Citrus Sinensis ID: 044539

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------
Protein Sequence
ISLKENIKEVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEAIAERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVKLRENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSLL
Secondary Structure (PSIPRED)
ccccccccccHHHHHHHHHcccccccccHHHHHHHcccccccccccHHHHHHHHHHHcccccccHHHHHHHHHHHHcccccccEEcccccEEcEEEccHHHHHHHHHHHcccccEEEEcccccccccccEEEEEEEccccccccccccccccEEEEEEccccccccHHHHHHHHccccEEEEEEEcccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccHHHHHHHHHccHHcccccccHHEEEEEcccccccEcHHHHHHHHHHHccccccHHHHHHHHHHHHHHHccEEEEEccccccEEEEEHHHHHHHHHHHHHHHHcEEEEEcccccccccccEEEEEEEcccccccccccccccEEEEEEEccccccccHHHcHHHHHcccEEEEEEcccccccccHHHHHHHHHHHHHccccccHHHcc
Coil and Loop (DISEMBL)
ISLKENIKEVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIaegfipdnnEAIAERYLEQLInggfvdvgkksdrgrintcsipgrcSLALLtgafegefvispimdqEVKLRENVKRftahgnlndfeflDHFDSFLHSLLHLTlgshyldpnycEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNipslksll
Flexible Loop (DISEMBL)
ISLKENIKEVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEAIAERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVKLRENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLlrylnlnipslksll
Low Complexity Region (SEG)
ISLKENIKEVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEAIAERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVKLRENVKRFTAHGNLNDFEfldhfdsflhsllhltlgshyldPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSLL
Disordered region (IsUnstruct)
********EVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEAIAERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVKLRENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIP******
Disordered Region (DISOPRED)
IS**********ELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEAIAERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEFVISPIMDQ****RENVKRFTAHGNL**********SFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSLL
Disordered Region (DISEMBL)
ISLKENIKEVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEAIAERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVKLRENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSLL
Disordered Region (DISPRO)
*****NIKEVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEAIAERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVKLRENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSL**LL
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
ISLKENIKEVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEAIAERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVKLRENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSLL
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	217	2.2.26 [Sep-21-2011]
Q6L3Z4	1348	Putative late blight resi	N/A	no	0.894	0.143	0.311	9e-10
Q6L3Z7	1317	Putative late blight resi	N/A	no	0.903	0.148	0.301	5e-09
Q6L403	1312	Putative late blight resi	N/A	no	0.903	0.149	0.301	1e-08
Q6L400	1284	Putative late blight resi	N/A	no	0.870	0.147	0.310	3e-08
Q9STE5	847	Putative disease resistan	yes	no	0.788	0.201	0.307	4e-08
Q6L439	1244	Putative late blight resi	N/A	no	0.898	0.156	0.298	1e-07
Q6L3L0	1262	Putative late blight resi	N/A	no	0.894	0.153	0.302	3e-07
Q9M667	835	Disease resistance protei	no	no	0.797	0.207	0.272	3e-07
Q6L3N7	1292	Putative late blight resi	N/A	no	0.894	0.150	0.298	5e-07
Q6L3X3	1202	Putative late blight resi	N/A	no	0.866	0.156	0.296	6e-07

>sp|Q6L3Z4|R1B12_SOLDE Putative late blight resistance protein homolog R1B-12 OS=Solanum demissum GN=R1B-12 PE=3 SV=2

 Score = 63.9 bits (154), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 68/218 (31%), Positives = 97/218 (44%), Gaps = 24/218 (11%)

Query: 12   DELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNN----EAI 67
            ++ R +   +Y +L F+LK C LY   FL    I+  +L +LWI+E FI        E I
Sbjct: 796  NDSRAIVDQSYHVLPFHLKSCFLYFGAFLEDRVINVSRLIRLWISESFIKSCEGRRLEDI 855

Query: 68   AERYLEQLINGGFVDVGKKSDR-GRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVKL 126
            AE YLE LI    V V ++++  G++  C +           A E  F++    DQ  K 
Sbjct: 856  AEGYLENLIGRNLVMVTQRANSDGKVKACRLHDVLLDFCKERAAEENFLLRIKWDQSTKP 915

Query: 127  RENVKRFTAHGNLNDFEFLDHF--DSFLHSLLHLTLGSHYLDPNYCEKICKM-------- 176
               V     H +L  F  +D+    S   SL+   L  +Y DPN+    C          
Sbjct: 916  SSCVYSHKQHAHLA-FTGMDNLLEWSTSGSLVGSVLFKNY-DPNFAYNSCSSHAFAISRI 973

Query: 177  ---FNFLRVLDLGSLVLIRY-PSEVENLFLLRYLNLNI 210
               F FL+VLDL     I + P+E   L  LRYL+  I
Sbjct: 974  LPNFKFLKVLDLEHQFFIDFIPTE---LLYLRYLSARI 1008

Confers resistance to late blight (Phytophthora infestans) races carrying the avirulence gene Avr1. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.
Solanum demissum (taxid: 50514)

>sp|Q6L3Z7|R1B14_SOLDE Putative late blight resistance protein homolog R1B-14 OS=Solanum demissum GN=R1B-14 PE=3 SV=1

 Score = 61.2 bits (147), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 63/209 (30%), Positives = 97/209 (46%), Gaps = 13/209 (6%)

Query: 12  DELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNN----EAI 67
           ++ R +   +Y +L  +LK C LY   FL    I   +L +LWI+E FI  +     E I
Sbjct: 770 NDSRAIVNQSYHVLPCHLKSCFLYFGAFLEDEVIDISRLIRLWISESFIKSSEGRRLEDI 829

Query: 68  AERYLEQLINGGFVDVGKKSDR-GRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVKL 126
           AE YLE LI    V V +++D  G++  C +           A E  F++    DQ    
Sbjct: 830 AEGYLENLIGRNLVMVTQRADSDGKVKACRLHDVLLDFCKERAAEENFLLWINRDQISTK 889

Query: 127 RENVKRFTAHGNLNDFEFLDHFD---SFLHSLLHLTLGSHYLDPNYCEKICKM-FNFLRV 182
                +  AH    + + L  +    S + S+L     S+   P +   +  + F FL+V
Sbjct: 890 AVYSHKQHAHLAFTEMDNLVEWSASCSLVGSVLFKNPDSYLYSPAFSTSLILLNFKFLKV 949

Query: 183 LDLGSLVLIRY-PSEVENLFLLRYLNLNI 210
           LDL   V+I + P+E   LF LRYL+ +I
Sbjct: 950 LDLEHQVVIDFIPTE---LFYLRYLSASI 975

Confers resistance to late blight (Phytophthora infestans) races carrying the avirulence gene Avr1. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.

Solanum demissum (taxid: 50514)

>sp|Q6L403|R1B17_SOLDE Putative late blight resistance protein homolog R1B-17 OS=Solanum demissum GN=R1B-17 PE=3 SV=1

 Score = 60.1 bits (144), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 63/209 (30%), Positives = 97/209 (46%), Gaps = 13/209 (6%)

Query: 12  DELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNN----EAI 67
           ++ R +   +Y +L  +LK C LY   FL    I   +L +LWI+E FI  +     E I
Sbjct: 770 NDSRAIVNQSYHVLPCHLKSCFLYFGAFLEDEVIDISRLIRLWISESFIKSSEGRRLEDI 829

Query: 68  AERYLEQLINGGFVDVGKKSDR-GRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVKL 126
           AE YLE LI    V V +++D  G++  C +           A E  F++    DQ    
Sbjct: 830 AEGYLENLIGRNLVMVTQRADSDGKVKACRLHDVLLDFCKERAAEENFLLWINRDQISTK 889

Query: 127 RENVKRFTAHGNLNDFEFLDHFD---SFLHSLLHLTLGSHYLDPNYCEKICKM-FNFLRV 182
                +  AH    + + L  +    S + S+L     S+   P +   +  + F FL+V
Sbjct: 890 AVYSHKQHAHLAFTEMDNLVEWSASCSLVGSVLFKNPDSYLYSPAFSISLILLNFKFLKV 949

Query: 183 LDLGSLVLIRY-PSEVENLFLLRYLNLNI 210
           LDL   V+I + P+E   LF LRYL+ +I
Sbjct: 950 LDLERQVVIDFIPTE---LFYLRYLSASI 975

Confers resistance to late blight (Phytophthora infestans) races carrying the avirulence gene Avr1. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.

Solanum demissum (taxid: 50514)

>sp|Q6L400|R1B16_SOLDE Putative late blight resistance protein homolog R1B-16 OS=Solanum demissum GN=R1B-16 PE=3 SV=1

 Score = 58.5 bits (140), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 67/216 (31%), Positives = 94/216 (43%), Gaps = 27/216 (12%)

Query: 12  DELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNN----EAI 67
           ++ R +   +Y +L  +LK C LY   FL    I   +L +LWI+E FI  +     E I
Sbjct: 768 NDSRAIVNQSYHVLPCHLKSCFLYFGAFLEDEVIDISRLIRLWISESFIKSSEGRRLEDI 827

Query: 68  AERYLEQLINGGFVDVGKKSDR-GRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVKL 126
           AE YLE LI    V V +++D  G++  C +           A E  F++    DQ    
Sbjct: 828 AEGYLENLIGRNLVMVTQRADSDGKVKACRLHDVLLDFCKERAAEENFLLWINRDQSTNA 887

Query: 127 RENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEK-----------ICK 175
             + KR   H +L   E     DS +      +L    L  NY  +           I  
Sbjct: 888 VYSHKR---HAHLAFTE----MDSLVEWSASCSLVGSVLLKNYARRPLSSPAFSISHILL 940

Query: 176 MFNFLRVLDLGSLVLI-RYPSEVENLFLLRYLNLNI 210
            F FL+VLDL   V+I   P+E   LF LRYL+  I
Sbjct: 941 NFKFLKVLDLEHQVVIDSIPTE---LFYLRYLSARI 973

Confers resistance to late blight (Phytophthora infestans) races carrying the avirulence gene Avr1. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.

Solanum demissum (taxid: 50514)

>sp|Q9STE5|R13L2_ARATH Putative disease resistance RPP13-like protein 2 OS=Arabidopsis thaliana GN=RPP13L2 PE=3 SV=1

 Score = 58.5 bits (140), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 60/195 (30%), Positives = 84/195 (43%), Gaps = 24/195 (12%)

Query: 29  LKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEA----IAERYLEQLINGGFVDVG 84
           LKLC LYLSVF   +E+  ++L QL +AEGFI ++ E     +A  Y+E L+    V+V 
Sbjct: 410 LKLCFLYLSVFPEDYEVDVEKLIQLLVAEGFIQEDEEMTMEDVARYYIEDLVYISLVEVV 469

Query: 85  KKSDRGRINTCSIPGRCSLALLTGAFEGEFVISPIMDQE----VKLRENVKRFTAHGNLN 140
           K+  +G++ +  I        +  + E  FV   + D++       RE V        L 
Sbjct: 470 KRK-KGKLMSFRIHDLVREFTIKKSKELNFV--NVYDEQHSSTTSRREVVHHLMDDNYLC 526

Query: 141 DFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLI-------RY 193
           D        SFL        G    D  Y E I      LRVL+LG L  I         
Sbjct: 527 DRRVNTQMRSFLF------FGKRRNDITYVETITLKLKLLRVLNLGGLHFICQGYSPWSL 580

Query: 194 PSEVENLFLLRYLNL 208
           P  +  L  LRYL +
Sbjct: 581 PDVIGGLVHLRYLGI 595

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q6L439|R1A4_SOLDE Putative late blight resistance protein homolog R1A-4 OS=Solanum demissum GN=R1A-4 PE=5 SV=2

 Score = 56.6 bits (135), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 66/221 (29%), Positives = 101/221 (45%), Gaps = 26/221 (11%)

Query: 3   LKENIKEVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPD 62
           ++ N + ++D+       +Y +L  +LK C LY   FL   EI   +L +LWI+E FI  
Sbjct: 759 IRSNSRAIVDQ-------SYHVLPCHLKSCFLYFGAFLGVREIRISRLIRLWISESFIKS 811

Query: 63  NN----EAIAERYLEQLINGGFVDVGKKSD-RGRINTCSIPGRCSLALLTGAFEGEFVIS 117
                 E IAE YLE LI    V V ++++  G++  C +           A E   ++ 
Sbjct: 812 CEGRRLEDIAEGYLENLIGRNLVMVTQRANSNGKVKACRLHDVLLNFCKERAAEENLLLW 871

Query: 118 PIMDQEVKLRENVKR-----FTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLD-PNYC- 170
              DQ  K   + K+     FT   NL ++       S + S+L +    ++   P Y  
Sbjct: 872 INRDQSTKAVYSHKQHAHLAFTKMDNLVEWS---ASSSLVGSVLIMRYNPYFARCPLYAV 928

Query: 171 EKICKMFNFLRVLDLGSLVLIRY-PSEVENLFLLRYLNLNI 210
             I   F FL+VLDL   V+I + P+E   L  LRYL  +I
Sbjct: 929 SHILLNFKFLKVLDLKHQVVIDFIPTE---LPYLRYLTADI 966

Confers resistance to late blight (Phytophthora infestans) races carrying the avirulence gene Avr1. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.

Solanum demissum (taxid: 50514)

>sp|Q6L3L0|R1B23_SOLDE Putative late blight resistance protein homolog R1B-23 OS=Solanum demissum GN=R1B-23 PE=3 SV=1

 Score = 55.1 bits (131), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 66/218 (30%), Positives = 97/218 (44%), Gaps = 24/218 (11%)

Query: 12  DELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPD----NNEAI 67
           ++ R +   +Y +L  +LK C LY   FL    I   +L +LWI+E FI      + E I
Sbjct: 709 NDSRAVVDQSYHVLPCHLKSCFLYFGAFLEDRVIDIPRLIRLWISESFIKSCEGRSLEDI 768

Query: 68  AERYLEQLINGGFVDVGKKSDR-GRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVKL 126
           AE YLE LI    V V ++ D  G++  C +           A E  F++    DQ  K 
Sbjct: 769 AEGYLENLIGRNLVMVTQRDDSDGKVKACRLHDVLLDFCKERAAEENFLLWINRDQITKP 828

Query: 127 RENVKRFTAHGNL--NDFEFLDHFDSFLHSLLHLTLGSHYLDPNYC-----------EKI 173
              V     H +L   D + L  + +   S +   L  +Y DP +             +I
Sbjct: 829 SSCVYSHNQHAHLAFTDMKNLVEWSASC-SCVGSVLFKNY-DPYFAGRPLSSHAFSISRI 886

Query: 174 CKMFNFLRVLDLGSLVLI-RYPSEVENLFLLRYLNLNI 210
              F FL+VLDL   V+I   P+E   LF LRY++ +I
Sbjct: 887 LLNFKFLKVLDLEHQVVIDSIPTE---LFYLRYISAHI 921

Confers resistance to late blight (Phytophthora infestans) races carrying the avirulence gene Avr1. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.

Solanum demissum (taxid: 50514)

>sp|Q9M667|RPP13_ARATH Disease resistance protein RPP13 OS=Arabidopsis thaliana GN=RPP13 PE=2 SV=2

 Score = 55.1 bits (131), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 52/191 (27%), Positives = 90/191 (47%), Gaps = 18/191 (9%)

Query: 30  KLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEA----IAERYLEQLINGGFVDVGK 85
           KLC LYLS+F   +EI  ++L  L +AEGFI  + E     +A  Y+E+LI+   ++  +
Sbjct: 418 KLCFLYLSIFPEDYEIDLEKLIHLLVAEGFIQGDEEMMMEDVARYYIEELIDRSLLEAVR 477

Query: 86  KSDRGRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVKLRENV--KRFTAHGNLNDFE 143
           + +RG++ +C I        +  + E  FV   + +  V    +   +R   H     + 
Sbjct: 478 R-ERGKVMSCRIHDLLRDVAIKKSKELNFV--NVYNDHVAQHSSTTCRREVVHHQFKRYS 534

Query: 144 FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVE-NLFL 202
                +  + S L+     H +  ++     +    LRVLD GSL L   P ++  +L  
Sbjct: 535 SEKRKNKRMRSFLYFGEFDHLVGLDF-----ETLKLLRVLDFGSLWL---PFKINGDLIH 586

Query: 203 LRYLNLNIPSL 213
           LRYL ++  S+
Sbjct: 587 LRYLGIDGNSI 597

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. In contrast to other resistance proteins, it works independently of ESD1 and NSD1 proteins and does not require the accumulation of salicylic acid, suggesting the existence of an independent signaling pathway. The specificity to avirulence proteins differs in the different cultivars.

Arabidopsis thaliana (taxid: 3702)

>sp|Q6L3N7|R1C3_SOLDE Putative late blight resistance protein homolog R1C-3 OS=Solanum demissum GN=R1C-3 PE=3 SV=1

 Score = 54.3 bits (129), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 65/218 (29%), Positives = 97/218 (44%), Gaps = 24/218 (11%)

Query: 12  DELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPD----NNEAI 67
           ++ R +   +Y +L  +LK C LY   FL    I   +L +LWI+E F+      + E I
Sbjct: 739 NDSRAVVDQSYHVLPCHLKSCFLYFGAFLEDRVIDISRLIRLWISESFVKSCEGRSLEDI 798

Query: 68  AERYLEQLINGGFVDVGKKSDR-GRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVKL 126
           AE YLE LI    V V ++ D  G++  C +           A E  F++    DQ  K 
Sbjct: 799 AEGYLENLIGRNLVMVTQRDDSDGKVKACRLHDVLLDFCKERAAEENFLLWINRDQITKP 858

Query: 127 RENVKRFTAHGNL--NDFEFLDHFDSFLHSLLHLTLGSHYLDPNYC-----------EKI 173
              V     H +L   D + L  + +   S +   L  +Y DP +             +I
Sbjct: 859 SSCVYSHNQHAHLAFTDMKNLVEWSASC-SRVGSVLFKNY-DPYFAGRPLSSHAFSISRI 916

Query: 174 CKMFNFLRVLDLGSLVLI-RYPSEVENLFLLRYLNLNI 210
              F FL+VLDL   V+I   P+E   LF LRY++ +I
Sbjct: 917 LLNFKFLKVLDLEHQVVIDSIPTE---LFYLRYISAHI 951

Confers resistance to late blight (Phytophthora infestans) races carrying the avirulence gene Avr1. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.

Solanum demissum (taxid: 50514)

>sp|Q6L3X3|R1B8_SOLDE Putative late blight resistance protein homolog R1B-8 OS=Solanum demissum GN=R1B-8 PE=5 SV=1

 Score = 54.3 bits (129), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 65/219 (29%), Positives = 95/219 (43%), Gaps = 31/219 (14%)

Query: 12  DELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNN----EAI 67
           ++ R +   +Y +L  +LK C LY   FL    I   +L  LWI+E FI        E I
Sbjct: 689 NDSRAIVDQSYHVLPCHLKSCFLYFGAFLEDRVIDISRLIGLWISESFIKSCEGRRLEYI 748

Query: 68  AERYLEQLINGGFVDVGKKS-DRGRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVKL 126
           AE YLE LI    V V +++   G++  C +           A E  F++    DQ  K 
Sbjct: 749 AEGYLENLIGRNLVMVTQRAISDGKVKACRLHDVLLDFCKKRAAEENFLLWINRDQSTKA 808

Query: 127 RENVKR-----FTAHGNLNDFE---------FLDHFDSFLHSLLHLTLGSHYLDPNYCEK 172
             + K+     FT   NL ++              +D +        L SH    ++   
Sbjct: 809 VYSHKQHAHLAFTEMDNLVEWSASCSLVGSVLFKSYDPYFR-----PLSSHAFAISH--- 860

Query: 173 ICKMFNFLRVLDLGSLVLIRY-PSEVENLFLLRYLNLNI 210
           I   F FL+VLDL   V+I + P+E   LF LRYL+ +I
Sbjct: 861 ILLNFKFLKVLDLEHQVIIDFIPTE---LFYLRYLSAHI 896

Confers resistance to late blight (Phytophthora infestans) races carrying the avirulence gene Avr1. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.

Solanum demissum (taxid: 50514)

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	217
359474448	931	PREDICTED: disease resistance protein RP	0.917	0.213	0.309	6e-17
147766268	931	hypothetical protein VITISV_032893 [Viti	0.917	0.213	0.309	7e-17
105922977	676	NBS-LRR type disease resistance protein	0.953	0.306	0.327	4e-16
224071423	1006	nbs-lrr resistance protein [Populus tric	0.953	0.205	0.327	4e-16
359496848	856	PREDICTED: disease resistance RPP8-like	0.903	0.228	0.307	5e-16
147774669	816	hypothetical protein VITISV_022431 [Viti	0.940	0.25	0.289	9e-16
359485772	914	PREDICTED: disease resistance protein RP	0.940	0.223	0.289	1e-15
147766035	902	hypothetical protein VITISV_038742 [Viti	0.903	0.217	0.307	1e-15
224138304	948	nbs-lrr resistance protein [Populus tric	0.912	0.208	0.328	1e-15
105922948	1997	NBS-NBS-LRR type disease resistance prot	0.912	0.099	0.328	1e-15

>gi|359474448|ref|XP_003631469.1| PREDICTED: disease resistance protein RPM1-like [Vitis vinifera]

 Score = 93.2 bits (230), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 64/207 (30%), Positives = 107/207 (51%), Gaps = 8/207 (3%)

Query: 12  DELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIP----DNNEAI 67
           D L+ + +++Y  L +YLK C LY+S+F   + I   +L +LW+AEGF+        E +
Sbjct: 418 DSLKEILLLSYNDLPYYLKSCFLYMSIFPEDYLIRRMRLIRLWMAEGFVEAKGRKTQEEV 477

Query: 68  AERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVKLR 127
            E YL +L+N   V V  ++  GR++TC +       +++ +  G+ +++   ++ V+  
Sbjct: 478 GEGYLNELVNRSLVQVATRTRNGRVSTCRVHDLLREIIVSKSRGGQNLVAIANEENVRWP 537

Query: 128 ENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGS 187
           E ++R   H  L +    D     L SLL  +L S    P       ++   L+VLDL  
Sbjct: 538 EKIRRLAVHKTLENVP-QDMELGQLRSLLMFSLPSGDCIPTLSSGGLRL---LKVLDLQG 593

Query: 188 LVLIRYPSEVENLFLLRYLNLNIPSLK 214
             L   P+EV NLF LRYL+L+   +K
Sbjct: 594 APLEIIPNEVWNLFNLRYLSLSRTKVK 620

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147766268|emb|CAN74463.1| hypothetical protein VITISV_032893 [Vitis vinifera]

 Score = 93.2 bits (230), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 64/207 (30%), Positives = 106/207 (51%), Gaps = 8/207 (3%)

Query: 12  DELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIP----DNNEAI 67
           D L+ + +++Y  L +YLK C LY+S+F   + I   +L +LW+AEGF+        E +
Sbjct: 418 DSLKEILLLSYNDLPYYLKSCFLYMSIFPEDYLIRRMRLIRLWMAEGFVEAKGRKTQEEV 477

Query: 68  AERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVKLR 127
            E YL +L+N   V V  ++  GR++TC +        ++ +  G+ +++   ++ V+  
Sbjct: 478 GEGYLNELVNRSLVQVATRTRNGRVSTCRVHDLLREIXVSXSRGGQNLVAIANEENVRWP 537

Query: 128 ENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGS 187
           E ++R   H  L +    D     L SLL  +L S    P       ++   L+VLDL  
Sbjct: 538 EKIRRLAVHKTLENVP-QDMVLGQLRSLLMFSLPSGDCIPTLSSGGLRL---LKVLDLQG 593

Query: 188 LVLIRYPSEVENLFLLRYLNLNIPSLK 214
             L   P+EV NLF LRYL+L+   +K
Sbjct: 594 APLEIIPNEVWNLFNLRYLSLSRTKVK 620

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|105922977|gb|ABF81448.1| NBS-LRR type disease resistance protein [Populus trichocarpa]

 Score = 90.5 bits (223), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 75/229 (32%), Positives = 113/229 (49%), Gaps = 22/229 (9%)

Query: 3   LKENIKEVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPD 62
           L+EN  ++L   R +  ++Y  L +YLK C LY S+F V   I    L +LWIAEGF+  
Sbjct: 400 LEEN--DMLMSARKILSLSYNDLPYYLKSCLLYFSIFPVGNRIKRMTLIRLWIAEGFVKG 457

Query: 63  NN----EAIAERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEFVISP 118
                 E +A+ YL +L+    V V K +  GR+ TC I       ++  A + +FV + 
Sbjct: 458 KEGMTVEEVAQDYLNELMKRSLVQVVKTTTDGRVKTCRIHDLLREIMIAMAKDQDFV-AI 516

Query: 119 IMDQEVKLRENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFN 178
             ++ +   E V+R + H  + + +      S L SLL   +     D NY   + K+F+
Sbjct: 517 AREEGITWPEKVRRVSIHNAMPNKQ-RRQVASRLRSLLTFWVA----DCNYESPVRKLFS 571

Query: 179 ----FLRVLDLGSLVLIRYPSEVENLFLLRYLNLN------IPSLKSLL 217
                L VLDL    L  +P E+ +LFLL+YL+L       IPS  S L
Sbjct: 572 GRLRLLHVLDLEGAPLKEFPKEIVSLFLLKYLSLRNTKVNFIPSTISQL 620

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224071423|ref|XP_002303452.1| nbs-lrr resistance protein [Populus trichocarpa] gi|222840884|gb|EEE78431.1| nbs-lrr resistance protein [Populus trichocarpa]

 Score = 90.5 bits (223), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 75/229 (32%), Positives = 113/229 (49%), Gaps = 22/229 (9%)

Query: 3   LKENIKEVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPD 62
           L+EN  ++L   R +  ++Y  L +YLK C LY S+F V   I    L +LWIAEGF+  
Sbjct: 400 LEEN--DMLMSARKILSLSYNDLPYYLKSCLLYFSIFPVGNRIKRMTLIRLWIAEGFVKG 457

Query: 63  NN----EAIAERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEFVISP 118
                 E +A+ YL +L+    V V K +  GR+ TC I       ++  A + +FV + 
Sbjct: 458 KEGMTVEEVAQDYLNELMKRSLVQVVKTTTDGRVKTCRIHDLLREIMIAMAKDQDFV-AI 516

Query: 119 IMDQEVKLRENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFN 178
             ++ +   E V+R + H  + + +      S L SLL   +     D NY   + K+F+
Sbjct: 517 AREEGITWPEKVRRVSIHNAMPNKQ-RRQVASRLRSLLTFWVA----DCNYESPVRKLFS 571

Query: 179 ----FLRVLDLGSLVLIRYPSEVENLFLLRYLNLN------IPSLKSLL 217
                L VLDL    L  +P E+ +LFLL+YL+L       IPS  S L
Sbjct: 572 GRLRLLHVLDLEGAPLKEFPKEIVSLFLLKYLSLRNTKVNFIPSTISQL 620

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359496848|ref|XP_002269653.2| PREDICTED: disease resistance RPP8-like protein 3-like [Vitis vinifera]

 Score = 90.1 bits (222), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 63/205 (30%), Positives = 97/205 (47%), Gaps = 9/205 (4%)

Query: 19  VVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEA----IAERYLEQ 74
            ++Y  L +YLK C LY  +F    EI   +L  LWIAEGF+    E     +AE +LE+
Sbjct: 371 ALSYNDLPYYLKPCFLYFGLFPEDLEIPVGKLVLLWIAEGFVQQRGEESMEDVAEDFLEE 430

Query: 75  LINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEF---VISPIMDQEVKLRENVK 131
           L++   + V +K   G+I  C I        ++ A E +F   + S  +D  V  R   +
Sbjct: 431 LVDRSMIQVAEKRYNGKIKACRIHDLLRDLAMSEAKECKFLEILDSTNIDTSVTTR--AR 488

Query: 132 RFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLI 191
           R + H +L ++  L H +    S+LH +     L  +  + + +    LRVLDL  +   
Sbjct: 489 RISVHSSLEEYMKLRHPNPHFRSMLHFSRCEESLRRDQWKSLFESLKLLRVLDLERVQTH 548

Query: 192 RYPSEVENLFLLRYLNLNIPSLKSL 216
             P E+  L  LRYL L    L+ L
Sbjct: 549 ALPKEIRELVHLRYLGLRRTGLQRL 573

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147774669|emb|CAN67705.1| hypothetical protein VITISV_022431 [Vitis vinifera]

 Score = 89.4 bits (220), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 61/211 (28%), Positives = 101/211 (47%), Gaps = 7/211 (3%)

Query: 10  VLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNN----E 65
           +L++++ + ++++  L FYLK C LY  +F   + I  K+L +LW+AEGFI +      E
Sbjct: 348 MLEQVKSILLLSFNDLPFYLKHCFLYCCIFPDGYPIKRKKLIRLWVAEGFITERKGMTME 407

Query: 66  AIAERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVK 125
            IAE YL +LI    V V + +D GR+ TC +        +T + + +F  +    +E +
Sbjct: 408 EIAEEYLTELIFRSMVQVTETNDEGRVKTCRVHDLMRELAMTTSEKEDFCTASD-GRETR 466

Query: 126 LRENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDL 185
           L   + R + +    +          L S       +    P    ++   F  LRVLDL
Sbjct: 467 LERKIHRLSVYNRGENIRLSGRMSRGLRSF--FVFETDVSSPFSLNEVLAKFKLLRVLDL 524

Query: 186 GSLVLIRYPSEVENLFLLRYLNLNIPSLKSL 216
             + +   PS +  LF LRYLNL    ++ L
Sbjct: 525 QGVSIETVPSSLLGLFNLRYLNLRETKVREL 555

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359485772|ref|XP_003633333.1| PREDICTED: disease resistance protein RPM1-like [Vitis vinifera]

 Score = 89.4 bits (220), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 61/211 (28%), Positives = 101/211 (47%), Gaps = 7/211 (3%)

Query: 10  VLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNN----E 65
           +L++++ + ++++  L FYLK C LY  +F   + I  K+L +LW+AEGFI +      E
Sbjct: 401 MLEQVKSILLLSFNDLPFYLKHCFLYCCIFPDGYPIKRKKLIRLWVAEGFITERKGMTME 460

Query: 66  AIAERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVK 125
            IAE YL +LI    V V + +D GR+ TC +        +T + + +F  +    +E +
Sbjct: 461 EIAEEYLTELIFRSMVQVTETNDEGRVKTCRVHDLMRELAMTTSEKEDFCTASD-GRETR 519

Query: 126 LRENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDL 185
           L   + R + +    +          L S       +    P    ++   F  LRVLDL
Sbjct: 520 LERKIHRLSVYNRGENIRLSGRMSRGLRSF--FVFETDVSSPFSLNEVLAKFKLLRVLDL 577

Query: 186 GSLVLIRYPSEVENLFLLRYLNLNIPSLKSL 216
             + +   PS +  LF LRYLNL    ++ L
Sbjct: 578 QGVSIETVPSSLLGLFNLRYLNLRETKVREL 608

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147766035|emb|CAN70214.1| hypothetical protein VITISV_038742 [Vitis vinifera]

 Score = 89.0 bits (219), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 63/205 (30%), Positives = 96/205 (46%), Gaps = 9/205 (4%)

Query: 19  VVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEA----IAERYLEQ 74
            ++Y  L +YLK C LY  +F    EI   +L  LWIAEGF+    E     +AE +LE+
Sbjct: 417 ALSYNDLPYYLKPCFLYFGLFPEDLEIPVGKLVLLWIAEGFVQQRGEESMEDVAEDFLEE 476

Query: 75  LINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEF---VISPIMDQEVKLRENVK 131
           L++   + V +K   G+I  C I        ++ A E +F   + S  +D  V  R   +
Sbjct: 477 LVDRSMIQVAEKRYNGKIKMCRIHDLLRDLAMSEAKECKFLEILDSTNIDTSVTTR--AR 534

Query: 132 RFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLI 191
           R + H +L ++  L H +    S+LH +     L     + + +    LRVLDL  +   
Sbjct: 535 RISVHSSLEEYMKLRHPNPHFRSMLHFSRCEESLRREQWKSLFESLKLLRVLDLERVQTH 594

Query: 192 RYPSEVENLFLLRYLNLNIPSLKSL 216
             P E+  L  LRYL L    L+ L
Sbjct: 595 ALPKEIRELVHLRYLGLRRTGLQRL 619

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224138304|ref|XP_002326569.1| nbs-lrr resistance protein [Populus trichocarpa] gi|222833891|gb|EEE72368.1| nbs-lrr resistance protein [Populus trichocarpa]

 Score = 89.0 bits (219), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 71/216 (32%), Positives = 110/216 (50%), Gaps = 18/216 (8%)

Query: 3   LKENIKEVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPD 62
           L+EN  ++L   R +  ++Y  L +YLK C LY S+F V   I   +L +LWIAEGF+  
Sbjct: 400 LEEN--DMLMSARKILSLSYNDLPYYLKSCLLYFSIFPVGNRIKRMRLIRLWIAEGFVKG 457

Query: 63  NN----EAIAERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEFVISP 118
                 E +A+ YL +L+    V V + +  GR+ TC +       ++T A + +FV   
Sbjct: 458 KEGMTVEEVAQDYLNELMKRSLVQVVRATSDGRVKTCRVHDLLREIMITKAKDQDFV--A 515

Query: 119 IMDQEVKL-RENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMF 177
           I  +E  +  E V+R + H N+   +   H  S   SLL   +     D +Y   +  +F
Sbjct: 516 IAKEEGTIWPEKVRRVSMH-NVMPSKQQRHVASRFRSLLTFWVA----DCSYESPVHNLF 570

Query: 178 N----FLRVLDLGSLVLIRYPSEVENLFLLRYLNLN 209
           +     L VLDL    L  +P+EV +LFLL+YL+L 
Sbjct: 571 SGRLRLLHVLDLEGAPLKEFPNEVVSLFLLKYLSLR 606

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|105922948|gb|ABF81446.1| NBS-NBS-LRR type disease resistance protein [Populus trichocarpa]

 Score = 89.0 bits (219), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 71/216 (32%), Positives = 110/216 (50%), Gaps = 18/216 (8%)

Query: 3    LKENIKEVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPD 62
            L+EN  ++L   R +  ++Y  L +YLK C LY S+F V   I   +L +LWIAEGF+  
Sbjct: 1403 LEEN--DMLMSARKILSLSYNDLPYYLKSCLLYFSIFPVGNRIKRMRLIRLWIAEGFVKG 1460

Query: 63   NN----EAIAERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEFVISP 118
                  E +A+ YL +L+    V V + +  GR+ TC +       ++T A + +FV   
Sbjct: 1461 KEGMTVEEVAQDYLNELMKRSLVQVVRATSDGRVKTCRVHDLLREIMITKAKDQDFV--A 1518

Query: 119  IMDQEVKL-RENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMF 177
            I  +E  +  E V+R + H N+   +   H  S   SLL   +     D +Y   +  +F
Sbjct: 1519 IAKEEGTIWPEKVRRVSMH-NVMPSKQQRHVASRFRSLLTFWVA----DCSYESPVHNLF 1573

Query: 178  N----FLRVLDLGSLVLIRYPSEVENLFLLRYLNLN 209
            +     L VLDL    L  +P+EV +LFLL+YL+L 
Sbjct: 1574 SGRLRLLHVLDLEGAPLKEFPNEVVSLFLLKYLSLR 1609

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	217
TAIR|locus:2075170	835	RPP13 "RECOGNITION OF PERONOSP	0.308	0.080	0.375	2.1e-06
TAIR|locus:2102857	847	AT3G46710 [Arabidopsis thalian	0.290	0.074	0.411	3.3e-06
TAIR|locus:504956483	847	AT3G46730 [Arabidopsis thalian	0.511	0.131	0.296	5.1e-06
TAIR|locus:2077572	926	RPM1 "RESISTANCE TO P. SYRINGA	0.359	0.084	0.292	0.00011
TAIR|locus:2170892	848	AT5G43730 [Arabidopsis thalian	0.230	0.058	0.392	0.00014
TAIR|locus:2169523	901	AT5G35450 [Arabidopsis thalian	0.313	0.075	0.366	0.00017
UNIPROTKB|Q84UB1	928	Pi-ta "Pi-ta protein" [Oryza s	0.635	0.148	0.273	0.00042
UNIPROTKB|Q9AY26	928	Pi-ta "Pi-ta protein" [Oryza s	0.635	0.148	0.273	0.00042
TAIR|locus:2170902	862	AT5G43740 [Arabidopsis thalian	0.193	0.048	0.456	0.00042
UNIPROTKB|O48647	1802	O48647 "XA1" [Oryza sativa (ta	0.350	0.042	0.3	0.0005

TAIR|locus:2075170 RPP13 "RECOGNITION OF PERONOSPORA PARASITICA 13" [Arabidopsis thaliana (taxid:3702)]

 Score = 122 (48.0 bits), Expect = 2.1e-06, Sum P(2) = 2.1e-06
 Identities = 27/72 (37%), Positives = 45/72 (62%)

Query:    30 KLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEA----IAERYLEQLINGGFVDVGK 85
             KLC LYLS+F   +EI  ++L  L +AEGFI  + E     +A  Y+E+LI+   ++  +
Sbjct:   418 KLCFLYLSIFPEDYEIDLEKLIHLLVAEGFIQGDEEMMMEDVARYYIEELIDRSLLEAVR 477

Query:    86 KSDRGRINTCSI 97
             + +RG++ +C I
Sbjct:   478 R-ERGKVMSCRI 488

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=TAS

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

GO:0005886 "plasma membrane" evidence=IDA

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

TAIR|locus:2102857 AT3G46710 [Arabidopsis thaliana (taxid:3702)]

 Score = 120 (47.3 bits), Expect = 3.3e-06, Sum P(3) = 3.3e-06
 Identities = 28/68 (41%), Positives = 43/68 (63%)

Query:    29 LKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEA----IAERYLEQLINGGFVDVG 84
             LKLC LYLSVF   +E+  ++L QL +AEGFI ++ E     +A  Y+E L+    V+V 
Sbjct:   410 LKLCFLYLSVFPEDYEVDVEKLIQLLVAEGFIQEDEEMTMEDVARYYIEDLVYISLVEVV 469

Query:    85 KKSDRGRI 92
             K+  +G++
Sbjct:   470 KRK-KGKL 476

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

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

 Score = 129 (50.5 bits), Expect = 5.1e-06, Sum P(2) = 5.1e-06
 Identities = 35/118 (29%), Positives = 62/118 (52%)

Query:    29 LKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEA----IAERYLEQLINGGFVDVG 84
             LKLC LY SVF   +EI  ++L  L +AEGFI ++ E     +A  Y+++L++   V   
Sbjct:   417 LKLCFLYFSVFPEDYEIKVEKLIHLLVAEGFIQEDEEMMMEDVARCYIDELVDRSLVKA- 475

Query:    85 KKSDRGRINTCSIPGRCSLALLTGAFEGEFVISPIMDQEVKLRENVKRFTAHGNLNDF 142
             ++ +RG++ +C I        +  A E  FV   + +++    +  +R   H  +ND+
Sbjct:   476 ERIERGKVMSCRIHDLLRDLAIKKAKELNFV--NVYNEKQHSSDICRREVVHHLMNDY 531

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 98 (39.6 bits), Expect = 0.00011, Sum P(2) = 0.00011
 Identities = 24/82 (29%), Positives = 44/82 (53%)

Query:     6 NIKEVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFI-PDNN 64
             N    L  +R +  +++  L + LK C LY S+F V + +  K+L ++W+A+ F+ P   
Sbjct:   408 NNNHELKIVRSIMFLSFNDLPYPLKRCFLYCSLFPVNYRMKRKRLIRMWMAQRFVEPIRG 467

Query:    65 ---EAIAERYLEQLINGGFVDV 83
                E +A+ YL +L+    + V
Sbjct:   468 VKAEEVADSYLNELVYRNMLQV 489

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

GO:0000166 "nucleotide binding" evidence=ISS

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

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

 Score = 86 (35.3 bits), Expect = 0.00014, Sum P(2) = 0.00014
 Identities = 22/56 (39%), Positives = 30/56 (53%)

Query:    29 LKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEAIAERYLEQLINGGFVDVG 84
             +KLC LY S+F   FEI   +L + WI EG+I  N      RY +   N G+  +G
Sbjct:   403 IKLCFLYCSLFPEDFEIEKDKLIEYWICEGYINPN------RYEDGGTNQGYDIIG 452

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2169523 AT5G35450 [Arabidopsis thaliana (taxid:3702)]

 Score = 97 (39.2 bits), Expect = 0.00017, Sum P(2) = 0.00017
 Identities = 26/71 (36%), Positives = 36/71 (50%)

Query:    29 LKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEAI--AERYLEQLINGGFVDVGKK 86
             LK C LYL+ F   ++I T+ LY  W AEG I D    +   E YLE+L+    V   K 
Sbjct:   417 LKHCFLYLAHFPEDYKIKTRTLYSYWAAEG-IYDGLTILDSGEDYLEELVRRNLVIAEKS 475

Query:    87 SDRGRINTCSI 97
             +   R+  C +
Sbjct:   476 NLSWRLKLCQM 486

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

UNIPROTKB|Q84UB1 Pi-ta "Pi-ta protein" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 115 (45.5 bits), Expect = 0.00042, P = 0.00042
 Identities = 40/146 (27%), Positives = 68/146 (46%)

Query:     2 SLKENIKEVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIP 61
             +LK+N    L  +R +  + Y  L   LK C LYLS++   + I    L + W+AEGFI 
Sbjct:   443 NLKKN--PTLQGMRQVLNLIYNNLPHCLKACLLYLSIYKEDYIIRKANLVRQWMAEGFIN 500

Query:    62 --DNN--EAIAERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEFVIS 117
               +N   E +A  Y ++L+  G V     + +  + +C +       +   + E  F I+
Sbjct:   501 SIENKVMEEVAGNYFDELVGRGLVQPVDVNCKNEVLSCVVHHMVLNFIRCKSIEENFSIT 560

Query:   118 PIMDQE-VKLRENVKRFTAH-GNLND 141
                 Q  V+  + V+R + H  N +D
Sbjct:   561 LDHSQTTVRHADKVRRLSLHFSNAHD 586

GO:0006952 "defense response" evidence=IMP

UNIPROTKB|Q9AY26 Pi-ta "Pi-ta protein" [Oryza sativa (taxid:4530)]

 Score = 115 (45.5 bits), Expect = 0.00042, P = 0.00042
 Identities = 40/146 (27%), Positives = 68/146 (46%)

Query:     2 SLKENIKEVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIP 61
             +LK+N    L  +R +  + Y  L   LK C LYLS++   + I    L + W+AEGFI 
Sbjct:   443 NLKKN--PTLQGMRQVLNLIYNNLPHCLKACLLYLSIYKEDYIIRKANLVRQWMAEGFIN 500

Query:    62 --DNN--EAIAERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEFVIS 117
               +N   E +A  Y ++L+  G V     + +  + +C +       +   + E  F I+
Sbjct:   501 SIENKVMEEVAGNYFDELVGRGLVQPVDVNCKNEVLSCVVHHMVLNFIRCKSIEENFSIT 560

Query:   118 PIMDQE-VKLRENVKRFTAH-GNLND 141
                 Q  V+  + V+R + H  N +D
Sbjct:   561 LDHSQTTVRHADKVRRLSLHFSNAHD 586

GO:0006952 "defense response" evidence=IMP

TAIR|locus:2170902 AT5G43740 [Arabidopsis thaliana (taxid:3702)]

 Score = 83 (34.3 bits), Expect = 0.00042, Sum P(2) = 0.00042
 Identities = 21/46 (45%), Positives = 30/46 (65%)

Query:   175 KMFNF---LRVLDLGS-LVLIRYPSEVENLFLLRYLNLNIPSLKSL 216
             + F F   L VLDL + L LI+ P E+ NL  L+YLN+++  +KSL
Sbjct:   551 RFFRFMPKLVVLDLSANLDLIKLPEEISNLGSLQYLNISLTGIKSL 596

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 113 (44.8 bits), Expect = 0.00050, Sum P(2) = 0.00050
 Identities = 24/80 (30%), Positives = 49/80 (61%)

Query:     5 ENIKEVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNN 64
             +++++    ++ L++ +Y  L   L+ C  Y S+F   +  S  QL Q+WIA+GF+ +++
Sbjct:   534 KSLQQAYGIMQALKL-SYDHLSNPLQQCVSYCSLFPKGYSFSKAQLIQIWIAQGFVEESS 592

Query:    65 EAIAER---YLEQLINGGFV 81
             E + ++   YL +L+N GF+
Sbjct:   593 EKLEQKGWKYLAELVNSGFL 612

GO:0006915 "apoptotic process" evidence=IGI

GO:0006952 "defense response" evidence=IGI

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	217
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	4e-07

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

 Score = 48.9 bits (117), Expect = 4e-07
 Identities = 21/62 (33%), Positives = 38/62 (61%)

Query: 4   KENIKEVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDN 63
           +   ++ L+E+  +  ++Y  L  +LK C LYL++F   + I  +QL +LWIAEGF+  +
Sbjct: 224 ELAGRDGLNEVLSILSLSYDNLPMHLKRCFLYLALFPEDYNIRKEQLIKLWIAEGFVIPS 283

Query: 64  NE 65
           + 
Sbjct: 284 DI 285

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	217
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.69
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.21
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.75
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.47
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.68
PLN03150	623	hypothetical protein; Provisional	97.67
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	97.64
KOG0472	565	consensus Leucine-rich repeat protein [Function un	97.61
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	97.57
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	97.46
KOG0617	264	consensus Ras suppressor protein (contains leucine	97.42
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	97.38
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	97.38
KOG0617	264	consensus Ras suppressor protein (contains leucine	97.29
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	97.29
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	97.13
PLN03210	1153	Resistant to P. syringae 6; Provisional	96.98
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	96.97
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	96.89
PLN03150	623	hypothetical protein; Provisional	96.82
KOG0472	565	consensus Leucine-rich repeat protein [Function un	96.73
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	96.67
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	96.51
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	96.49
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	96.16
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.68
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	95.63
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	95.59
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	95.54
smart00370	26	LRR Leucine-rich repeats, outliers.	94.79
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	94.79
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	94.77
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	94.75
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	94.63
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	94.4
smart00370	26	LRR Leucine-rich repeats, outliers.	94.39
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	94.39
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	94.34
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	94.11
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	93.81
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	93.75
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	93.58
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	93.34
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	93.32
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	93.23
PRK15386	426	type III secretion protein GogB; Provisional	92.36
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	92.04
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	91.57
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	91.21
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	90.81
KOG4237	498	consensus Extracellular matrix protein slit, conta	90.48
PRK15386	426	type III secretion protein GogB; Provisional	90.47
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	90.45
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	89.99
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	89.38
smart00365	26	LRR_SD22 Leucine-rich repeat, SDS22-like subfamily	88.97
KOG4237	498	consensus Extracellular matrix protein slit, conta	87.71
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	87.36
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	86.82
PF13516	24	LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RI	86.81
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	86.66
smart00364	26	LRR_BAC Leucine-rich repeats, bacterial type.	86.19
KOG0473	326	consensus Leucine-rich repeat protein [Function un	84.45
KOG2982	418	consensus Uncharacterized conserved protein [Funct	82.98
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	81.93
KOG3864	221	consensus Uncharacterized conserved protein [Funct	80.88

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=1e-43  Score=321.50  Aligned_cols=204  Identities=26%  Similarity=0.328  Sum_probs=175.5

Q ss_pred             hhhHHHHHHHHHHccccchHhHHHHHHHhhhcCCCCeecHHHHHHHHHHcCCCCCC-----hHHHHHHHHHHHHhCCCcc
Q 044539            8 KEVLDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDN-----NEAIAERYLEQLINGGFVD   82 (217)
Q Consensus         8 ~~~~~~i~~~l~lsY~~Lp~~lk~Cfl~~s~Fp~~~~i~~~~Li~~WiaeG~i~~~-----~e~~~~~~~~~L~~r~l~~   82 (217)
                      .+..+.++++|++|||+||.++|.||+|||+||+||.|++++||.+||||||+.+.     +++.|+.|+.+|++++|++
T Consensus       391 ~~~~~~i~~iLklSyd~L~~~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~  470 (889)
T KOG4658|consen  391 SGMEESILPILKLSYDNLPEELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLI  470 (889)
T ss_pred             CchhhhhHHhhhccHhhhhHHHHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHh
Confidence            45578999999999999998899999999999999999999999999999999884     8999999999999999999


Q ss_pred             ceecCCCCCeeEEEeChhHHHHHHHhhc-----ccceEeeecC-----CCCccCCCceeEEEEeCCCCc-cccccCCCCC
Q 044539           83 VGKKSDRGRINTCSIPGRCSLALLTGAF-----EGEFVISPIM-----DQEVKLRENVKRFTAHGNLND-FEFLDHFDSF  151 (217)
Q Consensus        83 ~~~~~~~~~~~~~~mhdlv~dla~~i~~-----~e~~~~~~~~-----~~~~~~~~~~r~ls~~~~~~~-~~~~~~~~~~  151 (217)
                      .....  +...+|+|||+|||+|.++|.     +|+.+. ..+     ..+......+||++++.+... .......+ +
T Consensus       471 ~~~~~--~~~~~~kmHDvvRe~al~ias~~~~~~e~~iv-~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~~~~~~~~~-~  546 (889)
T KOG4658|consen  471 EERDE--GRKETVKMHDVVREMALWIASDFGKQEENQIV-SDGVGLSEIPQVKSWNSVRRMSLMNNKIEHIAGSSENP-K  546 (889)
T ss_pred             hcccc--cceeEEEeeHHHHHHHHHHhccccccccceEE-ECCcCccccccccchhheeEEEEeccchhhccCCCCCC-c
Confidence            87654  566889999999999999999     777555 222     112224578899999998876 66677888 9


Q ss_pred             eeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCC-CccCCccccccccCCEEeeCCCCcccCC
Q 044539          152 LHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLV-LIRYPSEVENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       152 LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~-i~~lP~~I~~L~~LryL~L~~t~i~~L~  217 (217)
                      ++||.+.++... ...... .+|..++.||||||++|. +.+||++||+|.|||||+|++|.|+.||
T Consensus       547 L~tLll~~n~~~-l~~is~-~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP  611 (889)
T KOG4658|consen  547 LRTLLLQRNSDW-LLEISG-EFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHLP  611 (889)
T ss_pred             cceEEEeecchh-hhhcCH-HHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCCccccc
Confidence            999999987531 233444 789999999999999877 8899999999999999999999999887

>PLN03210 Resistant to P

Probab=99.69  E-value=1e-16  Score=151.71  Aligned_cols=186  Identities=15%  Similarity=0.032  Sum_probs=124.6

Q ss_pred             HHHHHHHHHccccchHh-HHHHHHHhhhcCCCCeecHHHHHHHHHHcCCCCCChHHHHHHHHHHHHhCCCccceecCCCC
Q 044539           12 DELRGLQVVAYCMLHFY-LKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEAIAERYLEQLINGGFVDVGKKSDRG   90 (217)
Q Consensus        12 ~~i~~~l~lsY~~Lp~~-lk~Cfl~~s~Fp~~~~i~~~~Li~~WiaeG~i~~~~e~~~~~~~~~L~~r~l~~~~~~~~~~   90 (217)
                      .+|.++|++||++|+++ .|.||++||+||.+..++   .+..|.|.+...      ++..++.|+++||++...     
T Consensus       420 ~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~---~v~~~l~~~~~~------~~~~l~~L~~ksLi~~~~-----  485 (1153)
T PLN03210        420 GKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVN---DIKLLLANSDLD------VNIGLKNLVDKSLIHVRE-----  485 (1153)
T ss_pred             HHHHHHHHHhhhccCccchhhhhheehhhcCCCCHH---HHHHHHHhcCCC------chhChHHHHhcCCEEEcC-----
Confidence            47999999999999875 999999999999997543   367788876553      334589999999998643     


Q ss_pred             CeeEEEeChhHHHHHHHhhcccc-------eEeeecCC-----CCccCCCceeEEEEeCCCCc-----cccccCCCCCee
Q 044539           91 RINTCSIPGRCSLALLTGAFEGE-------FVISPIMD-----QEVKLRENVKRFTAHGNLND-----FEFLDHFDSFLH  153 (217)
Q Consensus        91 ~~~~~~mhdlv~dla~~i~~~e~-------~~~~~~~~-----~~~~~~~~~r~ls~~~~~~~-----~~~~~~~~~~Lr  153 (217)
                        ..++|||++|++|+.+++++.       +.. ...+     ...+...+++.+++..+...     ...+..++ +||
T Consensus       486 --~~~~MHdLl~~~~r~i~~~~~~~~~~r~~l~-~~~di~~vl~~~~g~~~v~~i~l~~~~~~~~~i~~~aF~~m~-~L~  561 (1153)
T PLN03210        486 --DIVEMHSLLQEMGKEIVRAQSNEPGEREFLV-DAKDICDVLEDNTGTKKVLGITLDIDEIDELHIHENAFKGMR-NLL  561 (1153)
T ss_pred             --CeEEhhhHHHHHHHHHHHhhcCCCCcceeEe-CHHHHHHHHHhCcccceeeEEEeccCccceeeecHHHHhcCc-ccc
Confidence              258999999999999987653       221 0000     00112345666666543322     11234455 566


Q ss_pred             EEEEeCCCCC---------------------------CCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEE
Q 044539          154 SLLHLTLGSH---------------------------YLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYL  206 (217)
Q Consensus       154 sL~~~~~~~~---------------------------~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL  206 (217)
                      .|.+......                           +....+| ..+ .+.+|+.|+|.++.++.+|+.++.|.+|++|
T Consensus       562 ~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l~~lP-~~f-~~~~L~~L~L~~s~l~~L~~~~~~l~~Lk~L  639 (1153)
T PLN03210        562 FLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLRCMP-SNF-RPENLVKLQMQGSKLEKLWDGVHSLTGLRNI  639 (1153)
T ss_pred             EEEEecccccccccceeecCcchhhcCcccEEEEecCCCCCCCC-CcC-CccCCcEEECcCccccccccccccCCCCCEE
Confidence            5555332100                           0011233 333 4678899999998899999999999999999


Q ss_pred             eeCCCC-cccCC
Q 044539          207 NLNIPS-LKSLL  217 (217)
Q Consensus       207 ~L~~t~-i~~L~  217 (217)
                      +|+++. ++++|
T Consensus       640 ~Ls~~~~l~~ip  651 (1153)
T PLN03210        640 DLRGSKNLKEIP  651 (1153)
T ss_pred             ECCCCCCcCcCC
Confidence            998764 55543

syringae 6; Provisional

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=99.21  E-value=5.6e-12  Score=102.39  Aligned_cols=52  Identities=35%  Similarity=0.540  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHccccchHhHHHHHHHhhhcCCCCeecHHHHHHHHHHcCCCCC
Q 044539           11 LDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPD   62 (217)
Q Consensus        11 ~~~i~~~l~lsY~~Lp~~lk~Cfl~~s~Fp~~~~i~~~~Li~~WiaeG~i~~   62 (217)
                      ...+..++.+||+.||+++|.||+|||+||+++.|+++.||++|+|||||.+
T Consensus       233 ~~~~~~~l~~s~~~L~~~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~  284 (287)
T PF00931_consen  233 DRSVFSALELSYDSLPDELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISS  284 (287)
T ss_dssp             CHHHHHHHHHHHHSSHTCCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC-
T ss_pred             cccccccceechhcCCccHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCcc
Confidence            5779999999999999999999999999999999999999999999999975

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

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

Probab=98.75  E-value=7.7e-09  Score=59.68  Aligned_cols=40  Identities=30%  Similarity=0.353  Sum_probs=35.1

Q ss_pred             CceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccCC
Q 044539          178 NFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       178 ~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L~  217 (217)
                      ++|++|+|++++|+.+|..|++|++|++|++++++|+.++
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~i~   40 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNNPISDIS   40 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCSBEG
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCCCCCCCc
Confidence            4789999999999999999999999999999999998763

...

>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=98.47  E-value=2.2e-07  Score=57.55  Aligned_cols=59  Identities=29%  Similarity=0.182  Sum_probs=49.2

Q ss_pred             CeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCc-cccccccCCEEeeCCCCc
Q 044539          151 FLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPS-EVENLFLLRYLNLNIPSL  213 (217)
Q Consensus       151 ~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~-~I~~L~~LryL~L~~t~i  213 (217)
                      +|++|.+.++.-   ..+.+ ..|..+++|++|+++++.+..+|+ .+..|++|++|++++|+|
T Consensus         2 ~L~~L~l~~n~l---~~i~~-~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    2 NLESLDLSNNKL---TEIPP-DSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TESEEEETSSTE---SEECT-TTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSSB
T ss_pred             cCcEEECCCCCC---CccCH-HHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            788888877643   33444 789999999999999999998875 678999999999999875

...

>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=97.68  E-value=2.7e-05  Score=48.00  Aligned_cols=39  Identities=33%  Similarity=0.353  Sum_probs=34.7

Q ss_pred             CceeEEEeCCCCCccCCc-cccccccCCEEeeCCCCcccC
Q 044539          178 NFLRVLDLGSLVLIRYPS-EVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       178 ~~LrvLdL~~~~i~~lP~-~I~~L~~LryL~L~~t~i~~L  216 (217)
                      ++|++|++++|.+..+|. .+..+.+|++|+++++.|+.+
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i   40 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSI   40 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEE
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCcc
Confidence            468999999999999985 678999999999999998765

...

>PLN03150 hypothetical protein; Provisional

Probab=97.67  E-value=8.6e-05  Score=66.90  Aligned_cols=80  Identities=23%  Similarity=0.125  Sum_probs=60.3

Q ss_pred             eeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCc-cCCccccccccCCE
Q 044539          130 VKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLI-RYPSEVENLFLLRY  205 (217)
Q Consensus       130 ~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~-~lP~~I~~L~~Lry  205 (217)
                      ++.|.+..+...   ...+..++ +|+.|.+.++..   ...+| ..++.+++|++|+|++|.+. .+|+++++|.+|++
T Consensus       420 v~~L~L~~n~L~g~ip~~i~~L~-~L~~L~Ls~N~l---~g~iP-~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~  494 (623)
T PLN03150        420 IDGLGLDNQGLRGFIPNDISKLR-HLQSINLSGNSI---RGNIP-PSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRI  494 (623)
T ss_pred             EEEEECCCCCccccCCHHHhCCC-CCCEEECCCCcc---cCcCC-hHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCE
Confidence            344444443332   23355678 999998877653   23455 78899999999999999976 89999999999999


Q ss_pred             EeeCCCCcc
Q 044539          206 LNLNIPSLK  214 (217)
Q Consensus       206 L~L~~t~i~  214 (217)
                      |+|+++++.
T Consensus       495 L~Ls~N~l~  503 (623)
T PLN03150        495 LNLNGNSLS  503 (623)
T ss_pred             EECcCCccc
Confidence            999998765

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=97.64  E-value=2.1e-05  Score=73.03  Aligned_cols=79  Identities=23%  Similarity=0.232  Sum_probs=66.0

Q ss_pred             ceeEEEEeCCCC---cccc--ccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccC
Q 044539          129 NVKRFTAHGNLN---DFEF--LDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLL  203 (217)
Q Consensus       129 ~~r~ls~~~~~~---~~~~--~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~L  203 (217)
                      +.|.+.+..+..   ....  +..++ .||+|.+.++..   ...+| ..++++-+||+|+|+++.+..+|.++++|+.|
T Consensus       546 ~L~tLll~~n~~~l~~is~~ff~~m~-~LrVLDLs~~~~---l~~LP-~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk~L  620 (889)
T KOG4658|consen  546 KLRTLLLQRNSDWLLEISGEFFRSLP-LLRVLDLSGNSS---LSKLP-SSIGELVHLRYLDLSDTGISHLPSGLGNLKKL  620 (889)
T ss_pred             ccceEEEeecchhhhhcCHHHHhhCc-ceEEEECCCCCc---cCcCC-hHHhhhhhhhcccccCCCccccchHHHHHHhh
Confidence            578888887642   2222  67799 999999997543   34677 99999999999999999999999999999999


Q ss_pred             CEEeeCCCC
Q 044539          204 RYLNLNIPS  212 (217)
Q Consensus       204 ryL~L~~t~  212 (217)
                      .||++..|.
T Consensus       621 ~~Lnl~~~~  629 (889)
T KOG4658|consen  621 IYLNLEVTG  629 (889)
T ss_pred             heecccccc
Confidence            999999765

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

Probab=97.61  E-value=2.7e-05  Score=65.02  Aligned_cols=50  Identities=32%  Similarity=0.240  Sum_probs=45.1

Q ss_pred             ccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccCC
Q 044539          168 NYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       168 ~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L~  217 (217)
                      .+|.+..+.+.+|.||||+.++++++|++|+.|..|.|||++++.|+.||
T Consensus       242 ~lpae~~~~L~~l~vLDLRdNklke~Pde~clLrsL~rLDlSNN~is~Lp  291 (565)
T KOG0472|consen  242 MLPAEHLKHLNSLLVLDLRDNKLKEVPDEICLLRSLERLDLSNNDISSLP  291 (565)
T ss_pred             hhHHHHhcccccceeeeccccccccCchHHHHhhhhhhhcccCCccccCC
Confidence            34436778999999999999999999999999999999999999999886

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

Probab=97.57  E-value=6.5e-05  Score=56.58  Aligned_cols=82  Identities=17%  Similarity=0.059  Sum_probs=33.6

Q ss_pred             CceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhh-cCCCceeEEEeCCCCCccCC--ccccccccC
Q 044539          128 ENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKIC-KMFNFLRVLDLGSLVLIRYP--SEVENLFLL  203 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~-~~l~~LrvLdL~~~~i~~lP--~~I~~L~~L  203 (217)
                      .+.+.+.+..+... +.....++ +|++|.+.++.-.    .++ ..+ ..+++|+.|+|+++.|..+-  ..+..+++|
T Consensus        42 ~~L~~L~Ls~N~I~~l~~l~~L~-~L~~L~L~~N~I~----~i~-~~l~~~lp~L~~L~L~~N~I~~l~~l~~L~~l~~L  115 (175)
T PF14580_consen   42 DKLEVLDLSNNQITKLEGLPGLP-RLKTLDLSNNRIS----SIS-EGLDKNLPNLQELYLSNNKISDLNELEPLSSLPKL  115 (175)
T ss_dssp             TT--EEE-TTS--S--TT----T-T--EEE--SS-------S-C-HHHHHH-TT--EEE-TTS---SCCCCGGGGG-TT-
T ss_pred             cCCCEEECCCCCCccccCccChh-hhhhcccCCCCCC----ccc-cchHHhCCcCCEEECcCCcCCChHHhHHHHcCCCc
Confidence            45567777666654 45566677 8888877766543    122 222 45788888888888876432  456677888


Q ss_pred             CEEeeCCCCccc
Q 044539          204 RYLNLNIPSLKS  215 (217)
Q Consensus       204 ryL~L~~t~i~~  215 (217)
                      ++|+|.++.|.+
T Consensus       116 ~~L~L~~NPv~~  127 (175)
T PF14580_consen  116 RVLSLEGNPVCE  127 (175)
T ss_dssp             -EEE-TT-GGGG
T ss_pred             ceeeccCCcccc
Confidence            888888887754

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

Probab=97.46  E-value=0.00018  Score=67.98  Aligned_cols=42  Identities=38%  Similarity=0.563  Sum_probs=21.3

Q ss_pred             hhhcCCCceeEEEeCCCCCc-cCCccccccccCCEEeeCCCCc
Q 044539          172 KICKMFNFLRVLDLGSLVLI-RYPSEVENLFLLRYLNLNIPSL  213 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~-~lP~~I~~L~~LryL~L~~t~i  213 (217)
                      ..++.+++||+|+|++|.+. .+|..+++|.+|++|+|++|.+
T Consensus       158 ~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l  200 (968)
T PLN00113        158 NDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQL  200 (968)
T ss_pred             hHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCC
Confidence            44455555555555555532 4555555555555555554443

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

Probab=97.42  E-value=1.9e-05  Score=58.86  Aligned_cols=49  Identities=24%  Similarity=0.228  Sum_probs=28.3

Q ss_pred             ccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccCC
Q 044539          168 NYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       168 ~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L~  217 (217)
                      ++| ..++++++|++|.+..+.+-.+|.+||.|..||-|.+.+++++-||
T Consensus       141 ~lp-~dvg~lt~lqil~lrdndll~lpkeig~lt~lrelhiqgnrl~vlp  189 (264)
T KOG0617|consen  141 ILP-PDVGKLTNLQILSLRDNDLLSLPKEIGDLTRLRELHIQGNRLTVLP  189 (264)
T ss_pred             cCC-hhhhhhcceeEEeeccCchhhCcHHHHHHHHHHHHhcccceeeecC
Confidence            344 5555666666666666555556666666666666666655555443

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

Probab=97.38  E-value=1.7e-05  Score=69.82  Aligned_cols=48  Identities=29%  Similarity=0.196  Sum_probs=43.8

Q ss_pred             ccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccC
Q 044539          168 NYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       168 ~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L  216 (217)
                      .+| ..+..+.+|+-+||+.+.+..+|+.+-+|.+||-|+|+++.|++|
T Consensus       213 N~P-tsld~l~NL~dvDlS~N~Lp~vPecly~l~~LrrLNLS~N~iteL  260 (1255)
T KOG0444|consen  213 NIP-TSLDDLHNLRDVDLSENNLPIVPECLYKLRNLRRLNLSGNKITEL  260 (1255)
T ss_pred             cCC-CchhhhhhhhhccccccCCCcchHHHhhhhhhheeccCcCceeee
Confidence            455 788899999999999999999999999999999999999999886

>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=97.38  E-value=6.4e-05  Score=36.37  Aligned_cols=22  Identities=41%  Similarity=0.442  Sum_probs=18.4

Q ss_pred             ceeEEEeCCCCCccCCcccccc
Q 044539          179 FLRVLDLGSLVLIRYPSEVENL  200 (217)
Q Consensus       179 ~LrvLdL~~~~i~~lP~~I~~L  200 (217)
                      +|++|||++|.++.+|+++++|
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~l   22 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSNL   22 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT-
T ss_pred             CccEEECCCCcCEeCChhhcCC
Confidence            5899999999999999887764

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 ....

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

Probab=97.29  E-value=2.5e-05  Score=58.25  Aligned_cols=88  Identities=20%  Similarity=0.064  Sum_probs=68.5

Q ss_pred             CCCceeEEEEeCCCCc--cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccC
Q 044539          126 LRENVKRFTAHGNLND--FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLL  203 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~--~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~L  203 (217)
                      ...+.|++-+.-+...  ...+..++ .+..|.+..++-  ....+| ..|-.++-||.|.|+.+.++-+|.++|+|++|
T Consensus        77 sl~klr~lnvgmnrl~~lprgfgs~p-~levldltynnl--~e~~lp-gnff~m~tlralyl~dndfe~lp~dvg~lt~l  152 (264)
T KOG0617|consen   77 SLPKLRILNVGMNRLNILPRGFGSFP-ALEVLDLTYNNL--NENSLP-GNFFYMTTLRALYLGDNDFEILPPDVGKLTNL  152 (264)
T ss_pred             hchhhhheecchhhhhcCccccCCCc-hhhhhhcccccc--ccccCC-cchhHHHHHHHHHhcCCCcccCChhhhhhcce
Confidence            3456777766544433  34567788 888888876654  344566 66677899999999999999999999999999


Q ss_pred             CEEeeCCCCcccCC
Q 044539          204 RYLNLNIPSLKSLL  217 (217)
Q Consensus       204 ryL~L~~t~i~~L~  217 (217)
                      +.|+++.+++-+||
T Consensus       153 qil~lrdndll~lp  166 (264)
T KOG0617|consen  153 QILSLRDNDLLSLP  166 (264)
T ss_pred             eEEeeccCchhhCc
Confidence            99999999887775

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

Probab=97.29  E-value=0.00035  Score=66.08  Aligned_cols=42  Identities=26%  Similarity=0.244  Sum_probs=22.7

Q ss_pred             hhhcCCCceeEEEeCCCCCc-cCCccccccccCCEEeeCCCCc
Q 044539          172 KICKMFNFLRVLDLGSLVLI-RYPSEVENLFLLRYLNLNIPSL  213 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~-~lP~~I~~L~~LryL~L~~t~i  213 (217)
                      ..++++++|+.|+|+++.+. .+|..+++|.+|++|++++|.+
T Consensus       206 ~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l  248 (968)
T PLN00113        206 RELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNL  248 (968)
T ss_pred             hHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCcee
Confidence            44455555555555555543 4555555555555555555544

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

Probab=97.13  E-value=0.00098  Score=50.23  Aligned_cols=83  Identities=20%  Similarity=0.158  Sum_probs=25.8

Q ss_pred             CCceeEEEEeCCCCc-ccccc-CCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcccc-ccccC
Q 044539          127 RENVKRFTAHGNLND-FEFLD-HFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVE-NLFLL  203 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~~~~-~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~-~L~~L  203 (217)
                      +.+.|.+.+.++... +.... .+. ++++|.+.++.-.    .+  ..+..++.|+.|+++++.|+.+++.+. .+++|
T Consensus        18 ~~~~~~L~L~~n~I~~Ie~L~~~l~-~L~~L~Ls~N~I~----~l--~~l~~L~~L~~L~L~~N~I~~i~~~l~~~lp~L   90 (175)
T PF14580_consen   18 PVKLRELNLRGNQISTIENLGATLD-KLEVLDLSNNQIT----KL--EGLPGLPRLKTLDLSNNRISSISEGLDKNLPNL   90 (175)
T ss_dssp             ------------------S--TT-T-T--EEE-TTS--S--------TT----TT--EEE--SS---S-CHHHHHH-TT-
T ss_pred             ccccccccccccccccccchhhhhc-CCCEEECCCCCCc----cc--cCccChhhhhhcccCCCCCCccccchHHhCCcC
Confidence            345577777776655 33333 356 7888877766543    22  456678888888888888887766553 57888


Q ss_pred             CEEeeCCCCcccC
Q 044539          204 RYLNLNIPSLKSL  216 (217)
Q Consensus       204 ryL~L~~t~i~~L  216 (217)
                      +.|.|++++|+++
T Consensus        91 ~~L~L~~N~I~~l  103 (175)
T PF14580_consen   91 QELYLSNNKISDL  103 (175)
T ss_dssp             -EEE-TTS---SC
T ss_pred             CEEECcCCcCCCh
Confidence            8888888877654

>PLN03210 Resistant to P

Probab=96.98  E-value=0.0016  Score=62.85  Aligned_cols=44  Identities=27%  Similarity=0.301  Sum_probs=31.5

Q ss_pred             hhcCCCceeEEEeCCCC-CccCCccccccccCCEEeeCCC-CcccC
Q 044539          173 ICKMFNFLRVLDLGSLV-LIRYPSEVENLFLLRYLNLNIP-SLKSL  216 (217)
Q Consensus       173 ~~~~l~~LrvLdL~~~~-i~~lP~~I~~L~~LryL~L~~t-~i~~L  216 (217)
                      .++.+++|+.|+|++|. +..+|.+|++|.+|++|++++| .++.+
T Consensus       652 ~ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~L  697 (1153)
T PLN03210        652 DLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEIL  697 (1153)
T ss_pred             ccccCCcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCcc
Confidence            35667777888887776 6678888888888888888775 34444

syringae 6; Provisional

>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=96.97  E-value=0.0012  Score=37.80  Aligned_cols=39  Identities=13%  Similarity=-0.052  Sum_probs=30.3

Q ss_pred             CeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCC
Q 044539          151 FLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYP  194 (217)
Q Consensus       151 ~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP  194 (217)
                      +|+.|.+.++.-.    .++ ..++++++|++|+++++.++.+|
T Consensus         2 ~L~~L~l~~N~i~----~l~-~~l~~l~~L~~L~l~~N~i~~i~   40 (44)
T PF12799_consen    2 NLEELDLSNNQIT----DLP-PELSNLPNLETLNLSNNPISDIS   40 (44)
T ss_dssp             T-SEEEETSSS-S----SHG-GHGTTCTTSSEEEETSSCCSBEG
T ss_pred             cceEEEccCCCCc----ccC-chHhCCCCCCEEEecCCCCCCCc
Confidence            7888988877643    355 66999999999999999988665

...

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

Probab=96.89  E-value=0.0002  Score=63.25  Aligned_cols=46  Identities=24%  Similarity=0.158  Sum_probs=23.8

Q ss_pred             hhhcCCCceeEEEeCCCCCccCCcccc-ccccCCEEeeCCCCcccCC
Q 044539          172 KICKMFNFLRVLDLGSLVLIRYPSEVE-NLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~lP~~I~-~L~~LryL~L~~t~i~~L~  217 (217)
                      ..+..-+++-||.|++++|+.+|.++. +|.-|=||||+++++..||
T Consensus       120 ~~LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~NrLe~LP  166 (1255)
T KOG0444|consen  120 TNLEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSNNRLEMLP  166 (1255)
T ss_pred             hhhhhhcCcEEEEcccCccccCCchHHHhhHhHhhhccccchhhhcC
Confidence            334444455555555555555555444 5555555555555555544

>PLN03150 hypothetical protein; Provisional

Probab=96.82  E-value=0.0019  Score=58.31  Aligned_cols=59  Identities=17%  Similarity=0.180  Sum_probs=47.6

Q ss_pred             eeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCc-cCCccccccccCCEEeeCCCCcc
Q 044539          152 LHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLI-RYPSEVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       152 LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~-~lP~~I~~L~~LryL~L~~t~i~  214 (217)
                      ++.|.+.++.   ....+| ..+.++++|+.|+|+++.+. .+|++++.|.+|++|+|+++++.
T Consensus       420 v~~L~L~~n~---L~g~ip-~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~ls  479 (623)
T PLN03150        420 IDGLGLDNQG---LRGFIP-NDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFN  479 (623)
T ss_pred             EEEEECCCCC---ccccCC-HHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCC
Confidence            4555554433   223456 78899999999999999986 89999999999999999999876

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

Probab=96.73  E-value=0.00088  Score=56.26  Aligned_cols=43  Identities=28%  Similarity=0.252  Sum_probs=40.8

Q ss_pred             hhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcc
Q 044539          172 KICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~  214 (217)
                      ..++.|.+|..|||.++.+..+|+.+|++.+|+.|.|.|+.++
T Consensus       499 ~~l~nm~nL~tLDL~nNdlq~IPp~LgnmtnL~hLeL~gNpfr  541 (565)
T KOG0472|consen  499 SGLKNMRNLTTLDLQNNDLQQIPPILGNMTNLRHLELDGNPFR  541 (565)
T ss_pred             HHhhhhhhcceeccCCCchhhCChhhccccceeEEEecCCccC
Confidence            4589999999999999999999999999999999999999887

>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=96.67  E-value=0.0011  Score=29.83  Aligned_cols=16  Identities=44%  Similarity=0.397  Sum_probs=6.8

Q ss_pred             cCCEEeeCCCCcccCC
Q 044539          202 LLRYLNLNIPSLKSLL  217 (217)
Q Consensus       202 ~LryL~L~~t~i~~L~  217 (217)
                      +||.|+|++|++++||
T Consensus         2 ~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             T-SEEEETSS--SSE-
T ss_pred             ccCEEECCCCCCCCCc
Confidence            4555555555555554

...

>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=96.51  E-value=0.0015  Score=29.40  Aligned_cols=17  Identities=41%  Similarity=0.481  Sum_probs=11.4

Q ss_pred             CceeEEEeCCCCCccCC
Q 044539          178 NFLRVLDLGSLVLIRYP  194 (217)
Q Consensus       178 ~~LrvLdL~~~~i~~lP  194 (217)
                      ++||+|+|++|+++.+|
T Consensus         1 ~~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    1 PNLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             TT-SEEEETSS--SSE-
T ss_pred             CccCEEECCCCCCCCCc
Confidence            47899999999998877

...

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

Probab=96.49  E-value=0.0014  Score=59.67  Aligned_cols=62  Identities=23%  Similarity=0.261  Sum_probs=37.9

Q ss_pred             ccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCC
Q 044539          145 LDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIP  211 (217)
Q Consensus       145 ~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t  211 (217)
                      ...+| .||+|.+.+.... .. .+. ..+.+|++|+.||++++.+..+ ..|++|+||+.|.+++-
T Consensus       144 g~~LP-sL~sL~i~~~~~~-~~-dF~-~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknLq~L~mrnL  205 (699)
T KOG3665|consen  144 GTMLP-SLRSLVISGRQFD-ND-DFS-QLCASFPNLRSLDISGTNISNL-SGISRLKNLQVLSMRNL  205 (699)
T ss_pred             hhhCc-ccceEEecCceec-ch-hHH-HHhhccCccceeecCCCCccCc-HHHhccccHHHHhccCC
Confidence            34567 7888877765432 11 122 5667777777777777776655 55666666666555543

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=96.16  E-value=0.011  Score=54.46  Aligned_cols=37  Identities=30%  Similarity=0.316  Sum_probs=20.6

Q ss_pred             ceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccCC
Q 044539          179 FLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       179 ~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L~  217 (217)
                      .|+.|+|+++.+..+|+.+.  .+|++|+|++|+++.+|
T Consensus       263 ~L~~L~Ls~N~L~~LP~~l~--~sL~~L~Ls~N~Lt~LP  299 (754)
T PRK15370        263 ALQSLDLFHNKISCLPENLP--EELRYLSVYDNSIRTLP  299 (754)
T ss_pred             CCCEEECcCCccCccccccC--CCCcEEECCCCccccCc
Confidence            45555555555555555443  35666666666665543

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

Probab=95.68  E-value=0.0035  Score=30.12  Aligned_cols=16  Identities=38%  Similarity=0.472  Sum_probs=14.1

Q ss_pred             cCCEEeeCCCCcccCC
Q 044539          202 LLRYLNLNIPSLKSLL  217 (217)
Q Consensus       202 ~LryL~L~~t~i~~L~  217 (217)
                      +||+|+|++|+++++|
T Consensus         1 ~L~~Ldls~n~l~~ip   16 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIP   16 (22)
T ss_dssp             TESEEEETSSEESEEG
T ss_pred             CccEEECCCCcCEeCC
Confidence            6899999999998765

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 ....

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=95.63  E-value=0.021  Score=52.63  Aligned_cols=82  Identities=11%  Similarity=0.036  Sum_probs=55.0

Q ss_pred             CCCceeEEEEeCCCCccccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCE
Q 044539          126 LRENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRY  205 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lry  205 (217)
                      .+...+.+.+..+..........+ +|++|.+.++.-.    .+| ..+  ...|+.|+|++|.+..+|.++.  .+|++
T Consensus       197 Ip~~L~~L~Ls~N~LtsLP~~l~~-nL~~L~Ls~N~Lt----sLP-~~l--~~~L~~L~Ls~N~L~~LP~~l~--s~L~~  266 (754)
T PRK15370        197 IPEQITTLILDNNELKSLPENLQG-NIKTLYANSNQLT----SIP-ATL--PDTIQEMELSINRITELPERLP--SALQS  266 (754)
T ss_pred             cccCCcEEEecCCCCCcCChhhcc-CCCEEECCCCccc----cCC-hhh--hccccEEECcCCccCcCChhHh--CCCCE
Confidence            345677888877765422222346 8888888765432    233 322  2468888999888888888775  47889


Q ss_pred             EeeCCCCcccCC
Q 044539          206 LNLNIPSLKSLL  217 (217)
Q Consensus       206 L~L~~t~i~~L~  217 (217)
                      |++++++++.+|
T Consensus       267 L~Ls~N~L~~LP  278 (754)
T PRK15370        267 LDLFHNKISCLP  278 (754)
T ss_pred             EECcCCccCccc
Confidence            999888887664

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=95.59  E-value=0.015  Score=53.70  Aligned_cols=37  Identities=24%  Similarity=0.131  Sum_probs=33.2

Q ss_pred             CceeEEEeCCCCCccCCccccccccCCEEeeCCCCcc
Q 044539          178 NFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       178 ~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~  214 (217)
                      ..|+.|+|+++++..+|+++++|.+|++|+|+++.+.
T Consensus       422 ~~L~~L~Ls~NqLt~LP~sl~~L~~L~~LdLs~N~Ls  458 (788)
T PRK15387        422 SGLLSLSVYRNQLTRLPESLIHLSSETTVNLEGNPLS  458 (788)
T ss_pred             hhhhhhhhccCcccccChHHhhccCCCeEECCCCCCC
Confidence            4678899999999999999999999999999999875

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

Probab=95.54  E-value=0.0038  Score=57.46  Aligned_cols=65  Identities=20%  Similarity=0.238  Sum_probs=51.8

Q ss_pred             ccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCccc
Q 044539          145 LDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKS  215 (217)
Q Consensus       145 ~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~  215 (217)
                      +-.++ +|+.|.+..+..    ..+| ...+++++|.+|.|.++.++.+|.++.+|++|+||+++++...-
T Consensus        64 it~l~-~L~~ln~s~n~i----~~vp-~s~~~~~~l~~lnL~~n~l~~lP~~~~~lknl~~LdlS~N~f~~  128 (1081)
T KOG0618|consen   64 ITLLS-HLRQLNLSRNYI----RSVP-SSCSNMRNLQYLNLKNNRLQSLPASISELKNLQYLDLSFNHFGP  128 (1081)
T ss_pred             hhhHH-HHhhcccchhhH----hhCc-hhhhhhhcchhheeccchhhcCchhHHhhhcccccccchhccCC
Confidence            44456 777776554432    2456 88899999999999999999999999999999999999887644

>smart00370 LRR Leucine-rich repeats, outliers

Probab=94.79  E-value=0.025  Score=28.16  Aligned_cols=18  Identities=44%  Similarity=0.349  Sum_probs=11.1

Q ss_pred             cccCCEEeeCCCCcccCC
Q 044539          200 LFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       200 L~~LryL~L~~t~i~~L~  217 (217)
                      |.+|++|+|++++|+.+|
T Consensus         1 L~~L~~L~L~~N~l~~lp   18 (26)
T smart00370        1 LPNLRELDLSNNQLSSLP   18 (26)
T ss_pred             CCCCCEEECCCCcCCcCC
Confidence            345666666666666554

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

Probab=94.79  E-value=0.025  Score=28.16  Aligned_cols=18  Identities=44%  Similarity=0.349  Sum_probs=11.1

Q ss_pred             cccCCEEeeCCCCcccCC
Q 044539          200 LFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       200 L~~LryL~L~~t~i~~L~  217 (217)
                      |.+|++|+|++++|+.+|
T Consensus         1 L~~L~~L~L~~N~l~~lp   18 (26)
T smart00369        1 LPNLRELDLSNNQLSSLP   18 (26)
T ss_pred             CCCCCEEECCCCcCCcCC
Confidence            345666666666666554

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

Probab=94.77  E-value=0.0047  Score=56.84  Aligned_cols=44  Identities=32%  Similarity=0.398  Sum_probs=19.7

Q ss_pred             hhcCCCceeEEEeCCCCCccCCc-cccccccCCEEeeCCCCcccC
Q 044539          173 ICKMFNFLRVLDLGSLVLIRYPS-EVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       173 ~~~~l~~LrvLdL~~~~i~~lP~-~I~~L~~LryL~L~~t~i~~L  216 (217)
                      .+.++++||||+|+++.+..+|+ ...+|..|+-|+|+|+.++.|
T Consensus       378 ~l~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSGNkL~~L  422 (1081)
T KOG0618|consen  378 VLVNFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSGNKLTTL  422 (1081)
T ss_pred             hhccccceeeeeecccccccCCHHHHhchHHhHHHhcccchhhhh
Confidence            34444444444444444444442 233444444444444444433

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

Probab=94.75  E-value=0.013  Score=47.73  Aligned_cols=45  Identities=24%  Similarity=0.135  Sum_probs=29.4

Q ss_pred             hhhcCCCceeEEEeCCCCCccCC--ccccccccCCEEeeCCCCcccC
Q 044539          172 KICKMFNFLRVLDLGSLVLIRYP--SEVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~lP--~~I~~L~~LryL~L~~t~i~~L  216 (217)
                      ..+.++..|..||+++++|+.+-  .+||+|+.|+.|.|.++.+..+
T Consensus       368 SGL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~NPl~~~  414 (490)
T KOG1259|consen  368 SGLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTGNPLAGS  414 (490)
T ss_pred             hhhHhhhhheeccccccchhhHHHhcccccccHHHHHhhcCCCcccc
Confidence            44566667777777777766443  4677777777777777666544

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

Probab=94.63  E-value=0.023  Score=46.38  Aligned_cols=41  Identities=32%  Similarity=0.236  Sum_probs=20.6

Q ss_pred             hcCCCceeEEEeCCCCCc-----cCCccccccccCCEEeeCCCCcc
Q 044539          174 CKMFNFLRVLDLGSLVLI-----RYPSEVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       174 ~~~l~~LrvLdL~~~~i~-----~lP~~I~~L~~LryL~L~~t~i~  214 (217)
                      +..++.|++|+|++|.+.     .++..+..+++|++|++++|.++
T Consensus       189 l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~l~  234 (319)
T cd00116         189 LKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDNNLT  234 (319)
T ss_pred             HHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCCcCc
Confidence            334445555555555543     23334445555555555555443

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).

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

Probab=94.40  E-value=0.025  Score=48.02  Aligned_cols=38  Identities=34%  Similarity=0.427  Sum_probs=19.0

Q ss_pred             ceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccC
Q 044539          179 FLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       179 ~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L  216 (217)
                      +|+.|+++++.+..+|..++.+++|+.|+++.+++.++
T Consensus       141 nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N~l~~l  178 (394)
T COG4886         141 NLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDL  178 (394)
T ss_pred             hcccccccccchhhhhhhhhccccccccccCCchhhhh
Confidence            45555555555555544455555555555555444433

>smart00370 LRR Leucine-rich repeats, outliers

Probab=94.39  E-value=0.029  Score=27.87  Aligned_cols=22  Identities=32%  Similarity=0.300  Sum_probs=18.9

Q ss_pred             CCceeEEEeCCCCCccCCcccc
Q 044539          177 FNFLRVLDLGSLVLIRYPSEVE  198 (217)
Q Consensus       177 l~~LrvLdL~~~~i~~lP~~I~  198 (217)
                      +++|+.|+|++++++.+|..+.
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~f   22 (26)
T smart00370        1 LPNLRELDLSNNQLSSLPPGAF   22 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHHc
Confidence            4678999999999999998754

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

Probab=94.39  E-value=0.029  Score=27.87  Aligned_cols=22  Identities=32%  Similarity=0.300  Sum_probs=18.9

Q ss_pred             CCceeEEEeCCCCCccCCcccc
Q 044539          177 FNFLRVLDLGSLVLIRYPSEVE  198 (217)
Q Consensus       177 l~~LrvLdL~~~~i~~lP~~I~  198 (217)
                      +++|+.|+|++++++.+|..+.
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~f   22 (26)
T smart00369        1 LPNLRELDLSNNQLSSLPPGAF   22 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHHc
Confidence            4678999999999999998754

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

Probab=94.34  E-value=0.0077  Score=49.02  Aligned_cols=82  Identities=16%  Similarity=0.111  Sum_probs=58.9

Q ss_pred             CceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEE
Q 044539          128 ENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYL  206 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL  206 (217)
                      .++|++-+..+... ......++ +|.-|.+.++.-.    ... ..-.++.+++.|.|.++.++.+ +.+++|..|.||
T Consensus       307 Pkir~L~lS~N~i~~v~nLa~L~-~L~~LDLS~N~Ls----~~~-Gwh~KLGNIKtL~La~N~iE~L-SGL~KLYSLvnL  379 (490)
T KOG1259|consen  307 PKLRRLILSQNRIRTVQNLAELP-QLQLLDLSGNLLA----ECV-GWHLKLGNIKTLKLAQNKIETL-SGLRKLYSLVNL  379 (490)
T ss_pred             cceeEEeccccceeeehhhhhcc-cceEeecccchhH----hhh-hhHhhhcCEeeeehhhhhHhhh-hhhHhhhhheec
Confidence            44577777666554 34455677 7777777765432    111 3335788899999999998876 579999999999


Q ss_pred             eeCCCCcccC
Q 044539          207 NLNIPSLKSL  216 (217)
Q Consensus       207 ~L~~t~i~~L  216 (217)
                      |+++++|.+|
T Consensus       380 Dl~~N~Ie~l  389 (490)
T KOG1259|consen  380 DLSSNQIEEL  389 (490)
T ss_pred             cccccchhhH
Confidence            9999998764

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=94.11  E-value=0.11  Score=48.10  Aligned_cols=25  Identities=4%  Similarity=-0.150  Sum_probs=17.3

Q ss_pred             HhHHHHHHHhhhcCCCCeecHHHHHHH
Q 044539           27 FYLKLCCLYLSVFLVYFEISTKQLYQL   53 (217)
Q Consensus        27 ~~lk~Cfl~~s~Fp~~~~i~~~~Li~~   53 (217)
                      .+..+|..+++--|.+.  .++++...
T Consensus        47 ~~a~~c~~~~~~~~~~~--~~~~~~~~   71 (788)
T PRK15387         47 TEALECIWTICHPPAGT--TREDVINR   71 (788)
T ss_pred             HHHHHHHHHHhCCCCCC--CHHHHHHH
Confidence            34788999988888765  46665543

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

Probab=93.81  E-value=0.036  Score=50.67  Aligned_cols=85  Identities=19%  Similarity=0.112  Sum_probs=48.5

Q ss_pred             CCceeEEEEeCCCCc---c-ccccCCCCCeeEEEEeCCCCCC-------------------CC--cccchhhhcCCCcee
Q 044539          127 RENVKRFTAHGNLND---F-EFLDHFDSFLHSLLHLTLGSHY-------------------LD--PNYCEKICKMFNFLR  181 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~---~-~~~~~~~~~LrsL~~~~~~~~~-------------------~~--~~l~~~~~~~l~~Lr  181 (217)
                      .+..|+|.+.+-...   + .--..+| +|++|.+.+.+-..                   ..  ..+  ..+-++++||
T Consensus       147 LPsL~sL~i~~~~~~~~dF~~lc~sFp-NL~sLDIS~TnI~nl~GIS~LknLq~L~mrnLe~e~~~~l--~~LF~L~~L~  223 (699)
T KOG3665|consen  147 LPSLRSLVISGRQFDNDDFSQLCASFP-NLRSLDISGTNISNLSGISRLKNLQVLSMRNLEFESYQDL--IDLFNLKKLR  223 (699)
T ss_pred             CcccceEEecCceecchhHHHHhhccC-ccceeecCCCCccCcHHHhccccHHHHhccCCCCCchhhH--HHHhcccCCC
Confidence            355678887764432   1 2234577 78888777654321                   00  111  2345677788


Q ss_pred             EEEeCCCCCccCCc-------cccccccCCEEeeCCCCcc
Q 044539          182 VLDLGSLVLIRYPS-------EVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       182 vLdL~~~~i~~lP~-------~I~~L~~LryL~L~~t~i~  214 (217)
                      |||++...-..-|.       .=..|++||+||.++|.+.
T Consensus       224 vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi~  263 (699)
T KOG3665|consen  224 VLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDIN  263 (699)
T ss_pred             eeeccccccccchHHHHHHHHhcccCccccEEecCCcchh
Confidence            88887655333331       2234778888888887764

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

Probab=93.75  E-value=0.039  Score=45.04  Aligned_cols=83  Identities=16%  Similarity=0.026  Sum_probs=51.0

Q ss_pred             eeEEEEeCCCCc-------cccccCC-CCCeeEEEEeCCCCCC-CCcccchhhhcCCCceeEEEeCCCCCc-----cCCc
Q 044539          130 VKRFTAHGNLND-------FEFLDHF-DSFLHSLLHLTLGSHY-LDPNYCEKICKMFNFLRVLDLGSLVLI-----RYPS  195 (217)
Q Consensus       130 ~r~ls~~~~~~~-------~~~~~~~-~~~LrsL~~~~~~~~~-~~~~l~~~~~~~l~~LrvLdL~~~~i~-----~lP~  195 (217)
                      .+++.+..+...       ....... + +++.|.+.++.... ....+. ..+..+..|+.|+|+++.+.     .++.
T Consensus       110 L~~L~ls~~~~~~~~~~~l~~~l~~~~~-~L~~L~L~~n~l~~~~~~~~~-~~~~~~~~L~~L~l~~n~l~~~~~~~l~~  187 (319)
T cd00116         110 LQELKLNNNGLGDRGLRLLAKGLKDLPP-ALEKLVLGRNRLEGASCEALA-KALRANRDLKELNLANNGIGDAGIRALAE  187 (319)
T ss_pred             ccEEEeeCCccchHHHHHHHHHHHhCCC-CceEEEcCCCcCCchHHHHHH-HHHHhCCCcCEEECcCCCCchHHHHHHHH
Confidence            667777665433       1123344 6 78888877665321 001122 45667778888888888765     3445


Q ss_pred             cccccccCCEEeeCCCCcc
Q 044539          196 EVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       196 ~I~~L~~LryL~L~~t~i~  214 (217)
                      .+..+.+|++|++++|.+.
T Consensus       188 ~l~~~~~L~~L~L~~n~i~  206 (319)
T cd00116         188 GLKANCNLEVLDLNNNGLT  206 (319)
T ss_pred             HHHhCCCCCEEeccCCccC
Confidence            5556678888888888764

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).

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

Probab=93.58  E-value=0.072  Score=42.31  Aligned_cols=70  Identities=17%  Similarity=0.077  Sum_probs=46.9

Q ss_pred             cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccc---cccccCCEEeeCCCCccc
Q 044539          142 FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEV---ENLFLLRYLNLNIPSLKS  215 (217)
Q Consensus       142 ~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I---~~L~~LryL~L~~t~i~~  215 (217)
                      +.....++ +|+.|.++.+... ...-++ ....+.++|++|.|+++++.. ++++   -+|.+|..|++..|.++.
T Consensus        58 ~~~~P~Lp-~LkkL~lsdn~~~-~~~~l~-vl~e~~P~l~~l~ls~Nki~~-lstl~pl~~l~nL~~Ldl~n~~~~~  130 (260)
T KOG2739|consen   58 LTNFPKLP-KLKKLELSDNYRR-VSGGLE-VLAEKAPNLKVLNLSGNKIKD-LSTLRPLKELENLKSLDLFNCSVTN  130 (260)
T ss_pred             cccCCCcc-hhhhhcccCCccc-ccccce-ehhhhCCceeEEeecCCcccc-ccccchhhhhcchhhhhcccCCccc
Confidence            44566777 8888888776332 112233 445666899999999988653 4444   466678888888887764

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

Probab=93.34  E-value=0.031  Score=47.41  Aligned_cols=62  Identities=23%  Similarity=0.099  Sum_probs=45.9

Q ss_pred             CeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccCC
Q 044539          151 FLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       151 ~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L~  217 (217)
                      +++.|.+.++...    .++ ..+..++.|+.|+++.+++.++|...+.+..|+.|+++++++..+|
T Consensus       141 nL~~L~l~~N~i~----~l~-~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~L~ls~N~i~~l~  202 (394)
T COG4886         141 NLKELDLSDNKIE----SLP-SPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNKISDLP  202 (394)
T ss_pred             hcccccccccchh----hhh-hhhhccccccccccCCchhhhhhhhhhhhhhhhheeccCCccccCc
Confidence            5666666554432    222 3577888888888888888888888888888888888888887765

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

Probab=93.32  E-value=0.024  Score=41.06  Aligned_cols=80  Identities=16%  Similarity=0.033  Sum_probs=55.9

Q ss_pred             EEEEeCCCCc-ccc--ccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEee
Q 044539          132 RFTAHGNLND-FEF--LDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNL  208 (217)
Q Consensus       132 ~ls~~~~~~~-~~~--~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L  208 (217)
                      .+++..+... ++.  ...++ .+.+|.+.++.-    ..+| ..+..++.||.|.++.+.+...|.-|..|++|-||+.
T Consensus        57 ~i~ls~N~fk~fp~kft~kf~-t~t~lNl~~nei----sdvP-eE~Aam~aLr~lNl~~N~l~~~p~vi~~L~~l~~Lds  130 (177)
T KOG4579|consen   57 KISLSDNGFKKFPKKFTIKFP-TATTLNLANNEI----SDVP-EELAAMPALRSLNLRFNPLNAEPRVIAPLIKLDMLDS  130 (177)
T ss_pred             EEecccchhhhCCHHHhhccc-hhhhhhcchhhh----hhch-HHHhhhHHhhhcccccCccccchHHHHHHHhHHHhcC
Confidence            3455555443 222  33455 566666555433    2355 5588999999999999999999999999999999999


Q ss_pred             CCCCcccCC
Q 044539          209 NIPSLKSLL  217 (217)
Q Consensus       209 ~~t~i~~L~  217 (217)
                      .++.+.+++
T Consensus       131 ~~na~~eid  139 (177)
T KOG4579|consen  131 PENARAEID  139 (177)
T ss_pred             CCCccccCc
Confidence            888776653

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

Probab=93.23  E-value=0.049  Score=46.75  Aligned_cols=63  Identities=21%  Similarity=0.179  Sum_probs=40.7

Q ss_pred             CCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccC
Q 044539          147 HFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       147 ~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L  216 (217)
                      .+. .+..+.+.++...   . +. ..+..+.+|++|+|+++.|..+. .+..|..|+.|+++++.|+.+
T Consensus        93 ~~~-~l~~l~l~~n~i~---~-i~-~~l~~~~~L~~L~ls~N~I~~i~-~l~~l~~L~~L~l~~N~i~~~  155 (414)
T KOG0531|consen   93 KLK-SLEALDLYDNKIE---K-IE-NLLSSLVNLQVLDLSFNKITKLE-GLSTLTLLKELNLSGNLISDI  155 (414)
T ss_pred             ccc-ceeeeeccccchh---h-cc-cchhhhhcchheecccccccccc-chhhccchhhheeccCcchhc
Confidence            344 5555555554321   1 11 22667888888888888877664 577777788888888877653

>PRK15386 type III secretion protein GogB; Provisional

Probab=92.36  E-value=0.31  Score=41.76  Aligned_cols=78  Identities=17%  Similarity=0.062  Sum_probs=41.2

Q ss_pred             CCCceeEEEEeCCCCc--cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCC---CccCCcccccc
Q 044539          126 LRENVKRFTAHGNLND--FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLV---LIRYPSEVENL  200 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~--~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~---i~~lP~~I~~L  200 (217)
                      .|..++.|.+......  .+.. -.+ .|+.|.+.++..  . ..+|       ..|+.|++.++.   +..+|+++..|
T Consensus        70 LP~sLtsL~Lsnc~nLtsLP~~-LP~-nLe~L~Ls~Cs~--L-~sLP-------~sLe~L~L~~n~~~~L~~LPssLk~L  137 (426)
T PRK15386         70 LPNELTEITIENCNNLTTLPGS-IPE-GLEKLTVCHCPE--I-SGLP-------ESVRSLEIKGSATDSIKNVPNGLTSL  137 (426)
T ss_pred             CCCCCcEEEccCCCCcccCCch-hhh-hhhheEccCccc--c-cccc-------cccceEEeCCCCCcccccCcchHhhe
Confidence            3455666666543221  1111 123 666666655422  1 1122       235556665544   56788777766


Q ss_pred             c------------------cCCEEeeCCCCccc
Q 044539          201 F------------------LLRYLNLNIPSLKS  215 (217)
Q Consensus       201 ~------------------~LryL~L~~t~i~~  215 (217)
                      .                  .|++|++++|....
T Consensus       138 ~I~~~n~~~~~~lp~~LPsSLk~L~Is~c~~i~  170 (426)
T PRK15386        138 SINSYNPENQARIDNLISPSLKTLSLTGCSNII  170 (426)
T ss_pred             eccccccccccccccccCCcccEEEecCCCccc
Confidence            3                  68888888776543

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

Probab=92.04  E-value=0.022  Score=50.07  Aligned_cols=45  Identities=22%  Similarity=0.196  Sum_probs=29.8

Q ss_pred             hhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccCC
Q 044539          172 KICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L~  217 (217)
                      ..+..+..||.|.+..+++..+|++++.| -|..||+++++|..||
T Consensus       183 sql~~l~slr~l~vrRn~l~~lp~El~~L-pLi~lDfScNkis~iP  227 (722)
T KOG0532|consen  183 SQLGYLTSLRDLNVRRNHLEDLPEELCSL-PLIRLDFSCNKISYLP  227 (722)
T ss_pred             HHhhhHHHHHHHHHhhhhhhhCCHHHhCC-ceeeeecccCceeecc
Confidence            55666666666666666666677766644 4666777777776665

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

Probab=91.57  E-value=0.12  Score=45.99  Aligned_cols=44  Identities=23%  Similarity=0.187  Sum_probs=36.1

Q ss_pred             hhhcCCCceeEEEeCCCCCccCCccccc-cccCCEEeeCCCCccc
Q 044539          172 KICKMFNFLRVLDLGSLVLIRYPSEVEN-LFLLRYLNLNIPSLKS  215 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~lP~~I~~-L~~LryL~L~~t~i~~  215 (217)
                      ..|.++..|-+|.|+.++++.+|..+.+ |.+|+.|+|..+.|+.
T Consensus       191 ~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN~iri  235 (873)
T KOG4194|consen  191 GHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNRNRIRI  235 (873)
T ss_pred             ccccccchheeeecccCcccccCHHHhhhcchhhhhhccccceee
Confidence            6677888888899998888888876665 9999999998887753

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

Probab=91.21  E-value=0.3  Score=43.53  Aligned_cols=61  Identities=16%  Similarity=-0.019  Sum_probs=39.7

Q ss_pred             CeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCccc
Q 044539          151 FLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKS  215 (217)
Q Consensus       151 ~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~  215 (217)
                      ..++|.+.++.-.   ++-. .+|-++.+|+.+.+..+.++.+|.-++..-||+.|+|+++.|++
T Consensus        79 ~t~~LdlsnNkl~---~id~-~~f~nl~nLq~v~l~~N~Lt~IP~f~~~sghl~~L~L~~N~I~s  139 (873)
T KOG4194|consen   79 QTQTLDLSNNKLS---HIDF-EFFYNLPNLQEVNLNKNELTRIPRFGHESGHLEKLDLRHNLISS  139 (873)
T ss_pred             ceeeeeccccccc---cCcH-HHHhcCCcceeeeeccchhhhcccccccccceeEEeeecccccc
Confidence            6677777665432   1222 56677777777777777777777766666677777777766654

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

Probab=90.81  E-value=0.15  Score=43.72  Aligned_cols=82  Identities=16%  Similarity=0.147  Sum_probs=59.2

Q ss_pred             CCceeEEEEeCCCCc-ccc-ccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCC
Q 044539          127 RENVKRFTAHGNLND-FEF-LDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLR  204 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~~-~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lr  204 (217)
                      ......+.+..+... +.. ...++ +|+.|.+.++...    .+  ..+..+..|+.|++++|.|..++ .+..|+.|+
T Consensus        94 ~~~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   94 LKSLEALDLYDNKIEKIENLLSSLV-NLQVLDLSFNKIT----KL--EGLSTLTLLKELNLSGNLISDIS-GLESLKSLK  165 (414)
T ss_pred             ccceeeeeccccchhhcccchhhhh-cchheeccccccc----cc--cchhhccchhhheeccCcchhcc-CCccchhhh
Confidence            455666777666655 444 56688 9999988876543    11  55677777999999999987665 455689999


Q ss_pred             EEeeCCCCcccC
Q 044539          205 YLNLNIPSLKSL  216 (217)
Q Consensus       205 yL~L~~t~i~~L  216 (217)
                      +|+++++.|+.+
T Consensus       166 ~l~l~~n~i~~i  177 (414)
T KOG0531|consen  166 LLDLSYNRIVDI  177 (414)
T ss_pred             cccCCcchhhhh
Confidence            999999887654

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

Probab=90.48  E-value=0.14  Score=43.38  Aligned_cols=49  Identities=24%  Similarity=0.107  Sum_probs=31.2

Q ss_pred             ccchhhhcCCCceeEEEeCCCCCc-cCCccccccccCCEEeeCC-CCcccCC
Q 044539          168 NYCEKICKMFNFLRVLDLGSLVLI-RYPSEVENLFLLRYLNLNI-PSLKSLL  217 (217)
Q Consensus       168 ~l~~~~~~~l~~LrvLdL~~~~i~-~lP~~I~~L~~LryL~L~~-t~i~~L~  217 (217)
                      +.+ ..|+.++.||.|||+.+.|+ --|+.+..|..|-.|-+-+ ++|++||
T Consensus        82 iP~-~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~  132 (498)
T KOG4237|consen   82 IPP-GAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLP  132 (498)
T ss_pred             CCh-hhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhh
Confidence            444 77777777777777777766 3355566666555555544 6666654

>PRK15386 type III secretion protein GogB; Provisional

Probab=90.47  E-value=0.3  Score=41.88  Aligned_cols=64  Identities=11%  Similarity=-0.043  Sum_probs=39.6

Q ss_pred             CceeEEEEeCCCCccccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCC-CCccCCccccc
Q 044539          128 ENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSL-VLIRYPSEVEN  199 (217)
Q Consensus       128 ~~~r~ls~~~~~~~~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~-~i~~lP~~I~~  199 (217)
                      ...++|.+......  ....+|..|++|.+.++..   ...+| ..+  ...|+.|++++| .+..+|+++..
T Consensus        52 ~~l~~L~Is~c~L~--sLP~LP~sLtsL~Lsnc~n---LtsLP-~~L--P~nLe~L~Ls~Cs~L~sLP~sLe~  116 (426)
T PRK15386         52 RASGRLYIKDCDIE--SLPVLPNELTEITIENCNN---LTTLP-GSI--PEGLEKLTVCHCPEISGLPESVRS  116 (426)
T ss_pred             cCCCEEEeCCCCCc--ccCCCCCCCcEEEccCCCC---cccCC-chh--hhhhhheEccCcccccccccccce
Confidence            34567777765332  2224554799998877544   12333 333  257899999998 58888876433

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

Probab=90.45  E-value=0.099  Score=44.63  Aligned_cols=85  Identities=19%  Similarity=0.038  Sum_probs=57.8

Q ss_pred             CCceeEEEEeCCCCccc----cccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc--cccc
Q 044539          127 RENVKRFTAHGNLNDFE----FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE--VENL  200 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~~~----~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~--I~~L  200 (217)
                      .++.|.+++........    -...++ ++|.|.+..+-.. ....+. .+...+++|+.|.|+.+.+...-++  -+.+
T Consensus       120 ~kkL~~IsLdn~~V~~~~~~~~~k~~~-~v~~LdLS~NL~~-nw~~v~-~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l  196 (505)
T KOG3207|consen  120 LKKLREISLDNYRVEDAGIEEYSKILP-NVRDLDLSRNLFH-NWFPVL-KIAEQLPSLENLNLSSNRLSNFISSNTTLLL  196 (505)
T ss_pred             HHhhhheeecCccccccchhhhhhhCC-cceeecchhhhHH-hHHHHH-HHHHhcccchhcccccccccCCccccchhhh
Confidence            34556666655544321    356788 9999988776543 222334 7888999999999999886522222  2367


Q ss_pred             ccCCEEeeCCCCcc
Q 044539          201 FLLRYLNLNIPSLK  214 (217)
Q Consensus       201 ~~LryL~L~~t~i~  214 (217)
                      .||+.|.|+.|++.
T Consensus       197 ~~lK~L~l~~CGls  210 (505)
T KOG3207|consen  197 SHLKQLVLNSCGLS  210 (505)
T ss_pred             hhhheEEeccCCCC
Confidence            89999999999875

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

Probab=89.99  E-value=0.21  Score=44.21  Aligned_cols=35  Identities=23%  Similarity=0.285  Sum_probs=22.4

Q ss_pred             eeEEEeCCCCCccCCccccccccCCEEeeCCCCcc
Q 044539          180 LRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       180 LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~  214 (217)
                      |.-||++++++..+|-++.+|.||+||-|.++.+.
T Consensus       213 Li~lDfScNkis~iPv~fr~m~~Lq~l~LenNPLq  247 (722)
T KOG0532|consen  213 LIRLDFSCNKISYLPVDFRKMRHLQVLQLENNPLQ  247 (722)
T ss_pred             eeeeecccCceeecchhhhhhhhheeeeeccCCCC
Confidence            44566666666666666666666666666665543

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

Probab=89.38  E-value=0.38  Score=39.98  Aligned_cols=43  Identities=26%  Similarity=0.204  Sum_probs=32.5

Q ss_pred             hhhcCCCceeEEEeCCCCCc-----cCCccccccccCCEEeeCCCCcc
Q 044539          172 KICKMFNFLRVLDLGSLVLI-----RYPSEVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~-----~lP~~I~~L~~LryL~L~~t~i~  214 (217)
                      ..+..+++||||||..+.++     .+-+-++.++|||-|+++.|.++
T Consensus       207 eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dcll~  254 (382)
T KOG1909|consen  207 EALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDCLLE  254 (382)
T ss_pred             HHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeecccccccc
Confidence            66788888888888887754     34455667788888888888765

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

Probab=88.97  E-value=0.31  Score=24.37  Aligned_cols=16  Identities=31%  Similarity=0.314  Sum_probs=9.2

Q ss_pred             cccCCEEeeCCCCccc
Q 044539          200 LFLLRYLNLNIPSLKS  215 (217)
Q Consensus       200 L~~LryL~L~~t~i~~  215 (217)
                      |.+|+.|+|+++.|+.
T Consensus         1 L~~L~~L~L~~NkI~~   16 (26)
T smart00365        1 LTNLEELDLSQNKIKK   16 (26)
T ss_pred             CCccCEEECCCCccce
Confidence            3456666666665554

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

Probab=87.71  E-value=0.35  Score=41.01  Aligned_cols=36  Identities=19%  Similarity=0.268  Sum_probs=31.0

Q ss_pred             eEEEeCCCCCccCCc-cccccccCCEEeeCCCCcccC
Q 044539          181 RVLDLGSLVLIRYPS-EVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       181 rvLdL~~~~i~~lP~-~I~~L~~LryL~L~~t~i~~L  216 (217)
                      .-++|+.++|+.+|+ .++.|++||-||||.++|+.+
T Consensus        70 veirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I  106 (498)
T KOG4237|consen   70 VEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFI  106 (498)
T ss_pred             eEEEeccCCcccCChhhccchhhhceecccccchhhc
Confidence            457899999999995 667999999999999999764

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

Probab=87.36  E-value=0.17  Score=43.26  Aligned_cols=32  Identities=16%  Similarity=-0.006  Sum_probs=15.7

Q ss_pred             CceeEEEEeCCCCc----cccccCCCCCeeEEEEeCC
Q 044539          128 ENVKRFTAHGNLND----FEFLDHFDSFLHSLLHLTL  160 (217)
Q Consensus       128 ~~~r~ls~~~~~~~----~~~~~~~~~~LrsL~~~~~  160 (217)
                      ....+|.+.+....    ......+| .+..|.+.++
T Consensus       197 ~~lK~L~l~~CGls~k~V~~~~~~fP-sl~~L~L~~N  232 (505)
T KOG3207|consen  197 SHLKQLVLNSCGLSWKDVQWILLTFP-SLEVLYLEAN  232 (505)
T ss_pred             hhhheEEeccCCCCHHHHHHHHHhCC-cHHHhhhhcc
Confidence            34556666555443    11233455 5555555554

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

Probab=86.82  E-value=1.1  Score=34.75  Aligned_cols=36  Identities=19%  Similarity=0.038  Sum_probs=15.4

Q ss_pred             hcCCCceeEEEeCCCCCccCCc----cccccccCCEEeeC
Q 044539          174 CKMFNFLRVLDLGSLVLIRYPS----EVENLFLLRYLNLN  209 (217)
Q Consensus       174 ~~~l~~LrvLdL~~~~i~~lP~----~I~~L~~LryL~L~  209 (217)
                      +..++.|+.|.+-++.+++.+.    -|.++++||.||.+
T Consensus       109 La~~p~L~~Ltll~Npv~~k~~YR~yvl~klp~l~~LDF~  148 (233)
T KOG1644|consen  109 LASCPKLEYLTLLGNPVEHKKNYRLYVLYKLPSLRTLDFQ  148 (233)
T ss_pred             hccCCccceeeecCCchhcccCceeEEEEecCcceEeehh
Confidence            3334444444444444332221    23444555555543

>PF13516 LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RIZ_A 3RGX_A 1DFJ_I 2BNH_A 3VQ1_A 3VQ2_A 2Z64_A 2OMX_A

Probab=86.81  E-value=0.33  Score=23.44  Aligned_cols=14  Identities=21%  Similarity=0.150  Sum_probs=8.3

Q ss_pred             ccCCEEeeCCCCcc
Q 044539          201 FLLRYLNLNIPSLK  214 (217)
Q Consensus       201 ~~LryL~L~~t~i~  214 (217)
                      ++|++|+|++|.|.
T Consensus         2 ~~L~~L~l~~n~i~   15 (24)
T PF13516_consen    2 PNLETLDLSNNQIT   15 (24)
T ss_dssp             TT-SEEE-TSSBEH
T ss_pred             CCCCEEEccCCcCC
Confidence            56777777777664

...

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

Probab=86.66  E-value=0.44  Score=37.95  Aligned_cols=44  Identities=20%  Similarity=0.113  Sum_probs=35.3

Q ss_pred             hhhcCCCceeEEEeCCC--CCc-cCCccccccccCCEEeeCCCCccc
Q 044539          172 KICKMFNFLRVLDLGSL--VLI-RYPSEVENLFLLRYLNLNIPSLKS  215 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~--~i~-~lP~~I~~L~~LryL~L~~t~i~~  215 (217)
                      ..+..+++|+.|+++.+  ++. .++-...++++|++|++++++|+-
T Consensus        59 ~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~  105 (260)
T KOG2739|consen   59 TNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKD  105 (260)
T ss_pred             ccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCcccc
Confidence            45667889999999998  433 666666677999999999999873

>smart00364 LRR_BAC Leucine-rich repeats, bacterial type

Probab=86.19  E-value=0.49  Score=23.64  Aligned_cols=16  Identities=38%  Similarity=0.353  Sum_probs=9.4

Q ss_pred             cCCEEeeCCCCcccCC
Q 044539          202 LLRYLNLNIPSLKSLL  217 (217)
Q Consensus       202 ~LryL~L~~t~i~~L~  217 (217)
                      +|++|+++++++++||
T Consensus         3 ~L~~L~vs~N~Lt~LP   18 (26)
T smart00364        3 SLKELNVSNNQLTSLP   18 (26)
T ss_pred             ccceeecCCCccccCc
Confidence            4556666666665554

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

Probab=84.45  E-value=0.12  Score=40.69  Aligned_cols=45  Identities=7%  Similarity=-0.251  Sum_probs=40.4

Q ss_pred             ccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCc
Q 044539          168 NYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSL  213 (217)
Q Consensus       168 ~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i  213 (217)
                      ++| ..+++...++-+++..+..+.+|.|.++++|+||+++.+|.+
T Consensus        79 ~~~-~d~~q~~e~~~~~~~~n~~~~~p~s~~k~~~~k~~e~k~~~~  123 (326)
T KOG0473|consen   79 FLP-KDAKQQRETVNAASHKNNHSQQPKSQKKEPHPKKNEQKKTEF  123 (326)
T ss_pred             hCh-hhHHHHHHHHHHHhhccchhhCCccccccCCcchhhhccCcc
Confidence            566 778888899999999999999999999999999999998864

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=82.98  E-value=0.68  Score=38.01  Aligned_cols=13  Identities=38%  Similarity=0.337  Sum_probs=6.6

Q ss_pred             CCceeEEEeCCCC
Q 044539          177 FNFLRVLDLGSLV  189 (217)
Q Consensus       177 l~~LrvLdL~~~~  189 (217)
                      .++||+|-|.|+.
T Consensus       120 ~~nl~~lVLNgT~  132 (418)
T KOG2982|consen  120 LKNLRVLVLNGTG  132 (418)
T ss_pred             ccceEEEEEcCCC
Confidence            3455555555544

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

Probab=81.93  E-value=0.31  Score=35.43  Aligned_cols=43  Identities=28%  Similarity=0.342  Sum_probs=23.3

Q ss_pred             hhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcc
Q 044539          172 KICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~  214 (217)
                      .+..++.-+..|.|+++.|.++|.++..+.-||.|+++.+.+.
T Consensus        71 kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~N~l~  113 (177)
T KOG4579|consen   71 KFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLRFNPLN  113 (177)
T ss_pred             HHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcccccCccc
Confidence            3444444555555555555555555555555555555555443

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=80.88  E-value=0.67  Score=35.72  Aligned_cols=65  Identities=22%  Similarity=0.063  Sum_probs=40.8

Q ss_pred             ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCC-Ccc-CCccccccccCCEEeeCC
Q 044539          143 EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLV-LIR-YPSEVENLFLLRYLNLNI  210 (217)
Q Consensus       143 ~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~-i~~-lP~~I~~L~~LryL~L~~  210 (217)
                      ....+++ .+++|.+.++..- ....+. ..-.-..+|+.|+|++|. |++ =...+.+|++||-|.|++
T Consensus       119 e~L~~l~-~i~~l~l~~ck~~-dD~~L~-~l~~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~l~~  185 (221)
T KOG3864|consen  119 EHLRDLR-SIKSLSLANCKYF-DDWCLE-RLGGLAPSLQDLDLSGCPRITDGGLACLLKLKNLRRLHLYD  185 (221)
T ss_pred             HHHhccc-hhhhheeccccch-hhHHHH-HhcccccchheeeccCCCeechhHHHHHHHhhhhHHHHhcC
Confidence            3455666 6777766655431 111122 222356789999999998 662 235678889999988875

---

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	217
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-08
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	3e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-04

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score = 52.5 bits (126), Expect = 2e-08
 Identities = 15/76 (19%), Positives = 25/76 (32%), Gaps = 10/76 (13%)

Query: 22  YCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEAIAERYLEQLINGGFV 81
             ML   +K     LS+     ++ TK L  LW  E           E  L++ +N   +
Sbjct: 372 VEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDMETE-------EVEDILQEFVNKSLL 424

Query: 82  DVGKKSDRGRINTCSI 97
                   G+     +
Sbjct: 425 ---FCDRNGKSFRYYL 437

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549

 Score = 52.3 bits (125), Expect = 3e-08
 Identities = 12/78 (15%), Positives = 24/78 (30%), Gaps = 5/78 (6%)

Query: 22  YCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNN--EAIAERYLEQLINGG 79
             +L    +    +  V     +I  K    +   +    +    +      L++L   G
Sbjct: 382 VEVLSDEDRSALAFAVVMPPGVDIPVKLWSCVIPVDICSNEEEQLDDEVADRLKRLSKRG 441

Query: 80  FVDVGKKSDRGRINTCSI 97
            +  GK   R  + T  I
Sbjct: 442 ALLSGK---RMPVLTFKI 456

>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 = 39.5 bits (91), Expect = 6e-04
 Identities = 52/247 (21%), Positives = 83/247 (33%), Gaps = 75/247 (30%)

Query: 3   LKENIK---EVLD--ELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAE 57
           L   I+    VL+  E R            + +L     SVF     I T  L  +W   
Sbjct: 355 LTTIIESSLNVLEPAEYR----------KMFDRL-----SVFPPSAHIPTILLSLIW--- 396

Query: 58  GFIPDNNEAIAERYLEQLINGGFVDVGKKSDRGRINTCSIPGRCSL----AL-------- 105
               D  ++     + +L     V+   K     I +  +  +  L    AL        
Sbjct: 397 ---FDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHY 453

Query: 106 -LTGAFEGEFVISPIMDQ--------EVKLRENVKRFTAHGNL-NDFEFLD----HFD-- 149
            +   F+ + +I P +DQ         +K  E+ +R T    +  DF FL+    H    
Sbjct: 454 NIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTA 513

Query: 150 -----SFLHSLLHLTLGSHYL---DPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLF 201
                S L++L  L     Y+   DP Y   +  + +FL             P   ENL 
Sbjct: 514 WNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFL-------------PKIEENLI 560

Query: 202 LLRYLNL 208
             +Y +L
Sbjct: 561 CSKYTDL 567

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	217
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.77
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.5
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.43
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.24
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.42
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.38
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.37
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.36
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.33
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.33
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.33
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.33
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.3
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.28
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	98.28
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.27
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	98.27
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.26
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.26
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.26
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	98.25
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	98.24
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.23
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	98.2
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	98.18
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	98.17
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	98.17
3m19_A	251	Variable lymphocyte receptor A diversity region; a	98.16
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	98.15
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	98.14
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	98.14
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.14
3m19_A	251	Variable lymphocyte receptor A diversity region; a	98.13
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	98.11
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	98.09
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	98.08
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	98.07
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	98.07
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	98.07
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	98.06
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.05
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	98.05
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	98.05
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	98.05
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	98.04
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	98.03
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	98.03
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	98.02
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.02
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.01
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	98.01
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	98.0
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	97.99
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	97.99
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	97.99
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	97.99
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	97.99
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	97.98
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	97.98
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	97.98
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	97.97
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	97.97
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	97.97
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	97.97
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	97.96
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	97.95
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	97.95
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	97.95
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	97.95
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.95
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	97.94
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	97.94
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	97.94
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	97.93
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	97.92
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	97.91
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	97.91
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	97.89
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	97.89
1o6v_A	466	Internalin A; bacterial infection, extracellular r	97.88
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	97.87
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	97.86
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	97.83
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	97.83
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	97.82
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	97.8
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	97.78
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	97.78
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	97.74
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	97.74
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	97.71
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	97.69
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	97.69
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	97.68
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	97.68
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	97.67
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	97.64
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	97.64
1o6v_A	466	Internalin A; bacterial infection, extracellular r	97.64
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	97.63
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	97.62
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	97.6
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	97.59
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	97.58
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	97.57
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	97.56
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	97.54
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	97.53
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	97.51
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	97.5
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	97.5
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	97.49
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	97.49
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	97.48
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	97.47
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	97.45
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	97.45
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	97.45
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	97.36
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	97.34
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	97.34
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	97.32
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	97.25
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.21
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	97.16
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	97.13
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	97.12
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	97.11
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	97.11
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	97.06
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	97.0
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	96.9
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	96.88
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	96.55
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	96.42
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	96.26
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	96.23
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	96.04
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	95.75
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	95.34
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	95.0
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	94.98
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	94.88
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	94.66
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	94.42
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	94.27
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	94.24
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	94.21
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	93.96
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	93.85
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	93.48
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	91.67
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	89.84
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	85.75
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	84.86

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=99.77  E-value=3.8e-20  Score=161.84  Aligned_cols=95  Identities=20%  Similarity=0.217  Sum_probs=80.3

Q ss_pred             HHHHHHHHHccccchHhHHHHHH-----------HhhhcCCCCeecHHHHHHHHHHc--CCCCCC-----hHHHHHHHHH
Q 044539           12 DELRGLQVVAYCMLHFYLKLCCL-----------YLSVFLVYFEISTKQLYQLWIAE--GFIPDN-----NEAIAERYLE   73 (217)
Q Consensus        12 ~~i~~~l~lsY~~Lp~~lk~Cfl-----------~~s~Fp~~~~i~~~~Li~~Wiae--G~i~~~-----~e~~~~~~~~   73 (217)
                      +++.+++++||++||.++|.||+           |||+||+|+.|+    +++|+|+  ||+...     .+++|+ ||+
T Consensus       361 ~~i~~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~----i~~w~a~~~G~i~~~~~~~~~~~~~~-~l~  435 (549)
T 2a5y_B          361 VGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIP----VKLWSCVIPVDICSNEEEQLDDEVAD-RLK  435 (549)
T ss_dssp             STTCCCSSSSSSSHHHHHHHHHHTSCHHHHHHTTGGGSSCTTCCEE----HHHHHHHSCC-------CCCTHHHHH-HHH
T ss_pred             HHHHHHHhcccccccHHHHHHHhccchhhhhHhhheeeeCCCCeee----eeeeeeeccceeccCCCCCCHHHHHH-HHH
Confidence            34667889999999999999999           999999999999    8999999  999753     788888 999


Q ss_pred             HHHhCCCccceecCCCCCeeEEEeChhHHHHHHHhhcccce
Q 044539           74 QLINGGFVDVGKKSDRGRINTCSIPGRCSLALLTGAFEGEF  114 (217)
Q Consensus        74 ~L~~r~l~~~~~~~~~~~~~~~~mhdlv~dla~~i~~~e~~  114 (217)
                      +|+++||+++...+   ....|+|||+||++|+.++.++++
T Consensus       436 ~L~~rsLl~~~~~~---~~~~~~mHdlv~~~a~~~~~~~~~  473 (549)
T 2a5y_B          436 RLSKRGALLSGKRM---PVLTFKIDHIIHMFLKHVVDAQTI  473 (549)
T ss_dssp             HTTTBSSCSEEECS---SSCEEECCHHHHHHHHTTSCTHHH
T ss_pred             HHHHcCCeeEecCC---CceEEEeChHHHHHHHHHHHHHHH
Confidence            99999999987643   346799999999999999987654

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=99.50  E-value=4.2e-14  Score=133.27  Aligned_cols=92  Identities=18%  Similarity=0.152  Sum_probs=82.6

Q ss_pred             HHHHHHHHHHccccchHhHHHHHHHhhhcCCCCeecHHHHHHHHHHcCCCCCChHHHHHHHHHHHHhCCCccceecCCCC
Q 044539           11 LDELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEAIAERYLEQLINGGFVDVGKKSDRG   90 (217)
Q Consensus        11 ~~~i~~~l~lsY~~Lp~~lk~Cfl~~s~Fp~~~~i~~~~Li~~WiaeG~i~~~~e~~~~~~~~~L~~r~l~~~~~~~~~~   90 (217)
                      .+.+..++.+||+.||.++|.||+|||+||+++.|+++.++++|.++       ++.++.++++|+++||++...   .+
T Consensus       361 ~~~~~~~l~~s~~~L~~~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~-------~~~~~~~l~~L~~~sl~~~~~---~~  430 (1249)
T 3sfz_A          361 YEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLE-------TEEVEDILQEFVNKSLLFCNR---NG  430 (1249)
T ss_dssp             HHHHHHHHHHHHHTSCTTTHHHHHHGGGSCTTCCEEHHHHHHHHTCC-------HHHHHHHHHHHHHTTSCEEEE---SS
T ss_pred             hHHHHHHHHHHHHhCCHHHHHHHHHhCccCCCCeeCHHHHHHHhCCC-------HHHHHHHHHHHHhccceEEec---CC
Confidence            46799999999999999999999999999999999999999999776       577999999999999999764   34


Q ss_pred             CeeEEEeChhHHHHHHHhhccc
Q 044539           91 RINTCSIPGRCSLALLTGAFEG  112 (217)
Q Consensus        91 ~~~~~~mhdlv~dla~~i~~~e  112 (217)
                      ....|+||++||++|+..+.++
T Consensus       431 ~~~~~~~h~l~~~~~~~~~~~~  452 (1249)
T 3sfz_A          431 KSFCYYLHDLQVDFLTEKNRSQ  452 (1249)
T ss_dssp             SSEEEECCHHHHHHHHHHTGGG
T ss_pred             CceEEEecHHHHHHHHhhhhHH
Confidence            4567999999999999987665

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

Probab=99.43  E-value=1.3e-13  Score=126.08  Aligned_cols=85  Identities=20%  Similarity=0.104  Sum_probs=75.2

Q ss_pred             HHHHHHHHHHccccchHhH-HHHHHHhhhcCCCCeecHHHHHHHHHHcCCCCCChHHHHHHHHHHHHhCCCccceecCCC
Q 044539           11 LDELRGLQVVAYCMLHFYL-KLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEAIAERYLEQLINGGFVDVGKKSDR   89 (217)
Q Consensus        11 ~~~i~~~l~lsY~~Lp~~l-k~Cfl~~s~Fp~~~~i~~~~Li~~WiaeG~i~~~~e~~~~~~~~~L~~r~l~~~~~~~~~   89 (217)
                      .+.+..+|.+||+.||.+. |.||+|||+||+++.|+++.++.+|+++|      ++.++.++++|+++||++..     
T Consensus       352 ~~~I~aaLelSYd~Lp~eelK~cFL~LAIFPed~~I~~elLa~LW~aeG------eedAe~~L~eLvdRSLLq~d-----  420 (1221)
T 1vt4_I          352 CDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI------KSDVMVVVNKLHKYSLVEKQ-----  420 (1221)
T ss_dssp             CHHHHHHHHHHHHHSCTTHHHHHHHHTTSSCTTSCEEHHHHHHHHCSSC------SHHHHHHHHHHHTSSSSSBC-----
T ss_pred             hhHHHHHHHHHHHhCCHHHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCC------HHHHHHHHHHHHhhCCEEEe-----
Confidence            3679999999999999998 99999999999999999999999999998      24588999999999999983     


Q ss_pred             CCeeEEEeChhHHHHHH
Q 044539           90 GRINTCSIPGRCSLALL  106 (217)
Q Consensus        90 ~~~~~~~mhdlv~dla~  106 (217)
                      +....|+|||++++++.
T Consensus       421 ~~~~rYrMHDLllELr~  437 (1221)
T 1vt4_I          421 PKESTISIPSIYLELKV  437 (1221)
T ss_dssp             SSSSEEBCCCHHHHHHH
T ss_pred             CCCCEEEehHHHHHHhc
Confidence            12357999999999763

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.24  E-value=2.3e-11  Score=106.94  Aligned_cols=88  Identities=19%  Similarity=0.176  Sum_probs=77.6

Q ss_pred             HHHHHHHHHccccchHhHHHHHHHhhhcCCCCeecHHHHHHHHHHcCCCCCChHHHHHHHHHHHHhCCCccceecCCCCC
Q 044539           12 DELRGLQVVAYCMLHFYLKLCCLYLSVFLVYFEISTKQLYQLWIAEGFIPDNNEAIAERYLEQLINGGFVDVGKKSDRGR   91 (217)
Q Consensus        12 ~~i~~~l~lsY~~Lp~~lk~Cfl~~s~Fp~~~~i~~~~Li~~WiaeG~i~~~~e~~~~~~~~~L~~r~l~~~~~~~~~~~   91 (217)
                      ..+..++..||+.||.+.|.||++||+||+|+.|+.+.++.+|.++       .+.++.++++|+++||++....   +.
T Consensus       362 ~~l~~~l~~s~~~L~~~~~~~l~~la~f~~~~~i~~~~l~~l~~~~-------~~~~~~~l~~L~~~~Ll~~~~~---~~  431 (591)
T 1z6t_A          362 EALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDME-------TEEVEDILQEFVNKSLLFCDRN---GK  431 (591)
T ss_dssp             HHHHHHHHHHHHTSCTTTHHHHHHGGGCCTTCCEEHHHHHHHHTCC-------HHHHHHHHHHHHHTTSSEEEEE---TT
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHccccCCCCccCHHHHHHHhccC-------HHHHHHHHHHHHhCcCeEEecC---CC
Confidence            5789999999999999999999999999999999999999999765       4568899999999999996542   34


Q ss_pred             eeEEEeChhHHHHHHHhh
Q 044539           92 INTCSIPGRCSLALLTGA  109 (217)
Q Consensus        92 ~~~~~mhdlv~dla~~i~  109 (217)
                      ...|+||+++++++....
T Consensus       432 ~~~~~~H~lv~~~~~~~~  449 (591)
T 1z6t_A          432 SFRYYLHDLQVDFLTEKN  449 (591)
T ss_dssp             EEEEECCHHHHHHHHHHT
T ss_pred             ccEEEEcHHHHHHHHhhh
Confidence            568999999999998873

>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=98.42  E-value=7.2e-07  Score=68.94  Aligned_cols=85  Identities=22%  Similarity=0.132  Sum_probs=55.6

Q ss_pred             CceeEEEEeCCCCc-cc--cccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCC
Q 044539          128 ENVKRFTAHGNLND-FE--FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLR  204 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~~--~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lr  204 (217)
                      .+.+.|.+..+... ++  ....++ +|+.|.+.++.-   ....+ ..+..++.|++|+|+++.+..+|..++.+.+|+
T Consensus        64 ~~L~~L~L~~N~l~~i~~~~~~~l~-~L~~L~Ls~N~l---~~l~~-~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~  138 (229)
T 3e6j_A           64 INLKELYLGSNQLGALPVGVFDSLT-QLTVLDLGTNQL---TVLPS-AVFDRLVHLKELFMCCNKLTELPRGIERLTHLT  138 (229)
T ss_dssp             TTCCEEECCSSCCCCCCTTTTTTCT-TCCEEECCSSCC---CCCCT-TTTTTCTTCCEEECCSSCCCSCCTTGGGCTTCS
T ss_pred             cCCcEEECCCCCCCCcChhhcccCC-CcCEEECCCCcC---CccCh-hHhCcchhhCeEeccCCcccccCcccccCCCCC
Confidence            34556666555443 11  134556 667776665542   22333 557778888888888888888888888888888


Q ss_pred             EEeeCCCCcccCC
Q 044539          205 YLNLNIPSLKSLL  217 (217)
Q Consensus       205 yL~L~~t~i~~L~  217 (217)
                      +|+|+++.++.++
T Consensus       139 ~L~L~~N~l~~~~  151 (229)
T 3e6j_A          139 HLALDQNQLKSIP  151 (229)
T ss_dssp             EEECCSSCCCCCC
T ss_pred             EEECCCCcCCccC
Confidence            8888888776653

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=98.38  E-value=1.2e-06  Score=65.96  Aligned_cols=85  Identities=18%  Similarity=0.101  Sum_probs=52.0

Q ss_pred             CCceeEEEEeCCCCc-c-ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCc-cccccccC
Q 044539          127 RENVKRFTAHGNLND-F-EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPS-EVENLFLL  203 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~-~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~-~I~~L~~L  203 (217)
                      +...+.+.+..+... + ..+..++ +|+.|.+.++.-.   ...+ ..|..+++|+.|+|+++.+..+|. .++.|.+|
T Consensus        30 ~~~l~~L~L~~n~i~~ip~~~~~l~-~L~~L~Ls~N~i~---~i~~-~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L  104 (193)
T 2wfh_A           30 PRDVTELYLDGNQFTLVPKELSNYK-HLTLIDLSNNRIS---TLSN-QSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSL  104 (193)
T ss_dssp             CTTCCEEECCSSCCCSCCGGGGGCT-TCCEEECCSSCCC---CCCT-TTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTC
T ss_pred             CCCCCEEECCCCcCchhHHHhhccc-CCCEEECCCCcCC---EeCH-hHccCCCCCCEEECCCCccCEeCHHHhCCCCCC
Confidence            445667776665544 2 2345566 7777777665432   2333 556677777777777777665553 46677777


Q ss_pred             CEEeeCCCCcccC
Q 044539          204 RYLNLNIPSLKSL  216 (217)
Q Consensus       204 ryL~L~~t~i~~L  216 (217)
                      ++|+|+++.|+.+
T Consensus       105 ~~L~L~~N~l~~~  117 (193)
T 2wfh_A          105 RLLSLHGNDISVV  117 (193)
T ss_dssp             CEEECCSSCCCBC
T ss_pred             CEEECCCCCCCee
Confidence            7777777666654

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.37  E-value=1.2e-06  Score=64.84  Aligned_cols=85  Identities=19%  Similarity=0.151  Sum_probs=66.9

Q ss_pred             CCCceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-ccccc
Q 044539          126 LRENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENLF  201 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L~  201 (217)
                      .+...+.|.+..+... .  ..+..++ +|+.|.+.++.-.   .+.+ ..|.++++|++|+|+++.+..+|.. ++.|.
T Consensus        31 ~~~~L~~L~Ls~N~l~~~~~~~~~~l~-~L~~L~Ls~N~l~---~i~~-~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~  105 (174)
T 2r9u_A           31 IPTDKQRLWLNNNQITKLEPGVFDHLV-NLQQLYFNSNKLT---AIPT-GVFDKLTQLTQLDLNDNHLKSIPRGAFDNLK  105 (174)
T ss_dssp             CCTTCSEEECCSSCCCCCCTTTTTTCT-TCCEEECCSSCCC---CCCT-TTTTTCTTCCEEECCSSCCCCCCTTTTTTCT
T ss_pred             cCCCCcEEEeCCCCccccCHHHhcCCc-CCCEEECCCCCCC---ccCh-hHhCCcchhhEEECCCCccceeCHHHhcccc
Confidence            3467788888887765 2  2356788 9999999877532   3443 5678999999999999999999876 88999


Q ss_pred             cCCEEeeCCCCccc
Q 044539          202 LLRYLNLNIPSLKS  215 (217)
Q Consensus       202 ~LryL~L~~t~i~~  215 (217)
                      +|++|+|+++.+..
T Consensus       106 ~L~~L~L~~N~~~c  119 (174)
T 2r9u_A          106 SLTHIYLYNNPWDC  119 (174)
T ss_dssp             TCSEEECCSSCBCT
T ss_pred             CCCEEEeCCCCccc
Confidence            99999999988753

>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=98.36  E-value=1.2e-06  Score=64.03  Aligned_cols=82  Identities=15%  Similarity=0.009  Sum_probs=40.1

Q ss_pred             ceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCC--ccccccccCCE
Q 044539          129 NVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYP--SEVENLFLLRY  205 (217)
Q Consensus       129 ~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP--~~I~~L~~Lry  205 (217)
                      ..+.+.+..+... ......++ +|+.|.+.++...   ..++ ..+..+++|++|+|++|.+..+|  ..++.+++|++
T Consensus        50 ~L~~L~l~~n~l~~~~~~~~l~-~L~~L~Ls~N~l~---~~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~l~~l~~L~~  124 (168)
T 2ell_A           50 NLEFLSLINVGLISVSNLPKLP-KLKKLELSENRIF---GGLD-MLAEKLPNLTHLNLSGNKLKDISTLEPLKKLECLKS  124 (168)
T ss_dssp             GCCEEEEESSCCCCCSSCCCCS-SCCEEEEESCCCC---SCCC-HHHHHCTTCCEEECBSSSCCSSGGGGGGSSCSCCCE
T ss_pred             CCCEEeCcCCCCCChhhhccCC-CCCEEECcCCcCc---hHHH-HHHhhCCCCCEEeccCCccCcchhHHHHhcCCCCCE
Confidence            3455555544332 22334455 5555555544421   1133 44444555555555555555544  45555555555


Q ss_pred             EeeCCCCccc
Q 044539          206 LNLNIPSLKS  215 (217)
Q Consensus       206 L~L~~t~i~~  215 (217)
                      |+++++.+..
T Consensus       125 L~l~~N~l~~  134 (168)
T 2ell_A          125 LDLFNCEVTN  134 (168)
T ss_dssp             EECCSSGGGT
T ss_pred             EEeeCCcCcc
Confidence            5555555443

>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=98.33  E-value=1.4e-06  Score=66.84  Aligned_cols=45  Identities=18%  Similarity=0.168  Sum_probs=26.4

Q ss_pred             hhhcCCCceeEEEeCCCCCccC-CccccccccCCEEeeCCCCcccC
Q 044539          172 KICKMFNFLRVLDLGSLVLIRY-PSEVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~l-P~~I~~L~~LryL~L~~t~i~~L  216 (217)
                      ..|..+++|++|+|+++.+..+ |..++.+.+|++|+|+++.++.+
T Consensus        98 ~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~  143 (220)
T 2v9t_B           98 SLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNKLQTI  143 (220)
T ss_dssp             TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCC
T ss_pred             hHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCcCCEE
Confidence            4455566666666666665544 34556666666666666665544

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=98.33  E-value=6.5e-07  Score=64.20  Aligned_cols=86  Identities=14%  Similarity=0.022  Sum_probs=65.7

Q ss_pred             CCceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCC--ccccccccC
Q 044539          127 RENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYP--SEVENLFLL  203 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP--~~I~~L~~L  203 (217)
                      ....+.+.+..+... ......++ +|++|.+.++...   ..++ ..+..+++|++|+|++|.+..+|  ..++.+++|
T Consensus        41 l~~L~~L~l~~n~l~~~~~~~~l~-~L~~L~Ls~n~i~---~~~~-~~~~~l~~L~~L~ls~N~i~~~~~~~~~~~l~~L  115 (149)
T 2je0_A           41 FEELEFLSTINVGLTSIANLPKLN-KLKKLELSDNRVS---GGLE-VLAEKCPNLTHLNLSGNKIKDLSTIEPLKKLENL  115 (149)
T ss_dssp             CTTCCEEECTTSCCCCCTTCCCCT-TCCEEECCSSCCC---SCTH-HHHHHCTTCCEEECTTSCCCSHHHHGGGGGCTTC
T ss_pred             cCCCcEEECcCCCCCCchhhhcCC-CCCEEECCCCccc---chHH-HHhhhCCCCCEEECCCCcCCChHHHHHHhhCCCC
Confidence            356777777766544 34456678 8999988776542   2355 77778999999999999988765  889999999


Q ss_pred             CEEeeCCCCcccCC
Q 044539          204 RYLNLNIPSLKSLL  217 (217)
Q Consensus       204 ryL~L~~t~i~~L~  217 (217)
                      ++|++++|.++.++
T Consensus       116 ~~L~l~~N~l~~~~  129 (149)
T 2je0_A          116 KSLDLFNCEVTNLN  129 (149)
T ss_dssp             CEEECTTCGGGGST
T ss_pred             CEEeCcCCcccchH
Confidence            99999999887653

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.33  E-value=5.3e-07  Score=81.24  Aligned_cols=84  Identities=21%  Similarity=0.176  Sum_probs=51.1

Q ss_pred             CceeEEEEeCCCCc-c-ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCE
Q 044539          128 ENVKRFTAHGNLND-F-EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRY  205 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~-~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lry  205 (217)
                      ...+.|.+..+... + .....++ +|++|.+.++...    .+| ..+.++++|++|+|++|.+..+|++|+.|.+|++
T Consensus       224 ~~L~~L~Ls~n~l~~l~~~~~~l~-~L~~L~Ls~N~l~----~lp-~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~  297 (727)
T 4b8c_D          224 QLWHALDLSNLQIFNISANIFKYD-FLTRLYLNGNSLT----ELP-AEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKY  297 (727)
T ss_dssp             CCCCEEECTTSCCSCCCGGGGGCC-SCSCCBCTTSCCS----CCC-GGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCSE
T ss_pred             CCCcEEECCCCCCCCCChhhcCCC-CCCEEEeeCCcCc----ccC-hhhhCCCCCCEEeCcCCcCCccChhhcCCCCCCE
Confidence            44556666555433 1 2234566 6777766655431    344 5566677777777777776677777777777777


Q ss_pred             EeeCCCCcccCC
Q 044539          206 LNLNIPSLKSLL  217 (217)
Q Consensus       206 L~L~~t~i~~L~  217 (217)
                      |+|++|.++.+|
T Consensus       298 L~L~~N~l~~lp  309 (727)
T 4b8c_D          298 FYFFDNMVTTLP  309 (727)
T ss_dssp             EECCSSCCCCCC
T ss_pred             EECCCCCCCccC
Confidence            777776666554

>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=98.33  E-value=1.6e-06  Score=66.95  Aligned_cols=87  Identities=23%  Similarity=0.188  Sum_probs=69.8

Q ss_pred             CCCceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-ccccc
Q 044539          126 LRENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENLF  201 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L~  201 (217)
                      .+...+.+.+..+...   ......++ +|+.|.+.++.-   ..+.+ ..|..+++|++|+|+++.+..+|.. ++.+.
T Consensus        38 ~~~~L~~L~Ls~n~i~~~~~~~~~~l~-~L~~L~L~~N~l---~~i~~-~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~  112 (229)
T 3e6j_A           38 IPTNAQILYLHDNQITKLEPGVFDSLI-NLKELYLGSNQL---GALPV-GVFDSLTQLTVLDLGTNQLTVLPSAVFDRLV  112 (229)
T ss_dssp             CCTTCSEEECCSSCCCCCCTTTTTTCT-TCCEEECCSSCC---CCCCT-TTTTTCTTCCEEECCSSCCCCCCTTTTTTCT
T ss_pred             CCCCCCEEEcCCCccCccCHHHhhCcc-CCcEEECCCCCC---CCcCh-hhcccCCCcCEEECCCCcCCccChhHhCcch
Confidence            4577889999887765   22356788 999999987764   23344 6689999999999999999988866 58999


Q ss_pred             cCCEEeeCCCCcccCC
Q 044539          202 LLRYLNLNIPSLKSLL  217 (217)
Q Consensus       202 ~LryL~L~~t~i~~L~  217 (217)
                      +|++|+|++++++.+|
T Consensus       113 ~L~~L~Ls~N~l~~lp  128 (229)
T 3e6j_A          113 HLKELFMCCNKLTELP  128 (229)
T ss_dssp             TCCEEECCSSCCCSCC
T ss_pred             hhCeEeccCCcccccC
Confidence            9999999999998775

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.30  E-value=2e-06  Score=63.60  Aligned_cols=64  Identities=23%  Similarity=0.101  Sum_probs=54.9

Q ss_pred             CCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccc-cccccCCEEeeCCCCcccCC
Q 044539          149 DSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEV-ENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       149 ~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I-~~L~~LryL~L~~t~i~~L~  217 (217)
                      + .++.|.+.++.-   ....+ ..|.++++|++|+|+++.+..+|..+ +.|.+|++|+|++++|+.+|
T Consensus        33 ~-~L~~L~Ls~N~l---~~~~~-~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~l~~l~   97 (174)
T 2r9u_A           33 T-DKQRLWLNNNQI---TKLEP-GVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNHLKSIP   97 (174)
T ss_dssp             T-TCSEEECCSSCC---CCCCT-TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC
T ss_pred             C-CCcEEEeCCCCc---cccCH-HHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCccceeC
Confidence            6 899999887764   23445 78999999999999999999999875 89999999999999998765

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.28  E-value=2.7e-06  Score=62.79  Aligned_cols=39  Identities=21%  Similarity=0.243  Sum_probs=18.3

Q ss_pred             hcCCCceeEEEeCCCCCccCCccc-cccccCCEEeeCCCC
Q 044539          174 CKMFNFLRVLDLGSLVLIRYPSEV-ENLFLLRYLNLNIPS  212 (217)
Q Consensus       174 ~~~l~~LrvLdL~~~~i~~lP~~I-~~L~~LryL~L~~t~  212 (217)
                      +..++.|++|+|+++.+..+|..+ +.+.+|++|+|+++.
T Consensus        96 ~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~  135 (177)
T 2o6r_A           96 FDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNP  135 (177)
T ss_dssp             TTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             hhCCcccCEEECcCCcceEeCHHHhcCCcccCEEEecCCC
Confidence            444444555555444444444432 344455555554444

>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=98.28  E-value=1.4e-06  Score=76.30  Aligned_cols=86  Identities=17%  Similarity=-0.024  Sum_probs=53.6

Q ss_pred             CCCceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCc-cccccc
Q 044539          126 LRENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPS-EVENLF  201 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~-~I~~L~  201 (217)
                      .|..+++|.+..+... +  ..+..++ +||+|.+.++.-   ..+.+ ..|.++++|++|+|++|+++.+|. .++.|.
T Consensus        50 lp~~~~~LdLs~N~i~~l~~~~f~~l~-~L~~L~Ls~N~i---~~i~~-~~f~~L~~L~~L~Ls~N~l~~l~~~~f~~L~  124 (635)
T 4g8a_A           50 LPFSTKNLDLSFNPLRHLGSYSFFSFP-ELQVLDLSRCEI---QTIED-GAYQSLSHLSTLILTGNPIQSLALGAFSGLS  124 (635)
T ss_dssp             SCTTCCEEECTTSCCCEECTTTTTTCT-TCCEEECTTCCC---CEECT-TTTTTCTTCCEEECTTCCCCEECGGGGTTCT
T ss_pred             CCcCCCEEEeeCCCCCCCCHHHHhCCC-CCCEEECCCCcC---CCcCh-hHhcCCCCCCEEEccCCcCCCCCHHHhcCCC
Confidence            4567788888776654 2  2356677 788887766542   12233 456666777777777766666664 356666


Q ss_pred             cCCEEeeCCCCcccC
Q 044539          202 LLRYLNLNIPSLKSL  216 (217)
Q Consensus       202 ~LryL~L~~t~i~~L  216 (217)
                      +|++|+|++++++.+
T Consensus       125 ~L~~L~Ls~N~l~~l  139 (635)
T 4g8a_A          125 SLQKLVAVETNLASL  139 (635)
T ss_dssp             TCCEEECTTSCCCCS
T ss_pred             CCCEEECCCCcCCCC
Confidence            666666666666554

>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=98.27  E-value=1.3e-06  Score=64.62  Aligned_cols=84  Identities=14%  Similarity=0.005  Sum_probs=57.8

Q ss_pred             ceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCc--cccccccCCE
Q 044539          129 NVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPS--EVENLFLLRY  205 (217)
Q Consensus       129 ~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~--~I~~L~~Lry  205 (217)
                      ..+.+.+..+... ......++ +|++|.+.++.-.   ...+ ..+..+++|++|+|++|.+..+|.  .++.+++|++
T Consensus        43 ~L~~L~Ls~N~l~~~~~l~~l~-~L~~L~Ls~N~l~---~~~~-~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~  117 (176)
T 1a9n_A           43 QFDAIDFSDNEIRKLDGFPLLR-RLKTLLVNNNRIC---RIGE-GLDQALPDLTELILTNNSLVELGDLDPLASLKSLTY  117 (176)
T ss_dssp             CCSEEECCSSCCCEECCCCCCS-SCCEEECCSSCCC---EECS-CHHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCCE
T ss_pred             CCCEEECCCCCCCcccccccCC-CCCEEECCCCccc---ccCc-chhhcCCCCCEEECCCCcCCcchhhHhhhcCCCCCE
Confidence            5666766666544 34455677 8888877766532   2222 445778888888888888877776  7788888888


Q ss_pred             EeeCCCCcccCC
Q 044539          206 LNLNIPSLKSLL  217 (217)
Q Consensus       206 L~L~~t~i~~L~  217 (217)
                      |+++++.+..+|
T Consensus       118 L~l~~N~i~~~~  129 (176)
T 1a9n_A          118 LCILRNPVTNKK  129 (176)
T ss_dssp             EECCSSGGGGST
T ss_pred             EEecCCCCCCcH
Confidence            888888776543

>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=98.27  E-value=1.5e-06  Score=76.23  Aligned_cols=86  Identities=19%  Similarity=0.066  Sum_probs=50.1

Q ss_pred             CCCceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccC-Cccccccc
Q 044539          126 LRENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRY-PSEVENLF  201 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~l-P~~I~~L~  201 (217)
                      .+...|++.+..+... .  ..+.+++ +||+|.+.++.-   ....+ ..|.++++||+|+|+++.+..+ |+.+++|.
T Consensus        30 ~~~~l~~L~Ls~n~l~~~~~~~~~~l~-~L~~L~Ls~n~l---~~i~~-~~~~~l~~L~~L~Ls~n~l~~~~p~~~~~l~  104 (606)
T 3vq2_A           30 IPSSTKNIDLSFNPLKILKSYSFSNFS-ELQWLDLSRCEI---ETIED-KAWHGLHHLSNLILTGNPIQSFSPGSFSGLT  104 (606)
T ss_dssp             SCTTCCEEECTTSCCCEECTTTTTTCT-TCCEEECTTCCC---CEECT-TTTTTCTTCCEEECTTCCCCCCCTTSSTTCT
T ss_pred             CCCCcCEEECCCCCcCEeChhhccCCc-cCcEEeCCCCcc---cccCH-HHhhchhhcCEeECCCCcccccChhhcCCcc
Confidence            3456677777666544 1  2345666 777776665532   22333 4566666666666666666554 55666666


Q ss_pred             cCCEEeeCCCCcccC
Q 044539          202 LLRYLNLNIPSLKSL  216 (217)
Q Consensus       202 ~LryL~L~~t~i~~L  216 (217)
                      +|++|+|++|.++.+
T Consensus       105 ~L~~L~L~~n~l~~~  119 (606)
T 3vq2_A          105 SLENLVAVETKLASL  119 (606)
T ss_dssp             TCCEEECTTSCCCCS
T ss_pred             cCCEEEccCCccccc
Confidence            666666666665543

>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=98.26  E-value=1.9e-06  Score=64.72  Aligned_cols=81  Identities=14%  Similarity=0.054  Sum_probs=41.3

Q ss_pred             ceeEEEEeCCCCc-cc---cccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCc-cccccccC
Q 044539          129 NVKRFTAHGNLND-FE---FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPS-EVENLFLL  203 (217)
Q Consensus       129 ~~r~ls~~~~~~~-~~---~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~-~I~~L~~L  203 (217)
                      ..+.+.+..+... .+   ....++ +|++|.+.++.-   ....+ ..|..+++|++|+|+++.+..+|. .++.|.+|
T Consensus        30 ~l~~L~l~~n~i~~~~~~~~~~~l~-~L~~L~Ls~N~l---~~~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L  104 (192)
T 1w8a_A           30 HTTELLLNDNELGRISSDGLFGRLP-HLVKLELKRNQL---TGIEP-NAFEGASHIQELQLGENKIKEISNKMFLGLHQL  104 (192)
T ss_dssp             TCSEEECCSCCCCSBCCSCSGGGCT-TCCEEECCSSCC---CCBCT-TTTTTCTTCCEEECCSCCCCEECSSSSTTCTTC
T ss_pred             CCCEEECCCCcCCccCCccccccCC-CCCEEECCCCCC---CCcCH-hHcCCcccCCEEECCCCcCCccCHHHhcCCCCC
Confidence            5555555555433 11   134555 666666655432   12223 455555556666666555554433 25555555


Q ss_pred             CEEeeCCCCcc
Q 044539          204 RYLNLNIPSLK  214 (217)
Q Consensus       204 ryL~L~~t~i~  214 (217)
                      ++|+|++++++
T Consensus       105 ~~L~L~~N~l~  115 (192)
T 1w8a_A          105 KTLNLYDNQIS  115 (192)
T ss_dssp             CEEECCSSCCC
T ss_pred             CEEECCCCcCC
Confidence            55555555554

>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=98.26  E-value=2.3e-06  Score=62.96  Aligned_cols=84  Identities=15%  Similarity=0.038  Sum_probs=65.9

Q ss_pred             CCCceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-ccccc
Q 044539          126 LRENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENLF  201 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L~  201 (217)
                      .+...+.+.+..+... .  ..+..++ +|+.|.+.++.-   ....+ ..|.++++|++|+|+++.+..+|.. ++.|.
T Consensus        28 ~~~~l~~L~L~~N~i~~~~~~~~~~l~-~L~~L~Ls~N~l---~~l~~-~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~  102 (170)
T 3g39_A           28 IPTTTQVLYLYDNQITKLEPGVFDRLT-QLTRLDLDNNQL---TVLPA-GVFDKLTQLTQLSLNDNQLKSIPRGAFDNLK  102 (170)
T ss_dssp             CCTTCSEEECCSSCCCCCCTTTTTTCT-TCSEEECCSSCC---CCCCT-TTTTTCTTCCEEECCSSCCCCCCTTTTTTCT
T ss_pred             CCCCCcEEEcCCCcCCccChhhhcCcc-cCCEEECCCCCc---CccCh-hhccCCCCCCEEECCCCccCEeCHHHhcCCC
Confidence            3467788888887765 2  2356788 999999887753   23444 6688999999999999999988875 88999


Q ss_pred             cCCEEeeCCCCcc
Q 044539          202 LLRYLNLNIPSLK  214 (217)
Q Consensus       202 ~LryL~L~~t~i~  214 (217)
                      +|++|+|+++.+.
T Consensus       103 ~L~~L~L~~N~~~  115 (170)
T 3g39_A          103 SLTHIWLLNNPWD  115 (170)
T ss_dssp             TCCEEECCSSCBC
T ss_pred             CCCEEEeCCCCCC
Confidence            9999999998764

>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=98.26  E-value=2.9e-06  Score=62.47  Aligned_cols=65  Identities=25%  Similarity=0.142  Sum_probs=54.6

Q ss_pred             CCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccc-cccccCCEEeeCCCCcccCC
Q 044539          148 FDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEV-ENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       148 ~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I-~~L~~LryL~L~~t~i~~L~  217 (217)
                      .+ .++.|.+.++.-   ....+ ..|.++++|++|+|+++.+..+|..+ +.|.+|++|+|++++++.++
T Consensus        29 ~~-~l~~L~L~~N~i---~~~~~-~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~   94 (170)
T 3g39_A           29 PT-TTQVLYLYDNQI---TKLEP-GVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQLKSIP   94 (170)
T ss_dssp             CT-TCSEEECCSSCC---CCCCT-TTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC
T ss_pred             CC-CCcEEEcCCCcC---CccCh-hhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCCccCEeC
Confidence            36 899999887654   23445 77899999999999999999998765 89999999999999998764

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=98.25  E-value=3.1e-06  Score=64.08  Aligned_cols=84  Identities=20%  Similarity=0.179  Sum_probs=45.7

Q ss_pred             CceeEEEEeCCCCc-cc--cccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-ccccccC
Q 044539          128 ENVKRFTAHGNLND-FE--FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENLFLL  203 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~~--~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L~~L  203 (217)
                      .+.+.+.+..+... .+  ....++ +|++|.+.++.-   ....+ ..+..+++|++|+|+++.+..+|.. ++.+.+|
T Consensus        52 ~~L~~L~l~~n~l~~~~~~~~~~l~-~L~~L~Ls~n~l---~~~~~-~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L  126 (208)
T 2o6s_A           52 TSLTQLYLGGNKLQSLPNGVFNKLT-SLTYLNLSTNQL---QSLPN-GVFDKLTQLKELALNTNQLQSLPDGVFDKLTQL  126 (208)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCT-TCCEEECCSSCC---CCCCT-TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             ccCcEEECCCCccCccChhhcCCCC-CcCEEECCCCcC---CccCH-hHhcCccCCCEEEcCCCcCcccCHhHhccCCcC
Confidence            34455555544332 11  123455 666665554432   12222 4456666777777777666666554 4667777


Q ss_pred             CEEeeCCCCcccC
Q 044539          204 RYLNLNIPSLKSL  216 (217)
Q Consensus       204 ryL~L~~t~i~~L  216 (217)
                      ++|+++++.++.+
T Consensus       127 ~~L~l~~N~l~~~  139 (208)
T 2o6s_A          127 KDLRLYQNQLKSV  139 (208)
T ss_dssp             CEEECCSSCCSCC
T ss_pred             CEEECCCCcccee
Confidence            7777776666544

>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=98.24  E-value=3.2e-06  Score=64.88  Aligned_cols=83  Identities=14%  Similarity=0.095  Sum_probs=41.0

Q ss_pred             ceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccC-CccccccccCC
Q 044539          129 NVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRY-PSEVENLFLLR  204 (217)
Q Consensus       129 ~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~l-P~~I~~L~~Lr  204 (217)
                      ..+.+.+..+... +  ..+..++ +|+.|.+.++.-   ....+ ..|..+++|++|+|+++.+..+ |..++.+.+|+
T Consensus        58 ~L~~L~L~~N~i~~i~~~~~~~l~-~L~~L~Ls~N~l---~~~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~  132 (220)
T 2v70_A           58 QLRKINFSNNKITDIEEGAFEGAS-GVNEILLTSNRL---ENVQH-KMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVR  132 (220)
T ss_dssp             TCCEEECCSSCCCEECTTTTTTCT-TCCEEECCSSCC---CCCCG-GGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCS
T ss_pred             CCCEEECCCCcCCEECHHHhCCCC-CCCEEECCCCcc---CccCH-hHhcCCcCCCEEECCCCcCCeECHhHcCCCccCC
Confidence            3445555444433 1  1234445 555555544432   12222 4455566666666666655544 44555566666


Q ss_pred             EEeeCCCCcccC
Q 044539          205 YLNLNIPSLKSL  216 (217)
Q Consensus       205 yL~L~~t~i~~L  216 (217)
                      +|+|+++.++.+
T Consensus       133 ~L~L~~N~l~~~  144 (220)
T 2v70_A          133 LLSLYDNQITTV  144 (220)
T ss_dssp             EEECTTSCCCCB
T ss_pred             EEECCCCcCCEE
Confidence            666665555443

>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=98.23  E-value=3.6e-06  Score=64.58  Aligned_cols=83  Identities=17%  Similarity=0.133  Sum_probs=39.0

Q ss_pred             CceeEEEEeCCCCc-cc--cccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccc-cccccC
Q 044539          128 ENVKRFTAHGNLND-FE--FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEV-ENLFLL  203 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~~--~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I-~~L~~L  203 (217)
                      ...+.+.+..+... .+  .+..++ +|+.|.+.++.-   ....+ ..|..+++|++|+|+++.+..+|..+ +.|.+|
T Consensus        32 ~~l~~L~l~~n~i~~i~~~~~~~l~-~L~~L~Ls~N~i---~~~~~-~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L  106 (220)
T 2v9t_B           32 ETITEIRLEQNTIKVIPPGAFSPYK-KLRRIDLSNNQI---SELAP-DAFQGLRSLNSLVLYGNKITELPKSLFEGLFSL  106 (220)
T ss_dssp             TTCCEEECCSSCCCEECTTSSTTCT-TCCEEECCSSCC---CEECT-TTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             cCCCEEECCCCcCCCcCHhHhhCCC-CCCEEECCCCcC---CCcCH-HHhhCCcCCCEEECCCCcCCccCHhHccCCCCC
Confidence            34455555444433 11  233444 555555544432   11223 44555555555555555555555442 445555


Q ss_pred             CEEeeCCCCccc
Q 044539          204 RYLNLNIPSLKS  215 (217)
Q Consensus       204 ryL~L~~t~i~~  215 (217)
                      ++|+|+++.|+.
T Consensus       107 ~~L~L~~N~l~~  118 (220)
T 2v9t_B          107 QLLLLNANKINC  118 (220)
T ss_dssp             CEEECCSSCCCC
T ss_pred             CEEECCCCCCCE
Confidence            555555555543

>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=98.20  E-value=4.5e-06  Score=64.04  Aligned_cols=86  Identities=10%  Similarity=-0.013  Sum_probs=68.0

Q ss_pred             CCCceeEEEEeCCCCc-c-c--cccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-cccc
Q 044539          126 LRENVKRFTAHGNLND-F-E--FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENL  200 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~-~-~--~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L  200 (217)
                      .+...+.+.+..+... . +  .+..++ +|+.|.+.++.-   ..+.+ ..|.++++|++|+|+++.+..+|.. ++.|
T Consensus        30 ~~~~~~~L~L~~N~l~~~~~~~~~~~l~-~L~~L~L~~N~i---~~i~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l  104 (220)
T 2v70_A           30 IPQYTAELRLNNNEFTVLEATGIFKKLP-QLRKINFSNNKI---TDIEE-GAFEGASGVNEILLTSNRLENVQHKMFKGL  104 (220)
T ss_dssp             CCTTCSEEECCSSCCCEECCCCCGGGCT-TCCEEECCSSCC---CEECT-TTTTTCTTCCEEECCSSCCCCCCGGGGTTC
T ss_pred             CCCCCCEEEcCCCcCCccCchhhhccCC-CCCEEECCCCcC---CEECH-HHhCCCCCCCEEECCCCccCccCHhHhcCC
Confidence            3456678888887765 2 1  256788 999999987653   23344 6799999999999999999887764 8899


Q ss_pred             ccCCEEeeCCCCcccC
Q 044539          201 FLLRYLNLNIPSLKSL  216 (217)
Q Consensus       201 ~~LryL~L~~t~i~~L  216 (217)
                      .+|++|+|+++.++.+
T Consensus       105 ~~L~~L~Ls~N~l~~~  120 (220)
T 2v70_A          105 ESLKTLMLRSNRITCV  120 (220)
T ss_dssp             SSCCEEECTTSCCCCB
T ss_pred             cCCCEEECCCCcCCeE
Confidence            9999999999998765

>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=98.18  E-value=5.5e-06  Score=62.24  Aligned_cols=83  Identities=16%  Similarity=0.118  Sum_probs=50.7

Q ss_pred             CceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCC-CccCCccccccccC
Q 044539          128 ENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLV-LIRYPSEVENLFLL  203 (217)
Q Consensus       128 ~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~-i~~lP~~I~~L~~L  203 (217)
                      .+.+++.+..+...   ......++ +|+.|.+.++..   ....+ ..+.++++|++|+|++|. +..+| .++.+++|
T Consensus        88 ~~L~~L~l~~n~l~~~~~~~l~~l~-~L~~L~Ls~n~i---~~~~~-~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L  161 (197)
T 4ezg_A           88 SNLERLRIMGKDVTSDKIPNLSGLT-SLTLLDISHSAH---DDSIL-TKINTLPKVNSIDLSYNGAITDIM-PLKTLPEL  161 (197)
T ss_dssp             TTCCEEEEECTTCBGGGSCCCTTCT-TCCEEECCSSBC---BGGGH-HHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSC
T ss_pred             CCCCEEEeECCccCcccChhhcCCC-CCCEEEecCCcc---CcHhH-HHHhhCCCCCEEEccCCCCccccH-hhcCCCCC
Confidence            44566666655443   23344556 666666655432   11223 566777777777777776 66666 57777777


Q ss_pred             CEEeeCCCCcccC
Q 044539          204 RYLNLNIPSLKSL  216 (217)
Q Consensus       204 ryL~L~~t~i~~L  216 (217)
                      ++|++++|.|+.+
T Consensus       162 ~~L~l~~n~i~~~  174 (197)
T 4ezg_A          162 KSLNIQFDGVHDY  174 (197)
T ss_dssp             CEEECTTBCCCCC
T ss_pred             CEEECCCCCCcCh
Confidence            7777777776654

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=98.17  E-value=4.4e-06  Score=66.06  Aligned_cols=66  Identities=23%  Similarity=0.217  Sum_probs=37.5

Q ss_pred             cCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-ccccccCCEEeeCCCCcccC
Q 044539          146 DHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       146 ~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L~~LryL~L~~t~i~~L  216 (217)
                      ..++ +|++|.+.++.-   ....+ ..+..++.|++|+|++|.+..+|.. ++.+.+|++|++++|+++.+
T Consensus       106 ~~l~-~L~~L~L~~n~l---~~~~~-~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~  172 (272)
T 3rfs_A          106 DKLT-NLKELVLVENQL---QSLPD-GVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSL  172 (272)
T ss_dssp             TTCT-TCCEEECTTSCC---CCCCT-TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCC
T ss_pred             cCCc-CCCEEECCCCcC---CccCH-HHhccCCCCCEEECCCCccCccCHHHhccCccCCEEECCCCCcCcc
Confidence            3455 555555554432   12222 4456666666666666666655544 35666777777766666544

>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=98.17  E-value=3.3e-06  Score=69.15  Aligned_cols=85  Identities=25%  Similarity=0.169  Sum_probs=52.5

Q ss_pred             CCceeEEEEeCCCCc-cc--cccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-cccccc
Q 044539          127 RENVKRFTAHGNLND-FE--FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENLFL  202 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~--~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L~~  202 (217)
                      +...+++.+..+... .+  ....++ +|++|.+.++.-   ....+ ..+.++++|++|+|+++.+..+|.. ++++.+
T Consensus        51 ~~~L~~L~l~~n~i~~~~~~~~~~l~-~L~~L~L~~n~l---~~~~~-~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~  125 (353)
T 2z80_A           51 TEAVKSLDLSNNRITYISNSDLQRCV-NLQALVLTSNGI---NTIEE-DSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSS  125 (353)
T ss_dssp             CTTCCEEECTTSCCCEECTTTTTTCT-TCCEEECTTSCC---CEECT-TTTTTCTTCCEEECCSSCCSSCCHHHHTTCTT
T ss_pred             cccCcEEECCCCcCcccCHHHhccCC-CCCEEECCCCcc---CccCH-hhcCCCCCCCEEECCCCcCCcCCHhHhCCCcc
Confidence            346677777665544 21  355667 777777765532   22333 4566677777777777776666655 667777


Q ss_pred             CCEEeeCCCCcccC
Q 044539          203 LRYLNLNIPSLKSL  216 (217)
Q Consensus       203 LryL~L~~t~i~~L  216 (217)
                      |++|+++++.++.+
T Consensus       126 L~~L~L~~n~l~~l  139 (353)
T 2z80_A          126 LTFLNLLGNPYKTL  139 (353)
T ss_dssp             CSEEECTTCCCSSS
T ss_pred             CCEEECCCCCCccc
Confidence            77777777666554

>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=98.16  E-value=5.2e-06  Score=64.80  Aligned_cols=85  Identities=21%  Similarity=0.156  Sum_probs=48.6

Q ss_pred             CceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-ccccccC
Q 044539          128 ENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENLFLL  203 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L~~L  203 (217)
                      .+.+.+.+..+... .  .....++ +|++|.+.++.-   ....+ ..+..+++|++|+|+++.+..+|.. ++.+.+|
T Consensus        59 ~~L~~L~L~~n~l~~~~~~~~~~l~-~L~~L~L~~n~l---~~~~~-~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L  133 (251)
T 3m19_A           59 TKLTWLNLDYNQLQTLSAGVFDDLT-ELGTLGLANNQL---ASLPL-GVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKL  133 (251)
T ss_dssp             TTCCEEECTTSCCCCCCTTTTTTCT-TCCEEECTTSCC---CCCCT-TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             ccCCEEECCCCcCCccCHhHhccCC-cCCEEECCCCcc---cccCh-hHhcccCCCCEEEcCCCcCCCcChhHhccCCcc
Confidence            34455555544332 1  1134455 666665554432   12333 5566777777777777777766655 4677777


Q ss_pred             CEEeeCCCCcccCC
Q 044539          204 RYLNLNIPSLKSLL  217 (217)
Q Consensus       204 ryL~L~~t~i~~L~  217 (217)
                      ++|+|++++++.++
T Consensus       134 ~~L~Ls~N~l~~~~  147 (251)
T 3m19_A          134 KELRLNTNQLQSIP  147 (251)
T ss_dssp             CEEECCSSCCCCCC
T ss_pred             cEEECcCCcCCccC
Confidence            77777777766543

>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=98.15  E-value=4.8e-06  Score=62.59  Aligned_cols=85  Identities=12%  Similarity=0.132  Sum_probs=62.0

Q ss_pred             CCceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCc-cCCccccccccCC
Q 044539          127 RENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLI-RYPSEVENLFLLR  204 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~-~lP~~I~~L~~Lr  204 (217)
                      ....+.+.+..+... +.....++ +|++|.+.++.-.   ...+ ..+.++++|++|+|++|.+. ..|..++.+++|+
T Consensus        65 l~~L~~L~l~~n~~~~~~~l~~l~-~L~~L~l~~n~l~---~~~~-~~l~~l~~L~~L~Ls~n~i~~~~~~~l~~l~~L~  139 (197)
T 4ezg_A           65 AHNIKDLTINNIHATNYNPISGLS-NLERLRIMGKDVT---SDKI-PNLSGLTSLTLLDISHSAHDDSILTKINTLPKVN  139 (197)
T ss_dssp             CTTCSEEEEESCCCSCCGGGTTCT-TCCEEEEECTTCB---GGGS-CCCTTCTTCCEEECCSSBCBGGGHHHHTTCSSCC
T ss_pred             CCCCCEEEccCCCCCcchhhhcCC-CCCEEEeECCccC---cccC-hhhcCCCCCCEEEecCCccCcHhHHHHhhCCCCC
Confidence            456777777776544 44566778 8888888775532   2233 66788888999999988876 4778888999999


Q ss_pred             EEeeCCCC-cccC
Q 044539          205 YLNLNIPS-LKSL  216 (217)
Q Consensus       205 yL~L~~t~-i~~L  216 (217)
                      +|++++|. ++.+
T Consensus       140 ~L~L~~n~~i~~~  152 (197)
T 4ezg_A          140 SIDLSYNGAITDI  152 (197)
T ss_dssp             EEECCSCTBCCCC
T ss_pred             EEEccCCCCcccc
Confidence            99998887 6654

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=98.14  E-value=6.9e-06  Score=62.12  Aligned_cols=81  Identities=17%  Similarity=0.114  Sum_probs=43.3

Q ss_pred             CceeEEEEeCCCCc-cc--cccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-ccccccC
Q 044539          128 ENVKRFTAHGNLND-FE--FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENLFLL  203 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~~--~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L~~L  203 (217)
                      .+.+.+.+..+... .+  ....++ +|+.|.+.++.-   ....+ ..+.++++|++|+|+++.+..+|.. ++.+.+|
T Consensus        76 ~~L~~L~Ls~n~l~~~~~~~~~~l~-~L~~L~L~~N~l---~~~~~-~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L  150 (208)
T 2o6s_A           76 TSLTYLNLSTNQLQSLPNGVFDKLT-QLKELALNTNQL---QSLPD-GVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSL  150 (208)
T ss_dssp             TTCCEEECCSSCCCCCCTTTTTTCT-TCCEEECCSSCC---CCCCT-TTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTC
T ss_pred             CCcCEEECCCCcCCccCHhHhcCcc-CCCEEEcCCCcC---cccCH-hHhccCCcCCEEECCCCccceeCHHHhccCCCc
Confidence            34556665554433 11  134455 666666655432   12222 4456666666666666666655544 5566666


Q ss_pred             CEEeeCCCCc
Q 044539          204 RYLNLNIPSL  213 (217)
Q Consensus       204 ryL~L~~t~i  213 (217)
                      ++|+++++.+
T Consensus       151 ~~L~l~~N~~  160 (208)
T 2o6s_A          151 QYIWLHDNPW  160 (208)
T ss_dssp             CEEECCSCCB
T ss_pred             cEEEecCCCe
Confidence            6666666543

>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=98.14  E-value=6.1e-06  Score=67.15  Aligned_cols=84  Identities=19%  Similarity=0.178  Sum_probs=46.9

Q ss_pred             CceeEEEEeCCCCc-cc-cccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCC-CccCCccccc-----
Q 044539          128 ENVKRFTAHGNLND-FE-FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLV-LIRYPSEVEN-----  199 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~~-~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~-i~~lP~~I~~-----  199 (217)
                      ...+++.+..+... ++ ....++ +|++|.+.++...    .+| ..+.++++|++|+|++|. +..+|..++.     
T Consensus       104 ~~L~~L~L~~n~l~~lp~~~~~l~-~L~~L~Ls~n~l~----~lp-~~l~~l~~L~~L~L~~n~~~~~~p~~~~~~~~~~  177 (328)
T 4fcg_A          104 SHLQHMTIDAAGLMELPDTMQQFA-GLETLTLARNPLR----ALP-ASIASLNRLRELSIRACPELTELPEPLASTDASG  177 (328)
T ss_dssp             TTCSEEEEESSCCCCCCSCGGGGT-TCSEEEEESCCCC----CCC-GGGGGCTTCCEEEEEEETTCCCCCSCSEEEC-CC
T ss_pred             CCCCEEECCCCCccchhHHHhccC-CCCEEECCCCccc----cCc-HHHhcCcCCCEEECCCCCCccccChhHhhccchh
Confidence            34556666555443 22 244556 6666666655431    334 556666666666666654 4456665554     


Q ss_pred             ----cccCCEEeeCCCCcccCC
Q 044539          200 ----LFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       200 ----L~~LryL~L~~t~i~~L~  217 (217)
                          +.+|++|+|+++.++.+|
T Consensus       178 ~~~~l~~L~~L~L~~n~l~~lp  199 (328)
T 4fcg_A          178 EHQGLVNLQSLRLEWTGIRSLP  199 (328)
T ss_dssp             CEEESTTCCEEEEEEECCCCCC
T ss_pred             hhccCCCCCEEECcCCCcCcch
Confidence                666666666666665543

>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=98.14  E-value=3.8e-06  Score=73.54  Aligned_cols=82  Identities=20%  Similarity=-0.018  Sum_probs=54.2

Q ss_pred             CceeEEEEeCCCCc-c-ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccC--CccccccccC
Q 044539          128 ENVKRFTAHGNLND-F-EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRY--PSEVENLFLL  203 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~-~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~l--P~~I~~L~~L  203 (217)
                      ...+.|.+..+... + ..+..++ +|++|.+.++.-.    .+  +.++++++|++|+|++|.+..+  |..++.|++|
T Consensus       463 ~~L~~L~Ls~N~l~~lp~~~~~l~-~L~~L~Ls~N~l~----~l--p~l~~l~~L~~L~Ls~N~l~~~~~p~~l~~l~~L  535 (567)
T 1dce_A          463 LLVTHLDLSHNRLRALPPALAALR-CLEVLQASDNALE----NV--DGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRL  535 (567)
T ss_dssp             TTCCEEECCSSCCCCCCGGGGGCT-TCCEEECCSSCCC----CC--GGGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTC
T ss_pred             ccCcEeecCcccccccchhhhcCC-CCCEEECCCCCCC----CC--cccCCCCCCcEEECCCCCCCCCCCcHHHhcCCCC
Confidence            34566666665543 2 2355566 7777777665432    13  3567777788888887777766  7778888888


Q ss_pred             CEEeeCCCCcccC
Q 044539          204 RYLNLNIPSLKSL  216 (217)
Q Consensus       204 ryL~L~~t~i~~L  216 (217)
                      ++|+|+++.++.+
T Consensus       536 ~~L~L~~N~l~~~  548 (567)
T 1dce_A          536 VLLNLQGNSLCQE  548 (567)
T ss_dssp             CEEECTTSGGGGS
T ss_pred             CEEEecCCcCCCC
Confidence            8888887777654

>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=98.13  E-value=6.7e-06  Score=64.14  Aligned_cols=84  Identities=19%  Similarity=0.184  Sum_probs=44.0

Q ss_pred             CceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCc-cccccccC
Q 044539          128 ENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPS-EVENLFLL  203 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~-~I~~L~~L  203 (217)
                      .+.+.+.+..+... .  .....++ +|++|.+.++.-.   ...+ ..+..++.|++|+|+++.+..+|. .++.+.+|
T Consensus        83 ~~L~~L~L~~n~l~~~~~~~~~~l~-~L~~L~L~~N~l~---~~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L  157 (251)
T 3m19_A           83 TELGTLGLANNQLASLPLGVFDHLT-QLDKLYLGGNQLK---SLPS-GVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNL  157 (251)
T ss_dssp             TTCCEEECTTSCCCCCCTTTTTTCT-TCCEEECCSSCCC---CCCT-TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             CcCCEEECCCCcccccChhHhcccC-CCCEEEcCCCcCC---CcCh-hHhccCCcccEEECcCCcCCccCHHHcCcCcCC
Confidence            44566666555443 1  1234455 6666666554321   2222 345556666666666666555554 35556666


Q ss_pred             CEEeeCCCCcccC
Q 044539          204 RYLNLNIPSLKSL  216 (217)
Q Consensus       204 ryL~L~~t~i~~L  216 (217)
                      ++|+|+++.++.+
T Consensus       158 ~~L~L~~N~l~~~  170 (251)
T 3m19_A          158 QTLSLSTNQLQSV  170 (251)
T ss_dssp             CEEECCSSCCSCC
T ss_pred             CEEECCCCcCCcc
Confidence            6666666555443

>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=98.11  E-value=4.7e-06  Score=67.84  Aligned_cols=41  Identities=17%  Similarity=0.100  Sum_probs=24.3

Q ss_pred             hhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCC
Q 044539          172 KICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPS  212 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~  212 (217)
                      ..+.++++|++|+|++|.+..+|+.++.+.+|++|+|++|+
T Consensus       200 ~~l~~l~~L~~L~L~~N~l~~l~~~l~~l~~L~~L~Ls~n~  240 (328)
T 4fcg_A          200 ASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCT  240 (328)
T ss_dssp             GGGGGCTTCCEEEEESSCCCCCCGGGGGCTTCCEEECTTCT
T ss_pred             HhhcCCCCCCEEEccCCCCCcCchhhccCCCCCEEECcCCc
Confidence            44555566666666666655566566666666666666544

>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=98.09  E-value=7.1e-06  Score=66.51  Aligned_cols=85  Identities=14%  Similarity=0.075  Sum_probs=63.2

Q ss_pred             CceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCC
Q 044539          128 ENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLR  204 (217)
Q Consensus       128 ~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lr  204 (217)
                      ...+.+.+..+...   ......++ +|+.|.+.++.-.   ...+ ..+..++.|+.|+|+++.+..+|..++.+.+|+
T Consensus       192 ~~L~~L~l~~n~l~~~~~~~~~~l~-~L~~L~Ls~n~l~---~~~~-~~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~L~  266 (330)
T 1xku_A          192 PSLTELHLDGNKITKVDAASLKGLN-NLAKLGLSFNSIS---AVDN-GSLANTPHLRELHLNNNKLVKVPGGLADHKYIQ  266 (330)
T ss_dssp             TTCSEEECTTSCCCEECTGGGTTCT-TCCEEECCSSCCC---EECT-TTGGGSTTCCEEECCSSCCSSCCTTTTTCSSCC
T ss_pred             ccCCEEECCCCcCCccCHHHhcCCC-CCCEEECCCCcCc---eeCh-hhccCCCCCCEEECCCCcCccCChhhccCCCcC
Confidence            44556666555443   22355677 8888888765532   2333 578889999999999999999999999999999


Q ss_pred             EEeeCCCCcccCC
Q 044539          205 YLNLNIPSLKSLL  217 (217)
Q Consensus       205 yL~L~~t~i~~L~  217 (217)
                      +|+++++.|+.++
T Consensus       267 ~L~l~~N~i~~~~  279 (330)
T 1xku_A          267 VVYLHNNNISAIG  279 (330)
T ss_dssp             EEECCSSCCCCCC
T ss_pred             EEECCCCcCCccC
Confidence            9999999988753

>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=98.08  E-value=7e-06  Score=69.58  Aligned_cols=86  Identities=21%  Similarity=0.109  Sum_probs=62.3

Q ss_pred             CCCceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-ccccc
Q 044539          126 LRENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENLF  201 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L~  201 (217)
                      .+...+.|.+..+...   ...+..++ +|+.|.+.++..   ....+ ..|.++++|++|+|+++.+..+|.. ++.|.
T Consensus        73 ~~~~l~~L~L~~n~i~~~~~~~~~~l~-~L~~L~Ls~n~i---~~~~~-~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~  147 (452)
T 3zyi_A           73 IPSNTRYLNLMENNIQMIQADTFRHLH-HLEVLQLGRNSI---RQIEV-GAFNGLASLNTLELFDNWLTVIPSGAFEYLS  147 (452)
T ss_dssp             CCTTCSEEECCSSCCCEECTTTTTTCT-TCCEEECCSSCC---CEECT-TTTTTCTTCCEEECCSSCCSBCCTTTSSSCT
T ss_pred             CCCCccEEECcCCcCceECHHHcCCCC-CCCEEECCCCcc---CCcCh-hhccCcccCCEEECCCCcCCccChhhhcccC
Confidence            4567788888877655   23356778 888888877643   23344 6778888888888888888777754 77788


Q ss_pred             cCCEEeeCCCCcccC
Q 044539          202 LLRYLNLNIPSLKSL  216 (217)
Q Consensus       202 ~LryL~L~~t~i~~L  216 (217)
                      +|++|+|+++.++.+
T Consensus       148 ~L~~L~L~~N~l~~~  162 (452)
T 3zyi_A          148 KLRELWLRNNPIESI  162 (452)
T ss_dssp             TCCEEECCSCCCCEE
T ss_pred             CCCEEECCCCCccee
Confidence            888888888877654

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=98.07  E-value=1.3e-05  Score=63.27  Aligned_cols=65  Identities=23%  Similarity=0.196  Sum_probs=38.5

Q ss_pred             CCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCc-cccccccCCEEeeCCCCcccC
Q 044539          147 HFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPS-EVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       147 ~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~-~I~~L~~LryL~L~~t~i~~L  216 (217)
                      .++ +|++|.+.++.-   ....+ ..+..+++|++|+|+++.+..+|. .++.+.+|++|+|+++.++.+
T Consensus        83 ~l~-~L~~L~l~~n~l---~~~~~-~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~  148 (270)
T 2o6q_A           83 ELK-NLETLWVTDNKL---QALPI-GVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSL  148 (270)
T ss_dssp             SCT-TCCEEECCSSCC---CCCCT-TTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCC
T ss_pred             CCC-CCCEEECCCCcC---CcCCH-hHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCCCcCCcc
Confidence            344 555555544332   11222 456667777777777777665553 356777777777777776654

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=98.07  E-value=6.3e-06  Score=71.48  Aligned_cols=43  Identities=16%  Similarity=0.074  Sum_probs=23.9

Q ss_pred             hhhcCCCceeEEEeCCCCCccCCc-cccccccCCEEeeCCCCcc
Q 044539          172 KICKMFNFLRVLDLGSLVLIRYPS-EVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~lP~-~I~~L~~LryL~L~~t~i~  214 (217)
                      ..|.++++|++|+|+++.+..+|. .+++|.+|++|+++++.++
T Consensus        94 ~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~  137 (570)
T 2z63_A           94 GAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQ  137 (570)
T ss_dssp             TTTTTCTTCCEEECTTSCCCCSTTCSCTTCTTCCEEECCSSCCC
T ss_pred             hhhcCccccccccccccccccCCCccccccccccEEecCCCccc
Confidence            345555555555555555555543 4556666666666655554

>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=98.07  E-value=6.7e-06  Score=69.41  Aligned_cols=85  Identities=15%  Similarity=0.015  Sum_probs=56.0

Q ss_pred             CCCceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccC-Cccccccc
Q 044539          126 LRENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRY-PSEVENLF  201 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~l-P~~I~~L~  201 (217)
                      .+...+++.+..+...   ......++ +|++|.+.++...  ..+.+ ..+.++++|++|+|+++.+..+ |..+++|.
T Consensus        28 l~~~l~~L~Ls~n~i~~~~~~~~~~l~-~L~~L~L~~n~~~--~~i~~-~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~  103 (455)
T 3v47_A           28 LPAHVNYVDLSLNSIAELNETSFSRLQ-DLQFLKVEQQTPG--LVIRN-NTFRGLSSLIILKLDYNQFLQLETGAFNGLA  103 (455)
T ss_dssp             CCTTCCEEECCSSCCCEECTTTTSSCT-TCCEEECCCCSTT--CEECT-TTTTTCTTCCEEECTTCTTCEECTTTTTTCT
T ss_pred             CCCccCEEEecCCccCcCChhHhccCc-cccEEECcCCccc--ceECc-ccccccccCCEEeCCCCccCccChhhccCcc
Confidence            3466778887776654   22356677 8888877765431  12223 5677777777777777776644 66777777


Q ss_pred             cCCEEeeCCCCcc
Q 044539          202 LLRYLNLNIPSLK  214 (217)
Q Consensus       202 ~LryL~L~~t~i~  214 (217)
                      +|++|+|++|.++
T Consensus       104 ~L~~L~L~~n~l~  116 (455)
T 3v47_A          104 NLEVLTLTQCNLD  116 (455)
T ss_dssp             TCCEEECTTSCCB
T ss_pred             cCCEEeCCCCCCC
Confidence            7777777777665

>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=98.06  E-value=5.3e-06  Score=61.21  Aligned_cols=84  Identities=17%  Similarity=0.065  Sum_probs=64.8

Q ss_pred             CCceeEEEEeCCCCc-ccccc-CCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccc-cccccC
Q 044539          127 RENVKRFTAHGNLND-FEFLD-HFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEV-ENLFLL  203 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~~~~-~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I-~~L~~L  203 (217)
                      +...+.+.+..+... ++... ..+ +|+.|.+.++.-.    .+  ..+..+++|++|+|++|.+..+|+.+ +.+++|
T Consensus        18 ~~~L~~L~l~~n~l~~i~~~~~~~~-~L~~L~Ls~N~l~----~~--~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L   90 (176)
T 1a9n_A           18 AVRDRELDLRGYKIPVIENLGATLD-QFDAIDFSDNEIR----KL--DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDL   90 (176)
T ss_dssp             TTSCEEEECTTSCCCSCCCGGGGTT-CCSEEECCSSCCC----EE--CCCCCCSSCCEEECCSSCCCEECSCHHHHCTTC
T ss_pred             cCCceEEEeeCCCCchhHHhhhcCC-CCCEEECCCCCCC----cc--cccccCCCCCEEECCCCcccccCcchhhcCCCC
Confidence            566788888776554 33233 345 8999998876542    12  46788999999999999999999776 899999


Q ss_pred             CEEeeCCCCcccCC
Q 044539          204 RYLNLNIPSLKSLL  217 (217)
Q Consensus       204 ryL~L~~t~i~~L~  217 (217)
                      ++|+|+++.|+.+|
T Consensus        91 ~~L~L~~N~i~~~~  104 (176)
T 1a9n_A           91 TELILTNNSLVELG  104 (176)
T ss_dssp             CEEECCSCCCCCGG
T ss_pred             CEEECCCCcCCcch
Confidence            99999999987653

>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=98.06  E-value=7.7e-06  Score=70.70  Aligned_cols=84  Identities=20%  Similarity=0.084  Sum_probs=52.9

Q ss_pred             CCceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-cccccc
Q 044539          127 RENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENLFL  202 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L~~  202 (217)
                      +...+++.+..+...   ......++ +||+|.+.++..   ....+ ..+.++++|++|+|+++.+..+|.. +++|.+
T Consensus        25 ~~~L~~L~Ls~n~l~~~~~~~~~~l~-~L~~L~Ls~n~i---~~~~~-~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~   99 (549)
T 2z81_A           25 TAAMKSLDLSFNKITYIGHGDLRACA-NLQVLILKSSRI---NTIEG-DAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSS   99 (549)
T ss_dssp             CTTCCEEECCSSCCCEECSSTTSSCT-TCCEEECTTSCC---CEECT-TTTTTCTTCCEEECTTSCCCSCCHHHHTTCTT
T ss_pred             CCCccEEECcCCccCccChhhhhcCC-cccEEECCCCCc---CccCh-hhccccccCCEEECCCCccCccCHHHhccCCC
Confidence            356677777766544   12355667 777777766542   22333 5566777777777777776666654 777777


Q ss_pred             CCEEeeCCCCccc
Q 044539          203 LRYLNLNIPSLKS  215 (217)
Q Consensus       203 LryL~L~~t~i~~  215 (217)
                      |++|+++++.++.
T Consensus       100 L~~L~Ls~n~l~~  112 (549)
T 2z81_A          100 LKYLNLMGNPYQT  112 (549)
T ss_dssp             CCEEECTTCCCSS
T ss_pred             CcEEECCCCcccc
Confidence            7777777766653

>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=98.05  E-value=6.8e-06  Score=59.98  Aligned_cols=87  Identities=16%  Similarity=0.007  Sum_probs=68.6

Q ss_pred             CCceeEEEEeCCCCc--ccccc-CCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCc----cccc
Q 044539          127 RENVKRFTAHGNLND--FEFLD-HFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPS----EVEN  199 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~--~~~~~-~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~----~I~~  199 (217)
                      ....+.+.+..+...  .+... .++ +|+.|.+.++.-. ... .. ..+..++.|++|+|++|.+..+|.    .++.
T Consensus        70 l~~L~~L~Ls~N~l~~~~~~~~~~l~-~L~~L~Ls~N~l~-~~~-~~-~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~  145 (168)
T 2ell_A           70 LPKLKKLELSENRIFGGLDMLAEKLP-NLTHLNLSGNKLK-DIS-TL-EPLKKLECLKSLDLFNCEVTNLNDYRESVFKL  145 (168)
T ss_dssp             CSSCCEEEEESCCCCSCCCHHHHHCT-TCCEEECBSSSCC-SSG-GG-GGGSSCSCCCEEECCSSGGGTSTTHHHHHHTT
T ss_pred             CCCCCEEECcCCcCchHHHHHHhhCC-CCCEEeccCCccC-cch-hH-HHHhcCCCCCEEEeeCCcCcchHHHHHHHHHh
Confidence            456788999887765  33333 488 9999999887543 111 11 578899999999999999998887    8999


Q ss_pred             cccCCEEeeCCCCcccCC
Q 044539          200 LFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       200 L~~LryL~L~~t~i~~L~  217 (217)
                      +++|++|+++++.+.++|
T Consensus       146 l~~L~~L~l~~n~~~~~~  163 (168)
T 2ell_A          146 LPQLTYLDGYDREDQEAP  163 (168)
T ss_dssp             CSSCCEETTEETTSCBCC
T ss_pred             CccCcEecCCCCChhhcc
Confidence            999999999999988765

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

Probab=98.05  E-value=6.3e-06  Score=66.54  Aligned_cols=82  Identities=15%  Similarity=0.065  Sum_probs=49.8

Q ss_pred             CceeEEEEeC-CCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCc-cCCcccccccc
Q 044539          128 ENVKRFTAHG-NLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLI-RYPSEVENLFL  202 (217)
Q Consensus       128 ~~~r~ls~~~-~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~-~lP~~I~~L~~  202 (217)
                      ...+.+.+.. +...   ...+..++ +|+.|.+.++..   ...+| ..+.++++|++|+|+++.+. .+|..++.+.+
T Consensus        76 ~~L~~L~L~~~n~l~~~~p~~l~~l~-~L~~L~Ls~n~l---~~~~p-~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~  150 (313)
T 1ogq_A           76 PYLNFLYIGGINNLVGPIPPAIAKLT-QLHYLYITHTNV---SGAIP-DFLSQIKTLVTLDFSYNALSGTLPPSISSLPN  150 (313)
T ss_dssp             TTCSEEEEEEETTEESCCCGGGGGCT-TCSEEEEEEECC---EEECC-GGGGGCTTCCEEECCSSEEESCCCGGGGGCTT
T ss_pred             CCCCeeeCCCCCcccccCChhHhcCC-CCCEEECcCCee---CCcCC-HHHhCCCCCCEEeCCCCccCCcCChHHhcCCC
Confidence            4455555552 2221   22344556 666666655432   12344 56777777777777777766 67777777777


Q ss_pred             CCEEeeCCCCcc
Q 044539          203 LRYLNLNIPSLK  214 (217)
Q Consensus       203 LryL~L~~t~i~  214 (217)
                      |++|+++++.++
T Consensus       151 L~~L~L~~N~l~  162 (313)
T 1ogq_A          151 LVGITFDGNRIS  162 (313)
T ss_dssp             CCEEECCSSCCE
T ss_pred             CCeEECcCCccc
Confidence            777777777765

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=98.05  E-value=1e-05  Score=66.63  Aligned_cols=85  Identities=21%  Similarity=0.180  Sum_probs=54.0

Q ss_pred             CceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccc----ccc
Q 044539          128 ENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEV----ENL  200 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I----~~L  200 (217)
                      .+.++|.+..+... .  ..+..++ +|+.|.+.++..   ....+ ..|..+++|+.|+|+++.+..+|..+    +.+
T Consensus        88 ~~L~~L~Ls~N~l~~~~~~~~~~l~-~L~~L~L~~N~i---~~~~~-~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l  162 (361)
T 2xot_A           88 PNLRYLDLSSNHLHTLDEFLFSDLQ-ALEVLLLYNNHI---VVVDR-NAFEDMAQLQKLYLSQNQISRFPVELIKDGNKL  162 (361)
T ss_dssp             TTCCEEECCSSCCCEECTTTTTTCT-TCCEEECCSSCC---CEECT-TTTTTCTTCCEEECCSSCCCSCCGGGTC----C
T ss_pred             CCCCEEECCCCcCCcCCHHHhCCCc-CCCEEECCCCcc---cEECH-HHhCCcccCCEEECCCCcCCeeCHHHhcCcccC
Confidence            34556666555443 1  1234556 667766665543   22334 56777888888888888888888766    568


Q ss_pred             ccCCEEeeCCCCcccCC
Q 044539          201 FLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       201 ~~LryL~L~~t~i~~L~  217 (217)
                      .+|++|+|+++.++.+|
T Consensus       163 ~~L~~L~L~~N~l~~l~  179 (361)
T 2xot_A          163 PKLMLLDLSSNKLKKLP  179 (361)
T ss_dssp             TTCCEEECCSSCCCCCC
T ss_pred             CcCCEEECCCCCCCccC
Confidence            88888888888877654

>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=98.05  E-value=1e-05  Score=64.74  Aligned_cols=67  Identities=18%  Similarity=-0.013  Sum_probs=40.5

Q ss_pred             cCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-ccccccCCEEeeCCCCcccCC
Q 044539          146 DHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       146 ~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L~~LryL~L~~t~i~~L~  217 (217)
                      ..++ +|+.|.+.++.-   ....+ ..|..+++|+.|+|+++.+..+|.. ++.+.+|++|+|++++++.+|
T Consensus        97 ~~l~-~L~~L~l~~N~l---~~l~~-~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~  164 (290)
T 1p9a_G           97 QTLP-ALTVLDVSFNRL---TSLPL-GALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELP  164 (290)
T ss_dssp             TTCT-TCCEEECCSSCC---CCCCS-STTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCC
T ss_pred             ccCC-CCCEEECCCCcC---cccCH-HHHcCCCCCCEEECCCCCCCccChhhcccccCCCEEECCCCcCCccC
Confidence            3455 566665554432   12333 4566777777777777777666654 356777777777777766553

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.04  E-value=1.3e-05  Score=59.00  Aligned_cols=87  Identities=20%  Similarity=0.177  Sum_probs=68.2

Q ss_pred             CCCceeEEEEeCCCCc-cc--cccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-ccccc
Q 044539          126 LRENVKRFTAHGNLND-FE--FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENLF  201 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~-~~--~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L~  201 (217)
                      .+...+++.+..+... .+  ....++ +|++|.+.++.-   ....+ ..+..+++|++|+|+++.+..+|.. ++.+.
T Consensus        26 ~~~~l~~L~l~~n~l~~~~~~~~~~l~-~L~~L~l~~n~l---~~~~~-~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~  100 (177)
T 2o6r_A           26 IPSSATRLELESNKLQSLPHGVFDKLT-QLTKLSLSQNQI---QSLPD-GVFDKLTKLTILYLHENKLQSLPNGVFDKLT  100 (177)
T ss_dssp             CCTTCSEEECCSSCCCCCCTTTTTTCT-TCSEEECCSSCC---CCCCT-TTTTTCTTCCEEECCSSCCCCCCTTTTTTCT
T ss_pred             CCCCCcEEEeCCCcccEeCHHHhcCcc-cccEEECCCCcc---eEeCh-hHccCCCccCEEECCCCCccccCHHHhhCCc
Confidence            3467888998877654 22  245678 999999887653   23444 6688999999999999999988875 68999


Q ss_pred             cCCEEeeCCCCcccCC
Q 044539          202 LLRYLNLNIPSLKSLL  217 (217)
Q Consensus       202 ~LryL~L~~t~i~~L~  217 (217)
                      +|++|+++++.++.+|
T Consensus       101 ~L~~L~l~~N~l~~~~  116 (177)
T 2o6r_A          101 QLKELALDTNQLKSVP  116 (177)
T ss_dssp             TCCEEECCSSCCSCCC
T ss_pred             ccCEEECcCCcceEeC
Confidence            9999999999988764

>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=98.04  E-value=7.2e-06  Score=72.84  Aligned_cols=84  Identities=18%  Similarity=0.116  Sum_probs=45.1

Q ss_pred             CCceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCc-ccccccc
Q 044539          127 RENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPS-EVENLFL  202 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~-~I~~L~~  202 (217)
                      +.+++++.+..+... .  ..+..++ +|++|.+.++.-   ....+ ..+.++++|++|+|+++.+..+|. .++++.+
T Consensus        24 ~~~l~~L~Ls~n~l~~~~~~~~~~l~-~L~~L~Ls~n~l---~~~~~-~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~   98 (680)
T 1ziw_A           24 PTNITVLNLTHNQLRRLPAANFTRYS-QLTSLDVGFNTI---SKLEP-ELCQKLPMLKVLNLQHNELSQLSDKTFAFCTN   98 (680)
T ss_dssp             CTTCSEEECCSSCCCCCCGGGGGGGT-TCSEEECCSSCC---CCCCT-THHHHCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             CCCCcEEECCCCCCCCcCHHHHhCCC-cCcEEECCCCcc---CccCH-HHHhcccCcCEEECCCCccCccChhhhccCCC
Confidence            456777777665543 1  2245566 777776655432   12223 445555555555555555555554 3555555


Q ss_pred             CCEEeeCCCCccc
Q 044539          203 LRYLNLNIPSLKS  215 (217)
Q Consensus       203 LryL~L~~t~i~~  215 (217)
                      |++|+|+++.++.
T Consensus        99 L~~L~L~~n~l~~  111 (680)
T 1ziw_A           99 LTELHLMSNSIQK  111 (680)
T ss_dssp             CSEEECCSSCCCC
T ss_pred             CCEEECCCCccCc
Confidence            5555555555443

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=98.04  E-value=4.2e-06  Score=59.90  Aligned_cols=83  Identities=23%  Similarity=0.231  Sum_probs=64.7

Q ss_pred             CCceeEEEEeCCCCc---cc-cccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCcc-CCccccccc
Q 044539          127 RENVKRFTAHGNLND---FE-FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIR-YPSEVENLF  201 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~---~~-~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~-lP~~I~~L~  201 (217)
                      +.+.+++.+..+...   .+ ....++ +++.|.+.++.-.   ..   ..+..+++|++|+|++|.+.. +|..++.++
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~~~~~l~-~L~~L~l~~n~l~---~~---~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~   88 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEGLTDEFE-ELEFLSTINVGLT---SI---ANLPKLNKLKKLELSDNRVSGGLEVLAEKCP   88 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCSCCTTCT-TCCEEECTTSCCC---CC---TTCCCCTTCCEEECCSSCCCSCTHHHHHHCT
T ss_pred             CccCeEEEccCCcCChhHHHHHHhhcC-CCcEEECcCCCCC---Cc---hhhhcCCCCCEEECCCCcccchHHHHhhhCC
Confidence            456777777766543   22 246778 9999999876542   12   467889999999999999887 888888899


Q ss_pred             cCCEEeeCCCCcccC
Q 044539          202 LLRYLNLNIPSLKSL  216 (217)
Q Consensus       202 ~LryL~L~~t~i~~L  216 (217)
                      +|++|+++++.++.+
T Consensus        89 ~L~~L~ls~N~i~~~  103 (149)
T 2je0_A           89 NLTHLNLSGNKIKDL  103 (149)
T ss_dssp             TCCEEECTTSCCCSH
T ss_pred             CCCEEECCCCcCCCh
Confidence            999999999998764

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=98.03  E-value=1.1e-05  Score=66.81  Aligned_cols=42  Identities=24%  Similarity=0.238  Sum_probs=19.9

Q ss_pred             hhcCCCceeEEEeCCCCCccCCccc-cccccCCEEeeCCCCcc
Q 044539          173 ICKMFNFLRVLDLGSLVLIRYPSEV-ENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       173 ~~~~l~~LrvLdL~~~~i~~lP~~I-~~L~~LryL~L~~t~i~  214 (217)
                      .+.++++|++|+|+++.+..+|..+ +++++|++|+++++.++
T Consensus       112 ~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~  154 (390)
T 3o6n_A          112 VFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLE  154 (390)
T ss_dssp             TTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             HhcCCCCCCEEECCCCccCcCCHHHhcCCCCCcEEECCCCccC
Confidence            3444445555555554444444442 44445555555444443

>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=98.03  E-value=1.3e-05  Score=64.02  Aligned_cols=85  Identities=18%  Similarity=0.020  Sum_probs=59.0

Q ss_pred             CceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccc-cccccC
Q 044539          128 ENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEV-ENLFLL  203 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I-~~L~~L  203 (217)
                      .+.+.+.+..+... .  ..+..++ +|+.|.+.++.-.   ...+ ..+..+++|+.|+|+++++..+|..+ ..|.+|
T Consensus       100 ~~L~~L~l~~N~l~~l~~~~~~~l~-~L~~L~L~~N~l~---~~~~-~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L  174 (290)
T 1p9a_G          100 PALTVLDVSFNRLTSLPLGALRGLG-ELQELYLKGNELK---TLPP-GLLTPTPKLEKLSLANNNLTELPAGLLNGLENL  174 (290)
T ss_dssp             TTCCEEECCSSCCCCCCSSTTTTCT-TCCEEECTTSCCC---CCCT-TTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTC
T ss_pred             CCCCEEECCCCcCcccCHHHHcCCC-CCCEEECCCCCCC---ccCh-hhcccccCCCEEECCCCcCCccCHHHhcCcCCC
Confidence            45677777766554 2  2355677 8888888766432   2333 56777888888888888888887654 568888


Q ss_pred             CEEeeCCCCcccCC
Q 044539          204 RYLNLNIPSLKSLL  217 (217)
Q Consensus       204 ryL~L~~t~i~~L~  217 (217)
                      ++|+|+++.++.+|
T Consensus       175 ~~L~L~~N~l~~ip  188 (290)
T 1p9a_G          175 DTLLLQENSLYTIP  188 (290)
T ss_dssp             CEEECCSSCCCCCC
T ss_pred             CEEECCCCcCCccC
Confidence            88888888777654

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

Probab=98.02  E-value=1.2e-05  Score=67.80  Aligned_cols=86  Identities=19%  Similarity=0.116  Sum_probs=62.2

Q ss_pred             CCCceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCc-cccccc
Q 044539          126 LRENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPS-EVENLF  201 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~-~I~~L~  201 (217)
                      .+...+.+.+..+...   ...+..++ +|+.|.+.++.-   ..+.+ ..|.++++|+.|+|+++.+..+|. .++.+.
T Consensus        62 ~~~~l~~L~L~~n~i~~~~~~~~~~l~-~L~~L~Ls~n~i---~~i~~-~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~  136 (440)
T 3zyj_A           62 ISTNTRLLNLHENQIQIIKVNSFKHLR-HLEILQLSRNHI---RTIEI-GAFNGLANLNTLELFDNRLTTIPNGAFVYLS  136 (440)
T ss_dssp             CCTTCSEEECCSCCCCEECTTTTSSCS-SCCEEECCSSCC---CEECG-GGGTTCSSCCEEECCSSCCSSCCTTTSCSCS
T ss_pred             CCCCCcEEEccCCcCCeeCHHHhhCCC-CCCEEECCCCcC---CccCh-hhccCCccCCEEECCCCcCCeeCHhHhhccc
Confidence            4566788888777655   23456778 888888877653   22334 677888888888888888887775 577888


Q ss_pred             cCCEEeeCCCCcccC
Q 044539          202 LLRYLNLNIPSLKSL  216 (217)
Q Consensus       202 ~LryL~L~~t~i~~L  216 (217)
                      +|++|+|+++.++.+
T Consensus       137 ~L~~L~L~~N~i~~~  151 (440)
T 3zyj_A          137 KLKELWLRNNPIESI  151 (440)
T ss_dssp             SCCEEECCSCCCCEE
T ss_pred             cCceeeCCCCccccc
Confidence            888888888877654

>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=98.02  E-value=7.6e-06  Score=66.77  Aligned_cols=81  Identities=16%  Similarity=0.020  Sum_probs=47.9

Q ss_pred             ceeEEEEeC-CCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCC
Q 044539          129 NVKRFTAHG-NLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLR  204 (217)
Q Consensus       129 ~~r~ls~~~-~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lr  204 (217)
                      +.+.|.+.. +... +  ..+..++ +|+.|.+.++.-   ....+ ..|.++++|+.|+|+++.+..+|..+.....|+
T Consensus        32 ~L~~L~l~~~n~l~~~~~~~~~~l~-~L~~L~l~~N~l---~~~~~-~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~L~  106 (347)
T 2ifg_A           32 NLTELYIENQQHLQHLELRDLRGLG-ELRNLTIVKSGL---RFVAP-DAFHFTPRLSRLNLSFNALESLSWKTVQGLSLQ  106 (347)
T ss_dssp             CCSEEECCSCSSCCEECGGGSCSCC-CCSEEECCSSCC---CEECT-TGGGSCSCCCEEECCSSCCSCCCSTTTCSCCCC
T ss_pred             CeeEEEccCCCCCCCcChhHhcccc-CCCEEECCCCcc---ceeCH-HHhcCCcCCCEEeCCCCccceeCHHHcccCCce
Confidence            456666653 4433 2  2245566 777776665542   22334 566677777777777777776766555444477


Q ss_pred             EEeeCCCCcc
Q 044539          205 YLNLNIPSLK  214 (217)
Q Consensus       205 yL~L~~t~i~  214 (217)
                      +|+|.++.+.
T Consensus       107 ~l~l~~N~~~  116 (347)
T 2ifg_A          107 ELVLSGNPLH  116 (347)
T ss_dssp             EEECCSSCCC
T ss_pred             EEEeeCCCcc
Confidence            7777766554

>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=98.01  E-value=9.8e-06  Score=60.71  Aligned_cols=83  Identities=16%  Similarity=0.071  Sum_probs=66.5

Q ss_pred             CCceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccC-Ccccccccc
Q 044539          127 RENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRY-PSEVENLFL  202 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~l-P~~I~~L~~  202 (217)
                      ....+.|.+..+...   ...+..++ +|+.|.+.++.-   ....+ ..+..++.|++|+|+++.+..+ |..++.+.+
T Consensus        53 l~~L~~L~Ls~N~l~~~~~~~~~~l~-~L~~L~Ls~N~l---~~~~~-~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~  127 (192)
T 1w8a_A           53 LPHLVKLELKRNQLTGIEPNAFEGAS-HIQELQLGENKI---KEISN-KMFLGLHQLKTLNLYDNQISCVMPGSFEHLNS  127 (192)
T ss_dssp             CTTCCEEECCSSCCCCBCTTTTTTCT-TCCEEECCSCCC---CEECS-SSSTTCTTCCEEECCSSCCCEECTTSSTTCTT
T ss_pred             CCCCCEEECCCCCCCCcCHhHcCCcc-cCCEEECCCCcC---CccCH-HHhcCCCCCCEEECCCCcCCeeCHHHhhcCCC
Confidence            456788888887765   23466788 999999988764   23444 6688999999999999998854 788999999


Q ss_pred             CCEEeeCCCCcc
Q 044539          203 LRYLNLNIPSLK  214 (217)
Q Consensus       203 LryL~L~~t~i~  214 (217)
                      |++|+|+++.+.
T Consensus       128 L~~L~L~~N~l~  139 (192)
T 1w8a_A          128 LTSLNLASNPFN  139 (192)
T ss_dssp             CCEEECTTCCBC
T ss_pred             CCEEEeCCCCcc
Confidence            999999998764

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=98.01  E-value=1.7e-05  Score=62.51  Aligned_cols=66  Identities=23%  Similarity=0.135  Sum_probs=39.7

Q ss_pred             cCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-ccccccCCEEeeCCCCcccC
Q 044539          146 DHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       146 ~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L~~LryL~L~~t~i~~L  216 (217)
                      ..++ +|++|.+.++.-   ....+ ..+..++.|+.|+|+++.+..+|.. ++.+.+|++|+|+++.++.+
T Consensus       130 ~~l~-~L~~L~Ls~n~l---~~~~~-~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~  196 (270)
T 2o6q_A          130 DSLT-KLTYLSLGYNEL---QSLPK-GVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLKRV  196 (270)
T ss_dssp             TTCT-TCCEEECCSSCC---CCCCT-TTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCCSCC
T ss_pred             CcCc-CCCEEECCCCcC---CccCH-hHccCCcccceeEecCCcCcEeChhHhccCCCcCEEECCCCcCCcC
Confidence            3445 555555554432   12222 4466677777777777776666643 66777777777777766654

>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=98.00  E-value=1.8e-05  Score=62.71  Aligned_cols=66  Identities=21%  Similarity=0.124  Sum_probs=38.4

Q ss_pred             cCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-ccccccCCEEeeCCCCcccC
Q 044539          146 DHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       146 ~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L~~LryL~L~~t~i~~L  216 (217)
                      ..++ +|++|.+.++..   ....+ ..+.++++|++|+|+++.+..+|.. ++.+.+|++|+|+++.++.+
T Consensus       102 ~~l~-~L~~L~l~~n~l---~~~~~-~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~  168 (285)
T 1ozn_A          102 HGLG-RLHTLHLDRCGL---QELGP-GLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSV  168 (285)
T ss_dssp             TTCT-TCCEEECTTSCC---CCCCT-TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEE
T ss_pred             cCCc-CCCEEECCCCcC---CEECH-hHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCccccc
Confidence            3445 555555544332   12223 4566667777777777666666543 66677777777777666543

>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=97.99  E-value=1.5e-05  Score=63.13  Aligned_cols=85  Identities=21%  Similarity=0.170  Sum_probs=52.4

Q ss_pred             CceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccC-CccccccccC
Q 044539          128 ENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRY-PSEVENLFLL  203 (217)
Q Consensus       128 ~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~l-P~~I~~L~~L  203 (217)
                      .+.+++.+..+...   ......++ +|++|.+.++..  .....+ ..+..+++|+.|+|+++.+..+ |..++.+.+|
T Consensus        56 ~~L~~L~l~~n~l~~~~~~~~~~l~-~L~~L~l~~n~~--l~~~~~-~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L  131 (285)
T 1ozn_A           56 RNLTILWLHSNVLARIDAAAFTGLA-LLEQLDLSDNAQ--LRSVDP-ATFHGLGRLHTLHLDRCGLQELGPGLFRGLAAL  131 (285)
T ss_dssp             TTCCEEECCSSCCCEECTTTTTTCT-TCCEEECCSCTT--CCCCCT-TTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTC
T ss_pred             CCCCEEECCCCccceeCHhhcCCcc-CCCEEeCCCCCC--ccccCH-HHhcCCcCCCEEECCCCcCCEECHhHhhCCcCC
Confidence            34556665554433   12244556 666666665531  112223 5677778888888888777655 4567778888


Q ss_pred             CEEeeCCCCcccC
Q 044539          204 RYLNLNIPSLKSL  216 (217)
Q Consensus       204 ryL~L~~t~i~~L  216 (217)
                      ++|+++++.++.+
T Consensus       132 ~~L~l~~n~l~~~  144 (285)
T 1ozn_A          132 QYLYLQDNALQAL  144 (285)
T ss_dssp             CEEECCSSCCCCC
T ss_pred             CEEECCCCccccc
Confidence            8888888777654

>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=97.99  E-value=1.1e-05  Score=62.41  Aligned_cols=41  Identities=15%  Similarity=0.243  Sum_probs=20.6

Q ss_pred             hhcCCCceeEEEeCCCCCccCCccccccccCC---EEeeCCC-Ccc
Q 044539          173 ICKMFNFLRVLDLGSLVLIRYPSEVENLFLLR---YLNLNIP-SLK  214 (217)
Q Consensus       173 ~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lr---yL~L~~t-~i~  214 (217)
                      .|..+++|+.|+|+++.+..+|+ ++.+.+|+   +|+++++ .++
T Consensus       100 ~f~~l~~L~~L~l~~n~l~~lp~-~~~l~~L~~L~~L~l~~N~~l~  144 (239)
T 2xwt_C          100 ALKELPLLKFLGIFNTGLKMFPD-LTKVYSTDIFFILEITDNPYMT  144 (239)
T ss_dssp             SEECCTTCCEEEEEEECCCSCCC-CTTCCBCCSEEEEEEESCTTCC
T ss_pred             HhCCCCCCCEEeCCCCCCccccc-cccccccccccEEECCCCcchh
Confidence            34445555555555555555554 44444444   5555555 443

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=97.99  E-value=1.1e-05  Score=66.39  Aligned_cols=84  Identities=15%  Similarity=0.023  Sum_probs=48.4

Q ss_pred             ceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccC-CccccccccCC
Q 044539          129 NVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRY-PSEVENLFLLR  204 (217)
Q Consensus       129 ~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~l-P~~I~~L~~Lr  204 (217)
                      +.+.|.+..+... .  ..+..++ +|+.|.+.++.-   ....+ ..|..+.+|++|+|+++.+..+ |..++.|.+|+
T Consensus        65 ~L~~L~L~~N~i~~i~~~~~~~l~-~L~~L~Ls~N~l---~~~~~-~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~  139 (361)
T 2xot_A           65 NLHSLLLSHNHLNFISSEAFVPVP-NLRYLDLSSNHL---HTLDE-FLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQ  139 (361)
T ss_dssp             TCCEEECCSSCCCEECTTTTTTCT-TCCEEECCSSCC---CEECT-TTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCC
T ss_pred             ccCEEECCCCcCCccChhhccCCC-CCCEEECCCCcC---CcCCH-HHhCCCcCCCEEECCCCcccEECHHHhCCcccCC
Confidence            3445555444433 1  1234455 666665555432   22233 4566777777777777776644 45677777777


Q ss_pred             EEeeCCCCcccCC
Q 044539          205 YLNLNIPSLKSLL  217 (217)
Q Consensus       205 yL~L~~t~i~~L~  217 (217)
                      +|+|+++.++.+|
T Consensus       140 ~L~L~~N~l~~l~  152 (361)
T 2xot_A          140 KLYLSQNQISRFP  152 (361)
T ss_dssp             EEECCSSCCCSCC
T ss_pred             EEECCCCcCCeeC
Confidence            7777777776553

>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=97.99  E-value=1.5e-05  Score=64.89  Aligned_cols=76  Identities=21%  Similarity=0.137  Sum_probs=41.4

Q ss_pred             CceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEE
Q 044539          128 ENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYL  206 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL  206 (217)
                      .+.+++.+..+... .+....++ +|++|.+.++...    .+  ..+.++++|++|+|+++.+..+|. ++.+.+|++|
T Consensus        66 ~~L~~L~l~~n~i~~~~~~~~l~-~L~~L~L~~n~i~----~~--~~~~~l~~L~~L~l~~n~i~~~~~-~~~l~~L~~L  137 (347)
T 4fmz_A           66 TNLEYLNLNGNQITDISPLSNLV-KLTNLYIGTNKIT----DI--SALQNLTNLRELYLNEDNISDISP-LANLTKMYSL  137 (347)
T ss_dssp             TTCCEEECCSSCCCCCGGGTTCT-TCCEEECCSSCCC----CC--GGGTTCTTCSEEECTTSCCCCCGG-GTTCTTCCEE
T ss_pred             CCccEEEccCCccccchhhhcCC-cCCEEEccCCccc----Cc--hHHcCCCcCCEEECcCCcccCchh-hccCCceeEE
Confidence            44555555554432 22344555 6666665554321    12  335566666666666666665555 6666666666


Q ss_pred             eeCCC
Q 044539          207 NLNIP  211 (217)
Q Consensus       207 ~L~~t  211 (217)
                      ++++|
T Consensus       138 ~l~~n  142 (347)
T 4fmz_A          138 NLGAN  142 (347)
T ss_dssp             ECTTC
T ss_pred             ECCCC
Confidence            66665

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=97.99  E-value=8.8e-06  Score=67.49  Aligned_cols=86  Identities=22%  Similarity=0.125  Sum_probs=68.3

Q ss_pred             CCceeEEEEeCCCCc-ccc--ccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCC-cccccccc
Q 044539          127 RENVKRFTAHGNLND-FEF--LDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYP-SEVENLFL  202 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~~--~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP-~~I~~L~~  202 (217)
                      ....|++.+..+... ++.  ...++ +|++|.+.++.-   ....+ ..+..+++|++|+|+++.+..+| ..++.+++
T Consensus        44 l~~l~~l~l~~~~l~~l~~~~~~~l~-~L~~L~L~~n~i---~~~~~-~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  118 (390)
T 3o6n_A           44 LNNQKIVTFKNSTMRKLPAALLDSFR-QVELLNLNDLQI---EEIDT-YAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPL  118 (390)
T ss_dssp             GCCCSEEEEESCEESEECTHHHHHCC-CCSEEECTTSCC---CEECT-TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             cCCceEEEecCCchhhCChhHhcccc-cCcEEECCCCcc---cccCh-hhccCCCCcCEEECCCCCCCcCCHHHhcCCCC
Confidence            467888998877654 332  45688 999999987653   23344 68899999999999999988775 55899999


Q ss_pred             CCEEeeCCCCcccCC
Q 044539          203 LRYLNLNIPSLKSLL  217 (217)
Q Consensus       203 LryL~L~~t~i~~L~  217 (217)
                      |++|+|+++.++.+|
T Consensus       119 L~~L~L~~n~l~~l~  133 (390)
T 3o6n_A          119 LTVLVLERNDLSSLP  133 (390)
T ss_dssp             CCEEECCSSCCCCCC
T ss_pred             CCEEECCCCccCcCC
Confidence            999999999988765

>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=97.98  E-value=1.2e-05  Score=69.92  Aligned_cols=83  Identities=16%  Similarity=0.060  Sum_probs=49.8

Q ss_pred             CCceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccC
Q 044539          127 RENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLL  203 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~L  203 (217)
                      +...+++.+..+... .  ..+..++ +||+|.+.++.-   ....+ ..|.++++|++|||+++.+..+|..  .|.+|
T Consensus        51 ~~~L~~L~Ls~N~i~~~~~~~~~~l~-~L~~L~Ls~N~l---~~~~~-~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L  123 (562)
T 3a79_B           51 PPRTKALSLSQNSISELRMPDISFLS-ELRVLRLSHNRI---RSLDF-HVFLFNQDLEYLDVSHNRLQNISCC--PMASL  123 (562)
T ss_dssp             CTTCCEEECCSSCCCCCCGGGTTTCT-TCCEEECCSCCC---CEECT-TTTTTCTTCCEEECTTSCCCEECSC--CCTTC
T ss_pred             CCCcCEEECCCCCccccChhhhccCC-CccEEECCCCCC---CcCCH-HHhCCCCCCCEEECCCCcCCccCcc--ccccC
Confidence            356677777766544 1  2355667 777777766542   22333 5566666666666666666666655  56666


Q ss_pred             CEEeeCCCCcccC
Q 044539          204 RYLNLNIPSLKSL  216 (217)
Q Consensus       204 ryL~L~~t~i~~L  216 (217)
                      ++|+|+++.++.+
T Consensus       124 ~~L~Ls~N~l~~l  136 (562)
T 3a79_B          124 RHLDLSFNDFDVL  136 (562)
T ss_dssp             SEEECCSSCCSBC
T ss_pred             CEEECCCCCcccc
Confidence            6666666655543

>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=97.98  E-value=1.4e-05  Score=70.17  Aligned_cols=65  Identities=17%  Similarity=0.049  Sum_probs=29.3

Q ss_pred             ccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccc-cccccCCEEeeCCCCcc
Q 044539          145 LDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEV-ENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       145 ~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I-~~L~~LryL~L~~t~i~  214 (217)
                      +..++ +|++|.+.++..   ....+ ..|+.+++|++|+|++|.+..+|..+ +++.+|++|+|++|.++
T Consensus        95 ~~~l~-~L~~L~L~~n~l---~~~~~-~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~  160 (597)
T 3oja_B           95 FAYAH-TIQKLYMGFNAI---RYLPP-HVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLE  160 (597)
T ss_dssp             TTTCT-TCCEEECCSSCC---CCCCT-TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             hcCCC-CCCEEECCCCcC---CCCCH-HHHcCCCCCCEEEeeCCCCCCCCHHHhccCCCCCEEEeeCCcCC
Confidence            33444 555555544332   11222 33444555555555555544444442 44555555555544443

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=97.98  E-value=1.8e-05  Score=59.38  Aligned_cols=83  Identities=14%  Similarity=0.070  Sum_probs=66.3

Q ss_pred             CCceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-cccccc
Q 044539          127 RENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENLFL  202 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L~~  202 (217)
                      ....+.|.+..+... .  ..+..++ +|++|.+.++.-   ....+ ..|..++.|++|+|+++.+..+|.. +..|.+
T Consensus        53 l~~L~~L~Ls~N~i~~i~~~~f~~l~-~L~~L~Ls~N~l---~~i~~-~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~  127 (193)
T 2wfh_A           53 YKHLTLIDLSNNRISTLSNQSFSNMT-QLLTLILSYNRL---RCIPP-RTFDGLKSLRLLSLHGNDISVVPEGAFNDLSA  127 (193)
T ss_dssp             CTTCCEEECCSSCCCCCCTTTTTTCT-TCCEEECCSSCC---CBCCT-TTTTTCTTCCEEECCSSCCCBCCTTTTTTCTT
T ss_pred             ccCCCEEECCCCcCCEeCHhHccCCC-CCCEEECCCCcc---CEeCH-HHhCCCCCCCEEECCCCCCCeeChhhhhcCcc
Confidence            456788888877665 2  2366788 999999987764   23444 6799999999999999999999874 789999


Q ss_pred             CCEEeeCCCCcc
Q 044539          203 LRYLNLNIPSLK  214 (217)
Q Consensus       203 LryL~L~~t~i~  214 (217)
                      |++|+|+++.+.
T Consensus       128 L~~L~L~~N~~~  139 (193)
T 2wfh_A          128 LSHLAIGANPLY  139 (193)
T ss_dssp             CCEEECCSSCEE
T ss_pred             ccEEEeCCCCee
Confidence            999999998753

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=97.97  E-value=3.2e-06  Score=76.16  Aligned_cols=83  Identities=16%  Similarity=0.082  Sum_probs=68.3

Q ss_pred             CCceeEEEEeCCCCc-c-ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCC
Q 044539          127 RENVKRFTAHGNLND-F-EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLR  204 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~-~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lr  204 (217)
                      ....+.|.+..+... + ..+..++ +|+.|.+.++.-.    .+| ..+.++++|++|+|++|.+..+|.+|++|.+|+
T Consensus       246 l~~L~~L~Ls~N~l~~lp~~~~~l~-~L~~L~Ls~N~l~----~lp-~~~~~l~~L~~L~L~~N~l~~lp~~~~~l~~L~  319 (727)
T 4b8c_D          246 YDFLTRLYLNGNSLTELPAEIKNLS-NLRVLDLSHNRLT----SLP-AELGSCFQLKYFYFFDNMVTTLPWEFGNLCNLQ  319 (727)
T ss_dssp             CCSCSCCBCTTSCCSCCCGGGGGGT-TCCEEECTTSCCS----SCC-SSGGGGTTCSEEECCSSCCCCCCSSTTSCTTCC
T ss_pred             CCCCCEEEeeCCcCcccChhhhCCC-CCCEEeCcCCcCC----ccC-hhhcCCCCCCEEECCCCCCCccChhhhcCCCcc
Confidence            345677777766654 3 3366788 9999999887642    456 788999999999999999999999999999999


Q ss_pred             EEeeCCCCccc
Q 044539          205 YLNLNIPSLKS  215 (217)
Q Consensus       205 yL~L~~t~i~~  215 (217)
                      +|+|+++.++.
T Consensus       320 ~L~L~~N~l~~  330 (727)
T 4b8c_D          320 FLGVEGNPLEK  330 (727)
T ss_dssp             CEECTTSCCCS
T ss_pred             EEeCCCCccCC
Confidence            99999999874

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

Probab=97.97  E-value=8.6e-06  Score=65.74  Aligned_cols=82  Identities=10%  Similarity=0.029  Sum_probs=38.3

Q ss_pred             CceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCc-cCCccccccc-c
Q 044539          128 ENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLI-RYPSEVENLF-L  202 (217)
Q Consensus       128 ~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~-~lP~~I~~L~-~  202 (217)
                      ...+++.+..+...   ......++ +|++|.+.++..   ...+| ..+..+++|++|+|+++.+. .+|..++.+. +
T Consensus       101 ~~L~~L~Ls~n~l~~~~p~~~~~l~-~L~~L~Ls~N~l---~~~~p-~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~  175 (313)
T 1ogq_A          101 TQLHYLYITHTNVSGAIPDFLSQIK-TLVTLDFSYNAL---SGTLP-PSISSLPNLVGITFDGNRISGAIPDSYGSFSKL  175 (313)
T ss_dssp             TTCSEEEEEEECCEEECCGGGGGCT-TCCEEECCSSEE---ESCCC-GGGGGCTTCCEEECCSSCCEEECCGGGGCCCTT
T ss_pred             CCCCEEECcCCeeCCcCCHHHhCCC-CCCEEeCCCCcc---CCcCC-hHHhcCCCCCeEECcCCcccCcCCHHHhhhhhc
Confidence            33445555444332   11233445 555555544321   11233 44555555555555555544 5555555554 5


Q ss_pred             CCEEeeCCCCcc
Q 044539          203 LRYLNLNIPSLK  214 (217)
Q Consensus       203 LryL~L~~t~i~  214 (217)
                      |++|+++++.++
T Consensus       176 L~~L~L~~N~l~  187 (313)
T 1ogq_A          176 FTSMTISRNRLT  187 (313)
T ss_dssp             CCEEECCSSEEE
T ss_pred             CcEEECcCCeee
Confidence            555555555443

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=97.97  E-value=6.4e-06  Score=66.87  Aligned_cols=84  Identities=19%  Similarity=0.101  Sum_probs=61.9

Q ss_pred             ceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCE
Q 044539          129 NVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRY  205 (217)
Q Consensus       129 ~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lry  205 (217)
                      ..+.+.+..+...   ......++ +|+.|.+.++.-   ....+ ..+..++.|+.|+|+++.+..+|..++.+++|++
T Consensus       194 ~L~~L~l~~n~i~~~~~~~l~~l~-~L~~L~L~~N~l---~~~~~-~~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~L~~  268 (332)
T 2ft3_A          194 TLNELHLDHNKIQAIELEDLLRYS-KLYRLGLGHNQI---RMIEN-GSLSFLPTLRELHLDNNKLSRVPAGLPDLKLLQV  268 (332)
T ss_dssp             SCSCCBCCSSCCCCCCTTSSTTCT-TCSCCBCCSSCC---CCCCT-TGGGGCTTCCEEECCSSCCCBCCTTGGGCTTCCE
T ss_pred             CCCEEECCCCcCCccCHHHhcCCC-CCCEEECCCCcC---CcCCh-hHhhCCCCCCEEECCCCcCeecChhhhcCccCCE
Confidence            4444555444333   12355667 788887776543   22333 5788999999999999999999999999999999


Q ss_pred             EeeCCCCcccCC
Q 044539          206 LNLNIPSLKSLL  217 (217)
Q Consensus       206 L~L~~t~i~~L~  217 (217)
                      |+++++.++.++
T Consensus       269 L~l~~N~l~~~~  280 (332)
T 2ft3_A          269 VYLHTNNITKVG  280 (332)
T ss_dssp             EECCSSCCCBCC
T ss_pred             EECCCCCCCccC
Confidence            999999988653

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=97.97  E-value=1.5e-05  Score=72.81  Aligned_cols=85  Identities=21%  Similarity=0.136  Sum_probs=52.3

Q ss_pred             CCCceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccC-Cccccccc
Q 044539          126 LRENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRY-PSEVENLF  201 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~l-P~~I~~L~  201 (217)
                      .+...++|.+..+...   ...+..++ +||+|.+.++..  ...+.+ ..|.++++||+|+|++|.+..+ |+.+++|.
T Consensus        22 lp~~l~~LdLs~N~i~~i~~~~~~~l~-~L~~LdLs~n~~--~~~i~~-~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~   97 (844)
T 3j0a_A           22 VLNTTERLLLSFNYIRTVTASSFPFLE-QLQLLELGSQYT--PLTIDK-EAFRNLPNLRILDLGSSKIYFLHPDAFQGLF   97 (844)
T ss_dssp             SCTTCCEEEEESCCCCEECSSSCSSCC-SCSEEEECTTCC--CCEECT-TTTSSCTTCCEEECTTCCCCEECTTSSCSCS
T ss_pred             CCCCcCEEECCCCcCCccChhHCcccc-cCeEEeCCCCCC--ccccCH-HHhcCCCCCCEEECCCCcCcccCHhHccCCc
Confidence            4567777777776654   22355677 777777766532  112223 5566667777777776665543 56666666


Q ss_pred             cCCEEeeCCCCcc
Q 044539          202 LLRYLNLNIPSLK  214 (217)
Q Consensus       202 ~LryL~L~~t~i~  214 (217)
                      +|++|+|++|.++
T Consensus        98 ~L~~L~Ls~n~l~  110 (844)
T 3j0a_A           98 HLFELRLYFCGLS  110 (844)
T ss_dssp             SCCCEECTTCCCS
T ss_pred             ccCEeeCcCCCCC
Confidence            6666666666554

>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=97.96  E-value=1.4e-05  Score=67.93  Aligned_cols=83  Identities=17%  Similarity=0.015  Sum_probs=45.6

Q ss_pred             CCceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-cccccc
Q 044539          127 RENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENLFL  202 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L~~  202 (217)
                      +...+.+.+..+...   ...+..++ +|+.|.+.++..   ....+ ..|.++++|++|+|+++.+..+|.. ++++.+
T Consensus        31 ~~~l~~L~L~~n~l~~~~~~~~~~l~-~L~~L~L~~n~i---~~~~~-~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  105 (477)
T 2id5_A           31 PTETRLLDLGKNRIKTLNQDEFASFP-HLEELELNENIV---SAVEP-GAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSN  105 (477)
T ss_dssp             CTTCSEEECCSSCCCEECTTTTTTCT-TCCEEECTTSCC---CEECT-TTTTTCTTCCEEECCSSCCCSCCTTSSTTCTT
T ss_pred             CCCCcEEECCCCccceECHhHccCCC-CCCEEECCCCcc---CEeCh-hhhhCCccCCEEECCCCcCCccCcccccCCCC
Confidence            455666666665543   12345566 677776655432   12223 4555666666666666665555543 455666


Q ss_pred             CCEEeeCCCCcc
Q 044539          203 LRYLNLNIPSLK  214 (217)
Q Consensus       203 LryL~L~~t~i~  214 (217)
                      |++|+|+++.++
T Consensus       106 L~~L~Ls~n~i~  117 (477)
T 2id5_A          106 LTKLDISENKIV  117 (477)
T ss_dssp             CCEEECTTSCCC
T ss_pred             CCEEECCCCccc
Confidence            666666655544

>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=97.95  E-value=1e-05  Score=70.79  Aligned_cols=85  Identities=14%  Similarity=-0.090  Sum_probs=47.2

Q ss_pred             CCCceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCcc-CCccccccc
Q 044539          126 LRENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIR-YPSEVENLF  201 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~-lP~~I~~L~  201 (217)
                      .+...+++.+..+...   ...+..++ +||+|.+.++.-   ....+ ..|.++++|++|+|+++.+.. .|..++.+.
T Consensus        31 l~~~l~~L~Ls~n~i~~~~~~~~~~l~-~L~~L~Ls~n~i---~~~~~-~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~  105 (606)
T 3t6q_A           31 LPNSTECLEFSFNVLPTIQNTTFSRLI-NLTFLDLTRCQI---YWIHE-DTFQSQHRLDTLVLTANPLIFMAETALSGPK  105 (606)
T ss_dssp             SCTTCCEEECTTCCCSEECTTTSTTCT-TCSEEECTTCCC---CEECT-TTTTTCTTCCEEECTTCCCSEECTTTTSSCT
T ss_pred             CCCcCcEEEccCCccCcCChhHhccCc-cceEEECCCCcc---ceeCh-hhccCccccCeeeCCCCcccccChhhhcccc
Confidence            3456677777666544   12345666 777777665532   12333 455566666666666665543 245555566


Q ss_pred             cCCEEeeCCCCccc
Q 044539          202 LLRYLNLNIPSLKS  215 (217)
Q Consensus       202 ~LryL~L~~t~i~~  215 (217)
                      +|++|+++++.++.
T Consensus       106 ~L~~L~L~~n~i~~  119 (606)
T 3t6q_A          106 ALKHLFFIQTGISS  119 (606)
T ss_dssp             TCCEEECTTSCCSC
T ss_pred             cccEeeccccCccc
Confidence            66666665555544

>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=97.95  E-value=9.3e-06  Score=69.83  Aligned_cols=80  Identities=15%  Similarity=0.104  Sum_probs=40.2

Q ss_pred             CceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCC
Q 044539          128 ENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLR  204 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lr  204 (217)
                      .+.+++.+..+... .  .....++ +||+|.+.++.-   ....+ ..+.++++|++|+|+++.+..+|..  .+.+|+
T Consensus        21 ~~L~~L~Ls~n~i~~~~~~~~~~l~-~L~~L~Ls~n~l---~~~~~-~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L~   93 (520)
T 2z7x_B           21 QKTTILNISQNYISELWTSDILSLS-KLRILIISHNRI---QYLDI-SVFKFNQELEYLDLSHNKLVKISCH--PTVNLK   93 (520)
T ss_dssp             TTCSEEECCSSCCCCCCHHHHTTCT-TCCEEECCSSCC---CEEEG-GGGTTCTTCCEEECCSSCCCEEECC--CCCCCS
T ss_pred             ccccEEECCCCcccccChhhccccc-cccEEecCCCcc---CCcCh-HHhhcccCCCEEecCCCceeecCcc--ccCCcc
Confidence            45556666555443 1  1244555 666666555432   12223 4555555555555555555555544  455555


Q ss_pred             EEeeCCCCcc
Q 044539          205 YLNLNIPSLK  214 (217)
Q Consensus       205 yL~L~~t~i~  214 (217)
                      +|+|+++.++
T Consensus        94 ~L~L~~N~l~  103 (520)
T 2z7x_B           94 HLDLSFNAFD  103 (520)
T ss_dssp             EEECCSSCCS
T ss_pred             EEeccCCccc
Confidence            5555555444

>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=97.95  E-value=1.6e-05  Score=62.78  Aligned_cols=44  Identities=18%  Similarity=0.089  Sum_probs=26.7

Q ss_pred             hhhcCCCceeEEEeCCCCCccCCc-cccccccCCEEeeCCCCccc
Q 044539          172 KICKMFNFLRVLDLGSLVLIRYPS-EVENLFLLRYLNLNIPSLKS  215 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~lP~-~I~~L~~LryL~L~~t~i~~  215 (217)
                      ..+.++++|++|+++++.+..++. .++.+++|++|+++++.++.
T Consensus        94 ~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~  138 (276)
T 2z62_A           94 GAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQS  138 (276)
T ss_dssp             TTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCC
T ss_pred             hhhcCCccccEEECCCCCccccCchhcccCCCCCEEECcCCccce
Confidence            445566666666666666555543 46666666666666666554

>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=97.95  E-value=1.3e-05  Score=69.83  Aligned_cols=81  Identities=12%  Similarity=-0.097  Sum_probs=62.7

Q ss_pred             eEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccC-CccccccccCCEEee
Q 044539          131 KRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRY-PSEVENLFLLRYLNL  208 (217)
Q Consensus       131 r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~l-P~~I~~L~~LryL~L  208 (217)
                      +++.+...... ++.. -.+ .++.|.+.++.-   ....+ ..+.++++|++|+|+++.+..+ |+.++.|.+|++|+|
T Consensus        34 ~~l~ls~~~L~~ip~~-~~~-~L~~L~Ls~N~i---~~~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  107 (562)
T 3a79_B           34 SMVDYSNRNLTHVPKD-LPP-RTKALSLSQNSI---SELRM-PDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDV  107 (562)
T ss_dssp             CEEECTTSCCCSCCTT-SCT-TCCEEECCSSCC---CCCCG-GGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEEC
T ss_pred             cEEEcCCCCCccCCCC-CCC-CcCEEECCCCCc---cccCh-hhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEEC
Confidence            56666655443 3321 236 999999988764   23444 7899999999999999998866 678999999999999


Q ss_pred             CCCCcccCC
Q 044539          209 NIPSLKSLL  217 (217)
Q Consensus       209 ~~t~i~~L~  217 (217)
                      +++.++++|
T Consensus       108 s~N~l~~lp  116 (562)
T 3a79_B          108 SHNRLQNIS  116 (562)
T ss_dssp             TTSCCCEEC
T ss_pred             CCCcCCccC
Confidence            999998775

>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=97.95  E-value=1.9e-05  Score=69.10  Aligned_cols=81  Identities=17%  Similarity=0.044  Sum_probs=67.9

Q ss_pred             ceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEe
Q 044539          129 NVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLN  207 (217)
Q Consensus       129 ~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~  207 (217)
                      ..+.|.+..+... ++.+..++ +|+.|.+.++.-.    .+| ..++.+++|++|+|++|.++.+| .++.|++|++|+
T Consensus       442 ~L~~L~Ls~n~l~~lp~~~~l~-~L~~L~Ls~N~l~----~lp-~~~~~l~~L~~L~Ls~N~l~~lp-~l~~l~~L~~L~  514 (567)
T 1dce_A          442 DVRVLHLAHKDLTVLCHLEQLL-LVTHLDLSHNRLR----ALP-PALAALRCLEVLQASDNALENVD-GVANLPRLQELL  514 (567)
T ss_dssp             TCSEEECTTSCCSSCCCGGGGT-TCCEEECCSSCCC----CCC-GGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEE
T ss_pred             CceEEEecCCCCCCCcCccccc-cCcEeecCccccc----ccc-hhhhcCCCCCEEECCCCCCCCCc-ccCCCCCCcEEE
Confidence            4667777776554 45577888 9999999887642    466 78999999999999999999999 899999999999


Q ss_pred             eCCCCcccC
Q 044539          208 LNIPSLKSL  216 (217)
Q Consensus       208 L~~t~i~~L  216 (217)
                      |+++.++.+
T Consensus       515 Ls~N~l~~~  523 (567)
T 1dce_A          515 LCNNRLQQS  523 (567)
T ss_dssp             CCSSCCCSS
T ss_pred             CCCCCCCCC
Confidence            999999876

>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=97.94  E-value=1.8e-05  Score=62.39  Aligned_cols=84  Identities=15%  Similarity=0.168  Sum_probs=58.0

Q ss_pred             CceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCcc--CCcccccccc
Q 044539          128 ENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIR--YPSEVENLFL  202 (217)
Q Consensus       128 ~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~--lP~~I~~L~~  202 (217)
                      .+.+.+.+..+...   ......++ +|++|.+.++...   ...+ ..+..+++|++|+|+++.+..  +|..++.+.+
T Consensus        76 ~~L~~L~L~~n~l~~~~~~~~~~l~-~L~~L~l~~n~l~---~~~~-~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~  150 (276)
T 2z62_A           76 SHLSTLILTGNPIQSLALGAFSGLS-SLQKLVAVETNLA---SLEN-FPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTN  150 (276)
T ss_dssp             TTCCEEECTTCCCCEECTTTTTTCT-TCCEEECTTSCCC---CSTT-CCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTT
T ss_pred             cCCCEEECCCCccCccChhhhcCCc-cccEEECCCCCcc---ccCc-hhcccCCCCCEEECcCCccceecCchhhccCCC
Confidence            45566666655443   12345566 7777776655432   2222 457888899999999988775  7888999999


Q ss_pred             CCEEeeCCCCcccC
Q 044539          203 LRYLNLNIPSLKSL  216 (217)
Q Consensus       203 LryL~L~~t~i~~L  216 (217)
                      |++|+++++.++.+
T Consensus       151 L~~L~Ls~N~l~~~  164 (276)
T 2z62_A          151 LEHLDLSSNKIQSI  164 (276)
T ss_dssp             CCEEECCSSCCCEE
T ss_pred             CCEEECCCCCCCcC
Confidence            99999998887654

>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=97.94  E-value=9.8e-06  Score=69.67  Aligned_cols=64  Identities=16%  Similarity=-0.029  Sum_probs=55.0

Q ss_pred             CCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccC-CccccccccCCEEeeCCCCcccCC
Q 044539          149 DSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRY-PSEVENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       149 ~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~l-P~~I~~L~~LryL~L~~t~i~~L~  217 (217)
                      + +++.|.+.++.-   ....+ ..+.++++|++|+|+++.+..+ |+.+++|.+|++|+|+++.++++|
T Consensus        21 ~-~L~~L~Ls~n~i---~~~~~-~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~lp   85 (520)
T 2z7x_B           21 Q-KTTILNISQNYI---SELWT-SDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNKLVKIS   85 (520)
T ss_dssp             T-TCSEEECCSSCC---CCCCH-HHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCSSCCCEEE
T ss_pred             c-cccEEECCCCcc---cccCh-hhccccccccEEecCCCccCCcChHHhhcccCCCEEecCCCceeecC
Confidence            6 999999988764   23444 6899999999999999998876 789999999999999999998764

>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=97.94  E-value=1.8e-05  Score=64.04  Aligned_cols=83  Identities=13%  Similarity=0.075  Sum_probs=56.8

Q ss_pred             CCceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccC
Q 044539          127 RENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLL  203 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~L  203 (217)
                      +...+.+.+..+... .  .....++ +|++|.+.++.-   ....+ ..+..+++|++|+|+++.+..+|..+.  .+|
T Consensus        51 ~~~l~~L~L~~n~i~~~~~~~~~~l~-~L~~L~L~~n~l---~~~~~-~~~~~l~~L~~L~Ls~n~l~~l~~~~~--~~L  123 (330)
T 1xku_A           51 PPDTALLDLQNNKITEIKDGDFKNLK-NLHTLILINNKI---SKISP-GAFAPLVKLERLYLSKNQLKELPEKMP--KTL  123 (330)
T ss_dssp             CTTCCEEECCSSCCCCBCTTTTTTCT-TCCEEECCSSCC---CCBCT-TTTTTCTTCCEEECCSSCCSBCCSSCC--TTC
T ss_pred             CCCCeEEECCCCcCCEeChhhhccCC-CCCEEECCCCcC---CeeCH-HHhcCCCCCCEEECCCCcCCccChhhc--ccc
Confidence            456677777666544 2  1355677 888887766543   22334 667788888888888888878887766  688


Q ss_pred             CEEeeCCCCcccC
Q 044539          204 RYLNLNIPSLKSL  216 (217)
Q Consensus       204 ryL~L~~t~i~~L  216 (217)
                      ++|+++++.++.+
T Consensus       124 ~~L~l~~n~l~~~  136 (330)
T 1xku_A          124 QELRVHENEITKV  136 (330)
T ss_dssp             CEEECCSSCCCBB
T ss_pred             cEEECCCCccccc
Confidence            8888888777654

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=97.93  E-value=2.3e-05  Score=61.83  Aligned_cols=84  Identities=23%  Similarity=0.165  Sum_probs=56.1

Q ss_pred             CceeEEEEeCCCCc-cc--cccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-ccccccC
Q 044539          128 ENVKRFTAHGNLND-FE--FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENLFLL  203 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~~--~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L~~L  203 (217)
                      .+.+.+.+..+... .+  ....++ +|++|.+.++.-   ....+ ..+..++.|+.|+|++|.+..+|.. ++.+.+|
T Consensus       109 ~~L~~L~L~~n~l~~~~~~~~~~l~-~L~~L~L~~n~l---~~~~~-~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L  183 (272)
T 3rfs_A          109 TNLKELVLVENQLQSLPDGVFDKLT-NLTYLNLAHNQL---QSLPK-GVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQL  183 (272)
T ss_dssp             TTCCEEECTTSCCCCCCTTTTTTCT-TCCEEECCSSCC---CCCCT-TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             cCCCEEECCCCcCCccCHHHhccCC-CCCEEECCCCcc---CccCH-HHhccCccCCEEECCCCCcCccCHHHhcCCccC
Confidence            45666776665544 22  145667 888887776643   22333 5567788888888888887766654 4778888


Q ss_pred             CEEeeCCCCcccC
Q 044539          204 RYLNLNIPSLKSL  216 (217)
Q Consensus       204 ryL~L~~t~i~~L  216 (217)
                      ++|+++++.++.+
T Consensus       184 ~~L~L~~N~l~~~  196 (272)
T 3rfs_A          184 KDLRLYQNQLKSV  196 (272)
T ss_dssp             CEEECCSSCCSCC
T ss_pred             CEEECCCCcCCcc
Confidence            8888888777654

>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=97.92  E-value=2.1e-05  Score=63.29  Aligned_cols=82  Identities=16%  Similarity=0.141  Sum_probs=60.8

Q ss_pred             CCceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCE
Q 044539          127 RENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRY  205 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lry  205 (217)
                      ....+.+.+..+... .+....++ +|+.|.+.++.-.    .+  ..+..+++|+.|+|+++.+..+|. ++.+.+|++
T Consensus        62 l~~L~~L~L~~n~i~~~~~~~~l~-~L~~L~L~~n~l~----~~--~~~~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~  133 (308)
T 1h6u_A           62 LNNLIGLELKDNQITDLAPLKNLT-KITELELSGNPLK----NV--SAIAGLQSIKTLDLTSTQITDVTP-LAGLSNLQV  133 (308)
T ss_dssp             CTTCCEEECCSSCCCCCGGGTTCC-SCCEEECCSCCCS----CC--GGGTTCTTCCEEECTTSCCCCCGG-GTTCTTCCE
T ss_pred             cCCCCEEEccCCcCCCChhHccCC-CCCEEEccCCcCC----Cc--hhhcCCCCCCEEECCCCCCCCchh-hcCCCCCCE
Confidence            456777777766554 33366777 8888888776542    12  457788889999999888888775 888899999


Q ss_pred             EeeCCCCcccC
Q 044539          206 LNLNIPSLKSL  216 (217)
Q Consensus       206 L~L~~t~i~~L  216 (217)
                      |+++++.++.+
T Consensus       134 L~l~~n~l~~~  144 (308)
T 1h6u_A          134 LYLDLNQITNI  144 (308)
T ss_dssp             EECCSSCCCCC
T ss_pred             EECCCCccCcC
Confidence            99988887654

>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=97.91  E-value=1.8e-05  Score=66.73  Aligned_cols=83  Identities=19%  Similarity=0.084  Sum_probs=45.1

Q ss_pred             ceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccC-CccccccccCC
Q 044539          129 NVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRY-PSEVENLFLLR  204 (217)
Q Consensus       129 ~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~l-P~~I~~L~~Lr  204 (217)
                      ..+.+.+..+...   ......++ +|++|.+.++.-   ....+ ..+..++.|++|+|++|.+..+ |..++.+.+|+
T Consensus       300 ~L~~L~Ls~n~l~~~~~~~~~~l~-~L~~L~Ls~N~l---~~~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~  374 (455)
T 3v47_A          300 DLEQLTLAQNEINKIDDNAFWGLT-HLLKLNLSQNFL---GSIDS-RMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLK  374 (455)
T ss_dssp             TCCEEECTTSCCCEECTTTTTTCT-TCCEEECCSSCC---CEECG-GGGTTCTTCCEEECCSSCCCEECTTTTTTCTTCC
T ss_pred             CCCEEECCCCcccccChhHhcCcc-cCCEEECCCCcc---CCcCh-hHhcCcccCCEEECCCCcccccChhhcccccccc
Confidence            4455555444433   11234455 666666655432   22333 5556666666666666665544 55666666666


Q ss_pred             EEeeCCCCcccC
Q 044539          205 YLNLNIPSLKSL  216 (217)
Q Consensus       205 yL~L~~t~i~~L  216 (217)
                      +|+|++++++.+
T Consensus       375 ~L~L~~N~l~~~  386 (455)
T 3v47_A          375 ELALDTNQLKSV  386 (455)
T ss_dssp             EEECCSSCCSCC
T ss_pred             EEECCCCccccC
Confidence            666666666554

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=97.91  E-value=2.9e-05  Score=62.97  Aligned_cols=82  Identities=12%  Similarity=0.085  Sum_probs=48.3

Q ss_pred             CCceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccC
Q 044539          127 RENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLL  203 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~L  203 (217)
                      +...+.+.+..+... .  .....++ +|++|.+.++.-   ....+ ..+.++++|++|+|+++.+..+|..+.  .+|
T Consensus        53 ~~~l~~L~l~~n~i~~~~~~~~~~l~-~L~~L~L~~n~l---~~~~~-~~~~~l~~L~~L~L~~n~l~~l~~~~~--~~L  125 (332)
T 2ft3_A           53 SPDTTLLDLQNNDISELRKDDFKGLQ-HLYALVLVNNKI---SKIHE-KAFSPLRKLQKLYISKNHLVEIPPNLP--SSL  125 (332)
T ss_dssp             CTTCCEEECCSSCCCEECTTTTTTCT-TCCEEECCSSCC---CEECG-GGSTTCTTCCEEECCSSCCCSCCSSCC--TTC
T ss_pred             CCCCeEEECCCCcCCccCHhHhhCCC-CCcEEECCCCcc---CccCH-hHhhCcCCCCEEECCCCcCCccCcccc--ccC
Confidence            345677777665543 2  2355667 777777765542   22334 566777777777777776666665554  455


Q ss_pred             CEEeeCCCCccc
Q 044539          204 RYLNLNIPSLKS  215 (217)
Q Consensus       204 ryL~L~~t~i~~  215 (217)
                      ++|+++++.++.
T Consensus       126 ~~L~l~~n~i~~  137 (332)
T 2ft3_A          126 VELRIHDNRIRK  137 (332)
T ss_dssp             CEEECCSSCCCC
T ss_pred             CEEECCCCccCc
Confidence            555555555443

>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=97.89  E-value=2.3e-05  Score=68.53  Aligned_cols=82  Identities=11%  Similarity=0.007  Sum_probs=40.4

Q ss_pred             CceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCc-cccccccC
Q 044539          128 ENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPS-EVENLFLL  203 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~-~I~~L~~L  203 (217)
                      .+.+.|.+..+... +  ..+..++ +|++|.+.++.-   ....+ ..|.++++|++|+|+++.+..+|+ .+++|++|
T Consensus        76 ~~L~~L~Ls~N~i~~i~~~~f~~L~-~L~~L~Ls~N~l---~~l~~-~~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~~L  150 (635)
T 4g8a_A           76 PELQVLDLSRCEIQTIEDGAYQSLS-HLSTLILTGNPI---QSLAL-GAFSGLSSLQKLVAVETNLASLENFPIGHLKTL  150 (635)
T ss_dssp             TTCCEEECTTCCCCEECTTTTTTCT-TCCEEECTTCCC---CEECG-GGGTTCTTCCEEECTTSCCCCSTTCCCTTCTTC
T ss_pred             CCCCEEECCCCcCCCcChhHhcCCC-CCCEEEccCCcC---CCCCH-HHhcCCCCCCEEECCCCcCCCCChhhhhcCccc
Confidence            34556666555433 1  1244556 666666655432   11222 345555555555555555554443 24555555


Q ss_pred             CEEeeCCCCcc
Q 044539          204 RYLNLNIPSLK  214 (217)
Q Consensus       204 ryL~L~~t~i~  214 (217)
                      ++|+|+++.++
T Consensus       151 ~~L~Ls~N~l~  161 (635)
T 4g8a_A          151 KELNVAHNLIQ  161 (635)
T ss_dssp             CEEECCSSCCC
T ss_pred             CeeccccCccc
Confidence            55555555443

>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=97.89  E-value=2.3e-05  Score=62.60  Aligned_cols=82  Identities=18%  Similarity=0.106  Sum_probs=62.7

Q ss_pred             CCceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCE
Q 044539          127 RENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRY  205 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lry  205 (217)
                      ....+.+.+..+... ......++ +|+.|.+.++.-.    .+  ..+..+++|+.|+|++|.+..+| .++.+.+|++
T Consensus        67 l~~L~~L~L~~n~l~~~~~l~~l~-~L~~L~l~~n~l~----~~--~~l~~l~~L~~L~L~~n~i~~~~-~l~~l~~L~~  138 (291)
T 1h6t_A           67 LPNVTKLFLNGNKLTDIKPLANLK-NLGWLFLDENKVK----DL--SSLKDLKKLKSLSLEHNGISDIN-GLVHLPQLES  138 (291)
T ss_dssp             CTTCCEEECCSSCCCCCGGGTTCT-TCCEEECCSSCCC----CG--GGGTTCTTCCEEECTTSCCCCCG-GGGGCTTCCE
T ss_pred             CCCCCEEEccCCccCCCcccccCC-CCCEEECCCCcCC----CC--hhhccCCCCCEEECCCCcCCCCh-hhcCCCCCCE
Confidence            466788888776654 33467788 8899888776542    23  45888999999999999988874 6889999999


Q ss_pred             EeeCCCCcccC
Q 044539          206 LNLNIPSLKSL  216 (217)
Q Consensus       206 L~L~~t~i~~L  216 (217)
                      |+++++.++.+
T Consensus       139 L~l~~n~l~~~  149 (291)
T 1h6t_A          139 LYLGNNKITDI  149 (291)
T ss_dssp             EECCSSCCCCC
T ss_pred             EEccCCcCCcc
Confidence            99999887654

>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=97.88  E-value=2.7e-05  Score=66.19  Aligned_cols=79  Identities=16%  Similarity=0.099  Sum_probs=38.0

Q ss_pred             CceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEE
Q 044539          128 ENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYL  206 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL  206 (217)
                      ...+.+.+..+... .+....++ +|+.|.+.++...    .++ . +.++++|++|+|++|.+..+|. ++++++|++|
T Consensus        68 ~~L~~L~Ls~n~l~~~~~~~~l~-~L~~L~l~~n~l~----~~~-~-~~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L  139 (466)
T 1o6v_A           68 NNLTQINFSNNQLTDITPLKNLT-KLVDILMNNNQIA----DIT-P-LANLTNLTGLTLFNNQITDIDP-LKNLTNLNRL  139 (466)
T ss_dssp             TTCCEEECCSSCCCCCGGGTTCT-TCCEEECCSSCCC----CCG-G-GTTCTTCCEEECCSSCCCCCGG-GTTCTTCSEE
T ss_pred             cCCCEEECCCCccCCchhhhccc-cCCEEECCCCccc----cCh-h-hcCCCCCCEEECCCCCCCCChH-HcCCCCCCEE
Confidence            34444444444332 22244445 5555555443321    121 2 5555556666665555555544 5555666666


Q ss_pred             eeCCCCcc
Q 044539          207 NLNIPSLK  214 (217)
Q Consensus       207 ~L~~t~i~  214 (217)
                      +++++.++
T Consensus       140 ~l~~n~l~  147 (466)
T 1o6v_A          140 ELSSNTIS  147 (466)
T ss_dssp             EEEEEEEC
T ss_pred             ECCCCccC
Confidence            65555444

>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=97.87  E-value=2.5e-05  Score=68.31  Aligned_cols=44  Identities=16%  Similarity=0.165  Sum_probs=28.7

Q ss_pred             hhhcCCCceeEEEeCCCCCc--cCCccccccccCCEEeeCCCCccc
Q 044539          172 KICKMFNFLRVLDLGSLVLI--RYPSEVENLFLLRYLNLNIPSLKS  215 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~--~lP~~I~~L~~LryL~L~~t~i~~  215 (217)
                      ..++++++|++|+|+++.+.  .+|..+++|++|++|+++++.++.
T Consensus       122 ~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls~n~l~~  167 (606)
T 3vq2_A          122 FPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQT  167 (606)
T ss_dssp             SCCTTCTTCCEEECCSSCCCCCCCCGGGGTCTTCCEEECCSSCCCE
T ss_pred             cccCCCCCCCEEeCCCCcccceechHhHhhcCCCCEEEccCCccee
Confidence            34566666666666666655  466667777777777777766654

>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=97.86  E-value=1e-05  Score=64.73  Aligned_cols=85  Identities=20%  Similarity=0.138  Sum_probs=43.5

Q ss_pred             CCceeEEEEeCCCCc-ccc--ccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccC
Q 044539          127 RENVKRFTAHGNLND-FEF--LDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLL  203 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~~--~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~L  203 (217)
                      +...+++.+..+... .+.  ...++ +|+.|.+.++.-. .....+ ..+..+++|++|+|+++.+..+|..++.+.+|
T Consensus        27 ~~~l~~L~L~~n~l~~i~~~~~~~l~-~L~~L~L~~n~l~-~~~~~~-~~~~~~~~L~~L~Ls~n~i~~l~~~~~~l~~L  103 (306)
T 2z66_A           27 PSSATRLELESNKLQSLPHGVFDKLT-QLTKLSLSSNGLS-FKGCCS-QSDFGTTSLKYLDLSFNGVITMSSNFLGLEQL  103 (306)
T ss_dssp             CTTCCEEECCSSCCCCCCTTTTTTCT-TCSEEECCSSCCC-EEEEEE-HHHHSCSCCCEEECCSCSEEEEEEEEETCTTC
T ss_pred             CCCCCEEECCCCccCccCHhHhhccc-cCCEEECCCCccC-cccCcc-cccccccccCEEECCCCccccChhhcCCCCCC
Confidence            456667776665543 221  34566 7777776654421 001112 33344555555555555555555555555555


Q ss_pred             CEEeeCCCCcc
Q 044539          204 RYLNLNIPSLK  214 (217)
Q Consensus       204 ryL~L~~t~i~  214 (217)
                      ++|+++++.++
T Consensus       104 ~~L~l~~n~l~  114 (306)
T 2z66_A          104 EHLDFQHSNLK  114 (306)
T ss_dssp             CEEECTTSEEE
T ss_pred             CEEECCCCccc
Confidence            55555555443

>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=97.83  E-value=4.2e-05  Score=61.09  Aligned_cols=42  Identities=17%  Similarity=0.152  Sum_probs=23.3

Q ss_pred             hhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCccc
Q 044539          173 ICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKS  215 (217)
Q Consensus       173 ~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~  215 (217)
                      .+.++++|+.|+|++|.+..+|. ++.+.+|++|+++++.++.
T Consensus       151 ~l~~l~~L~~L~L~~N~l~~~~~-l~~l~~L~~L~L~~N~i~~  192 (291)
T 1h6t_A          151 VLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNHISD  192 (291)
T ss_dssp             GGGGCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCB
T ss_pred             hhccCCCCCEEEccCCccccchh-hcCCCccCEEECCCCcCCC
Confidence            34555555555555555555544 5555555555555555544

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=97.83  E-value=3.1e-05  Score=67.07  Aligned_cols=83  Identities=16%  Similarity=0.169  Sum_probs=51.1

Q ss_pred             ceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCcc--CCccccccccC
Q 044539          129 NVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIR--YPSEVENLFLL  203 (217)
Q Consensus       129 ~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~--lP~~I~~L~~L  203 (217)
                      +.|.+.+..+... .  ..+..++ +|++|.+.++.-.   ...+ ..++++++|++|+|+++.+..  +|+.+++|++|
T Consensus        77 ~L~~L~L~~n~l~~~~~~~~~~l~-~L~~L~L~~n~l~---~l~~-~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L  151 (570)
T 2z63_A           77 HLSTLILTGNPIQSLALGAFSGLS-SLQKLVAVETNLA---SLEN-FPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNL  151 (570)
T ss_dssp             TCCEEECTTCCCCEECTTTTTTCT-TCCEEECTTSCCC---CSTT-CSCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTC
T ss_pred             hCCEEeCcCCcCCccCHhhhcCcc-ccccccccccccc---cCCC-ccccccccccEEecCCCccceecChhhhcccCCC
Confidence            3445554444332 1  1234455 5555555444321   1222 357788888888888888764  68888888888


Q ss_pred             CEEeeCCCCcccC
Q 044539          204 RYLNLNIPSLKSL  216 (217)
Q Consensus       204 ryL~L~~t~i~~L  216 (217)
                      ++|+++++.++.+
T Consensus       152 ~~L~l~~n~l~~~  164 (570)
T 2z63_A          152 EHLDLSSNKIQSI  164 (570)
T ss_dssp             CEEECTTSCCCEE
T ss_pred             CEEeCcCCcccee
Confidence            8888888877654

>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=97.82  E-value=5.7e-05  Score=60.77  Aligned_cols=82  Identities=15%  Similarity=0.148  Sum_probs=64.9

Q ss_pred             CCceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCE
Q 044539          127 RENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRY  205 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lry  205 (217)
                      ..+.+.+.+..+... .+....++ +|+.|.+.++.-.    .+  ..+..+++|+.|+|+++.+..+|. ++.+.+|++
T Consensus        84 l~~L~~L~L~~n~l~~~~~~~~l~-~L~~L~l~~n~l~----~~--~~l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~  155 (308)
T 1h6u_A           84 LTKITELELSGNPLKNVSAIAGLQ-SIKTLDLTSTQIT----DV--TPLAGLSNLQVLYLDLNQITNISP-LAGLTNLQY  155 (308)
T ss_dssp             CCSCCEEECCSCCCSCCGGGTTCT-TCCEEECTTSCCC----CC--GGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCE
T ss_pred             CCCCCEEEccCCcCCCchhhcCCC-CCCEEECCCCCCC----Cc--hhhcCCCCCCEEECCCCccCcCcc-ccCCCCccE
Confidence            456788888877654 45567788 9999988876542    23  348899999999999999888876 899999999


Q ss_pred             EeeCCCCcccC
Q 044539          206 LNLNIPSLKSL  216 (217)
Q Consensus       206 L~L~~t~i~~L  216 (217)
                      |++++|.++.+
T Consensus       156 L~l~~n~l~~~  166 (308)
T 1h6u_A          156 LSIGNAQVSDL  166 (308)
T ss_dssp             EECCSSCCCCC
T ss_pred             EEccCCcCCCC
Confidence            99999988765

>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=97.80  E-value=3.3e-05  Score=62.78  Aligned_cols=42  Identities=12%  Similarity=0.071  Sum_probs=23.8

Q ss_pred             hhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcc
Q 044539          172 KICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~  214 (217)
                      ..+.+++.|+.|+|++|.+..+|. ++.+.+|++|++++|.|+
T Consensus       305 ~~l~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~l~~N~i~  346 (347)
T 4fmz_A          305 EVIGGLTNLTTLFLSQNHITDIRP-LASLSKMDSADFANQVIK  346 (347)
T ss_dssp             HHHHTCTTCSEEECCSSSCCCCGG-GGGCTTCSEESSSCC---
T ss_pred             hHhhccccCCEEEccCCccccccC-hhhhhccceeehhhhccc
Confidence            445556666666666666555554 566666666666666554

>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=97.78  E-value=2.3e-05  Score=62.72  Aligned_cols=43  Identities=14%  Similarity=0.201  Sum_probs=20.0

Q ss_pred             hhhcCCCceeEEEeCCCCCccCCc-cccccccCCEEeeCCCCcc
Q 044539          172 KICKMFNFLRVLDLGSLVLIRYPS-EVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~lP~-~I~~L~~LryL~L~~t~i~  214 (217)
                      ..+..++.|+.|+|+++.+..+|. .++.+.+|++|+|+++.++
T Consensus       193 ~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~  236 (306)
T 2z66_A          193 TAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIM  236 (306)
T ss_dssp             TTTTTCTTCCEEECTTSCCSBCCSGGGTTCTTCCEEECTTSCCC
T ss_pred             HHhcCCCCCCEEECCCCccCccChhhccCcccCCEeECCCCCCc
Confidence            334444445555555544443332 3444455555555554443

>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=97.78  E-value=3.5e-05  Score=67.69  Aligned_cols=45  Identities=24%  Similarity=0.211  Sum_probs=27.5

Q ss_pred             hhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccC
Q 044539          172 KICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L  216 (217)
                      ..+..++.|++|+|++|.+..+|..++.+.+|++|+|++|.+..+
T Consensus       295 ~~~~~l~~L~~L~Ls~N~l~~i~~~~~~l~~L~~L~L~~N~l~~~  339 (597)
T 3oja_B          295 LYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDHNSIVTL  339 (597)
T ss_dssp             CSSSCCTTCCEEECCSSCCCCCGGGHHHHTTCSEEECCSSCCCCC
T ss_pred             cccccCCCCcEEECCCCCCCccCcccccCCCCCEEECCCCCCCCc
Confidence            344455666666666666666666666666666666666665543

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=97.74  E-value=4.5e-05  Score=61.51  Aligned_cols=41  Identities=10%  Similarity=-0.026  Sum_probs=22.6

Q ss_pred             hcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcc
Q 044539          174 CKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       174 ~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~  214 (217)
                      +..+++|+.|+|+++.+..+|..++.+.+|++|+++++.+.
T Consensus       210 ~~~l~~L~~L~L~~N~l~~l~~~~~~l~~L~~L~l~~N~~~  250 (317)
T 3o53_A          210 FQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFH  250 (317)
T ss_dssp             GGGGTTCSEEECTTSCCCEECTTCCCCTTCCEEECTTCCCB
T ss_pred             hcccCcccEEECcCCcccchhhHhhcCCCCCEEEccCCCcc
Confidence            44555555555555555555555555555555555555543

>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=97.74  E-value=6.8e-05  Score=61.09  Aligned_cols=71  Identities=21%  Similarity=0.057  Sum_probs=57.0

Q ss_pred             cccccCCCCCeeEEEEeC-CCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCc-cccccccCCEEeeCCCCcccCC
Q 044539          142 FEFLDHFDSFLHSLLHLT-LGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPS-EVENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       142 ~~~~~~~~~~LrsL~~~~-~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~-~I~~L~~LryL~L~~t~i~~L~  217 (217)
                      ++.+..++ +|+.|.+.+ +.   .....+ ..|..+.+|+.|+|+++.+..+|. .+++|.+|++|+|++++++.+|
T Consensus        24 ip~l~~~~-~L~~L~l~~~n~---l~~~~~-~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~   96 (347)
T 2ifg_A           24 LHHLPGAE-NLTELYIENQQH---LQHLEL-RDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLS   96 (347)
T ss_dssp             TTTSCSCS-CCSEEECCSCSS---CCEECG-GGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCSCCC
T ss_pred             cCCCCCCC-CeeEEEccCCCC---CCCcCh-hHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCccceeC
Confidence            34455667 899999975 43   233444 779999999999999999987664 6799999999999999998775

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=97.71  E-value=0.00011  Score=57.74  Aligned_cols=79  Identities=13%  Similarity=0.068  Sum_probs=46.9

Q ss_pred             CceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEE
Q 044539          128 ENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYL  206 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL  206 (217)
                      ...+.+.+..+... .+.... + +|+.|.+.++.-.    .+  ..+.++++|++|+|+++.+..+| .++.+.+|++|
T Consensus        85 ~~L~~L~L~~N~l~~l~~~~~-~-~L~~L~L~~N~l~----~~--~~l~~l~~L~~L~Ls~N~i~~~~-~l~~l~~L~~L  155 (263)
T 1xeu_A           85 TKLEELSVNRNRLKNLNGIPS-A-CLSRLFLDNNELR----DT--DSLIHLKNLEILSIRNNKLKSIV-MLGFLSKLEVL  155 (263)
T ss_dssp             SSCCEEECCSSCCSCCTTCCC-S-SCCEEECCSSCCS----BS--GGGTTCTTCCEEECTTSCCCBCG-GGGGCTTCCEE
T ss_pred             CCCCEEECCCCccCCcCcccc-C-cccEEEccCCccC----CC--hhhcCcccccEEECCCCcCCCCh-HHccCCCCCEE
Confidence            34455555544433 222222 4 5666655554322    12  34677777888888877777775 57777778888


Q ss_pred             eeCCCCccc
Q 044539          207 NLNIPSLKS  215 (217)
Q Consensus       207 ~L~~t~i~~  215 (217)
                      +++++.++.
T Consensus       156 ~L~~N~i~~  164 (263)
T 1xeu_A          156 DLHGNEITN  164 (263)
T ss_dssp             ECTTSCCCB
T ss_pred             ECCCCcCcc
Confidence            877777654

>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=97.69  E-value=5.8e-05  Score=66.00  Aligned_cols=83  Identities=12%  Similarity=-0.144  Sum_probs=48.9

Q ss_pred             CceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccC-CccccccccC
Q 044539          128 ENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRY-PSEVENLFLL  203 (217)
Q Consensus       128 ~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~l-P~~I~~L~~L  203 (217)
                      .+.+.+.+..+...   ...+..++ +|++|.+.++.-   ....+ ..+.++++|++|+|+++.+..+ |..++++.+|
T Consensus        57 ~~L~~L~Ls~n~i~~~~~~~~~~l~-~L~~L~Ls~n~l---~~~~~-~~~~~l~~L~~L~L~~n~i~~l~~~~~~~l~~L  131 (606)
T 3t6q_A           57 INLTFLDLTRCQIYWIHEDTFQSQH-RLDTLVLTANPL---IFMAE-TALSGPKALKHLFFIQTGISSIDFIPLHNQKTL  131 (606)
T ss_dssp             TTCSEEECTTCCCCEECTTTTTTCT-TCCEEECTTCCC---SEECT-TTTSSCTTCCEEECTTSCCSCGGGSCCTTCTTC
T ss_pred             ccceEEECCCCccceeChhhccCcc-ccCeeeCCCCcc---cccCh-hhhcccccccEeeccccCcccCCcchhccCCcc
Confidence            45666666665443   22345666 777777765542   12333 5566666666666666666654 4556666666


Q ss_pred             CEEeeCCCCccc
Q 044539          204 RYLNLNIPSLKS  215 (217)
Q Consensus       204 ryL~L~~t~i~~  215 (217)
                      ++|+++++.++.
T Consensus       132 ~~L~L~~n~l~~  143 (606)
T 3t6q_A          132 ESLYLGSNHISS  143 (606)
T ss_dssp             CEEECCSSCCCC
T ss_pred             cEEECCCCcccc
Confidence            666666666554

>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=97.69  E-value=8e-05  Score=65.66  Aligned_cols=79  Identities=18%  Similarity=0.110  Sum_probs=37.3

Q ss_pred             ceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEe
Q 044539          129 NVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLN  207 (217)
Q Consensus       129 ~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~  207 (217)
                      ..++|.+..+... ++....++ +|+.|.+.++...    .+  ..+..+++|+.|+|++|.+..+|. ++.|.+|++|+
T Consensus       110 ~L~~L~Ls~N~l~~l~~l~~l~-~L~~L~Ls~N~l~----~l--~~l~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~  181 (605)
T 1m9s_A          110 KLKSLSLEHNGISDINGLVHLP-QLESLYLGNNKIT----DI--TVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLY  181 (605)
T ss_dssp             TCCEEECTTSCCCCCGGGGGCT-TCSEEECCSSCCC----CC--GGGGSCTTCSEEECCSSCCCCCGG-GTTCTTCCEEE
T ss_pred             CCCEEEecCCCCCCCccccCCC-ccCEEECCCCccC----Cc--hhhcccCCCCEEECcCCcCCCchh-hccCCCCCEEE
Confidence            3444444443332 22344445 5555555443321    11  334555555555555555554444 55555555555


Q ss_pred             eCCCCccc
Q 044539          208 LNIPSLKS  215 (217)
Q Consensus       208 L~~t~i~~  215 (217)
                      |++|.|+.
T Consensus       182 Ls~N~i~~  189 (605)
T 1m9s_A          182 LSKNHISD  189 (605)
T ss_dssp             CCSSCCCB
T ss_pred             CcCCCCCC
Confidence            55555443

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=97.68  E-value=9.6e-05  Score=58.10  Aligned_cols=81  Identities=21%  Similarity=0.075  Sum_probs=58.5

Q ss_pred             CCceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCE
Q 044539          127 RENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRY  205 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lry  205 (217)
                      ....+.+.+..+... .+....++ +|+.|.+.++.-.    .++ . +.. ..|+.|+|++|.+..+| .++.+.+|++
T Consensus        62 l~~L~~L~L~~N~i~~~~~l~~l~-~L~~L~L~~N~l~----~l~-~-~~~-~~L~~L~L~~N~l~~~~-~l~~l~~L~~  132 (263)
T 1xeu_A           62 FTNLKELHLSHNQISDLSPLKDLT-KLEELSVNRNRLK----NLN-G-IPS-ACLSRLFLDNNELRDTD-SLIHLKNLEI  132 (263)
T ss_dssp             CTTCCEEECCSSCCCCCGGGTTCS-SCCEEECCSSCCS----CCT-T-CCC-SSCCEEECCSSCCSBSG-GGTTCTTCCE
T ss_pred             CCCCCEEECCCCccCCChhhccCC-CCCEEECCCCccC----CcC-c-ccc-CcccEEEccCCccCCCh-hhcCcccccE
Confidence            456777777776554 33366778 8888888776542    122 2 223 88899999998888876 5889999999


Q ss_pred             EeeCCCCcccC
Q 044539          206 LNLNIPSLKSL  216 (217)
Q Consensus       206 L~L~~t~i~~L  216 (217)
                      |+|++++++.+
T Consensus       133 L~Ls~N~i~~~  143 (263)
T 1xeu_A          133 LSIRNNKLKSI  143 (263)
T ss_dssp             EECTTSCCCBC
T ss_pred             EECCCCcCCCC
Confidence            99999988765

>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=97.68  E-value=6.9e-05  Score=57.79  Aligned_cols=43  Identities=14%  Similarity=0.125  Sum_probs=23.8

Q ss_pred             hcCCCcee---EEEeCCC-CCccCCcc-ccccccCC-EEeeCCCCcccC
Q 044539          174 CKMFNFLR---VLDLGSL-VLIRYPSE-VENLFLLR-YLNLNIPSLKSL  216 (217)
Q Consensus       174 ~~~l~~Lr---vLdL~~~-~i~~lP~~-I~~L~~Lr-yL~L~~t~i~~L  216 (217)
                      +..++.|+   +|+++++ .+..+|.. ++.+.+|+ +|++++++++.+
T Consensus       123 ~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~~i  171 (239)
T 2xwt_C          123 LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSV  171 (239)
T ss_dssp             CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCCEE
T ss_pred             cccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCCCccc
Confidence            44444444   6666666 55555532 55666666 666666655543

>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=97.67  E-value=6.7e-05  Score=61.32  Aligned_cols=84  Identities=13%  Similarity=-0.017  Sum_probs=59.7

Q ss_pred             CCceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCc--cccccc
Q 044539          127 RENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPS--EVENLF  201 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~--~I~~L~  201 (217)
                      ..+.+.+.+..+... .  .....++ +|++|.+.++.-.   ...+ ..+.++++|++|+|+++.+..+|.  .++.++
T Consensus        75 l~~L~~L~L~~n~l~~~~~~~~~~l~-~L~~L~Ls~n~l~---~~~~-~~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~  149 (353)
T 2z80_A           75 CVNLQALVLTSNGINTIEEDSFSSLG-SLEHLDLSYNYLS---NLSS-SWFKPLSSLTFLNLLGNPYKTLGETSLFSHLT  149 (353)
T ss_dssp             CTTCCEEECTTSCCCEECTTTTTTCT-TCCEEECCSSCCS---SCCH-HHHTTCTTCSEEECTTCCCSSSCSSCSCTTCT
T ss_pred             CCCCCEEECCCCccCccCHhhcCCCC-CCCEEECCCCcCC---cCCH-hHhCCCccCCEEECCCCCCcccCchhhhccCC
Confidence            456788888776554 2  2356678 8889888776532   2333 557888888888888888888886  678888


Q ss_pred             cCCEEeeCCCC-ccc
Q 044539          202 LLRYLNLNIPS-LKS  215 (217)
Q Consensus       202 ~LryL~L~~t~-i~~  215 (217)
                      +|++|++++++ ++.
T Consensus       150 ~L~~L~l~~n~~~~~  164 (353)
T 2z80_A          150 KLQILRVGNMDTFTK  164 (353)
T ss_dssp             TCCEEEEEESSSCCE
T ss_pred             CCcEEECCCCccccc
Confidence            88888888773 443

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

Probab=97.64  E-value=9.3e-05  Score=62.37  Aligned_cols=67  Identities=18%  Similarity=-0.033  Sum_probs=35.4

Q ss_pred             ccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccC-CccccccccCCEEeeCCCCcccC
Q 044539          145 LDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRY-PSEVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       145 ~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~l-P~~I~~L~~LryL~L~~t~i~~L  216 (217)
                      ...++ +|+.|.+.++.-   ....+ ..|..+++|+.|+|+++.+..+ |..++.+.+|++|+|++++++.+
T Consensus       203 ~~~l~-~L~~L~Ls~N~l---~~~~~-~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~  270 (440)
T 3zyj_A          203 LTPLI-KLDELDLSGNHL---SAIRP-GSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHNNLTLL  270 (440)
T ss_dssp             CTTCS-SCCEEECTTSCC---CEECT-TTTTTCTTCCEEECTTCCCCEECTTSSTTCTTCCEEECTTSCCCCC
T ss_pred             cCCCc-ccCEEECCCCcc---CccCh-hhhccCccCCEEECCCCceeEEChhhhcCCCCCCEEECCCCCCCcc
Confidence            33444 555555544321   12223 4555666666666666665533 34555666666666666665544

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

Probab=97.64  E-value=5.8e-05  Score=66.84  Aligned_cols=41  Identities=17%  Similarity=0.155  Sum_probs=25.5

Q ss_pred             hhhcCCCceeEEEeCCCCCcc------------------CCcccc--ccccCCEEeeCCCC
Q 044539          172 KICKMFNFLRVLDLGSLVLIR------------------YPSEVE--NLFLLRYLNLNIPS  212 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~------------------lP~~I~--~L~~LryL~L~~t~  212 (217)
                      ..++++++|++|+|+++.+..                  +|++++  +|.+|++|+|++|.
T Consensus       200 ~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~  260 (636)
T 4eco_A          200 KAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCP  260 (636)
T ss_dssp             GGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCT
T ss_pred             HHHhcccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCc
Confidence            456666666666666666555                  666666  66666666666654

>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=97.64  E-value=6.4e-05  Score=63.85  Aligned_cols=81  Identities=12%  Similarity=0.038  Sum_probs=58.2

Q ss_pred             CceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEE
Q 044539          128 ENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYL  206 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL  206 (217)
                      ...|.+.+...... ++....++ +||+|.+.++...    .++ . +.++++|++|+|+++.+..+|. ++++.+|++|
T Consensus        46 ~~l~~L~l~~~~i~~l~~~~~l~-~L~~L~Ls~n~l~----~~~-~-~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L  117 (466)
T 1o6v_A           46 DQVTTLQADRLGIKSIDGVEYLN-NLTQINFSNNQLT----DIT-P-LKNLTKLVDILMNNNQIADITP-LANLTNLTGL  117 (466)
T ss_dssp             HTCCEEECCSSCCCCCTTGGGCT-TCCEEECCSSCCC----CCG-G-GTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEE
T ss_pred             ccccEEecCCCCCccCcchhhhc-CCCEEECCCCccC----Cch-h-hhccccCCEEECCCCccccChh-hcCCCCCCEE
Confidence            45677777665443 44556677 8888888766532    233 3 7788888888888888887776 8888888888


Q ss_pred             eeCCCCcccC
Q 044539          207 NLNIPSLKSL  216 (217)
Q Consensus       207 ~L~~t~i~~L  216 (217)
                      ++++|.++.+
T Consensus       118 ~L~~n~l~~~  127 (466)
T 1o6v_A          118 TLFNNQITDI  127 (466)
T ss_dssp             ECCSSCCCCC
T ss_pred             ECCCCCCCCC
Confidence            8888877654

>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=97.63  E-value=7.7e-05  Score=63.38  Aligned_cols=63  Identities=24%  Similarity=0.147  Sum_probs=53.2

Q ss_pred             CeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccC-CccccccccCCEEeeCCCCcccCC
Q 044539          151 FLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRY-PSEVENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       151 ~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~l-P~~I~~L~~LryL~L~~t~i~~L~  217 (217)
                      .++.|.+.++.-   ....+ ..|.++++|++|+|+++.+..+ |..+++|.+|++|+|+++.++.+|
T Consensus        33 ~l~~L~L~~n~l---~~~~~-~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~   96 (477)
T 2id5_A           33 ETRLLDLGKNRI---KTLNQ-DEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIP   96 (477)
T ss_dssp             TCSEEECCSSCC---CEECT-TTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCSCC
T ss_pred             CCcEEECCCCcc---ceECH-hHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCCcCCccC
Confidence            899999887653   23444 7899999999999999998865 789999999999999999988764

>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=97.62  E-value=0.00011  Score=62.07  Aligned_cols=67  Identities=19%  Similarity=-0.029  Sum_probs=37.7

Q ss_pred             ccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccC-CccccccccCCEEeeCCCCcccC
Q 044539          145 LDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRY-PSEVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       145 ~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~l-P~~I~~L~~LryL~L~~t~i~~L  216 (217)
                      ...++ +|+.|.+.++..   ....+ ..+.+++.|+.|+|+++.+..+ |..++.+.+|++|+|++++++.+
T Consensus       214 ~~~l~-~L~~L~Ls~N~l---~~~~~-~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~  281 (452)
T 3zyi_A          214 LTPLV-GLEELEMSGNHF---PEIRP-GSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNLSSL  281 (452)
T ss_dssp             CTTCT-TCCEEECTTSCC---SEECG-GGGTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCC
T ss_pred             ccccc-cccEEECcCCcC---cccCc-ccccCccCCCEEEeCCCcCceECHHHhcCCCCCCEEECCCCcCCcc
Confidence            33444 555555544332   12333 5566666666666666665533 45566667777777776666554

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=97.60  E-value=0.00012  Score=62.18  Aligned_cols=79  Identities=19%  Similarity=0.079  Sum_probs=49.3

Q ss_pred             CceeEEEEeCCCCccccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEe
Q 044539          128 ENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLN  207 (217)
Q Consensus       128 ~~~r~ls~~~~~~~~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~  207 (217)
                      ...+++.+..+.........++ +|+.|.+.++.-.    .   ..++++++|++|+|+++.+..+|  ++.+++|++|+
T Consensus        64 ~~L~~L~Ls~n~l~~~~~~~l~-~L~~L~Ls~N~l~----~---~~~~~l~~L~~L~L~~N~l~~l~--~~~l~~L~~L~  133 (457)
T 3bz5_A           64 TGLTKLICTSNNITTLDLSQNT-NLTYLACDSNKLT----N---LDVTPLTKLTYLNCDTNKLTKLD--VSQNPLLTYLN  133 (457)
T ss_dssp             TTCSEEECCSSCCSCCCCTTCT-TCSEEECCSSCCS----C---CCCTTCTTCCEEECCSSCCSCCC--CTTCTTCCEEE
T ss_pred             CCCCEEEccCCcCCeEccccCC-CCCEEECcCCCCc----e---eecCCCCcCCEEECCCCcCCeec--CCCCCcCCEEE
Confidence            4556666665554422355566 6666666654432    1   12566777777777777777665  77777777777


Q ss_pred             eCCCCcccC
Q 044539          208 LNIPSLKSL  216 (217)
Q Consensus       208 L~~t~i~~L  216 (217)
                      ++++.++.+
T Consensus       134 l~~N~l~~l  142 (457)
T 3bz5_A          134 CARNTLTEI  142 (457)
T ss_dssp             CTTSCCSCC
T ss_pred             CCCCcccee
Confidence            777776654

>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=97.59  E-value=9.4e-05  Score=65.64  Aligned_cols=66  Identities=17%  Similarity=-0.019  Sum_probs=34.4

Q ss_pred             ccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCcc-CCccccccccCCEEeeCCCCccc
Q 044539          145 LDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIR-YPSEVENLFLLRYLNLNIPSLKS  215 (217)
Q Consensus       145 ~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~-lP~~I~~L~~LryL~L~~t~i~~  215 (217)
                      +..++ +|++|.+.++..   ....+ ..+.++++|++|+|+++.+.. .|..++++.+|++|+++++.++.
T Consensus        93 ~~~l~-~L~~L~L~~n~l---~~~~~-~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~  159 (680)
T 1ziw_A           93 FAFCT-NLTELHLMSNSI---QKIKN-NPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQA  159 (680)
T ss_dssp             TTTCT-TCSEEECCSSCC---CCCCS-CTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECCSSCCCC
T ss_pred             hccCC-CCCEEECCCCcc---CccCh-hHccccCCCCEEECCCCcccccCchhhcccccCCEEEccCCcccc
Confidence            33455 555555544432   12222 445566666666666665443 33455566666666666655543

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=97.58  E-value=0.00012  Score=59.09  Aligned_cols=42  Identities=24%  Similarity=0.237  Sum_probs=33.7

Q ss_pred             CCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccCC
Q 044539          176 MFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       176 ~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L~  217 (217)
                      .++.|+.|+|+++.+..+|..++.+.+|++|+|+++.++.+|
T Consensus       189 ~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~L~~N~l~~l~  230 (317)
T 3o53_A          189 VFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIE  230 (317)
T ss_dssp             CCTTCCEEECCSSCCCEECGGGGGGTTCSEEECTTSCCCEEC
T ss_pred             ccccCCEEECCCCcCCcchhhhcccCcccEEECcCCcccchh
Confidence            477788888888888888888888888888888888877654

>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=97.57  E-value=0.00015  Score=63.91  Aligned_cols=81  Identities=19%  Similarity=0.125  Sum_probs=54.4

Q ss_pred             CceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEE
Q 044539          128 ENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYL  206 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL  206 (217)
                      ...++|.+..+... ++....++ +|+.|.+.++...    .+  ..+..+++|+.|+|++|.+..+ +.++.|.+|++|
T Consensus        87 ~~L~~L~Ls~N~l~~l~~l~~l~-~L~~L~Ls~N~l~----~l--~~l~~l~~L~~L~Ls~N~l~~l-~~l~~l~~L~~L  158 (605)
T 1m9s_A           87 KNLGWLFLDENKIKDLSSLKDLK-KLKSLSLEHNGIS----DI--NGLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTL  158 (605)
T ss_dssp             TTCCEEECCSSCCCCCTTSTTCT-TCCEEECTTSCCC----CC--GGGGGCTTCSEEECCSSCCCCC-GGGGSCTTCSEE
T ss_pred             CCCCEEECcCCCCCCChhhccCC-CCCEEEecCCCCC----CC--ccccCCCccCEEECCCCccCCc-hhhcccCCCCEE
Confidence            45566666655443 34455666 7777776655432    12  4567778888888888887776 568888888888


Q ss_pred             eeCCCCcccC
Q 044539          207 NLNIPSLKSL  216 (217)
Q Consensus       207 ~L~~t~i~~L  216 (217)
                      +|++|.+..+
T Consensus       159 ~Ls~N~l~~~  168 (605)
T 1m9s_A          159 SLEDNQISDI  168 (605)
T ss_dssp             ECCSSCCCCC
T ss_pred             ECcCCcCCCc
Confidence            8888877654

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

Probab=97.56  E-value=7.8e-05  Score=65.99  Aligned_cols=87  Identities=11%  Similarity=0.098  Sum_probs=59.8

Q ss_pred             CCceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCc-ccchhhhcCC------CceeEEEeCCCCCccCCc-
Q 044539          127 RENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDP-NYCEKICKMF------NFLRVLDLGSLVLIRYPS-  195 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~-~l~~~~~~~l------~~LrvLdL~~~~i~~lP~-  195 (217)
                      ..+.+.+.+..+...   .....+++ +|++|.+.++..  ... .+| ..+.++      ++|++|+|+++.+..+|. 
T Consensus       248 l~~L~~L~L~~n~l~~~~p~~l~~l~-~L~~L~Ls~n~~--l~~~~lp-~~~~~L~~~~~l~~L~~L~L~~n~l~~ip~~  323 (636)
T 4eco_A          248 LKDLTDVEVYNCPNLTKLPTFLKALP-EMQLINVACNRG--ISGEQLK-DDWQALADAPVGEKIQIIYIGYNNLKTFPVE  323 (636)
T ss_dssp             CTTCCEEEEECCTTCSSCCTTTTTCS-SCCEEECTTCTT--SCHHHHH-HHHHHHHHSGGGGTCCEEECCSSCCSSCCCH
T ss_pred             cCCCCEEEecCCcCCccChHHHhcCC-CCCEEECcCCCC--Cccccch-HHHHhhhccccCCCCCEEECCCCcCCccCch
Confidence            456778888876533   33466788 888888877651  111 244 455554      788888888888778887 


Q ss_pred             -cccccccCCEEeeCCCCcc-cCC
Q 044539          196 -EVENLFLLRYLNLNIPSLK-SLL  217 (217)
Q Consensus       196 -~I~~L~~LryL~L~~t~i~-~L~  217 (217)
                       .++++.+|++|+++++.++ .+|
T Consensus       324 ~~l~~l~~L~~L~L~~N~l~g~ip  347 (636)
T 4eco_A          324 TSLQKMKKLGMLECLYNQLEGKLP  347 (636)
T ss_dssp             HHHTTCTTCCEEECCSCCCEEECC
T ss_pred             hhhccCCCCCEEeCcCCcCccchh
Confidence             7888888888888887776 543

>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=97.54  E-value=0.00011  Score=63.42  Aligned_cols=81  Identities=14%  Similarity=-0.005  Sum_probs=55.5

Q ss_pred             CCceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCc--cCCccccccc
Q 044539          127 RENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLI--RYPSEVENLF  201 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~--~lP~~I~~L~  201 (217)
                      ..+.|++.+..+... .  ..+..++ +|++|.+.++.-   ....+ ..++++++|++|+|+++.+.  ..|..++++.
T Consensus        49 l~~L~~L~Ls~n~i~~~~~~~~~~l~-~L~~L~Ls~n~l---~~~~~-~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~  123 (549)
T 2z81_A           49 CANLQVLILKSSRINTIEGDAFYSLG-SLEHLDLSDNHL---SSLSS-SWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLT  123 (549)
T ss_dssp             CTTCCEEECTTSCCCEECTTTTTTCT-TCCEEECTTSCC---CSCCH-HHHTTCTTCCEEECTTCCCSSSCSSCSCTTCT
T ss_pred             CCcccEEECCCCCcCccChhhccccc-cCCEEECCCCcc---CccCH-HHhccCCCCcEEECCCCcccccchhhhhhccC
Confidence            456777777766554 1  2356677 888888776643   22333 55778888888888888776  3466778888


Q ss_pred             cCCEEeeCCCC
Q 044539          202 LLRYLNLNIPS  212 (217)
Q Consensus       202 ~LryL~L~~t~  212 (217)
                      +|++|+++++.
T Consensus       124 ~L~~L~L~~n~  134 (549)
T 2z81_A          124 NLQTLRIGNVE  134 (549)
T ss_dssp             TCCEEEEEESS
T ss_pred             CccEEECCCCc
Confidence            88888887765

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

Probab=97.53  E-value=8.7e-05  Score=68.10  Aligned_cols=87  Identities=14%  Similarity=0.104  Sum_probs=55.2

Q ss_pred             CCceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCC-CCCCCcccchhhhcCC-------CceeEEEeCCCCCccCCc
Q 044539          127 RENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLG-SHYLDPNYCEKICKMF-------NFLRVLDLGSLVLIRYPS  195 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~-~~~~~~~l~~~~~~~l-------~~LrvLdL~~~~i~~lP~  195 (217)
                      ....+.|.+..+...   +..+..++ +|+.|.+.++. ..  ...+| ..+.++       ++|++|+|++|.+..+|.
T Consensus       490 L~~L~~L~Ls~N~l~~~iP~~l~~L~-~L~~L~Ls~N~~ls--g~~iP-~~i~~L~~~~~~l~~L~~L~Ls~N~L~~ip~  565 (876)
T 4ecn_A          490 LKDLTDVELYNCPNMTQLPDFLYDLP-ELQSLNIACNRGIS--AAQLK-ADWTRLADDEDTGPKIQIFYMGYNNLEEFPA  565 (876)
T ss_dssp             CTTCCEEEEESCTTCCSCCGGGGGCS-SCCEEECTTCTTSC--HHHHH-HHHHHHHHCTTTTTTCCEEECCSSCCCBCCC
T ss_pred             CCCCCEEECcCCCCCccChHHHhCCC-CCCEEECcCCCCcc--cccch-HHHHhhhhcccccCCccEEEeeCCcCCccCC
Confidence            456788888876532   33466788 88888887764 21  00233 333333       377777777777667776


Q ss_pred             --cccccccCCEEeeCCCCcccCC
Q 044539          196 --EVENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       196 --~I~~L~~LryL~L~~t~i~~L~  217 (217)
                        .+++|.+|++|+|+++.++.+|
T Consensus       566 ~~~l~~L~~L~~L~Ls~N~l~~lp  589 (876)
T 4ecn_A          566 SASLQKMVKLGLLDCVHNKVRHLE  589 (876)
T ss_dssp             HHHHTTCTTCCEEECTTSCCCBCC
T ss_pred             hhhhhcCCCCCEEECCCCCcccch
Confidence              7777777777777777666553

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=97.51  E-value=0.00014  Score=62.42  Aligned_cols=81  Identities=23%  Similarity=0.096  Sum_probs=39.4

Q ss_pred             CceeEEEEeCCCCc---ccccc-CCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccC
Q 044539          128 ENVKRFTAHGNLND---FEFLD-HFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLL  203 (217)
Q Consensus       128 ~~~r~ls~~~~~~~---~~~~~-~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~L  203 (217)
                      ...+.|.+..+...   +.... .++ .|++|.+.++.-.    .+  .....++.|+.|+|++|.+..+|+.++.+.+|
T Consensus       144 ~~L~~L~Ls~N~l~~~~~~~l~~~l~-~L~~L~Ls~N~l~----~~--~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L  216 (487)
T 3oja_A          144 SRVQYLDLKLNEIDTVNFAELAASSD-TLEHLNLQYNFIY----DV--KGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGV  216 (487)
T ss_dssp             SSEEEEECTTSCCCEEEGGGGGGGTT-TCCEEECTTSCCC----EE--ECCCCCTTCCEEECCSSCCCEECGGGGGGTTC
T ss_pred             CCCCEEECCCCCCCCcChHHHhhhCC-cccEEecCCCccc----cc--cccccCCCCCEEECCCCCCCCCCHhHcCCCCc
Confidence            45666666665543   11222 456 6666666554421    11  11223445555555555555555445555555


Q ss_pred             CEEeeCCCCccc
Q 044539          204 RYLNLNIPSLKS  215 (217)
Q Consensus       204 ryL~L~~t~i~~  215 (217)
                      ++|+|+++.++.
T Consensus       217 ~~L~Ls~N~l~~  228 (487)
T 3oja_A          217 TWISLRNNKLVL  228 (487)
T ss_dssp             SEEECTTSCCCE
T ss_pred             cEEEecCCcCcc
Confidence            555555554443

>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=97.50  E-value=0.00015  Score=65.57  Aligned_cols=82  Identities=18%  Similarity=0.114  Sum_probs=59.4

Q ss_pred             CceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCc-cCCccccccccC
Q 044539          128 ENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLI-RYPSEVENLFLL  203 (217)
Q Consensus       128 ~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~-~lP~~I~~L~~L  203 (217)
                      ...+.+.+..+...   ...+..++ .|++|.+.++.-   ...+| ..++.++.|++|||++|.+. .+|+.++.|..|
T Consensus       632 ~~L~~LdLs~N~l~g~ip~~l~~l~-~L~~L~Ls~N~l---~g~ip-~~l~~L~~L~~LdLs~N~l~g~ip~~l~~l~~L  706 (768)
T 3rgz_A          632 GSMMFLDMSYNMLSGYIPKEIGSMP-YLFILNLGHNDI---SGSIP-DEVGDLRGLNILDLSSNKLDGRIPQAMSALTML  706 (768)
T ss_dssp             BCCCEEECCSSCCBSCCCGGGGGCT-TCCEEECCSSCC---CSCCC-GGGGGCTTCCEEECCSSCCEECCCGGGGGCCCC
T ss_pred             ccccEEECcCCcccccCCHHHhccc-cCCEEeCcCCcc---CCCCC-hHHhCCCCCCEEECCCCcccCcCChHHhCCCCC
Confidence            34556666655543   23466677 888888877653   23455 78888888888888888876 788888888888


Q ss_pred             CEEeeCCCCcc
Q 044539          204 RYLNLNIPSLK  214 (217)
Q Consensus       204 ryL~L~~t~i~  214 (217)
                      ++|+|+++++.
T Consensus       707 ~~L~ls~N~l~  717 (768)
T 3rgz_A          707 TEIDLSNNNLS  717 (768)
T ss_dssp             SEEECCSSEEE
T ss_pred             CEEECcCCccc
Confidence            88888887654

>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=97.50  E-value=0.00023  Score=64.27  Aligned_cols=64  Identities=17%  Similarity=0.010  Sum_probs=33.4

Q ss_pred             cCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCc-cCCccccccccCCEEeeCCCCcc
Q 044539          146 DHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLI-RYPSEVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       146 ~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~-~lP~~I~~L~~LryL~L~~t~i~  214 (217)
                      ..++ .|++|.+.++..   ...+| ..+.+++.|++|+|++|.+. .+|..++.+.+|++|+|++|.+.
T Consensus       463 ~~l~-~L~~L~L~~N~l---~~~~p-~~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~  527 (768)
T 3rgz_A          463 MYVK-TLETLILDFNDL---TGEIP-SGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFS  527 (768)
T ss_dssp             GGCT-TCCEEECCSSCC---CSCCC-GGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCE
T ss_pred             cCCC-CceEEEecCCcc---cCcCC-HHHhcCCCCCEEEccCCccCCcCChHHhcCCCCCEEECCCCccc
Confidence            3445 555555544432   11233 45555555666666655544 55555555555555555555543

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=97.49  E-value=7e-05  Score=60.24  Aligned_cols=81  Identities=14%  Similarity=-0.005  Sum_probs=62.8

Q ss_pred             CCceeEEEEeCCCCc--ccc-c--cCCCCCeeEEEEeCCCCCCCCcccchhhhcCC-----CceeEEEeCCCCCccCC-c
Q 044539          127 RENVKRFTAHGNLND--FEF-L--DHFDSFLHSLLHLTLGSHYLDPNYCEKICKMF-----NFLRVLDLGSLVLIRYP-S  195 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~--~~~-~--~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l-----~~LrvLdL~~~~i~~lP-~  195 (217)
                      ..+.+++.+..+...  .+. .  ..++ +|+.|.+.++.-.   .. + ..+..+     +.|++|+|+++.+..+| +
T Consensus        94 l~~L~~L~L~~n~l~~~~~~~~~~~~l~-~L~~L~Ls~N~l~---~~-~-~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~  167 (312)
T 1wwl_A           94 ISGLQELTLENLEVTGTAPPPLLEATGP-DLNILNLRNVSWA---TR-D-AWLAELQQWLKPGLKVLSIAQAHSLNFSCE  167 (312)
T ss_dssp             TSCCCEEEEEEEBCBSCCCCCSSSCCSC-CCSEEEEESCBCS---SS-S-SHHHHHHTTCCTTCCEEEEESCSCCCCCTT
T ss_pred             cCCccEEEccCCcccchhHHHHHHhcCC-CccEEEccCCCCc---ch-h-HHHHHHHHhhcCCCcEEEeeCCCCccchHH
Confidence            467888888877654  222 2  6788 9999999887643   12 4 555555     89999999999988777 8


Q ss_pred             cccccccCCEEeeCCCCc
Q 044539          196 EVENLFLLRYLNLNIPSL  213 (217)
Q Consensus       196 ~I~~L~~LryL~L~~t~i  213 (217)
                      .++.+++|++|+|+++.+
T Consensus       168 ~~~~l~~L~~L~Ls~N~l  185 (312)
T 1wwl_A          168 QVRVFPALSTLDLSDNPE  185 (312)
T ss_dssp             TCCCCSSCCEEECCSCTT
T ss_pred             HhccCCCCCEEECCCCCc
Confidence            899999999999999874

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=97.49  E-value=0.00016  Score=61.92  Aligned_cols=65  Identities=12%  Similarity=-0.068  Sum_probs=34.2

Q ss_pred             cCCCCCeeEEEEeCCCCCCCCcccchhhh-cCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccC
Q 044539          146 DHFDSFLHSLLHLTLGSHYLDPNYCEKIC-KMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       146 ~~~~~~LrsL~~~~~~~~~~~~~l~~~~~-~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L  216 (217)
                      ..++ .|++|.+.++...   ...+ ..+ ..++.|++|+|++|.+..+|. ...+.+|++|+|+++.++.+
T Consensus       141 ~~l~-~L~~L~Ls~N~l~---~~~~-~~l~~~l~~L~~L~Ls~N~l~~~~~-~~~l~~L~~L~Ls~N~l~~~  206 (487)
T 3oja_A          141 GCRS-RVQYLDLKLNEID---TVNF-AELAASSDTLEHLNLQYNFIYDVKG-QVVFAKLKTLDLSSNKLAFM  206 (487)
T ss_dssp             GGGS-SEEEEECTTSCCC---EEEG-GGGGGGTTTCCEEECTTSCCCEEEC-CCCCTTCCEEECCSSCCCEE
T ss_pred             cCCC-CCCEEECCCCCCC---CcCh-HHHhhhCCcccEEecCCCccccccc-cccCCCCCEEECCCCCCCCC
Confidence            3445 5555555544321   1222 222 356666666666666655543 33466666666666666544

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=97.48  E-value=0.0002  Score=65.40  Aligned_cols=41  Identities=15%  Similarity=0.156  Sum_probs=25.7

Q ss_pred             hcCCCceeEEEeCCCCCccC--CccccccccCCEEeeCCCCcc
Q 044539          174 CKMFNFLRVLDLGSLVLIRY--PSEVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       174 ~~~l~~LrvLdL~~~~i~~l--P~~I~~L~~LryL~L~~t~i~  214 (217)
                      +.++++|+.|+|++|.+..+  |+.+++|++|++|+|+++.++
T Consensus       119 ~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~  161 (844)
T 3j0a_A          119 FRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIF  161 (844)
T ss_dssp             CSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCC
T ss_pred             ccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCC
Confidence            56666666666666665543  245666666666666666554

>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=97.47  E-value=2.1e-05  Score=59.10  Aligned_cols=66  Identities=18%  Similarity=0.093  Sum_probs=52.0

Q ss_pred             cccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccC
Q 044539          144 FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       144 ~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L  216 (217)
                      ....++ +|+.|.+.++.-.    .+  +.+.++++|+.|+|++|.+..+|..++.+++|++|+++++.++.+
T Consensus        43 ~~~~l~-~L~~L~ls~n~l~----~l--~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~~N~l~~l  108 (198)
T 1ds9_A           43 TLSTLK-ACKHLALSTNNIE----KI--SSLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASL  108 (198)
T ss_dssp             HHHHTT-TCSEEECSEEEES----CC--CCHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEEEEECCCH
T ss_pred             HHhcCC-CCCEEECCCCCCc----cc--cccccCCCCCEEECCCCCcccccchhhcCCcCCEEECcCCcCCcC
Confidence            355678 8999988765432    13  356778899999999999889998888889999999998887654

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=97.45  E-value=0.00027  Score=60.05  Aligned_cols=74  Identities=15%  Similarity=-0.011  Sum_probs=41.5

Q ss_pred             CceeEEEEeCCCCccccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEe
Q 044539          128 ENVKRFTAHGNLNDFEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLN  207 (217)
Q Consensus       128 ~~~r~ls~~~~~~~~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~  207 (217)
                      .+.+.+.+..+.........++ +|+.|.+.++.-.    .+   .++.+++|++|+++++.+..+|  ++.+.+|++|+
T Consensus        85 ~~L~~L~Ls~N~l~~~~~~~l~-~L~~L~L~~N~l~----~l---~~~~l~~L~~L~l~~N~l~~l~--l~~l~~L~~L~  154 (457)
T 3bz5_A           85 TNLTYLACDSNKLTNLDVTPLT-KLTYLNCDTNKLT----KL---DVSQNPLLTYLNCARNTLTEID--VSHNTQLTELD  154 (457)
T ss_dssp             TTCSEEECCSSCCSCCCCTTCT-TCCEEECCSSCCS----CC---CCTTCTTCCEEECTTSCCSCCC--CTTCTTCCEEE
T ss_pred             CCCCEEECcCCCCceeecCCCC-cCCEEECCCCcCC----ee---cCCCCCcCCEEECCCCccceec--cccCCcCCEEE
Confidence            4455565555544322345556 6666666554322    11   1556666666666666666553  66666666666


Q ss_pred             eCCC
Q 044539          208 LNIP  211 (217)
Q Consensus       208 L~~t  211 (217)
                      ++++
T Consensus       155 l~~n  158 (457)
T 3bz5_A          155 CHLN  158 (457)
T ss_dssp             CTTC
T ss_pred             CCCC
Confidence            6665

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=97.45  E-value=0.00032  Score=56.26  Aligned_cols=82  Identities=13%  Similarity=-0.021  Sum_probs=47.0

Q ss_pred             ceeEEEEeCCCCcc-------ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCcc---CC--cc
Q 044539          129 NVKRFTAHGNLNDF-------EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIR---YP--SE  196 (217)
Q Consensus       129 ~~r~ls~~~~~~~~-------~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~---lP--~~  196 (217)
                      +.+.+.+..+....       .....++ +|+.|.+.++.-   ....+ ..++.+++|++|+|++|.+..   +|  ..
T Consensus       118 ~L~~L~Ls~n~i~~~~~~~~~~~~~~~~-~L~~L~Ls~n~l---~~~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~  192 (310)
T 4glp_A          118 ALSSLRLRNVSWATGRSWLAELQQWLKP-GLKVLSIAQAHS---PAFSC-EQVRAFPALTSLDLSDNPGLGERGLMAALC  192 (310)
T ss_dssp             CCSSCEEESCCCSSTTSSHHHHHTTBCS-CCCEEEEECCSS---CCCCT-TSCCCCTTCCEEECCSCTTCHHHHHHTTSC
T ss_pred             CCCEEEeecccccchhhhhHHHHhhhcc-CCCEEEeeCCCc---chhhH-HHhccCCCCCEEECCCCCCccchhhhHHHh
Confidence            44555555554331       1123466 777777665543   22333 566677777777777776432   32  23


Q ss_pred             ccccccCCEEeeCCCCccc
Q 044539          197 VENLFLLRYLNLNIPSLKS  215 (217)
Q Consensus       197 I~~L~~LryL~L~~t~i~~  215 (217)
                      ++.+++|++|+|++|+++.
T Consensus       193 ~~~l~~L~~L~Ls~N~l~~  211 (310)
T 4glp_A          193 PHKFPAIQNLALRNTGMET  211 (310)
T ss_dssp             TTSSCCCCSCBCCSSCCCC
T ss_pred             hhcCCCCCEEECCCCCCCc
Confidence            3577777777777777654

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=97.45  E-value=0.0002  Score=57.56  Aligned_cols=84  Identities=17%  Similarity=0.132  Sum_probs=64.2

Q ss_pred             CCceeEEEEeCCCCc-cc-cccCC-----CCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCcc---CCcc
Q 044539          127 RENVKRFTAHGNLND-FE-FLDHF-----DSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIR---YPSE  196 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~-~~~~~-----~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~---lP~~  196 (217)
                      ..+.+++.+..+... .+ ....+     + +|+.|.+.++.-   ....+ ..+.++++|++|+|+++.+..   +|..
T Consensus       120 l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~-~L~~L~L~~N~l---~~~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~  194 (312)
T 1wwl_A          120 GPDLNILNLRNVSWATRDAWLAELQQWLKP-GLKVLSIAQAHS---LNFSC-EQVRVFPALSTLDLSDNPELGERGLISA  194 (312)
T ss_dssp             SCCCSEEEEESCBCSSSSSHHHHHHTTCCT-TCCEEEEESCSC---CCCCT-TTCCCCSSCCEEECCSCTTCHHHHHHHH
T ss_pred             CCCccEEEccCCCCcchhHHHHHHHHhhcC-CCcEEEeeCCCC---ccchH-HHhccCCCCCEEECCCCCcCcchHHHHH
Confidence            467889999887654 21 12223     7 999999988764   23455 778999999999999998642   5666


Q ss_pred             c--cccccCCEEeeCCCCccc
Q 044539          197 V--ENLFLLRYLNLNIPSLKS  215 (217)
Q Consensus       197 I--~~L~~LryL~L~~t~i~~  215 (217)
                      +  +.+.+|++|+|+++.++.
T Consensus       195 ~~~~~l~~L~~L~L~~N~l~~  215 (312)
T 1wwl_A          195 LCPLKFPTLQVLALRNAGMET  215 (312)
T ss_dssp             SCTTSCTTCCEEECTTSCCCC
T ss_pred             HHhccCCCCCEEECCCCcCcc
Confidence            6  899999999999999874

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=97.36  E-value=4.2e-05  Score=61.43  Aligned_cols=44  Identities=20%  Similarity=0.082  Sum_probs=33.1

Q ss_pred             hcCCCceeEEEeCCCCCccC-Ccccccc---ccCCEEeeCCCCcccCC
Q 044539          174 CKMFNFLRVLDLGSLVLIRY-PSEVENL---FLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       174 ~~~l~~LrvLdL~~~~i~~l-P~~I~~L---~~LryL~L~~t~i~~L~  217 (217)
                      +..++.|++|||+++.+... |+.++.+   .+|++|+|++++++.+|
T Consensus       220 ~~~l~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~l~~lp  267 (310)
T 4glp_A          220 AAAGVQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFAGLEQVP  267 (310)
T ss_dssp             HHHTCCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSSCCCSCC
T ss_pred             HhcCCCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCCCCCchh
Confidence            46677888888888887755 7777776   58888888888777664

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

Probab=97.34  E-value=0.0004  Score=63.75  Aligned_cols=83  Identities=8%  Similarity=0.012  Sum_probs=50.7

Q ss_pred             ceeEEEEeCCCCc-ccc-cc--CCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCC------CC-CccCCccc
Q 044539          129 NVKRFTAHGNLND-FEF-LD--HFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGS------LV-LIRYPSEV  197 (217)
Q Consensus       129 ~~r~ls~~~~~~~-~~~-~~--~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~------~~-i~~lP~~I  197 (217)
                      ..+.|.+..+... ++. ..  .++ +|+.|.+.++.-.   . +| ..+..+++|+.|+|++      +. ...+|..+
T Consensus       729 ~L~~L~Ls~N~L~~lp~~l~~~~l~-~L~~L~Ls~N~L~---~-lp-~~l~~L~~L~~L~Ls~N~~ls~N~l~~~ip~~l  802 (876)
T 4ecn_A          729 LLTTIDLRFNKLTSLSDDFRATTLP-YLSNMDVSYNCFS---S-FP-TQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGI  802 (876)
T ss_dssp             GCCEEECCSSCCCCCCGGGSTTTCT-TCCEEECCSSCCS---S-CC-CGGGGCTTCCEEECCCCBCTTCCBCCCCCCTTG
T ss_pred             CccEEECCCCCCccchHHhhhccCC-CcCEEEeCCCCCC---c-cc-hhhhcCCCCCEEECCCCCCcccccccccChHHH
Confidence            5666666655443 222 22  566 7777777665432   1 34 5566777777777755      33 33667777


Q ss_pred             cccccCCEEeeCCCCcccCC
Q 044539          198 ENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       198 ~~L~~LryL~L~~t~i~~L~  217 (217)
                      ++|++|++|+|++|.+..+|
T Consensus       803 ~~L~~L~~L~Ls~N~L~~Ip  822 (876)
T 4ecn_A          803 TTCPSLIQLQIGSNDIRKVD  822 (876)
T ss_dssp             GGCSSCCEEECCSSCCCBCC
T ss_pred             hcCCCCCEEECCCCCCCccC
Confidence            77777777777777776554

>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=97.34  E-value=2.8e-06  Score=63.93  Aligned_cols=80  Identities=21%  Similarity=0.079  Sum_probs=46.2

Q ss_pred             CceeEEEEeCCCCc-ccc-ccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCc--cccccccC
Q 044539          128 ENVKRFTAHGNLND-FEF-LDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPS--EVENLFLL  203 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~~~-~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~--~I~~L~~L  203 (217)
                      ...+.+.+..+... ++. ...++ +|+.|.+.++.-.    .+  ..+..+++|++|+|+++.+..+|.  .++.+.+|
T Consensus        70 ~~L~~L~l~~n~l~~l~~~~~~~~-~L~~L~L~~N~l~----~l--~~~~~l~~L~~L~l~~N~i~~~~~~~~l~~l~~L  142 (198)
T 1ds9_A           70 ENLRILSLGRNLIKKIENLDAVAD-TLEELWISYNQIA----SL--SGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKL  142 (198)
T ss_dssp             TTCCEEEEEEEEECSCSSHHHHHH-HCSEEEEEEEECC----CH--HHHHHHHHSSEEEESEEECCCHHHHHHHTTTTTC
T ss_pred             CCCCEEECCCCCcccccchhhcCC-cCCEEECcCCcCC----cC--CccccCCCCCEEECCCCcCCchhHHHHHhcCCCC
Confidence            34455555544332 221 22235 6666666654321    12  346667777777777777766554  67777777


Q ss_pred             CEEeeCCCCcc
Q 044539          204 RYLNLNIPSLK  214 (217)
Q Consensus       204 ryL~L~~t~i~  214 (217)
                      ++|+++++.+.
T Consensus       143 ~~L~l~~N~l~  153 (198)
T 1ds9_A          143 EDLLLAGNPLY  153 (198)
T ss_dssp             SEEEECSCHHH
T ss_pred             CEEEecCCccc
Confidence            77777777653

>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=97.32  E-value=0.00057  Score=60.43  Aligned_cols=77  Identities=18%  Similarity=-0.069  Sum_probs=52.2

Q ss_pred             CCCceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCC
Q 044539          126 LRENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLR  204 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lr  204 (217)
                      .+.+.+.|.+..+... ++.  .++ +|++|.+.++.-.    .+| .   .+++|++|+|++|.+..+|.   .+.+|+
T Consensus        59 l~~~L~~L~L~~N~l~~lp~--~l~-~L~~L~Ls~N~l~----~lp-~---~l~~L~~L~Ls~N~l~~l~~---~l~~L~  124 (622)
T 3g06_A           59 LPAHITTLVIPDNNLTSLPA--LPP-ELRTLEVSGNQLT----SLP-V---LPPGLLELSIFSNPLTHLPA---LPSGLC  124 (622)
T ss_dssp             CCTTCSEEEECSCCCSCCCC--CCT-TCCEEEECSCCCS----CCC-C---CCTTCCEEEECSCCCCCCCC---CCTTCC
T ss_pred             hCCCCcEEEecCCCCCCCCC--cCC-CCCEEEcCCCcCC----cCC-C---CCCCCCEEECcCCcCCCCCC---CCCCcC
Confidence            3467888888877655 333  567 9999998876542    233 3   67888999999888887776   445555


Q ss_pred             EEeeCCCCcccC
Q 044539          205 YLNLNIPSLKSL  216 (217)
Q Consensus       205 yL~L~~t~i~~L  216 (217)
                      +|++++++++.+
T Consensus       125 ~L~L~~N~l~~l  136 (622)
T 3g06_A          125 KLWIFGNQLTSL  136 (622)
T ss_dssp             EEECCSSCCSCC
T ss_pred             EEECCCCCCCcC
Confidence            555555555444

>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=97.25  E-value=0.0007  Score=57.47  Aligned_cols=79  Identities=20%  Similarity=0.169  Sum_probs=45.8

Q ss_pred             CceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEE
Q 044539          128 ENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYL  206 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL  206 (217)
                      ...+.+.+..+... ++....++ +|+.|.+.++.-.    .+| .   ....|++|+|+++.+..+| +++.+.+|++|
T Consensus       131 ~~L~~L~L~~n~l~~lp~~~~l~-~L~~L~l~~N~l~----~lp-~---~~~~L~~L~L~~n~l~~l~-~~~~l~~L~~L  200 (454)
T 1jl5_A          131 PLLEYLGVSNNQLEKLPELQNSS-FLKIIDVDNNSLK----KLP-D---LPPSLEFIAAGNNQLEELP-ELQNLPFLTAI  200 (454)
T ss_dssp             TTCCEEECCSSCCSSCCCCTTCT-TCCEEECCSSCCS----CCC-C---CCTTCCEEECCSSCCSSCC-CCTTCTTCCEE
T ss_pred             CCCCEEECcCCCCCCCcccCCCC-CCCEEECCCCcCc----ccC-C---CcccccEEECcCCcCCcCc-cccCCCCCCEE
Confidence            34555555554432 33455556 6666666554321    122 1   1246677777777766666 57777777777


Q ss_pred             eeCCCCcccC
Q 044539          207 NLNIPSLKSL  216 (217)
Q Consensus       207 ~L~~t~i~~L  216 (217)
                      +++++.++.+
T Consensus       201 ~l~~N~l~~l  210 (454)
T 1jl5_A          201 YADNNSLKKL  210 (454)
T ss_dssp             ECCSSCCSSC
T ss_pred             ECCCCcCCcC
Confidence            7777776654

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=97.21  E-value=0.00034  Score=55.31  Aligned_cols=65  Identities=22%  Similarity=0.075  Sum_probs=49.9

Q ss_pred             cCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccc--cCCEEeeCCCCcc
Q 044539          146 DHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLF--LLRYLNLNIPSLK  214 (217)
Q Consensus       146 ~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~--~LryL~L~~t~i~  214 (217)
                      .+++ +|++|.+.++.-. ....++ ..+.++++|+.|+|+++.+..+ ++++.|.  +|++|+|+++.+.
T Consensus       167 ~~l~-~L~~L~Ls~N~l~-~l~~l~-~~~~~l~~L~~L~Ls~N~i~~~-~~l~~l~~l~L~~L~L~~Npl~  233 (267)
T 3rw6_A          167 ENIP-ELLSLNLSNNRLY-RLDDMS-SIVQKAPNLKILNLSGNELKSE-RELDKIKGLKLEELWLDGNSLC  233 (267)
T ss_dssp             HHCT-TCCEEECTTSCCC-CCGGGT-THHHHSTTCCEEECTTSCCCSG-GGGGGGTTSCCSEEECTTSTTG
T ss_pred             hhCC-CCCEEECCCCCCC-CCccch-hHHhhCCCCCEEECCCCccCCc-hhhhhcccCCcceEEccCCcCc
Confidence            3578 9999998887653 222344 5667899999999999998876 4567776  9999999998875

>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=97.16  E-value=0.00025  Score=58.54  Aligned_cols=39  Identities=15%  Similarity=-0.021  Sum_probs=18.9

Q ss_pred             cCCCceeEEEeCCCCCcc-----CCccccccccCCEEeeCCCCc
Q 044539          175 KMFNFLRVLDLGSLVLIR-----YPSEVENLFLLRYLNLNIPSL  213 (217)
Q Consensus       175 ~~l~~LrvLdL~~~~i~~-----lP~~I~~L~~LryL~L~~t~i  213 (217)
                      .++++|++|+|+++.+..     +|..++.+++|++|+|++|.+
T Consensus        91 ~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l  134 (386)
T 2ca6_A           91 LKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGL  134 (386)
T ss_dssp             TTCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCC
T ss_pred             hhCCcccEEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCC
Confidence            444555555555544432     444444555555555554444

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

Probab=97.13  E-value=0.00092  Score=58.50  Aligned_cols=74  Identities=18%  Similarity=0.084  Sum_probs=35.3

Q ss_pred             ceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEe
Q 044539          129 NVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLN  207 (217)
Q Consensus       129 ~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~  207 (217)
                      +.+.|.+..+... ++.  .++ +|+.|.+.++.-.    .+| .   .+++|++|+|++|.+..+|. ++  .+|++|+
T Consensus       121 ~L~~L~Ls~N~l~~lp~--~l~-~L~~L~Ls~N~l~----~lp-~---~l~~L~~L~Ls~N~L~~lp~-l~--~~L~~L~  186 (571)
T 3cvr_A          121 SLKHLDVDNNQLTMLPE--LPA-LLEYINADNNQLT----MLP-E---LPTSLEVLSVRNNQLTFLPE-LP--ESLEALD  186 (571)
T ss_dssp             TCCEEECCSSCCSCCCC--CCT-TCCEEECCSSCCS----CCC-C---CCTTCCEEECCSSCCSCCCC-CC--TTCCEEE
T ss_pred             CCCEEECCCCcCCCCCC--cCc-cccEEeCCCCccC----cCC-C---cCCCcCEEECCCCCCCCcch-hh--CCCCEEE
Confidence            4444444444332 222  344 5555555544321    122 2   34455555555555555555 44  5555555


Q ss_pred             eCCCCcccC
Q 044539          208 LNIPSLKSL  216 (217)
Q Consensus       208 L~~t~i~~L  216 (217)
                      |++|+|+.+
T Consensus       187 Ls~N~L~~l  195 (571)
T 3cvr_A          187 VSTNLLESL  195 (571)
T ss_dssp             CCSSCCSSC
T ss_pred             CcCCCCCch
Confidence            555555544

>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=97.12  E-value=0.00014  Score=58.78  Aligned_cols=83  Identities=14%  Similarity=0.057  Sum_probs=61.5

Q ss_pred             CCceeEEEEeCCCCc---c-ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCC-CCc--cCCccccc
Q 044539          127 RENVKRFTAHGNLND---F-EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSL-VLI--RYPSEVEN  199 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~---~-~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~-~i~--~lP~~I~~  199 (217)
                      ..+.+++.+..+...   . .....++ +|++|.+.++..   ....+ ..+.++++|++|+|++| .+.  .+|..++.
T Consensus        92 ~~~L~~L~L~~~~l~~~~~~~~~~~~~-~L~~L~L~~~~l---~~~~~-~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~  166 (336)
T 2ast_B           92 PFRVQHMDLSNSVIEVSTLHGILSQCS-KLQNLSLEGLRL---SDPIV-NTLAKNSNLVRLNLSGCSGFSEFALQTLLSS  166 (336)
T ss_dssp             CBCCCEEECTTCEECHHHHHHHHTTBC-CCSEEECTTCBC---CHHHH-HHHTTCTTCSEEECTTCBSCCHHHHHHHHHH
T ss_pred             CCCCCEEEccCCCcCHHHHHHHHhhCC-CCCEEeCcCccc---CHHHH-HHHhcCCCCCEEECCCCCCCCHHHHHHHHhc
Confidence            356777777766533   2 2355678 999998877642   22344 67788999999999999 576  47888889


Q ss_pred             cccCCEEeeCCC-Ccc
Q 044539          200 LFLLRYLNLNIP-SLK  214 (217)
Q Consensus       200 L~~LryL~L~~t-~i~  214 (217)
                      +++|++|++++| .++
T Consensus       167 ~~~L~~L~l~~~~~l~  182 (336)
T 2ast_B          167 CSRLDELNLSWCFDFT  182 (336)
T ss_dssp             CTTCCEEECCCCTTCC
T ss_pred             CCCCCEEcCCCCCCcC
Confidence            999999999998 775

>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=97.11  E-value=0.0011  Score=56.30  Aligned_cols=38  Identities=29%  Similarity=0.330  Sum_probs=25.9

Q ss_pred             CceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccC
Q 044539          178 NFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       178 ~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L  216 (217)
                      ..|+.|+++++.+..+| .++.+.+|++|+++++.++.+
T Consensus       215 ~~L~~L~l~~n~l~~lp-~~~~l~~L~~L~l~~N~l~~l  252 (454)
T 1jl5_A          215 LSLESIVAGNNILEELP-ELQNLPFLTTIYADNNLLKTL  252 (454)
T ss_dssp             TTCCEEECCSSCCSSCC-CCTTCTTCCEEECCSSCCSSC
T ss_pred             CcccEEECcCCcCCccc-ccCCCCCCCEEECCCCcCCcc
Confidence            35666666666666666 377777777777777766654

>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=97.11  E-value=0.00093  Score=54.52  Aligned_cols=88  Identities=15%  Similarity=0.032  Sum_probs=58.2

Q ss_pred             CCCceeEEEEeCCCCc-cc--cccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCcee-EEEeCCCCCccCC-cccccc
Q 044539          126 LRENVKRFTAHGNLND-FE--FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLR-VLDLGSLVLIRYP-SEVENL  200 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~-~~--~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~Lr-vLdL~~~~i~~lP-~~I~~L  200 (217)
                      .+...++|.+..+... ++  .+.+++ +|+.|.+.++...   ..++...|.+++.|+ ++.+.++.+..+| +.++.|
T Consensus        28 l~~~l~~L~Ls~N~i~~i~~~~f~~l~-~L~~L~Ls~N~i~---~~i~~~~f~~L~~l~~~l~~~~N~l~~l~~~~f~~l  103 (350)
T 4ay9_X           28 LPRNAIELRFVLTKLRVIQKGAFSGFG-DLEKIEISQNDVL---EVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNL  103 (350)
T ss_dssp             CCTTCSEEEEESCCCSEECTTSSTTCT-TCCEEEEECCTTC---CEECTTSBCSCTTCCEEEEEEETTCCEECTTSBCCC
T ss_pred             cCCCCCEEEccCCcCCCcCHHHHcCCC-CCCEEECcCCCCC---CccChhHhhcchhhhhhhcccCCcccccCchhhhhc
Confidence            3567888888887765 32  256788 9999998876531   122214566666655 4566666777664 556778


Q ss_pred             ccCCEEeeCCCCcccCC
Q 044539          201 FLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       201 ~~LryL~L~~t~i~~L~  217 (217)
                      .+|++|++++++++.++
T Consensus       104 ~~L~~L~l~~n~l~~~~  120 (350)
T 4ay9_X          104 PNLQYLLISNTGIKHLP  120 (350)
T ss_dssp             TTCCEEEEEEECCSSCC
T ss_pred             cccccccccccccccCC
Confidence            88888888887776543

>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=97.06  E-value=0.002  Score=56.98  Aligned_cols=78  Identities=18%  Similarity=-0.004  Sum_probs=57.2

Q ss_pred             CCCceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCC
Q 044539          126 LRENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLR  204 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lr  204 (217)
                      ...+.+.|.+..+... ++.  .++ +|+.|.+.++.-.    .++ .   .+++|+.|+|++|.+..+|..   +++|+
T Consensus        79 ~l~~L~~L~Ls~N~l~~lp~--~l~-~L~~L~Ls~N~l~----~l~-~---~l~~L~~L~L~~N~l~~lp~~---l~~L~  144 (622)
T 3g06_A           79 LPPELRTLEVSGNQLTSLPV--LPP-GLLELSIFSNPLT----HLP-A---LPSGLCKLWIFGNQLTSLPVL---PPGLQ  144 (622)
T ss_dssp             CCTTCCEEEECSCCCSCCCC--CCT-TCCEEEECSCCCC----CCC-C---CCTTCCEEECCSSCCSCCCCC---CTTCC
T ss_pred             cCCCCCEEEcCCCcCCcCCC--CCC-CCCEEECcCCcCC----CCC-C---CCCCcCEEECCCCCCCcCCCC---CCCCC
Confidence            3567888888887654 333  678 9999999876542    233 2   567888899998888888874   47888


Q ss_pred             EEeeCCCCcccCC
Q 044539          205 YLNLNIPSLKSLL  217 (217)
Q Consensus       205 yL~L~~t~i~~L~  217 (217)
                      +|+|++|.++.+|
T Consensus       145 ~L~Ls~N~l~~l~  157 (622)
T 3g06_A          145 ELSVSDNQLASLP  157 (622)
T ss_dssp             EEECCSSCCSCCC
T ss_pred             EEECcCCcCCCcC
Confidence            8888888877654

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

Probab=97.00  E-value=0.0012  Score=57.76  Aligned_cols=34  Identities=12%  Similarity=0.008  Sum_probs=29.1

Q ss_pred             eEEEeCCCCCccCCccccccccCCEEeeCCCCcc
Q 044539          181 RVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       181 rvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~  214 (217)
                      +.|+|++|.+..+|..+++|++|++|+|++|.++
T Consensus       210 ~~L~Ls~N~l~~lp~~l~~l~~L~~L~L~~N~l~  243 (571)
T 3cvr_A          210 IFFRCRENRITHIPENILSLDPTCTIILEDNPLS  243 (571)
T ss_dssp             EEEECCSSCCCCCCGGGGGSCTTEEEECCSSSCC
T ss_pred             eEEecCCCcceecCHHHhcCCCCCEEEeeCCcCC
Confidence            8888888888888888888888888888888775

>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=96.90  E-value=0.00072  Score=55.78  Aligned_cols=43  Identities=21%  Similarity=0.152  Sum_probs=22.3

Q ss_pred             hhhcCCCceeEEEeCCCCCcc-----CCccc--cccccCCEEeeCCCCcc
Q 044539          172 KICKMFNFLRVLDLGSLVLIR-----YPSEV--ENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~-----lP~~I--~~L~~LryL~L~~t~i~  214 (217)
                      ..+.+++.|+.|+|++|.+..     +|+.+  +++++|++|+|++|.++
T Consensus       238 ~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~  287 (386)
T 2ca6_A          238 IALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIE  287 (386)
T ss_dssp             HHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCB
T ss_pred             HHHccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCCcCC
Confidence            444555555555555555442     34444  33555555555555554

>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=96.88  E-value=0.00029  Score=56.83  Aligned_cols=83  Identities=13%  Similarity=0.009  Sum_probs=58.9

Q ss_pred             CCceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCC-CCcc--CCcccccc
Q 044539          127 RENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSL-VLIR--YPSEVENL  200 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~-~i~~--lP~~I~~L  200 (217)
                      ..+.+++.+..+...   ......++ +|++|.+.++..- ....++ ..+.++++|+.|+|++| .+..  +|..++.+
T Consensus       117 ~~~L~~L~L~~~~l~~~~~~~l~~~~-~L~~L~L~~~~~l-~~~~l~-~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l  193 (336)
T 2ast_B          117 CSKLQNLSLEGLRLSDPIVNTLAKNS-NLVRLNLSGCSGF-SEFALQ-TLLSSCSRLDELNLSWCFDFTEKHVQVAVAHV  193 (336)
T ss_dssp             BCCCSEEECTTCBCCHHHHHHHTTCT-TCSEEECTTCBSC-CHHHHH-HHHHHCTTCCEEECCCCTTCCHHHHHHHHHHS
T ss_pred             CCCCCEEeCcCcccCHHHHHHHhcCC-CCCEEECCCCCCC-CHHHHH-HHHhcCCCCCEEcCCCCCCcChHHHHHHHHhc
Confidence            356778887766543   23355678 8999988876321 111244 66788889999999998 7763  67788888


Q ss_pred             c-cCCEEeeCCCC
Q 044539          201 F-LLRYLNLNIPS  212 (217)
Q Consensus       201 ~-~LryL~L~~t~  212 (217)
                      + +|++|+|++|.
T Consensus       194 ~~~L~~L~l~~~~  206 (336)
T 2ast_B          194 SETITQLNLSGYR  206 (336)
T ss_dssp             CTTCCEEECCSCG
T ss_pred             ccCCCEEEeCCCc
Confidence            8 99999998883

>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=96.55  E-value=0.0056  Score=49.82  Aligned_cols=24  Identities=17%  Similarity=0.151  Sum_probs=12.6

Q ss_pred             hhhcCCCceeEEEeCCCCCccCCc
Q 044539          172 KICKMFNFLRVLDLGSLVLIRYPS  195 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~lP~  195 (217)
                      ..|..+++|++|||+++.++.+|.
T Consensus       196 ~~f~~l~~L~~LdLs~N~l~~lp~  219 (350)
T 4ay9_X          196 DVFHGASGPVILDISRTRIHSLPS  219 (350)
T ss_dssp             TTTTTEECCSEEECTTSCCCCCCS
T ss_pred             HHhccCcccchhhcCCCCcCccCh
Confidence            344555555555555555555553

>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=96.42  E-value=0.0043  Score=45.75  Aligned_cols=83  Identities=11%  Similarity=0.080  Sum_probs=58.2

Q ss_pred             CceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCC----CceeEEEeCCCC-Ccc-CCcccc
Q 044539          128 ENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMF----NFLRVLDLGSLV-LIR-YPSEVE  198 (217)
Q Consensus       128 ~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l----~~LrvLdL~~~~-i~~-lP~~I~  198 (217)
                      ....++-+......   +.....++ +|++|.+.++..- ....+  ..+..+    +.|+.|+|++|. |+. =-..+.
T Consensus        61 ~~L~~LDLs~~~Itd~GL~~L~~~~-~L~~L~L~~C~~I-tD~gL--~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L~  136 (176)
T 3e4g_A           61 YKIQAIDATDSCIMSIGFDHMEGLQ-YVEKIRLCKCHYI-EDGCL--ERLSQLENLQKSMLEMEIISCGNVTDKGIIALH  136 (176)
T ss_dssp             CCEEEEEEESCCCCGGGGGGGTTCS-CCCEEEEESCTTC-CHHHH--HHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGG
T ss_pred             ceEeEEeCcCCCccHHHHHHhcCCC-CCCEEEeCCCCcc-CHHHH--HHHHhcccccCCCCEEEcCCCCcCCHHHHHHHh
Confidence            45778888766543   44466899 9999999988642 11122  445554    479999999997 662 114577


Q ss_pred             ccccCCEEeeCCCC-cc
Q 044539          199 NLFLLRYLNLNIPS-LK  214 (217)
Q Consensus       199 ~L~~LryL~L~~t~-i~  214 (217)
                      .+++|++|+|++|. |+
T Consensus       137 ~~~~L~~L~L~~c~~It  153 (176)
T 3e4g_A          137 HFRNLKYLFLSDLPGVK  153 (176)
T ss_dssp             GCTTCCEEEEESCTTCC
T ss_pred             cCCCCCEEECCCCCCCC
Confidence            89999999999985 54

>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=96.26  E-value=0.0016  Score=54.73  Aligned_cols=35  Identities=26%  Similarity=0.209  Sum_probs=16.4

Q ss_pred             ceeEEEeCCCCCc-----cCCccccccccCCEEeeCCCCc
Q 044539          179 FLRVLDLGSLVLI-----RYPSEVENLFLLRYLNLNIPSL  213 (217)
Q Consensus       179 ~LrvLdL~~~~i~-----~lP~~I~~L~~LryL~L~~t~i  213 (217)
                      .|+.|+|++|.+.     .+|+.++.+++|++|+|+++.+
T Consensus        86 ~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i  125 (461)
T 1z7x_W           86 KIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLL  125 (461)
T ss_dssp             CCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBC
T ss_pred             ceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcC
Confidence            3455555554443     2344444444555555544443

>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=96.23  E-value=0.0023  Score=50.47  Aligned_cols=43  Identities=33%  Similarity=0.199  Sum_probs=36.6

Q ss_pred             hcCCCceeEEEeCCCCCccC---CccccccccCCEEeeCCCCcccC
Q 044539          174 CKMFNFLRVLDLGSLVLIRY---PSEVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       174 ~~~l~~LrvLdL~~~~i~~l---P~~I~~L~~LryL~L~~t~i~~L  216 (217)
                      ..+++.|+.|+|+++.+..+   |..++.+++|++|+|+++.|+.+
T Consensus       166 ~~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~  211 (267)
T 3rw6_A          166 EENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSE  211 (267)
T ss_dssp             HHHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSG
T ss_pred             HhhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCc
Confidence            35788999999999997754   46778999999999999998754

>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=96.04  E-value=0.0025  Score=55.30  Aligned_cols=63  Identities=17%  Similarity=0.120  Sum_probs=43.4

Q ss_pred             CCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCc--cCCccccccccCCEEeeCCCCcc
Q 044539          148 FDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLI--RYPSEVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       148 ~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~--~lP~~I~~L~~LryL~L~~t~i~  214 (217)
                      ++ +|+.|.+..+..  ....++ ..+..+++|++|+|++|.+.  .+|..+..+++||+|+|++|+++
T Consensus       462 ~~-~L~~L~L~~n~l--~~~~~~-~~~~~~~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~ls~n~it  526 (592)
T 3ogk_B          462 SP-NVRWMLLGYVGE--SDEGLM-EFSRGCPNLQKLEMRGCCFSERAIAAAVTKLPSLRYLWVQGYRAS  526 (592)
T ss_dssp             CT-TCCEEEECSCCS--SHHHHH-HHHTCCTTCCEEEEESCCCBHHHHHHHHHHCSSCCEEEEESCBCC
T ss_pred             Cc-cceEeeccCCCC--CHHHHH-HHHhcCcccCeeeccCCCCcHHHHHHHHHhcCccCeeECcCCcCC
Confidence            55 677776655432  111333 55677888999999888865  35556678889999999888775

>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=95.75  E-value=0.0024  Score=53.65  Aligned_cols=86  Identities=14%  Similarity=-0.023  Sum_probs=59.4

Q ss_pred             CCceeEEEEeCCCCc---ccc-ccCCCCCeeEEEEeCCCCCC-CCcccchhhhcCCCceeEEEeCCCCCcc-CCcccc-c
Q 044539          127 RENVKRFTAHGNLND---FEF-LDHFDSFLHSLLHLTLGSHY-LDPNYCEKICKMFNFLRVLDLGSLVLIR-YPSEVE-N  199 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~---~~~-~~~~~~~LrsL~~~~~~~~~-~~~~l~~~~~~~l~~LrvLdL~~~~i~~-lP~~I~-~  199 (217)
                      +...+++.+..+...   ... ...++ ++++|.+.++.-.. ....++ ..+..+++|++|+|+++.+.. -+..+. .
T Consensus         2 ~~~l~~L~Ls~~~l~~~~~~~~~~~~~-~L~~L~L~~~~l~~~~~~~l~-~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~   79 (461)
T 1z7x_W            2 SLDIQSLDIQCEELSDARWAELLPLLQ-QCQVVRLDDCGLTEARCKDIS-SALRVNPALAELNLRSNELGDVGVHCVLQG   79 (461)
T ss_dssp             CEEEEEEEEESCCCCHHHHHHHHHHHT-TCSEEEEESSCCCHHHHHHHH-HHHHTCTTCCEEECTTCCCHHHHHHHHHHT
T ss_pred             CccceehhhhhcccCchhHHHHHhhcC-CccEEEccCCCCCHHHHHHHH-HHHHhCCCcCEEeCCCCcCChHHHHHHHHH
Confidence            345677888766654   222 55688 99999998876420 001344 678888999999999998763 333444 3


Q ss_pred             cc----cCCEEeeCCCCcc
Q 044539          200 LF----LLRYLNLNIPSLK  214 (217)
Q Consensus       200 L~----~LryL~L~~t~i~  214 (217)
                      +.    +|++|+|++|.++
T Consensus        80 l~~~~~~L~~L~L~~n~i~   98 (461)
T 1z7x_W           80 LQTPSCKIQKLSLQNCCLT   98 (461)
T ss_dssp             TCSTTCCCCEEECTTSCCB
T ss_pred             HhhCCCceeEEEccCCCCC
Confidence            55    6999999999886

>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=95.34  E-value=0.015  Score=42.85  Aligned_cols=62  Identities=3%  Similarity=-0.024  Sum_probs=45.4

Q ss_pred             CCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCC-Ccc-CCcccccc----ccCCEEeeCCCC-cc
Q 044539          148 FDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLV-LIR-YPSEVENL----FLLRYLNLNIPS-LK  214 (217)
Q Consensus       148 ~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~-i~~-lP~~I~~L----~~LryL~L~~t~-i~  214 (217)
                      -. +|+.|.+.++..  ....+  ..+.++++|+.|+|++|. ++. =-..|+.+    .+|++|+|++|. |+
T Consensus        60 ~~-~L~~LDLs~~~I--td~GL--~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~IT  128 (176)
T 3e4g_A           60 KY-KIQAIDATDSCI--MSIGF--DHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVT  128 (176)
T ss_dssp             CC-CEEEEEEESCCC--CGGGG--GGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCC
T ss_pred             Cc-eEeEEeCcCCCc--cHHHH--HHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCC
Confidence            34 799999998763  22334  567899999999999997 652 22446665    379999999985 65

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=95.00  E-value=0.023  Score=39.56  Aligned_cols=36  Identities=22%  Similarity=0.109  Sum_probs=29.3

Q ss_pred             CceeEEEeCCCCCccCCccc-cccccCCEEeeCCCCc
Q 044539          178 NFLRVLDLGSLVLIRYPSEV-ENLFLLRYLNLNIPSL  213 (217)
Q Consensus       178 ~~LrvLdL~~~~i~~lP~~I-~~L~~LryL~L~~t~i  213 (217)
                      ..|+.|+|+++.|+.+|... ..|.+|++|+|+++..
T Consensus        31 ~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           31 VDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             cCCCEEECCCCcCCccChhhhhhccccCEEEecCCCe
Confidence            35889999999999888654 6788999999988754

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=94.98  E-value=0.0056  Score=50.57  Aligned_cols=43  Identities=14%  Similarity=-0.017  Sum_probs=23.8

Q ss_pred             hhhcCCCceeEEEeCCCCCc-----cCCccccccccCCEEeeCCCCcc
Q 044539          172 KICKMFNFLRVLDLGSLVLI-----RYPSEVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~-----~lP~~I~~L~~LryL~L~~t~i~  214 (217)
                      ..+...+.|+.|+|++|.+.     .+++.+...+.|++|+|++|.|.
T Consensus       205 ~~L~~~~~L~~L~Ls~N~i~~~g~~~l~~~L~~~~~L~~L~Ls~N~i~  252 (372)
T 3un9_A          205 AQLDRNRQLQELNVAYNGAGDTAALALARAAREHPSLELLHLYFNELS  252 (372)
T ss_dssp             HHGGGCSCCCEEECCSSCCCHHHHHHHHHHHHHCSSCCEEECTTSSCC
T ss_pred             HHHhcCCCcCeEECCCCCCCHHHHHHHHHHHHhCCCCCEEeccCCCCC
Confidence            33445556666666666654     23344445566666666666553

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=94.88  E-value=0.017  Score=47.13  Aligned_cols=84  Identities=26%  Similarity=0.174  Sum_probs=51.9

Q ss_pred             ceeEEEEeCCCCcc---ccccCC-----CCCeeEEEEeCCCCCC-CCcccchhhhcCC-CceeEEEeCCCCCccCCc-cc
Q 044539          129 NVKRFTAHGNLNDF---EFLDHF-----DSFLHSLLHLTLGSHY-LDPNYCEKICKMF-NFLRVLDLGSLVLIRYPS-EV  197 (217)
Q Consensus       129 ~~r~ls~~~~~~~~---~~~~~~-----~~~LrsL~~~~~~~~~-~~~~l~~~~~~~l-~~LrvLdL~~~~i~~lP~-~I  197 (217)
                      +.+.+.+..+....   .....+     + .|++|.+.++.-.. ....+. ..+..+ +.|+.|+|++|.+...+. .+
T Consensus        52 ~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~-~L~~L~Ls~n~l~~~~~~~l~-~~l~~~~~~L~~L~Ls~N~l~~~~~~~l  129 (362)
T 3goz_A           52 SVTSLNLSGNSLGFKNSDELVQILAAIPA-NVTSLNLSGNFLSYKSSDELV-KTLAAIPFTITVLDLGWNDFSSKSSSEF  129 (362)
T ss_dssp             TCCEEECCSSCGGGSCHHHHHHHHHTSCT-TCCEEECCSSCGGGSCHHHHH-HHHHTSCTTCCEEECCSSCGGGSCHHHH
T ss_pred             ceeEEECcCCCCCHHHHHHHHHHHhccCC-CccEEECcCCcCChHHHHHHH-HHHHhCCCCccEEECcCCcCCcHHHHHH
Confidence            67778887765441   112222     6 88888887765321 001111 235555 789999999988775553 33


Q ss_pred             c----cc-ccCCEEeeCCCCcc
Q 044539          198 E----NL-FLLRYLNLNIPSLK  214 (217)
Q Consensus       198 ~----~L-~~LryL~L~~t~i~  214 (217)
                      +    .+ .+|++|+|++|.++
T Consensus       130 ~~~l~~~~~~L~~L~Ls~N~l~  151 (362)
T 3goz_A          130 KQAFSNLPASITSLNLRGNDLG  151 (362)
T ss_dssp             HHHHTTSCTTCCEEECTTSCGG
T ss_pred             HHHHHhCCCceeEEEccCCcCC
Confidence            3    32 58999999988876

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=94.66  E-value=0.0071  Score=49.79  Aligned_cols=30  Identities=17%  Similarity=0.025  Sum_probs=14.7

Q ss_pred             CceeEEEEeCCCCc---ccc--ccCCCCCeeEEEEe
Q 044539          128 ENVKRFTAHGNLND---FEF--LDHFDSFLHSLLHL  158 (217)
Q Consensus       128 ~~~r~ls~~~~~~~---~~~--~~~~~~~LrsL~~~  158 (217)
                      .+.++|.+..+...   ...  ...++ .|+.|.+.
T Consensus       193 ~~L~~L~L~~~~l~~~~l~~l~~~~lp-~L~~L~L~  227 (362)
T 2ra8_A          193 PNLKSLEIISGGLPDSVVEDILGSDLP-NLEKLVLY  227 (362)
T ss_dssp             TTCSEEEEECSBCCHHHHHHHHHSBCT-TCCEEEEE
T ss_pred             CCCcEEEEecCCCChHHHHHHHHccCC-CCcEEEEe
Confidence            44556666544332   111  12566 67776654

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=94.42  E-value=0.0099  Score=49.03  Aligned_cols=85  Identities=11%  Similarity=-0.152  Sum_probs=58.7

Q ss_pred             CceeEEEEeCCCCcc------cc-c-cCCCCCeeEEEEeCCCCCC-CCcccchhhhcCCCceeEEEeCCCCCc-----cC
Q 044539          128 ENVKRFTAHGNLNDF------EF-L-DHFDSFLHSLLHLTLGSHY-LDPNYCEKICKMFNFLRVLDLGSLVLI-----RY  193 (217)
Q Consensus       128 ~~~r~ls~~~~~~~~------~~-~-~~~~~~LrsL~~~~~~~~~-~~~~l~~~~~~~l~~LrvLdL~~~~i~-----~l  193 (217)
                      .+.+++.+..+....      .. . ...+ .|++|.+.++.-.. ....+. ..+...+.|++|+|++|.+.     .+
T Consensus       126 ~~L~~L~Ls~n~l~~~~~~~L~~~L~~~~~-~L~~L~Ls~n~l~~~~~~~l~-~~L~~~~~L~~L~Ls~N~l~~~g~~~L  203 (372)
T 3un9_A          126 LRARKLGLQLNSLGPEACKDLRDLLLHDQC-QITTLRLSNNPLTAAGVAVLM-EGLAGNTSVTHLSLLHTGLGDEGLELL  203 (372)
T ss_dssp             HTEEEEECCSSCCCHHHHHHHHHHHHSTTC-CCCEEECCSSCCHHHHHHHHH-HHHHTCSSCCEEECTTSSCHHHHHHHH
T ss_pred             HhccHhhcCCCCCCHHHHHHHHHHHHhcCC-ccceeeCCCCCCChHHHHHHH-HHHhcCCCcCEEeCCCCCCCcHHHHHH
Confidence            356778877776541      11 1 2356 89999988765320 011233 45678889999999999876     45


Q ss_pred             CccccccccCCEEeeCCCCcc
Q 044539          194 PSEVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       194 P~~I~~L~~LryL~L~~t~i~  214 (217)
                      ++.+....+|++|+|++|.|+
T Consensus       204 ~~~L~~~~~L~~L~Ls~N~i~  224 (372)
T 3un9_A          204 AAQLDRNRQLQELNVAYNGAG  224 (372)
T ss_dssp             HHHGGGCSCCCEEECCSSCCC
T ss_pred             HHHHhcCCCcCeEECCCCCCC
Confidence            677788889999999999886

>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=94.27  E-value=0.018  Score=49.80  Aligned_cols=62  Identities=16%  Similarity=0.086  Sum_probs=38.0

Q ss_pred             CCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCc--cCCccccccccCCEEeeCCCCc
Q 044539          148 FDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLI--RYPSEVENLFLLRYLNLNIPSL  213 (217)
Q Consensus       148 ~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~--~lP~~I~~L~~LryL~L~~t~i  213 (217)
                      ++ +|+.|.+.++...  ...+. .....+++|+.|+|++|.+.  .++.-+..+++|++|++++|.+
T Consensus       455 ~~-~L~~L~L~~~~i~--~~~~~-~l~~~~~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~l~~~~~  518 (594)
T 2p1m_B          455 AK-KMEMLSVAFAGDS--DLGMH-HVLSGCDSLRKLEIRDCPFGDKALLANASKLETMRSLWMSSCSV  518 (594)
T ss_dssp             CT-TCCEEEEESCCSS--HHHHH-HHHHHCTTCCEEEEESCSCCHHHHHHTGGGGGGSSEEEEESSCC
T ss_pred             ch-hccEeeccCCCCc--HHHHH-HHHhcCCCcCEEECcCCCCcHHHHHHHHHhCCCCCEEeeeCCCC
Confidence            45 6666666554321  11222 23366788888888888864  2223445678888888888876

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=94.24  E-value=0.013  Score=43.28  Aligned_cols=85  Identities=13%  Similarity=0.083  Sum_probs=58.0

Q ss_pred             CceeEEEEeCC-CCc-------cccccCCCCCeeEEEEeCCCCCC-CCcccchhhhcCCCceeEEEeCCCCCc-----cC
Q 044539          128 ENVKRFTAHGN-LND-------FEFLDHFDSFLHSLLHLTLGSHY-LDPNYCEKICKMFNFLRVLDLGSLVLI-----RY  193 (217)
Q Consensus       128 ~~~r~ls~~~~-~~~-------~~~~~~~~~~LrsL~~~~~~~~~-~~~~l~~~~~~~l~~LrvLdL~~~~i~-----~l  193 (217)
                      ...+++.+..+ ...       .......+ .|++|.+.++.-.. ....+. ..+...+.|+.|+|++|.+.     .+
T Consensus        36 ~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~-~L~~L~Ls~n~i~~~g~~~l~-~~L~~n~~L~~L~L~~N~i~~~g~~~l  113 (185)
T 1io0_A           36 PDLEEVNLNNIMNIPVPTLKACAEALKTNT-YVKKFSIVGTRSNDPVAFALA-EMLKVNNTLKSLNVESNFISGSGILAL  113 (185)
T ss_dssp             TTCCEEECTTCTTCCHHHHHHHHHHHTTCC-SCCEEECTTSCCCHHHHHHHH-HHHHHCSSCCEEECCSSCCCHHHHHHH
T ss_pred             CCCCEEEecCCCCCCHHHHHHHHHHHHhCC-CcCEEECcCCCCChHHHHHHH-HHHHhCCCcCEEECcCCcCCHHHHHHH
Confidence            45667777765 443       12244567 89999887765421 011233 55667788999999999876     36


Q ss_pred             CccccccccCCEEee--CCCCcc
Q 044539          194 PSEVENLFLLRYLNL--NIPSLK  214 (217)
Q Consensus       194 P~~I~~L~~LryL~L--~~t~i~  214 (217)
                      .+.+.....|++|+|  +++.|.
T Consensus       114 ~~~L~~n~~L~~L~L~~~~N~i~  136 (185)
T 1io0_A          114 VEALQSNTSLIELRIDNQSQPLG  136 (185)
T ss_dssp             HHGGGGCSSCCEEECCCCSSCCC
T ss_pred             HHHHHhCCCceEEEecCCCCCCC
Confidence            777888889999999  778775

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=94.21  E-value=0.032  Score=45.43  Aligned_cols=73  Identities=15%  Similarity=-0.055  Sum_probs=51.6

Q ss_pred             ccccCCCCCeeEEEEeCCCCCCCC-cccchhhhcCCC-ceeEEEeCCCCCccC-Ccccccc-----ccCCEEeeCCCCcc
Q 044539          143 EFLDHFDSFLHSLLHLTLGSHYLD-PNYCEKICKMFN-FLRVLDLGSLVLIRY-PSEVENL-----FLLRYLNLNIPSLK  214 (217)
Q Consensus       143 ~~~~~~~~~LrsL~~~~~~~~~~~-~~l~~~~~~~l~-~LrvLdL~~~~i~~l-P~~I~~L-----~~LryL~L~~t~i~  214 (217)
                      +.....+..++.|.+.++.-.... ..+. ..+.+++ .|+.|+|++|.+... |..++.+     .+|++|+|++|.++
T Consensus        15 ~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~-~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~   93 (362)
T 3goz_A           15 EEFTSIPHGVTSLDLSLNNLYSISTVELI-QAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLS   93 (362)
T ss_dssp             HHHHTSCTTCCEEECTTSCGGGSCHHHHH-HHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGG
T ss_pred             HHHHhCCCCceEEEccCCCCChHHHHHHH-HHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCcCC
Confidence            334444426999999876642110 1122 4567787 899999999998754 6777776     99999999999987


Q ss_pred             cC
Q 044539          215 SL  216 (217)
Q Consensus       215 ~L  216 (217)
                      ..
T Consensus        94 ~~   95 (362)
T 3goz_A           94 YK   95 (362)
T ss_dssp             GS
T ss_pred             hH
Confidence            53

>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=93.96  E-value=0.021  Score=49.45  Aligned_cols=16  Identities=6%  Similarity=-0.045  Sum_probs=7.2

Q ss_pred             cccchHh-HHHHHHHhh
Q 044539           22 YCMLHFY-LKLCCLYLS   37 (217)
Q Consensus        22 Y~~Lp~~-lk~Cfl~~s   37 (217)
                      .+.||++ +-..|-|+.
T Consensus         6 ~~~LPdevL~~If~~L~   22 (594)
T 2p1m_B            6 ALSFPEEVLEHVFSFIQ   22 (594)
T ss_dssp             ----CHHHHHHHHHTCC
T ss_pred             hhhCCHHHHHHHHhhcC
Confidence            3567776 566665543

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=93.85  E-value=0.021  Score=42.11  Aligned_cols=86  Identities=17%  Similarity=0.007  Sum_probs=60.0

Q ss_pred             CCceeEEEEeCCCCc-------cccccCCCCCeeEEEEeCCCCCC-CCcccchhhhcCCCceeEEEe--CCCCCc-----
Q 044539          127 RENVKRFTAHGNLND-------FEFLDHFDSFLHSLLHLTLGSHY-LDPNYCEKICKMFNFLRVLDL--GSLVLI-----  191 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-------~~~~~~~~~~LrsL~~~~~~~~~-~~~~l~~~~~~~l~~LrvLdL--~~~~i~-----  191 (217)
                      ....+.|.+..+...       .......+ .|++|.+.++.... ....+. ..+...+.|+.|+|  +++.+.     
T Consensus        64 ~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~-~L~~L~L~~N~i~~~g~~~l~-~~L~~n~~L~~L~L~~~~N~i~~~g~~  141 (185)
T 1io0_A           64 NTYVKKFSIVGTRSNDPVAFALAEMLKVNN-TLKSLNVESNFISGSGILALV-EALQSNTSLIELRIDNQSQPLGNNVEM  141 (185)
T ss_dssp             CCSCCEEECTTSCCCHHHHHHHHHHHHHCS-SCCEEECCSSCCCHHHHHHHH-HGGGGCSSCCEEECCCCSSCCCHHHHH
T ss_pred             CCCcCEEECcCCCCChHHHHHHHHHHHhCC-CcCEEECcCCcCCHHHHHHHH-HHHHhCCCceEEEecCCCCCCCHHHHH
Confidence            356788888877754       12234557 89999988765421 011233 56778889999999  778876     


Q ss_pred             cCCccccccccCCEEeeCCCCcc
Q 044539          192 RYPSEVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       192 ~lP~~I~~L~~LryL~L~~t~i~  214 (217)
                      .+.+.+.....|++|+|++|.|.
T Consensus       142 ~l~~~L~~n~~L~~L~L~~n~i~  164 (185)
T 1io0_A          142 EIANMLEKNTTLLKFGYHFTQQG  164 (185)
T ss_dssp             HHHHHHHHCSSCCEEECCCSSHH
T ss_pred             HHHHHHHhCCCcCEEeccCCCCC
Confidence            35566667789999999998864

>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=93.48  E-value=0.12  Score=44.60  Aligned_cols=39  Identities=21%  Similarity=0.025  Sum_probs=20.2

Q ss_pred             cCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCc
Q 044539          175 KMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSL  213 (217)
Q Consensus       175 ~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i  213 (217)
                      ..+++|+.|+++++....+|..+..+++|++|+|++|.+
T Consensus       267 ~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~l  305 (592)
T 3ogk_B          267 VFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALL  305 (592)
T ss_dssp             CCCTTCCEEEETTCCTTTGGGGGGGGGGCCEEEETTCCC
T ss_pred             hccccccccCccccchhHHHHHHhhcCCCcEEecCCCcC
Confidence            334444444444443444555555566666666665553

>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=91.67  E-value=0.28  Score=39.21  Aligned_cols=82  Identities=11%  Similarity=0.010  Sum_probs=47.0

Q ss_pred             CceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCcee-EEEeCCCCCccCC-cccccccc
Q 044539          128 ENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLR-VLDLGSLVLIRYP-SEVENLFL  202 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~Lr-vLdL~~~~i~~lP-~~I~~L~~  202 (217)
                      .+.+.+.+..+... +  ..+..++ +|+++.+.++-    ..+.+ ..|..+..|+ .|+|.+ .++.++ ..+..+.+
T Consensus       226 ~~L~~l~L~~n~i~~I~~~aF~~~~-~L~~l~l~~ni----~~I~~-~aF~~~~~L~~~l~l~~-~l~~I~~~aF~~c~~  298 (329)
T 3sb4_A          226 PNLVSLDISKTNATTIPDFTFAQKK-YLLKIKLPHNL----KTIGQ-RVFSNCGRLAGTLELPA-SVTAIEFGAFMGCDN  298 (329)
T ss_dssp             TTCCEEECTTBCCCEECTTTTTTCT-TCCEEECCTTC----CEECT-TTTTTCTTCCEEEEECT-TCCEECTTTTTTCTT
T ss_pred             CCCeEEECCCCCcceecHhhhhCCC-CCCEEECCccc----ceehH-HHhhCChhccEEEEEcc-cceEEchhhhhCCcc
Confidence            34455555443222 1  2355566 77777665532    12333 6677777777 777766 555554 45667777


Q ss_pred             CCEEeeCCCCcccC
Q 044539          203 LRYLNLNIPSLKSL  216 (217)
Q Consensus       203 LryL~L~~t~i~~L  216 (217)
                      |+.|++++++|+.+
T Consensus       299 L~~l~l~~n~i~~I  312 (329)
T 3sb4_A          299 LRYVLATGDKITTL  312 (329)
T ss_dssp             EEEEEECSSCCCEE
T ss_pred             CCEEEeCCCccCcc
Confidence            77777776666544

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=89.84  E-value=0.36  Score=39.52  Aligned_cols=11  Identities=36%  Similarity=0.187  Sum_probs=5.9

Q ss_pred             ccccCCEEeeC
Q 044539          199 NLFLLRYLNLN  209 (217)
Q Consensus       199 ~L~~LryL~L~  209 (217)
                      .+++|++|+|+
T Consensus       217 ~lp~L~~L~L~  227 (362)
T 2ra8_A          217 DLPNLEKLVLY  227 (362)
T ss_dssp             BCTTCCEEEEE
T ss_pred             cCCCCcEEEEe
Confidence            45555555553

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=85.75  E-value=0.78  Score=31.56  Aligned_cols=35  Identities=23%  Similarity=0.192  Sum_probs=28.7

Q ss_pred             eEEEeCCCCCc--cCCccccccccCCEEeeCCCCcccCC
Q 044539          181 RVLDLGSLVLI--RYPSEVENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       181 rvLdL~~~~i~--~lP~~I~~L~~LryL~L~~t~i~~L~  217 (217)
                      .+++.++.+++  .+|..|.  .+|++|+|++++|+.|+
T Consensus        11 ~~v~Cs~~~L~~~~vP~~lp--~~l~~L~Ls~N~l~~l~   47 (130)
T 3rfe_A           11 TLVDCGRRGLTWASLPTAFP--VDTTELVLTGNNLTALP   47 (130)
T ss_dssp             TEEECCSSCCCTTTSCSCCC--TTCSEEECTTSCCSSCC
T ss_pred             CEEEeCCCCCccccCCCCCC--cCCCEEECCCCcCCccC
Confidence            37789998888  8997544  47999999999998875

>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=84.86  E-value=0.96  Score=36.00  Aligned_cols=61  Identities=18%  Similarity=-0.025  Sum_probs=44.6

Q ss_pred             CCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCc-cccccccCC-EEeeCCCCccc
Q 044539          148 FDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPS-EVENLFLLR-YLNLNIPSLKS  215 (217)
Q Consensus       148 ~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~-~I~~L~~Lr-yL~L~~t~i~~  215 (217)
                      ++ .|+++.+.++.-   ..+.+ ..|..+.+|+.|+|.++ ++.+++ .+..+.+|+ .+.+.. +++.
T Consensus       225 ~~-~L~~l~L~~n~i---~~I~~-~aF~~~~~L~~l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~-~l~~  287 (329)
T 3sb4_A          225 MP-NLVSLDISKTNA---TTIPD-FTFAQKKYLLKIKLPHN-LKTIGQRVFSNCGRLAGTLELPA-SVTA  287 (329)
T ss_dssp             CT-TCCEEECTTBCC---CEECT-TTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEEECT-TCCE
T ss_pred             cC-CCeEEECCCCCc---ceecH-hhhhCCCCCCEEECCcc-cceehHHHhhCChhccEEEEEcc-cceE
Confidence            67 888888775432   22333 77899999999999886 776664 467888999 999976 5544

---

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	217
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.54
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.28
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	98.26
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.24
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.16
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.13
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.07
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	98.04
d2ifga3	156	High affinity nerve growth factor receptor, N-term	97.97
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	97.94
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	97.84
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	97.8
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	97.79
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	97.78
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	97.75
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	97.71
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	97.69
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	97.63
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	97.62
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	97.61
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	97.6
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	97.58
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	97.28
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	97.27
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	97.25
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	96.95
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	96.87
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	96.83
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	96.79
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	96.72
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	96.41
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	96.41
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	96.37
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	96.25
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	95.24
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	91.04
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	89.59
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	88.16
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	87.52
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	82.67
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	81.47

>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=98.54  E-value=9.5e-08  Score=65.32  Aligned_cols=82  Identities=20%  Similarity=-0.004  Sum_probs=58.7

Q ss_pred             CCceeEEEEeCCCCc-c-ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCC--cccccccc
Q 044539          127 RENVKRFTAHGNLND-F-EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYP--SEVENLFL  202 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~-~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP--~~I~~L~~  202 (217)
                      ....+++.+..+... + .....++ +|++|.+.++.-.    .+  +.+.++++|+.|+++++.+..+|  ..++.+++
T Consensus        19 l~~L~~L~ls~N~l~~lp~~~~~l~-~L~~L~l~~N~i~----~l--~~~~~l~~L~~L~l~~N~i~~~~~~~~l~~~~~   91 (124)
T d1dcea3          19 LLLVTHLDLSHNRLRALPPALAALR-CLEVLQASDNALE----NV--DGVANLPRLQELLLCNNRLQQSAAIQPLVSCPR   91 (124)
T ss_dssp             GTTCCEEECCSSCCCCCCGGGGGCT-TCCEEECCSSCCC----CC--GGGTTCSSCCEEECCSSCCCSSSTTGGGGGCTT
T ss_pred             CCCCCEEECCCCccCcchhhhhhhh-ccccccccccccc----cc--CccccccccCeEECCCCccCCCCCchhhcCCCC
Confidence            355777777776654 3 3356677 8888888776532    23  34778888888888888887666  46778888


Q ss_pred             CCEEeeCCCCccc
Q 044539          203 LRYLNLNIPSLKS  215 (217)
Q Consensus       203 LryL~L~~t~i~~  215 (217)
                      |++|+++++.+..
T Consensus        92 L~~L~l~~N~i~~  104 (124)
T d1dcea3          92 LVLLNLQGNSLCQ  104 (124)
T ss_dssp             CCEEECTTSGGGG
T ss_pred             CCEEECCCCcCCc
Confidence            8888888877754

>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=98.28  E-value=7.4e-07  Score=65.17  Aligned_cols=87  Identities=13%  Similarity=0.039  Sum_probs=57.6

Q ss_pred             CCCceeEEEEeCCCCc----cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCc-ccccc
Q 044539          126 LRENVKRFTAHGNLND----FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPS-EVENL  200 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~----~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~-~I~~L  200 (217)
                      .+..+++|.+..+...    ...+..++ +|+.|.+.++...   ...+ ..+..++.|+.|+|+++++..+|. .+..|
T Consensus        27 lp~~l~~L~Ls~N~i~~~~~~~~f~~l~-~L~~L~L~~N~i~---~~~~-~~~~~~~~L~~L~Ls~N~l~~l~~~~F~~l  101 (192)
T d1w8aa_          27 IPLHTTELLLNDNELGRISSDGLFGRLP-HLVKLELKRNQLT---GIEP-NAFEGASHIQELQLGENKIKEISNKMFLGL  101 (192)
T ss_dssp             CCTTCSEEECCSCCCCSBCCSCSGGGCT-TCCEEECCSSCCC---CBCT-TTTTTCTTCCEEECCSCCCCEECSSSSTTC
T ss_pred             CCCCCCEEEeCCCCCcccccccccCCCc-eEeeeeccccccc---cccc-cccccccccceeeeccccccccCHHHHhCC
Confidence            3466778888777653    12245677 8888887665532   2334 667777777777777777776654 35677


Q ss_pred             ccCCEEeeCCCCcccCC
Q 044539          201 FLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       201 ~~LryL~L~~t~i~~L~  217 (217)
                      .+|++|+|++++|+.++
T Consensus       102 ~~L~~L~L~~N~l~~i~  118 (192)
T d1w8aa_         102 HQLKTLNLYDNQISCVM  118 (192)
T ss_dssp             TTCCEEECCSSCCCEEC
T ss_pred             CcccccccCCccccccC
Confidence            77777777777776653

>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=98.26  E-value=9.7e-07  Score=68.91  Aligned_cols=84  Identities=14%  Similarity=0.096  Sum_probs=61.4

Q ss_pred             CceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCC
Q 044539          128 ENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLR  204 (217)
Q Consensus       128 ~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lr  204 (217)
                      ...+++.+..+...   ......++ .+++|.+.++.-   ....+ ..+.++++|++|+|+++.++.+|+.+++|++|+
T Consensus       171 ~~L~~L~l~~n~~~~~~~~~~~~~~-~l~~L~~s~n~l---~~~~~-~~~~~l~~L~~L~L~~N~L~~lp~~l~~l~~L~  245 (305)
T d1xkua_         171 PSLTELHLDGNKITKVDAASLKGLN-NLAKLGLSFNSI---SAVDN-GSLANTPHLRELHLNNNKLVKVPGGLADHKYIQ  245 (305)
T ss_dssp             TTCSEEECTTSCCCEECTGGGTTCT-TCCEEECCSSCC---CEECT-TTGGGSTTCCEEECCSSCCSSCCTTTTTCSSCC
T ss_pred             CccCEEECCCCcCCCCChhHhhccc-cccccccccccc---ccccc-ccccccccceeeecccccccccccccccccCCC
Confidence            34555555544333   22345566 777776655432   22334 778889999999999999999999999999999


Q ss_pred             EEeeCCCCcccC
Q 044539          205 YLNLNIPSLKSL  216 (217)
Q Consensus       205 yL~L~~t~i~~L  216 (217)
                      +|+|++|+|+.+
T Consensus       246 ~L~Ls~N~i~~i  257 (305)
T d1xkua_         246 VVYLHNNNISAI  257 (305)
T ss_dssp             EEECCSSCCCCC
T ss_pred             EEECCCCccCcc
Confidence            999999999876

>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=98.24  E-value=5.9e-07  Score=61.21  Aligned_cols=80  Identities=16%  Similarity=0.017  Sum_probs=62.9

Q ss_pred             eEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeC
Q 044539          131 KRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLN  209 (217)
Q Consensus       131 r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~  209 (217)
                      |.+.+..+... .+....++ +++.|.+.++.-.    .+| ..++.+++|++|+++++.++.+| .++++++|++|+++
T Consensus         1 R~L~Ls~n~l~~l~~l~~l~-~L~~L~ls~N~l~----~lp-~~~~~l~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~l~   73 (124)
T d1dcea3           1 RVLHLAHKDLTVLCHLEQLL-LVTHLDLSHNRLR----ALP-PALAALRCLEVLQASDNALENVD-GVANLPRLQELLLC   73 (124)
T ss_dssp             SEEECTTSCCSSCCCGGGGT-TCCEEECCSSCCC----CCC-GGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECC
T ss_pred             CEEEcCCCCCCCCcccccCC-CCCEEECCCCccC----cch-hhhhhhhcccccccccccccccC-ccccccccCeEECC
Confidence            34455555443 45567788 9999998876532    455 67899999999999999999987 49999999999999


Q ss_pred             CCCcccCC
Q 044539          210 IPSLKSLL  217 (217)
Q Consensus       210 ~t~i~~L~  217 (217)
                      ++.|+.++
T Consensus        74 ~N~i~~~~   81 (124)
T d1dcea3          74 NNRLQQSA   81 (124)
T ss_dssp             SSCCCSSS
T ss_pred             CCccCCCC
Confidence            99987653

>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=98.16  E-value=1.5e-06  Score=61.97  Aligned_cols=84  Identities=14%  Similarity=0.024  Sum_probs=56.6

Q ss_pred             CceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCc--cccccccCC
Q 044539          128 ENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPS--EVENLFLLR  204 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~--~I~~L~~Lr  204 (217)
                      ...+++.+..+... +.....++ +|++|.+.++.-.   ...+ ..+..+++|+.|+|++|.+..+++  .+..+++|+
T Consensus        41 ~~L~~L~Ls~N~i~~l~~~~~l~-~L~~L~ls~N~i~---~l~~-~~~~~l~~L~~L~L~~N~i~~~~~l~~l~~l~~L~  115 (162)
T d1a9na_          41 DQFDAIDFSDNEIRKLDGFPLLR-RLKTLLVNNNRIC---RIGE-GLDQALPDLTELILTNNSLVELGDLDPLASLKSLT  115 (162)
T ss_dssp             TCCSEEECCSSCCCEECCCCCCS-SCCEEECCSSCCC---EECS-CHHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCC
T ss_pred             ccCCEEECCCCCCCccCCcccCc-chhhhhccccccc---CCCc-cccccccccccceeccccccccccccccccccccc
Confidence            44566666666544 34455677 7777777666532   2233 456678888888888888777663  567788888


Q ss_pred             EEeeCCCCcccC
Q 044539          205 YLNLNIPSLKSL  216 (217)
Q Consensus       205 yL~L~~t~i~~L  216 (217)
                      +|++++|.+..+
T Consensus       116 ~L~l~~N~i~~~  127 (162)
T d1a9na_         116 YLCILRNPVTNK  127 (162)
T ss_dssp             EEECCSSGGGGS
T ss_pred             hhhcCCCccccc
Confidence            888888877654

>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=98.13  E-value=2.1e-06  Score=60.74  Aligned_cols=81  Identities=17%  Similarity=0.034  Sum_probs=60.7

Q ss_pred             CceeEEEEeCCC-Cc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccC
Q 044539          128 ENVKRFTAHGNL-ND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLL  203 (217)
Q Consensus       128 ~~~r~ls~~~~~-~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~L  203 (217)
                      .+.+++.+..+. ..   ...+..++ +|+.|.+.++.-   ..+.+ ..|..+++|++|+|++++++.+|.++.....|
T Consensus        31 ~~l~~L~l~~n~~l~~i~~~~f~~l~-~L~~L~Ls~N~l---~~i~~-~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~~~l  105 (156)
T d2ifga3          31 ENLTELYIENQQHLQHLELRDLRGLG-ELRNLTIVKSGL---RFVAP-DAFHFTPRLSRLNLSFNALESLSWKTVQGLSL  105 (156)
T ss_dssp             SCCSEEECCSCSSCCEECGGGSCSCC-CCSEEECCSSCC---CEECT-TGGGSCSCCCEEECCSSCCSCCCSTTTCSCCC
T ss_pred             cccCeeecCCCccccccCchhhcccc-ccCcceeecccc---CCccc-ccccccccccceeccCCCCcccChhhhccccc
Confidence            456777775543 32   23466788 899998877653   23444 77888999999999999999999888877789


Q ss_pred             CEEeeCCCCc
Q 044539          204 RYLNLNIPSL  213 (217)
Q Consensus       204 ryL~L~~t~i  213 (217)
                      ++|+|+++.+
T Consensus       106 ~~L~L~~Np~  115 (156)
T d2ifga3         106 QELVLSGNPL  115 (156)
T ss_dssp             CEEECCSSCC
T ss_pred             cccccCCCcc
Confidence            9999988765

>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=98.07  E-value=1.9e-06  Score=61.42  Aligned_cols=83  Identities=16%  Similarity=0.049  Sum_probs=65.8

Q ss_pred             CCceeEEEEeCCCCc-ccc-ccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccc-cccccC
Q 044539          127 RENVKRFTAHGNLND-FEF-LDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEV-ENLFLL  203 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~~-~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I-~~L~~L  203 (217)
                      +.+.|.+.+.++... ++. ...++ +|+.|.+.++.-.    .+  ..++.++.|+.|+|++|.+..+|+.+ ..+++|
T Consensus        17 ~~~lr~L~L~~n~I~~i~~~~~~l~-~L~~L~Ls~N~i~----~l--~~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L   89 (162)
T d1a9na_          17 AVRDRELDLRGYKIPVIENLGATLD-QFDAIDFSDNEIR----KL--DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDL   89 (162)
T ss_dssp             TTSCEEEECTTSCCCSCCCGGGGTT-CCSEEECCSSCCC----EE--CCCCCCSSCCEEECCSSCCCEECSCHHHHCTTC
T ss_pred             cCcCcEEECCCCCCCccCccccccc-cCCEEECCCCCCC----cc--CCcccCcchhhhhcccccccCCCcccccccccc
Confidence            456899999887765 333 34678 9999999887642    23  35788999999999999999988765 579999


Q ss_pred             CEEeeCCCCcccC
Q 044539          204 RYLNLNIPSLKSL  216 (217)
Q Consensus       204 ryL~L~~t~i~~L  216 (217)
                      ++|+++++.|+.+
T Consensus        90 ~~L~L~~N~i~~~  102 (162)
T d1a9na_          90 TELILTNNSLVEL  102 (162)
T ss_dssp             CEEECCSCCCCCG
T ss_pred             ccceecccccccc
Confidence            9999999988764

>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=98.04  E-value=1.7e-06  Score=67.72  Aligned_cols=81  Identities=14%  Similarity=0.054  Sum_probs=45.6

Q ss_pred             CceeEEEEeCCCCc-----cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCcc-CCccccccc
Q 044539          128 ENVKRFTAHGNLND-----FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIR-YPSEVENLF  201 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-----~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~-lP~~I~~L~  201 (217)
                      .+++.+.+......     ...+.+++ +||+|.+.+...  ....+| ..++++++|++|+|+++.+.. .|..+..+.
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~~~~~~~~~~~~  125 (313)
T d1ogqa_          50 YRVNNLDLSGLNLPKPYPIPSSLANLP-YLNFLYIGGINN--LVGPIP-PAIAKLTQLHYLYITHTNVSGAIPDFLSQIK  125 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCT-TCSEEEEEEETT--EESCCC-GGGGGCTTCSEEEEEEECCEEECCGGGGGCT
T ss_pred             EEEEEEECCCCCCCCCCCCChHHhcCc-cccccccccccc--cccccc-cccccccccchhhhccccccccccccccchh
Confidence            34566666554332     23455666 777776654221  111244 566667777777777766553 344566666


Q ss_pred             cCCEEeeCCCC
Q 044539          202 LLRYLNLNIPS  212 (217)
Q Consensus       202 ~LryL~L~~t~  212 (217)
                      +|++|+++++.
T Consensus       126 ~L~~l~l~~N~  136 (313)
T d1ogqa_         126 TLVTLDFSYNA  136 (313)
T ss_dssp             TCCEEECCSSE
T ss_pred             hhccccccccc
Confidence            77777766654

>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=97.97  E-value=1.1e-05  Score=56.89  Aligned_cols=70  Identities=21%  Similarity=0.048  Sum_probs=55.9

Q ss_pred             cccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCC-ccccccccCCEEeeCCCCcccCC
Q 044539          144 FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYP-SEVENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       144 ~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP-~~I~~L~~LryL~L~~t~i~~L~  217 (217)
                      .....+ +++.|.+.+...  ...+.+ ..|..+.+|+.|+|++++|..+| ..+..+++|++|+|++++++.++
T Consensus        26 ~l~~l~-~l~~L~l~~n~~--l~~i~~-~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N~l~~l~   96 (156)
T d2ifga3          26 HLPGAE-NLTELYIENQQH--LQHLEL-RDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLS   96 (156)
T ss_dssp             TSCSCS-CCSEEECCSCSS--CCEECG-GGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCSCCC
T ss_pred             cccCcc-ccCeeecCCCcc--ccccCc-hhhccccccCcceeeccccCCcccccccccccccceeccCCCCcccC
Confidence            345667 889988765542  223334 77999999999999999999885 55889999999999999998875

>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=97.94  E-value=1.4e-05  Score=59.56  Aligned_cols=65  Identities=12%  Similarity=0.005  Sum_probs=48.5

Q ss_pred             cccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccC
Q 044539          144 FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       144 ~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L  216 (217)
                      ....++ .++.|.+.++...    ..  ..+++++.|+.|+|+++.++.+|. ++++++|++|+|++|+++++
T Consensus       146 ~~~~~~-~L~~L~l~~n~~~----~~--~~l~~l~~L~~L~Ls~n~l~~l~~-l~~l~~L~~L~Ls~N~lt~i  210 (227)
T d1h6ua2         146 PLAGLT-NLQYLSIGNAQVS----DL--TPLANLSKLTTLKADDNKISDISP-LASLPNLIEVHLKNNQISDV  210 (227)
T ss_dssp             GGGGCT-TCCEEECCSSCCC----CC--GGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECTTSCCCBC
T ss_pred             hhcccc-ccccccccccccc----cc--hhhcccccceecccCCCccCCChh-hcCCCCCCEEECcCCcCCCC
Confidence            345566 7777776554321    11  457888999999999998888764 88899999999999888765

>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=97.84  E-value=1.9e-05  Score=60.25  Aligned_cols=62  Identities=16%  Similarity=-0.010  Sum_probs=45.8

Q ss_pred             cCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCC
Q 044539          146 DHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPS  212 (217)
Q Consensus       146 ~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~  212 (217)
                      ..++ .++.+.+.++.-   ....+ ..+..+++|+.|+|+++.++.+|+++..+.+|++|+|+++.
T Consensus       145 ~~l~-~l~~l~l~~N~l---~~~~~-~~~~~l~~L~~L~Ls~N~L~~lp~~~~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         145 TPTP-KLEKLSLANNNL---TELPA-GLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNP  206 (266)
T ss_dssp             TTCT-TCCEEECTTSCC---SCCCT-TTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECCSCC
T ss_pred             cccc-cchhcccccccc---cccCc-cccccccccceeecccCCCcccChhHCCCCCCCEEEecCCC
Confidence            3455 677776665542   22334 66788888888888888888888888888888888888764

>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=97.80  E-value=3.2e-05  Score=56.42  Aligned_cols=64  Identities=16%  Similarity=0.154  Sum_probs=44.5

Q ss_pred             ccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccC
Q 044539          145 LDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       145 ~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L  216 (217)
                      ...++ +++.|.+.++.-.    .+  +.+..++.|+.|++.++.+..+| .+++|++|++|++++|+|+.+
T Consensus       124 ~~~l~-~L~~L~l~~n~l~----~~--~~l~~~~~L~~L~l~~n~l~~l~-~l~~l~~L~~L~ls~N~i~~i  187 (199)
T d2omxa2         124 LKNLT-NLNRLELSSNTIS----DI--SALSGLTSLQQLNFSSNQVTDLK-PLANLTTLERLDISSNKVSDI  187 (199)
T ss_dssp             GTTCT-TCSEEECCSSCCC----CC--GGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCCEEECCSSCCCCC
T ss_pred             cchhh-hhHHhhhhhhhhc----cc--ccccccccccccccccccccCCc-cccCCCCCCEEECCCCCCCCC
Confidence            33445 5555555443221    22  45777888888888888887776 488999999999999888765

>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=97.79  E-value=2.5e-05  Score=59.64  Aligned_cols=84  Identities=23%  Similarity=0.177  Sum_probs=61.9

Q ss_pred             CCCceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcccccccc
Q 044539          126 LRENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFL  202 (217)
Q Consensus       126 ~~~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~  202 (217)
                      .+...++|.+..+... +  ..+..++ +|+.|.+.++.-.    .+  ..+..++.|++|+|+++.+...|..+..+.+
T Consensus        29 lp~~l~~L~Ls~N~i~~l~~~~f~~l~-~L~~L~L~~N~l~----~l--~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~  101 (266)
T d1p9ag_          29 LPKDTTILHLSENLLYTFSLATLMPYT-RLTQLNLDRAELT----KL--QVDGTLPVLGTLDLSHNQLQSLPLLGQTLPA  101 (266)
T ss_dssp             CCTTCCEEECTTSCCSEEEGGGGTTCT-TCCEEECTTSCCC----EE--ECCSCCTTCCEEECCSSCCSSCCCCTTTCTT
T ss_pred             cCcCCCEEECcCCcCCCcCHHHhhccc-ccccccccccccc----cc--ccccccccccccccccccccccccccccccc
Confidence            3566788888877654 2  2356788 8999988776432    23  3456788889999988888888888888888


Q ss_pred             CCEEeeCCCCcccC
Q 044539          203 LRYLNLNIPSLKSL  216 (217)
Q Consensus       203 LryL~L~~t~i~~L  216 (217)
                      |++|+++++.+.++
T Consensus       102 L~~L~l~~~~~~~~  115 (266)
T d1p9ag_         102 LTVLDVSFNRLTSL  115 (266)
T ss_dssp             CCEEECCSSCCCCC
T ss_pred             ccccccccccccee
Confidence            88888888776654

>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=97.78  E-value=2.2e-05  Score=57.03  Aligned_cols=83  Identities=14%  Similarity=0.027  Sum_probs=65.5

Q ss_pred             CCceeEEEEeCCCCc---cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCcc-cccccc
Q 044539          127 RENVKRFTAHGNLND---FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSE-VENLFL  202 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~---~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~-I~~L~~  202 (217)
                      ..+.++|.+..+...   ......++ .|+.|.+.++.-   ..+.+ ..|.++++|++|+|+++.+..+|.. +..+.+
T Consensus        53 l~~L~~L~L~~N~i~~~~~~~~~~~~-~L~~L~Ls~N~l---~~l~~-~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~  127 (192)
T d1w8aa_          53 LPHLVKLELKRNQLTGIEPNAFEGAS-HIQELQLGENKI---KEISN-KMFLGLHQLKTLNLYDNQISCVMPGSFEHLNS  127 (192)
T ss_dssp             CTTCCEEECCSSCCCCBCTTTTTTCT-TCCEEECCSCCC---CEECS-SSSTTCTTCCEEECCSSCCCEECTTSSTTCTT
T ss_pred             CceEeeeecccccccccccccccccc-ccceeeeccccc---cccCH-HHHhCCCcccccccCCccccccCHHHhcCCcc
Confidence            456788888776654   23456678 999999887753   33444 7799999999999999999988754 679999


Q ss_pred             CCEEeeCCCCcc
Q 044539          203 LRYLNLNIPSLK  214 (217)
Q Consensus       203 LryL~L~~t~i~  214 (217)
                      |++|+|+++.+.
T Consensus       128 L~~l~L~~N~~~  139 (192)
T d1w8aa_         128 LTSLNLASNPFN  139 (192)
T ss_dssp             CCEEECTTCCBC
T ss_pred             cccccccccccc
Confidence            999999998764

>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=97.75  E-value=1.1e-05  Score=64.19  Aligned_cols=82  Identities=12%  Similarity=0.023  Sum_probs=62.8

Q ss_pred             CCceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCE
Q 044539          127 RENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRY  205 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lry  205 (217)
                      ..+.+.+.+...... +.....++ +|++|.+.++.-.    .+  ..++++++|++|+++++.+..+|+ +++|.+|++
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~~l~~L~~  114 (384)
T d2omza2          43 LDQVTTLQADRLGIKSIDGVEYLN-NLTQINFSNNQLT----DI--TPLKNLTKLVDILMNNNQIADITP-LANLTNLTG  114 (384)
T ss_dssp             HTTCCEEECCSSCCCCCTTGGGCT-TCCEEECCSSCCC----CC--GGGTTCTTCCEEECCSSCCCCCGG-GTTCTTCCE
T ss_pred             hCCCCEEECCCCCCCCccccccCC-CCCEEeCcCCcCC----CC--ccccCCcccccccccccccccccc-ccccccccc
Confidence            356788888776554 44566788 9999998876532    23  348889999999999999888774 899999999


Q ss_pred             EeeCCCCcccC
Q 044539          206 LNLNIPSLKSL  216 (217)
Q Consensus       206 L~L~~t~i~~L  216 (217)
                      |+++++.++.+
T Consensus       115 L~~~~~~~~~~  125 (384)
T d2omza2         115 LTLFNNQITDI  125 (384)
T ss_dssp             EECCSSCCCCC
T ss_pred             ccccccccccc
Confidence            99988777643

>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=97.71  E-value=1.7e-05  Score=61.90  Aligned_cols=65  Identities=15%  Similarity=0.053  Sum_probs=47.2

Q ss_pred             CCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCc-cCCccccccccCCEEeeCCCCcc-cCC
Q 044539          147 HFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLI-RYPSEVENLFLLRYLNLNIPSLK-SLL  217 (217)
Q Consensus       147 ~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~-~lP~~I~~L~~LryL~L~~t~i~-~L~  217 (217)
                      ..+ .++.+.+.++...    ..+ ..+..++.|++|+|+++++. .+|+.+++|++|++|+|++++++ .+|
T Consensus       219 ~~~-~l~~l~~~~~~l~----~~~-~~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls~N~l~g~iP  285 (313)
T d1ogqa_         219 SDK-NTQKIHLAKNSLA----FDL-GKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIP  285 (313)
T ss_dssp             TTS-CCSEEECCSSEEC----CBG-GGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEEECC
T ss_pred             ccc-ccccccccccccc----ccc-cccccccccccccCccCeecccCChHHhCCCCCCEEECcCCcccccCC
Confidence            344 5666555443321    122 55778889999999999987 89999999999999999998876 444

>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=97.69  E-value=4.1e-05  Score=56.34  Aligned_cols=39  Identities=18%  Similarity=0.118  Sum_probs=19.7

Q ss_pred             hcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCc
Q 044539          174 CKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSL  213 (217)
Q Consensus       174 ~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i  213 (217)
                      ++.+++|++|+++++.++.+| .++.+++|++|+++++.+
T Consensus        86 ~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~l~~~~~  124 (210)
T d1h6ta2          86 LANLKNLGWLFLDENKVKDLS-SLKDLKKLKSLSLEHNGI  124 (210)
T ss_dssp             GTTCTTCCEEECCSSCCCCGG-GGTTCTTCCEEECTTSCC
T ss_pred             cccCccccccccccccccccc-cccccccccccccccccc
Confidence            344555555555555555444 345555555555555443

>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=97.63  E-value=6.1e-05  Score=59.75  Aligned_cols=43  Identities=14%  Similarity=0.129  Sum_probs=31.8

Q ss_pred             hhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccC
Q 044539          173 ICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       173 ~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L  216 (217)
                      .+..+++|+.|+|++|.++.+| .+++|++|++|++++|+++.+
T Consensus       324 ~l~~l~~L~~L~L~~n~l~~l~-~l~~l~~L~~L~l~~N~l~~l  366 (384)
T d2omza2         324 PVSSLTKLQRLFFANNKVSDVS-SLANLTNINWLSAGHNQISDL  366 (384)
T ss_dssp             GGGGCTTCCEEECCSSCCCCCG-GGGGCTTCCEEECCSSCCCBC
T ss_pred             ccccCCCCCEEECCCCCCCCCh-hHcCCCCCCEEECCCCcCCCC
Confidence            3667777888888877777765 577778888888877777654

>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=97.62  E-value=7e-05  Score=55.02  Aligned_cols=44  Identities=18%  Similarity=0.176  Sum_probs=31.7

Q ss_pred             hhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccC
Q 044539          172 KICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L  216 (217)
                      ..+.++++|++++++++.+..+|+ +++|.+|+.|+|++|.|+.+
T Consensus       150 ~~~~~l~~L~~l~l~~n~l~~i~~-l~~l~~L~~L~Ls~N~i~~l  193 (210)
T d1h6ta2         150 TVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNHISDL  193 (210)
T ss_dssp             GGGGGCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCBC
T ss_pred             cccccccccccccccccccccccc-ccCCCCCCEEECCCCCCCCC
Confidence            345667777788887777776653 77778888888887777655

>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=97.61  E-value=5.8e-05  Score=55.99  Aligned_cols=76  Identities=12%  Similarity=-0.009  Sum_probs=59.1

Q ss_pred             CCceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCE
Q 044539          127 RENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRY  205 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lry  205 (217)
                      ....+++.+..+... ......++ +|+.|.+.++.-.    .+  ..++++++|+.|+|++|+++.+|+ ++++++|++
T Consensus       150 ~~~L~~L~l~~n~~~~~~~l~~l~-~L~~L~Ls~n~l~----~l--~~l~~l~~L~~L~Ls~N~lt~i~~-l~~l~~L~~  221 (227)
T d1h6ua2         150 LTNLQYLSIGNAQVSDLTPLANLS-KLTTLKADDNKIS----DI--SPLASLPNLIEVHLKNNQISDVSP-LANTSNLFI  221 (227)
T ss_dssp             CTTCCEEECCSSCCCCCGGGTTCT-TCCEEECCSSCCC----CC--GGGGGCTTCCEEECTTSCCCBCGG-GTTCTTCCE
T ss_pred             ccccccccccccccccchhhcccc-cceecccCCCccC----CC--hhhcCCCCCCEEECcCCcCCCCcc-cccCCCCCE
Confidence            344677777666543 44567889 9999999876432    23  458899999999999999999984 999999999


Q ss_pred             EeeCC
Q 044539          206 LNLNI  210 (217)
Q Consensus       206 L~L~~  210 (217)
                      |++++
T Consensus       222 L~lsn  226 (227)
T d1h6ua2         222 VTLTN  226 (227)
T ss_dssp             EEEEE
T ss_pred             EEeeC
Confidence            99963

>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=97.60  E-value=2.7e-05  Score=56.82  Aligned_cols=80  Identities=13%  Similarity=0.021  Sum_probs=62.0

Q ss_pred             CceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEE
Q 044539          128 ENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYL  206 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL  206 (217)
                      .+++.+.+...... +.....++ +|++|.+.++.-.    .+  ..++++++|+.|+++++.+..+|. ++.+.+|++|
T Consensus        40 ~~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          40 DQVTTLQADRLGIKSIDGVEYLN-NLTQINFSNNQLT----DI--TPLKNLTKLVDILMNNNQIADITP-LANLTNLTGL  111 (199)
T ss_dssp             TTCCEEECTTSCCCCCTTGGGCT-TCCEEECCSSCCC----CC--GGGTTCTTCCEEECCSSCCCCCGG-GTTCTTCSEE
T ss_pred             cCCCEEECCCCCCCCccccccCC-CcCcCcccccccc----Cc--ccccCCcccccccccccccccccc-cccccccccc
Confidence            56777877766544 44566788 9999999876532    23  348899999999999999888874 8999999999


Q ss_pred             eeCCCCccc
Q 044539          207 NLNIPSLKS  215 (217)
Q Consensus       207 ~L~~t~i~~  215 (217)
                      +++++.+..
T Consensus       112 ~l~~~~~~~  120 (199)
T d2omxa2         112 TLFNNQITD  120 (199)
T ss_dssp             ECCSSCCCC
T ss_pred             ccccccccc
Confidence            999887654

>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=97.58  E-value=4.7e-05  Score=58.96  Aligned_cols=82  Identities=13%  Similarity=0.074  Sum_probs=38.3

Q ss_pred             CCceeEEEEeCCCCc-cc--cccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccC
Q 044539          127 RENVKRFTAHGNLND-FE--FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLL  203 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~--~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~L  203 (217)
                      +..+++|.+..+... ++  .+..++ +|++|.+.++...   ...+ ..|.+++.|++|++++++++.+|....  .+|
T Consensus        30 ~~~l~~L~Ls~N~i~~l~~~~f~~l~-~L~~L~l~~n~~~---~i~~-~~f~~l~~L~~L~l~~n~l~~l~~~~~--~~l  102 (305)
T d1xkua_          30 PPDTALLDLQNNKITEIKDGDFKNLK-NLHTLILINNKIS---KISP-GAFAPLVKLERLYLSKNQLKELPEKMP--KTL  102 (305)
T ss_dssp             CTTCCEEECCSSCCCCBCTTTTTTCT-TCCEEECCSSCCC---CBCT-TTTTTCTTCCEEECCSSCCSBCCSSCC--TTC
T ss_pred             CCCCCEEECcCCcCCCcChhHhhccc-ccccccccccccc---ccch-hhhhCCCccCEecccCCccCcCccchh--hhh
Confidence            344555555554432 21  233445 5555555444321   1223 445555555555555555555554322  345


Q ss_pred             CEEeeCCCCccc
Q 044539          204 RYLNLNIPSLKS  215 (217)
Q Consensus       204 ryL~L~~t~i~~  215 (217)
                      +.|.+..+.+..
T Consensus       103 ~~L~~~~n~l~~  114 (305)
T d1xkua_         103 QELRVHENEITK  114 (305)
T ss_dssp             CEEECCSSCCCB
T ss_pred             hhhhccccchhh
Confidence            555555544443

>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=97.28  E-value=1.3e-05  Score=58.69  Aligned_cols=65  Identities=18%  Similarity=0.106  Sum_probs=47.9

Q ss_pred             ccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccC
Q 044539          145 LDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       145 ~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L  216 (217)
                      ...++ +|+.|.+.++.-.    .+  ..+.++++|++|+|++|.+..+|...+.+.+|++|+++++.|+.+
T Consensus        44 l~~L~-~L~~L~Ls~n~I~----~i--~~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N~i~~l  108 (198)
T d1m9la_          44 LSTLK-ACKHLALSTNNIE----KI--SSLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASL  108 (198)
T ss_dssp             HHHTT-TCCEEECSEEEES----CC--CCHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEECCCH
T ss_pred             Hhccc-ccceeECcccCCC----Cc--ccccCCccccChhhccccccccccccccccccccccccccccccc
Confidence            55677 8888887655432    22  347788888899998888888887666777888888888877653

>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=97.27  E-value=0.00028  Score=53.90  Aligned_cols=44  Identities=20%  Similarity=0.113  Sum_probs=20.4

Q ss_pred             hhhcCCCceeEEEeCCCCCcc-CCccccccccCCEEeeCCCCccc
Q 044539          172 KICKMFNFLRVLDLGSLVLIR-YPSEVENLFLLRYLNLNIPSLKS  215 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~-lP~~I~~L~~LryL~L~~t~i~~  215 (217)
                      ..|.+++.|++|++.++.+.. .|..++.+.+|++|+++++.+..
T Consensus       171 ~~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i~~  215 (284)
T d1ozna_         171 RAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSA  215 (284)
T ss_dssp             TTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSC
T ss_pred             hhhccccccchhhhhhccccccChhHhhhhhhccccccccccccc
Confidence            344444455555555444332 23444444555555555444443

>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=97.25  E-value=0.00018  Score=55.98  Aligned_cols=58  Identities=16%  Similarity=-0.052  Sum_probs=41.1

Q ss_pred             CCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCEEeeCCCCcccCC
Q 044539          148 FDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       148 ~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~LryL~L~~t~i~~L~  217 (217)
                      ++ .|++|.+.++.-.    .+|    ..+.+|+.|+|++++++.+|+.   +.+|++|+|++|+++++|
T Consensus       283 ~~-~L~~L~Ls~N~l~----~lp----~~~~~L~~L~L~~N~L~~l~~~---~~~L~~L~L~~N~L~~lp  340 (353)
T d1jl5a_         283 PP-SLEELNVSNNKLI----ELP----ALPPRLERLIASFNHLAEVPEL---PQNLKQLHVEYNPLREFP  340 (353)
T ss_dssp             CT-TCCEEECCSSCCS----CCC----CCCTTCCEEECCSSCCSCCCCC---CTTCCEEECCSSCCSSCC
T ss_pred             CC-CCCEEECCCCccC----ccc----cccCCCCEEECCCCcCCccccc---cCCCCEEECcCCcCCCCC
Confidence            45 7777777665421    222    2356788888888888888853   457889999999988876

>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=96.95  E-value=0.00075  Score=51.40  Aligned_cols=82  Identities=22%  Similarity=0.137  Sum_probs=58.6

Q ss_pred             CceeEEEEeCCCCc-c--ccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCC-ccccccccC
Q 044539          128 ENVKRFTAHGNLND-F--EFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYP-SEVENLFLL  203 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-~--~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP-~~I~~L~~L  203 (217)
                      .+.+++.+..+... .  .....++ .|+.+.+.++..   ....+ ..|.++++|..||++++.+..+| +.++.+.+|
T Consensus       153 ~~L~~L~l~~N~l~~l~~~~f~~l~-~L~~l~l~~N~l---~~i~~-~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L  227 (284)
T d1ozna_         153 GNLTHLFLHGNRISSVPERAFRGLH-SLDRLLLHQNRV---AHVHP-HAFRDLGRLMTLYLFANNLSALPTEALAPLRAL  227 (284)
T ss_dssp             TTCCEEECCSSCCCEECTTTTTTCT-TCCEEECCSSCC---CEECT-TTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTC
T ss_pred             cchhhcccccCcccccchhhhcccc-ccchhhhhhccc---cccCh-hHhhhhhhccccccccccccccccccccccccc
Confidence            34566666655543 1  2244566 777776665543   23445 78999999999999999988777 568899999


Q ss_pred             CEEeeCCCCcc
Q 044539          204 RYLNLNIPSLK  214 (217)
Q Consensus       204 ryL~L~~t~i~  214 (217)
                      ++|+|+++.+.
T Consensus       228 ~~L~l~~N~l~  238 (284)
T d1ozna_         228 QYLRLNDNPWV  238 (284)
T ss_dssp             CEEECCSSCEE
T ss_pred             CEEEecCCCCC
Confidence            99999987653

>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=96.87  E-value=6.4e-05  Score=53.08  Aligned_cols=65  Identities=20%  Similarity=0.014  Sum_probs=40.8

Q ss_pred             CCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCc-cccccccCCEEeeCCCCcc
Q 044539          147 HFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPS-EVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       147 ~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~-~I~~L~~LryL~L~~t~i~  214 (217)
                      .++ .|++|.+.++.-. ....+. ..+.++++|+.|+|+++.+..+++ ......+|+.|+++++.+.
T Consensus        63 ~~~-~L~~L~Ls~N~i~-~l~~~~-~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~  128 (162)
T d1koha1          63 NIP-ELLSLNLSNNRLY-RLDDMS-SIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLS  128 (162)
T ss_dssp             HCT-TCCCCCCCSSCCC-CCSGGG-THHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTS
T ss_pred             hCC-CCCEeeCCCcccc-CCchhH-HHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcC
Confidence            467 7777777776543 112223 456677788888888888776664 1122346777888877664

>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=96.83  E-value=0.0014  Score=50.60  Aligned_cols=78  Identities=21%  Similarity=0.199  Sum_probs=56.0

Q ss_pred             CCceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCE
Q 044539          127 RENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRY  205 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lry  205 (217)
                      +...+.+.+..+... ++.  ... +|+.|.+.++...    .++ .   -.+.|++|+|+++.+..+|. ++.+.+||+
T Consensus        57 ~~~L~~L~Ls~N~l~~lp~--~~~-~L~~L~l~~n~l~----~l~-~---lp~~L~~L~L~~n~l~~lp~-~~~l~~L~~  124 (353)
T d1jl5a_          57 PPHLESLVASCNSLTELPE--LPQ-SLKSLLVDNNNLK----ALS-D---LPPLLEYLGVSNNQLEKLPE-LQNSSFLKI  124 (353)
T ss_dssp             CTTCSEEECCSSCCSSCCC--CCT-TCCEEECCSSCCS----CCC-S---CCTTCCEEECCSSCCSSCCC-CTTCTTCCE
T ss_pred             CCCCCEEECCCCCCccccc--chh-hhhhhhhhhcccc----hhh-h---hccccccccccccccccccc-hhhhcccee
Confidence            456788888766544 322  246 8999988776542    111 1   12469999999999999985 789999999


Q ss_pred             EeeCCCCcccC
Q 044539          206 LNLNIPSLKSL  216 (217)
Q Consensus       206 L~L~~t~i~~L  216 (217)
                      |+++++.+...
T Consensus       125 L~l~~~~~~~~  135 (353)
T d1jl5a_         125 IDVDNNSLKKL  135 (353)
T ss_dssp             EECCSSCCSCC
T ss_pred             ecccccccccc
Confidence            99999877643

>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=96.79  E-value=0.0011  Score=49.10  Aligned_cols=44  Identities=27%  Similarity=0.202  Sum_probs=30.8

Q ss_pred             hhhcCCCceeEEEeCCCCCccCCc-cccccccCCEEeeCCCCcccCC
Q 044539          172 KICKMFNFLRVLDLGSLVLIRYPS-EVENLFLLRYLNLNIPSLKSLL  217 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~lP~-~I~~L~~LryL~L~~t~i~~L~  217 (217)
                      ..|.++++|++|+|++++++.+|. .+.+|.+|++|+++.  +++||
T Consensus       195 ~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~l~~~~--l~~lp  239 (242)
T d1xwdc1         195 DVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARSTYN--LKKLP  239 (242)
T ss_dssp             TTTTTSCCCSEEECTTSCCCCCCSSSCTTCCEEESSSEES--SSCSC
T ss_pred             HHhcCCCCCCEEECCCCcCCccCHHHHcCCcccccCcCCC--CCcCC
Confidence            557778888888888888877765 356777777777654  44554

>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=96.72  E-value=4e-05  Score=56.03  Aligned_cols=83  Identities=14%  Similarity=0.057  Sum_probs=61.7

Q ss_pred             CCceeEEEEeCCCCc-cccccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCCCccCCccccccccCCE
Q 044539          127 RENVKRFTAHGNLND-FEFLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLVLIRYPSEVENLFLLRY  205 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~i~~lP~~I~~L~~Lry  205 (217)
                      ..+.+++.+..+... +.....++ +|++|.+.++.-.    .++ .....+..|+.|+++++.+..++ .+..+++|++
T Consensus        47 L~~L~~L~Ls~n~I~~i~~l~~l~-~L~~L~Ls~N~i~----~i~-~~~~~~~~L~~L~l~~N~i~~l~-~~~~l~~L~~  119 (198)
T d1m9la_          47 LKACKHLALSTNNIEKISSLSGME-NLRILSLGRNLIK----KIE-NLDAVADTLEELWISYNQIASLS-GIEKLVNLRV  119 (198)
T ss_dssp             TTTCCEEECSEEEESCCCCHHHHT-TCCEEECCEEEEC----SCS-SHHHHHHHCCEEECSEEECCCHH-HHHHHHHSSE
T ss_pred             ccccceeECcccCCCCcccccCCc-cccChhhcccccc----ccc-ccccccccccccccccccccccc-cccccccccc
Confidence            456777877665543 44566788 9999998776432    233 44555678999999999988775 5899999999


Q ss_pred             EeeCCCCcccC
Q 044539          206 LNLNIPSLKSL  216 (217)
Q Consensus       206 L~L~~t~i~~L  216 (217)
                      |+++++.|+.+
T Consensus       120 L~L~~N~i~~~  130 (198)
T d1m9la_         120 LYMSNNKITNW  130 (198)
T ss_dssp             EEESEEECCCH
T ss_pred             cccccchhccc
Confidence            99999887653

>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=96.41  E-value=0.0021  Score=49.02  Aligned_cols=80  Identities=15%  Similarity=0.095  Sum_probs=49.0

Q ss_pred             CceeEEEEeCCCCc-----ccc-ccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCC-Cc-cCCccccc
Q 044539          128 ENVKRFTAHGNLND-----FEF-LDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLV-LI-RYPSEVEN  199 (217)
Q Consensus       128 ~~~r~ls~~~~~~~-----~~~-~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~-i~-~lP~~I~~  199 (217)
                      ...+++.+......     +.. ...++ +|+.|.+.++..-  ..... ..+.++++|+.|+|++|. ++ .-+..+++
T Consensus       148 ~~L~~L~l~~~~~~i~~~~l~~l~~~~~-~L~~L~L~~~~~i--td~~~-~~l~~~~~L~~L~L~~C~~i~~~~l~~L~~  223 (284)
T d2astb2         148 ETITQLNLSGYRKNLQKSDLSTLVRRCP-NLVHLDLSDSVML--KNDCF-QEFFQLNYLQHLSLSRCYDIIPETLLELGE  223 (284)
T ss_dssp             TTCCEEECCSCGGGSCHHHHHHHHHHCT-TCSEEECTTCTTC--CGGGG-GGGGGCTTCCEEECTTCTTCCGGGGGGGGG
T ss_pred             cccchhhhcccccccccccccccccccc-cccccccccccCC--Cchhh-hhhcccCcCCEEECCCCCCCChHHHHHHhc
Confidence            45666666543211     111 23567 8888887665431  11122 556778888888888875 54 34456778


Q ss_pred             cccCCEEeeCCC
Q 044539          200 LFLLRYLNLNIP  211 (217)
Q Consensus       200 L~~LryL~L~~t  211 (217)
                      +++|++|+++++
T Consensus       224 ~~~L~~L~l~~~  235 (284)
T d2astb2         224 IPTLKTLQVFGI  235 (284)
T ss_dssp             CTTCCEEECTTS
T ss_pred             CCCCCEEeeeCC
Confidence            888888888876

>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=96.41  E-value=0.0066  Score=44.53  Aligned_cols=86  Identities=15%  Similarity=0.102  Sum_probs=55.6

Q ss_pred             CCceeEEEEeCCCCc-cc--cccCCCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCC-CCc-cCCccccccc
Q 044539          127 RENVKRFTAHGNLND-FE--FLDHFDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSL-VLI-RYPSEVENLF  201 (217)
Q Consensus       127 ~~~~r~ls~~~~~~~-~~--~~~~~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~-~i~-~lP~~I~~L~  201 (217)
                      +..++.+.+..+... ++  .+.+++ +|++|.+.++...  ....+ ..|..+..++.|++..+ .+. ..|..+..++
T Consensus        28 ~~~l~~L~Ls~n~i~~l~~~~f~~l~-~L~~L~ls~n~~~--~~i~~-~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~  103 (242)
T d1xwdc1          28 PRNAIELRFVLTKLRVIQKGAFSGFG-DLEKIEISQNDVL--EVIEA-DVFSNLPKLHEIRIEKANNLLYINPEAFQNLP  103 (242)
T ss_dssp             CSCCSEEEEESCCCCEECTTTTTTCT-TCCEEEEESCTTC--CEECS-SSEESCTTCCEEEEECCTTCCEECTTSEECCT
T ss_pred             CCCCCEEECcCCcCCccChhHhhccc-hhhhhhhcccccc--ceeec-cccccccccccccccccccccccccccccccc
Confidence            456788888876654 22  256788 8999988776532  11222 45667777777776543 344 3445567788


Q ss_pred             cCCEEeeCCCCcccC
Q 044539          202 LLRYLNLNIPSLKSL  216 (217)
Q Consensus       202 ~LryL~L~~t~i~~L  216 (217)
                      +|++|+++++.++..
T Consensus       104 ~L~~l~l~~~~l~~~  118 (242)
T d1xwdc1         104 NLQYLLISNTGIKHL  118 (242)
T ss_dssp             TCCEEEEESCCCCSC
T ss_pred             cccccccchhhhccc
Confidence            888888888776543

>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=0.0003  Score=49.39  Aligned_cols=44  Identities=34%  Similarity=0.216  Sum_probs=26.6

Q ss_pred             hhcCCCceeEEEeCCCCCccCC---ccccccccCCEEeeCCCCcccC
Q 044539          173 ICKMFNFLRVLDLGSLVLIRYP---SEVENLFLLRYLNLNIPSLKSL  216 (217)
Q Consensus       173 ~~~~l~~LrvLdL~~~~i~~lP---~~I~~L~~LryL~L~~t~i~~L  216 (217)
                      .+.+++.|++|+|+++.|+.++   ..++.+++|++|+|+++.|+.+
T Consensus        60 ~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l  106 (162)
T d1koha1          60 IEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSE  106 (162)
T ss_dssp             HHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCG
T ss_pred             HHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccc
Confidence            3445666666666666665442   3455666666666666666553

>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=96.25  E-value=0.0011  Score=50.66  Aligned_cols=65  Identities=18%  Similarity=0.104  Sum_probs=46.1

Q ss_pred             CCCCeeEEEEeCCCCCCCCcccchhhhcCCCceeEEEeCCCC-Cc-cCCccccccccCCEEeeCCC-Ccc
Q 044539          148 FDSFLHSLLHLTLGSHYLDPNYCEKICKMFNFLRVLDLGSLV-LI-RYPSEVENLFLLRYLNLNIP-SLK  214 (217)
Q Consensus       148 ~~~~LrsL~~~~~~~~~~~~~l~~~~~~~l~~LrvLdL~~~~-i~-~lP~~I~~L~~LryL~L~~t-~i~  214 (217)
                      .+ .++.|.+.+.........+. ....++++|+.|+|++|. ++ ..+..++++++||+|+|++| .|+
T Consensus       147 ~~-~L~~L~l~~~~~~i~~~~l~-~l~~~~~~L~~L~L~~~~~itd~~~~~l~~~~~L~~L~L~~C~~i~  214 (284)
T d2astb2         147 SE-TITQLNLSGYRKNLQKSDLS-TLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDII  214 (284)
T ss_dssp             CT-TCCEEECCSCGGGSCHHHHH-HHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCC
T ss_pred             cc-ccchhhhccccccccccccc-ccccccccccccccccccCCCchhhhhhcccCcCCEEECCCCCCCC
Confidence            45 77777776543211112233 456778999999999976 55 67788999999999999996 353

>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=95.24  E-value=0.0023  Score=51.14  Aligned_cols=84  Identities=13%  Similarity=0.033  Sum_probs=53.0

Q ss_pred             eeEEEEeCCCCc---c-ccccCCCCCeeEEEEeCCCCCC-CCcccchhhhcCCCceeEEEeCCCCCcc-----CCccccc
Q 044539          130 VKRFTAHGNLND---F-EFLDHFDSFLHSLLHLTLGSHY-LDPNYCEKICKMFNFLRVLDLGSLVLIR-----YPSEVEN  199 (217)
Q Consensus       130 ~r~ls~~~~~~~---~-~~~~~~~~~LrsL~~~~~~~~~-~~~~l~~~~~~~l~~LrvLdL~~~~i~~-----lP~~I~~  199 (217)
                      ...+-+.++...   + .-...++ ++|+|.+.++.-.. ....+. ..+...+.|+.|||+++.+..     +.+.+..
T Consensus         4 l~~ld~~~~~i~~~~~~~l~~~l~-~l~~L~L~~~~i~~~~~~~l~-~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~   81 (460)
T d1z7xw1           4 IQSLDIQCEELSDARWAELLPLLQ-QCQVVRLDDCGLTEARCKDIS-SALRVNPALAELNLRSNELGDVGVHCVLQGLQT   81 (460)
T ss_dssp             EEEEEEESCCCCHHHHHHHHHHHT-TCSEEEEESSCCCHHHHHHHH-HHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCS
T ss_pred             CCEEEeeCCcCChHHHHHHHHhCC-CCCEEEeCCCCCCHHHHHHHH-HHHhcCCCCCEEECcCCcCChHHHHHHHHHHhc
Confidence            345556655543   1 1244567 99999998875320 011233 557889999999999988752     2222222


Q ss_pred             -cccCCEEeeCCCCccc
Q 044539          200 -LFLLRYLNLNIPSLKS  215 (217)
Q Consensus       200 -L~~LryL~L~~t~i~~  215 (217)
                       ..+|++|+|++|+|+.
T Consensus        82 ~~~~L~~L~L~~n~it~   98 (460)
T d1z7xw1          82 PSCKIQKLSLQNCCLTG   98 (460)
T ss_dssp             TTCCCCEEECTTSCCBG
T ss_pred             CCCCCCEEECCCCCccc
Confidence             2479999999998863

>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=91.04  E-value=0.047  Score=42.06  Aligned_cols=43  Identities=21%  Similarity=0.174  Sum_probs=21.2

Q ss_pred             hhhcCCCceeEEEeCCCCCcc-----CCccccc--cccCCEEeeCCCCcc
Q 044539          172 KICKMFNFLRVLDLGSLVLIR-----YPSEVEN--LFLLRYLNLNIPSLK  214 (217)
Q Consensus       172 ~~~~~l~~LrvLdL~~~~i~~-----lP~~I~~--L~~LryL~L~~t~i~  214 (217)
                      ..+...++|+.|+|++|.+..     +-+.+..  -..|+.|+++++.|.
T Consensus       237 ~~l~~~~~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~  286 (344)
T d2ca6a1         237 IALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIE  286 (344)
T ss_dssp             HHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCB
T ss_pred             ccccccccchhhhhhcCccCchhhHHHHHHhhhccCCCCCEEECCCCcCC
Confidence            344555666666666665431     1122222  234666666665553

>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=89.59  E-value=0.063  Score=42.27  Aligned_cols=39  Identities=26%  Similarity=0.138  Sum_probs=25.9

Q ss_pred             CCCceeEEEeCCCCCc-----cCCccccccccCCEEeeCCCCcc
Q 044539          176 MFNFLRVLDLGSLVLI-----RYPSEVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       176 ~l~~LrvLdL~~~~i~-----~lP~~I~~L~~LryL~L~~t~i~  214 (217)
                      ..+.|++|+|++|.+.     .+++.+...+.|++|+|+++.|+
T Consensus       367 ~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~N~i~  410 (460)
T d1z7xw1         367 PGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLG  410 (460)
T ss_dssp             TTCCCCEEECTTSCCCHHHHHHHHHHHHHCCCCCEEECCSSSCC
T ss_pred             ccCCCCEEECCCCCCChHHHHHHHHHHhcCCCCCEEECCCCcCC
Confidence            3456777777777764     24455666677777777777664

>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=88.16  E-value=0.083  Score=36.41  Aligned_cols=39  Identities=5%  Similarity=-0.109  Sum_probs=18.8

Q ss_pred             hhcCCCceeEEEeCCCCCcc--------CCccccccccCCEEeeCCC
Q 044539          173 ICKMFNFLRVLDLGSLVLIR--------YPSEVENLFLLRYLNLNIP  211 (217)
Q Consensus       173 ~~~~l~~LrvLdL~~~~i~~--------lP~~I~~L~~LryL~L~~t  211 (217)
                      .+..-+.|+.|+|+++.+..        +.+.+..-+.|+.|+++.+
T Consensus        95 aL~~n~sL~~L~l~~n~~~~~g~~~~~~l~~~L~~n~sL~~l~l~~~  141 (167)
T d1pgva_          95 STLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFA  141 (167)
T ss_dssp             HTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             HHHhCCcCCEEECCCCcCCCccHHHHHHHHHHHHhCCCccEeeCcCC
Confidence            44555556666665544322        2223333445555655544

>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=87.52  E-value=0.12  Score=35.53  Aligned_cols=85  Identities=11%  Similarity=-0.008  Sum_probs=53.6

Q ss_pred             CceeEEEEeCC-CCc-------cccccCCCCCeeEEEEeCCCCCC-CCcccchhhhcCCCceeEEEeCCCCCc-----cC
Q 044539          128 ENVKRFTAHGN-LND-------FEFLDHFDSFLHSLLHLTLGSHY-LDPNYCEKICKMFNFLRVLDLGSLVLI-----RY  193 (217)
Q Consensus       128 ~~~r~ls~~~~-~~~-------~~~~~~~~~~LrsL~~~~~~~~~-~~~~l~~~~~~~l~~LrvLdL~~~~i~-----~l  193 (217)
                      ...+.+.+... ...       .......+ .+++|.+.++.-.. ....+. ..+...+.|+.|+|++|.+.     .+
T Consensus        15 ~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~-~L~~L~Ls~n~l~~~~~~~la-~~L~~n~~L~~L~L~~n~i~~~g~~~l   92 (167)
T d1pgva_          15 TDLKEVNINNMKRVSKERIRSLIEAACNSK-HIEKFSLANTAISDSEARGLI-ELIETSPSLRVLNVESNFLTPELLARL   92 (167)
T ss_dssp             SSCCEEECTTCCSSCHHHHHHHHHHHTTCS-CCCEEECTTSCCBHHHHTTHH-HHHHHCSSCCEEECCSSBCCHHHHHHH
T ss_pred             CCCcEEEeCCCCCCCHHHHHHHHHHHhhCC-ccceeeccccccchhHHHHHh-hhhhhcccccceeeehhhcchHHHHHH
Confidence            44566666542 222       22344567 89999887654321 111233 56677888999999998865     24


Q ss_pred             CccccccccCCEEeeCCCCcc
Q 044539          194 PSEVENLFLLRYLNLNIPSLK  214 (217)
Q Consensus       194 P~~I~~L~~LryL~L~~t~i~  214 (217)
                      -..+..-+.|++|+|+++.+.
T Consensus        93 ~~aL~~n~sL~~L~l~~n~~~  113 (167)
T d1pgva_          93 LRSTLVTQSIVEFKADNQRQS  113 (167)
T ss_dssp             HHHTTTTCCCSEEECCCCSSC
T ss_pred             HHHHHhCCcCCEEECCCCcCC
Confidence            445666678999999877544

>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=82.67  E-value=0.27  Score=33.46  Aligned_cols=63  Identities=14%  Similarity=0.135  Sum_probs=39.1

Q ss_pred             ccCCCCCeeEEEEeCCCCCC-CCcccchhhhcCCCceeEEEeCCCCCc-----cCCccccccccCCEEeeC
Q 044539          145 LDHFDSFLHSLLHLTLGSHY-LDPNYCEKICKMFNFLRVLDLGSLVLI-----RYPSEVENLFLLRYLNLN  209 (217)
Q Consensus       145 ~~~~~~~LrsL~~~~~~~~~-~~~~l~~~~~~~l~~LrvLdL~~~~i~-----~lP~~I~~L~~LryL~L~  209 (217)
                      ....+ +++.|.+.++.-.. ....+. ..++..+.|+.|+++++.+.     .+-+.+...+.|+.++|.
T Consensus        42 l~~n~-~L~~L~Ls~n~l~~~~~~~L~-~~l~~~~~l~~l~l~~~~~~~~g~~~l~~~l~~~~~L~~l~L~  110 (166)
T d1io0a_          42 LKTNT-YVKKFSIVGTRSNDPVAFALA-EMLKVNNTLKSLNVESNFISGSGILALVEALQSNTSLIELRID  110 (166)
T ss_dssp             HTTCC-SCCEEECTTSCCCHHHHHHHH-HHHHHCSSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECC
T ss_pred             HhcCC-ccCeeeccCCcccHHHHHHHH-HHHhhcccchhhhhccccccchhHHHHHHHHHhCccccEEeec
Confidence            44567 88888877664321 111233 55667778888888887753     455666777778765554

>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=81.47  E-value=0.29  Score=37.28  Aligned_cols=17  Identities=18%  Similarity=-0.084  Sum_probs=8.3

Q ss_pred             hhcCCCceeEEEeCCCC
Q 044539          173 ICKMFNFLRVLDLGSLV  189 (217)
Q Consensus       173 ~~~~l~~LrvLdL~~~~  189 (217)
                      .+...+.|+.|+++++.
T Consensus       116 ~l~~~~~L~~L~l~~n~  132 (344)
T d2ca6a1         116 FLSKHTPLEHLYLHNNG  132 (344)
T ss_dssp             HHHHCTTCCEEECCSSC
T ss_pred             hhcccccchheeccccc
Confidence            33444555555555544