCCEEEEESC-CCCSCC-CCTTTCBSSCEEEEEESCTTCCEECTT---SS
T ss_pred             cccccccccccccccccccccccccccccccccccccchh-hhcccc-ccccccccccccccccccccccccccc---cc
Confidence            45678899999887777766654 4688999999999986 455555 4555555555543  222344444322   34


Q ss_pred             CCC-CCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccccc-ccccCCCcceEeccCCCCCCCCCC
Q 039944          220 HRF-SSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGCPKLKYFPE  297 (348)
Q Consensus       220 ~~l-~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c~~l~~l~~  297 (348)
                      .++ ..++.+++++  +.+..++...       ...++++++....++.++.+|. .+.++++|++|+++++ .++.+|.
T Consensus       149 ~~~~~~l~~L~l~~--n~l~~i~~~~-------~~~~~l~~~~~l~~n~l~~l~~~~f~~l~~L~~L~Ls~N-~l~~l~~  218 (242)
T d1xwdc1         149 VGLSFESVILWLNK--NGIQEIHNCA-------FNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRT-RIHSLPS  218 (242)
T ss_dssp             TTSBSSCEEEECCS--SCCCEECTTT-------TTTCCEEEEECTTCTTCCCCCTTTTTTSCCCSEEECTTS-CCCCCCS
T ss_pred             ccccccceeeeccc--cccccccccc-------ccchhhhccccccccccccccHHHhcCCCCCCEEECCCC-cCCccCH
Confidence            444 3788888886  6777776644       2345666666555578888887 4788999999999985 5888887


Q ss_pred             CCCCCCCcEEEEcCCch
Q 039944          298 KGLPSSLLELRISRCPL  314 (348)
Q Consensus       298 ~~~~~~L~~L~l~~c~~  314 (348)
                      .. +.++..|..-++.+
T Consensus       219 ~~-~~~l~~L~~l~~~~  234 (242)
T d1xwdc1         219 YG-LENLKKLRARSTYN  234 (242)
T ss_dssp             SS-CTTCCEEESSSEES
T ss_pred             HH-HcCCcccccCcCCC
Confidence            44 45666665544443

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.45  E-value=4.7e-13  Score=109.41  Aligned_cols=161  Identities=16%  Similarity=0.247  Sum_probs=77.9

Q ss_pred             ccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEecc
Q 039944          101 LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGK  180 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~  180 (348)
                      ++.|+++++. +..++ .+..+++|++|++++| .+..++. ...+++|+.|++++| .++.++ .+..+++|+.|++++
T Consensus        48 L~~L~l~~~~-i~~l~-~l~~l~~L~~L~L~~n-~i~~l~~-~~~l~~L~~L~l~~n-~i~~l~-~l~~l~~L~~L~l~~  121 (210)
T d1h6ta2          48 IDQIIANNSD-IKSVQ-GIQYLPNVTKLFLNGN-KLTDIKP-LANLKNLGWLFLDEN-KVKDLS-SLKDLKKLKSLSLEH  121 (210)
T ss_dssp             CCEEECTTSC-CCCCT-TGGGCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSS-CCCCGG-GGTTCTTCCEEECTT
T ss_pred             ccEEECcCCC-CCCch-hHhhCCCCCEEeCCCc-cccCccc-cccCccccccccccc-cccccc-ccccccccccccccc
Confidence            5566665553 33332 2455666666666553 3434332 234555666666553 344443 345555666666655


Q ss_pred             CCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEE
Q 039944          181 GGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSL  260 (348)
Q Consensus       181 ~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L  260 (348)
                      +. ...++ .+..+++++.+++.++. +....     .+..+++|+.+++++  +.+..++. .       ..+++|++|
T Consensus       122 ~~-~~~~~-~l~~l~~l~~l~~~~n~-l~~~~-----~~~~l~~L~~l~l~~--n~l~~i~~-l-------~~l~~L~~L  183 (210)
T d1h6ta2         122 NG-ISDIN-GLVHLPQLESLYLGNNK-ITDIT-----VLSRLTKLDTLSLED--NQISDIVP-L-------AGLTKLQNL  183 (210)
T ss_dssp             SC-CCCCG-GGGGCTTCCEEECCSSC-CCCCG-----GGGGCTTCSEEECCS--SCCCCCGG-G-------TTCTTCCEE
T ss_pred             cc-ccccc-ccccccccccccccccc-ccccc-----ccccccccccccccc--cccccccc-c-------cCCCCCCEE
Confidence            42 23333 34445555555555532 22222     223455555555555  23444332 1       244555555


Q ss_pred             EeccCCCccccccccccCCCcceEecc
Q 039944          261 WIEAFPNLERLSSSIVDLQNLTELYLF  287 (348)
Q Consensus       261 ~l~~~~~l~~i~~~~~~~~~L~~L~l~  287 (348)
                      ++++| .++.++ .+.++++|+.|+++
T Consensus       184 ~Ls~N-~i~~l~-~l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         184 YLSKN-HISDLR-ALAGLKNLDVLELF  208 (210)
T ss_dssp             ECCSS-CCCBCG-GGTTCTTCSEEEEE
T ss_pred             ECCCC-CCCCCh-hhcCCCCCCEEEcc
Confidence            55553 445444 35555555555554

>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=99.45  E-value=5.5e-13  Score=110.42  Aligned_cols=187  Identities=20%  Similarity=0.200  Sum_probs=136.3

Q ss_pred             CCcccEEeecCcccccccCCCCCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCC
Q 039944            5 NSSLEILDIEKCHSLTYIAAVQLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNE   84 (348)
Q Consensus         5 ~~~L~~L~l~~~~~l~~l~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~   84 (348)
                      +.+|+.|++.+| ++++++....+++|++|++++|. +..+..         +..+.  +++.+++.++. ++. ++.. 
T Consensus        40 l~~L~~L~l~~~-~i~~l~~l~~l~~L~~L~ls~n~-i~~~~~---------l~~l~--~l~~l~~~~n~-~~~-i~~l-  103 (227)
T d1h6ua2          40 LDGITTLSAFGT-GVTTIEGVQYLNNLIGLELKDNQ-ITDLAP---------LKNLT--KITELELSGNP-LKN-VSAI-  103 (227)
T ss_dssp             HHTCCEEECTTS-CCCCCTTGGGCTTCCEEECCSSC-CCCCGG---------GTTCC--SCCEEECCSCC-CSC-CGGG-
T ss_pred             cCCcCEEECCCC-CCCcchhHhcCCCCcEeecCCce-eecccc---------ccccc--ccccccccccc-ccc-cccc-
Confidence            567899999986 67888655569999999999987 666543         46666  89999998753 443 3321 


Q ss_pred             CCCCcceeEeccCCCCccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCccc
Q 039944           85 LPATLESLEVGNLPLSLKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALP  164 (348)
Q Consensus        85 ~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~  164 (348)
                                ..++. |+.+.++++.... + ..+...+.++.+.++.+... ... ....+++|+.|++.+|. +...+
T Consensus       104 ----------~~l~~-L~~l~l~~~~~~~-~-~~~~~~~~~~~l~~~~~~~~-~~~-~~~~~~~L~~L~l~~n~-~~~~~  167 (227)
T d1h6ua2         104 ----------AGLQS-IKTLDLTSTQITD-V-TPLAGLSNLQVLYLDLNQIT-NIS-PLAGLTNLQYLSIGNAQ-VSDLT  167 (227)
T ss_dssp             ----------TTCTT-CCEEECTTSCCCC-C-GGGTTCTTCCEEECCSSCCC-CCG-GGGGCTTCCEEECCSSC-CCCCG
T ss_pred             ----------ccccc-ccccccccccccc-c-chhccccchhhhhchhhhhc-hhh-hhccccccccccccccc-cccch
Confidence                      23355 8888988776433 2 23566788888888775332 222 23456789999998864 44443


Q ss_pred             ccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecc
Q 039944          165 KGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISR  232 (348)
Q Consensus       165 ~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~  232 (348)
                       .+.++++|++|++++| .+++++ .++.+++|+.|++++| +++.++     .+..+++|+.|++++
T Consensus       168 -~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         168 -PLANLSKLTTLKADDN-KISDIS-PLASLPNLIEVHLKNN-QISDVS-----PLANTSNLFIVTLTN  226 (227)
T ss_dssp             -GGTTCTTCCEEECCSS-CCCCCG-GGGGCTTCCEEECTTS-CCCBCG-----GGTTCTTCCEEEEEE
T ss_pred             -hhcccccceecccCCC-ccCCCh-hhcCCCCCCEEECcCC-cCCCCc-----ccccCCCCCEEEeeC
Confidence             4788999999999987 677777 6788899999999996 577765     468899999999875

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.45  E-value=4.4e-13  Score=109.64  Aligned_cols=166  Identities=17%  Similarity=0.204  Sum_probs=127.9

Q ss_pred             CCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCee
Q 039944          121 NNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSL  200 (348)
Q Consensus       121 ~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L  200 (348)
                      .+.+|+.|++++| .+..++ .+..+++|++|++++| .++.++ .+..+++|++|++++| .++.++ .+..+++|+.+
T Consensus        44 ~L~~L~~L~l~~~-~i~~l~-~l~~l~~L~~L~L~~n-~i~~l~-~~~~l~~L~~L~l~~n-~i~~l~-~l~~l~~L~~L  117 (210)
T d1h6ta2          44 ELNSIDQIIANNS-DIKSVQ-GIQYLPNVTKLFLNGN-KLTDIK-PLANLKNLGWLFLDEN-KVKDLS-SLKDLKKLKSL  117 (210)
T ss_dssp             HHHTCCEEECTTS-CCCCCT-TGGGCTTCCEEECCSS-CCCCCG-GGTTCTTCCEEECCSS-CCCCGG-GGTTCTTCCEE
T ss_pred             HhcCccEEECcCC-CCCCch-hHhhCCCCCEEeCCCc-cccCcc-ccccCccccccccccc-cccccc-ccccccccccc
Confidence            3678899999884 555554 3566889999999996 466665 4678999999999987 677787 68889999999


Q ss_pred             eecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCC
Q 039944          201 DIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQN  280 (348)
Q Consensus       201 ~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~  280 (348)
                      ++.++.. ....     .+..+++++.+++++  +.+...+...        .+++|+.++++++ .+..++ .+.++++
T Consensus       118 ~l~~~~~-~~~~-----~l~~l~~l~~l~~~~--n~l~~~~~~~--------~l~~L~~l~l~~n-~l~~i~-~l~~l~~  179 (210)
T d1h6ta2         118 SLEHNGI-SDIN-----GLVHLPQLESLYLGN--NKITDITVLS--------RLTKLDTLSLEDN-QISDIV-PLAGLTK  179 (210)
T ss_dssp             ECTTSCC-CCCG-----GGGGCTTCCEEECCS--SCCCCCGGGG--------GCTTCSEEECCSS-CCCCCG-GGTTCTT
T ss_pred             ccccccc-cccc-----ccccccccccccccc--cccccccccc--------ccccccccccccc-cccccc-cccCCCC
Confidence            9998653 3333     457788999999987  4555554432        6788999999985 677776 4888999


Q ss_pred             cceEeccCCCCCCCCCCCCCCCCCcEEEEcC
Q 039944          281 LTELYLFGCPKLKYFPEKGLPSSLLELRISR  311 (348)
Q Consensus       281 L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~  311 (348)
                      |++|++++| .+++++...-.++|++|++++
T Consensus       180 L~~L~Ls~N-~i~~l~~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         180 LQNLYLSKN-HISDLRALAGLKNLDVLELFS  209 (210)
T ss_dssp             CCEEECCSS-CCCBCGGGTTCTTCSEEEEEE
T ss_pred             CCEEECCCC-CCCCChhhcCCCCCCEEEccC
Confidence            999999986 688887533368999999864

>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=99.44  E-value=8.3e-13  Score=106.99  Aligned_cols=96  Identities=18%  Similarity=0.206  Sum_probs=42.2

Q ss_pred             ccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEecc
Q 039944          101 LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGK  180 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~  180 (348)
                      ++.|+++++. +..+. .+..+++|++|++++| .+..++. +..+++|+.|++++|. +..++ .+.+++.|++|++++
T Consensus        42 l~~L~l~~~~-i~~l~-~l~~l~nL~~L~Ls~N-~l~~~~~-l~~l~~L~~L~l~~n~-~~~~~-~l~~l~~L~~L~l~~  115 (199)
T d2omxa2          42 VTTLQADRLG-IKSID-GVEYLNNLTQINFSNN-QLTDITP-LKNLTKLVDILMNNNQ-IADIT-PLANLTNLTGLTLFN  115 (199)
T ss_dssp             CCEEECTTSC-CCCCT-TGGGCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSC-CCCCG-GGTTCTTCSEEECCS
T ss_pred             CCEEECCCCC-CCCcc-ccccCCCcCcCccccc-cccCccc-ccCCcccccccccccc-ccccc-ccccccccccccccc
Confidence            5556655543 33332 2444555555555553 3333332 3344455555555432 22332 244445555555544


Q ss_pred             CCCCCcccccCCCCCCcCeeeecC
Q 039944          181 GGALPSLEEEDGLPTNLQSLDIWG  204 (348)
Q Consensus       181 ~~~~~~~~~~~~~~~~L~~L~l~~  204 (348)
                      +. ....+ .+..+++|+.+++++
T Consensus       116 ~~-~~~~~-~~~~l~~L~~L~l~~  137 (199)
T d2omxa2         116 NQ-ITDID-PLKNLTNLNRLELSS  137 (199)
T ss_dssp             SC-CCCCG-GGTTCTTCSEEECCS
T ss_pred             cc-ccccc-ccchhhhhHHhhhhh
Confidence            32 22222 234444445554444

>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=99.41  E-value=2.1e-12  Score=104.56  Aligned_cols=162  Identities=19%  Similarity=0.207  Sum_probs=102.5

Q ss_pred             CCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCee
Q 039944          121 NNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSL  200 (348)
Q Consensus       121 ~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L  200 (348)
                      .++++++|+++++ .+.+++ .+..+++|++|++++| .++.+++ +.++++|++|++++| ....++ .++.+++|+.+
T Consensus        38 ~l~~l~~L~l~~~-~i~~l~-~l~~l~nL~~L~Ls~N-~l~~~~~-l~~l~~L~~L~l~~n-~~~~~~-~l~~l~~L~~L  111 (199)
T d2omxa2          38 DLDQVTTLQADRL-GIKSID-GVEYLNNLTQINFSNN-QLTDITP-LKNLTKLVDILMNNN-QIADIT-PLANLTNLTGL  111 (199)
T ss_dssp             HHTTCCEEECTTS-CCCCCT-TGGGCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSS-CCCCCG-GGTTCTTCSEE
T ss_pred             HhcCCCEEECCCC-CCCCcc-ccccCCCcCcCccccc-cccCccc-ccCCccccccccccc-cccccc-ccccccccccc
Confidence            3567777777763 444443 3455677888888775 4555543 677778888888776 445555 56677778888


Q ss_pred             eecCCccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCccccccccccCCC
Q 039944          201 DIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSSSIVDLQN  280 (348)
Q Consensus       201 ~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~  280 (348)
                      ++.++.... ..     .+..+++|+.|++++  +.+..++. .       ..+++|+.|++.+| .++.++ .+.++++
T Consensus       112 ~l~~~~~~~-~~-----~~~~l~~L~~L~l~~--n~l~~~~~-l-------~~~~~L~~L~l~~n-~l~~l~-~l~~l~~  173 (199)
T d2omxa2         112 TLFNNQITD-ID-----PLKNLTNLNRLELSS--NTISDISA-L-------SGLTSLQQLNFSSN-QVTDLK-PLANLTT  173 (199)
T ss_dssp             ECCSSCCCC-CG-----GGTTCTTCSEEECCS--SCCCCCGG-G-------TTCTTCSEEECCSS-CCCCCG-GGTTCTT
T ss_pred             ccccccccc-cc-----ccchhhhhHHhhhhh--hhhccccc-c-------cccccccccccccc-cccCCc-cccCCCC
Confidence            877654332 22     345677788888876  34554443 2       35667788888774 566665 4677778


Q ss_pred             cceEeccCCCCCCCCCCCCCCCCCcEE
Q 039944          281 LTELYLFGCPKLKYFPEKGLPSSLLEL  307 (348)
Q Consensus       281 L~~L~l~~c~~l~~l~~~~~~~~L~~L  307 (348)
                      |+.|++++| .+++++.-.-.++|++|
T Consensus       174 L~~L~ls~N-~i~~i~~l~~L~~L~~L  199 (199)
T d2omxa2         174 LERLDISSN-KVSDISVLAKLTNLESL  199 (199)
T ss_dssp             CCEEECCSS-CCCCCGGGGGCTTCSEE
T ss_pred             CCEEECCCC-CCCCCccccCCCCCCcC
Confidence            888888775 46666542224555554

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.40  E-value=1.1e-13  Score=118.68  Aligned_cols=179  Identities=14%  Similarity=0.109  Sum_probs=98.7

Q ss_pred             ccEEEEcCCCCccc-chhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcc--cccccCCCCcceeE
Q 039944          101 LKSLFVYGCSKLGS-IAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEAL--PKGMHNLTSLQYLR  177 (348)
Q Consensus       101 L~~L~l~~~~~~~~-~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~--~~~l~~l~~L~~L~  177 (348)
                      |++|++++|..... +...+..+++|++|++++|......+..+..+++|++|++++|..+++.  ......+++|++|+
T Consensus        48 L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~~L~  127 (284)
T d2astb2          48 VQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELN  127 (284)
T ss_dssp             CCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEE
T ss_pred             CCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHhccccc
Confidence            66667666542222 2344556677777777665432222333344567777777776655432  11224567777777


Q ss_pred             eccCCCCCcc--ccc-CCCCCCcCeeeecCCc-cchhhhhccccccCCCCCccEEEecccCCccccc-ccchhccCCCCC
Q 039944          178 IGKGGALPSL--EEE-DGLPTNLQSLDIWGNM-EIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSF-PLEDKRLGTALP  252 (348)
Q Consensus       178 l~~~~~~~~~--~~~-~~~~~~L~~L~l~~~~-~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~-~~~~~~~~~~~~  252 (348)
                      +++|..+.+-  ... ...+++|+.|++.++. .+......  ..+..+++|++|++++ |..+++- ....       .
T Consensus       128 ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~--~l~~~~~~L~~L~L~~-~~~itd~~~~~l-------~  197 (284)
T d2astb2         128 LSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLS--TLVRRCPNLVHLDLSD-SVMLKNDCFQEF-------F  197 (284)
T ss_dssp             CCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHH--HHHHHCTTCSEEECTT-CTTCCGGGGGGG-------G
T ss_pred             cccccccccccchhhhcccccccchhhhccccccccccccc--cccccccccccccccc-ccCCCchhhhhh-------c
Confidence            7776554321  111 1234677777777653 23221111  1234567777777777 6655422 1122       2


Q ss_pred             CCCCccEEEeccCCCcccc-ccccccCCCcceEeccCC
Q 039944          253 LPASLTSLWIEAFPNLERL-SSSIVDLQNLTELYLFGC  289 (348)
Q Consensus       253 ~~~~L~~L~l~~~~~l~~i-~~~~~~~~~L~~L~l~~c  289 (348)
                      .+++|++|++++|+.++.- ...+.++++|+.|++.+|
T Consensus       198 ~~~~L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         198 QLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             GCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS
T ss_pred             ccCcCCEEECCCCCCCChHHHHHHhcCCCCCEEeeeCC
Confidence            4567778888777766532 224667778888888776

>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=99.38  E-value=8.2e-14  Score=119.53  Aligned_cols=184  Identities=13%  Similarity=0.092  Sum_probs=130.2

Q ss_pred             hcCCCccceecccccccc-cccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCc--ccccCCCCC
Q 039944          119 LDNNTSLETISIDSCGNL-VSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPS--LEEEDGLPT  195 (348)
Q Consensus       119 ~~~l~~L~~L~l~~~~~l-~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~--~~~~~~~~~  195 (348)
                      .....+|++|++++|... ..+...+..+++|++|++.+|..-...+..+..+++|++|++++|..+++  +......++
T Consensus        42 ~~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~  121 (284)
T d2astb2          42 HFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCS  121 (284)
T ss_dssp             CCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCT
T ss_pred             hccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHH
Confidence            345678999999986432 22334456688999999999864444556678899999999999877764  232345689


Q ss_pred             CcCeeeecCCccchhhhhcccccc-CCCCCccEEEecccCC-cccc--cccchhccCCCCCCCCCccEEEeccCCCcc-c
Q 039944          196 NLQSLDIWGNMEIWKSMIERGRGF-HRFSSLRRLTISRCDE-DMVS--FPLEDKRLGTALPLPASLTSLWIEAFPNLE-R  270 (348)
Q Consensus       196 ~L~~L~l~~~~~l~~~~~~~~~~~-~~l~~L~~L~l~~~c~-~l~~--~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~-~  270 (348)
                      +|++|++++|..+.+....  ..+ ...++|+.|++++ |. .+..  +..-.       ..+++|++|++++|..++ .
T Consensus       122 ~L~~L~ls~c~~~~~~~~~--~~~~~~~~~L~~L~l~~-~~~~i~~~~l~~l~-------~~~~~L~~L~L~~~~~itd~  191 (284)
T d2astb2         122 RLDELNLSWCFDFTEKHVQ--VAVAHVSETITQLNLSG-YRKNLQKSDLSTLV-------RRCPNLVHLDLSDSVMLKND  191 (284)
T ss_dssp             TCCEEECCCCTTCCHHHHH--HHHHHSCTTCCEEECCS-CGGGSCHHHHHHHH-------HHCTTCSEEECTTCTTCCGG
T ss_pred             hccccccccccccccccch--hhhcccccccchhhhcc-cccccccccccccc-------cccccccccccccccCCCch
Confidence            9999999998776543211  112 3357899999998 53 3322  22111       256799999999998886 3


Q ss_pred             cccccccCCCcceEeccCCCCCCCCCCCCC--CCCCcEEEEcCC
Q 039944          271 LSSSIVDLQNLTELYLFGCPKLKYFPEKGL--PSSLLELRISRC  312 (348)
Q Consensus       271 i~~~~~~~~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~l~~c  312 (348)
                      ....+.++++|++|++++|+.+++-....+  .++|++|++++|
T Consensus       192 ~~~~l~~~~~L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         192 CFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             GGGGGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS
T ss_pred             hhhhhcccCcCCEEECCCCCCCChHHHHHHhcCCCCCEEeeeCC
Confidence            445778899999999999988865322112  689999999998

>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=99.02  E-value=4e-10  Score=83.35  Aligned_cols=56  Identities=27%  Similarity=0.328  Sum_probs=22.1

Q ss_pred             CCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecC
Q 039944          146 CAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWG  204 (348)
Q Consensus       146 ~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~  204 (348)
                      +++|++|++++| .++.+|+.+..+++|+.|++++| .++.++ .++.+++|+.+++++
T Consensus        19 l~~L~~L~ls~N-~l~~lp~~~~~l~~L~~L~l~~N-~i~~l~-~~~~l~~L~~L~l~~   74 (124)
T d1dcea3          19 LLLVTHLDLSHN-RLRALPPALAALRCLEVLQASDN-ALENVD-GVANLPRLQELLLCN   74 (124)
T ss_dssp             GTTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCSS-CCCCCG-GGTTCSSCCEEECCS
T ss_pred             CCCCCEEECCCC-ccCcchhhhhhhhcccccccccc-cccccC-ccccccccCeEECCC
Confidence            334444444432 23334333344444444444433 233333 333344444444443

>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=99.00  E-value=3.8e-10  Score=87.65  Aligned_cols=35  Identities=26%  Similarity=0.351  Sum_probs=15.5

Q ss_pred             CCCccEEEeccCCCcccccc--ccccCCCcceEeccCC
Q 039944          254 PASLTSLWIEAFPNLERLSS--SIVDLQNLTELYLFGC  289 (348)
Q Consensus       254 ~~~L~~L~l~~~~~l~~i~~--~~~~~~~L~~L~l~~c  289 (348)
                      +++|+.|++++ +.++.++.  .+..+++|+.|++++|
T Consensus        86 l~~L~~L~L~~-N~i~~~~~l~~l~~l~~L~~L~l~~N  122 (162)
T d1a9na_          86 LPDLTELILTN-NSLVELGDLDPLASLKSLTYLCILRN  122 (162)
T ss_dssp             CTTCCEEECCS-CCCCCGGGGGGGGGCTTCCEEECCSS
T ss_pred             ccccccceecc-ccccccccccccccccccchhhcCCC
Confidence            34444444444 23333332  3444455555555553

>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=98.95  E-value=5.1e-10  Score=86.90  Aligned_cols=123  Identities=16%  Similarity=0.142  Sum_probs=67.7

Q ss_pred             ccEEEEcCCCCcccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccc-cCCCCcceeEec
Q 039944          101 LKSLFVYGCSKLGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGM-HNLTSLQYLRIG  179 (348)
Q Consensus       101 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l-~~l~~L~~L~l~  179 (348)
                      +++|++++|. ++.++..+..+++|++|++++| .+.+++ .+..+++|++|++++|. +..+++.+ ..+++|++|+++
T Consensus        20 lr~L~L~~n~-I~~i~~~~~~l~~L~~L~Ls~N-~i~~l~-~~~~l~~L~~L~ls~N~-i~~l~~~~~~~l~~L~~L~L~   95 (162)
T d1a9na_          20 DRELDLRGYK-IPVIENLGATLDQFDAIDFSDN-EIRKLD-GFPLLRRLKTLLVNNNR-ICRIGEGLDQALPDLTELILT   95 (162)
T ss_dssp             CEEEECTTSC-CCSCCCGGGGTTCCSEEECCSS-CCCEEC-CCCCCSSCCEEECCSSC-CCEECSCHHHHCTTCCEEECC
T ss_pred             CcEEECCCCC-CCccCccccccccCCEEECCCC-CCCccC-CcccCcchhhhhccccc-ccCCCccccccccccccceec
Confidence            6677777654 5555544455677777777763 455553 34556677777777743 55555433 456777777777


Q ss_pred             cCCCCCcccc--cCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEE
Q 039944          180 KGGALPSLEE--EDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLT  229 (348)
Q Consensus       180 ~~~~~~~~~~--~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~  229 (348)
                      +| .+..++.  .+..+++|+.+++.+|. +...+....+.+..+++|+.||
T Consensus        96 ~N-~i~~~~~l~~l~~l~~L~~L~l~~N~-i~~~~~~r~~~i~~lp~L~~LD  145 (162)
T d1a9na_          96 NN-SLVELGDLDPLASLKSLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLD  145 (162)
T ss_dssp             SC-CCCCGGGGGGGGGCTTCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEET
T ss_pred             cc-cccccccccccccccccchhhcCCCc-cccccchHHHHHHHCCCcCeeC
Confidence            65 3444331  34455666666666643 2222210002334556666554

>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=98.94  E-value=3.6e-09  Score=84.50  Aligned_cols=124  Identities=17%  Similarity=0.170  Sum_probs=75.1

Q ss_pred             cEEEEecCCCcCcccccccCCCCcceeEeccCCCCCc-cc-ccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccE
Q 039944          150 TRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPS-LE-EEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRR  227 (348)
Q Consensus       150 ~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~-~~-~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~  227 (348)
                      ++++.++ ..++.+|..+  .+++++|+++++ .+.. .+ ..++.+++|+.|+++++. +..++.   ..+..+++|+.
T Consensus        11 ~~v~Cs~-~~L~~iP~~l--p~~l~~L~Ls~N-~i~~~~~~~~f~~l~~L~~L~L~~N~-i~~~~~---~~~~~~~~L~~   82 (192)
T d1w8aa_          11 TTVDCTG-RGLKEIPRDI--PLHTTELLLNDN-ELGRISSDGLFGRLPHLVKLELKRNQ-LTGIEP---NAFEGASHIQE   82 (192)
T ss_dssp             TEEECTT-SCCSSCCSCC--CTTCSEEECCSC-CCCSBCCSCSGGGCTTCCEEECCSSC-CCCBCT---TTTTTCTTCCE
T ss_pred             CEEEEeC-CCcCccCCCC--CCCCCEEEeCCC-CCcccccccccCCCceEeeeeccccc-cccccc---cccccccccce
Confidence            3455444 4566777654  357777777776 3332 22 234556777777777643 333332   24566777777


Q ss_pred             EEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccccc-ccccCCCcceEeccCCC
Q 039944          228 LTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGCP  290 (348)
Q Consensus       228 L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c~  290 (348)
                      |++++  +.+..++...      +..+++|++|++++ +.++.++. .+..+++|++|++++++
T Consensus        83 L~Ls~--N~l~~l~~~~------F~~l~~L~~L~L~~-N~l~~i~~~~f~~l~~L~~l~L~~N~  137 (192)
T d1w8aa_          83 LQLGE--NKIKEISNKM------FLGLHQLKTLNLYD-NQISCVMPGSFEHLNSLTSLNLASNP  137 (192)
T ss_dssp             EECCS--CCCCEECSSS------STTCTTCCEEECCS-SCCCEECTTSSTTCTTCCEEECTTCC
T ss_pred             eeecc--ccccccCHHH------HhCCCcccccccCC-ccccccCHHHhcCCcccccccccccc
Confidence            77776  5666665532      34567777777777 46666655 45667777777777654

>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=98.94  E-value=3.2e-09  Score=78.32  Aligned_cols=73  Identities=18%  Similarity=0.178  Sum_probs=34.5

Q ss_pred             EEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEe
Q 039944          151 RLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTI  230 (348)
Q Consensus       151 ~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l  230 (348)
                      .|+++++ .++.++ .+..+++|++|++++| .++.+|..++.+++|+.|+++++ .++.++     .+..+++|++|++
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   72 (124)
T d1dcea3           2 VLHLAHK-DLTVLC-HLEQLLLVTHLDLSHN-RLRALPPALAALRCLEVLQASDN-ALENVD-----GVANLPRLQELLL   72 (124)
T ss_dssp             EEECTTS-CCSSCC-CGGGGTTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCSS-CCCCCG-----GGTTCSSCCEEEC
T ss_pred             EEEcCCC-CCCCCc-ccccCCCCCEEECCCC-ccCcchhhhhhhhcccccccccc-cccccC-----ccccccccCeEEC
Confidence            4455552 344443 3455555555555554 34445434444555555555552 333332     2344445555555


Q ss_pred             cc
Q 039944          231 SR  232 (348)
Q Consensus       231 ~~  232 (348)
                      ++
T Consensus        73 ~~   74 (124)
T d1dcea3          73 CN   74 (124)
T ss_dssp             CS
T ss_pred             CC
Confidence            44

>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=98.91  E-value=4.9e-09  Score=83.68  Aligned_cols=124  Identities=17%  Similarity=0.092  Sum_probs=72.7

Q ss_pred             eecccccccccccCCCCCCCCCccEEEEecCCCcCccc-ccccCCCCcceeEeccCCCCCcccccCCCCCCcCeeeecCC
Q 039944          127 TISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALP-KGMHNLTSLQYLRIGKGGALPSLEEEDGLPTNLQSLDIWGN  205 (348)
Q Consensus       127 ~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~  205 (348)
                      .++.++ ..+.++|..+.  +++++|++++|..-..++ ..+..+++|++|+++++......+..+..+++|+.|+++++
T Consensus        12 ~v~Cs~-~~L~~iP~~lp--~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N   88 (192)
T d1w8aa_          12 TVDCTG-RGLKEIPRDIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGEN   88 (192)
T ss_dssp             EEECTT-SCCSSCCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSC
T ss_pred             EEEEeC-CCcCccCCCCC--CCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeeccc
Confidence            344444 45556666543  367777777753222232 34466777777777765333333334556677777777773


Q ss_pred             ccchhhhhccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccC
Q 039944          206 MEIWKSMIERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAF  265 (348)
Q Consensus       206 ~~l~~~~~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~  265 (348)
                       ++..++..   .|.++++|++|++++  +.+..++.+.      +..+++|++++++++
T Consensus        89 -~l~~l~~~---~F~~l~~L~~L~L~~--N~l~~i~~~~------f~~l~~L~~l~L~~N  136 (192)
T d1w8aa_          89 -KIKEISNK---MFLGLHQLKTLNLYD--NQISCVMPGS------FEHLNSLTSLNLASN  136 (192)
T ss_dssp             -CCCEECSS---SSTTCTTCCEEECCS--SCCCEECTTS------STTCTTCCEEECTTC
T ss_pred             -cccccCHH---HHhCCCcccccccCC--ccccccCHHH------hcCCccccccccccc
Confidence             45555542   566777777777776  5666665532      345667777777764

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.60  E-value=1.7e-07  Score=71.76  Aligned_cols=42  Identities=21%  Similarity=0.090  Sum_probs=17.1

Q ss_pred             ccccccCCCCcceeEeccCCCCCcccc-cCCCCCCcCeeeecC
Q 039944          163 LPKGMHNLTSLQYLRIGKGGALPSLEE-EDGLPTNLQSLDIWG  204 (348)
Q Consensus       163 ~~~~l~~l~~L~~L~l~~~~~~~~~~~-~~~~~~~L~~L~l~~  204 (348)
                      .|..+..+++|++|++.++..++.++. .+..+++|+.|++++
T Consensus        23 ~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~   65 (156)
T d2ifga3          23 SLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVK   65 (156)
T ss_dssp             TTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCS
T ss_pred             CcccccCccccCeeecCCCccccccCchhhccccccCcceeec
Confidence            333344444444444443333333331 233344444444444

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.58  E-value=2.8e-07  Score=70.49  Aligned_cols=85  Identities=25%  Similarity=0.201  Sum_probs=41.9

Q ss_pred             CCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccccc-ccccCCCcceEeccCCCCCCCCCCC
Q 039944          220 HRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGCPKLKYFPEK  298 (348)
Q Consensus       220 ~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c~~l~~l~~~  298 (348)
                      .++++|++|++.+ .+.++.++...      +..+++|+.|++++ +.++.++. .+..+++|++|++++ +.++.+|..
T Consensus        28 ~~l~~l~~L~l~~-n~~l~~i~~~~------f~~l~~L~~L~Ls~-N~l~~i~~~~f~~l~~L~~L~Ls~-N~l~~l~~~   98 (156)
T d2ifga3          28 PGAENLTELYIEN-QQHLQHLELRD------LRGLGELRNLTIVK-SGLRFVAPDAFHFTPRLSRLNLSF-NALESLSWK   98 (156)
T ss_dssp             CSCSCCSEEECCS-CSSCCEECGGG------SCSCCCCSEEECCS-SCCCEECTTGGGSCSCCCEEECCS-SCCSCCCST
T ss_pred             cCccccCeeecCC-CccccccCchh------hccccccCcceeec-cccCCcccccccccccccceeccC-CCCcccChh
Confidence            3444555555543 23344444321      23445555555555 34555433 355555666666655 345555553


Q ss_pred             CC-CCCCcEEEEcCCc
Q 039944          299 GL-PSSLLELRISRCP  313 (348)
Q Consensus       299 ~~-~~~L~~L~l~~c~  313 (348)
                      .+ ..+|++|++++++
T Consensus        99 ~~~~~~l~~L~L~~Np  114 (156)
T d2ifga3          99 TVQGLSLQELVLSGNP  114 (156)
T ss_dssp             TTCSCCCCEEECCSSC
T ss_pred             hhccccccccccCCCc
Confidence            33 3356666666554

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.57  E-value=4.8e-10  Score=90.15  Aligned_cols=113  Identities=14%  Similarity=0.103  Sum_probs=58.3

Q ss_pred             cccchhhhcCCCccceecccccccccccCCCCCCCCCccEEEEecCCCcCcccccccCCCCcceeEeccCCCCCcccccC
Q 039944          112 LGSIAERLDNNTSLETISIDSCGNLVSFPEGGLPCAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKGGALPSLEEED  191 (348)
Q Consensus       112 ~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~  191 (348)
                      +..++..+..+++|++|++++ +.+..++ .+..+++|+.|++++| .++.+|.....+++|++|++++| .++.++ .+
T Consensus        37 i~~l~~sl~~L~~L~~L~Ls~-n~I~~i~-~l~~l~~L~~L~Ls~N-~i~~i~~~~~~~~~L~~L~l~~N-~i~~l~-~~  111 (198)
T d1m9la_          37 IEKMDATLSTLKACKHLALST-NNIEKIS-SLSGMENLRILSLGRN-LIKKIENLDAVADTLEELWISYN-QIASLS-GI  111 (198)
T ss_dssp             CCCCHHHHHHTTTCCEEECSE-EEESCCC-CHHHHTTCCEEECCEE-EECSCSSHHHHHHHCCEEECSEE-ECCCHH-HH
T ss_pred             hhhhhhHHhcccccceeECcc-cCCCCcc-cccCCccccChhhccc-ccccccccccccccccccccccc-cccccc-cc
Confidence            444455566667777777766 3455553 3444566666666664 34555433333455666666654 344443 34


Q ss_pred             CCCCCcCeeeecCCccchhhhhccccccCCCCCccEEEecc
Q 039944          192 GLPTNLQSLDIWGNMEIWKSMIERGRGFHRFSSLRRLTISR  232 (348)
Q Consensus       192 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~  232 (348)
                      ..+++|+.|+++++ .+..+...  ..+..+++|+.|++++
T Consensus       112 ~~l~~L~~L~L~~N-~i~~~~~~--~~l~~l~~L~~L~L~~  149 (198)
T d1m9la_         112 EKLVNLRVLYMSNN-KITNWGEI--DKLAALDKLEDLLLAG  149 (198)
T ss_dssp             HHHHHSSEEEESEE-ECCCHHHH--HHHTTTTTCSEEEECS
T ss_pred             cccccccccccccc-hhcccccc--ccccCCCccceeecCC
Confidence            44555555555553 23322210  1234555555555555

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.43  E-value=2.1e-09  Score=86.27  Aligned_cols=34  Identities=15%  Similarity=0.374  Sum_probs=15.1

Q ss_pred             CCCccEEEEecCCCcCcccccccCCCCcceeEeccC
Q 039944          146 CAKLTRLTILDCKRLEALPKGMHNLTSLQYLRIGKG  181 (348)
Q Consensus       146 ~~~L~~L~l~~~~~l~~~~~~l~~l~~L~~L~l~~~  181 (348)
                      +++|++|++++| .++.++ .+..+++|++|++++|
T Consensus        47 L~~L~~L~Ls~n-~I~~i~-~l~~l~~L~~L~Ls~N   80 (198)
T d1m9la_          47 LKACKHLALSTN-NIEKIS-SLSGMENLRILSLGRN   80 (198)
T ss_dssp             TTTCCEEECSEE-EESCCC-CHHHHTTCCEEECCEE
T ss_pred             ccccceeECccc-CCCCcc-cccCCccccChhhccc
Confidence            444555555442 233332 3444444555555443

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.40  E-value=1.5e-08  Score=91.41  Aligned_cols=37  Identities=24%  Similarity=0.197  Sum_probs=18.8

Q ss_pred             CCCCcceeEeccCCCCCc----ccccCCCCCCcCeeeecCC
Q 039944          169 NLTSLQYLRIGKGGALPS----LEEEDGLPTNLQSLDIWGN  205 (348)
Q Consensus       169 ~l~~L~~L~l~~~~~~~~----~~~~~~~~~~L~~L~l~~~  205 (348)
                      ....++.+++++|.....    ....+...+.++.++++++
T Consensus       253 ~~~~l~~l~l~~n~i~~~~~~~~~~~l~~~~~l~~l~l~~n  293 (460)
T d1z7xw1         253 PSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGN  293 (460)
T ss_dssp             TTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTC
T ss_pred             ccccccccccccccccccccccccccccccccccccccccc
Confidence            355777888776632111    1112233456666666654

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.22  E-value=1.9e-07  Score=81.30  Aligned_cols=245  Identities=17%  Similarity=0.127  Sum_probs=118.1

Q ss_pred             CCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccCCCCCCCcceeE--eccCCCCccEEE
Q 039944           28 PSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLE--VGNLPLSLKSLF  105 (348)
Q Consensus        28 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~--i~~l~~~L~~L~  105 (348)
                      ...|+.|+++++. +.......   -...+...+  +|+.+++.++.. .. ... ..+..+..+.  +...+. |+.|+
T Consensus        30 ~~~l~~L~Ls~n~-i~~~~~~~---l~~~l~~~~--~L~~l~l~~~~~-~~-~~~-~~~~~~~~l~~~l~~~~~-L~~L~   99 (344)
T d2ca6a1          30 DDSVKEIVLSGNT-IGTEAARW---LSENIASKK--DLEIAEFSDIFT-GR-VKD-EIPEALRLLLQALLKCPK-LHTVR   99 (344)
T ss_dssp             CSCCCEEECTTSE-ECHHHHHH---HHHTTTTCT--TCCEEECCSCCT-TS-CGG-GSHHHHHHHHHHHTTCTT-CCEEE
T ss_pred             CCCCCEEECcCCc-CCHHHHHH---HHHHHHhCC--CCCEEECCCCcc-cc-ccc-ccchHHHHHHHHHhhCCC-ccccc
Confidence            5678888888875 43311110   000134445  888888876531 10 110 0000000000  022355 88888


Q ss_pred             EcCCCCccc----chhhhcCCCccceecccccccccc----cCC---------CCCCCCCccEEEEecCCCc----Cccc
Q 039944          106 VYGCSKLGS----IAERLDNNTSLETISIDSCGNLVS----FPE---------GGLPCAKLTRLTILDCKRL----EALP  164 (348)
Q Consensus       106 l~~~~~~~~----~~~~~~~l~~L~~L~l~~~~~l~~----~~~---------~~~~~~~L~~L~l~~~~~l----~~~~  164 (348)
                      +++|..-..    +...+...++|++|++++|..-..    +..         .....+.|+.+.+.++..-    ..+.
T Consensus       100 L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l~  179 (344)
T d2ca6a1         100 LSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWA  179 (344)
T ss_dssp             CCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHH
T ss_pred             ccccccccccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeeccccccccccccccc
Confidence            887753222    344555678888888877531100    000         0112346777777764321    1122


Q ss_pred             ccccCCCCcceeEeccCCCCCc------ccccCCCCCCcCeeeecCCccchhhhh-ccccccCCCCCccEEEecccCCcc
Q 039944          165 KGMHNLTSLQYLRIGKGGALPS------LEEEDGLPTNLQSLDIWGNMEIWKSMI-ERGRGFHRFSSLRRLTISRCDEDM  237 (348)
Q Consensus       165 ~~l~~l~~L~~L~l~~~~~~~~------~~~~~~~~~~L~~L~l~~~~~l~~~~~-~~~~~~~~l~~L~~L~l~~~c~~l  237 (348)
                      ..+...+.|++|++++|. +..      +...+...++|+.|+++++. +..... .....+...++|++|++++ | .+
T Consensus       180 ~~l~~~~~L~~L~L~~n~-i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~-i~~~g~~~L~~~l~~~~~L~~L~Ls~-n-~i  255 (344)
T d2ca6a1         180 KTFQSHRLLHTVKMVQNG-IRPEGIEHLLLEGLAYCQELKVLDLQDNT-FTHLGSSALAIALKSWPNLRELGLND-C-LL  255 (344)
T ss_dssp             HHHHHCTTCCEEECCSSC-CCHHHHHHHHHTTGGGCTTCCEEECCSSC-CHHHHHHHHHHHGGGCTTCCEEECTT-C-CC
T ss_pred             chhhhhhhhccccccccc-ccccccccchhhhhcchhhhccccccccc-ccccccccccccccccccchhhhhhc-C-cc
Confidence            234556778888887763 322      11234456777778777753 322110 0002345667777777777 4 23


Q ss_pred             cccccchhccCCCC--CCCCCccEEEeccCCCccc-----cccccc-cCCCcceEeccCC
Q 039944          238 VSFPLEDKRLGTAL--PLPASLTSLWIEAFPNLER-----LSSSIV-DLQNLTELYLFGC  289 (348)
Q Consensus       238 ~~~~~~~~~~~~~~--~~~~~L~~L~l~~~~~l~~-----i~~~~~-~~~~L~~L~l~~c  289 (348)
                      ..-..  ..+..++  ...+.|++|+++++ .++.     +...+. +.++|++|+++++
T Consensus       256 ~~~g~--~~l~~~l~~~~~~~L~~L~ls~N-~i~~~~~~~l~~~l~~~~~~L~~L~l~~N  312 (344)
T d2ca6a1         256 SARGA--AAVVDAFSKLENIGLQTLRLQYN-EIELDAVRTLKTVIDEKMPDLLFLELNGN  312 (344)
T ss_dssp             CHHHH--HHHHHHHHTCSSCCCCEEECCSS-CCBHHHHHHHHHHHHHHCTTCCEEECTTS
T ss_pred             Cchhh--HHHHHHhhhccCCCCCEEECCCC-cCChHHHHHHHHHHHccCCCCCEEECCCC
Confidence            21100  0000000  12345777777764 3432     222332 4566777777664

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.14  E-value=1.3e-07  Score=82.29  Aligned_cols=237  Identities=12%  Similarity=0.039  Sum_probs=113.2

Q ss_pred             ccccCCccceeeeeCCCCccccccCCCCCCCcceeEeccCCCCccEEEEcCCCCcc----------cchhhhcCCCccce
Q 039944           58 RRYTSSLLEHLEIISCPSLTCIFSKNELPATLESLEVGNLPLSLKSLFVYGCSKLG----------SIAERLDNNTSLET  127 (348)
Q Consensus        58 ~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~----------~~~~~~~~l~~L~~  127 (348)
                      +...  ++++|+++++ .+.+ -....+...+.     ..+. |+.+++.++..-.          .+...+...++|+.
T Consensus        28 ~~~~--~l~~L~Ls~n-~i~~-~~~~~l~~~l~-----~~~~-L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~   97 (344)
T d2ca6a1          28 LEDD--SVKEIVLSGN-TIGT-EAARWLSENIA-----SKKD-LEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHT   97 (344)
T ss_dssp             HHCS--CCCEEECTTS-EECH-HHHHHHHHTTT-----TCTT-CCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCE
T ss_pred             hhCC--CCCEEECcCC-cCCH-HHHHHHHHHHH-----hCCC-CCEEECCCCcccccccccchHHHHHHHHHhhCCCccc
Confidence            3444  7888888774 2322 11111111121     1244 7777777653211          12334556778888


Q ss_pred             ecccccccc----cccCCCCCCCCCccEEEEecCCCcCc-----ccc---------cccCCCCcceeEeccCCCCCc---
Q 039944          128 ISIDSCGNL----VSFPEGGLPCAKLTRLTILDCKRLEA-----LPK---------GMHNLTSLQYLRIGKGGALPS---  186 (348)
Q Consensus       128 L~l~~~~~l----~~~~~~~~~~~~L~~L~l~~~~~l~~-----~~~---------~l~~l~~L~~L~l~~~~~~~~---  186 (348)
                      |+++.|..-    ..+...+...++|++|++++|.. ..     +..         .....+.|+.+.++++ .+..   
T Consensus        98 L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l-~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n-~i~~~~~  175 (344)
T d2ca6a1          98 VRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGL-GPQAGAKIARALQELAVNKKAKNAPPLRSIICGRN-RLENGSM  175 (344)
T ss_dssp             EECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCC-HHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSS-CCTGGGH
T ss_pred             ccccccccccccccchhhhhcccccchheecccccc-cccccccccccccccccccccccCcccceeecccc-ccccccc
Confidence            888775321    11222223356788888877542 11     000         0123556777777664 2221   


Q ss_pred             --ccccCCCCCCcCeeeecCCccchhhh--hccccccCCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEe
Q 039944          187 --LEEEDGLPTNLQSLDIWGNMEIWKSM--IERGRGFHRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWI  262 (348)
Q Consensus       187 --~~~~~~~~~~L~~L~l~~~~~l~~~~--~~~~~~~~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l  262 (348)
                        +...+...++|+.|++.++. +....  ......+...++|+.|++++ + .+....  ...+..++...+.|++|++
T Consensus       176 ~~l~~~l~~~~~L~~L~L~~n~-i~~~g~~~~l~~~l~~~~~L~~L~Ls~-N-~i~~~g--~~~L~~~l~~~~~L~~L~L  250 (344)
T d2ca6a1         176 KEWAKTFQSHRLLHTVKMVQNG-IRPEGIEHLLLEGLAYCQELKVLDLQD-N-TFTHLG--SSALAIALKSWPNLRELGL  250 (344)
T ss_dssp             HHHHHHHHHCTTCCEEECCSSC-CCHHHHHHHHHTTGGGCTTCCEEECCS-S-CCHHHH--HHHHHHHGGGCTTCCEEEC
T ss_pred             ccccchhhhhhhhccccccccc-ccccccccchhhhhcchhhhccccccc-c-cccccc--cccccccccccccchhhhh
Confidence              11123345677777777753 22210  00002345667777777776 3 332110  0001111134566777777


Q ss_pred             ccCCCccc-----ccccccc--CCCcceEeccCCCCCCC-----CCCC--CCCCCCcEEEEcCCc
Q 039944          263 EAFPNLER-----LSSSIVD--LQNLTELYLFGCPKLKY-----FPEK--GLPSSLLELRISRCP  313 (348)
Q Consensus       263 ~~~~~l~~-----i~~~~~~--~~~L~~L~l~~c~~l~~-----l~~~--~~~~~L~~L~l~~c~  313 (348)
                      ++|. +..     +...+..  .+.|++|++++|. +..     +...  .-.++|++|+++++.
T Consensus       251 s~n~-i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~-i~~~~~~~l~~~l~~~~~~L~~L~l~~N~  313 (344)
T d2ca6a1         251 NDCL-LSARGAAAVVDAFSKLENIGLQTLRLQYNE-IELDAVRTLKTVIDEKMPDLLFLELNGNR  313 (344)
T ss_dssp             TTCC-CCHHHHHHHHHHHHTCSSCCCCEEECCSSC-CBHHHHHHHHHHHHHHCTTCCEEECTTSB
T ss_pred             hcCc-cCchhhHHHHHHhhhccCCCCCEEECCCCc-CChHHHHHHHHHHHccCCCCCEEECCCCc
Confidence            7753 432     2222322  3567777777753 432     1100  013567777777664

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.04  E-value=1.5e-07  Score=84.52  Aligned_cols=114  Identities=18%  Similarity=0.267  Sum_probs=69.5

Q ss_pred             CcccEEeecCcccccccCCC---CCCCCccEEEeccCccccccccccccccccccccccCCccceeeeeCCCCccccccC
Q 039944            6 SSLEILDIEKCHSLTYIAAV---QLPSSLKKLQICDCYNIRTLTVEEGIQCSSSSRRYTSSLLEHLEIISCPSLTCIFSK   82 (348)
Q Consensus         6 ~~L~~L~l~~~~~l~~l~~~---~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~   82 (348)
                      ++|+.|+++ |++++...-.   ..++++++|++++|. +++.....   -...++.++  +|++|+++++ .+++ ...
T Consensus         2 ~~l~~ld~~-~~~i~~~~~~~l~~~l~~l~~L~L~~~~-i~~~~~~~---l~~~L~~~~--~L~~LdLs~N-~i~~-~~~   72 (460)
T d1z7xw1           2 LDIQSLDIQ-CEELSDARWAELLPLLQQCQVVRLDDCG-LTEARCKD---ISSALRVNP--ALAELNLRSN-ELGD-VGV   72 (460)
T ss_dssp             EEEEEEEEE-SCCCCHHHHHHHHHHHTTCSEEEEESSC-CCHHHHHH---HHHHHHTCT--TCCEEECTTC-CCHH-HHH
T ss_pred             CCCCEEEee-CCcCChHHHHHHHHhCCCCCEEEeCCCC-CCHHHHHH---HHHHHhcCC--CCCEEECcCC-cCCh-HHH
Confidence            478999998 4677543211   227899999999996 65422110   000245556  9999999885 3432 111


Q ss_pred             CCCCCCcceeEeccCCCCccEEEEcCCCCccc-----chhhhcCCCccceecccccc
Q 039944           83 NELPATLESLEVGNLPLSLKSLFVYGCSKLGS-----IAERLDNNTSLETISIDSCG  134 (348)
Q Consensus        83 ~~~~~~L~~L~i~~l~~~L~~L~l~~~~~~~~-----~~~~~~~l~~L~~L~l~~~~  134 (348)
                      ..+...++.     -..+|++|++++|. ++.     ++..+..+++|++|++++|.
T Consensus        73 ~~l~~~l~~-----~~~~L~~L~L~~n~-it~~~~~~l~~~l~~~~~L~~L~L~~N~  123 (460)
T d1z7xw1          73 HCVLQGLQT-----PSCKIQKLSLQNCC-LTGAGCGVLSSTLRTLPTLQELHLSDNL  123 (460)
T ss_dssp             HHHHHTTCS-----TTCCCCEEECTTSC-CBGGGHHHHHHHTTSCTTCCEEECCSSB
T ss_pred             HHHHHHHhc-----CCCCCCEEECCCCC-ccccccccccchhhcccccccccccccc
Confidence            111111111     01249999999987 433     34567789999999998753

>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=96.37  E-value=0.00022  Score=54.11  Aligned_cols=64  Identities=17%  Similarity=0.204  Sum_probs=32.3

Q ss_pred             CCCCCccEEEecccCCcccccccchhccCCCCCCCCCccEEEeccCCCcccccc-ccccCCCcceEeccCCC
Q 039944          220 HRFSSLRRLTISRCDEDMVSFPLEDKRLGTALPLPASLTSLWIEAFPNLERLSS-SIVDLQNLTELYLFGCP  290 (348)
Q Consensus       220 ~~l~~L~~L~l~~~c~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~-~~~~~~~L~~L~l~~c~  290 (348)
                      ..+++|++|++++  +.++.++...    ..+..+++|+.|++++ +.+++++. ......+|+.|++.++|
T Consensus        62 ~~~~~L~~L~Ls~--N~i~~l~~~~----~~~~~l~~L~~L~Ls~-N~i~~l~~l~~l~~~~L~~L~L~~Np  126 (162)
T d1koha1          62 ENIPELLSLNLSN--NRLYRLDDMS----SIVQKAPNLKILNLSG-NELKSERELDKIKGLKLEELWLDGNS  126 (162)
T ss_dssp             HHCTTCCCCCCCS--SCCCCCSGGG----THHHHSTTCCCCCCTT-SCCCCGGGHHHHTTCCCSSCCCTTST
T ss_pred             HhCCCCCEeeCCC--ccccCCchhH----HHHhhCCccccccccc-CccccchhhhhhhccccceeecCCCC
Confidence            3456666666666  4454433211    0002345666666666 45555554 22233456666666654

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=95.35  E-value=0.0068  Score=45.68  Aligned_cols=10  Identities=40%  Similarity=0.564  Sum_probs=4.8

Q ss_pred             CCccEEEecc
Q 039944          223 SSLRRLTISR  232 (348)
Q Consensus       223 ~~L~~L~l~~  232 (348)
                      +.|++|++++
T Consensus        72 ~~L~~L~L~~   81 (167)
T d1pgva_          72 PSLRVLNVES   81 (167)
T ss_dssp             SSCCEEECCS
T ss_pred             ccccceeeeh
Confidence            4444444444

>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=95.29  E-value=0.0014  Score=49.48  Aligned_cols=12  Identities=17%  Similarity=0.332  Sum_probs=6.6

Q ss_pred             CCCccceecccc
Q 039944          121 NNTSLETISIDS  132 (348)
Q Consensus       121 ~l~~L~~L~l~~  132 (348)
                      .+++|++|++++
T Consensus        63 ~~~~L~~L~Ls~   74 (162)
T d1koha1          63 NIPELLSLNLSN   74 (162)
T ss_dssp             HCTTCCCCCCCS
T ss_pred             hCCCCCEeeCCC
Confidence            355555555555

>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=94.87  E-value=0.0018  Score=49.08  Aligned_cols=9  Identities=22%  Similarity=0.209  Sum_probs=4.0

Q ss_pred             CCcCeeeec
Q 039944          195 TNLQSLDIW  203 (348)
Q Consensus       195 ~~L~~L~l~  203 (348)
                      ++|+.|++.
T Consensus       131 ~sL~~l~l~  139 (167)
T d1pgva_         131 ESLLRVGIS  139 (167)
T ss_dssp             SSCCEEECC
T ss_pred             CCccEeeCc
Confidence            344444443

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=93.61  E-value=0.0021  Score=48.57  Aligned_cols=11  Identities=18%  Similarity=0.003  Sum_probs=5.2

Q ss_pred             CCCcCeeeecC
Q 039944          194 PTNLQSLDIWG  204 (348)
Q Consensus       194 ~~~L~~L~l~~  204 (348)
                      .++|+.|++..
T Consensus       131 n~~L~~L~l~~  141 (166)
T d1io0a_         131 NTTLLKFGYHF  141 (166)
T ss_dssp             CSSCCEEECCC
T ss_pred             CCCcCEEeCcC
Confidence            44455555443

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=93.03  E-value=0.027  Score=42.08  Aligned_cols=13  Identities=23%  Similarity=0.342  Sum_probs=6.4

Q ss_pred             CCCCcCeeeecCC
Q 039944          193 LPTNLQSLDIWGN  205 (348)
Q Consensus       193 ~~~~L~~L~l~~~  205 (348)
                      ..++|++|+++++
T Consensus        44 ~n~~L~~L~Ls~n   56 (166)
T d1io0a_          44 TNTYVKKFSIVGT   56 (166)
T ss_dssp             TCCSCCEEECTTS
T ss_pred             cCCccCeeeccCC
Confidence            3445555555553