Citrus Sinensis ID: 044247

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330---
Protein Sequence
IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHILQERNREETGEDWPMIRHIPDIYIP
Secondary Structure (PSIPRED)
cccccHHHHccccccEEEcccccccccccHHHcccccccEEEcccccccccccccccccccccccccEEEEcccccccccHHHHccccccEEEEccccccccHHHHHHHHccccccccEEEEEEEccccccccccccccccHHHHHHHHHcccccccccEEEEEEEcccccccccccccccccccEEEEEcccccccccccccccccccEEEccccccEEEcccccccccccccccccccccccEEEcccccccccccccccccccccccccccEEEEccccccccccccccccccccEEEEEcccHHHHHHcccccccccccccccccEEcc
Secondary Structure Prediction (SSPRO)
cccccHHHHHcHccEEEEccccccHHHccHHHcccccccEEEEcccccHcccccccccccHHcEccEEEccccccccccHHHHcccHHccEEEEcccccccccHHHHHccccccccccEEEEEccccccccccHHHHcccccccHHHHHHHccccccccEEEEEccccccccccccHcccccccEEEEEcccccccccccccccccccEEEEcccccccEccHHHcccccccccccccccccccEEEEcccHcHHHccccccccccccccccccEEEEcccccHccccccccccccccEEEEcccHHHHHHHHcccccccccccccccEEEcc
Coil and Loop (DISEMBL)
IEKLPETLCELynlervnvsgcshlrelpQGIGKLRKLMyldndytdslrylpvGIGELIRLRRVTKFVVCggydracslgslkklNLLRQCsidglggvsdaGEARRAELEKKKNlfdleldfdnlrdgdeeqagrreneedederlldalgpppnlkelhiheyrgrrnvvpknwvmSLTNLRVLHLFecrncehlpplgkltsleDLYIAGMKSVKRVGNEflgvesdtdgssviafpklkrlRFWSMSELeewdlgtaikgeiiimprlsslsiQSCRELKALPDHLLQKSTLQNLEIWGACHIlqernreetgedwpmirhipdiyip
Flexible Loop (DISEMBL)
IEKLPETLCELYnlervnvsgcshlrelpQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRacslgslkklNLLRQCSIDGLGGVSDAGEARRAELEkkknlfdleldfdnlrdgdeeqagrreneedederlldalgpppnlkelhiheyrgrrnvvpknWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLgvesdtdgssviafpklkRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHILQErnreetgedwpmirhipdiyip
Low Complexity Region (SEG)
IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAelekkknlfdleldfdnlRDGDEEQAGrreneedederlldalGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHILQERNREETGEDWPMIRHIPDIYIP
Disordered region (IsUnstruct)
******TLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGV***********************************************************ELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHILQERNR**TGEDWPMIRHIPDIY**
Disordered Region (DISOPRED)
IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDE*********EDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHILQERNREETGEDWPMIRHIPDIYIP
Disordered Region (DISEMBL)
IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGD****************LLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHILQERNREETGEDWPMIRHIPDIYIP
Disordered Region (DISPRO)
IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHILQERNREETGEDWPMIRHIPDIYIP
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHILQERNREETGEDWPMIRHIPDIYIP
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	333	2.2.26 [Sep-21-2011]
Q9LRR4	1054	Putative disease resistan	yes	no	0.903	0.285	0.312	1e-27
Q9LRR5	1424	Putative disease resistan	no	no	0.831	0.194	0.328	4e-21
Q7XBQ9	970	Disease resistance protei	N/A	no	0.720	0.247	0.335	9e-21
Q7XA39	988	Putative disease resistan	N/A	no	0.696	0.234	0.345	1e-19
Q7XA40	992	Putative disease resistan	N/A	no	0.810	0.272	0.306	3e-18
Q7XA42	979	Putative disease resistan	N/A	no	0.687	0.233	0.307	4e-17
Q8W3K3	910	Putative disease resistan	no	no	0.852	0.312	0.269	1e-07
P0DI16	1017	Probable disease resistan	no	no	0.447	0.146	0.303	7e-07
F4IBE4	1017	Probable disease resistan	no	no	0.447	0.146	0.303	7e-07
Q38834	852	Disease resistance RPP13-	no	no	0.462	0.180	0.272	2e-06

>sp|Q9LRR4|R13L1_ARATH Putative disease resistance RPP13-like protein 1 OS=Arabidopsis thaliana GN=RPPL1 PE=3 SV=1

 Score =  124 bits (310), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 104/333 (31%), Positives = 156/333 (46%), Gaps = 32/333 (9%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
           +EKLP++LC +YNL+ + +S CS L+ELP  I  L  L YLD   T  LR +P   G L 
Sbjct: 614 LEKLPKSLCYMYNLQTLLLSYCSSLKELPTDISNLINLRYLDLIGT-KLRQMPRRFGRLK 672

Query: 61  RLRRVTKFVVCGG-YDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFD 119
            L+ +T F V      R   LG L  L+   +  I  L  V D  +A  A L  KK+L  
Sbjct: 673 SLQTLTTFFVSASDGSRISELGGLHDLH--GKLKIVELQRVVDVADAAEANLNSKKHL-- 728

Query: 120 LELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVM 179
            E+DF         +     +    +  + + L P  ++++L I  Y+GRR   P +W+ 
Sbjct: 729 REIDFVWRTGSSSSENNTNPHRTQNEAEVFEKLRPHRHIEKLAIERYKGRR--FP-DWLS 785

Query: 180 --SLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSV 237
             S + +  + L EC+ C  LP LG+L  L++L+I+GM  ++ +G +F   +        
Sbjct: 786 DPSFSRIVCIRLRECQYCTSLPSLGQLPCLKELHISGMVGLQSIGRKFYFSDQQLRDQDQ 845

Query: 238 IAFPKLKRLRFWSMSELEEW--------DLGTAIKGEIII------------MPRLSSLS 277
             F  L+ LRF ++ + +EW        DL  ++K   I+            +P L SL 
Sbjct: 846 QPFRSLETLRFDNLPDWQEWLDVRVTRGDLFPSLKKLFILRCPELTGTLPTFLPSLISLH 905

Query: 278 IQSCRELKALPDHL-LQKSTLQNLEIWGACHIL 309
           I  C  L   PDH       LQ L I  +C  L
Sbjct: 906 IYKCGLLDFQPDHHEYSYRNLQTLSIKSSCDTL 938

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

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

 Score =  102 bits (254), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 97/295 (32%), Positives = 143/295 (48%), Gaps = 18/295 (6%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
           I++LPE +C L NL+ + +S C  L  LP+ I +L  L  LD   T  L  +P GI +L 
Sbjct: 608 IKELPEFVCTLCNLQTLLLSNCRDLTSLPKSIAELINLRLLDLVGT-PLVEMPPGIKKLR 666

Query: 61  RLRRVTKFVVCGGYDRACSLGSLKKLNLLR-QCSIDGLGGVSDAGEARRAELEKKKNLFD 119
            L++++ FV+  G      L  LK+L+ LR    I  L  V+ A EA+ A L++K  L  
Sbjct: 667 SLQKLSNFVI--GRLSGAGLHELKELSHLRGTLRISELQNVAFASEAKDAGLKRKPFLDG 724

Query: 120 LELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWV- 178
           L L +     G     G       + + +L  L P P+LK   I  Y+G     PK W+ 
Sbjct: 725 LILKWT--VKGSGFVPGSFNALACDQKEVLRMLEPHPHLKTFCIESYQG--GAFPK-WLG 779

Query: 179 -MSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSV 237
             S   +  + L  C  C  LPP+G+L SL+ L I     +++VG +F   E+++ G   
Sbjct: 780 DSSFFGITSVTLSSCNLCISLPPVGQLPSLKYLSIEKFNILQKVGLDFFFGENNSRG--- 836

Query: 238 IAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCREL-KALPDHL 291
           + F  L+ L+F+ M   +EW       G   I P L  L IQ C  L K  P+ L
Sbjct: 837 VPFQSLQILKFYGMPRWDEWICPELEDG---IFPCLQKLIIQRCPSLRKKFPEGL 888

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  101 bits (251), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 90/268 (33%), Positives = 131/268 (48%), Gaps = 28/268 (10%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
           +  LP+ LC+L NL+ +++  C+ L  LP+   KL  L  L  D + SL  +P  IG L 
Sbjct: 561 MRSLPKQLCKLQNLQTLDLQYCTKLCCLPKETSKLGSLRNLLLDGSQSLTCMPPRIGSLT 620

Query: 61  RLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDL 120
            L+ + +FVV  G  +   LG L  LNL     I  L  V +  +A+ A L  K NL  L
Sbjct: 621 CLKTLGQFVV--GRKKGYQLGELGNLNLYGSIKISHLERVKNDKDAKEANLSAKGNLHSL 678

Query: 121 ELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWV-- 178
            + ++N               E E+ ++L+AL P  NL  L I+ +RG    +P+ W+  
Sbjct: 679 SMSWNNFGP---------HIYESEEVKVLEALKPHSNLTSLKIYGFRGIH--LPE-WMNH 726

Query: 179 MSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIA-GMKSVKRVGNEFLGVESDTDGSSV 237
             L N+  + +   RNC  LPP G L  LE L +  G   V+ V       E D D  S 
Sbjct: 727 SVLKNIVSILISNFRNCSCLPPFGDLPCLESLELHWGSADVEYVE------EVDIDVHS- 779

Query: 238 IAFPKLKRLRFWSMSELEEWDLGTAIKG 265
             FP   R+RF S+ +L+ WD G+ +KG
Sbjct: 780 -GFP--TRIRFPSLRKLDIWDFGS-LKG 803

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

Solanum bulbocastanum (taxid: 147425)

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

 Score = 97.8 bits (242), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 88/255 (34%), Positives = 125/255 (49%), Gaps = 23/255 (9%)

Query: 4   LPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLR 63
           LPE LC+L NL+ ++V  C  L  LP+   KL  L +L  D    L   P  IG L  L+
Sbjct: 565 LPERLCKLQNLQTLDVHNCYSLNCLPKQTSKLSSLRHLVVDGC-PLTSTPPRIGLLTCLK 623

Query: 64  RVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELD 123
            +  F+V  G  +   LG LK LNL    SI  L  V +  +A  A L  K NL  L + 
Sbjct: 624 TLGFFIV--GSKKGYQLGELKNLNLCGSISITHLERVKNDTDA-EANLSAKANLQSLSMS 680

Query: 124 FDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWV--MSL 181
           +DN  DG           E ++ ++L+AL P PNLK L I  + G R   P +W+    L
Sbjct: 681 WDN--DGPNRY-------ESKEVKVLEALKPHPNLKYLEIIAFGGFR--FP-SWINHSVL 728

Query: 182 TNLRVLHLFECRNCEHLPPLGKLTSLEDLYIA-GMKSVKRVGNEFLGVESDTDGSSVIAF 240
             +  + +  C+NC  LPP G+L  LE+L +  G   V+ V  +    +  +  S+  +F
Sbjct: 729 EKVISVRIKSCKNCLCLPPFGELPCLENLELQNGSAEVEYVEED----DVHSRFSTRRSF 784

Query: 241 PKLKRLRFWSMSELE 255
           P LK+LR W    L+
Sbjct: 785 PSLKKLRIWFFRSLK 799

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

Solanum bulbocastanum (taxid: 147425)

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

 Score = 92.8 bits (229), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 94/307 (30%), Positives = 136/307 (44%), Gaps = 37/307 (12%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
           I  LP+ LC+L NL+ +++  C  L  LP+   KL  L  L  D+   L  +P  IG L 
Sbjct: 570 ICSLPKRLCKLQNLQTLDLYNCQSLSCLPKQTSKLCSLRNLVLDHC-PLTSMPPRIGLLT 628

Query: 61  RLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDL 120
            L+ +  FVV  G  +   LG L+ LNL    SI  L  V +  EA+ A L  K NL  L
Sbjct: 629 CLKTLGYFVV--GERKGYQLGELRNLNLRGAISITHLERVKNDMEAKEANLSAKANLHSL 686

Query: 121 ELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWV-- 178
            + +D           R    E E+ ++L+AL P PNLK L I ++ G       +W+  
Sbjct: 687 SMSWD-----------RPNRYESEEVKVLEALKPHPNLKYLEIIDFCG---FCLPDWMNH 732

Query: 179 MSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIA-GMKSVKRVGNEFLGVESDTDGSSV 237
             L N+  + +  C NC  LPP G+L  LE L +  G   V+ V         D+   + 
Sbjct: 733 SVLKNVVSILISGCENCSCLPPFGELPCLESLELQDGSVEVEYV--------EDSGFLTR 784

Query: 238 IAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTL 297
             FP L++L       L+        +      P L  + I  C  +   P      S++
Sbjct: 785 RRFPSLRKLHIGGFCNLKGLQRMKGAEQ----FPVLEEMKISDC-PMFVFP----TLSSV 835

Query: 298 QNLEIWG 304
           + LEIWG
Sbjct: 836 KKLEIWG 842

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

Solanum bulbocastanum (taxid: 147425)

>sp|Q7XA42|RGA1_SOLBU Putative disease resistance protein RGA1 OS=Solanum bulbocastanum GN=RGA1 PE=2 SV=2

 Score = 89.0 bits (219), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 86/280 (30%), Positives = 123/280 (43%), Gaps = 51/280 (18%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVG----- 55
           + +LP ++ +L +L  +++SG   +R LP+ + KL+ L  LD  Y DSL  LP       
Sbjct: 537 LNQLPSSIGDLVHLRYLDLSGNFRIRNLPKRLCKLQNLQTLDLHYCDSLSCLPKQTSKLG 596

Query: 56  ------------------IGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGL 97
                             IG L  L+ ++ FV+  G  +   LG LK LNL    SI  L
Sbjct: 597 SLRNLLLDGCSLTSTPPRIGLLTCLKSLSCFVI--GKRKGHQLGELKNLNLYGSISITKL 654

Query: 98  GGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPN 157
             V    +A+ A L  K NL  L L +D   DG              D  +L+AL P  N
Sbjct: 655 DRVKKDTDAKEANLSAKANLHSLCLSWD--LDGKHRY----------DSEVLEALKPHSN 702

Query: 158 LKELHIHEYRGRRNVVPKNWVMS--LTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGM 215
           LK L I+ + G R  +P +W+    L N+  + +  C NC  LPP G+L  LE L +   
Sbjct: 703 LKYLEINGFGGIR--LP-DWMNQSVLKNVVSIRIRGCENCSCLPPFGELPCLESLELHTG 759

Query: 216 KSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELE 255
            +          VE   D      FP L++L  W  S L+
Sbjct: 760 SA---------DVEYVEDNVHPGRFPSLRKLVIWDFSNLK 790

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

Solanum bulbocastanum (taxid: 147425)

>sp|Q8W3K3|DRL8_ARATH Putative disease resistance protein At1g58400 OS=Arabidopsis thaliana GN=At1g58400 PE=3 SV=1

 Score = 57.4 bits (137), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 94/349 (26%), Positives = 154/349 (44%), Gaps = 65/349 (18%)

Query: 4   LPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLP---VGIGELI 60
           LP  + +L +L  +N+   + +  LP  +G LR L+YLD +      ++P   +G+ EL 
Sbjct: 598 LPSGIGKLIHLRYLNLD-LARVSRLPSSLGNLRLLIYLDINVCTKSLFVPNCLMGMHELR 656

Query: 61  RLR------RVTKFVVCGGYD---------RACSLGSLKKLNLLRQCSIDGLGGVSDAGE 105
            LR      +  K  +C   +            SL  L+ +  LR  +I     +S   E
Sbjct: 657 YLRLPFNTSKEIKLGLCNLVNLETLENFSTENSSLEDLRGMVSLRTLTIGLFKHISK--E 714

Query: 106 ARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHE 165
              A +   ++L +L     ++R  D     +R  E   D  +LDA+    +LK+L++  
Sbjct: 715 TLFASILGMRHLENL-----SIRTPDGSSKFKRIME---DGIVLDAI----HLKQLNLRL 762

Query: 166 YRGRRNVVPKNWVMSLTNLRVLHLFECRNCEH-LPPLGKLTSLEDLYIAGMKSVKRVGNE 224
           Y  +   +P       ++L  + L  C   E  LP L KL  L           K V  +
Sbjct: 763 YMPK---LPDEQHFP-SHLTSISLDGCCLVEDPLPILEKLLEL-----------KEVRLD 807

Query: 225 FLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCREL 284
           F         SS   FP+L RL  W ++E EEW +          MPRL +L+I +C++L
Sbjct: 808 FRAFCGKRMVSSDGGFPQLHRLYIWGLAEWEEWIVEEGS------MPRLHTLTIWNCQKL 861

Query: 285 KALPDHLLQKSTLQNLEI---WGACHILQERNREETGEDWPMIRHIPDI 330
           K LPD L    ++++L++   W    IL      E GE++  ++HIP +
Sbjct: 862 KQLPDGLRFIYSIKDLDMDKKWK--EILS-----EGGEEYYKVQHIPSV 903

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P0DI16|DRL44_ARATH Probable disease resistance protein RDL5 OS=Arabidopsis thaliana GN=RDL5 PE=1 SV=1

 Score = 55.1 bits (131), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 54/178 (30%), Positives = 86/178 (48%), Gaps = 29/178 (16%)

Query: 156 PNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGM 215
           P L+ L I   R  + +  ++    LT++ +   F C   + LP LG+L  L++L + G 
Sbjct: 842 PLLRTLDIQVCRKLKQLPDEHLPSHLTSISLF--FCCLEKDPLPTLGRLVYLKELQL-GF 898

Query: 216 KSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSS 275
           ++       F G      G     FP+L++L  + + E EEW +      E   MP L +
Sbjct: 899 RT-------FSGRIMVCSGG---GFPQLQKLSIYRLEEWEEWIV------EQGSMPFLHT 942

Query: 276 LSIQSCRELKALPDHLLQKSTLQNLEIWGACHILQERNRE---ETGEDWPMIRHIPDI 330
           L I  C +LK LPD L    +L+NL+I        ER +E   E GE++  ++HIP +
Sbjct: 943 LYIDDCPKLKKLPDGLQFIYSLKNLKI-------SERWKERLSEGGEEYYKVQHIPSV 993

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|F4IBE4|DRL10_ARATH Probable disease resistance protein RF45 OS=Arabidopsis thaliana GN=RF45 PE=1 SV=1

 Score = 55.1 bits (131), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 54/178 (30%), Positives = 86/178 (48%), Gaps = 29/178 (16%)

Query: 156 PNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGM 215
           P L+ L I   R  + +  ++    LT++ +   F C   + LP LG+L  L++L + G 
Sbjct: 842 PLLRTLDIQVCRKLKQLPDEHLPSHLTSISLF--FCCLEKDPLPTLGRLVYLKELQL-GF 898

Query: 216 KSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSS 275
           ++       F G      G     FP+L++L  + + E EEW +      E   MP L +
Sbjct: 899 RT-------FSGRIMVCSGG---GFPQLQKLSIYRLEEWEEWIV------EQGSMPFLHT 942

Query: 276 LSIQSCRELKALPDHLLQKSTLQNLEIWGACHILQERNRE---ETGEDWPMIRHIPDI 330
           L I  C +LK LPD L    +L+NL+I        ER +E   E GE++  ++HIP +
Sbjct: 943 LYIDDCPKLKKLPDGLQFIYSLKNLKI-------SERWKERLSEGGEEYYKVQHIPSV 993

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q38834|R13L4_ARATH Disease resistance RPP13-like protein 4 OS=Arabidopsis thaliana GN=RPP13L4 PE=2 SV=2

 Score = 53.5 bits (127), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 76/169 (44%), Gaps = 15/169 (8%)

Query: 3   KLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRL 62
           + P ++ +L+NL+ ++ S C +L++L   I   +KL+ LD     SL   P GIG L++L
Sbjct: 601 QFPRSMEDLHNLQILDASYCQNLKQLQPCIVLFKKLLVLDMTNCGSLECFPKGIGSLVKL 660

Query: 63  RRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLEL 122
             +  F      +  C L  +K L  LR+  +     ++   +    EL+   NL  L  
Sbjct: 661 EVLLGFKPARS-NNGCKLSEVKNLTNLRKLGL----SLTRGDQIEEEELDSLINLSKLMS 715

Query: 123 DFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRN 171
              N  D          +  D+    +DAL PP  L EL +  Y G+ +
Sbjct: 716 ISINCYD----------SYGDDLITKIDALTPPHQLHELSLQFYPGKSS 754

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	333
359482769	904	PREDICTED: putative disease resistance p	0.909	0.335	0.420	6e-57
255549784	786	leucine-rich repeat containing protein,	0.951	0.403	0.444	2e-56
359482792	922	PREDICTED: putative disease resistance p	0.900	0.325	0.435	3e-54
359482788	903	PREDICTED: putative disease resistance p	0.903	0.333	0.420	2e-53
359482790	923	PREDICTED: putative disease resistance p	0.906	0.327	0.417	8e-53
147825450	927	hypothetical protein VITISV_000086 [Viti	0.906	0.325	0.420	1e-52
359482784	919	PREDICTED: putative disease resistance p	0.903	0.327	0.426	1e-52
224143886	541	predicted protein [Populus trichocarpa]	0.954	0.587	0.427	2e-52
224118674	960	cc-nbs-lrr resistance protein [Populus t	0.954	0.331	0.427	2e-52
359482796	769	PREDICTED: putative disease resistance p	0.906	0.392	0.432	5e-50

>gi|359482769|ref|XP_003632834.1| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  227 bits (578), Expect = 6e-57,   Method: Compositional matrix adjust.
 Identities = 141/335 (42%), Positives = 203/335 (60%), Gaps = 32/335 (9%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
           + +LPET+C+LYNL+ +N+ GCS L++LP  +GKL  L +L+N YT SL+ LP GIG L 
Sbjct: 594 LRELPETICDLYNLQTLNIEGCSSLQKLPHAMGKLINLRHLEN-YTRSLKGLPKGIGRLS 652

Query: 61  RLRRVTKFVVCGGYDRACSLGSLKKLNLLR-QCSIDGLGGVSDAGEARRAELEKKKNLFD 119
            L+ +  F+V    +  C +G L+ LN LR + S++GL  V DAGE  +AEL+ + +   
Sbjct: 653 SLQTLDVFIVSSHGNDECQIGDLRNLNNLRGRLSVEGLDEVKDAGEPEKAELKNRVHFQY 712

Query: 120 LELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVM 179
           L L+F                E++  + + +AL P PNLK L I +Y  R      NW+M
Sbjct: 713 LTLEF---------------GEKEGTKGVAEALQPHPNLKSLGIVDYGDRE---WPNWMM 754

Query: 180 --SLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSV 237
             SL  L++LHL+ C+ C  LPPLG+L  LE LYI GM  VK +G+EFL       GSS 
Sbjct: 755 GSSLAQLKILHLWFCKRCPCLPPLGQLPVLEKLYIWGMDGVKYIGSEFL-------GSSS 807

Query: 238 IAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTL 297
             FPKLK L    + EL++W++    K E  IMP L+ L ++ C +L+ LPDH+LQ++ L
Sbjct: 808 TVFPKLKELAISGLVELKQWEIKE--KEERSIMPCLNHLIMRGCPKLEGLPDHVLQRTPL 865

Query: 298 QNLEIWGACHILQERNREETGEDWPMIRHIPDIYI 332
           Q L+I G+  IL+ R R++ GED   I HIP++ +
Sbjct: 866 QKLDIAGS-PILKRRYRKDIGEDRHKISHIPEVEV 899

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255549784|ref|XP_002515943.1| leucine-rich repeat containing protein, putative [Ricinus communis] gi|223544848|gb|EEF46363.1| leucine-rich repeat containing protein, putative [Ricinus communis]

 Score =  225 bits (574), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 151/340 (44%), Positives = 205/340 (60%), Gaps = 23/340 (6%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
           ++ LPE LCEL NL+ +N+ GC  L +LP+G+ KL  L +L N   + +  LP GI +L 
Sbjct: 421 LKGLPEALCELCNLQTLNMDGCFSLVKLPRGLEKLINLRHLHNGGFEGV--LPKGISKLT 478

Query: 61  RLRRVTKFVVCGGYDRACSLGSLKKLNLLRQC-SIDGLGGVSDAGEARRAELEKKKNLFD 119
            LR + +F +      AC+LG LK LN L+ C  I GL  V+D GEA++AEL KK  +  
Sbjct: 479 CLRSLNRFSIGQNNQEACNLGDLKNLNHLQGCLCIMGLEIVADVGEAKQAELRKKTEVTR 538

Query: 120 LELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVM 179
           LEL F     GD E    R++ +DE   +L AL P P ++EL I++Y+GR  V P +W++
Sbjct: 539 LELRFGK---GDAEW---RKHHDDE---ILLALEPSPYVEELGIYDYQGR-TVFP-SWMI 587

Query: 180 SLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIA 239
            L+NL+ + L  C+ CEHLPPLGKL  LE+L I GM  V++ G EFLG+ES +  SS IA
Sbjct: 588 FLSNLKTVILTNCKTCEHLPPLGKLPFLENLRIWGMDGVQKAGLEFLGLESSSSSSSGIA 647

Query: 240 FPKLKRLRFWSMSELEEWDLGTAIKGE------IIIMPRLSSLSIQSCRELKALPDHLLQ 293
           FPKL  LRF  M   E W       G+      I IMP+L SLS   C +LKA+PD  L+
Sbjct: 648 FPKLINLRFMRMRNWEVWADDFIRMGDEEDSTKITIMPQLRSLSFAWCSKLKAVPDQFLR 707

Query: 294 KSTLQNLEIWGACHI-LQERNREETGEDWPMIRHIPDIYI 332
           K+TLQ L +   C   L+   ++  G+DW  I HIP+I I
Sbjct: 708 KATLQELTL--TCSPELKRAYQKGIGQDWHKISHIPNIKI 745

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482792|ref|XP_002268589.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  218 bits (556), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 145/333 (43%), Positives = 196/333 (58%), Gaps = 33/333 (9%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
           + +LPET+C+LYNL+ +N+ GC  +R+LPQ +GKL  L +L+N Y   L+ LP GIG L 
Sbjct: 613 LRELPETICDLYNLQTLNIQGCI-IRKLPQAMGKLINLRHLEN-YNTRLKGLPKGIGRLS 670

Query: 61  RLRRVTKFVVCGGYDRACSLGSLKKLNLLR-QCSIDGLGGVSDAGEARRAELEKKKNLFD 119
            L+ +  F+V    +  C +G L+ LN LR + SI GL  V DAGEA +AEL+ K  L  
Sbjct: 671 SLQTLDVFIVSSHGNDECQIGDLRNLNNLRGRLSIQGLDEVKDAGEAEKAELKNKVYLQR 730

Query: 120 LELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVM 179
           LEL F     G+E   G  E           AL P PNLK L I  Y  R      NW+M
Sbjct: 731 LELKFG----GEEGTKGVAE-----------ALQPHPNLKSLDIFNYGDRE---WPNWMM 772

Query: 180 --SLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSV 237
             SL  L++LHL  C  C  LPPLG+L  LE+L I  M  V+ +G+EFL       GSS 
Sbjct: 773 GSSLAQLKILHLRFCIRCPCLPPLGQLPILEELGILNMHGVQYIGSEFL-------GSSS 825

Query: 238 IAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTL 297
             FPKLK+LR  +M EL++W++    K E  IMP L+ L++ +C +L+ LPDH+LQ++ L
Sbjct: 826 TVFPKLKKLRISNMKELKQWEIKE--KEERSIMPCLNDLTMLACPKLEGLPDHMLQRTPL 883

Query: 298 QNLEIWGACHILQERNREETGEDWPMIRHIPDI 330
           Q L I     IL+ R R++ GED   I HIP++
Sbjct: 884 QKLYI-KYSPILERRYRKDIGEDGHKISHIPEV 915

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482788|ref|XP_003632840.1| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  215 bits (548), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 140/333 (42%), Positives = 196/333 (58%), Gaps = 32/333 (9%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
           + +LPET+C+LYNL+ +N+ GCS LR+LPQ +GKL  L +L+N + ++ + LP GIG L 
Sbjct: 595 LRELPETICDLYNLQTLNIQGCSSLRKLPQAMGKLINLRHLENSFLNN-KGLPKGIGRLS 653

Query: 61  RLRRVTKFVVCGGYDRACSLGSLKKLNLLR-QCSIDGLGGVSDAGEARRAELEKKKNLFD 119
            L+ +  F+V    +    +G L+ LN LR   SI GL  V DAGEA +AEL+ K +L D
Sbjct: 654 SLQTLNVFIVSSHGNDEGQIGDLRNLNNLRGDLSIQGLDEVKDAGEAEKAELKNKVHLQD 713

Query: 120 LELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVM 179
           L L FD                E+  + + +AL P PNLK LHI+ Y  R      NW+M
Sbjct: 714 LTLGFD---------------REEGTKGVAEALQPHPNLKALHIYYYGDRE---WPNWMM 755

Query: 180 --SLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSV 237
             SL  L++L+L  C  C  LPPLG+L  LE+L I  M  VK +G+EFL       GSS 
Sbjct: 756 GSSLAQLKILNLKFCERCPCLPPLGQLPVLEELGIWKMYGVKYIGSEFL-------GSSS 808

Query: 238 IAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTL 297
             FPKLK L    + +L++W++    K E  IMP L+ L ++ C +L+ LP H+LQ++TL
Sbjct: 809 TVFPKLKELAISGLDKLKQWEIKE--KEERSIMPCLNHLIMRGCPKLEGLPGHVLQRTTL 866

Query: 298 QNLEIWGACHILQERNREETGEDWPMIRHIPDI 330
           Q L I  +  IL+ R R++ GED   I HIP +
Sbjct: 867 QILNI-RSSPILERRYRKDIGEDRHKISHIPQV 898

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482790|ref|XP_002268671.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  213 bits (543), Expect = 8e-53,   Method: Compositional matrix adjust.
 Identities = 139/333 (41%), Positives = 194/333 (58%), Gaps = 31/333 (9%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
           + +LPET+C+LYNL+ +N+  CS L++LPQ +GKL  L +L+N   D L+ LP GIG L 
Sbjct: 614 LRELPETICDLYNLQTLNIQACSRLQKLPQAMGKLINLRHLENYDADDLQGLPKGIGRLS 673

Query: 61  RLRRVTKFVVCGGYDRACSLGSLKKLNLLR-QCSIDGLGGVSDAGEARRAELEKKKNLFD 119
            L+ +  F+V    +  C +  L+ LN LR + SI GL  V DAGEA +AEL+ + +L  
Sbjct: 674 SLQTLDVFIVSSHGNDECQIEDLRNLNNLRGRLSIQGLDEVKDAGEAEKAELQNRVHLQR 733

Query: 120 LELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVM 179
           L L+F     G+E   G           + +AL P PNLK L I  Y  R      NW+M
Sbjct: 734 LTLEF----GGEEGTKG-----------VAEALQPHPNLKFLCIIRYGDRE---WPNWMM 775

Query: 180 --SLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSV 237
             SL  L++LHL  C  C  LPPLG+L  LE+L I  M  +K +G+EFL       GSS 
Sbjct: 776 GSSLAQLKILHLRFCIRCPCLPPLGQLPVLEELGICFMYGLKYIGSEFL-------GSSS 828

Query: 238 IAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTL 297
             FPKLK L  + + EL++W++    K E  IMP L++L  Q C +L+ LPDH+LQ++ L
Sbjct: 829 TVFPKLKGLYIYGLDELKQWEIKE--KEERSIMPCLNALRAQHCPKLEGLPDHVLQRAPL 886

Query: 298 QNLEIWGACHILQERNREETGEDWPMIRHIPDI 330
           Q L I     +L+ R R++ GED   I HIP++
Sbjct: 887 QKLNI-KYSPVLERRYRKDIGEDGHKISHIPEV 918

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147825450|emb|CAN71072.1| hypothetical protein VITISV_000086 [Vitis vinifera]

 Score =  213 bits (541), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 140/333 (42%), Positives = 193/333 (57%), Gaps = 31/333 (9%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
           + +LPET+C+LYNL+ +N+ GCS L++LPQ +GKL  L +L+N  T SL+ LP GIG L 
Sbjct: 618 LRELPETICDLYNLQTLNIEGCSSLQKLPQAMGKLINLRHLENCNTGSLKGLPKGIGRLS 677

Query: 61  RLRRVTKFVVCGGYDRACSLGSLKKLNLLR-QCSIDGLGGVSDAGEARRAELEKKKNLFD 119
            L+ +  F+V    +  C +G L+ LN LR   SI  L  V DAGEA +AEL+ + +   
Sbjct: 678 SLQTLDVFIVSSHGNDECQIGDLRNLNNLRGGLSIQRLDEVKDAGEAEKAELKNRVHFQY 737

Query: 120 LELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVM 179
           L L+F           G++E  +     + +AL P PNLK L I  Y  R      NW+M
Sbjct: 738 LTLEF-----------GKKEGTKG----VAEALQPHPNLKSLDIFNYGDRE---WPNWMM 779

Query: 180 --SLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSV 237
             SL  L++L +  CR C  LP LG+L  LE L I GM  VK +G+EFL       GSS 
Sbjct: 780 GSSLAQLKILEIGNCRRCPCLPLLGQLPVLEKLDIWGMDGVKYIGSEFL-------GSSS 832

Query: 238 IAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTL 297
             FPKLK L    M EL++W++    K E  IMP L+ L  + C +L+ LPDH+LQ++ L
Sbjct: 833 TVFPKLKELNISRMDELKQWEIKG--KEERSIMPCLNHLRTEFCPKLEGLPDHVLQRTPL 890

Query: 298 QNLEIWGACHILQERNREETGEDWPMIRHIPDI 330
           Q L I  +  IL+ R R++ GED   I HIP++
Sbjct: 891 QKLYIIDS-PILERRYRKDIGEDRHKISHIPEV 922

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482784|ref|XP_002269044.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  213 bits (541), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 142/333 (42%), Positives = 193/333 (57%), Gaps = 32/333 (9%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
           + +LPET+C+LYNL+ +N+  C  L++LPQ +GKL  L +L+N YT SL+ LP GIG L 
Sbjct: 613 LRELPETICDLYNLQTLNIQYCISLQKLPQAMGKLINLRHLEN-YTRSLKGLPKGIGRLS 671

Query: 61  RLRRVTKFVVCGGYDRACSLGSLKKLNLLR-QCSIDGLGGVSDAGEARRAELEKKKNLFD 119
            L+ +  F+V    +  C +G L+ LN LR   SI GL  V DAGEA +AEL+ + +L  
Sbjct: 672 SLQTLDVFIVSSHGNDECQIGDLRNLNNLRGGLSIQGLDEVKDAGEAEKAELKNRVSLHR 731

Query: 120 LELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVM 179
           L L F     G+E   G  E           AL P PNLK L I+ Y  R      NW+M
Sbjct: 732 LALVF----GGEEGTKGVAE-----------ALQPHPNLKSLCIYGYGDRE---WPNWMM 773

Query: 180 --SLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSV 237
             SL  L++L +  CR C  LPPLG+L  LE L I  M  V  +G+EFL       GSS 
Sbjct: 774 GSSLAQLKILEIGNCRRCPCLPPLGQLPVLEKLVIWKMYGVIYIGSEFL-------GSSS 826

Query: 238 IAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTL 297
             FPKLK LR + + EL++W++    K E  IMP L+ L  + C +L+ LPDH+LQ++ L
Sbjct: 827 TVFPKLKELRIFGLDELKQWEIKE--KEERSIMPCLNHLRTEFCPKLEGLPDHVLQRTPL 884

Query: 298 QNLEIWGACHILQERNREETGEDWPMIRHIPDI 330
           Q L I G+  IL+ R  ++ GED   I HIP++
Sbjct: 885 QKLYIEGS-PILKRRYGKDIGEDRHKISHIPEV 916

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224143886|ref|XP_002336089.1| predicted protein [Populus trichocarpa] gi|222872018|gb|EEF09149.1| predicted protein [Populus trichocarpa]

 Score =  212 bits (539), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 145/339 (42%), Positives = 201/339 (59%), Gaps = 21/339 (6%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
           ++ LPE + ELYNL+ +N+SGC  L+ LP G+ +L  L +L+N +TD L ++P GI  L 
Sbjct: 197 LKYLPEEIGELYNLQTLNLSGCCELQRLPYGLCRLINLRHLNNYHTDKLTFMPRGIERLT 256

Query: 61  RLRRVTKFVV-CGGYDR--ACSLGSLKKLNLLRQ-CSIDGLGGVSDA-GEARRAELEKKK 115
            L+ + KFVV C  + R  + +LG L+ LN LR+   I GLG  +D   EAR+A+L+KKK
Sbjct: 257 SLKSLYKFVVNCSYHSRELSSTLGDLQNLNYLRKYLEISGLGNSTDMISEARKAQLKKKK 316

Query: 116 NLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPK 175
            L  L+L F   R              D+DE ++ AL PPP+L+ L I  Y G +  +P 
Sbjct: 317 QLVTLKLSFVECRALIH----------DQDEEIIQALEPPPSLEHLEIEHYGGIKMKIP- 365

Query: 176 NWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESD--TD 233
           NW+M L  L  + + +CRNC +LPPLGKL  LE L I+ M+SV +VG+EFLG+E++   +
Sbjct: 366 NWMMQLAKLSKICISKCRNCNNLPPLGKLPFLEYLEISDMRSVHKVGDEFLGIETNHKEN 425

Query: 234 GSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQ 293
                AFPKLK LRF  M   +EWD   A++ E  +MP L  L I  C +L+ALP  LLQ
Sbjct: 426 EDKKKAFPKLKELRFSHMYAWDEWDALIALEEE--VMPCLLRLYIGFCDKLEALPAQLLQ 483

Query: 294 KSTLQNLEIWGACHILQERNREETGEDWPMIRHIPDIYI 332
            +TL+ L +   C  L  +     G DW  I HIP IY 
Sbjct: 484 MTTLEELAV-DHCGSLGGQYHWNVGVDWHHISHIPIIYF 521

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224118674|ref|XP_002317879.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222858552|gb|EEE96099.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  212 bits (539), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 145/339 (42%), Positives = 201/339 (59%), Gaps = 21/339 (6%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
           ++ LPE + ELYNL+ +N+SGC  L+ LP G+ +L  L +L+N +TD L ++P GI  L 
Sbjct: 616 LKYLPEEIGELYNLQTLNLSGCCELQRLPYGLCRLINLRHLNNYHTDKLTFMPRGIERLT 675

Query: 61  RLRRVTKFVV-CGGYDR--ACSLGSLKKLNLLRQ-CSIDGLGGVSDA-GEARRAELEKKK 115
            L+ + KFVV C  + R  + +LG L+ LN LR+   I GLG  +D   EAR+A+L+KKK
Sbjct: 676 SLKSLYKFVVNCSYHSRELSSTLGDLQNLNYLRKYLEISGLGNSTDMISEARKAQLKKKK 735

Query: 116 NLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPK 175
            L  L+L F   R              D+DE ++ AL PPP+L+ L I  Y G +  +P 
Sbjct: 736 QLVTLKLSFVECR----------ALIHDQDEEIIQALEPPPSLEHLEIEHYGGIKMKIP- 784

Query: 176 NWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESD--TD 233
           NW+M L  L  + + +CRNC +LPPLGKL  LE L I+ M+SV +VG+EFLG+E++   +
Sbjct: 785 NWMMQLAKLSKICISKCRNCNNLPPLGKLPFLEYLEISDMRSVHKVGDEFLGIETNHKEN 844

Query: 234 GSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQ 293
                AFPKLK LRF  M   +EWD   A++ E  +MP L  L I  C +L+ALP  LLQ
Sbjct: 845 EDKKKAFPKLKELRFSHMYAWDEWDALIALEEE--VMPCLLRLYIGFCDKLEALPAQLLQ 902

Query: 294 KSTLQNLEIWGACHILQERNREETGEDWPMIRHIPDIYI 332
            +TL+ L +   C  L  +     G DW  I HIP IY 
Sbjct: 903 MTTLEELAV-DHCGSLGGQYHWNVGVDWHHISHIPIIYF 940

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482796|ref|XP_003632841.1| PREDICTED: putative disease resistance protein RGA3-like [Vitis vinifera]

 Score =  204 bits (519), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 144/333 (43%), Positives = 188/333 (56%), Gaps = 31/333 (9%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
           + +LPET+C+LYNL+ +N+ GC  L +LPQ +GKL  L +L N  T +L YLP GI  L 
Sbjct: 460 LRELPETICDLYNLQTLNIFGCVSLIQLPQAMGKLTNLRHLQNLLT-TLEYLPKGISRLT 518

Query: 61  RLRRVTKFVVCGGYDRACSLGSLKKLNLLR-QCSIDGLGGVSDAGEARRAELEKKKNLFD 119
            L+ + +FVV    D  C +G L+ LN LR +  I  L  V D  EA++AEL+ K +L  
Sbjct: 519 SLQTLNEFVVSSDGDNKCKIGDLRNLNNLRGELGIRVLWKVQDTREAQKAELKNKIHLQH 578

Query: 120 LELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVM 179
           L LDF    DG E   G           +  AL P PNLK L I  Y    +     W+M
Sbjct: 579 LTLDF----DGKEGTKG-----------VAAALEPHPNLKSLSIQRY---GDTEWHGWMM 620

Query: 180 --SLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSV 237
             SLT L+ L L  C  C  +PPLG+L  LE L I  M SVK +G EFLG       SS 
Sbjct: 621 RSSLTQLKNLALSYCSKCLRMPPLGELPVLEKLEITDMGSVKHIGGEFLG------SSSR 674

Query: 238 IAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTL 297
           IAFPKLK+L F  M E E+W++    +    IM  LS L I  C +L+ LPDH+LQ++ L
Sbjct: 675 IAFPKLKKLTFHDMKEWEKWEVKEEEEKS--IMSCLSYLKILGCPKLEGLPDHVLQRTPL 732

Query: 298 QNLEIWGACHILQERNREETGEDWPMIRHIPDI 330
           Q L I  +  ILQ+R +++ GED P I HIP +
Sbjct: 733 QELVITDS-DILQQRYQQDIGEDRPKISHIPIV 764

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	333
TAIR|locus:2091672	1054	AT3G14470 [Arabidopsis thalian	0.885	0.279	0.297	1.4e-22
TAIR|locus:2091662	1424	AT3G14460 [Arabidopsis thalian	0.387	0.090	0.333	3.9e-16
TAIR|locus:2163426	1187	TAO1 "target of AVRB operation	0.462	0.129	0.274	2.2e-09
TAIR|locus:2053405	1215	AT2G14080 [Arabidopsis thalian	0.258	0.070	0.380	1.9e-08
TAIR|locus:2118106	1219	AT4G12010 [Arabidopsis thalian	0.216	0.059	0.4	1.6e-07
TAIR|locus:2205824	1384	AT1G27170 [Arabidopsis thalian	0.267	0.064	0.346	5.9e-07
TAIR|locus:2146228	1245	AT5G18350 [Arabidopsis thalian	0.276	0.073	0.309	7.4e-07
TAIR|locus:2098145	1240	AT3G44630 [Arabidopsis thalian	0.180	0.048	0.426	1.3e-06
TAIR|locus:2197739	762	AT1G61300 [Arabidopsis thalian	0.267	0.116	0.336	1.6e-06
TAIR|locus:2205804	1556	AT1G27180 [Arabidopsis thalian	0.489	0.104	0.261	6.4e-06

TAIR|locus:2091672 AT3G14470 [Arabidopsis thaliana (taxid:3702)]

 Score = 274 (101.5 bits), Expect = 1.4e-22, P = 1.4e-22
 Identities = 93/313 (29%), Positives = 140/313 (44%)

Query:     1 IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
             +EKLP++LC +YNL+ + +S CS L+ELP  I  L  L YLD   T  LR +P   G L 
Sbjct:   614 LEKLPKSLCYMYNLQTLLLSYCSSLKELPTDISNLINLRYLDLIGT-KLRQMPRRFGRLK 672

Query:    61 RLRRVTKFVVCGGY-DRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAXXXXXXXXXX 119
              L+ +T F V      R   LG L  L+   +  I  L  V D  +A  A          
Sbjct:   673 SLQTLTTFFVSASDGSRISELGGLHDLH--GKLKIVELQRVVDVADAAEANLNSKKHLRE 730

Query:   120 XXXXXXXXRDGDEEQAGXXXXXXXXXXXXXXXXGPPPNLKELHIHEYRGRRNVVPKNWVM 179
                         E                     P  ++++L I  Y+GRR   P +W+ 
Sbjct:   731 IDFVWRTGSSSSENNTNPHRTQNEAEVFEKLR--PHRHIEKLAIERYKGRR--FP-DWLS 785

Query:   180 --SLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSV 237
               S + +  + L EC+ C  LP LG+L  L++L+I+GM  ++ +G +F   +        
Sbjct:   786 DPSFSRIVCIRLRECQYCTSLPSLGQLPCLKELHISGMVGLQSIGRKFYFSDQQLRDQDQ 845

Query:   238 IAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKA-LPDHLLQKST 296
               F  L+ LRF ++ + +EW      +G++   P L  L I  C EL   LP  L    +
Sbjct:   846 QPFRSLETLRFDNLPDWQEWLDVRVTRGDLF--PSLKKLFILRCPELTGTLPTFL---PS 900

Query:   297 LQNLEIWGACHIL 309
             L +L I+  C +L
Sbjct:   901 LISLHIY-KCGLL 912

GO:0005576 "extracellular region" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0009627 "systemic acquired resistance" evidence=RCA

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

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

 Score = 151 (58.2 bits), Expect = 3.9e-16, Sum P(2) = 3.9e-16
 Identities = 47/141 (33%), Positives = 68/141 (48%)

Query:   154 PPPNLKELHIHEYRGRRNVVPKNWV--MSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLY 211
             P P+LK   I  Y+G     PK W+   S   +  + L  C  C  LPP+G+L SL+ L 
Sbjct:   757 PHPHLKTFCIESYQG--GAFPK-WLGDSSFFGITSVTLSSCNLCISLPPVGQLPSLKYLS 813

Query:   212 IAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMP 271
             I     +++VG +F   E+++ G   + F  L+ L+F+ M   +EW       G   I P
Sbjct:   814 IEKFNILQKVGLDFFFGENNSRG---VPFQSLQILKFYGMPRWDEWICPELEDG---IFP 867

Query:   272 RLSSLSIQSCREL-KALPDHL 291
              L  L IQ C  L K  P+ L
Sbjct:   868 CLQKLIIQRCPSLRKKFPEGL 888

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 114 (45.2 bits), Expect = 2.2e-09, Sum P(2) = 2.2e-09
 Identities = 47/171 (27%), Positives = 78/171 (45%)

Query:   153 GPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYI 212
             G   NLKELH+          P + +++LT L  L+L  C +   LP +G + +L+ LY+
Sbjct:   797 GNNTNLKELHLLNCSSLMEC-PSS-MLNLTRLEDLNLSGCLSLVKLPSIGNVINLQSLYL 854

Query:   213 AGMKSVKRVGNEFLGVES-DT---DG-SSVIAFPKLKRLRFWSMSELEEWDL-GTAIKGE 266
             +   S+  +        + DT   DG S+++  P       W+++ L+   L G +   E
Sbjct:   855 SDCSSLMELPFTIENATNLDTLYLDGCSNLLELPS----SIWNITNLQSLYLNGCSSLKE 910

Query:   267 IIIMPR----LSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHILQERN 313
             +  +      L SLS+  C  L  LP  + + S L  L++   C  L E N
Sbjct:   911 LPSLVENAINLQSLSLMKCSSLVELPSSIWRISNLSYLDV-SNCSSLLELN 960

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

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

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

 Score = 115 (45.5 bits), Expect = 1.9e-08, Sum P(2) = 1.9e-08
 Identities = 35/92 (38%), Positives = 51/92 (55%)

Query:     1 IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
             +++LP+ L    NLE +N++GCS L ELP  IG   KL+ L+     SL  LP  IG  I
Sbjct:   687 LKELPD-LSSATNLEVLNLNGCSSLVELPFSIGNATKLLKLELSGCSSLLELPSSIGNAI 745

Query:    61 RLRRVTKFVVCGGY-DRACSLGS---LKKLNL 88
              L+ +  F  C    +   S+G+   LK+L+L
Sbjct:   746 NLQTID-FSHCENLVELPSSIGNATNLKELDL 776

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2118106 AT4G12010 [Arabidopsis thaliana (taxid:3702)]

 Score = 114 (45.2 bits), Expect = 1.6e-07, Sum P(2) = 1.6e-07
 Identities = 34/85 (40%), Positives = 49/85 (57%)

Query:     8 LCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLD-NDYTDSLRYLPVGIGELIRLRRVT 66
             L   +NLER+N+ GC+ L++LP  I  L KL+YL+  D T SLR LP GI    + + + 
Sbjct:   662 LANAHNLERLNLEGCTSLKKLPSTINCLEKLIYLNLRDCT-SLRSLPKGI----KTQSLQ 716

Query:    67 KFVVCGGYDRACSLGSLKKLNLLRQ 91
               ++ G     CS  SLKK  L+ +
Sbjct:   717 TLILSG-----CS--SLKKFPLISE 734

GO:0005634 "nucleus" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

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

GO:0009963 "positive regulation of flavonoid biosynthetic process" evidence=RCA

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

TAIR|locus:2205824 AT1G27170 [Arabidopsis thaliana (taxid:3702)]

 Score = 111 (44.1 bits), Expect = 5.9e-07, Sum P(2) = 5.9e-07
 Identities = 34/98 (34%), Positives = 56/98 (57%)

Query:     1 IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKL--MYLDNDYTDSLRYLPVGIGE 58
             I+ LPE++  L NLE +++ GC  ++ELP  IG L+ L  +YLD+    +L+ LP  IG+
Sbjct:   777 IKNLPESINRLQNLEILSLRGCK-IQELPLCIGTLKSLEKLYLDDT---ALKNLPSSIGD 832

Query:    59 LIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDG 96
             L  L+ +   V C    +     S+ +L  L++  I+G
Sbjct:   833 LKNLQDL-HLVRCTSLSKIPD--SINELKSLKKLFING 867

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0009507 "chloroplast" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2146228 AT5G18350 [Arabidopsis thaliana (taxid:3702)]

 Score = 99 (39.9 bits), Expect = 7.4e-07, Sum P(2) = 7.4e-07
 Identities = 30/97 (30%), Positives = 50/97 (51%)

Query:     3 KLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRL 62
             +L +++ +  NL+R+ ++ CS L++LP  IG    L  LD  + +S   LP  IG+L  L
Sbjct:   683 ELTDSIGKATNLKRLKLACCSLLKKLPSSIGDATNLQVLDLFHCESFEELPKSIGKLTNL 742

Query:    63 RRVTKFVVCGGYDRACSLGSLK--KLNLLRQCSIDGL 97
             + V + + C  Y       S+K  KL +L     + L
Sbjct:   743 K-VLELMRC--YKLVTLPNSIKTPKLPVLSMSECEDL 776

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2098145 AT3G44630 [Arabidopsis thaliana (taxid:3702)]

 Score = 106 (42.4 bits), Expect = 1.3e-06, Sum P(2) = 1.3e-06
 Identities = 26/61 (42%), Positives = 35/61 (57%)

Query:     3 KLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRL 62
             KLP ++ ++ NL+  ++S CS+L ELP  IG L+KL  L       L  LP  I  LI L
Sbjct:   848 KLPSSIGDMTNLKEFDLSNCSNLVELPSSIGNLQKLFMLRMRGCSKLETLPTNIN-LISL 906

Query:    63 R 63
             R
Sbjct:   907 R 907

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2197739 AT1G61300 [Arabidopsis thaliana (taxid:3702)]

 Score = 100 (40.3 bits), Expect = 1.6e-06, Sum P(2) = 1.6e-06
 Identities = 31/92 (33%), Positives = 53/92 (57%)

Query:     3 KLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRL 62
             KLPE +  L +L+ +++S  S +++LP G+ KL+KL +L+  YT  L  +  GI  L+ L
Sbjct:   461 KLPEQISGLVSLQFLDLSNTS-IKQLPVGLKKLKKLTFLNLAYTVRLCSIS-GISRLLSL 518

Query:    63 RRVTKFVVCGGYDRACSLGSLKKLNLLRQCSI 94
             R + + +    +  A  L  L+KL  L+  +I
Sbjct:   519 R-LLRLLGSKVHGDASVLKELQKLQNLQHLAI 549

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2205804 AT1G27180 [Arabidopsis thaliana (taxid:3702)]

 Score = 110 (43.8 bits), Expect = 6.4e-06, Sum P(2) = 6.4e-06
 Identities = 47/180 (26%), Positives = 91/180 (50%)

Query:   157 NLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGM 215
             +L++L++ +    RN+ P + +  L NL+ LHL  C +   +P  + KL SL++L+I G 
Sbjct:   986 SLEDLYLDD-TALRNL-PSS-IGDLKNLQKLHLMRCTSLSTIPETINKLMSLKELFING- 1041

Query:   216 KSVKRVGNEFLGVESDTDGSSV-IAFPKLKRLRFWSMSELEEWDLGT----AIKGEIIIM 270
              +V+ +  E   +   TD S+    F K        ++ L +  L +    A+  EI  +
Sbjct:  1042 SAVEELPIETGSLLCLTDLSAGDCKFLKQVPSSIGGLNSLLQLQLDSTPIEALPEEIGDL 1101

Query:   271 PRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHILQERNREETGEDWPMIRHIPDI 330
               +  L +++C+ LKALP  + +  TL +L + G+       N EE  E++  + ++ ++
Sbjct:  1102 HFIRQLDLRNCKSLKALPKTIGKMDTLYSLNLVGS-------NIEELPEEFGKLENLVEL 1154

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

---

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	333
PLN03210	1153	PLN03210, PLN03210, Resistant to P	2e-04

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

 Score = 42.9 bits (101), Expect = 2e-04
 Identities = 59/212 (27%), Positives = 81/212 (38%), Gaps = 35/212 (16%)

Query: 13  NLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCG 72
           NLE + +S CS L ELP  I  L KL  LD    ++L  LP GI                
Sbjct: 658 NLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTGI---------------- 701

Query: 73  GYDRACSLGSLKKLNLLRQCS-----IDGLGGVSDAGEARRAELEKKKNLFDLELDFDNL 127
                 +L SL +LN L  CS      D    +S       A  E   NL    LD   L
Sbjct: 702 ------NLKSLYRLN-LSGCSRLKSFPDISTNISWLDLDETAIEEFPSNLRLENLDELIL 754

Query: 128 RDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVL 187
            +   E+   R         +L      P+L  L + +       +P + + +L  L  L
Sbjct: 755 CEMKSEKLWERVQPLTPLMTML-----SPSLTRLFLSDIPSLVE-LPSS-IQNLHKLEHL 807

Query: 188 HLFECRNCEHLPPLGKLTSLEDLYIAGMKSVK 219
            +  C N E LP    L SLE L ++G   ++
Sbjct: 808 EIENCINLETLPTGINLESLESLDLSGCSRLR 839

syringae 6; Provisional. Length = 1153

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	333
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.87
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.86
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.86
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.81
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.79
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.76
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.74
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.71
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.66
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.6
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.57
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.48
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.44
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.42
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.41
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.41
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.38
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.37
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.31
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.25
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.21
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.19
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.15
KOG4341	483	consensus F-box protein containing LRR [General fu	99.03
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.92
KOG4341	483	consensus F-box protein containing LRR [General fu	98.9
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.84
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.83
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.79
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.76
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.76
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.69
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.68
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.6
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.52
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.49
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.42
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.4
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.37
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.35
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.23
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.16
PLN03150	623	hypothetical protein; Provisional	98.02
PRK15386	426	type III secretion protein GogB; Provisional	97.99
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.95
PRK15386	426	type III secretion protein GogB; Provisional	97.94
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.93
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.92
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.9
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.88
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.86
PLN03150	623	hypothetical protein; Provisional	97.82
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.77
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.73
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.68
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.61
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.54
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	97.52
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.47
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.37
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.34
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	97.22
KOG2123	388	consensus Uncharacterized conserved protein [Funct	97.07
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.91
KOG3864	221	consensus Uncharacterized conserved protein [Funct	96.43
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.39
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	96.37
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	95.84
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	95.31
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.29
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	95.29
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	94.2
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	93.86
KOG3864	221	consensus Uncharacterized conserved protein [Funct	93.43
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	92.77
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	88.94
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	87.41
smart00370	26	LRR Leucine-rich repeats, outliers.	87.41

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

Probab=99.87  E-value=6.3e-22  Score=199.70  Aligned_cols=265  Identities=17%  Similarity=0.160  Sum_probs=135.5

Q ss_pred             ccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcccc
Q 044247            4 LPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSL   83 (333)
Q Consensus         4 lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l   83 (333)
                      +|..++.+++|++|++++|...+.+|..++++++|++|++++|.....+|..++.+++|++|++.+|...   +..+..+
T Consensus       156 ~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~---~~~p~~l  232 (968)
T PLN00113        156 IPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLS---GEIPYEI  232 (968)
T ss_pred             CChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccC---CcCChhH
Confidence            3444555555555555555433444555555555555555555333344444555555555555544433   2233444


Q ss_pred             ccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEE
Q 044247           84 KKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHI  163 (333)
Q Consensus        84 ~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l  163 (333)
                      .++++|+.|++......    ......+..+++|++|++++|.                 .....+..+..+++|+.|++
T Consensus       233 ~~l~~L~~L~L~~n~l~----~~~p~~l~~l~~L~~L~L~~n~-----------------l~~~~p~~l~~l~~L~~L~L  291 (968)
T PLN00113        233 GGLTSLNHLDLVYNNLT----GPIPSSLGNLKNLQYLFLYQNK-----------------LSGPIPPSIFSLQKLISLDL  291 (968)
T ss_pred             hcCCCCCEEECcCceec----cccChhHhCCCCCCEEECcCCe-----------------eeccCchhHhhccCcCEEEC
Confidence            44555555444332110    0111234444555555555553                 22233344445556666666


Q ss_pred             eeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCCCCCccccCCC
Q 044247          164 HEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPK  242 (333)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~  242 (333)
                      ++|..... + |.++..+++|+.|++++|...+..|. ++.+++|+.|++++|.....+|..            +..+++
T Consensus       292 s~n~l~~~-~-p~~~~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~p~~------------l~~~~~  357 (968)
T PLN00113        292 SDNSLSGE-I-PELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSNKFSGEIPKN------------LGKHNN  357 (968)
T ss_pred             cCCeeccC-C-ChhHcCCCCCcEEECCCCccCCcCChhHhcCCCCCEEECcCCCCcCcCChH------------HhCCCC
Confidence            55544321 3 55555566666666666544333443 555566666666665532233322            345556


Q ss_pred             ccEEeeccCcc-------------ccccc-----cCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcc
Q 044247          243 LKRLRFWSMSE-------------LEEWD-----LGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWG  304 (333)
Q Consensus       243 L~~L~l~~~~~-------------L~~~~-----~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~  304 (333)
                      |+.|+++++.-             ++.+.     +.+.+|..+..+++|+.|++++|+....+|..+..+++|+.+++ .
T Consensus       358 L~~L~Ls~n~l~~~~p~~~~~~~~L~~L~l~~n~l~~~~p~~~~~~~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L-s  436 (968)
T PLN00113        358 LTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRVRLQDNSFSGELPSEFTKLPLVYFLDI-S  436 (968)
T ss_pred             CcEEECCCCeeEeeCChhHhCcCCCCEEECcCCEecccCCHHHhCCCCCCEEECcCCEeeeECChhHhcCCCCCEEEC-c
Confidence            66666654321             01111     22345556667788888888887666667777777888888888 7


Q ss_pred             cCh
Q 044247          305 ACH  307 (333)
Q Consensus       305 ~c~  307 (333)
                      +|.
T Consensus       437 ~N~  439 (968)
T PLN00113        437 NNN  439 (968)
T ss_pred             CCc
Confidence            764

>PLN03210 Resistant to P

Probab=99.86  E-value=2.7e-21  Score=196.25  Aligned_cols=117  Identities=22%  Similarity=0.323  Sum_probs=76.7

Q ss_pred             CCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccc--
Q 044247          182 TNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWD--  258 (333)
Q Consensus       182 ~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~--  258 (333)
                      ++|+.|++++|..+..+|. ++++++|+.|++++|..++.+|..             ..+++|+.|++++|.++..++  
T Consensus       778 ~sL~~L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~LP~~-------------~~L~sL~~L~Ls~c~~L~~~p~~  844 (1153)
T PLN03210        778 PSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTG-------------INLESLESLDLSGCSRLRTFPDI  844 (1153)
T ss_pred             ccchheeCCCCCCccccChhhhCCCCCCEEECCCCCCcCeeCCC-------------CCccccCEEECCCCCcccccccc
Confidence            4555555555544444444 555555555555555555544432             134555555555554443332  


Q ss_pred             --------c----CCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccChhhHhh
Q 044247          259 --------L----GTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHILQER  312 (333)
Q Consensus       259 --------~----~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~~l~~~  312 (333)
                              +    -..+|.++..+++|+.|++.+|++++.+|.....+++|+.+++ .+|+.++..
T Consensus       845 ~~nL~~L~Ls~n~i~~iP~si~~l~~L~~L~L~~C~~L~~l~~~~~~L~~L~~L~l-~~C~~L~~~  909 (1153)
T PLN03210        845 STNISDLNLSRTGIEEVPWWIEKFSNLSFLDMNGCNNLQRVSLNISKLKHLETVDF-SDCGALTEA  909 (1153)
T ss_pred             ccccCEeECCCCCCccChHHHhcCCCCCEEECCCCCCcCccCcccccccCCCeeec-CCCcccccc
Confidence                    0    1235667778999999999999999999998888999999999 999988754

syringae 6; Provisional

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

Probab=99.86  E-value=1.8e-21  Score=196.35  Aligned_cols=274  Identities=19%  Similarity=0.223  Sum_probs=196.2

Q ss_pred             cccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccc
Q 044247            3 KLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGS   82 (333)
Q Consensus         3 ~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~   82 (333)
                      .+|..++++++|++|++++|...+.+|..++++++|++|++++|.....+|..++.+++|++|++.+|...   +..+..
T Consensus       179 ~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~---~~~p~~  255 (968)
T PLN00113        179 KIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLT---GPIPSS  255 (968)
T ss_pred             cCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCceec---cccChh
Confidence            57889999999999999999966789999999999999999999666678888999999999999988765   456777


Q ss_pred             cccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEE
Q 044247           83 LKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELH  162 (333)
Q Consensus        83 l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~  162 (333)
                      +.++++|+.|.+....-..    .....+..+++|++|++++|.+                 ....+..+..+++|+.|+
T Consensus       256 l~~l~~L~~L~L~~n~l~~----~~p~~l~~l~~L~~L~Ls~n~l-----------------~~~~p~~~~~l~~L~~L~  314 (968)
T PLN00113        256 LGNLKNLQYLFLYQNKLSG----PIPPSIFSLQKLISLDLSDNSL-----------------SGEIPELVIQLQNLEILH  314 (968)
T ss_pred             HhCCCCCCEEECcCCeeec----cCchhHhhccCcCEEECcCCee-----------------ccCCChhHcCCCCCcEEE
Confidence            8889999998886533211    1223566778999999988853                 334455566677777777


Q ss_pred             EeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCC---------
Q 044247          163 IHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDT---------  232 (333)
Q Consensus       163 l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~---------  232 (333)
                      +++|..... + |..+..+++|+.|++++|...+.+|. ++.+++|+.|++++|.....++..+......+         
T Consensus       315 l~~n~~~~~-~-~~~~~~l~~L~~L~L~~n~l~~~~p~~l~~~~~L~~L~Ls~n~l~~~~p~~~~~~~~L~~L~l~~n~l  392 (968)
T PLN00113        315 LFSNNFTGK-I-PVALTSLPRLQVLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNSL  392 (968)
T ss_pred             CCCCccCCc-C-ChhHhcCCCCCEEECcCCCCcCcCChHHhCCCCCcEEECCCCeeEeeCChhHhCcCCCCEEECcCCEe
Confidence            777665531 3 66667777777777777755545554 66677777777777663333333211100000         


Q ss_pred             ---CCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccChhh
Q 044247          233 ---DGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHIL  309 (333)
Q Consensus       233 ---~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~~l  309 (333)
                         ....+..+++|+.|++++|.      +.+.+|..+..+++|+.|++++|.....++.....+++|+.|++ .+|...
T Consensus       393 ~~~~p~~~~~~~~L~~L~L~~n~------l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L-~~n~~~  465 (968)
T PLN00113        393 EGEIPKSLGACRSLRRVRLQDNS------FSGELPSEFTKLPLVYFLDISNNNLQGRINSRKWDMPSLQMLSL-ARNKFF  465 (968)
T ss_pred             cccCCHHHhCCCCCCEEECcCCE------eeeECChhHhcCCCCCEEECcCCcccCccChhhccCCCCcEEEC-cCceee
Confidence               00114456777777777754      33445667778999999999997766667776777999999999 988643

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

Probab=99.81  E-value=2.9e-22  Score=180.04  Aligned_cols=256  Identities=19%  Similarity=0.217  Sum_probs=162.7

Q ss_pred             cccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCccccccc-ccccccCceeeeEEEcCccCCCCCcc
Q 044247            3 KLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVG-IGELIRLRRVTKFVVCGGYDRACSLG   81 (333)
Q Consensus         3 ~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~-i~~l~~L~~L~l~~~~~~~~~~~~~~   81 (333)
                      .+|..|.+|..|.+|+++.|. +.+.|..+..-+++-.|+++.| .++.+|.. +.++.-|-.|++++|....    .++
T Consensus        94 GiP~diF~l~dLt~lDLShNq-L~EvP~~LE~AKn~iVLNLS~N-~IetIPn~lfinLtDLLfLDLS~NrLe~----LPP  167 (1255)
T KOG0444|consen   94 GIPTDIFRLKDLTILDLSHNQ-LREVPTNLEYAKNSIVLNLSYN-NIETIPNSLFINLTDLLFLDLSNNRLEM----LPP  167 (1255)
T ss_pred             CCCchhcccccceeeecchhh-hhhcchhhhhhcCcEEEEcccC-ccccCCchHHHhhHhHhhhccccchhhh----cCH
Confidence            578888888888888888887 7777777766667777777666 55555543 2344445555555554432    344


Q ss_pred             ccccCc------------------------cCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcc
Q 044247           82 SLKKLN------------------------LLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGR  137 (333)
Q Consensus        82 ~l~~l~------------------------~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~  137 (333)
                      .++.+.                        +|+.|++.+...   ....++..+.++.+|..++++.|            
T Consensus       168 Q~RRL~~LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqR---Tl~N~Ptsld~l~NL~dvDlS~N------------  232 (1255)
T KOG0444|consen  168 QIRRLSMLQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQR---TLDNIPTSLDDLHNLRDVDLSEN------------  232 (1255)
T ss_pred             HHHHHhhhhhhhcCCChhhHHHHhcCccchhhhhhhcccccc---hhhcCCCchhhhhhhhhcccccc------------
Confidence            444444                        444444443322   11122234444556666666665            


Q ss_pred             cCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceeccccc
Q 044247          138 RENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMK  216 (333)
Q Consensus       138 ~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~  216 (333)
                            ....++..+...++|+.|++++|...+  + .....-+.+|+.|+++.| .+..+|. +..+++|+.|++.+|.
T Consensus       233 ------~Lp~vPecly~l~~LrrLNLS~N~ite--L-~~~~~~W~~lEtLNlSrN-QLt~LP~avcKL~kL~kLy~n~Nk  302 (1255)
T KOG0444|consen  233 ------NLPIVPECLYKLRNLRRLNLSGNKITE--L-NMTEGEWENLETLNLSRN-QLTVLPDAVCKLTKLTKLYANNNK  302 (1255)
T ss_pred             ------CCCcchHHHhhhhhhheeccCcCceee--e-eccHHHHhhhhhhccccc-hhccchHHHhhhHHHHHHHhccCc
Confidence                  334555666666667777777666665  4 444445666777777766 5566665 6677777777777765


Q ss_pred             c-cccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCC
Q 044247          217 S-VKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKS  295 (333)
Q Consensus       217 ~-l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~  295 (333)
                      . .+-+|..            ++.+.+|+.+...+ +.|+      .+|+.+..|+.|+.|.+. |+++..+|..+.-++
T Consensus       303 L~FeGiPSG------------IGKL~~Levf~aan-N~LE------lVPEglcRC~kL~kL~L~-~NrLiTLPeaIHlL~  362 (1255)
T KOG0444|consen  303 LTFEGIPSG------------IGKLIQLEVFHAAN-NKLE------LVPEGLCRCVKLQKLKLD-HNRLITLPEAIHLLP  362 (1255)
T ss_pred             ccccCCccc------------hhhhhhhHHHHhhc-cccc------cCchhhhhhHHHHHhccc-ccceeechhhhhhcC
Confidence            2 1223322            56677777777766 3443      355667799999999997 588999999998899


Q ss_pred             CcceEEEcccChhhH
Q 044247          296 TLQNLEIWGACHILQ  310 (333)
Q Consensus       296 ~L~~L~l~~~c~~l~  310 (333)
                      .|+.|++ +++|++.
T Consensus       363 ~l~vLDl-reNpnLV  376 (1255)
T KOG0444|consen  363 DLKVLDL-RENPNLV  376 (1255)
T ss_pred             Ccceeec-cCCcCcc
Confidence            9999999 9998875

>PLN03210 Resistant to P

Probab=99.79  E-value=1.2e-18  Score=177.15  Aligned_cols=248  Identities=22%  Similarity=0.265  Sum_probs=146.6

Q ss_pred             CCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCc
Q 044247           11 LYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLR   90 (333)
Q Consensus        11 l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~   90 (333)
                      +.+|++|++.++. +..++..+..+++|+.|+++++..+..+|. +..+++|++|++.+|...   ...+..+.++++|+
T Consensus       610 ~~~L~~L~L~~s~-l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~-ls~l~~Le~L~L~~c~~L---~~lp~si~~L~~L~  684 (1153)
T PLN03210        610 PENLVKLQMQGSK-LEKLWDGVHSLTGLRNIDLRGSKNLKEIPD-LSMATNLETLKLSDCSSL---VELPSSIQYLNKLE  684 (1153)
T ss_pred             ccCCcEEECcCcc-ccccccccccCCCCCEEECCCCCCcCcCCc-cccCCcccEEEecCCCCc---cccchhhhccCCCC
Confidence            4555556665555 555555555566666666665544555543 555566666666555433   23444555556666


Q ss_pred             eeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCC
Q 044247           91 QCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRR  170 (333)
Q Consensus        91 ~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~  170 (333)
                      .|.+..+..+.....    .+ .+++|+.|++++|.                 ....++.   ...+|+.|+++++....
T Consensus       685 ~L~L~~c~~L~~Lp~----~i-~l~sL~~L~Lsgc~-----------------~L~~~p~---~~~nL~~L~L~~n~i~~  739 (1153)
T PLN03210        685 DLDMSRCENLEILPT----GI-NLKSLYRLNLSGCS-----------------RLKSFPD---ISTNISWLDLDETAIEE  739 (1153)
T ss_pred             EEeCCCCCCcCccCC----cC-CCCCCCEEeCCCCC-----------------Ccccccc---ccCCcCeeecCCCcccc
Confidence            665554443322111    11 34556666666552                 1112221   12456667776666555


Q ss_pred             CccCchhhhcCCCccEEEeecCCCC------CCCCC--CCCCccccceecccccccccccccccCCCCCCCCCccccCCC
Q 044247          171 NVVPKNWVMSLTNLRVLHLFECRNC------EHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPK  242 (333)
Q Consensus       171 ~~~~~~~~~~~~~L~~L~l~~~~~~------~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~  242 (333)
                        + |..+ .+++|+.|.+.++...      ..++.  ...+++|+.|++++|..+..+|..            ++.+++
T Consensus       740 --l-P~~~-~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~s------------i~~L~~  803 (1153)
T PLN03210        740 --F-PSNL-RLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPSS------------IQNLHK  803 (1153)
T ss_pred             --c-cccc-cccccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccChh------------hhCCCC
Confidence              5 5443 4666777766654211      11111  223468889999988877777665            678999


Q ss_pred             ccEEeeccCccccccccCCccccccccCCCcceEecccCcCccc--------------------CCcccCCCCCcceEEE
Q 044247          243 LKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKA--------------------LPDHLLQKSTLQNLEI  302 (333)
Q Consensus       243 L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~--------------------l~~~~~~l~~L~~L~l  302 (333)
                      |+.|++.+|.+++.++...       .+++|++|++++|..++.                    +|..+..+++|+.|++
T Consensus       804 L~~L~Ls~C~~L~~LP~~~-------~L~sL~~L~Ls~c~~L~~~p~~~~nL~~L~Ls~n~i~~iP~si~~l~~L~~L~L  876 (1153)
T PLN03210        804 LEHLEIENCINLETLPTGI-------NLESLESLDLSGCSRLRTFPDISTNISDLNLSRTGIEEVPWWIEKFSNLSFLDM  876 (1153)
T ss_pred             CCEEECCCCCCcCeeCCCC-------CccccCEEECCCCCccccccccccccCEeECCCCCCccChHHHhcCCCCCEEEC
Confidence            9999999998887665321       466777777777766543                    4445566889999999


Q ss_pred             cccChhhHhh
Q 044247          303 WGACHILQER  312 (333)
Q Consensus       303 ~~~c~~l~~~  312 (333)
                       .+|..++..
T Consensus       877 -~~C~~L~~l  885 (1153)
T PLN03210        877 -NGCNNLQRV  885 (1153)
T ss_pred             -CCCCCcCcc
Confidence             999888764

syringae 6; Provisional

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

Probab=99.76  E-value=2e-19  Score=160.67  Aligned_cols=64  Identities=16%  Similarity=0.165  Sum_probs=35.8

Q ss_pred             hcCCCcccEEeecCCCccccc-CccccccccccEEecCCCCCccccccc-ccccccCceeeeEEEcCc
Q 044247            8 LCELYNLERVNVSGCSHLREL-PQGIGKLRKLMYLDNDYTDSLRYLPVG-IGELIRLRRVTKFVVCGG   73 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~l-p~~i~~l~~L~~L~l~~~~~~~~~p~~-i~~l~~L~~L~l~~~~~~   73 (333)
                      +..=.++++|++++|. ++.+ -..|.++.+|..|.++.| .+..+|.. +.++++|+.|++..|.+.
T Consensus       169 fp~~~ni~~L~La~N~-It~l~~~~F~~lnsL~tlkLsrN-rittLp~r~Fk~L~~L~~LdLnrN~ir  234 (873)
T KOG4194|consen  169 FPAKVNIKKLNLASNR-ITTLETGHFDSLNSLLTLKLSRN-RITTLPQRSFKRLPKLESLDLNRNRIR  234 (873)
T ss_pred             CCCCCCceEEeecccc-ccccccccccccchheeeecccC-cccccCHHHhhhcchhhhhhcccccee
Confidence            3444556666666666 3322 233555666666666666 44455443 444666666666666554

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

Probab=99.74  E-value=5.3e-20  Score=165.66  Aligned_cols=272  Identities=19%  Similarity=0.180  Sum_probs=187.7

Q ss_pred             CcccchhcCCCcccEEeecCCCcc-cccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCc
Q 044247            2 EKLPETLCELYNLERVNVSGCSHL-RELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSL   80 (333)
Q Consensus         2 ~~lp~~l~~l~~L~~L~l~~~~~~-~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~   80 (333)
                      .++-..+..++.|+.+.++.|..- .-+|..|..+..|..|+++.| .+..+|.++..-.++-.|++++|.+..++... 
T Consensus        68 ~~vhGELs~Lp~LRsv~~R~N~LKnsGiP~diF~l~dLt~lDLShN-qL~EvP~~LE~AKn~iVLNLS~N~IetIPn~l-  145 (1255)
T KOG0444|consen   68 ISVHGELSDLPRLRSVIVRDNNLKNSGIPTDIFRLKDLTILDLSHN-QLREVPTNLEYAKNSIVLNLSYNNIETIPNSL-  145 (1255)
T ss_pred             HhhhhhhccchhhHHHhhhccccccCCCCchhcccccceeeecchh-hhhhcchhhhhhcCcEEEEcccCccccCCchH-
Confidence            345567888999999999999833 368999999999999999999 77899999999999999999999887522222 


Q ss_pred             cccccCccCceeEec--CCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhc----------ccCCcccccccc
Q 044247           81 GSLKKLNLLRQCSID--GLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAG----------RRENEEDEDERL  148 (333)
Q Consensus        81 ~~l~~l~~L~~L~l~--~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~----------~~~~~~~~~~~~  148 (333)
                        +-+++.|-.|++.  .++.++       ..+..+..|++|.+++|.+.  +.+-.+          ...+.+-....+
T Consensus       146 --finLtDLLfLDLS~NrLe~LP-------PQ~RRL~~LqtL~Ls~NPL~--hfQLrQLPsmtsL~vLhms~TqRTl~N~  214 (1255)
T KOG0444|consen  146 --FINLTDLLFLDLSNNRLEMLP-------PQIRRLSMLQTLKLSNNPLN--HFQLRQLPSMTSLSVLHMSNTQRTLDNI  214 (1255)
T ss_pred             --HHhhHhHhhhccccchhhhcC-------HHHHHHhhhhhhhcCCChhh--HHHHhcCccchhhhhhhcccccchhhcC
Confidence              2445555555443  333333       35566677777888777531  110000          001111133444


Q ss_pred             cccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccC
Q 044247          149 LDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLG  227 (333)
Q Consensus       149 ~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~  227 (333)
                      +..+..+.+|..++++.|....  + |+.+-.+++|++|++++| .++.+.. .+...+|++|.++.|+ ++.+|..   
T Consensus       215 Ptsld~l~NL~dvDlS~N~Lp~--v-Pecly~l~~LrrLNLS~N-~iteL~~~~~~W~~lEtLNlSrNQ-Lt~LP~a---  286 (1255)
T KOG0444|consen  215 PTSLDDLHNLRDVDLSENNLPI--V-PECLYKLRNLRRLNLSGN-KITELNMTEGEWENLETLNLSRNQ-LTVLPDA---  286 (1255)
T ss_pred             CCchhhhhhhhhccccccCCCc--c-hHHHhhhhhhheeccCcC-ceeeeeccHHHHhhhhhhccccch-hccchHH---
Confidence            5555566677777777776666  6 776667777777777777 3343332 5556677777777777 6666654   


Q ss_pred             CCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccCh
Q 044247          228 VESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       228 ~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                               +..+++|+.|.+.++ .|    ..++||..++.+..|+.+...+ ++++-+|.++..++.|+.|.+ ..+.
T Consensus       287 ---------vcKL~kL~kLy~n~N-kL----~FeGiPSGIGKL~~Levf~aan-N~LElVPEglcRC~kL~kL~L-~~Nr  350 (1255)
T KOG0444|consen  287 ---------VCKLTKLTKLYANNN-KL----TFEGIPSGIGKLIQLEVFHAAN-NKLELVPEGLCRCVKLQKLKL-DHNR  350 (1255)
T ss_pred             ---------HhhhHHHHHHHhccC-cc----cccCCccchhhhhhhHHHHhhc-cccccCchhhhhhHHHHHhcc-cccc
Confidence                     456777777777663 33    3466888888999999998887 788889999999999999999 7665


Q ss_pred             hhH
Q 044247          308 ILQ  310 (333)
Q Consensus       308 ~l~  310 (333)
                      .++
T Consensus       351 LiT  353 (1255)
T KOG0444|consen  351 LIT  353 (1255)
T ss_pred             eee
Confidence            544

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

Probab=99.71  E-value=1.1e-18  Score=155.93  Aligned_cols=251  Identities=20%  Similarity=0.204  Sum_probs=189.1

Q ss_pred             hhcCCCcccEEeecCCCcccccCccccc-cccccEEecCCCCCcccc-cccccccccCceeeeEEEcCccCCCCCccccc
Q 044247            7 TLCELYNLERVNVSGCSHLRELPQGIGK-LRKLMYLDNDYTDSLRYL-PVGIGELIRLRRVTKFVVCGGYDRACSLGSLK   84 (333)
Q Consensus         7 ~l~~l~~L~~L~l~~~~~~~~lp~~i~~-l~~L~~L~l~~~~~~~~~-p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~   84 (333)
                      ++..+.+|-+|.++.|. +..+|....+ +++|+.|++..| .++.+ -..+..+++|+.|.+..|.+.......+-.+.
T Consensus       192 ~F~~lnsL~tlkLsrNr-ittLp~r~Fk~L~~L~~LdLnrN-~irive~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~  269 (873)
T KOG4194|consen  192 HFDSLNSLLTLKLSRNR-ITTLPQRSFKRLPKLESLDLNRN-RIRIVEGLTFQGLPSLQNLKLQRNDISKLDDGAFYGLE  269 (873)
T ss_pred             cccccchheeeecccCc-ccccCHHHhhhcchhhhhhcccc-ceeeehhhhhcCchhhhhhhhhhcCcccccCcceeeec
Confidence            57788899999999998 8888876555 999999999998 44444 34578999999999999887653344444444


Q ss_pred             cCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEe
Q 044247           85 KLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIH  164 (333)
Q Consensus        85 ~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~  164 (333)
                      +|..|. |..+.+..+..      ..+.++..|+.|++++|.                 +..--...|..+++|+.|+++
T Consensus       270 kme~l~-L~~N~l~~vn~------g~lfgLt~L~~L~lS~Na-----------------I~rih~d~WsftqkL~~LdLs  325 (873)
T KOG4194|consen  270 KMEHLN-LETNRLQAVNE------GWLFGLTSLEQLDLSYNA-----------------IQRIHIDSWSFTQKLKELDLS  325 (873)
T ss_pred             ccceee-cccchhhhhhc------ccccccchhhhhccchhh-----------------hheeecchhhhcccceeEecc
Confidence            444332 44445444333      577788999999999995                 333445778889999999999


Q ss_pred             eecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCCCCccccCCC
Q 044247          165 EYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPK  242 (333)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~  242 (333)
                      .|...+  ++++.+..+..|+.|.|++| .++.+..  +.++.+|+.|++++|. +....++.-+.        +.++++
T Consensus       326 ~N~i~~--l~~~sf~~L~~Le~LnLs~N-si~~l~e~af~~lssL~~LdLr~N~-ls~~IEDaa~~--------f~gl~~  393 (873)
T KOG4194|consen  326 SNRITR--LDEGSFRVLSQLEELNLSHN-SIDHLAEGAFVGLSSLHKLDLRSNE-LSWCIEDAAVA--------FNGLPS  393 (873)
T ss_pred             cccccc--CChhHHHHHHHhhhhccccc-chHHHHhhHHHHhhhhhhhcCcCCe-EEEEEecchhh--------hccchh
Confidence            999988  75677888999999999999 5666655  7778999999999998 54443332221        678999


Q ss_pred             ccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEE
Q 044247          243 LKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEI  302 (333)
Q Consensus       243 L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l  302 (333)
                      |++|++.+ ++++.++-.     .+..++.|++|++.++.....-|..+..+ .|++|.+
T Consensus       394 LrkL~l~g-Nqlk~I~kr-----Afsgl~~LE~LdL~~NaiaSIq~nAFe~m-~Lk~Lv~  446 (873)
T KOG4194|consen  394 LRKLRLTG-NQLKSIPKR-----AFSGLEALEHLDLGDNAIASIQPNAFEPM-ELKELVM  446 (873)
T ss_pred             hhheeecC-ceeeecchh-----hhccCcccceecCCCCcceeecccccccc-hhhhhhh
Confidence            99999999 467666522     34568999999999977666666677766 8888877

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

Probab=99.66  E-value=4.8e-19  Score=151.71  Aligned_cols=251  Identities=22%  Similarity=0.225  Sum_probs=195.1

Q ss_pred             cccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccc
Q 044247            3 KLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGS   82 (333)
Q Consensus         3 ~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~   82 (333)
                      .+-..+.++..|.+|++++++ +.++|++++.+..++.++++.| .+..+|+.++.+.++.+++.+.+....    .+.+
T Consensus        59 ~l~~dl~nL~~l~vl~~~~n~-l~~lp~aig~l~~l~~l~vs~n-~ls~lp~~i~s~~~l~~l~~s~n~~~e----l~~~  132 (565)
T KOG0472|consen   59 VLREDLKNLACLTVLNVHDNK-LSQLPAAIGELEALKSLNVSHN-KLSELPEQIGSLISLVKLDCSSNELKE----LPDS  132 (565)
T ss_pred             hccHhhhcccceeEEEeccch-hhhCCHHHHHHHHHHHhhcccc-hHhhccHHHhhhhhhhhhhccccceee----cCch
Confidence            344567788888899999988 8888888999999999999888 677888888888889988888777654    5666


Q ss_pred             cccCccCceeEec--CCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccE
Q 044247           83 LKKLNLLRQCSID--GLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKE  160 (333)
Q Consensus        83 l~~l~~L~~L~l~--~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~  160 (333)
                      +..+-.+..+...  .+..++       ..+..+.++..+.+.+++                  ..+.+.....++.|+.
T Consensus       133 i~~~~~l~dl~~~~N~i~slp-------~~~~~~~~l~~l~~~~n~------------------l~~l~~~~i~m~~L~~  187 (565)
T KOG0472|consen  133 IGRLLDLEDLDATNNQISSLP-------EDMVNLSKLSKLDLEGNK------------------LKALPENHIAMKRLKH  187 (565)
T ss_pred             HHHHhhhhhhhccccccccCc-------hHHHHHHHHHHhhccccc------------------hhhCCHHHHHHHHHHh
Confidence            6666555554332  222222       345566777788888883                  3444555455788888


Q ss_pred             EEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccC
Q 044247          161 LHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAF  240 (333)
Q Consensus       161 L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l  240 (333)
                      |+...+...+  + |..++.+.+|+.|++..| .+..+|.+++|..|++|+++.|. ++.+|.+.           ...+
T Consensus       188 ld~~~N~L~t--l-P~~lg~l~~L~~LyL~~N-ki~~lPef~gcs~L~Elh~g~N~-i~~lpae~-----------~~~L  251 (565)
T KOG0472|consen  188 LDCNSNLLET--L-PPELGGLESLELLYLRRN-KIRFLPEFPGCSLLKELHVGENQ-IEMLPAEH-----------LKHL  251 (565)
T ss_pred             cccchhhhhc--C-ChhhcchhhhHHHHhhhc-ccccCCCCCccHHHHHHHhcccH-HHhhHHHH-----------hccc
Confidence            8887777766  8 889999999999999998 67788999999999999999998 77777654           4588


Q ss_pred             CCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccChhhH
Q 044247          241 PKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHILQ  310 (333)
Q Consensus       241 ~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~~l~  310 (333)
                      +.+..|++.+ .++++++..      +.-+.+|++|++++ +.+..+|..++++ .|+.|.+ .+.|.-+
T Consensus       252 ~~l~vLDLRd-Nklke~Pde------~clLrsL~rLDlSN-N~is~Lp~sLgnl-hL~~L~l-eGNPlrT  311 (565)
T KOG0472|consen  252 NSLLVLDLRD-NKLKEVPDE------ICLLRSLERLDLSN-NDISSLPYSLGNL-HLKFLAL-EGNPLRT  311 (565)
T ss_pred             ccceeeeccc-cccccCchH------HHHhhhhhhhcccC-CccccCCcccccc-eeeehhh-cCCchHH
Confidence            9999999998 467666644      44889999999998 7889999999988 8999999 8887543

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

Probab=99.60  E-value=3.5e-17  Score=140.41  Aligned_cols=111  Identities=22%  Similarity=0.301  Sum_probs=79.7

Q ss_pred             chhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCcc
Q 044247          175 KNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSE  253 (333)
Q Consensus       175 ~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~  253 (333)
                      |..++.+++|..|++++| .+-++|. ++.+..|+.|+++.|. ...+|...            ....-|+.+ +....+
T Consensus       428 ~~~l~~l~kLt~L~L~NN-~Ln~LP~e~~~lv~Lq~LnlS~Nr-Fr~lP~~~------------y~lq~lEtl-las~nq  492 (565)
T KOG0472|consen  428 PLELSQLQKLTFLDLSNN-LLNDLPEEMGSLVRLQTLNLSFNR-FRMLPECL------------YELQTLETL-LASNNQ  492 (565)
T ss_pred             hHHHHhhhcceeeecccc-hhhhcchhhhhhhhhheecccccc-cccchHHH------------hhHHHHHHH-Hhcccc
Confidence            666778888888888887 5666776 7777888888888885 66666532            122233333 333345


Q ss_pred             ccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccCh
Q 044247          254 LEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       254 L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                      +..++.+     .+..+.+|..|++.+ +.+..+|..++.+.+|++|++ ++.|
T Consensus       493 i~~vd~~-----~l~nm~nL~tLDL~n-Ndlq~IPp~LgnmtnL~hLeL-~gNp  539 (565)
T KOG0472|consen  493 IGSVDPS-----GLKNMRNLTTLDLQN-NDLQQIPPILGNMTNLRHLEL-DGNP  539 (565)
T ss_pred             ccccChH-----HhhhhhhcceeccCC-CchhhCChhhccccceeEEEe-cCCc
Confidence            5444433     256889999999987 788899999999999999999 8876

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

Probab=99.57  E-value=8.2e-17  Score=150.90  Aligned_cols=231  Identities=25%  Similarity=0.291  Sum_probs=161.4

Q ss_pred             CcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcc
Q 044247            2 EKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLG   81 (333)
Q Consensus         2 ~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~   81 (333)
                      +.+|.+++.+.+|+.+....|. +..+|..+....+|+.|.+..| .++.+|...+.+.+|++|++..|....    .+.
T Consensus       254 ~~lp~wi~~~~nle~l~~n~N~-l~~lp~ri~~~~~L~~l~~~~n-el~yip~~le~~~sL~tLdL~~N~L~~----lp~  327 (1081)
T KOG0618|consen  254 SNLPEWIGACANLEALNANHNR-LVALPLRISRITSLVSLSAAYN-ELEYIPPFLEGLKSLRTLDLQSNNLPS----LPD  327 (1081)
T ss_pred             hcchHHHHhcccceEecccchh-HHhhHHHHhhhhhHHHHHhhhh-hhhhCCCcccccceeeeeeehhccccc----cch
Confidence            4567777777777777777776 5777777777777777777777 566677766677777777777776653    222


Q ss_pred             c-cccCcc-CceeEec--CCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCC
Q 044247           82 S-LKKLNL-LRQCSID--GLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPN  157 (333)
Q Consensus        82 ~-l~~l~~-L~~L~l~--~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  157 (333)
                      . +..+.. ++.+...  .+...+.+.+      ..++.|+.|.+.+|.                 ..++....+..+++
T Consensus       328 ~~l~v~~~~l~~ln~s~n~l~~lp~~~e------~~~~~Lq~LylanN~-----------------Ltd~c~p~l~~~~h  384 (1081)
T KOG0618|consen  328 NFLAVLNASLNTLNVSSNKLSTLPSYEE------NNHAALQELYLANNH-----------------LTDSCFPVLVNFKH  384 (1081)
T ss_pred             HHHhhhhHHHHHHhhhhccccccccccc------hhhHHHHHHHHhcCc-----------------ccccchhhhccccc
Confidence            1 111111 1111111  1111111111      123567777777776                 45566778888999


Q ss_pred             ccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCCCCCc
Q 044247          158 LKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSS  236 (333)
Q Consensus       158 L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~  236 (333)
                      |+.|++++|....  |+...+.+++.|+.|++++| .++.+|. +..++.|++|...+|. +..+|+             
T Consensus       385 LKVLhLsyNrL~~--fpas~~~kle~LeeL~LSGN-kL~~Lp~tva~~~~L~tL~ahsN~-l~~fPe-------------  447 (1081)
T KOG0618|consen  385 LKVLHLSYNRLNS--FPASKLRKLEELEELNLSGN-KLTTLPDTVANLGRLHTLRAHSNQ-LLSFPE-------------  447 (1081)
T ss_pred             eeeeeeccccccc--CCHHHHhchHHhHHHhcccc-hhhhhhHHHHhhhhhHHHhhcCCc-eeechh-------------
Confidence            9999999998877  73445668999999999999 6777777 8889999999999988 667773             


Q ss_pred             cccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCc
Q 044247          237 VIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCREL  284 (333)
Q Consensus       237 ~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l  284 (333)
                      +..+++|+.++++. ++|+.+.+....|+     |+|++|+++++.++
T Consensus       448 ~~~l~qL~~lDlS~-N~L~~~~l~~~~p~-----p~LkyLdlSGN~~l  489 (1081)
T KOG0618|consen  448 LAQLPQLKVLDLSC-NNLSEVTLPEALPS-----PNLKYLDLSGNTRL  489 (1081)
T ss_pred             hhhcCcceEEeccc-chhhhhhhhhhCCC-----cccceeeccCCccc
Confidence            67999999999986 68888776665443     89999999998764

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.48  E-value=2.3e-13  Score=130.57  Aligned_cols=237  Identities=20%  Similarity=0.191  Sum_probs=132.4

Q ss_pred             CcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcc
Q 044247            2 EKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLG   81 (333)
Q Consensus         2 ~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~   81 (333)
                      +.+|..+.  .+|+.|++.+|. +..+|.   .+++|++|++++| .+..+|..   .++|++|++.+|....    .+.
T Consensus       214 tsLP~~l~--~~L~~L~L~~N~-Lt~LP~---lp~~Lk~LdLs~N-~LtsLP~l---p~sL~~L~Ls~N~L~~----Lp~  279 (788)
T PRK15387        214 TTLPDCLP--AHITTLVIPDNN-LTSLPA---LPPELRTLEVSGN-QLTSLPVL---PPGLLELSIFSNPLTH----LPA  279 (788)
T ss_pred             CcCCcchh--cCCCEEEccCCc-CCCCCC---CCCCCcEEEecCC-ccCcccCc---ccccceeeccCCchhh----hhh
Confidence            45677665  367888888776 666665   2567888888777 56666642   3567777777665442    111


Q ss_pred             ccccCccCceeEecC--CCCCCChhhHHHHhhcccCCccceEEeecCCCCCch-hhhc---ccCCcccccccccccCCCC
Q 044247           82 SLKKLNLLRQCSIDG--LGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDE-EQAG---RRENEEDEDERLLDALGPP  155 (333)
Q Consensus        82 ~l~~l~~L~~L~l~~--~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~-~~~~---~~~~~~~~~~~~~~~l~~~  155 (333)
                      ..   .+|+.|.+..  +..++.          ..++|+.|++++|++..... +...   ...++  ....++.   ..
T Consensus       280 lp---~~L~~L~Ls~N~Lt~LP~----------~p~~L~~LdLS~N~L~~Lp~lp~~L~~L~Ls~N--~L~~LP~---lp  341 (788)
T PRK15387        280 LP---SGLCKLWIFGNQLTSLPV----------LPPGLQELSVSDNQLASLPALPSELCKLWAYNN--QLTSLPT---LP  341 (788)
T ss_pred             ch---hhcCEEECcCCccccccc----------cccccceeECCCCccccCCCCcccccccccccC--ccccccc---cc
Confidence            11   2344444432  222211          13567788887775432100 0000   00000  0011110   11


Q ss_pred             CCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCC
Q 044247          156 PNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGS  235 (333)
Q Consensus       156 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~  235 (333)
                      .+|+.|++++|....  + |..   .++|+.|++++| .+..+|..  ..+|+.|++++|. +..+|.            
T Consensus       342 ~~Lq~LdLS~N~Ls~--L-P~l---p~~L~~L~Ls~N-~L~~LP~l--~~~L~~LdLs~N~-Lt~LP~------------  399 (788)
T PRK15387        342 SGLQELSVSDNQLAS--L-PTL---PSELYKLWAYNN-RLTSLPAL--PSGLKELIVSGNR-LTSLPV------------  399 (788)
T ss_pred             cccceEecCCCccCC--C-CCC---Ccccceehhhcc-ccccCccc--ccccceEEecCCc-ccCCCC------------
Confidence            356666666666555  5 432   345666666665 34445442  2457777777765 444432            


Q ss_pred             ccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccCh
Q 044247          236 SVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       236 ~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                         ..++|+.|+++++ .+..++      .   .+.+|+.|++++ +.++.+|..+..+++|+.|++ .+++
T Consensus       400 ---l~s~L~~LdLS~N-~LssIP------~---l~~~L~~L~Ls~-NqLt~LP~sl~~L~~L~~LdL-s~N~  456 (788)
T PRK15387        400 ---LPSELKELMVSGN-RLTSLP------M---LPSGLLSLSVYR-NQLTRLPESLIHLSSETTVNL-EGNP  456 (788)
T ss_pred             ---cccCCCEEEccCC-cCCCCC------c---chhhhhhhhhcc-CcccccChHHhhccCCCeEEC-CCCC
Confidence               2346788888875 354433      1   134678888887 567788888888899999999 8875

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

Probab=99.44  E-value=3.9e-15  Score=139.82  Aligned_cols=127  Identities=27%  Similarity=0.449  Sum_probs=98.3

Q ss_pred             CCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCC
Q 044247          155 PPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDT  232 (333)
Q Consensus       155 ~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~  232 (333)
                      ++.|+.|.+.+|.....-+  ..+.++.+|+.|+|++| .++.+|.  +.+++.|++|++++|. ++.+|..        
T Consensus       358 ~~~Lq~LylanN~Ltd~c~--p~l~~~~hLKVLhLsyN-rL~~fpas~~~kle~LeeL~LSGNk-L~~Lp~t--------  425 (1081)
T KOG0618|consen  358 HAALQELYLANNHLTDSCF--PVLVNFKHLKVLHLSYN-RLNSFPASKLRKLEELEELNLSGNK-LTTLPDT--------  425 (1081)
T ss_pred             hHHHHHHHHhcCcccccch--hhhccccceeeeeeccc-ccccCCHHHHhchHHhHHHhcccch-hhhhhHH--------
Confidence            3567778888877666423  34567999999999999 6778887  8889999999999998 8888866        


Q ss_pred             CCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCccc--CCcccCCCCCcceEEEcccChh
Q 044247          233 DGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKA--LPDHLLQKSTLQNLEIWGACHI  308 (333)
Q Consensus       233 ~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~--l~~~~~~l~~L~~L~l~~~c~~  308 (333)
                          +..++.|++|...+ +.+..+|       .+..++.|+.++++ |+.++.  ++.... .++|+.|++ ++++.
T Consensus       426 ----va~~~~L~tL~ahs-N~l~~fP-------e~~~l~qL~~lDlS-~N~L~~~~l~~~~p-~p~LkyLdl-SGN~~  488 (1081)
T KOG0618|consen  426 ----VANLGRLHTLRAHS-NQLLSFP-------ELAQLPQLKVLDLS-CNNLSEVTLPEALP-SPNLKYLDL-SGNTR  488 (1081)
T ss_pred             ----HHhhhhhHHHhhcC-Cceeech-------hhhhcCcceEEecc-cchhhhhhhhhhCC-Ccccceeec-cCCcc
Confidence                67889999998887 4555555       23478999999998 577764  444333 389999999 98874

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

Probab=99.42  E-value=3.1e-15  Score=114.50  Aligned_cols=164  Identities=24%  Similarity=0.246  Sum_probs=123.7

Q ss_pred             ccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCceeEe--cCCCCCCChh
Q 044247           27 ELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSI--DGLGGVSDAG  104 (333)
Q Consensus        27 ~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l--~~~~~~~~~~  104 (333)
                      ++|. +..+.+...|.++.| .+..+|..++.+.+|+.|+++++++..    .+..++.+++|+.|.+  +.+..++   
T Consensus        25 ~~~g-Lf~~s~ITrLtLSHN-Kl~~vppnia~l~nlevln~~nnqie~----lp~~issl~klr~lnvgmnrl~~lp---   95 (264)
T KOG0617|consen   25 ELPG-LFNMSNITRLTLSHN-KLTVVPPNIAELKNLEVLNLSNNQIEE----LPTSISSLPKLRILNVGMNRLNILP---   95 (264)
T ss_pred             hccc-ccchhhhhhhhcccC-ceeecCCcHHHhhhhhhhhcccchhhh----cChhhhhchhhhheecchhhhhcCc---
Confidence            3444 556677777778887 667777778888888888888777755    6777777777777544  3333333   


Q ss_pred             hHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCc
Q 044247          105 EARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNL  184 (333)
Q Consensus       105 ~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L  184 (333)
                          ..++.++.|+.|++.+|++                .....+..|..+..|+.|.++++.+..  + |..++.+.+|
T Consensus        96 ----rgfgs~p~levldltynnl----------------~e~~lpgnff~m~tlralyl~dndfe~--l-p~dvg~lt~l  152 (264)
T KOG0617|consen   96 ----RGFGSFPALEVLDLTYNNL----------------NENSLPGNFFYMTTLRALYLGDNDFEI--L-PPDVGKLTNL  152 (264)
T ss_pred             ----cccCCCchhhhhhcccccc----------------ccccCCcchhHHHHHHHHHhcCCCccc--C-Chhhhhhcce
Confidence                3778889999999998875                334556777778889999999998887  7 8889999999


Q ss_pred             cEEEeecCCCCCCCCC-CCCCccccceeccccccccccccc
Q 044247          185 RVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNE  224 (333)
Q Consensus       185 ~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~  224 (333)
                      +.|.+.+|+.+ .+|. ++.++.|++|++.+|. ++.+|.+
T Consensus       153 qil~lrdndll-~lpkeig~lt~lrelhiqgnr-l~vlppe  191 (264)
T KOG0617|consen  153 QILSLRDNDLL-SLPKEIGDLTRLRELHIQGNR-LTVLPPE  191 (264)
T ss_pred             eEEeeccCchh-hCcHHHHHHHHHHHHhcccce-eeecChh
Confidence            99999998544 4554 8889999999999988 6666553

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.41  E-value=3.7e-13  Score=129.66  Aligned_cols=233  Identities=14%  Similarity=0.152  Sum_probs=139.4

Q ss_pred             CcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcc
Q 044247            2 EKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLG   81 (333)
Q Consensus         2 ~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~   81 (333)
                      +.+|..+.  ++|+.|++++|. +..+|..+.  ++|+.|++++| .+..+|..+.  .+|+.|++++|....    .+.
T Consensus       191 tsLP~~Ip--~~L~~L~Ls~N~-LtsLP~~l~--~nL~~L~Ls~N-~LtsLP~~l~--~~L~~L~Ls~N~L~~----LP~  258 (754)
T PRK15370        191 TTIPACIP--EQITTLILDNNE-LKSLPENLQ--GNIKTLYANSN-QLTSIPATLP--DTIQEMELSINRITE----LPE  258 (754)
T ss_pred             CcCCcccc--cCCcEEEecCCC-CCcCChhhc--cCCCEEECCCC-ccccCChhhh--ccccEEECcCCccCc----CCh
Confidence            45666553  467788888776 667776554  47888888877 5566665442  467788877776553    233


Q ss_pred             ccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEE
Q 044247           82 SLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKEL  161 (333)
Q Consensus        82 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L  161 (333)
                      .+.  .+|+.|++... .+....    ..+  .++|+.|++++|.+.                  .++..+  .++|+.|
T Consensus       259 ~l~--s~L~~L~Ls~N-~L~~LP----~~l--~~sL~~L~Ls~N~Lt------------------~LP~~l--p~sL~~L  309 (754)
T PRK15370        259 RLP--SALQSLDLFHN-KISCLP----ENL--PEELRYLSVYDNSIR------------------TLPAHL--PSGITHL  309 (754)
T ss_pred             hHh--CCCCEEECcCC-ccCccc----ccc--CCCCcEEECCCCccc------------------cCcccc--hhhHHHH
Confidence            332  35666655421 111111    111  146778888777432                  222222  1367777


Q ss_pred             EEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccCC
Q 044247          162 HIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFP  241 (333)
Q Consensus       162 ~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~  241 (333)
                      ++++|....  + |..+  +++|+.|++++| .+..+|. .-+++|+.|++++|. +..+|..              ..+
T Consensus       310 ~Ls~N~Lt~--L-P~~l--~~sL~~L~Ls~N-~Lt~LP~-~l~~sL~~L~Ls~N~-L~~LP~~--------------lp~  367 (754)
T PRK15370        310 NVQSNSLTA--L-PETL--PPGLKTLEAGEN-ALTSLPA-SLPPELQVLDVSKNQ-ITVLPET--------------LPP  367 (754)
T ss_pred             HhcCCcccc--C-Cccc--cccceeccccCC-ccccCCh-hhcCcccEEECCCCC-CCcCChh--------------hcC
Confidence            777776665  5 5433  467888888887 4455554 113678888888876 5555432              235


Q ss_pred             CccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCccc----CCCCCcceEEEcccChh
Q 044247          242 KLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHL----LQKSTLQNLEIWGACHI  308 (333)
Q Consensus       242 ~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~----~~l~~L~~L~l~~~c~~  308 (333)
                      +|++|++++| ++..++.      .+  .+.|+.|++++ +.+..+|..+    ...+++..+++ .+++.
T Consensus       368 ~L~~LdLs~N-~Lt~LP~------~l--~~sL~~LdLs~-N~L~~LP~sl~~~~~~~~~l~~L~L-~~Npl  427 (754)
T PRK15370        368 TITTLDVSRN-ALTNLPE------NL--PAALQIMQASR-NNLVRLPESLPHFRGEGPQPTRIIV-EYNPF  427 (754)
T ss_pred             CcCEEECCCC-cCCCCCH------hH--HHHHHHHhhcc-CCcccCchhHHHHhhcCCCccEEEe-eCCCc
Confidence            7888888885 4544432      11  24688888887 4566666533    33577888888 77663

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

Probab=99.41  E-value=3.5e-14  Score=125.67  Aligned_cols=39  Identities=18%  Similarity=0.150  Sum_probs=19.2

Q ss_pred             hcCCCcccEEeecCCCcc----cccCccccccccccEEecCCC
Q 044247            8 LCELYNLERVNVSGCSHL----RELPQGIGKLRKLMYLDNDYT   46 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~----~~lp~~i~~l~~L~~L~l~~~   46 (333)
                      +..+.+|++|++.+|...    ..++..+...++|++++++++
T Consensus        19 ~~~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~   61 (319)
T cd00116          19 LPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLN   61 (319)
T ss_pred             HHHHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEecccc
Confidence            334445556666655521    223444444555555555554

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

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

Probab=99.38  E-value=1.2e-14  Score=111.22  Aligned_cols=184  Identities=21%  Similarity=0.233  Sum_probs=108.5

Q ss_pred             hcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCc
Q 044247            8 LCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLN   87 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~   87 (333)
                      +..+.+...|.++.|+ +..+|+.|..+.+|+.|++..| .++.+|..+..++.|++|++.-+....    .+.+++.++
T Consensus        29 Lf~~s~ITrLtLSHNK-l~~vppnia~l~nlevln~~nn-qie~lp~~issl~klr~lnvgmnrl~~----lprgfgs~p  102 (264)
T KOG0617|consen   29 LFNMSNITRLTLSHNK-LTVVPPNIAELKNLEVLNLSNN-QIEELPTSISSLPKLRILNVGMNRLNI----LPRGFGSFP  102 (264)
T ss_pred             ccchhhhhhhhcccCc-eeecCCcHHHhhhhhhhhcccc-hhhhcChhhhhchhhhheecchhhhhc----CccccCCCc
Confidence            3344555555555555 5555555555555665555555 445555555555555555555444332    444555555


Q ss_pred             cCceeEec--CCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEee
Q 044247           88 LLRQCSID--GLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHE  165 (333)
Q Consensus        88 ~L~~L~l~--~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~  165 (333)
                      .|+.|++.  .+..     ..+...+..+..|+.|.+..|                  ...-++..++.+.+|+.|.+++
T Consensus       103 ~levldltynnl~e-----~~lpgnff~m~tlralyl~dn------------------dfe~lp~dvg~lt~lqil~lrd  159 (264)
T KOG0617|consen  103 ALEVLDLTYNNLNE-----NSLPGNFFYMTTLRALYLGDN------------------DFEILPPDVGKLTNLQILSLRD  159 (264)
T ss_pred             hhhhhhcccccccc-----ccCCcchhHHHHHHHHHhcCC------------------CcccCChhhhhhcceeEEeecc
Confidence            55554432  1111     112224445566777777777                  3345566777888888888888


Q ss_pred             ecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCC---ccccceeccccccccccccc
Q 044247          166 YRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKL---TSLEDLYIAGMKSVKRVGNE  224 (333)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l---~~L~~L~l~~~~~l~~i~~~  224 (333)
                      +...+  + |..++.+..|+.|++.+| .++.+|+ ++.+   .+=+.+.+..|+.+..+.+.
T Consensus       160 ndll~--l-pkeig~lt~lrelhiqgn-rl~vlppel~~l~l~~~k~v~r~E~NPwv~pIaeQ  218 (264)
T KOG0617|consen  160 NDLLS--L-PKEIGDLTRLRELHIQGN-RLTVLPPELANLDLVGNKQVMRMEENPWVNPIAEQ  218 (264)
T ss_pred             Cchhh--C-cHHHHHHHHHHHHhcccc-eeeecChhhhhhhhhhhHHHHhhhhCCCCChHHHH
Confidence            88888  8 888988999999999998 4556665 4432   22244555566655555443

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.37  E-value=7.1e-13  Score=129.66  Aligned_cols=206  Identities=26%  Similarity=0.284  Sum_probs=129.9

Q ss_pred             hhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccC
Q 044247            7 TLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKL   86 (333)
Q Consensus         7 ~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l   86 (333)
                      .+..|+.|++||+++|..+..+|..|+.+=+||+|+++++ .+..+|.+++++..|.+|++..+....   ..+.....|
T Consensus       566 ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t-~I~~LP~~l~~Lk~L~~Lnl~~~~~l~---~~~~i~~~L  641 (889)
T KOG4658|consen  566 FFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDT-GISHLPSGLGNLKKLIYLNLEVTGRLE---SIPGILLEL  641 (889)
T ss_pred             HHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCC-CccccchHHHHHHhhheeccccccccc---cccchhhhc
Confidence            3677999999999999888999999999999999999998 778999999999999999999887663   234555669


Q ss_pred             ccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhc----cc--CCcc----cccccccccCCCCC
Q 044247           87 NLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAG----RR--ENEE----DEDERLLDALGPPP  156 (333)
Q Consensus        87 ~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~----~~--~~~~----~~~~~~~~~l~~~~  156 (333)
                      .+|++|.+..-.  ..........+..+.+|+.+.+.....  ...+...    ++  ....    .........+..+.
T Consensus       642 ~~Lr~L~l~~s~--~~~~~~~l~el~~Le~L~~ls~~~~s~--~~~e~l~~~~~L~~~~~~l~~~~~~~~~~~~~~~~l~  717 (889)
T KOG4658|consen  642 QSLRVLRLPRSA--LSNDKLLLKELENLEHLENLSITISSV--LLLEDLLGMTRLRSLLQSLSIEGCSKRTLISSLGSLG  717 (889)
T ss_pred             ccccEEEeeccc--cccchhhHHhhhcccchhhheeecchh--HhHhhhhhhHHHHHHhHhhhhcccccceeeccccccc
Confidence            999998887543  112233345566667777777654421  0000000    00  0000    01122334445566


Q ss_pred             CccEEEEeeecCCCCccCchh-----hhc-CCCccEEEeecCCCCCCCCCCCCCccccceeccccccccccc
Q 044247          157 NLKELHIHEYRGRRNVVPKNW-----VMS-LTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVG  222 (333)
Q Consensus       157 ~L~~L~l~~~~~~~~~~~~~~-----~~~-~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~  222 (333)
                      +|+.|.+.+|.+.+..  ..+     ... |+++..+.+..|....++.+....++|+.|++.+|..++.+.
T Consensus       718 ~L~~L~i~~~~~~e~~--~~~~~~~~~~~~f~~l~~~~~~~~~~~r~l~~~~f~~~L~~l~l~~~~~~e~~i  787 (889)
T KOG4658|consen  718 NLEELSILDCGISEIV--IEWEESLIVLLCFPNLSKVSILNCHMLRDLTWLLFAPHLTSLSLVSCRLLEDII  787 (889)
T ss_pred             CcceEEEEcCCCchhh--cccccccchhhhHHHHHHHHhhccccccccchhhccCcccEEEEecccccccCC
Confidence            6777777766664310  111     111 445555555555555554444445677777777776655543

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

Probab=99.31  E-value=2.3e-13  Score=120.49  Aligned_cols=269  Identities=17%  Similarity=0.115  Sum_probs=163.6

Q ss_pred             EEeecCCCcc-cccCccccccccccEEecCCCCCc----ccccccccccccCceeeeEEEcCcc---CCCCCccccccCc
Q 044247           16 RVNVSGCSHL-RELPQGIGKLRKLMYLDNDYTDSL----RYLPVGIGELIRLRRVTKFVVCGGY---DRACSLGSLKKLN   87 (333)
Q Consensus        16 ~L~l~~~~~~-~~lp~~i~~l~~L~~L~l~~~~~~----~~~p~~i~~l~~L~~L~l~~~~~~~---~~~~~~~~l~~l~   87 (333)
                      .|++..+... ...+..+..+++|+.|++++|...    ..++..+...++++++++..+....   ........+..++
T Consensus         2 ~l~L~~~~l~~~~~~~~~~~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~   81 (319)
T cd00116           2 QLSLKGELLKTERATELLPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGC   81 (319)
T ss_pred             ccccccCcccccchHHHHHHHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcC
Confidence            3566666533 345555677888999999999431    2345556677889999988765441   0011223456688


Q ss_pred             cCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCC-CCccEEEEeee
Q 044247           88 LLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPP-PNLKELHIHEY  166 (333)
Q Consensus        88 ~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~L~~L~l~~~  166 (333)
                      +|+.|++.+..-.......+...... ++|++|++++|.+.+.             ....+...+..+ ++|+.|++++|
T Consensus        82 ~L~~L~l~~~~~~~~~~~~~~~l~~~-~~L~~L~ls~~~~~~~-------------~~~~l~~~l~~~~~~L~~L~L~~n  147 (319)
T cd00116          82 GLQELDLSDNALGPDGCGVLESLLRS-SSLQELKLNNNGLGDR-------------GLRLLAKGLKDLPPALEKLVLGRN  147 (319)
T ss_pred             ceeEEEccCCCCChhHHHHHHHHhcc-CcccEEEeeCCccchH-------------HHHHHHHHHHhCCCCceEEEcCCC
Confidence            99999887644322222223223333 5699999999975431             222333455566 89999999998


Q ss_pred             cCCCC---ccCchhhhcCCCccEEEeecCCCCCC----CC-CCCCCccccceecccccccccccccccCCCCCCCCCccc
Q 044247          167 RGRRN---VVPKNWVMSLTNLRVLHLFECRNCEH----LP-PLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVI  238 (333)
Q Consensus       167 ~~~~~---~~~~~~~~~~~~L~~L~l~~~~~~~~----l~-~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~  238 (333)
                      .....   .+ ...+..+++|+.|++++|...+.    ++ .+..+++|++|++++|. +.......+...       +.
T Consensus       148 ~l~~~~~~~~-~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~-i~~~~~~~l~~~-------~~  218 (319)
T cd00116         148 RLEGASCEAL-AKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNG-LTDEGASALAET-------LA  218 (319)
T ss_pred             cCCchHHHHH-HHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCc-cChHHHHHHHHH-------hc
Confidence            86631   02 33455678999999999843321    11 13445799999999987 432221111110       45


Q ss_pred             cCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCc----ccCCcccCCCCCcceEEEcccChhh
Q 044247          239 AFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCREL----KALPDHLLQKSTLQNLEIWGACHIL  309 (333)
Q Consensus       239 ~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l----~~l~~~~~~l~~L~~L~l~~~c~~l  309 (333)
                      .+++|++|++++|. +.+..............+.|++|++.+|...    ..+...+..+++|+.+++ .++.--
T Consensus       219 ~~~~L~~L~ls~n~-l~~~~~~~l~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~~~~~~~~L~~l~l-~~N~l~  291 (319)
T cd00116         219 SLKSLEVLNLGDNN-LTDAGAAALASALLSPNISLLTLSLSCNDITDDGAKDLAEVLAEKESLLELDL-RGNKFG  291 (319)
T ss_pred             ccCCCCEEecCCCc-CchHHHHHHHHHHhccCCCceEEEccCCCCCcHHHHHHHHHHhcCCCccEEEC-CCCCCc
Confidence            78899999999963 4432211000000012489999999998543    123344555789999999 887643

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

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.25  E-value=7.4e-12  Score=120.73  Aligned_cols=217  Identities=16%  Similarity=0.168  Sum_probs=144.7

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCc
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSL   80 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~   80 (333)
                      |+.+|..+.  .+|++|++++|. +..+|..+.  ++|+.|++++| .+..+|..+.  .+|+.|++++|....    .+
T Consensus       211 LtsLP~~l~--~nL~~L~Ls~N~-LtsLP~~l~--~~L~~L~Ls~N-~L~~LP~~l~--s~L~~L~Ls~N~L~~----LP  278 (754)
T PRK15370        211 LKSLPENLQ--GNIKTLYANSNQ-LTSIPATLP--DTIQEMELSIN-RITELPERLP--SALQSLDLFHNKISC----LP  278 (754)
T ss_pred             CCcCChhhc--cCCCEEECCCCc-cccCChhhh--ccccEEECcCC-ccCcCChhHh--CCCCEEECcCCccCc----cc
Confidence            356777665  589999999998 778887554  47999999999 5678887653  589999998887654    33


Q ss_pred             cccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccE
Q 044247           81 GSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKE  160 (333)
Q Consensus        81 ~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~  160 (333)
                      ..+.  ++|+.|.+... .+.....    .+  .++|+.|++++|.+.                  .++..+  .++|+.
T Consensus       279 ~~l~--~sL~~L~Ls~N-~Lt~LP~----~l--p~sL~~L~Ls~N~Lt------------------~LP~~l--~~sL~~  329 (754)
T PRK15370        279 ENLP--EELRYLSVYDN-SIRTLPA----HL--PSGITHLNVQSNSLT------------------ALPETL--PPGLKT  329 (754)
T ss_pred             cccC--CCCcEEECCCC-ccccCcc----cc--hhhHHHHHhcCCccc------------------cCCccc--ccccee
Confidence            3332  36777776542 1221111    11  146888888888532                  222222  257889


Q ss_pred             EEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccC
Q 044247          161 LHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAF  240 (333)
Q Consensus       161 L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l  240 (333)
                      |++++|....  + |..+  +++|+.|++++| .+..+|. .-.++|+.|++++|. +..+|..              ..
T Consensus       330 L~Ls~N~Lt~--L-P~~l--~~sL~~L~Ls~N-~L~~LP~-~lp~~L~~LdLs~N~-Lt~LP~~--------------l~  387 (754)
T PRK15370        330 LEAGENALTS--L-PASL--PPELQVLDVSKN-QITVLPE-TLPPTITTLDVSRNA-LTNLPEN--------------LP  387 (754)
T ss_pred             ccccCCcccc--C-Chhh--cCcccEEECCCC-CCCcCCh-hhcCCcCEEECCCCc-CCCCCHh--------------HH
Confidence            9998888776  7 6555  478999999998 4555664 123689999999987 6666543              12


Q ss_pred             CCccEEeeccCccccccccCCccccccccCCCcceEecccCcC
Q 044247          241 PKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRE  283 (333)
Q Consensus       241 ~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~  283 (333)
                      +.|+.|+++++ ++..++  ..+|.....++++..|++.+++.
T Consensus       388 ~sL~~LdLs~N-~L~~LP--~sl~~~~~~~~~l~~L~L~~Npl  427 (754)
T PRK15370        388 AALQIMQASRN-NLVRLP--ESLPHFRGEGPQPTRIIVEYNPF  427 (754)
T ss_pred             HHHHHHhhccC-CcccCc--hhHHHHhhcCCCccEEEeeCCCc
Confidence            36888888884 555444  22334444568888888887653

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.21  E-value=1.3e-10  Score=111.77  Aligned_cols=227  Identities=19%  Similarity=0.103  Sum_probs=130.1

Q ss_pred             CcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCce
Q 044247           12 YNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQ   91 (333)
Q Consensus        12 ~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~   91 (333)
                      ..-..|+++++. +..+|..+.  ++|+.|++..| .++.+|..   +++|++|++++|....    .+..   .++|+.
T Consensus       201 ~~~~~LdLs~~~-LtsLP~~l~--~~L~~L~L~~N-~Lt~LP~l---p~~Lk~LdLs~N~Lts----LP~l---p~sL~~  266 (788)
T PRK15387        201 NGNAVLNVGESG-LTTLPDCLP--AHITTLVIPDN-NLTSLPAL---PPELRTLEVSGNQLTS----LPVL---PPGLLE  266 (788)
T ss_pred             CCCcEEEcCCCC-CCcCCcchh--cCCCEEEccCC-cCCCCCCC---CCCCcEEEecCCccCc----ccCc---ccccce
Confidence            446689999997 778998775  48999999998 67788763   5899999999987764    2222   245666


Q ss_pred             eEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCC
Q 044247           92 CSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRN  171 (333)
Q Consensus        92 L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~  171 (333)
                      |++.... +...    ..   ...+|+.|++++|.+                  ..++.   ..++|+.|++++|.... 
T Consensus       267 L~Ls~N~-L~~L----p~---lp~~L~~L~Ls~N~L------------------t~LP~---~p~~L~~LdLS~N~L~~-  316 (788)
T PRK15387        267 LSIFSNP-LTHL----PA---LPSGLCKLWIFGNQL------------------TSLPV---LPPGLQELSVSDNQLAS-  316 (788)
T ss_pred             eeccCCc-hhhh----hh---chhhcCEEECcCCcc------------------ccccc---cccccceeECCCCcccc-
Confidence            6654321 1111    11   125788899998853                  22222   23678888888887766 


Q ss_pred             ccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCC-CCcc----ccCCCccEE
Q 044247          172 VVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTD-GSSV----IAFPKLKRL  246 (333)
Q Consensus       172 ~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~-~~~~----~~l~~L~~L  246 (333)
                       + |..   ..+|+.|++++| .++.+|.+  ..+|+.|++++|. ++.+|........+.. ...+    ....+|+.|
T Consensus       317 -L-p~l---p~~L~~L~Ls~N-~L~~LP~l--p~~Lq~LdLS~N~-Ls~LP~lp~~L~~L~Ls~N~L~~LP~l~~~L~~L  387 (788)
T PRK15387        317 -L-PAL---PSELCKLWAYNN-QLTSLPTL--PSGLQELSVSDNQ-LASLPTLPSELYKLWAYNNRLTSLPALPSGLKEL  387 (788)
T ss_pred             -C-CCC---cccccccccccC-cccccccc--ccccceEecCCCc-cCCCCCCCcccceehhhccccccCcccccccceE
Confidence             5 442   345666677666 44445532  2467777777665 5544421000000000 0000    011356666


Q ss_pred             eeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccC
Q 044247          247 RFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGAC  306 (333)
Q Consensus       247 ~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c  306 (333)
                      +++++ .+..++      .   ..++|+.|+++++ .++.+|..   +.+|+.|++ .++
T Consensus       388 dLs~N-~Lt~LP------~---l~s~L~~LdLS~N-~LssIP~l---~~~L~~L~L-s~N  432 (788)
T PRK15387        388 IVSGN-RLTSLP------V---LPSELKELMVSGN-RLTSLPML---PSGLLSLSV-YRN  432 (788)
T ss_pred             EecCC-cccCCC------C---cccCCCEEEccCC-cCCCCCcc---hhhhhhhhh-ccC
Confidence            66653 333322      1   1246777777763 45556643   345666666 543

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.19  E-value=1.4e-11  Score=120.70  Aligned_cols=189  Identities=26%  Similarity=0.311  Sum_probs=127.5

Q ss_pred             CcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcc
Q 044247            2 EKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLG   81 (333)
Q Consensus         2 ~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~   81 (333)
                      ..+|.+|+.|-+||+|+++++. +..+|..++++++|.+|++..+.....+|.....+++|++|.+....... ......
T Consensus       585 ~~LP~~I~~Li~LryL~L~~t~-I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~~~~-~~~~l~  662 (889)
T KOG4658|consen  585 SKLPSSIGELVHLRYLDLSDTG-ISHLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLPRSALSN-DKLLLK  662 (889)
T ss_pred             CcCChHHhhhhhhhcccccCCC-ccccchHHHHHHhhheeccccccccccccchhhhcccccEEEeecccccc-chhhHH
Confidence            5799999999999999999999 88999999999999999999987766666556679999999998765221 133455


Q ss_pred             ccccCccCceeEecCCCC--CC-------------------ChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCC
Q 044247           82 SLKKLNLLRQCSIDGLGG--VS-------------------DAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRREN  140 (333)
Q Consensus        82 ~l~~l~~L~~L~l~~~~~--~~-------------------~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~  140 (333)
                      ++.++.+|+.+.......  +.                   .........+..+.+|+.|.+.++...+..         
T Consensus       663 el~~Le~L~~ls~~~~s~~~~e~l~~~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~~~~~e~~---------  733 (889)
T KOG4658|consen  663 ELENLEHLENLSITISSVLLLEDLLGMTRLRSLLQSLSIEGCSKRTLISSLGSLGNLEELSILDCGISEIV---------  733 (889)
T ss_pred             hhhcccchhhheeecchhHhHhhhhhhHHHHHHhHhhhhcccccceeecccccccCcceEEEEcCCCchhh---------
Confidence            566666666655432111  00                   001112234555788999999888532211         


Q ss_pred             ccccccccccc--CC-CCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccc
Q 044247          141 EEDEDERLLDA--LG-PPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLED  209 (333)
Q Consensus       141 ~~~~~~~~~~~--l~-~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~  209 (333)
                           ......  .. .++++..+.+.+|.+..  . +.|....++|+.|.+.+|..+++..+ ...+..++.
T Consensus       734 -----~~~~~~~~~~~~f~~l~~~~~~~~~~~r--~-l~~~~f~~~L~~l~l~~~~~~e~~i~~~k~~~~l~~  798 (889)
T KOG4658|consen  734 -----IEWEESLIVLLCFPNLSKVSILNCHMLR--D-LTWLLFAPHLTSLSLVSCRLLEDIIPKLKALLELKE  798 (889)
T ss_pred             -----cccccccchhhhHHHHHHHHhhcccccc--c-cchhhccCcccEEEEecccccccCCCHHHHhhhccc
Confidence                 111111  11 13466666677777777  5 67777899999999999987776544 444444554

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

Probab=99.15  E-value=1.2e-12  Score=112.58  Aligned_cols=90  Identities=22%  Similarity=0.231  Sum_probs=46.4

Q ss_pred             Ccccc-hhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCccccccc-ccccccCceeeeEEEcCccCCCCC
Q 044247            2 EKLPE-TLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVG-IGELIRLRRVTKFVVCGGYDRACS   79 (333)
Q Consensus         2 ~~lp~-~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~-i~~l~~L~~L~l~~~~~~~~~~~~   79 (333)
                      +.||. .++.+++|+.|+++.|.....-|.++.++++|..|-+.+++.++.+|.+ ++.+..|+.|.+.-|...   ...
T Consensus        80 ~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrLllNan~i~---Cir  156 (498)
T KOG4237|consen   80 SSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQRLLLNANHIN---CIR  156 (498)
T ss_pred             ccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHHHHhcChhhhc---chh
Confidence            34442 4555666666666666533344555666666666666554455555544 555666666555444433   222


Q ss_pred             ccccccCccCceeEe
Q 044247           80 LGSLKKLNLLRQCSI   94 (333)
Q Consensus        80 ~~~l~~l~~L~~L~l   94 (333)
                      ...+..|+++..|++
T Consensus       157 ~~al~dL~~l~lLsl  171 (498)
T KOG4237|consen  157 QDALRDLPSLSLLSL  171 (498)
T ss_pred             HHHHHHhhhcchhcc
Confidence            333444444444443

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

Probab=99.03  E-value=4.2e-12  Score=110.05  Aligned_cols=162  Identities=16%  Similarity=0.185  Sum_probs=96.7

Q ss_pred             CCCCCccEEEEeeecCCCCccCchhhh-cCCCccEEEeecCCCCCCCC--C-CCCCccccceecccccccccccccccCC
Q 044247          153 GPPPNLKELHIHEYRGRRNVVPKNWVM-SLTNLRVLHLFECRNCEHLP--P-LGKLTSLEDLYIAGMKSVKRVGNEFLGV  228 (333)
Q Consensus       153 ~~~~~L~~L~l~~~~~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~l~--~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~  228 (333)
                      ..+..|+++..+++....... ...++ +.++|+.|-++.|...++.-  . -.+++.|+.+++..|..+.+-  .+.. 
T Consensus       291 ~~c~~lq~l~~s~~t~~~d~~-l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~--tL~s-  366 (483)
T KOG4341|consen  291 CGCHALQVLCYSSCTDITDEV-LWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDG--TLAS-  366 (483)
T ss_pred             hhhhHhhhhcccCCCCCchHH-HHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhh--hHhh-
Confidence            345677777777766544111 11122 57788888888886554422  2 335677888888877533221  1111 


Q ss_pred             CCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCccc-CCcccCCCCCcceEEEcccCh
Q 044247          229 ESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKA-LPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       229 ~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~-l~~~~~~l~~L~~L~l~~~c~  307 (333)
                             ...++|.|+++.++.|....+-.+. ...........|+.+++.+|+.+++ .-..+..+++|+.+++ .+|.
T Consensus       367 -------ls~~C~~lr~lslshce~itD~gi~-~l~~~~c~~~~l~~lEL~n~p~i~d~~Le~l~~c~~Leri~l-~~~q  437 (483)
T KOG4341|consen  367 -------LSRNCPRLRVLSLSHCELITDEGIR-HLSSSSCSLEGLEVLELDNCPLITDATLEHLSICRNLERIEL-IDCQ  437 (483)
T ss_pred             -------hccCCchhccCChhhhhhhhhhhhh-hhhhccccccccceeeecCCCCchHHHHHHHhhCcccceeee-echh
Confidence                   1467888888888887655443100 0011123667888889999988763 3345666889999999 9888


Q ss_pred             hhHhhcccCCCCCCccccCcCceecC
Q 044247          308 ILQERNREETGEDWPMIRHIPDIYIP  333 (333)
Q Consensus       308 ~l~~~~~~~~~~~~~~~~~i~~~~~~  333 (333)
                      .++.--...      -..|+|+++++
T Consensus       438 ~vtk~~i~~------~~~~lp~i~v~  457 (483)
T KOG4341|consen  438 DVTKEAISR------FATHLPNIKVH  457 (483)
T ss_pred             hhhhhhhHH------HHhhCccceeh
Confidence            765432111      14677777664

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

Probab=98.92  E-value=3.5e-10  Score=98.85  Aligned_cols=180  Identities=17%  Similarity=0.043  Sum_probs=102.4

Q ss_pred             cCCCcccEEeecCCCcccccC--ccccccccccEEecCCCCCccc---ccccccccccCceeeeEEEcCccCCCCCcccc
Q 044247            9 CELYNLERVNVSGCSHLRELP--QGIGKLRKLMYLDNDYTDSLRY---LPVGIGELIRLRRVTKFVVCGGYDRACSLGSL   83 (333)
Q Consensus         9 ~~l~~L~~L~l~~~~~~~~lp--~~i~~l~~L~~L~l~~~~~~~~---~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l   83 (333)
                      .++.+|+...++++. ....+  .....|++++.|+++.| .+..   +..-...+++|+.|+++.|....  ......-
T Consensus       118 sn~kkL~~IsLdn~~-V~~~~~~~~~k~~~~v~~LdLS~N-L~~nw~~v~~i~eqLp~Le~LNls~Nrl~~--~~~s~~~  193 (505)
T KOG3207|consen  118 SNLKKLREISLDNYR-VEDAGIEEYSKILPNVRDLDLSRN-LFHNWFPVLKIAEQLPSLENLNLSSNRLSN--FISSNTT  193 (505)
T ss_pred             hhHHhhhheeecCcc-ccccchhhhhhhCCcceeecchhh-hHHhHHHHHHHHHhcccchhcccccccccC--Cccccch
Confidence            467889999999988 55544  35667999999999998 3332   22335689999999999887664  1111111


Q ss_pred             ccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEE
Q 044247           84 KKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHI  163 (333)
Q Consensus        84 ~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l  163 (333)
                      ..+++++.|.++.|.- .  ...+...+..+|+|+.|.+..|.                 ..........-+..|+.|+|
T Consensus       194 ~~l~~lK~L~l~~CGl-s--~k~V~~~~~~fPsl~~L~L~~N~-----------------~~~~~~~~~~i~~~L~~LdL  253 (505)
T KOG3207|consen  194 LLLSHLKQLVLNSCGL-S--WKDVQWILLTFPSLEVLYLEANE-----------------IILIKATSTKILQTLQELDL  253 (505)
T ss_pred             hhhhhhheEEeccCCC-C--HHHHHHHHHhCCcHHHhhhhccc-----------------ccceecchhhhhhHHhhccc
Confidence            2455666677766543 2  12344455667777777777772                 00010111122345666666


Q ss_pred             eeecCCCCccCc--hhhhcCCCccEEEeecCCCCCCC--CC------CCCCccccceeccccc
Q 044247          164 HEYRGRRNVVPK--NWVMSLTNLRVLHLFECRNCEHL--PP------LGKLTSLEDLYIAGMK  216 (333)
Q Consensus       164 ~~~~~~~~~~~~--~~~~~~~~L~~L~l~~~~~~~~l--~~------~~~l~~L~~L~l~~~~  216 (333)
                      +++....  + +  ...+.++.|+.|.++.|. +.++  |+      ...+++|++|.+..|+
T Consensus       254 s~N~li~--~-~~~~~~~~l~~L~~Lnls~tg-i~si~~~d~~s~~kt~~f~kL~~L~i~~N~  312 (505)
T KOG3207|consen  254 SNNNLID--F-DQGYKVGTLPGLNQLNLSSTG-IASIAEPDVESLDKTHTFPKLEYLNISENN  312 (505)
T ss_pred             cCCcccc--c-ccccccccccchhhhhccccC-cchhcCCCccchhhhcccccceeeecccCc
Confidence            6655555  3 3  223356666666666552 2221  11      1335555666555555

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

Probab=98.90  E-value=6.7e-11  Score=102.70  Aligned_cols=263  Identities=18%  Similarity=0.173  Sum_probs=124.2

Q ss_pred             cccEEeecCCCccc--ccCccccccccccEEecCCCCCccccc--ccccccccCceeeeEEEcCccCCCCCccc-cccCc
Q 044247           13 NLERVNVSGCSHLR--ELPQGIGKLRKLMYLDNDYTDSLRYLP--VGIGELIRLRRVTKFVVCGGYDRACSLGS-LKKLN   87 (333)
Q Consensus        13 ~L~~L~l~~~~~~~--~lp~~i~~l~~L~~L~l~~~~~~~~~p--~~i~~l~~L~~L~l~~~~~~~~~~~~~~~-l~~l~   87 (333)
                      .|+.|.+++|...+  .+-.....+|++++|.+.+|..++...  ..-..+++|++|++..|....  ...... ...++
T Consensus       139 ~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT--~~~Lk~la~gC~  216 (483)
T KOG4341|consen  139 FLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSIT--DVSLKYLAEGCR  216 (483)
T ss_pred             ccccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhH--HHHHHHHHHhhh
Confidence            46667777776442  333434557777777777765444311  111346666666666544332  112221 12344


Q ss_pred             cCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeec
Q 044247           88 LLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYR  167 (333)
Q Consensus        88 ~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~  167 (333)
                      +|.++.+..+..+..  ..+.....+++.++.+...+|.    ..           ....+...-..+.-+..+++..|.
T Consensus       217 kL~~lNlSwc~qi~~--~gv~~~~rG~~~l~~~~~kGC~----e~-----------~le~l~~~~~~~~~i~~lnl~~c~  279 (483)
T KOG4341|consen  217 KLKYLNLSWCPQISG--NGVQALQRGCKELEKLSLKGCL----EL-----------ELEALLKAAAYCLEILKLNLQHCN  279 (483)
T ss_pred             hHHHhhhccCchhhc--CcchHHhccchhhhhhhhcccc----cc-----------cHHHHHHHhccChHhhccchhhhc
Confidence            555555555444332  2333344455555555554542    00           111111111122334444444444


Q ss_pred             CCCCccCch-hh--hcCCCccEEEeecCCCCCCCCC---CCCCccccceecccccccccccccccCCCCCCCCCccccCC
Q 044247          168 GRRNVVPKN-WV--MSLTNLRVLHLFECRNCEHLPP---LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFP  241 (333)
Q Consensus       168 ~~~~~~~~~-~~--~~~~~L~~L~l~~~~~~~~l~~---~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~  241 (333)
                      ..+  - .+ |.  ..+..|+.|..++|...++...   -.++++|+.+.+..|+.+........+          .+.+
T Consensus       280 ~lT--D-~~~~~i~~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~----------rn~~  346 (483)
T KOG4341|consen  280 QLT--D-EDLWLIACGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLG----------RNCP  346 (483)
T ss_pred             ccc--c-hHHHHHhhhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhh----------cCCh
Confidence            333  1 11 11  1455666666666655444322   224566666666666655444333332          3556


Q ss_pred             CccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccC-----CcccCCCCCcceEEEcccChhhHhh
Q 044247          242 KLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKAL-----PDHLLQKSTLQNLEIWGACHILQER  312 (333)
Q Consensus       242 ~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l-----~~~~~~l~~L~~L~l~~~c~~l~~~  312 (333)
                      .|+.+++..|....+-.    +-.-...+|.|+.+++++|..++..     .....+...|+.+.+ ++||.+++.
T Consensus       347 ~Le~l~~e~~~~~~d~t----L~sls~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL-~n~p~i~d~  417 (483)
T KOG4341|consen  347 HLERLDLEECGLITDGT----LASLSRNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLEL-DNCPLITDA  417 (483)
T ss_pred             hhhhhcccccceehhhh----HhhhccCCchhccCChhhhhhhhhhhhhhhhhccccccccceeee-cCCCCchHH
Confidence            66666666654332221    1111235666666666666655533     222334555666666 666666554

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

Probab=98.84  E-value=1.4e-09  Score=86.34  Aligned_cols=128  Identities=18%  Similarity=0.282  Sum_probs=50.4

Q ss_pred             CCCCCCccEEEEeeecCCCCccCchhhh-cCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCC
Q 044247          152 LGPPPNLKELHIHEYRGRRNVVPKNWVM-SLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVES  230 (333)
Q Consensus       152 l~~~~~L~~L~l~~~~~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~  230 (333)
                      +.++.++++|+++++....  +  ..++ .+.+|+.|++++| .++.++.+..++.|+.|++++|. ++.++..+     
T Consensus        15 ~~n~~~~~~L~L~~n~I~~--I--e~L~~~l~~L~~L~Ls~N-~I~~l~~l~~L~~L~~L~L~~N~-I~~i~~~l-----   83 (175)
T PF14580_consen   15 YNNPVKLRELNLRGNQIST--I--ENLGATLDKLEVLDLSNN-QITKLEGLPGLPRLKTLDLSNNR-ISSISEGL-----   83 (175)
T ss_dssp             -------------------------S--TT-TT--EEE-TTS---S--TT----TT--EEE--SS----S-CHHH-----
T ss_pred             ccccccccccccccccccc--c--cchhhhhcCCCEEECCCC-CCccccCccChhhhhhcccCCCC-CCccccch-----
Confidence            3345678999999999887  4  4565 5889999999999 67778888889999999999998 77664321     


Q ss_pred             CCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCc----ccCCCCCcceEEE
Q 044247          231 DTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPD----HLLQKSTLQNLEI  302 (333)
Q Consensus       231 ~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~----~~~~l~~L~~L~l  302 (333)
                            ...+|+|++|++++ +++.++..-    ..+..+|+|+.|++.++|.-.. +.    .+..+|+|+.||-
T Consensus        84 ------~~~lp~L~~L~L~~-N~I~~l~~l----~~L~~l~~L~~L~L~~NPv~~~-~~YR~~vi~~lP~Lk~LD~  147 (175)
T PF14580_consen   84 ------DKNLPNLQELYLSN-NKISDLNEL----EPLSSLPKLRVLSLEGNPVCEK-KNYRLFVIYKLPSLKVLDG  147 (175)
T ss_dssp             ------HHH-TT--EEE-TT-S---SCCCC----GGGGG-TT--EEE-TT-GGGGS-TTHHHHHHHH-TT-SEETT
T ss_pred             ------HHhCCcCCEEECcC-CcCCChHHh----HHHHcCCCcceeeccCCcccch-hhHHHHHHHHcChhheeCC
Confidence                  24689999999998 456555421    2245789999999999886532 22    3445899999877

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

Probab=98.83  E-value=3.7e-10  Score=96.02  Aligned_cols=250  Identities=17%  Similarity=0.153  Sum_probs=143.6

Q ss_pred             hcCCCcccEEeecCCCcc----cccCccccccccccEEecCCCCCcc----ccc-------ccccccccCceeeeEEEcC
Q 044247            8 LCELYNLERVNVSGCSHL----RELPQGIGKLRKLMYLDNDYTDSLR----YLP-------VGIGELIRLRRVTKFVVCG   72 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~----~~lp~~i~~l~~L~~L~l~~~~~~~----~~p-------~~i~~l~~L~~L~l~~~~~   72 (333)
                      +..+..+..+++++|...    ..+...+.+.++|+..++++- ...    .+|       ..+...++|++|++++|.+
T Consensus        26 ~~~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~-ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~  104 (382)
T KOG1909|consen   26 LEPMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDM-FTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAF  104 (382)
T ss_pred             hcccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhh-hcCCcHHHHHHHHHHHHHHHhcCCceeEeecccccc
Confidence            345667777888877632    234445666677777777653 111    122       2234556777777777766


Q ss_pred             ccCCCCCccc----cccCccCceeEecCCCCCCChhhH---------HHHhhcccCCccceEEeecCCCCCchhhhcccC
Q 044247           73 GYDRACSLGS----LKKLNLLRQCSIDGLGGVSDAGEA---------RRAELEKKKNLFDLELDFDNLRDGDEEQAGRRE  139 (333)
Q Consensus        73 ~~~~~~~~~~----l~~l~~L~~L~l~~~~~~~~~~~~---------~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~  139 (333)
                      ..   ..++.    +.+...|++|.++++.--+..+..         ...-..+-++|+.+...+|.+.+.         
T Consensus       105 G~---~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~---------  172 (382)
T KOG1909|consen  105 GP---KGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENG---------  172 (382)
T ss_pred             Cc---cchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccccc---------
Confidence            52   22222    345566777666654432322222         122334457888888888876543         


Q ss_pred             CcccccccccccCCCCCCccEEEEeeecCCCCcc--CchhhhcCCCccEEEeecCCCCCC----CC-CCCCCccccceec
Q 044247          140 NEEDEDERLLDALGPPPNLKELHIHEYRGRRNVV--PKNWVMSLTNLRVLHLFECRNCEH----LP-PLGKLTSLEDLYI  212 (333)
Q Consensus       140 ~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~--~~~~~~~~~~L~~L~l~~~~~~~~----l~-~~~~l~~L~~L~l  212 (333)
                          ....+...+..++.|+.+.+..+......+  ....+.++++|+.|+|.+|.....    +. .+..+++|++|++
T Consensus       173 ----ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l  248 (382)
T KOG1909|consen  173 ----GATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNL  248 (382)
T ss_pred             ----cHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeecc
Confidence                334555667777889999888766544101  012344789999999998843321    11 2566788999999


Q ss_pred             ccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcC
Q 044247          213 AGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRE  283 (333)
Q Consensus       213 ~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~  283 (333)
                      ++|. ++.-....+...-      ....|.|+.|.+.++.-=.+-.  ..+...+...|.|++|++++|..
T Consensus       249 ~dcl-l~~~Ga~a~~~al------~~~~p~L~vl~l~gNeIt~da~--~~la~~~~ek~dL~kLnLngN~l  310 (382)
T KOG1909|consen  249 GDCL-LENEGAIAFVDAL------KESAPSLEVLELAGNEITRDAA--LALAACMAEKPDLEKLNLNGNRL  310 (382)
T ss_pred             cccc-cccccHHHHHHHH------hccCCCCceeccCcchhHHHHH--HHHHHHHhcchhhHHhcCCcccc
Confidence            9887 4433211111100      2357899999998863211111  01112233579999999998765

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

Probab=98.79  E-value=2.3e-10  Score=95.35  Aligned_cols=182  Identities=17%  Similarity=0.170  Sum_probs=118.4

Q ss_pred             cccEEecCCCCCccc--ccccccccccCceeeeEEEcCccCCCCCccccccCccCceeEecCCCCCCChhhHHHHhhccc
Q 044247           37 KLMYLDNDYTDSLRY--LPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKK  114 (333)
Q Consensus        37 ~L~~L~l~~~~~~~~--~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~  114 (333)
                      .|++||++.. .++.  +-.-+..+.+|+.|.+.++...   ......+.+-..|..+++..+.++..  .+....+..|
T Consensus       186 Rlq~lDLS~s-~it~stl~~iLs~C~kLk~lSlEg~~Ld---D~I~~~iAkN~~L~~lnlsm~sG~t~--n~~~ll~~sc  259 (419)
T KOG2120|consen  186 RLQHLDLSNS-VITVSTLHGILSQCSKLKNLSLEGLRLD---DPIVNTIAKNSNLVRLNLSMCSGFTE--NALQLLLSSC  259 (419)
T ss_pred             hhHHhhcchh-heeHHHHHHHHHHHHhhhhccccccccC---cHHHHHHhccccceeeccccccccch--hHHHHHHHhh
Confidence            4778888765 3332  1122456777888877776655   34455566667777777777776654  4556678889


Q ss_pred             CCccceEEeecCCCCCchhhhcccCCcccccccccccC-CCCCCccEEEEeeecCCC--CccCchhhhcCCCccEEEeec
Q 044247          115 KNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDAL-GPPPNLKELHIHEYRGRR--NVVPKNWVMSLTNLRVLHLFE  191 (333)
Q Consensus       115 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l-~~~~~L~~L~l~~~~~~~--~~~~~~~~~~~~~L~~L~l~~  191 (333)
                      +.|.+|++++|.+...                .+..++ +--++|+.|+++++.-.-  +++ ......+|+|..|++++
T Consensus       260 s~L~~LNlsWc~l~~~----------------~Vtv~V~hise~l~~LNlsG~rrnl~~sh~-~tL~~rcp~l~~LDLSD  322 (419)
T KOG2120|consen  260 SRLDELNLSWCFLFTE----------------KVTVAVAHISETLTQLNLSGYRRNLQKSHL-STLVRRCPNLVHLDLSD  322 (419)
T ss_pred             hhHhhcCchHhhccch----------------hhhHHHhhhchhhhhhhhhhhHhhhhhhHH-HHHHHhCCceeeecccc
Confidence            9999999999954321                111111 122578888998864222  112 22334799999999999


Q ss_pred             CCCCCC--CCCCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCc
Q 044247          192 CRNCEH--LPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMS  252 (333)
Q Consensus       192 ~~~~~~--l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~  252 (333)
                      |..+..  +..+..++.|++|.++.|..+  +|+.++.         +...|.|.+|++.+|-
T Consensus       323 ~v~l~~~~~~~~~kf~~L~~lSlsRCY~i--~p~~~~~---------l~s~psl~yLdv~g~v  374 (419)
T KOG2120|consen  323 SVMLKNDCFQEFFKFNYLQHLSLSRCYDI--IPETLLE---------LNSKPSLVYLDVFGCV  374 (419)
T ss_pred             ccccCchHHHHHHhcchheeeehhhhcCC--ChHHeee---------eccCcceEEEEecccc
Confidence            977665  222677889999999999754  3443332         5677888888888863

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

Probab=98.76  E-value=1.2e-09  Score=95.61  Aligned_cols=187  Identities=16%  Similarity=0.054  Sum_probs=129.1

Q ss_pred             hhcCCCcccEEeecCCCcc--cccCccccccccccEEecCCCCCccccccc-ccccccCceeeeEEEcCccCCCCCcccc
Q 044247            7 TLCELYNLERVNVSGCSHL--RELPQGIGKLRKLMYLDNDYTDSLRYLPVG-IGELIRLRRVTKFVVCGGYDRACSLGSL   83 (333)
Q Consensus         7 ~l~~l~~L~~L~l~~~~~~--~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~-i~~l~~L~~L~l~~~~~~~~~~~~~~~l   83 (333)
                      ....|++++.|+++.|-..  ..+-.....+|+|+.|+++.|...--.... -..+++|+.|.++.|+..+  .......
T Consensus       141 ~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK~L~l~~CGls~--k~V~~~~  218 (505)
T KOG3207|consen  141 YSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSHLKQLVLNSCGLSW--KDVQWIL  218 (505)
T ss_pred             hhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhhhheEEeccCCCCH--HHHHHHH
Confidence            5677999999999999733  344555678999999999998332212121 3478899999999999886  5555556


Q ss_pred             ccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEE
Q 044247           84 KKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHI  163 (333)
Q Consensus        84 ~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l  163 (333)
                      ..++++..|.+..-+.+....    ....-+..|++|++++|++                ...+.......++.|+.|.+
T Consensus       219 ~~fPsl~~L~L~~N~~~~~~~----~~~~i~~~L~~LdLs~N~l----------------i~~~~~~~~~~l~~L~~Lnl  278 (505)
T KOG3207|consen  219 LTFPSLEVLYLEANEIILIKA----TSTKILQTLQELDLSNNNL----------------IDFDQGYKVGTLPGLNQLNL  278 (505)
T ss_pred             HhCCcHHHhhhhcccccceec----chhhhhhHHhhccccCCcc----------------cccccccccccccchhhhhc
Confidence            677888887665432211100    1122346899999999964                22333456778899999999


Q ss_pred             eeecCCCCccCchh-----hhcCCCccEEEeecCCC--CCCCCCCCCCccccceeccccc
Q 044247          164 HEYRGRRNVVPKNW-----VMSLTNLRVLHLFECRN--CEHLPPLGKLTSLEDLYIAGMK  216 (333)
Q Consensus       164 ~~~~~~~~~~~~~~-----~~~~~~L~~L~l~~~~~--~~~l~~~~~l~~L~~L~l~~~~  216 (333)
                      +.+...+..+ |+.     ...+++|++|++..|..  +..+..+..+++|+.|.+..++
T Consensus       279 s~tgi~si~~-~d~~s~~kt~~f~kL~~L~i~~N~I~~w~sl~~l~~l~nlk~l~~~~n~  337 (505)
T KOG3207|consen  279 SSTGIASIAE-PDVESLDKTHTFPKLEYLNISENNIRDWRSLNHLRTLENLKHLRITLNY  337 (505)
T ss_pred             cccCcchhcC-CCccchhhhcccccceeeecccCccccccccchhhccchhhhhhccccc
Confidence            9887766333 333     34799999999999954  4444456667888888877665

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

Probab=98.76  E-value=5.1e-10  Score=95.22  Aligned_cols=20  Identities=25%  Similarity=0.313  Sum_probs=9.7

Q ss_pred             cccCCCCCCccEEEEeeecC
Q 044247          149 LDALGPPPNLKELHIHEYRG  168 (333)
Q Consensus       149 ~~~l~~~~~L~~L~l~~~~~  168 (333)
                      ..++..+++|++|++++|.+
T Consensus       206 ~eal~~~~~LevLdl~DNtf  225 (382)
T KOG1909|consen  206 AEALEHCPHLEVLDLRDNTF  225 (382)
T ss_pred             HHHHHhCCcceeeecccchh
Confidence            34444455555555555443

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

Probab=98.69  E-value=2.5e-09  Score=89.53  Aligned_cols=224  Identities=19%  Similarity=0.115  Sum_probs=115.7

Q ss_pred             hcCCCcccEEeecCCCcc--------cccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCC
Q 044247            8 LCELYNLERVNVSGCSHL--------RELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACS   79 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~--------~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~   79 (333)
                      +.-+..|.+|.+++...-        ..+|-.+.-.++|..+.++.| ..+.+-.-...-+.|+++.+.......     
T Consensus       178 ldf~~~l~~l~vs~~~~p~~~sni~~~~l~f~l~~f~~l~~~~~s~~-~~~~i~~~~~~kptl~t~~v~~s~~~~-----  251 (490)
T KOG1259|consen  178 LDFCTQLVALVVTPVKDPIDRSNIIPNRLSFNLNAFRNLKTLKFSAL-STENIVDIELLKPTLQTICVHNTTIQD-----  251 (490)
T ss_pred             HHhhhheeEEEecCCCCCCccccccccccccchHHhhhhheeeeecc-chhheeceeecCchhheeeeecccccc-----
Confidence            334667888888876421        234444556789999999998 334443333455788888876654432     


Q ss_pred             ccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCcc
Q 044247           80 LGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLK  159 (333)
Q Consensus        80 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~  159 (333)
                      .+.+--++++....... .....  ......+...+.|+++++++|                  ....+.++..-.|.++
T Consensus       252 ~~~l~pe~~~~D~~~~E-~~t~~--G~~~~~~dTWq~LtelDLS~N------------------~I~~iDESvKL~Pkir  310 (490)
T KOG1259|consen  252 VPSLLPETILADPSGSE-PSTSN--GSALVSADTWQELTELDLSGN------------------LITQIDESVKLAPKLR  310 (490)
T ss_pred             cccccchhhhcCccCCC-CCccC--CceEEecchHhhhhhcccccc------------------chhhhhhhhhhcccee
Confidence            11111111111111000 00000  001112333456777777777                  3344445555556677


Q ss_pred             EEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCCCCCccc
Q 044247          160 ELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVI  238 (333)
Q Consensus       160 ~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~  238 (333)
                      .|+++.|....  +  +.+..+++|+.|++++| .+..+.. -..+-+.+.|.+++|. ++.+..             +.
T Consensus       311 ~L~lS~N~i~~--v--~nLa~L~~L~~LDLS~N-~Ls~~~Gwh~KLGNIKtL~La~N~-iE~LSG-------------L~  371 (490)
T KOG1259|consen  311 RLILSQNRIRT--V--QNLAELPQLQLLDLSGN-LLAECVGWHLKLGNIKTLKLAQNK-IETLSG-------------LR  371 (490)
T ss_pred             EEeccccceee--e--hhhhhcccceEeecccc-hhHhhhhhHhhhcCEeeeehhhhh-Hhhhhh-------------hH
Confidence            77777666665  3  33556667777777766 2333222 1234456666666665 333321             44


Q ss_pred             cCCCccEEeeccCccccccccCCccccccccCCCcceEecccCc
Q 044247          239 AFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCR  282 (333)
Q Consensus       239 ~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~  282 (333)
                      .+-+|..|++.++ +++.+.--.    .++.+|+|+.+.+.+++
T Consensus       372 KLYSLvnLDl~~N-~Ie~ldeV~----~IG~LPCLE~l~L~~NP  410 (490)
T KOG1259|consen  372 KLYSLVNLDLSSN-QIEELDEVN----HIGNLPCLETLRLTGNP  410 (490)
T ss_pred             hhhhheecccccc-chhhHHHhc----ccccccHHHHHhhcCCC
Confidence            5556666666663 343333111    13356677776666654

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

Probab=98.68  E-value=4.8e-09  Score=87.81  Aligned_cols=126  Identities=19%  Similarity=0.224  Sum_probs=61.2

Q ss_pred             CCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCC
Q 044247          155 PPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDG  234 (333)
Q Consensus       155 ~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~  234 (333)
                      ...|+.++++.|....  + ...+.-.|+++.|++++|. +..+..+..+++|..|++++|. +..+...          
T Consensus       283 Wq~LtelDLS~N~I~~--i-DESvKL~Pkir~L~lS~N~-i~~v~nLa~L~~L~~LDLS~N~-Ls~~~Gw----------  347 (490)
T KOG1259|consen  283 WQELTELDLSGNLITQ--I-DESVKLAPKLRRLILSQNR-IRTVQNLAELPQLQLLDLSGNL-LAECVGW----------  347 (490)
T ss_pred             Hhhhhhccccccchhh--h-hhhhhhccceeEEeccccc-eeeehhhhhcccceEeecccch-hHhhhhh----------
Confidence            3455566666655555  4 4445455666666666652 2233334555666666666655 3322111          


Q ss_pred             CccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCC--cccCCCCCcceEEEcccCh
Q 044247          235 SSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALP--DHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       235 ~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~--~~~~~l~~L~~L~l~~~c~  307 (333)
                        -..+-+.++|.++++ .++++.       ....+-+|..|++++ +++..+.  ..++++|.|+.+.+ .++|
T Consensus       348 --h~KLGNIKtL~La~N-~iE~LS-------GL~KLYSLvnLDl~~-N~Ie~ldeV~~IG~LPCLE~l~L-~~NP  410 (490)
T KOG1259|consen  348 --HLKLGNIKTLKLAQN-KIETLS-------GLRKLYSLVNLDLSS-NQIEELDEVNHIGNLPCLETLRL-TGNP  410 (490)
T ss_pred             --HhhhcCEeeeehhhh-hHhhhh-------hhHhhhhheeccccc-cchhhHHHhcccccccHHHHHhh-cCCC
Confidence              123445555655552 222222       112445556666665 3333222  14555666666666 5554

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

Probab=98.60  E-value=3.9e-08  Score=89.76  Aligned_cols=59  Identities=22%  Similarity=0.291  Sum_probs=26.9

Q ss_pred             CcccEEeecCCCcccccCccccccc-cccEEecCCCCCcccccccccccccCceeeeEEEcC
Q 044247           12 YNLERVNVSGCSHLRELPQGIGKLR-KLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCG   72 (333)
Q Consensus        12 ~~L~~L~l~~~~~~~~lp~~i~~l~-~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~   72 (333)
                      +.++.|++.++. +..+|....... +|+.|++++| .+..+|..++.+++|+.|++..|..
T Consensus       116 ~~l~~L~l~~n~-i~~i~~~~~~~~~nL~~L~l~~N-~i~~l~~~~~~l~~L~~L~l~~N~l  175 (394)
T COG4886         116 TNLTSLDLDNNN-ITDIPPLIGLLKSNLKELDLSDN-KIESLPSPLRNLPNLKNLDLSFNDL  175 (394)
T ss_pred             cceeEEecCCcc-cccCccccccchhhccccccccc-chhhhhhhhhccccccccccCCchh
Confidence            344444444444 444444344442 4555555444 3344433344445555555444444

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

Probab=98.52  E-value=1.3e-08  Score=91.96  Aligned_cols=156  Identities=22%  Similarity=0.258  Sum_probs=107.9

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCc
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSL   80 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~   80 (333)
                      |+.+|..++.+..|.+|+++.|. +..+|..++.|+ |+.|.++.| +++.+|.+++....|.+|+.+.|.+..    .+
T Consensus       110 ~r~ip~~i~~L~~lt~l~ls~Nq-lS~lp~~lC~lp-Lkvli~sNN-kl~~lp~~ig~~~tl~~ld~s~nei~s----lp  182 (722)
T KOG0532|consen  110 IRTIPEAICNLEALTFLDLSSNQ-LSHLPDGLCDLP-LKVLIVSNN-KLTSLPEEIGLLPTLAHLDVSKNEIQS----LP  182 (722)
T ss_pred             ceecchhhhhhhHHHHhhhccch-hhcCChhhhcCc-ceeEEEecC-ccccCCcccccchhHHHhhhhhhhhhh----ch
Confidence            45677778888888888888887 777787777776 777777776 677788888877788888887777654    67


Q ss_pred             cccccCccCceeEecC--CCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCc
Q 044247           81 GSLKKLNLLRQCSIDG--LGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNL  158 (333)
Q Consensus        81 ~~l~~l~~L~~L~l~~--~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L  158 (333)
                      ..+..+.+|+.|.+..  +..++       ..+..+ .|..|++++|                  ....++-.|..+.+|
T Consensus       183 sql~~l~slr~l~vrRn~l~~lp-------~El~~L-pLi~lDfScN------------------kis~iPv~fr~m~~L  236 (722)
T KOG0532|consen  183 SQLGYLTSLRDLNVRRNHLEDLP-------EELCSL-PLIRLDFSCN------------------KISYLPVDFRKMRHL  236 (722)
T ss_pred             HHhhhHHHHHHHHHhhhhhhhCC-------HHHhCC-ceeeeecccC------------------ceeecchhhhhhhhh
Confidence            7777777777655532  22222       234322 5777888887                  456667777888888


Q ss_pred             cEEEEeeecCCCCccCchhhh---cCCCccEEEeecC
Q 044247          159 KELHIHEYRGRRNVVPKNWVM---SLTNLRVLHLFEC  192 (333)
Q Consensus       159 ~~L~l~~~~~~~~~~~~~~~~---~~~~L~~L~l~~~  192 (333)
                      ++|.|.+|....  - |..++   ..+-.++|+...|
T Consensus       237 q~l~LenNPLqS--P-PAqIC~kGkVHIFKyL~~qA~  270 (722)
T KOG0532|consen  237 QVLQLENNPLQS--P-PAQICEKGKVHIFKYLSTQAC  270 (722)
T ss_pred             eeeeeccCCCCC--C-hHHHHhccceeeeeeecchhc
Confidence            888888877766  2 44444   3344567777666

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

Probab=98.49  E-value=7.7e-09  Score=86.46  Aligned_cols=170  Identities=19%  Similarity=0.222  Sum_probs=114.4

Q ss_pred             hHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccC-chhhhcCCC
Q 044247          105 EARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVP-KNWVMSLTN  183 (333)
Q Consensus       105 ~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~-~~~~~~~~~  183 (333)
                      ..+...++.|.+|+.|.+.+..                 ..+.+...++.-.+|+.|+++.|.+.++ .+ .-.+.++..
T Consensus       200 stl~~iLs~C~kLk~lSlEg~~-----------------LdD~I~~~iAkN~~L~~lnlsm~sG~t~-n~~~ll~~scs~  261 (419)
T KOG2120|consen  200 STLHGILSQCSKLKNLSLEGLR-----------------LDDPIVNTIAKNSNLVRLNLSMCSGFTE-NALQLLLSSCSR  261 (419)
T ss_pred             HHHHHHHHHHHhhhhccccccc-----------------cCcHHHHHHhccccceeeccccccccch-hHHHHHHHhhhh
Confidence            3445567778888888888886                 4455566677778999999998887763 20 123457888


Q ss_pred             ccEEEeecCCCCCCCCC--CC-CCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccC
Q 044247          184 LRVLHLFECRNCEHLPP--LG-KLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLG  260 (333)
Q Consensus       184 L~~L~l~~~~~~~~l~~--~~-~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~  260 (333)
                      |..|+++.|...++.-.  +. --++|..|.++++...  +...-+..-       ...+|+|..|++++|..++.    
T Consensus       262 L~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrn--l~~sh~~tL-------~~rcp~l~~LDLSD~v~l~~----  328 (419)
T KOG2120|consen  262 LDELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRN--LQKSHLSTL-------VRRCPNLVHLDLSDSVMLKN----  328 (419)
T ss_pred             HhhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhh--hhhhHHHHH-------HHhCCceeeeccccccccCc----
Confidence            99999998843332211  11 1367888999887632  211111111       56789999999999877644    


Q ss_pred             CccccccccCCCcceEecccCcCcc-cCCcccCCCCCcceEEEcccCh
Q 044247          261 TAIKGEIIIMPRLSSLSIQSCRELK-ALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       261 ~~~~~~~~~~~~L~~L~l~~c~~l~-~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                       ..-..+..|+.|++|+++.|=.+. .-...+.+.|+|..|++ .+|-
T Consensus       329 -~~~~~~~kf~~L~~lSlsRCY~i~p~~~~~l~s~psl~yLdv-~g~v  374 (419)
T KOG2120|consen  329 -DCFQEFFKFNYLQHLSLSRCYDIIPETLLELNSKPSLVYLDV-FGCV  374 (419)
T ss_pred             -hHHHHHHhcchheeeehhhhcCCChHHeeeeccCcceEEEEe-cccc
Confidence             222346689999999999987653 22235667899999999 8774

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

Probab=98.42  E-value=1.6e-08  Score=91.40  Aligned_cols=179  Identities=21%  Similarity=0.215  Sum_probs=128.8

Q ss_pred             CcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcc
Q 044247            2 EKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLG   81 (333)
Q Consensus         2 ~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~   81 (333)
                      ..+|..++.|..|+.+.+..|. +..+|..+.++..|.+|+++.| .+..+|..+..++ |+.|-+.+|....    .+.
T Consensus        88 ~elp~~~~~f~~Le~liLy~n~-~r~ip~~i~~L~~lt~l~ls~N-qlS~lp~~lC~lp-Lkvli~sNNkl~~----lp~  160 (722)
T KOG0532|consen   88 SELPEEACAFVSLESLILYHNC-IRTIPEAICNLEALTFLDLSSN-QLSHLPDGLCDLP-LKVLIVSNNKLTS----LPE  160 (722)
T ss_pred             ccCchHHHHHHHHHHHHHHhcc-ceecchhhhhhhHHHHhhhccc-hhhcCChhhhcCc-ceeEEEecCcccc----CCc
Confidence            5678888888888888888887 7888888999999999999888 5677787776655 7888887777654    677


Q ss_pred             ccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEE
Q 044247           82 SLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKEL  161 (333)
Q Consensus        82 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L  161 (333)
                      +++.+.+|..|+....+.     ......+..+.+|+.|++..|+                  ...++..+. .-.|..|
T Consensus       161 ~ig~~~tl~~ld~s~nei-----~slpsql~~l~slr~l~vrRn~------------------l~~lp~El~-~LpLi~l  216 (722)
T KOG0532|consen  161 EIGLLPTLAHLDVSKNEI-----QSLPSQLGYLTSLRDLNVRRNH------------------LEDLPEELC-SLPLIRL  216 (722)
T ss_pred             ccccchhHHHhhhhhhhh-----hhchHHhhhHHHHHHHHHhhhh------------------hhhCCHHHh-CCceeee
Confidence            777666666665543221     1233467777888888888884                  345555555 3468889


Q ss_pred             EEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC----CCCCccccceecccc
Q 044247          162 HIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP----LGKLTSLEDLYIAGM  215 (333)
Q Consensus       162 ~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~----~~~l~~L~~L~l~~~  215 (333)
                      ++++|+...  + |..|..+..|++|-|.+|. ++.-|.    -|...-.++|+..-|
T Consensus       217 DfScNkis~--i-Pv~fr~m~~Lq~l~LenNP-LqSPPAqIC~kGkVHIFKyL~~qA~  270 (722)
T KOG0532|consen  217 DFSCNKISY--L-PVDFRKMRHLQVLQLENNP-LQSPPAQICEKGKVHIFKYLSTQAC  270 (722)
T ss_pred             ecccCceee--c-chhhhhhhhheeeeeccCC-CCCChHHHHhccceeeeeeecchhc
Confidence            999998888  8 8888899999999999884 444443    233334566666655

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

Probab=98.40  E-value=1.7e-07  Score=85.61  Aligned_cols=163  Identities=25%  Similarity=0.273  Sum_probs=104.9

Q ss_pred             CCcccchhcCCC-cccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCC
Q 044247            1 IEKLPETLCELY-NLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACS   79 (333)
Q Consensus         1 ~~~lp~~l~~l~-~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~   79 (333)
                      +.++|.....+. +|+.|+++++. +..+|..++.+++|+.|+++.| .+..+|...+..++|+.|+++++....    .
T Consensus       128 i~~i~~~~~~~~~nL~~L~l~~N~-i~~l~~~~~~l~~L~~L~l~~N-~l~~l~~~~~~~~~L~~L~ls~N~i~~----l  201 (394)
T COG4886         128 ITDIPPLIGLLKSNLKELDLSDNK-IESLPSPLRNLPNLKNLDLSFN-DLSDLPKLLSNLSNLNNLDLSGNKISD----L  201 (394)
T ss_pred             cccCccccccchhhcccccccccc-hhhhhhhhhccccccccccCCc-hhhhhhhhhhhhhhhhheeccCCcccc----C
Confidence            457888888885 99999999999 8888877999999999999999 678888766688999999999888764    3


Q ss_pred             ccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCcc
Q 044247           80 LGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLK  159 (333)
Q Consensus        80 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~  159 (333)
                      +..+.....|+.+.+..-..+.     ....+..+.++..+.+..+.                  .......+..+++++
T Consensus       202 ~~~~~~~~~L~~l~~~~N~~~~-----~~~~~~~~~~l~~l~l~~n~------------------~~~~~~~~~~l~~l~  258 (394)
T COG4886         202 PPEIELLSALEELDLSNNSIIE-----LLSSLSNLKNLSGLELSNNK------------------LEDLPESIGNLSNLE  258 (394)
T ss_pred             chhhhhhhhhhhhhhcCCccee-----cchhhhhcccccccccCCce------------------eeeccchhccccccc
Confidence            4333333345544443221000     11133444555555554442                  222234455555566


Q ss_pred             EEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCC
Q 044247          160 ELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCE  196 (333)
Q Consensus       160 ~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~  196 (333)
                      .|+++++....  + +. +..+.+++.|+++++....
T Consensus       259 ~L~~s~n~i~~--i-~~-~~~~~~l~~L~~s~n~~~~  291 (394)
T COG4886         259 TLDLSNNQISS--I-SS-LGSLTNLRELDLSGNSLSN  291 (394)
T ss_pred             eeccccccccc--c-cc-ccccCccCEEeccCccccc
Confidence            66666666655  3 32 5556666666666664433

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

Probab=98.37  E-value=2.2e-07  Score=73.77  Aligned_cols=102  Identities=22%  Similarity=0.268  Sum_probs=24.9

Q ss_pred             cccEEeecCCCcccccCcccc-ccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcccc-ccCccCc
Q 044247           13 NLERVNVSGCSHLRELPQGIG-KLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSL-KKLNLLR   90 (333)
Q Consensus        13 ~L~~L~l~~~~~~~~lp~~i~-~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l-~~l~~L~   90 (333)
                      +++.|+++++. +..+.. ++ .+.+|+.|++++| .+..++ ++..++.|++|++++|.+..    ....+ ..+++|+
T Consensus        20 ~~~~L~L~~n~-I~~Ie~-L~~~l~~L~~L~Ls~N-~I~~l~-~l~~L~~L~~L~L~~N~I~~----i~~~l~~~lp~L~   91 (175)
T PF14580_consen   20 KLRELNLRGNQ-ISTIEN-LGATLDKLEVLDLSNN-QITKLE-GLPGLPRLKTLDLSNNRISS----ISEGLDKNLPNLQ   91 (175)
T ss_dssp             -----------------S---TT-TT--EEE-TTS---S--T-T----TT--EEE--SS---S-----CHHHHHH-TT--
T ss_pred             ccccccccccc-cccccc-hhhhhcCCCEEECCCC-CCcccc-CccChhhhhhcccCCCCCCc----cccchHHhCCcCC
Confidence            45666666665 444332 43 3556666666666 444442 35556666666666665542    21222 2355555


Q ss_pred             eeEecC--CCCCCChhhHHHHhhcccCCccceEEeecCC
Q 044247           91 QCSIDG--LGGVSDAGEARRAELEKKKNLFDLELDFDNL  127 (333)
Q Consensus        91 ~L~l~~--~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~  127 (333)
                      .|.+..  +..+...     ..+..+++|+.|++.+|++
T Consensus        92 ~L~L~~N~I~~l~~l-----~~L~~l~~L~~L~L~~NPv  125 (175)
T PF14580_consen   92 ELYLSNNKISDLNEL-----EPLSSLPKLRVLSLEGNPV  125 (175)
T ss_dssp             EEE-TTS---SCCCC-----GGGGG-TT--EEE-TT-GG
T ss_pred             EEECcCCcCCChHHh-----HHHHcCCCcceeeccCCcc
Confidence            555532  2122111     2344556666666666544

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

Probab=98.35  E-value=1.2e-08  Score=88.41  Aligned_cols=228  Identities=16%  Similarity=0.184  Sum_probs=117.3

Q ss_pred             cchhcCCCcccEEeecCCCcccccCcc-ccccccccEEecCCCCCcccc-cccccccccCceeeeEEEcCccCCCCCccc
Q 044247            5 PETLCELYNLERVNVSGCSHLRELPQG-IGKLRKLMYLDNDYTDSLRYL-PVGIGELIRLRRVTKFVVCGGYDRACSLGS   82 (333)
Q Consensus         5 p~~l~~l~~L~~L~l~~~~~~~~lp~~-i~~l~~L~~L~l~~~~~~~~~-p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~   82 (333)
                      |+.+.+++.|-.|-+.+++.+..+|.. +++|..|+.|.+..| .+.-+ ...+..+++|..|.++++........   .
T Consensus       108 p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrLllNan-~i~Cir~~al~dL~~l~lLslyDn~~q~i~~~---t  183 (498)
T KOG4237|consen  108 PDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQRLLLNAN-HINCIRQDALRDLPSLSLLSLYDNKIQSICKG---T  183 (498)
T ss_pred             hHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHHHHhcChh-hhcchhHHHHHHhhhcchhcccchhhhhhccc---c
Confidence            567888888888888885558888864 777889999888887 33333 34578888888888888876531122   2


Q ss_pred             cccCccCceeEecC--------CCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhc-----cc----CCccccc
Q 044247           83 LKKLNLLRQCSIDG--------LGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAG-----RR----ENEEDED  145 (333)
Q Consensus        83 l~~l~~L~~L~l~~--------~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~-----~~----~~~~~~~  145 (333)
                      +..+..++.+++..        +....+........++.........+.+..+...+..++.     .+    .... ..
T Consensus       184 f~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~ietsgarc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~-~d  262 (498)
T KOG4237|consen  184 FQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPIETSGARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDF-PD  262 (498)
T ss_pred             ccchhccchHhhhcCccccccccchhhhHHhhchhhcccceecchHHHHHHHhcccchhhhhhhHHhHHHhhccccC-cC
Confidence            33333333332211        1111111111111111111111111111100000000000     00    0000 01


Q ss_pred             ccc-cccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceeccccccccccc
Q 044247          146 ERL-LDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVG  222 (333)
Q Consensus       146 ~~~-~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~  222 (333)
                      ... ...|..+++|++|++++|....  +.+.+|.....++.|.|..| .++.+..  +.++..|+.|++.+|+ ++.+.
T Consensus       263 ~~cP~~cf~~L~~L~~lnlsnN~i~~--i~~~aFe~~a~l~eL~L~~N-~l~~v~~~~f~~ls~L~tL~L~~N~-it~~~  338 (498)
T KOG4237|consen  263 SICPAKCFKKLPNLRKLNLSNNKITR--IEDGAFEGAAELQELYLTRN-KLEFVSSGMFQGLSGLKTLSLYDNQ-ITTVA  338 (498)
T ss_pred             CcChHHHHhhcccceEeccCCCccch--hhhhhhcchhhhhhhhcCcc-hHHHHHHHhhhccccceeeeecCCe-eEEEe
Confidence            111 1225566777777777777666  54566777777777777776 3443333  5566677777777776 55554


Q ss_pred             ccccCCCCCCCCCccccCCCccEEeeccCc
Q 044247          223 NEFLGVESDTDGSSVIAFPKLKRLRFWSMS  252 (333)
Q Consensus       223 ~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~  252 (333)
                      ...           +..+..|.+|.+-+++
T Consensus       339 ~~a-----------F~~~~~l~~l~l~~Np  357 (498)
T KOG4237|consen  339 PGA-----------FQTLFSLSTLNLLSNP  357 (498)
T ss_pred             ccc-----------ccccceeeeeehccCc
Confidence            332           3445566666665543

>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=98.23  E-value=1e-06  Score=57.35  Aligned_cols=58  Identities=28%  Similarity=0.334  Sum_probs=48.4

Q ss_pred             CcccEEeecCCCcccccCc-cccccccccEEecCCCCCcccccc-cccccccCceeeeEEEc
Q 044247           12 YNLERVNVSGCSHLRELPQ-GIGKLRKLMYLDNDYTDSLRYLPV-GIGELIRLRRVTKFVVC   71 (333)
Q Consensus        12 ~~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~l~~~~~~~~~p~-~i~~l~~L~~L~l~~~~   71 (333)
                      ++|++|++++|. +..+|. .+.++++|++|++++| .+..++. .+..+++|++|++.+|.
T Consensus         1 p~L~~L~l~~n~-l~~i~~~~f~~l~~L~~L~l~~N-~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSNNK-LTEIPPDSFSNLPNLETLDLSNN-NLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSST-ESEECTTTTTTGTTESEEEETSS-SESEEETTTTTTSTTESEEEETSSS
T ss_pred             CcCcEEECCCCC-CCccCHHHHcCCCCCCEeEccCC-ccCccCHHHHcCCCCCCEEeCcCCc
Confidence            578999999997 777774 6788999999999988 6666664 57899999999998764

...

>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=98.16  E-value=1.1e-06  Score=57.26  Aligned_cols=57  Identities=23%  Similarity=0.391  Sum_probs=31.6

Q ss_pred             CCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccC
Q 044247          182 TNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSM  251 (333)
Q Consensus       182 ~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~  251 (333)
                      |+|++|++++| .+..+++  +.++++|++|++++|. ++.++...           +..+++|++|+++++
T Consensus         1 p~L~~L~l~~n-~l~~i~~~~f~~l~~L~~L~l~~N~-l~~i~~~~-----------f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen    1 PNLESLDLSNN-KLTEIPPDSFSNLPNLETLDLSNNN-LTSIPPDA-----------FSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TTESEEEETSS-TESEECTTTTTTGTTESEEEETSSS-ESEEETTT-----------TTTSTTESEEEETSS
T ss_pred             CcCcEEECCCC-CCCccCHHHHcCCCCCCEeEccCCc-cCccCHHH-----------HcCCCCCCEEeCcCC
Confidence            35566666665 4444443  5556666666666555 45554332           345666666666654

...

>PLN03150 hypothetical protein; Provisional

Probab=98.02  E-value=7.6e-06  Score=78.81  Aligned_cols=107  Identities=16%  Similarity=0.134  Sum_probs=72.2

Q ss_pred             cccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCcee
Q 044247           13 NLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQC   92 (333)
Q Consensus        13 ~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L   92 (333)
                      .++.|++.++...+.+|..++.+++|+.|++++|.....+|..++.+++|+.|++.+|...   +..+..+.++++|+.|
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~ls---g~iP~~l~~L~~L~~L  495 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFN---GSIPESLGQLTSLRIL  495 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCC---CCCchHHhcCCCCCEE
Confidence            3677888888755678888888888888888888555567777888888888888887765   4566677788888887


Q ss_pred             EecCCCCCCChhhHHHHhhcc-cCCccceEEeecC
Q 044247           93 SIDGLGGVSDAGEARRAELEK-KKNLFDLELDFDN  126 (333)
Q Consensus        93 ~l~~~~~~~~~~~~~~~~l~~-~~~L~~L~l~~~~  126 (333)
                      ++....-.....    ..+.. ..++..+++.+|.
T Consensus       496 ~Ls~N~l~g~iP----~~l~~~~~~~~~l~~~~N~  526 (623)
T PLN03150        496 NLNGNSLSGRVP----AALGGRLLHRASFNFTDNA  526 (623)
T ss_pred             ECcCCcccccCC----hHHhhccccCceEEecCCc
Confidence            775432111111    12222 2355677777774

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.99  E-value=2.9e-05  Score=69.55  Aligned_cols=139  Identities=18%  Similarity=0.200  Sum_probs=82.0

Q ss_pred             hcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCc
Q 044247            8 LCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLN   87 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~   87 (333)
                      +..+.++++|++++|. +..+|.   -.++|++|.+++|..++.+|..+  ..+|++|++.+|...   ...+.      
T Consensus        48 ~~~~~~l~~L~Is~c~-L~sLP~---LP~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L---~sLP~------  112 (426)
T PRK15386         48 IEEARASGRLYIKDCD-IESLPV---LPNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEI---SGLPE------  112 (426)
T ss_pred             HHHhcCCCEEEeCCCC-CcccCC---CCCCCcEEEccCCCCcccCCchh--hhhhhheEccCcccc---ccccc------
Confidence            4457889999999996 888883   23469999999988887777654  368999999877433   22333      


Q ss_pred             cCceeEecCCCCCCChhhHHHHhhccc-CCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeee
Q 044247           88 LLRQCSIDGLGGVSDAGEARRAELEKK-KNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEY  166 (333)
Q Consensus        88 ~L~~L~l~~~~~~~~~~~~~~~~l~~~-~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~  166 (333)
                      +|+.|.+... ...        .+..+ ++|+.|.+..++.   .            .....+.  .-.++|+.|.+++|
T Consensus       113 sLe~L~L~~n-~~~--------~L~~LPssLk~L~I~~~n~---~------------~~~~lp~--~LPsSLk~L~Is~c  166 (426)
T PRK15386        113 SVRSLEIKGS-ATD--------SIKNVPNGLTSLSINSYNP---E------------NQARIDN--LISPSLKTLSLTGC  166 (426)
T ss_pred             ccceEEeCCC-CCc--------ccccCcchHhheecccccc---c------------ccccccc--ccCCcccEEEecCC
Confidence            3444444321 100        12222 3566776643310   0            0001111  12257888888887


Q ss_pred             cCCCCccCchhhhcCCCccEEEeecC
Q 044247          167 RGRRNVVPKNWVMSLTNLRVLHLFEC  192 (333)
Q Consensus       167 ~~~~~~~~~~~~~~~~~L~~L~l~~~  192 (333)
                      ....  + |..+  ..+|+.|.++.+
T Consensus       167 ~~i~--L-P~~L--P~SLk~L~ls~n  187 (426)
T PRK15386        167 SNII--L-PEKL--PESLQSITLHIE  187 (426)
T ss_pred             Cccc--C-cccc--cccCcEEEeccc
Confidence            7665  5 5433  467888888764

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

Probab=97.95  E-value=1.9e-06  Score=82.98  Aligned_cols=160  Identities=20%  Similarity=0.163  Sum_probs=95.7

Q ss_pred             CcccEEeecCCCcc-cccCccccc-cccccEEecCCCCCcc-cccccccccccCceeeeEEEcCccCCCCCccccccCcc
Q 044247           12 YNLERVNVSGCSHL-RELPQGIGK-LRKLMYLDNDYTDSLR-YLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNL   88 (333)
Q Consensus        12 ~~L~~L~l~~~~~~-~~lp~~i~~-l~~L~~L~l~~~~~~~-~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~   88 (333)
                      .+|++|++++.... ...|..++. +|+|+.|.+.+-.... .+......+++|..|+++++...     ...+++++++
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~-----nl~GIS~Lkn  196 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNIS-----NLSGISRLKN  196 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCcc-----CcHHHhcccc
Confidence            57888998886533 345555665 8899999888753222 12233567888999999888776     3477888888


Q ss_pred             CceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecC
Q 044247           89 LRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRG  168 (333)
Q Consensus        89 L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~  168 (333)
                      |+.|.+.+++-...   .....+..+++|+.|+++.........           ......+--..+|+|+.|+.++...
T Consensus       197 Lq~L~mrnLe~e~~---~~l~~LF~L~~L~vLDIS~~~~~~~~~-----------ii~qYlec~~~LpeLrfLDcSgTdi  262 (699)
T KOG3665|consen  197 LQVLSMRNLEFESY---QDLIDLFNLKKLRVLDISRDKNNDDTK-----------IIEQYLECGMVLPELRFLDCSGTDI  262 (699)
T ss_pred             HHHHhccCCCCCch---hhHHHHhcccCCCeeeccccccccchH-----------HHHHHHHhcccCccccEEecCCcch
Confidence            88888887654321   222456678888888888764221110           1111122222357777777776554


Q ss_pred             CCCccCchhhhcCCCccEEEeec
Q 044247          169 RRNVVPKNWVMSLTNLRVLHLFE  191 (333)
Q Consensus       169 ~~~~~~~~~~~~~~~L~~L~l~~  191 (333)
                      ....+ ...+..-++|+.+.+.+
T Consensus       263 ~~~~l-e~ll~sH~~L~~i~~~~  284 (699)
T KOG3665|consen  263 NEEIL-EELLNSHPNLQQIAALD  284 (699)
T ss_pred             hHHHH-HHHHHhCccHhhhhhhh
Confidence            43212 22233455555555443

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.94  E-value=6.5e-05  Score=67.32  Aligned_cols=75  Identities=23%  Similarity=0.287  Sum_probs=49.0

Q ss_pred             hhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEe
Q 044247          110 ELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHL  189 (333)
Q Consensus       110 ~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l  189 (333)
                      .+..+.++++|++++|.                  ...++   .-.++|+.|.+++|..... + |+.+  .++|++|++
T Consensus        47 r~~~~~~l~~L~Is~c~------------------L~sLP---~LP~sLtsL~Lsnc~nLts-L-P~~L--P~nLe~L~L  101 (426)
T PRK15386         47 QIEEARASGRLYIKDCD------------------IESLP---VLPNELTEITIENCNNLTT-L-PGSI--PEGLEKLTV  101 (426)
T ss_pred             HHHHhcCCCEEEeCCCC------------------CcccC---CCCCCCcEEEccCCCCccc-C-Cchh--hhhhhheEc
Confidence            45557888899998883                  23333   1234688898888766542 4 5444  468899999


Q ss_pred             ecCCCCCCCCCCCCCccccceeccc
Q 044247          190 FECRNCEHLPPLGKLTSLEDLYIAG  214 (333)
Q Consensus       190 ~~~~~~~~l~~~~~l~~L~~L~l~~  214 (333)
                      ++|..+..+|     ++|+.|++..
T Consensus       102 s~Cs~L~sLP-----~sLe~L~L~~  121 (426)
T PRK15386        102 CHCPEISGLP-----ESVRSLEIKG  121 (426)
T ss_pred             cCcccccccc-----cccceEEeCC
Confidence            8886666554     3566666654

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

Probab=97.93  E-value=1e-06  Score=80.87  Aligned_cols=41  Identities=17%  Similarity=0.093  Sum_probs=18.4

Q ss_pred             ccccccccEEecCCCCCcccccccccccccCceeeeEEEcCc
Q 044247           32 IGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGG   73 (333)
Q Consensus        32 i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~   73 (333)
                      +..+++|..|++.+| .+..+...+..+++|++|++++|.+.
T Consensus        91 l~~~~~l~~l~l~~n-~i~~i~~~l~~~~~L~~L~ls~N~I~  131 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDN-KIEKIENLLSSLVNLQVLDLSFNKIT  131 (414)
T ss_pred             cccccceeeeecccc-chhhcccchhhhhcchheeccccccc
Confidence            444445555555444 33333222444455555555444443

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

Probab=97.92  E-value=1.4e-05  Score=47.83  Aligned_cols=40  Identities=23%  Similarity=0.390  Sum_probs=31.3

Q ss_pred             CcccEEeecCCCcccccCccccccccccEEecCCCCCccccc
Q 044247           12 YNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLP   53 (333)
Q Consensus        12 ~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p   53 (333)
                      ++|++|++++|. +..+|..+++|++|+.|++++| .+..++
T Consensus         1 ~~L~~L~l~~N~-i~~l~~~l~~l~~L~~L~l~~N-~i~~i~   40 (44)
T PF12799_consen    1 KNLEELDLSNNQ-ITDLPPELSNLPNLETLNLSNN-PISDIS   40 (44)
T ss_dssp             TT-SEEEETSSS--SSHGGHGTTCTTSSEEEETSS-CCSBEG
T ss_pred             CcceEEEccCCC-CcccCchHhCCCCCCEEEecCC-CCCCCc
Confidence            478999999998 7788888999999999999998 455543

...

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.90  E-value=1.3e-06  Score=73.33  Aligned_cols=110  Identities=16%  Similarity=0.143  Sum_probs=63.1

Q ss_pred             cCCCcccEEeecCCCcccccCc--cc-cccccccEEecCCCCCccc--ccccccccccCceeeeEEEcCccCCCCCcccc
Q 044247            9 CELYNLERVNVSGCSHLRELPQ--GI-GKLRKLMYLDNDYTDSLRY--LPVGIGELIRLRRVTKFVVCGGYDRACSLGSL   83 (333)
Q Consensus         9 ~~l~~L~~L~l~~~~~~~~lp~--~i-~~l~~L~~L~l~~~~~~~~--~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l   83 (333)
                      ...+-++.|.+.+|. +.....  .+ ..++.++.+++.+|....+  +..-+.+++.|+.|+++.|....    .+..+
T Consensus        42 ~s~ra~ellvln~~~-id~~gd~~~~~~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s----~I~~l  116 (418)
T KOG2982|consen   42 SSLRALELLVLNGSI-IDNEGDVMLFGSSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSS----DIKSL  116 (418)
T ss_pred             ccccchhhheecCCC-CCcchhHHHHHHHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCC----ccccC
Confidence            333444455555654 322111  12 3477888899988833222  33346788999999998887764    22222


Q ss_pred             -ccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecC
Q 044247           84 -KKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDN  126 (333)
Q Consensus        84 -~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~  126 (333)
                       .-+.+|+.+.+++.. ++.  ......+..+|.+++|+++.|+
T Consensus       117 p~p~~nl~~lVLNgT~-L~w--~~~~s~l~~lP~vtelHmS~N~  157 (418)
T KOG2982|consen  117 PLPLKNLRVLVLNGTG-LSW--TQSTSSLDDLPKVTELHMSDNS  157 (418)
T ss_pred             cccccceEEEEEcCCC-CCh--hhhhhhhhcchhhhhhhhccch
Confidence             234566677776532 221  1223456667788888887774

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

Probab=97.88  E-value=2.5e-06  Score=78.28  Aligned_cols=107  Identities=19%  Similarity=0.218  Sum_probs=77.0

Q ss_pred             hhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccC
Q 044247            7 TLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKL   86 (333)
Q Consensus         7 ~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l   86 (333)
                      .++.+++|+.|++.++. +..+...+..+++|++|++++| .++.+. ++..++.|+.|++.+|.+..     +..+..+
T Consensus        90 ~l~~~~~l~~l~l~~n~-i~~i~~~l~~~~~L~~L~ls~N-~I~~i~-~l~~l~~L~~L~l~~N~i~~-----~~~~~~l  161 (414)
T KOG0531|consen   90 HLSKLKSLEALDLYDNK-IEKIENLLSSLVNLQVLDLSFN-KITKLE-GLSTLTLLKELNLSGNLISD-----ISGLESL  161 (414)
T ss_pred             ccccccceeeeeccccc-hhhcccchhhhhcchheecccc-cccccc-chhhccchhhheeccCcchh-----ccCCccc
Confidence            47789999999999998 7666666888999999999999 666663 47888889999999988763     4444445


Q ss_pred             ccCceeEecCCCCCCChhhHHHHh--hcccCCccceEEeecCC
Q 044247           87 NLLRQCSIDGLGGVSDAGEARRAE--LEKKKNLFDLELDFDNL  127 (333)
Q Consensus        87 ~~L~~L~l~~~~~~~~~~~~~~~~--l~~~~~L~~L~l~~~~~  127 (333)
                      ..|+.+++........      ..  +..+.+++.+.+..+.+
T Consensus       162 ~~L~~l~l~~n~i~~i------e~~~~~~~~~l~~l~l~~n~i  198 (414)
T KOG0531|consen  162 KSLKLLDLSYNRIVDI------ENDELSELISLEELDLGGNSI  198 (414)
T ss_pred             hhhhcccCCcchhhhh------hhhhhhhccchHHHhccCCch
Confidence            6666655554322111      12  35667788888877753

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

Probab=97.86  E-value=3.9e-06  Score=80.87  Aligned_cols=138  Identities=19%  Similarity=0.235  Sum_probs=90.5

Q ss_pred             cCCccceEEeecCCCCCchhhhcccCCcccccccccccCC-CCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecC
Q 044247          114 KKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALG-PPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFEC  192 (333)
Q Consensus       114 ~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~-~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  192 (333)
                      -.+|++|++++...                ....++..++ -+|+|+.|.+.+-......+ .....+||+|..||++++
T Consensus       121 r~nL~~LdI~G~~~----------------~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF-~~lc~sFpNL~sLDIS~T  183 (699)
T KOG3665|consen  121 RQNLQHLDISGSEL----------------FSNGWPKKIGTMLPSLRSLVISGRQFDNDDF-SQLCASFPNLRSLDISGT  183 (699)
T ss_pred             HHhhhhcCccccch----------------hhccHHHHHhhhCcccceEEecCceecchhH-HHHhhccCccceeecCCC
Confidence            36899999988642                3334444444 46999999999866554223 334458999999999998


Q ss_pred             CCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCC
Q 044247          193 RNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPR  272 (333)
Q Consensus       193 ~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~  272 (333)
                       ++..+...+.+++|+.|.+.+-. ++.-..  +..        +-.+.+|+.||++.-.+...-..-...-+.-..+|.
T Consensus       184 -nI~nl~GIS~LknLq~L~mrnLe-~e~~~~--l~~--------LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~Lpe  251 (699)
T KOG3665|consen  184 -NISNLSGISRLKNLQVLSMRNLE-FESYQD--LID--------LFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPE  251 (699)
T ss_pred             -CccCcHHHhccccHHHHhccCCC-CCchhh--HHH--------HhcccCCCeeeccccccccchHHHHHHHHhcccCcc
Confidence             67778778899999999988765 222110  000        447889999999875433222110101112236899


Q ss_pred             cceEeccc
Q 044247          273 LSSLSIQS  280 (333)
Q Consensus       273 L~~L~l~~  280 (333)
                      |+.|+.++
T Consensus       252 LrfLDcSg  259 (699)
T KOG3665|consen  252 LRFLDCSG  259 (699)
T ss_pred             ccEEecCC
Confidence            99999886

>PLN03150 hypothetical protein; Provisional

Probab=97.82  E-value=3.2e-05  Score=74.51  Aligned_cols=42  Identities=31%  Similarity=0.374  Sum_probs=18.1

Q ss_pred             chhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceeccccc
Q 044247          175 KNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMK  216 (333)
Q Consensus       175 ~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~  216 (333)
                      |..+..+++|+.|+|++|...+.+|. ++.+++|+.|++++|.
T Consensus       435 p~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~  477 (623)
T PLN03150        435 PNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNS  477 (623)
T ss_pred             CHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCC
Confidence            33344444444444444433333332 4444444444444444

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.77  E-value=6e-06  Score=69.51  Aligned_cols=209  Identities=13%  Similarity=0.040  Sum_probs=113.7

Q ss_pred             CCCcccEEeecCCCcc--cccCccccccccccEEecCCCCCcccccccc-cccccCceeeeEEEcCccCCCCCccccccC
Q 044247           10 ELYNLERVNVSGCSHL--RELPQGIGKLRKLMYLDNDYTDSLRYLPVGI-GELIRLRRVTKFVVCGGYDRACSLGSLKKL   86 (333)
Q Consensus        10 ~l~~L~~L~l~~~~~~--~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i-~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l   86 (333)
                      .+++++.+++.+|...  .++...+.++|.|+.|+++.|+.-..+ ..+ ....+|+.|.+.+....+  ......+..+
T Consensus        69 ~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I-~~lp~p~~nl~~lVLNgT~L~w--~~~~s~l~~l  145 (418)
T KOG2982|consen   69 SVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDI-KSLPLPLKNLRVLVLNGTGLSW--TQSTSSLDDL  145 (418)
T ss_pred             HhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCcc-ccCcccccceEEEEEcCCCCCh--hhhhhhhhcc
Confidence            3678899999999833  245555678999999999998432222 112 345688999888887776  5555566777


Q ss_pred             ccCceeEecCC--CCCCChhhHHHHhhcc-cCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEE
Q 044247           87 NLLRQCSIDGL--GGVSDAGEARRAELEK-KKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHI  163 (333)
Q Consensus        87 ~~L~~L~l~~~--~~~~~~~~~~~~~l~~-~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l  163 (333)
                      ++++.|++..-  ..+.. .+.   .... -+.++++++..|.+    .           .-.........+|++..+-+
T Consensus       146 P~vtelHmS~N~~rq~n~-Dd~---c~e~~s~~v~tlh~~~c~~----~-----------~w~~~~~l~r~Fpnv~sv~v  206 (418)
T KOG2982|consen  146 PKVTELHMSDNSLRQLNL-DDN---CIEDWSTEVLTLHQLPCLE----Q-----------LWLNKNKLSRIFPNVNSVFV  206 (418)
T ss_pred             hhhhhhhhccchhhhhcc-ccc---cccccchhhhhhhcCCcHH----H-----------HHHHHHhHHhhcccchheee
Confidence            77777655421  11100 000   0001 12445555555521    0           00011111223467777777


Q ss_pred             eeecCCCCccC-chhhhcCCCccEEEeecCCCCCC---CCCCCCCccccceecccccccccccccccCCCCCCCCCcccc
Q 044247          164 HEYRGRRNVVP-KNWVMSLTNLRVLHLFECRNCEH---LPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIA  239 (333)
Q Consensus       164 ~~~~~~~~~~~-~~~~~~~~~L~~L~l~~~~~~~~---l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~  239 (333)
                      ..|...+  .. -.....+|.+-.|.++.+ .+++   +..+.+++.|..|.+.+++-...+..+.-..-      -++.
T Consensus       207 ~e~PlK~--~s~ek~se~~p~~~~LnL~~~-~idswasvD~Ln~f~~l~dlRv~~~Pl~d~l~~~err~l------lIaR  277 (418)
T KOG2982|consen  207 CEGPLKT--ESSEKGSEPFPSLSCLNLGAN-NIDSWASVDALNGFPQLVDLRVSENPLSDPLRGGERRFL------LIAR  277 (418)
T ss_pred             ecCcccc--hhhcccCCCCCcchhhhhccc-ccccHHHHHHHcCCchhheeeccCCcccccccCCcceEE------EEee
Confidence            6665444  20 112223566667777766 3333   44477788888888888874433322111100      1456


Q ss_pred             CCCccEEeec
Q 044247          240 FPKLKRLRFW  249 (333)
Q Consensus       240 l~~L~~L~l~  249 (333)
                      +++++.|+=+
T Consensus       278 L~~v~vLNGs  287 (418)
T KOG2982|consen  278 LTKVQVLNGS  287 (418)
T ss_pred             ccceEEecCc
Confidence            6777777543

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

Probab=97.73  E-value=1.9e-07  Score=87.08  Aligned_cols=60  Identities=25%  Similarity=0.242  Sum_probs=29.7

Q ss_pred             cCCCCCCccEEEEeeecCCCCccCchh-hhcCCCccEEEeecCCCCCCCCCCCCCccccceecccc
Q 044247          151 ALGPPPNLKELHIHEYRGRRNVVPKNW-VMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGM  215 (333)
Q Consensus       151 ~l~~~~~L~~L~l~~~~~~~~~~~~~~-~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~  215 (333)
                      ++..+++|+.|+|+.|....  + |.. ...+. |..|.+++| .++.+..+.++.+|+.||+++|
T Consensus       204 ~Lr~l~~LkhLDlsyN~L~~--v-p~l~~~gc~-L~~L~lrnN-~l~tL~gie~LksL~~LDlsyN  264 (1096)
T KOG1859|consen  204 NLRRLPKLKHLDLSYNCLRH--V-PQLSMVGCK-LQLLNLRNN-ALTTLRGIENLKSLYGLDLSYN  264 (1096)
T ss_pred             HHHhcccccccccccchhcc--c-cccchhhhh-heeeeeccc-HHHhhhhHHhhhhhhccchhHh
Confidence            44455555555555555444  3 221 11222 555555555 3444444555555666666554

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

Probab=97.68  E-value=3.9e-06  Score=78.54  Aligned_cols=141  Identities=21%  Similarity=0.097  Sum_probs=68.8

Q ss_pred             ccccccEEecCCCCCccc--ccccccccccCceeeeEEE-cCccCCC-CCccccccCccCceeEecCCCCCCChhhHHHH
Q 044247           34 KLRKLMYLDNDYTDSLRY--LPVGIGELIRLRRVTKFVV-CGGYDRA-CSLGSLKKLNLLRQCSIDGLGGVSDAGEARRA  109 (333)
Q Consensus        34 ~l~~L~~L~l~~~~~~~~--~p~~i~~l~~L~~L~l~~~-~~~~~~~-~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~  109 (333)
                      .++.|+.|.+.+|..+..  +-.....+++|+.|++..+ ....... ........+.+|+.+++.....+.+  ..+..
T Consensus       186 ~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd--~~l~~  263 (482)
T KOG1947|consen  186 SCPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTD--IGLSA  263 (482)
T ss_pred             hCchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCc--hhHHH
Confidence            366777777776655444  2233456677777776652 1111000 0111223344555555554443333  22222


Q ss_pred             hhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCc-cCchhhhcCCCccEEE
Q 044247          110 ELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNV-VPKNWVMSLTNLRVLH  188 (333)
Q Consensus       110 ~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~-~~~~~~~~~~~L~~L~  188 (333)
                      ....+++|++|.+..|.-    .           ....+......+++|+.|++++|...... + .....++++++.|.
T Consensus       264 l~~~c~~L~~L~l~~c~~----l-----------t~~gl~~i~~~~~~L~~L~l~~c~~~~d~~l-~~~~~~c~~l~~l~  327 (482)
T KOG1947|consen  264 LASRCPNLETLSLSNCSN----L-----------TDEGLVSIAERCPSLRELDLSGCHGLTDSGL-EALLKNCPNLRELK  327 (482)
T ss_pred             HHhhCCCcceEccCCCCc----c-----------chhHHHHHHHhcCcccEEeeecCccchHHHH-HHHHHhCcchhhhh
Confidence            333367777777666630    0           22333344455677788887777665310 1 12223466666655


Q ss_pred             eecC
Q 044247          189 LFEC  192 (333)
Q Consensus       189 l~~~  192 (333)
                      +..+
T Consensus       328 ~~~~  331 (482)
T KOG1947|consen  328 LLSL  331 (482)
T ss_pred             hhhc
Confidence            5443

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

Probab=97.61  E-value=6.5e-06  Score=77.04  Aligned_cols=138  Identities=19%  Similarity=0.093  Sum_probs=65.5

Q ss_pred             ccccCceeeeEEEcCccCCCC-CccccccCccCceeEecC-CCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhh
Q 044247           58 ELIRLRRVTKFVVCGGYDRAC-SLGSLKKLNLLRQCSIDG-LGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQA  135 (333)
Q Consensus        58 ~l~~L~~L~l~~~~~~~~~~~-~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~  135 (333)
                      .++.|+.|.+.++....  .. ........+.|+.|++.. .................+.+|+.+++.++..        
T Consensus       186 ~~~~L~~l~l~~~~~~~--~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~--------  255 (482)
T KOG1947|consen  186 SCPLLKRLSLSGCSKIT--DDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGL--------  255 (482)
T ss_pred             hCchhhHhhhcccccCC--hhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhc--------
Confidence            35666666666655442  11 123334455666666654 2222222222223444556677777766631        


Q ss_pred             cccCCcccccccccccCC-CCCCccEEEEeeecCCC-CccCchhhhcCCCccEEEeecCCCCCC--CCC-CCCCccccce
Q 044247          136 GRRENEEDEDERLLDALG-PPPNLKELHIHEYRGRR-NVVPKNWVMSLTNLRVLHLFECRNCEH--LPP-LGKLTSLEDL  210 (333)
Q Consensus       136 ~~~~~~~~~~~~~~~~l~-~~~~L~~L~l~~~~~~~-~~~~~~~~~~~~~L~~L~l~~~~~~~~--l~~-~~~l~~L~~L  210 (333)
                              ..+.....+. .+++|+.|.+.+|...+ ..+ ......+++|+.|++++|..+.+  +.. ..++++|+.|
T Consensus       256 --------isd~~l~~l~~~c~~L~~L~l~~c~~lt~~gl-~~i~~~~~~L~~L~l~~c~~~~d~~l~~~~~~c~~l~~l  326 (482)
T KOG1947|consen  256 --------VTDIGLSALASRCPNLETLSLSNCSNLTDEGL-VSIAERCPSLRELDLSGCHGLTDSGLEALLKNCPNLREL  326 (482)
T ss_pred             --------cCchhHHHHHhhCCCcceEccCCCCccchhHH-HHHHHhcCcccEEeeecCccchHHHHHHHHHhCcchhhh
Confidence                    1111122222 26777777766666422 111 11222577777777777755432  111 2235555554


Q ss_pred             eccc
Q 044247          211 YIAG  214 (333)
Q Consensus       211 ~l~~  214 (333)
                      .+..
T Consensus       327 ~~~~  330 (482)
T KOG1947|consen  327 KLLS  330 (482)
T ss_pred             hhhh
Confidence            4443

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

Probab=97.54  E-value=3.2e-06  Score=79.09  Aligned_cols=90  Identities=22%  Similarity=0.190  Sum_probs=65.2

Q ss_pred             HhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEE
Q 044247          109 AELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLH  188 (333)
Q Consensus       109 ~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~  188 (333)
                      ..+..++.|++|++++|.+                  ..++..-..--+|..|.+++|...+    -..+.++.+|+.|+
T Consensus       203 ~~Lr~l~~LkhLDlsyN~L------------------~~vp~l~~~gc~L~~L~lrnN~l~t----L~gie~LksL~~LD  260 (1096)
T KOG1859|consen  203 DNLRRLPKLKHLDLSYNCL------------------RHVPQLSMVGCKLQLLNLRNNALTT----LRGIENLKSLYGLD  260 (1096)
T ss_pred             HHHHhcccccccccccchh------------------ccccccchhhhhheeeeecccHHHh----hhhHHhhhhhhccc
Confidence            3677889999999999843                  3333322222349999999988877    45677899999999


Q ss_pred             eecCCCCC--CCCCCCCCccccceecccccccccc
Q 044247          189 LFECRNCE--HLPPLGKLTSLEDLYIAGMKSVKRV  221 (333)
Q Consensus       189 l~~~~~~~--~l~~~~~l~~L~~L~l~~~~~l~~i  221 (333)
                      +++|...+  .+.+++.+..|+.|++.+|+ +-.-
T Consensus       261 lsyNll~~hseL~pLwsLs~L~~L~LeGNP-l~c~  294 (1096)
T KOG1859|consen  261 LSYNLLSEHSELEPLWSLSSLIVLWLEGNP-LCCA  294 (1096)
T ss_pred             hhHhhhhcchhhhHHHHHHHHHHHhhcCCc-cccC
Confidence            99983322  35557778899999999998 4333

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

Probab=97.52  E-value=5.1e-05  Score=63.24  Aligned_cols=253  Identities=20%  Similarity=0.087  Sum_probs=128.6

Q ss_pred             hcCCCcccEEeecCCCcc----cccCccccccccccEEecCCCCCcc----ccc-------ccccccccCceeeeEEEcC
Q 044247            8 LCELYNLERVNVSGCSHL----RELPQGIGKLRKLMYLDNDYTDSLR----YLP-------VGIGELIRLRRVTKFVVCG   72 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~----~~lp~~i~~l~~L~~L~l~~~~~~~----~~p-------~~i~~l~~L~~L~l~~~~~   72 (333)
                      +..+..+..+++++|-..    ..+...|.+-.+|+..++++- ...    .++       ..+.+++.|+..++++|.+
T Consensus        26 l~~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~-ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAf  104 (388)
T COG5238          26 LEMMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDA-FTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAF  104 (388)
T ss_pred             HHhhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhh-hhcccHHHHHHHHHHHHHHHhcCCcceeeecccccc
Confidence            334566677777777632    234444555666666666543 111    111       2245667777777776665


Q ss_pred             ccCCCCCccc----cccCccCceeEecCCCCCCChhhHH---------HHhhcccCCccceEEeecCCCCCchhhhcccC
Q 044247           73 GYDRACSLGS----LKKLNLLRQCSIDGLGGVSDAGEAR---------RAELEKKKNLFDLELDFDNLRDGDEEQAGRRE  139 (333)
Q Consensus        73 ~~~~~~~~~~----l~~l~~L~~L~l~~~~~~~~~~~~~---------~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~  139 (333)
                      ..   ..+..    +.+-+.|.+|.+++..-=+..+.-+         ..-...-|.|+.+....|.+..+         
T Consensus       105 g~---~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRleng---------  172 (388)
T COG5238         105 GS---EFPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENG---------  172 (388)
T ss_pred             Cc---ccchHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhccC---------
Confidence            42   22222    3444455555554322111111111         12233457888888888865433         


Q ss_pred             CcccccccccccCCCCCCccEEEEeeecCCCCcc---CchhhhcCCCccEEEeecCCCCCC----CC-CCCCCcccccee
Q 044247          140 NEEDEDERLLDALGPPPNLKELHIHEYRGRRNVV---PKNWVMSLTNLRVLHLFECRNCEH----LP-PLGKLTSLEDLY  211 (333)
Q Consensus       140 ~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~---~~~~~~~~~~L~~L~l~~~~~~~~----l~-~~~~l~~L~~L~  211 (333)
                          ........+....+|+.+.+..|......+   .-..+..+++|+.|++.+|.....    +. .+...+.|+.|.
T Consensus       173 ----s~~~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W~~lrEL~  248 (388)
T COG5238         173 ----SKELSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEWNLLRELR  248 (388)
T ss_pred             ----cHHHHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHhcccchhhhcc
Confidence                122223334455688888888766543101   001122688999999999843221    11 144567789999


Q ss_pred             cccccccccccc-cccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccc-cccCCCcceEecccCcCcc
Q 044247          212 IAGMKSVKRVGN-EFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGE-IIIMPRLSSLSIQSCRELK  285 (333)
Q Consensus       212 l~~~~~l~~i~~-~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~-~~~~~~L~~L~l~~c~~l~  285 (333)
                      +.+|- ++.-.. .++..      ..-..+|+|..|.......-..+-..-.+++. -..+|-|..|.+.+ ++++
T Consensus       249 lnDCl-ls~~G~~~v~~~------f~e~~~p~l~~L~~~Yne~~~~~i~~~~l~~~e~~~~p~L~~le~ng-Nr~~  316 (388)
T COG5238         249 LNDCL-LSNEGVKSVLRR------FNEKFVPNLMPLPGDYNERRGGIILDISLNEFEQDAVPLLVDLERNG-NRIK  316 (388)
T ss_pred             ccchh-hccccHHHHHHH------hhhhcCCCccccccchhhhcCceeeeechhhhhhcccHHHHHHHHcc-Ccch
Confidence            99886 332211 11110      00235678888877764321111100001110 11678888888887 4444

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

Probab=97.47  E-value=0.00024  Score=56.76  Aligned_cols=106  Identities=18%  Similarity=0.261  Sum_probs=64.5

Q ss_pred             CCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccC
Q 044247          181 LTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLG  260 (333)
Q Consensus       181 ~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~  260 (333)
                      .-+...+++++| .+..++.+..++.|.+|.+++|. +..+...+           ...+|+|..|.+.++ ++.++.--
T Consensus        41 ~d~~d~iDLtdN-dl~~l~~lp~l~rL~tLll~nNr-It~I~p~L-----------~~~~p~l~~L~LtnN-si~~l~dl  106 (233)
T KOG1644|consen   41 LDQFDAIDLTDN-DLRKLDNLPHLPRLHTLLLNNNR-ITRIDPDL-----------DTFLPNLKTLILTNN-SIQELGDL  106 (233)
T ss_pred             ccccceeccccc-chhhcccCCCccccceEEecCCc-ceeeccch-----------hhhccccceEEecCc-chhhhhhc
Confidence            345667777777 45555566667788888888777 66665443           346677888888773 45444311


Q ss_pred             CccccccccCCCcceEecccCcCccc--CCc-ccCCCCCcceEEEccc
Q 044247          261 TAIKGEIIIMPRLSSLSIQSCRELKA--LPD-HLLQKSTLQNLEIWGA  305 (333)
Q Consensus       261 ~~~~~~~~~~~~L~~L~l~~c~~l~~--l~~-~~~~l~~L~~L~l~~~  305 (333)
                      ..    ...||+|++|.+.+++.-..  -.. .+..+|+|+.||. ..
T Consensus       107 ~p----La~~p~L~~Ltll~Npv~~k~~YR~yvl~klp~l~~LDF-~k  149 (233)
T KOG1644|consen  107 DP----LASCPKLEYLTLLGNPVEHKKNYRLYVLYKLPSLRTLDF-QK  149 (233)
T ss_pred             ch----hccCCccceeeecCCchhcccCceeEEEEecCcceEeeh-hh
Confidence            11    23677888888777553321  111 2334788888887 54

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

Probab=97.37  E-value=0.0002  Score=42.84  Aligned_cols=33  Identities=36%  Similarity=0.526  Sum_probs=15.7

Q ss_pred             CccEEEeecCCCCCCCCC-CCCCccccceeccccc
Q 044247          183 NLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMK  216 (333)
Q Consensus       183 ~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~  216 (333)
                      +|++|++++| .++++++ ++.+++|+.|++++|+
T Consensus         2 ~L~~L~l~~N-~i~~l~~~l~~l~~L~~L~l~~N~   35 (44)
T PF12799_consen    2 NLEELDLSNN-QITDLPPELSNLPNLETLNLSNNP   35 (44)
T ss_dssp             T-SEEEETSS-S-SSHGGHGTTCTTSSEEEETSSC
T ss_pred             cceEEEccCC-CCcccCchHhCCCCCCEEEecCCC
Confidence            4455555555 3344444 5555555555555554

...

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

Probab=97.34  E-value=0.00036  Score=55.75  Aligned_cols=92  Identities=28%  Similarity=0.352  Sum_probs=66.7

Q ss_pred             ccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecC--CCCCCCCCCCCCccccceecccccccccccccccC
Q 044247          150 DALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFEC--RNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLG  227 (333)
Q Consensus       150 ~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~--~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~  227 (333)
                      ..|..+++|..|.+++|....  +.|..-..+++|..|.+.+|  ..++++.++..||+|++|.+-+|+ ++.-...-. 
T Consensus        58 ~~lp~l~rL~tLll~nNrIt~--I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Ltll~Np-v~~k~~YR~-  133 (233)
T KOG1644|consen   58 DNLPHLPRLHTLLLNNNRITR--IDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYLTLLGNP-VEHKKNYRL-  133 (233)
T ss_pred             ccCCCccccceEEecCCccee--eccchhhhccccceEEecCcchhhhhhcchhccCCccceeeecCCc-hhcccCcee-
Confidence            456677889999999999888  63444446889999999998  344566778889999999999887 443322111 


Q ss_pred             CCCCCCCCccccCCCccEEeeccCc
Q 044247          228 VESDTDGSSVIAFPKLKRLRFWSMS  252 (333)
Q Consensus       228 ~~~~~~~~~~~~l~~L~~L~l~~~~  252 (333)
                             ..+..+|+|+.|++++..
T Consensus       134 -------yvl~klp~l~~LDF~kVt  151 (233)
T KOG1644|consen  134 -------YVLYKLPSLRTLDFQKVT  151 (233)
T ss_pred             -------EEEEecCcceEeehhhhh
Confidence                   115678999999988743

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

Probab=97.22  E-value=0.00023  Score=59.46  Aligned_cols=174  Identities=18%  Similarity=0.114  Sum_probs=82.5

Q ss_pred             ccchhcCCCcccEEeecCCCcc---cccC-------ccccccccccEEecCCCCCccccccc----ccccccCceeeeEE
Q 044247            4 LPETLCELYNLERVNVSGCSHL---RELP-------QGIGKLRKLMYLDNDYTDSLRYLPVG----IGELIRLRRVTKFV   69 (333)
Q Consensus         4 lp~~l~~l~~L~~L~l~~~~~~---~~lp-------~~i~~l~~L~~L~l~~~~~~~~~p~~----i~~l~~L~~L~l~~   69 (333)
                      +...|.+-++|++.++++-...   .+++       +++-+||+|+..++++|..-...|+.    +..-+.|.+|.+.+
T Consensus        50 l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~N  129 (388)
T COG5238          50 LCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNN  129 (388)
T ss_pred             HHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCcccchHHHHHHhcCCCceeEEeec
Confidence            3344555566666666654311   1222       23456677777777776433333322    44556677777766


Q ss_pred             EcCccCCCCCcc-c---------cccCccCceeEecCCCCCCC-hhhHHHHhhcccCCccceEEeecCCCCCchhhhccc
Q 044247           70 VCGGYDRACSLG-S---------LKKLNLLRQCSIDGLGGVSD-AGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRR  138 (333)
Q Consensus        70 ~~~~~~~~~~~~-~---------l~~l~~L~~L~l~~~~~~~~-~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~  138 (333)
                      |+.....+..++ .         ...-+.|+...... ..+.+ ........+..-.+|+.+.+..|.++...       
T Consensus       130 nGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgr-NRlengs~~~~a~~l~sh~~lk~vki~qNgIrpeg-------  201 (388)
T COG5238         130 NGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGR-NRLENGSKELSAALLESHENLKEVKIQQNGIRPEG-------  201 (388)
T ss_pred             CCCCccchhHHHHHHHHHHHHhhhccCCCceEEEecc-chhccCcHHHHHHHHHhhcCceeEEeeecCcCcch-------
Confidence            665432122111 0         11223344322221 11111 22223334444456677777666543211       


Q ss_pred             CCcccccccccccCCCCCCccEEEEeeecCCCCccC----chhhhcCCCccEEEeecC
Q 044247          139 ENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVP----KNWVMSLTNLRVLHLFEC  192 (333)
Q Consensus       139 ~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~----~~~~~~~~~L~~L~l~~~  192 (333)
                           ..+-....+..+.+|+.|++.+|.++.  ..    ...++.++.|+.|.+.+|
T Consensus       202 -----v~~L~~~gl~y~~~LevLDlqDNtft~--~gS~~La~al~~W~~lrEL~lnDC  252 (388)
T COG5238         202 -----VTMLAFLGLFYSHSLEVLDLQDNTFTL--EGSRYLADALCEWNLLRELRLNDC  252 (388)
T ss_pred             -----hHHHHHHHHHHhCcceeeeccccchhh--hhHHHHHHHhcccchhhhccccch
Confidence                 122223344556677777776665544  10    112235566777777776

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.07  E-value=4.4e-05  Score=63.82  Aligned_cols=106  Identities=20%  Similarity=0.210  Sum_probs=74.3

Q ss_pred             CCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCC
Q 044247          155 PPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDG  234 (333)
Q Consensus       155 ~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~  234 (333)
                      +.+.+.|+..+|....    ......++.|+.|.|+-| .+..+.++..|++|++|||..|. +..+.+-.+        
T Consensus        18 l~~vkKLNcwg~~L~D----Isic~kMp~lEVLsLSvN-kIssL~pl~rCtrLkElYLRkN~-I~sldEL~Y--------   83 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDD----ISICEKMPLLEVLSLSVN-KISSLAPLQRCTRLKELYLRKNC-IESLDELEY--------   83 (388)
T ss_pred             HHHhhhhcccCCCccH----HHHHHhcccceeEEeecc-ccccchhHHHHHHHHHHHHHhcc-cccHHHHHH--------
Confidence            3456777777877666    344457999999999998 67788889999999999999887 666655433        


Q ss_pred             CccccCCCccEEeeccCccccccccCCccccccccCCCcceEe
Q 044247          235 SSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLS  277 (333)
Q Consensus       235 ~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~  277 (333)
                        +.++|+|+.|.|..++....-.. .---..+..+|+|++|+
T Consensus        84 --LknlpsLr~LWL~ENPCc~~ag~-nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   84 --LKNLPSLRTLWLDENPCCGEAGQ-NYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             --HhcCchhhhHhhccCCcccccch-hHHHHHHHHcccchhcc
Confidence              67889999999887653211110 00001334678888886

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

Probab=96.91  E-value=0.00057  Score=56.79  Aligned_cols=113  Identities=19%  Similarity=0.029  Sum_probs=71.5

Q ss_pred             hcCCCcccEEeecCCCcccccCccccccccccEEecCCC--CCcccccccccccccCceeeeEEEcCccCCCCCcccccc
Q 044247            8 LCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYT--DSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKK   85 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~--~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~   85 (333)
                      ...+.+|+.|++.++. +..+-. +-.|++|+.|.+++|  .....++.-...+++|++|+++.|++..  ......+..
T Consensus        39 ~d~~~~le~ls~~n~g-ltt~~~-~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~--lstl~pl~~  114 (260)
T KOG2739|consen   39 TDEFVELELLSVINVG-LTTLTN-FPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKD--LSTLRPLKE  114 (260)
T ss_pred             cccccchhhhhhhccc-eeeccc-CCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCcccc--ccccchhhh
Confidence            3456677888877776 433333 557889999999998  3333344445567999999999988764  334555566


Q ss_pred             CccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeec
Q 044247           86 LNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFD  125 (333)
Q Consensus        86 l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~  125 (333)
                      +.+|..|.+..+.... ..+.-...+..+++|++|+-...
T Consensus       115 l~nL~~Ldl~n~~~~~-l~dyre~vf~ll~~L~~LD~~dv  153 (260)
T KOG2739|consen  115 LENLKSLDLFNCSVTN-LDDYREKVFLLLPSLKYLDGCDV  153 (260)
T ss_pred             hcchhhhhcccCCccc-cccHHHHHHHHhhhhcccccccc
Confidence            6666666666554322 22333345556678887765544

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.43  E-value=0.00029  Score=56.23  Aligned_cols=88  Identities=17%  Similarity=0.264  Sum_probs=58.4

Q ss_pred             cccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcc
Q 044247          206 SLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELK  285 (333)
Q Consensus       206 ~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~  285 (333)
                      .++.++.+++. +....-+.           +..++.++.|.+.+|..+.+|.+..-    ..-.++|+.|+|++|++++
T Consensus       102 ~IeaVDAsds~-I~~eGle~-----------L~~l~~i~~l~l~~ck~~dD~~L~~l----~~~~~~L~~L~lsgC~rIT  165 (221)
T KOG3864|consen  102 KIEAVDASDSS-IMYEGLEH-----------LRDLRSIKSLSLANCKYFDDWCLERL----GGLAPSLQDLDLSGCPRIT  165 (221)
T ss_pred             eEEEEecCCch-HHHHHHHH-----------HhccchhhhheeccccchhhHHHHHh----cccccchheeeccCCCeec
Confidence            46667777655 32222111           56777888888888888888774322    1146889999999888887


Q ss_pred             cCC-cccCCCCCcceEEEcccChhhH
Q 044247          286 ALP-DHLLQKSTLQNLEIWGACHILQ  310 (333)
Q Consensus       286 ~l~-~~~~~l~~L~~L~l~~~c~~l~  310 (333)
                      +-. ..+..+++|+.|.+ .+-+.+.
T Consensus       166 ~~GL~~L~~lknLr~L~l-~~l~~v~  190 (221)
T KOG3864|consen  166 DGGLACLLKLKNLRRLHL-YDLPYVA  190 (221)
T ss_pred             hhHHHHHHHhhhhHHHHh-cCchhhh
Confidence            533 24556888888888 7665544

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.39  E-value=8.9e-05  Score=62.05  Aligned_cols=105  Identities=22%  Similarity=0.199  Sum_probs=74.7

Q ss_pred             ccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecC
Q 044247          113 KKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFEC  192 (333)
Q Consensus       113 ~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  192 (333)
                      .+.+.+.|++++|.+.+                   ......++.|++|.++-|.+.+  +  ..+..|++|+.|.|..|
T Consensus        17 dl~~vkKLNcwg~~L~D-------------------Isic~kMp~lEVLsLSvNkIss--L--~pl~rCtrLkElYLRkN   73 (388)
T KOG2123|consen   17 DLENVKKLNCWGCGLDD-------------------ISICEKMPLLEVLSLSVNKISS--L--APLQRCTRLKELYLRKN   73 (388)
T ss_pred             HHHHhhhhcccCCCccH-------------------HHHHHhcccceeEEeecccccc--c--hhHHHHHHHHHHHHHhc
Confidence            34678889999995421                   2344578999999999998888  4  44678999999999988


Q ss_pred             CCCCCCCC---CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEee
Q 044247          193 RNCEHLPP---LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRF  248 (333)
Q Consensus       193 ~~~~~l~~---~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l  248 (333)
                       .+.++..   +.++|+|+.|.|..|+=...-+.. +...      .+..+|+|++|+=
T Consensus        74 -~I~sldEL~YLknlpsLr~LWL~ENPCc~~ag~n-YR~~------VLR~LPnLkKLDn  124 (388)
T KOG2123|consen   74 -CIESLDELEYLKNLPSLRTLWLDENPCCGEAGQN-YRRK------VLRVLPNLKKLDN  124 (388)
T ss_pred             -ccccHHHHHHHhcCchhhhHhhccCCcccccchh-HHHH------HHHHcccchhccC
Confidence             4455443   778899999999988733333221 1221      2677899998863

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

Probab=96.37  E-value=0.00025  Score=53.14  Aligned_cols=64  Identities=14%  Similarity=0.220  Sum_probs=32.9

Q ss_pred             hcCCCcccEEeecCCCcccccCccccc-cccccEEecCCCCCcccccccccccccCceeeeEEEcCc
Q 044247            8 LCELYNLERVNVSGCSHLRELPQGIGK-LRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGG   73 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~lp~~i~~-l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~   73 (333)
                      +.+..+|...++++|. +..+|..+.. .+-++.|++..| .+..+|.+++.++.|+.|++..|...
T Consensus        49 l~~~~el~~i~ls~N~-fk~fp~kft~kf~t~t~lNl~~n-eisdvPeE~Aam~aLr~lNl~~N~l~  113 (177)
T KOG4579|consen   49 LSKGYELTKISLSDNG-FKKFPKKFTIKFPTATTLNLANN-EISDVPEELAAMPALRSLNLRFNPLN  113 (177)
T ss_pred             HhCCceEEEEecccch-hhhCCHHHhhccchhhhhhcchh-hhhhchHHHhhhHHhhhcccccCccc
Confidence            3344444555555555 4455544433 335555555555 44555555555555555555555543

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

Probab=95.84  E-value=0.0037  Score=52.06  Aligned_cols=91  Identities=16%  Similarity=0.066  Sum_probs=61.6

Q ss_pred             hcCCCcccEEeecCC--CcccccCccccccccccEEecCCCCCccccc--ccccccccCceeeeEEEcCccCCCCCcccc
Q 044247            8 LCELYNLERVNVSGC--SHLRELPQGIGKLRKLMYLDNDYTDSLRYLP--VGIGELIRLRRVTKFVVCGGYDRACSLGSL   83 (333)
Q Consensus         8 l~~l~~L~~L~l~~~--~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p--~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l   83 (333)
                      +..|++|+.|.++.|  .....++...-.+|+|++|++++| .+..+.  ..+..+.+|..|++++|.......+.-..+
T Consensus        61 ~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~N-ki~~lstl~pl~~l~nL~~Ldl~n~~~~~l~dyre~vf  139 (260)
T KOG2739|consen   61 FPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGN-KIKDLSTLRPLKELENLKSLDLFNCSVTNLDDYREKVF  139 (260)
T ss_pred             CCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCC-ccccccccchhhhhcchhhhhcccCCccccccHHHHHH
Confidence            456889999999999  433556655667799999999999 444321  125677788889988887664222222334


Q ss_pred             ccCccCceeEecCCCC
Q 044247           84 KKLNLLRQCSIDGLGG   99 (333)
Q Consensus        84 ~~l~~L~~L~l~~~~~   99 (333)
                      .-+++|++|+...+..
T Consensus       140 ~ll~~L~~LD~~dv~~  155 (260)
T KOG2739|consen  140 LLLPSLKYLDGCDVDG  155 (260)
T ss_pred             HHhhhhccccccccCC
Confidence            5577787776665544

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

Probab=95.31  E-value=0.074  Score=39.82  Aligned_cols=35  Identities=14%  Similarity=0.210  Sum_probs=13.2

Q ss_pred             hhcCCCccEEEeecCCCCCCCCC--CCCCccccceeccc
Q 044247          178 VMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAG  214 (333)
Q Consensus       178 ~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~  214 (333)
                      +..+++|+.+.+.++  +..++.  +.++++|+.+.+.+
T Consensus        31 F~~~~~l~~i~~~~~--~~~i~~~~F~~~~~l~~i~~~~   67 (129)
T PF13306_consen   31 FSNCTSLKSINFPNN--LTSIGDNAFSNCKSLESITFPN   67 (129)
T ss_dssp             TTT-TT-SEEEESST--TSCE-TTTTTT-TT-EEEEETS
T ss_pred             ccccccccccccccc--ccccceeeeecccccccccccc
Confidence            334445555555442  222222  44444555555543

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

Probab=95.29  E-value=0.011  Score=29.35  Aligned_cols=20  Identities=35%  Similarity=0.662  Sum_probs=11.1

Q ss_pred             cccEEeecCCCcccccCcccc
Q 044247           13 NLERVNVSGCSHLRELPQGIG   33 (333)
Q Consensus        13 ~L~~L~l~~~~~~~~lp~~i~   33 (333)
                      +|++|++++|. +..+|..++
T Consensus         1 ~L~~Ldls~n~-l~~ip~~~~   20 (22)
T PF00560_consen    1 NLEYLDLSGNN-LTSIPSSFS   20 (22)
T ss_dssp             TESEEEETSSE-ESEEGTTTT
T ss_pred             CccEEECCCCc-CEeCChhhc
Confidence            35666666664 445555444

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 ....

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

Probab=95.29  E-value=0.0012  Score=49.67  Aligned_cols=66  Identities=12%  Similarity=0.156  Sum_probs=51.4

Q ss_pred             cccccCCCCCCccEEEEeeecCCCCccCchhhh-cCCCccEEEeecCCCCCCCCC-CCCCccccceeccccc
Q 044247          147 RLLDALGPPPNLKELHIHEYRGRRNVVPKNWVM-SLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMK  216 (333)
Q Consensus       147 ~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~  216 (333)
                      +....+..-.+|..+++++|....  + |..+. .++.++.|++++| .+.++|. +..++.|+.|.++.|+
T Consensus        44 davy~l~~~~el~~i~ls~N~fk~--f-p~kft~kf~t~t~lNl~~n-eisdvPeE~Aam~aLr~lNl~~N~  111 (177)
T KOG4579|consen   44 DAVYMLSKGYELTKISLSDNGFKK--F-PKKFTIKFPTATTLNLANN-EISDVPEELAAMPALRSLNLRFNP  111 (177)
T ss_pred             HHHHHHhCCceEEEEecccchhhh--C-CHHHhhccchhhhhhcchh-hhhhchHHHhhhHHhhhcccccCc
Confidence            334445556788888999988888  8 55554 6788999999988 6677776 8888999999999888

>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=94.20  E-value=0.025  Score=28.01  Aligned_cols=21  Identities=29%  Similarity=0.449  Sum_probs=16.7

Q ss_pred             cccEEecCCCCCcccccccccc
Q 044247           37 KLMYLDNDYTDSLRYLPVGIGE   58 (333)
Q Consensus        37 ~L~~L~l~~~~~~~~~p~~i~~   58 (333)
                      +|++|++++| .++.+|..+++
T Consensus         1 ~L~~Ldls~n-~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGN-NLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSS-EESEEGTTTTT
T ss_pred             CccEEECCCC-cCEeCChhhcC
Confidence            5899999999 67788876654

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

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

Probab=93.86  E-value=0.13  Score=38.53  Aligned_cols=58  Identities=14%  Similarity=0.169  Sum_probs=20.8

Q ss_pred             cCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecc
Q 044247          151 ALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIA  213 (333)
Q Consensus       151 ~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~  213 (333)
                      ++..+++|+.+.+... ...  +....+..+++++.+.+..+  ...++.  +..+++|+.+++.
T Consensus        30 ~F~~~~~l~~i~~~~~-~~~--i~~~~F~~~~~l~~i~~~~~--~~~i~~~~F~~~~~l~~i~~~   89 (129)
T PF13306_consen   30 AFSNCTSLKSINFPNN-LTS--IGDNAFSNCKSLESITFPNN--LKSIGDNAFSNCTNLKNIDIP   89 (129)
T ss_dssp             TTTT-TT-SEEEESST-TSC--E-TTTTTT-TT-EEEEETST--T-EE-TTTTTT-TTECEEEET
T ss_pred             hccccccccccccccc-ccc--cceeeeeccccccccccccc--ccccccccccccccccccccC
Confidence            3444445555555432 222  21223334445555555432  222222  3444555555554

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.43  E-value=0.019  Score=46.09  Aligned_cols=88  Identities=20%  Similarity=0.107  Sum_probs=59.3

Q ss_pred             cccEEeecCCCcccccCccccccccccEEecCCCCCccccc-cccc-ccccCceeeeEEEcCccCCCCCccccccCccCc
Q 044247           13 NLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLP-VGIG-ELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLR   90 (333)
Q Consensus        13 ~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p-~~i~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~   90 (333)
                      .++.++-+++....+--+.+.+++.++.|.+..|..+..-. +.++ -.++|+.|+++.|...+  ......+.++++|+
T Consensus       102 ~IeaVDAsds~I~~eGle~L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT--~~GL~~L~~lknLr  179 (221)
T KOG3864|consen  102 KIEAVDASDSSIMYEGLEHLRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRIT--DGGLACLLKLKNLR  179 (221)
T ss_pred             eEEEEecCCchHHHHHHHHHhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeec--hhHHHHHHHhhhhH
Confidence            34556656665334555557778888888888886655421 1122 45788999998887665  66677788888888


Q ss_pred             eeEecCCCCCCC
Q 044247           91 QCSIDGLGGVSD  102 (333)
Q Consensus        91 ~L~l~~~~~~~~  102 (333)
                      .|.+.++..+.+
T Consensus       180 ~L~l~~l~~v~~  191 (221)
T KOG3864|consen  180 RLHLYDLPYVAN  191 (221)
T ss_pred             HHHhcCchhhhc
Confidence            888887766554

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

Probab=92.77  E-value=0.092  Score=24.14  Aligned_cols=15  Identities=33%  Similarity=0.499  Sum_probs=6.2

Q ss_pred             cccEEeecCCCccccc
Q 044247           13 NLERVNVSGCSHLREL   28 (333)
Q Consensus        13 ~L~~L~l~~~~~~~~l   28 (333)
                      +|+.|++++|. +.++
T Consensus         2 ~L~~L~l~~n~-L~~l   16 (17)
T PF13504_consen    2 NLRTLDLSNNR-LTSL   16 (17)
T ss_dssp             T-SEEEETSS---SSE
T ss_pred             ccCEEECCCCC-CCCC
Confidence            45555555555 4433

...

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

Probab=88.94  E-value=0.27  Score=25.38  Aligned_cols=14  Identities=29%  Similarity=0.828  Sum_probs=6.4

Q ss_pred             CCcceEecccCcCc
Q 044247          271 PRLSSLSIQSCREL  284 (333)
Q Consensus       271 ~~L~~L~l~~c~~l  284 (333)
                      ++|++|++++|+.+
T Consensus         2 ~~L~~L~l~~C~~i   15 (26)
T smart00367        2 PNLRELDLSGCTNI   15 (26)
T ss_pred             CCCCEeCCCCCCCc
Confidence            34444444444444

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

Probab=87.41  E-value=0.48  Score=24.31  Aligned_cols=18  Identities=33%  Similarity=0.514  Sum_probs=8.9

Q ss_pred             CcccEEeecCCCcccccCc
Q 044247           12 YNLERVNVSGCSHLRELPQ   30 (333)
Q Consensus        12 ~~L~~L~l~~~~~~~~lp~   30 (333)
                      ++|++|++.+|. +..+|.
T Consensus         2 ~~L~~L~L~~N~-l~~lp~   19 (26)
T smart00369        2 PNLRELDLSNNQ-LSSLPP   19 (26)
T ss_pred             CCCCEEECCCCc-CCcCCH
Confidence            445555555554 444444

>smart00370 LRR Leucine-rich repeats, outliers

Probab=87.41  E-value=0.48  Score=24.31  Aligned_cols=18  Identities=33%  Similarity=0.514  Sum_probs=8.9

Q ss_pred             CcccEEeecCCCcccccCc
Q 044247           12 YNLERVNVSGCSHLRELPQ   30 (333)
Q Consensus        12 ~~L~~L~l~~~~~~~~lp~   30 (333)
                      ++|++|++.+|. +..+|.
T Consensus         2 ~~L~~L~L~~N~-l~~lp~   19 (26)
T smart00370        2 PNLRELDLSNNQ-LSSLPP   19 (26)
T ss_pred             CCCCEEECCCCc-CCcCCH
Confidence            445555555554 444444

---

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	333
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-13
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-10
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-09
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-08
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-06
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	5e-06
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-09
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-04
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-07
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-07
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-07
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	9e-07
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-05
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-04
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-04
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	9e-04

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

 Score = 68.8 bits (169), Expect = 2e-13
 Identities = 49/215 (22%), Positives = 73/215 (33%), Gaps = 45/215 (20%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
           + +LP+T+ +   LE + ++    LR LP  I  L +L  L       L  LP  +    
Sbjct: 116 LMELPDTMQQFAGLETLTLARNP-LRALPASIASLNRLRELSIRACPELTELPEPLASTD 174

Query: 61  RLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDL 120
                              L +L+ L  L    I  L           A +   +NL  L
Sbjct: 175 ASGEHQG------------LVNLQSLR-LEWTGIRSLP----------ASIANLQNLKSL 211

Query: 121 ELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMS 180
           ++    L                    L  A+   P L+EL +      RN  P      
Sbjct: 212 KIRNSPLS------------------ALGPAIHHLPKLEELDLRGCTALRN-YP-PIFGG 251

Query: 181 LTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAG 214
              L+ L L +C N   LP  + +LT LE L + G
Sbjct: 252 RAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRG 286

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

 Score = 60.3 bits (147), Expect = 2e-10
 Identities = 18/63 (28%), Positives = 27/63 (42%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
           +   P        L+R+ +  CS+L  LP  I +L +L  LD     +L  LP  I +L 
Sbjct: 242 LRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLP 301

Query: 61  RLR 63
              
Sbjct: 302 ANC 304

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

 Score = 56.5 bits (137), Expect = 3e-09
 Identities = 42/225 (18%), Positives = 70/225 (31%), Gaps = 68/225 (30%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGK---------LRKLMYLDNDYTDSLRY 51
           +  LP ++  L  L  +++  C  L ELP+ +           L  L  L  ++T  +R 
Sbjct: 139 LRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWT-GIRS 197

Query: 52  LPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAEL 111
           LP  I  L                      +LK L  +R   +  LG            +
Sbjct: 198 LPASIANLQ---------------------NLKSLK-IRNSPLSALG----------PAI 225

Query: 112 EKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRN 171
                L +L+L                              G    LK L + +     +
Sbjct: 226 HHLPKLEELDLRGCTAL-----------------RNYPPIFGGRAPLKRLILKDC----S 264

Query: 172 ---VVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYI 212
               +P + +  LT L  L L  C N   LP  + +L +   + +
Sbjct: 265 NLLTLPLD-IHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILV 308

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

 Score = 53.8 bits (130), Expect = 2e-08
 Identities = 39/226 (17%), Positives = 69/226 (30%), Gaps = 43/226 (19%)

Query: 1   IEKLPETL--CELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGE 58
           ++   + L          + +     L + P    +L  L ++  D    L  LP  + +
Sbjct: 68  LKATADLLEDATQPGRVALELRSVP-LPQFPDQAFRLSHLQHMTIDAA-GLMELPDTMQQ 125

Query: 59  LIRLRRVTKFVVCGGYDRA-----CSLGSLKKLNLLRQCSI----DGLGGVSDAGEARRA 109
              L       +     RA      SL  L++L++     +    + L     +G     
Sbjct: 126 FAGL---ETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASG----- 177

Query: 110 ELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGR 169
           E +   NL  L L++  +                    L  ++    NLK L I      
Sbjct: 178 EHQGLVNLQSLRLEWTGI------------------RSLPASIANLQNLKSLKIRN--SP 217

Query: 170 RNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAG 214
            + +       L  L  L L  C    + PP  G    L+ L +  
Sbjct: 218 LSALGPAIH-HLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKD 262

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

 Score = 46.9 bits (112), Expect = 3e-06
 Identities = 44/307 (14%), Positives = 87/307 (28%), Gaps = 76/307 (24%)

Query: 13  NLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCG 72
             E +   G + LR     + + ++    D +   S           I  R         
Sbjct: 13  GRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKATA 72

Query: 73  GYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDE 132
                 +      L  LR   +               +  +  +L  + +D   L     
Sbjct: 73  DLLEDATQPGRVALE-LRSVPLPQF----------PDQAFRLSHLQHMTIDAAGL----- 116

Query: 133 EQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRN---VVPKNWVMSLTNLRVLHL 189
                          L D +     L+ L +      RN    +P + + SL  LR L +
Sbjct: 117 -------------MELPDTMQQFAGLETLTL-----ARNPLRALPAS-IASLNRLRELSI 157

Query: 190 FECRNCEHLPP----------LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIA 239
             C     LP              L +L+ L +                    + + + +
Sbjct: 158 RACPELTELPEPLASTDASGEHQGLVNLQSLRL--------------------EWTGIRS 197

Query: 240 FPKLKRLRFWSMSELEEWDLG----TAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKS 295
            P        ++  L+   +     +A+   I  +P+L  L ++ C  L+  P     ++
Sbjct: 198 LPA----SIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRA 253

Query: 296 TLQNLEI 302
            L+ L +
Sbjct: 254 PLKRLIL 260

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

 Score = 46.5 bits (111), Expect = 5e-06
 Identities = 14/57 (24%), Positives = 26/57 (45%), Gaps = 3/57 (5%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLD---NDYTDSLRYLPV 54
           +  LP  +  L  LE++++ GC +L  LP  I +L     +    +      ++ PV
Sbjct: 266 LLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQAQLDQHRPV 322

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

 Score = 58.3 bits (141), Expect = 1e-09
 Identities = 42/337 (12%), Positives = 92/337 (27%), Gaps = 94/337 (27%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLD---NDYTDSLRYLPVGIG 57
            E    +   L +L  V +  C ++ +LP  +  L +L  L+   N              
Sbjct: 480 YENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACN----RGISAAQLKA 535

Query: 58  ELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNL 117
           +  RL            D   +   ++    +   +++             A L+K   L
Sbjct: 536 DWTRLA-----------DDEDTGPKIQIFY-MGYNNLEEFP--------ASASLQKMVKL 575

Query: 118 FDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRN---VVP 174
             L+   + +R                    L+A G    L +L +       N    +P
Sbjct: 576 GLLDCVHNKVRH-------------------LEAFGTNVKLTDLKLD-----YNQIEEIP 611

Query: 175 KNWVMSLTNLRVLHLFECRNCEHLPP---LGKLTSLEDLYIAGMKSVKRVGNEFLGVESD 231
           +++      +  L        +++P       +  +  +  +         N+      +
Sbjct: 612 EDFCAFTDQVEGLGFSHN-KLKYIPNIFNAKSVYVMGSVDFS--------YNKIGSEGRN 662

Query: 232 TDGS-SVIAFPKLKRLR-------------FWSMSELEEWDL------------GTAIKG 265
              S           +              F + S +    L                 G
Sbjct: 663 ISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLMTSIPENSLKPKDG 722

Query: 266 EIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEI 302
                  L+++ ++  + L +L D   + +TL  L  
Sbjct: 723 NYKNTYLLTTIDLRFNK-LTSLSDD-FRATTLPYLSN 757

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

 Score = 43.7 bits (103), Expect = 7e-05
 Identities = 47/344 (13%), Positives = 101/344 (29%), Gaps = 79/344 (22%)

Query: 7   TLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLD---NDYTDSLRYLPVGIGELIRLR 63
            L     +  ++++G      +P  IG+L +L  L    +  T S R    G  EL    
Sbjct: 318 DLDNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGR--LFGDEELTPDM 375

Query: 64  RVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELD 123
              +      + +   L   ++LNL      D +    +    ++       +L D ++ 
Sbjct: 376 SEERKHRIRMHYKKMFLDYDQRLNLSD-LLQDAINRNPEMKPIKKDSR---ISLKDTQIG 431

Query: 124 FDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIH------------------E 165
               R                   +  A+     L+ ++                    +
Sbjct: 432 NLTNR----------------ITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSD 475

Query: 166 YRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNE 224
           Y  +      +W  +L +L  + L+ C N   LP  L  L  L+ L IA         N 
Sbjct: 476 YAKQYENEELSW-SNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIA--------CNR 526

Query: 225 FLGVESDTDGSSVI--AFPKLKRLR-----------------FWSMSELEEWDLG----T 261
            +         + +        +++                    M +L   D       
Sbjct: 527 GISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHNKVR 586

Query: 262 AIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKST-LQNLEIWG 304
            ++       +L+ L +   + ++ +P+     +  ++ L    
Sbjct: 587 HLE-AFGTNVKLTDLKLDYNQ-IEEIPEDFCAFTDQVEGLGFSH 628

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

 Score = 40.6 bits (95), Expect = 7e-04
 Identities = 12/71 (16%), Positives = 18/71 (25%), Gaps = 9/71 (12%)

Query: 1   IEKLPETL--CELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSL------RYL 52
           +  L +      L  L  ++VS        P       +L      +          R  
Sbjct: 740 LTSLSDDFRATTLPYLSNMDVSYN-CFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQW 798

Query: 53  PVGIGELIRLR 63
           P GI     L 
Sbjct: 799 PTGITTCPSLI 809

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

 Score = 45.4 bits (108), Expect = 1e-05
 Identities = 45/338 (13%), Positives = 89/338 (26%), Gaps = 100/338 (29%)

Query: 4   LPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLD---NDYTDSLRYLPVGIGELI 60
                  L +L  V V  C +L +LP  +  L ++  ++   N              +  
Sbjct: 241 EDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACN----RGISGEQLKDDWQ 296

Query: 61  RLRRVTKFVVCGGYDRACSLGSLKKLNLL--RQCSIDGLGGVSDAGEARRAELEKKKNLF 118
            L                     +K+ ++     ++      +         L+K K L 
Sbjct: 297 ALA---------------DAPVGEKIQIIYIGYNNLKTFPVET--------SLQKMKKLG 333

Query: 119 DLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRN---VVPK 175
            LE  ++ L                     L A G    L  L++       N    +P 
Sbjct: 334 MLECLYNQLEG------------------KLPAFGSEIKLASLNL-----AYNQITEIPA 370

Query: 176 NWVMSLTNLRVLHLFECRNCEHLPP---LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDT 232
           N+      +  L     +  +++P       ++ +  +  +         NE   V+   
Sbjct: 371 NFCGFTEQVENLSFAHNKL-KYIPNIFDAKSVSVMSAIDFS--------YNEIGSVDGKN 421

Query: 233 DGSSVIAFPKLKRLR----------------FWSMSELEEWDL------------GTAIK 264
                    K   +                 F + S L   +L                 
Sbjct: 422 FDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDEN 481

Query: 265 GEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEI 302
                   L+S+ ++  + L  L D   + +TL  L  
Sbjct: 482 ENFKNTYLLTSIDLRFNK-LTKLSDD-FRATTLPYLVG 517

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 44.5 bits (104), Expect = 4e-05
 Identities = 58/384 (15%), Positives = 111/384 (28%), Gaps = 99/384 (25%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGK--LRKLMYLDNDYTDSLRYLPVGIGE 58
             KL + L EL   + V + G         G GK  +   + L          +   I  
Sbjct: 137 YLKLRQALLELRPAKNVLIDG-------VLGSGKTWVALDVCLSYKV---QCKMDFKI-- 184

Query: 59  LIRLRRVTKF-VVCGGYDRACSLGSLKKL-NLLRQCSIDGLGGVSDAGEARRAELE---- 112
                    F +     +   ++  L+ L  LL Q   +     SD     +  +     
Sbjct: 185 ---------FWLNLKNCNSPETV--LEMLQKLLYQIDPNWTSR-SDHSSNIKLRIHSIQA 232

Query: 113 KKKNLFDLE------LDFDNLRDGDEEQA----------GRRENEEDEDERLLDALGPPP 156
           + + L   +      L   N+++     A           R        +++ D L    
Sbjct: 233 ELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTR-------FKQVTDFLSAA- 284

Query: 157 NLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLF-ECRNC--EHLPPLGKLTSLEDLYIA 213
                         ++   +  M+LT   V  L  +  +C  + LP     T+     ++
Sbjct: 285 -----------TTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNP--RRLS 331

Query: 214 GMKSVKRVG----NEFLGVESDTDGSSVIAF-----PKLKRLRFWSMSELEE-------- 256
            +    R G    + +  V  D   + + +      P   R  F  +S            
Sbjct: 332 IIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTIL 391

Query: 257 ----WDLGTAIKGEIII--MPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACH--I 308
               W         +++  + + S +  Q      ++P   +       LE   A H  I
Sbjct: 392 LSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPS--IYLELKVKLENEYALHRSI 449

Query: 309 LQERNREETGEDWPMIRHIPDIYI 332
           +   N  +T +   +I    D Y 
Sbjct: 450 VDHYNIPKTFDSDDLIPPYLDQYF 473

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 39/219 (17%), Positives = 70/219 (31%), Gaps = 64/219 (29%)

Query: 1   IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI 60
           +  LPE      +LE +  S C+ L ELP+    L+ L+  +N+   +L  LP  +  L 
Sbjct: 83  LSSLPE---LPPHLESLVAS-CNSLTELPELPQSLKSLLVDNNNLK-ALSDLPPLLEYLG 137

Query: 61  ----RLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKN 116
               +L ++ +           +   LK ++ +   S+  L              +   +
Sbjct: 138 VSNNQLEKLPEL---------QNSSFLKIID-VDNNSLKKL-------------PDLPPS 174

Query: 117 LFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRN---VV 173
           L  +    + L +                   L  L   P L  ++        N    +
Sbjct: 175 LEFIAAGNNQLEE-------------------LPELQNLPFLTAIYAD-----NNSLKKL 210

Query: 174 PKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYI 212
           P        +L  +        E LP L  L  L  +Y 
Sbjct: 211 PD----LPLSLESIVAGNNIL-EELPELQNLPFLTTIYA 244

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A Length = 452

 Score = 39.7 bits (93), Expect = 9e-04
 Identities = 28/182 (15%), Positives = 51/182 (28%), Gaps = 50/182 (27%)

Query: 150 DALGPPPNLKELHIHEYRGRRN---VVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKL 204
            A      L+EL +       N    +P      + +L  L L E +  E++       L
Sbjct: 141 GAFEYLSKLRELWLR-----NNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGL 195

Query: 205 TSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLR----------------F 248
            +L+ L +                        +     L  L                 F
Sbjct: 196 FNLKYLNLG--------MCNI---------KDMPNLTPLVGLEELEMSGNHFPEIRPGSF 238

Query: 249 WSMSELEEWDLG----TAIKGEIII-MPRLSSLSIQSCRELKALPDHLLQK-STLQNLEI 302
             +S L++  +     + I+      +  L  L++     L +LP  L      L  L +
Sbjct: 239 HGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNN-LSSLPHDLFTPLRYLVELHL 297

Query: 303 WG 304
             
Sbjct: 298 HH 299

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	333
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.92
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.91
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.91
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.9
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.89
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.89
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.89
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.89
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.88
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.88
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.88
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.88
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.88
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.88
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.88
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.88
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.88
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.87
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.87
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.86
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.86
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.86
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.86
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.85
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.85
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.85
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.85
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.85
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.85
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.85
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.85
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.85
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.84
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.84
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.84
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.84
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.84
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.84
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.83
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.83
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.83
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.83
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.82
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.82
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.82
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.81
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.81
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.8
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.8
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.8
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.79
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.79
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.78
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.77
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.77
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.76
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.76
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.75
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.75
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.75
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.75
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.75
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.75
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.73
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.73
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.72
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.72
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.71
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.71
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.7
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.7
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.7
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.7
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.7
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.7
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.7
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.7
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.7
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.69
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.69
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.69
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.66
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.65
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.65
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.65
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.65
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.63
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.63
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.63
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.63
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.61
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.61
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.6
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.59
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.58
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.54
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.54
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.52
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.52
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.51
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.51
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.5
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.48
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.47
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.47
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.44
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.4
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.4
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.4
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.37
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.35
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.33
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.33
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.31
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.3
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.28
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.26
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.25
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.25
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.19
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.16
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.14
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.13
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.09
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.09
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.05
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.03
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.03
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.02
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.02
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.99
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.98
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.97
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.95
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.95
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.94
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.9
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.88
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.71
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.7
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.65
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.58
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.57
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.44
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.41
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.39
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.37
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.36
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.36
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.34
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.31
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.26
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	98.07
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.65
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.59
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.52
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.19
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	97.09
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.06
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.77
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	91.83
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	91.69
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	91.42
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	90.74

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

Probab=99.92  E-value=4.5e-25  Score=215.95  Aligned_cols=285  Identities=15%  Similarity=0.114  Sum_probs=134.4

Q ss_pred             cchhcC--CCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccc
Q 044247            5 PETLCE--LYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGS   82 (333)
Q Consensus         5 p~~l~~--l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~   82 (333)
                      |..+..  +++|++|++++|...+.+|..++.+++|++|++++|.....+|..++.+++|+.|++.+|...   +..+..
T Consensus       385 ~~~~~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~---~~~p~~  461 (768)
T 3rgz_A          385 LPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLE---GEIPQE  461 (768)
T ss_dssp             CTTTTCSTTCCCCEEECCSSEEEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCC---SCCCGG
T ss_pred             ChhhhhcccCCccEEECCCCccccccCHHHhcCCCCCEEECcCCcccCcccHHHhcCCCCCEEECCCCccc---CcCCHH
Confidence            444444  556666666666644456666666666666666666333345555666666666666665544   334455


Q ss_pred             cccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEE
Q 044247           83 LKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELH  162 (333)
Q Consensus        83 l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~  162 (333)
                      +..+++|+.|++....-...    ....+..+++|++|++++|.+                 ...++..+..+++|+.|+
T Consensus       462 ~~~l~~L~~L~L~~N~l~~~----~p~~l~~l~~L~~L~L~~N~l-----------------~~~~p~~~~~l~~L~~L~  520 (768)
T 3rgz_A          462 LMYVKTLETLILDFNDLTGE----IPSGLSNCTNLNWISLSNNRL-----------------TGEIPKWIGRLENLAILK  520 (768)
T ss_dssp             GGGCTTCCEEECCSSCCCSC----CCGGGGGCTTCCEEECCSSCC-----------------CSCCCGGGGGCTTCCEEE
T ss_pred             HcCCCCceEEEecCCcccCc----CCHHHhcCCCCCEEEccCCcc-----------------CCcCChHHhcCCCCCEEE
Confidence            55566666655544221111    112345556666666666642                 223334444455555555


Q ss_pred             EeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCC-------------------------------------------
Q 044247          163 IHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLP-------------------------------------------  199 (333)
Q Consensus       163 l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~-------------------------------------------  199 (333)
                      +++|..... + |..+..+++|+.|++++|...+.+|                                           
T Consensus       521 L~~N~l~~~-~-p~~l~~l~~L~~L~Ls~N~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  598 (768)
T 3rgz_A          521 LSNNSFSGN-I-PAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQG  598 (768)
T ss_dssp             CCSSCCEEE-C-CGGGGGCTTCCEEECCSSEEESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTT
T ss_pred             CCCCcccCc-C-CHHHcCCCCCCEEECCCCccCCcCChHHhcccchhhhhcccccccccccccccccccccccccccccc
Confidence            555544321 3 4445555555555555442221111                                           


Q ss_pred             ----------------------------CCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccC
Q 044247          200 ----------------------------PLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSM  251 (333)
Q Consensus       200 ----------------------------~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~  251 (333)
                                                  .++.+++|+.|++++|.....+|..            ++.++.|+.|+++++
T Consensus       599 ~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~LdLs~N~l~g~ip~~------------l~~l~~L~~L~Ls~N  666 (768)
T 3rgz_A          599 IRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKE------------IGSMPYLFILNLGHN  666 (768)
T ss_dssp             CCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEEECCSSCCBSCCCGG------------GGGCTTCCEEECCSS
T ss_pred             ccchhhhccccccccccccceecccCchhhhccccccEEECcCCcccccCCHH------------HhccccCCEEeCcCC
Confidence                                        1223345555555555533334433            345555555555554


Q ss_pred             ccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEc----------------------ccChhh
Q 044247          252 SELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIW----------------------GACHIL  309 (333)
Q Consensus       252 ~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~----------------------~~c~~l  309 (333)
                      .      +.+.+|..+..+++|+.|++++|.....+|..+..+++|+.|++.                      .+|+.+
T Consensus       667 ~------l~g~ip~~l~~L~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~ls~N~l~g~iP~~~~~~~~~~~~~~gN~~L  740 (768)
T 3rgz_A          667 D------ISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLNNPGL  740 (768)
T ss_dssp             C------CCSCCCGGGGGCTTCCEEECCSSCCEECCCGGGGGCCCCSEEECCSSEEEEECCSSSSGGGSCGGGGCSCTEE
T ss_pred             c------cCCCCChHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECcCCcccccCCCchhhccCCHHHhcCCchh
Confidence            3      334444455555555555555544334455555555555555550                      333332


Q ss_pred             H----hhcccCCCCCCccccCcCceecC
Q 044247          310 Q----ERNREETGEDWPMIRHIPDIYIP  333 (333)
Q Consensus       310 ~----~~~~~~~~~~~~~~~~i~~~~~~  333 (333)
                      .    ..|....+++|++++|+|+++-|
T Consensus       741 cg~~l~~C~~~~~~~~~~~~~~~~~~~~  768 (768)
T 3rgz_A          741 CGYPLPRCDPSNADGYAHHQRSHHHHHH  768 (768)
T ss_dssp             ESTTSCCCCSCC----------------
T ss_pred             cCCCCcCCCCCccCCCCCCCCccccCCC
Confidence            2    24777888999999999988643

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

Probab=99.91  E-value=4.4e-23  Score=182.00  Aligned_cols=228  Identities=20%  Similarity=0.171  Sum_probs=164.6

Q ss_pred             CCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCc
Q 044247           11 LYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLR   90 (333)
Q Consensus        11 l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~   90 (333)
                      ..++++|+++++. +..+|..++.+++|++|++++| .+..+|..++.+++|++|++++|....    .+..+..+++|+
T Consensus        80 ~~~l~~L~L~~n~-l~~lp~~l~~l~~L~~L~L~~n-~l~~lp~~~~~l~~L~~L~Ls~n~l~~----lp~~l~~l~~L~  153 (328)
T 4fcg_A           80 QPGRVALELRSVP-LPQFPDQAFRLSHLQHMTIDAA-GLMELPDTMQQFAGLETLTLARNPLRA----LPASIASLNRLR  153 (328)
T ss_dssp             STTCCEEEEESSC-CSSCCSCGGGGTTCSEEEEESS-CCCCCCSCGGGGTTCSEEEEESCCCCC----CCGGGGGCTTCC
T ss_pred             ccceeEEEccCCC-chhcChhhhhCCCCCEEECCCC-CccchhHHHhccCCCCEEECCCCcccc----CcHHHhcCcCCC
Confidence            4788888888888 6788888888888888888888 455788888888888888888776542    344445555555


Q ss_pred             eeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCC
Q 044247           91 QCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRR  170 (333)
Q Consensus        91 ~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~  170 (333)
                      .|                            ++++|........ ..       ........+..+++|+.|++++|....
T Consensus       154 ~L----------------------------~L~~n~~~~~~p~-~~-------~~~~~~~~~~~l~~L~~L~L~~n~l~~  197 (328)
T 4fcg_A          154 EL----------------------------SIRACPELTELPE-PL-------ASTDASGEHQGLVNLQSLRLEWTGIRS  197 (328)
T ss_dssp             EE----------------------------EEEEETTCCCCCS-CS-------EEEC-CCCEEESTTCCEEEEEEECCCC
T ss_pred             EE----------------------------ECCCCCCccccCh-hH-------hhccchhhhccCCCCCEEECcCCCcCc
Confidence            44                            4444321100000 00       000111223457888899998888776


Q ss_pred             CccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeec
Q 044247          171 NVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFW  249 (333)
Q Consensus       171 ~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~  249 (333)
                        + |..+..+++|+.|++++|. +..+|. ++.+++|++|++++|.....++..            +..+++|++|+++
T Consensus       198 --l-p~~l~~l~~L~~L~L~~N~-l~~l~~~l~~l~~L~~L~Ls~n~~~~~~p~~------------~~~l~~L~~L~L~  261 (328)
T 4fcg_A          198 --L-PASIANLQNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTALRNYPPI------------FGGRAPLKRLILK  261 (328)
T ss_dssp             --C-CGGGGGCTTCCEEEEESSC-CCCCCGGGGGCTTCCEEECTTCTTCCBCCCC------------TTCCCCCCEEECT
T ss_pred             --c-hHhhcCCCCCCEEEccCCC-CCcCchhhccCCCCCEEECcCCcchhhhHHH------------hcCCCCCCEEECC
Confidence              7 7788889999999999884 445554 778889999999998866666544            5688899999999


Q ss_pred             cCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEE
Q 044247          250 SMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEI  302 (333)
Q Consensus       250 ~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l  302 (333)
                      +|..+.      .+|..+..+++|++|++++|+.++.+|..+..+++|+.+++
T Consensus       262 ~n~~~~------~~p~~~~~l~~L~~L~L~~n~~~~~iP~~l~~L~~L~~l~l  308 (328)
T 4fcg_A          262 DCSNLL------TLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILV  308 (328)
T ss_dssp             TCTTCC------BCCTTGGGCTTCCEEECTTCTTCCCCCGGGGGSCTTCEEEC
T ss_pred             CCCchh------hcchhhhcCCCCCEEeCCCCCchhhccHHHhhccCceEEeC
Confidence            886543      34455668999999999999999999999999999999988

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

Probab=99.91  E-value=4.2e-23  Score=182.10  Aligned_cols=217  Identities=21%  Similarity=0.309  Sum_probs=179.2

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCc
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSL   80 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~   80 (333)
                      +..+|..++++++|++|++++|. +..+|..++.+++|++|++++| .+..+|..++.+++|++|++++|...   +..+
T Consensus        93 l~~lp~~l~~l~~L~~L~L~~n~-l~~lp~~~~~l~~L~~L~Ls~n-~l~~lp~~l~~l~~L~~L~L~~n~~~---~~~p  167 (328)
T 4fcg_A           93 LPQFPDQAFRLSHLQHMTIDAAG-LMELPDTMQQFAGLETLTLARN-PLRALPASIASLNRLRELSIRACPEL---TELP  167 (328)
T ss_dssp             CSSCCSCGGGGTTCSEEEEESSC-CCCCCSCGGGGTTCSEEEEESC-CCCCCCGGGGGCTTCCEEEEEEETTC---CCCC
T ss_pred             chhcChhhhhCCCCCEEECCCCC-ccchhHHHhccCCCCEEECCCC-ccccCcHHHhcCcCCCEEECCCCCCc---cccC
Confidence            45789999999999999999998 6699999999999999999999 56688999999999999999998765   3334


Q ss_pred             cccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccE
Q 044247           81 GSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKE  160 (333)
Q Consensus        81 ~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~  160 (333)
                      ..+....      +      .       ..+..+++|++|++++|.+                  ..++..+..+++|+.
T Consensus       168 ~~~~~~~------~------~-------~~~~~l~~L~~L~L~~n~l------------------~~lp~~l~~l~~L~~  210 (328)
T 4fcg_A          168 EPLASTD------A------S-------GEHQGLVNLQSLRLEWTGI------------------RSLPASIANLQNLKS  210 (328)
T ss_dssp             SCSEEEC-------------C-------CCEEESTTCCEEEEEEECC------------------CCCCGGGGGCTTCCE
T ss_pred             hhHhhcc------c------h-------hhhccCCCCCEEECcCCCc------------------CcchHhhcCCCCCCE
Confidence            3332210      0      0       1356678999999999953                  355667888899999


Q ss_pred             EEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCCCCCcccc
Q 044247          161 LHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIA  239 (333)
Q Consensus       161 L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~  239 (333)
                      |++++|....  + +..+..+++|+.|++++|...+.+|. ++.+++|++|++++|...+.+|..            +..
T Consensus       211 L~L~~N~l~~--l-~~~l~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~~p~~------------~~~  275 (328)
T 4fcg_A          211 LKIRNSPLSA--L-GPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLD------------IHR  275 (328)
T ss_dssp             EEEESSCCCC--C-CGGGGGCTTCCEEECTTCTTCCBCCCCTTCCCCCCEEECTTCTTCCBCCTT------------GGG
T ss_pred             EEccCCCCCc--C-chhhccCCCCCEEECcCCcchhhhHHHhcCCCCCCEEECCCCCchhhcchh------------hhc
Confidence            9999999887  7 77888999999999999988777776 889999999999999877777655            678


Q ss_pred             CCCccEEeeccCccccccccCCccccccccCCCcceEeccc
Q 044247          240 FPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQS  280 (333)
Q Consensus       240 l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~  280 (333)
                      +++|++|++++|+.+      +.+|+.+..+++|+.+.+..
T Consensus       276 l~~L~~L~L~~n~~~------~~iP~~l~~L~~L~~l~l~~  310 (328)
T 4fcg_A          276 LTQLEKLDLRGCVNL------SRLPSLIAQLPANCIILVPP  310 (328)
T ss_dssp             CTTCCEEECTTCTTC------CCCCGGGGGSCTTCEEECCG
T ss_pred             CCCCCEEeCCCCCch------hhccHHHhhccCceEEeCCH
Confidence            999999999998744      45667777999999998875

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

Probab=99.90  E-value=6.9e-23  Score=200.50  Aligned_cols=272  Identities=19%  Similarity=0.151  Sum_probs=219.0

Q ss_pred             cccchhcCCC-cccEEeecCCCcccccCccccc--cccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCC
Q 044247            3 KLPETLCELY-NLERVNVSGCSHLRELPQGIGK--LRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACS   79 (333)
Q Consensus         3 ~lp~~l~~l~-~L~~L~l~~~~~~~~lp~~i~~--l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~   79 (333)
                      .+|..+..++ +|++|++++|...+.+|..+..  +++|++|++++|.....+|..++.+++|++|++++|...   +..
T Consensus       358 ~~p~~l~~l~~~L~~L~Ls~N~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~---~~~  434 (768)
T 3rgz_A          358 ELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLS---GTI  434 (768)
T ss_dssp             CCCTTHHHHTTTCSEEECCSSEEEEECCTTTTCSTTCCCCEEECCSSEEEEECCGGGGGCTTCCEEECCSSEEE---SCC
T ss_pred             cccHHHHhhhcCCcEEEccCCCcCCCcChhhhhcccCCccEEECCCCccccccCHHHhcCCCCCEEECcCCccc---Ccc
Confidence            5788899988 9999999999966788887877  899999999999655578888999999999999998776   456


Q ss_pred             ccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCcc
Q 044247           80 LGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLK  159 (333)
Q Consensus        80 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~  159 (333)
                      +..+..+++|+.|++....-...    ....+..+++|++|++++|.                 .....+..+..+++|+
T Consensus       435 p~~l~~l~~L~~L~L~~n~l~~~----~p~~~~~l~~L~~L~L~~N~-----------------l~~~~p~~l~~l~~L~  493 (768)
T 3rgz_A          435 PSSLGSLSKLRDLKLWLNMLEGE----IPQELMYVKTLETLILDFND-----------------LTGEIPSGLSNCTNLN  493 (768)
T ss_dssp             CGGGGGCTTCCEEECCSSCCCSC----CCGGGGGCTTCCEEECCSSC-----------------CCSCCCGGGGGCTTCC
T ss_pred             cHHHhcCCCCCEEECCCCcccCc----CCHHHcCCCCceEEEecCCc-----------------ccCcCCHHHhcCCCCC
Confidence            77889999999998876432211    22367788999999999996                 3345567788899999


Q ss_pred             EEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCC------
Q 044247          160 ELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDT------  232 (333)
Q Consensus       160 ~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~------  232 (333)
                      .|++++|..... + |.++..+++|+.|++++|...+.+|. ++.+++|+.|++++|.....+|..+.......      
T Consensus       494 ~L~L~~N~l~~~-~-p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~g~ip~~~~~~~~~~~~~~~~  571 (768)
T 3rgz_A          494 WISLSNNRLTGE-I-PKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIA  571 (768)
T ss_dssp             EEECCSSCCCSC-C-CGGGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSSEEESBCCGGGGTTTTCBCCSTTC
T ss_pred             EEEccCCccCCc-C-ChHHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCCccCCcCChHHhcccchhhhhccc
Confidence            999999988742 6 88999999999999999976666775 88999999999999985556665433211000      


Q ss_pred             ----------------------------------------------------CCCccccCCCccEEeeccCccccccccC
Q 044247          233 ----------------------------------------------------DGSSVIAFPKLKRLRFWSMSELEEWDLG  260 (333)
Q Consensus       233 ----------------------------------------------------~~~~~~~l~~L~~L~l~~~~~L~~~~~~  260 (333)
                                                                          ....+..+++|+.|+++++.      +.
T Consensus       572 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~LdLs~N~------l~  645 (768)
T 3rgz_A          572 GKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNM------LS  645 (768)
T ss_dssp             SCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEEECCSSC------CB
T ss_pred             cccccccccccccccccccccccccccccchhhhccccccccccccceecccCchhhhccccccEEECcCCc------cc
Confidence                                                                01135567899999999964      55


Q ss_pred             CccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccCh
Q 044247          261 TAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       261 ~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                      +.+|..+..+++|+.|++++|.....+|..+..+++|+.|++ ++|.
T Consensus       646 g~ip~~l~~l~~L~~L~Ls~N~l~g~ip~~l~~L~~L~~LdL-s~N~  691 (768)
T 3rgz_A          646 GYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDL-SSNK  691 (768)
T ss_dssp             SCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEEC-CSSC
T ss_pred             ccCCHHHhccccCCEEeCcCCccCCCCChHHhCCCCCCEEEC-CCCc
Confidence            678888999999999999997777789999999999999999 8875

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

Probab=99.89  E-value=2.4e-22  Score=178.68  Aligned_cols=260  Identities=18%  Similarity=0.173  Sum_probs=153.7

Q ss_pred             CcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcc
Q 044247            2 EKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLG   81 (333)
Q Consensus         2 ~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~   81 (333)
                      ..+|. ++.+++|++|++++|. +..++. +..+++|++|++++| .+..++ .+..+++|++|++++|....     ..
T Consensus        57 ~~~~~-~~~~~~L~~L~l~~n~-i~~~~~-~~~l~~L~~L~L~~n-~i~~~~-~~~~l~~L~~L~l~~n~i~~-----~~  126 (347)
T 4fmz_A           57 ASIQG-IEYLTNLEYLNLNGNQ-ITDISP-LSNLVKLTNLYIGTN-KITDIS-ALQNLTNLRELYLNEDNISD-----IS  126 (347)
T ss_dssp             CCCTT-GGGCTTCCEEECCSSC-CCCCGG-GTTCTTCCEEECCSS-CCCCCG-GGTTCTTCSEEECTTSCCCC-----CG
T ss_pred             ccchh-hhhcCCccEEEccCCc-cccchh-hhcCCcCCEEEccCC-cccCch-HHcCCCcCCEEECcCCcccC-----ch
Confidence            34543 7778888888888887 666666 788888888888888 555654 47788888888887776553     22


Q ss_pred             ccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhc--c----cCCcccccccccccCCCC
Q 044247           82 SLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAG--R----RENEEDEDERLLDALGPP  155 (333)
Q Consensus        82 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~--~----~~~~~~~~~~~~~~l~~~  155 (333)
                      .+..+++|+.|++.........     ..+..+++|++|++++|.+.....-...  +    ..++  ....+. .+..+
T Consensus       127 ~~~~l~~L~~L~l~~n~~~~~~-----~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~n--~l~~~~-~~~~l  198 (347)
T 4fmz_A          127 PLANLTKMYSLNLGANHNLSDL-----SPLSNMTGLNYLTVTESKVKDVTPIANLTDLYSLSLNYN--QIEDIS-PLASL  198 (347)
T ss_dssp             GGTTCTTCCEEECTTCTTCCCC-----GGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECTTS--CCCCCG-GGGGC
T ss_pred             hhccCCceeEEECCCCCCcccc-----cchhhCCCCcEEEecCCCcCCchhhccCCCCCEEEccCC--cccccc-cccCC
Confidence            2666777777777654333322     1255566666666666643221100000  0    0000  001111 13444


Q ss_pred             CCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCC
Q 044247          156 PNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGS  235 (333)
Q Consensus       156 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~  235 (333)
                      ++|+.++++++....  + +. +..+++|+.|++++| .+..++.+..+++|++|++++|. +..++.            
T Consensus       199 ~~L~~L~l~~n~l~~--~-~~-~~~~~~L~~L~l~~n-~l~~~~~~~~l~~L~~L~l~~n~-l~~~~~------------  260 (347)
T 4fmz_A          199 TSLHYFTAYVNQITD--I-TP-VANMTRLNSLKIGNN-KITDLSPLANLSQLTWLEIGTNQ-ISDINA------------  260 (347)
T ss_dssp             TTCCEEECCSSCCCC--C-GG-GGGCTTCCEEECCSS-CCCCCGGGTTCTTCCEEECCSSC-CCCCGG------------
T ss_pred             CccceeecccCCCCC--C-ch-hhcCCcCCEEEccCC-ccCCCcchhcCCCCCEEECCCCc-cCCChh------------
Confidence            556666665555544  3 22 555666666666666 34444446666667777776665 333321            


Q ss_pred             ccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccCh
Q 044247          236 SVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       236 ~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                       +..+++|++|++++| .+..++       .+..+++|++|++++|......+..+..+++|+.|++ ++|+
T Consensus       261 -~~~l~~L~~L~l~~n-~l~~~~-------~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~L-~~n~  322 (347)
T 4fmz_A          261 -VKDLTKLKMLNVGSN-QISDIS-------VLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFL-SQNH  322 (347)
T ss_dssp             -GTTCTTCCEEECCSS-CCCCCG-------GGGGCTTCSEEECCSSCCCGGGHHHHHTCTTCSEEEC-CSSS
T ss_pred             -HhcCCCcCEEEccCC-ccCCCh-------hhcCCCCCCEEECcCCcCCCcChhHhhccccCCEEEc-cCCc
Confidence             456777777777775 343332       2446778888888876544444555666788888888 7776

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

Probab=99.89  E-value=4.1e-22  Score=177.16  Aligned_cols=260  Identities=13%  Similarity=0.162  Sum_probs=185.3

Q ss_pred             CcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcc
Q 044247            2 EKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLG   81 (333)
Q Consensus         2 ~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~   81 (333)
                      ..+|. +..+++|++|++++|. +..++ .+..+++|++|++++| .+..++. +..+++|++|++.+|....    ...
T Consensus        79 ~~~~~-~~~l~~L~~L~L~~n~-i~~~~-~~~~l~~L~~L~l~~n-~i~~~~~-~~~l~~L~~L~l~~n~~~~----~~~  149 (347)
T 4fmz_A           79 TDISP-LSNLVKLTNLYIGTNK-ITDIS-ALQNLTNLRELYLNED-NISDISP-LANLTKMYSLNLGANHNLS----DLS  149 (347)
T ss_dssp             CCCGG-GTTCTTCCEEECCSSC-CCCCG-GGTTCTTCSEEECTTS-CCCCCGG-GTTCTTCCEEECTTCTTCC----CCG
T ss_pred             ccchh-hhcCCcCCEEEccCCc-ccCch-HHcCCCcCCEEECcCC-cccCchh-hccCCceeEEECCCCCCcc----ccc
Confidence            45566 8889999999999987 66665 4888999999999888 5566655 7788888888888775543    344


Q ss_pred             ccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhc------ccCCcccccccccccCCCC
Q 044247           82 SLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAG------RRENEEDEDERLLDALGPP  155 (333)
Q Consensus        82 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~l~~~  155 (333)
                      .+..+++|+.|.+........ .     .+..+++|++|++++|.+.+...-...      ....+  ..... ..+..+
T Consensus       150 ~~~~l~~L~~L~l~~~~~~~~-~-----~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n--~l~~~-~~~~~~  220 (347)
T 4fmz_A          150 PLSNMTGLNYLTVTESKVKDV-T-----PIANLTDLYSLSLNYNQIEDISPLASLTSLHYFTAYVN--QITDI-TPVANM  220 (347)
T ss_dssp             GGTTCTTCCEEECCSSCCCCC-G-----GGGGCTTCSEEECTTSCCCCCGGGGGCTTCCEEECCSS--CCCCC-GGGGGC
T ss_pred             chhhCCCCcEEEecCCCcCCc-h-----hhccCCCCCEEEccCCcccccccccCCCccceeecccC--CCCCC-chhhcC
Confidence            467777777777765432211 1     255667777777777765433210000      00001  11111 126678


Q ss_pred             CCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCC
Q 044247          156 PNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGS  235 (333)
Q Consensus       156 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~  235 (333)
                      ++|+.|++++|....  + +. +..+++|+.|++++| .+..++.+..+++|+.|++++|. +..++.            
T Consensus       221 ~~L~~L~l~~n~l~~--~-~~-~~~l~~L~~L~l~~n-~l~~~~~~~~l~~L~~L~l~~n~-l~~~~~------------  282 (347)
T 4fmz_A          221 TRLNSLKIGNNKITD--L-SP-LANLSQLTWLEIGTN-QISDINAVKDLTKLKMLNVGSNQ-ISDISV------------  282 (347)
T ss_dssp             TTCCEEECCSSCCCC--C-GG-GTTCTTCCEEECCSS-CCCCCGGGTTCTTCCEEECCSSC-CCCCGG------------
T ss_pred             CcCCEEEccCCccCC--C-cc-hhcCCCCCEEECCCC-ccCCChhHhcCCCcCEEEccCCc-cCCChh------------
Confidence            999999999998887  5 44 788999999999999 56667778899999999999997 555531            


Q ss_pred             ccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccCh
Q 044247          236 SVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       236 ~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                       +..+++|++|++++|. +     ....+..+..+++|++|++++|+ ++.++. +..+++|+.|++ .+|+
T Consensus       283 -~~~l~~L~~L~L~~n~-l-----~~~~~~~l~~l~~L~~L~L~~n~-l~~~~~-~~~l~~L~~L~l-~~N~  344 (347)
T 4fmz_A          283 -LNNLSQLNSLFLNNNQ-L-----GNEDMEVIGGLTNLTTLFLSQNH-ITDIRP-LASLSKMDSADF-ANQV  344 (347)
T ss_dssp             -GGGCTTCSEEECCSSC-C-----CGGGHHHHHTCTTCSEEECCSSS-CCCCGG-GGGCTTCSEESS-SCC-
T ss_pred             -hcCCCCCCEEECcCCc-C-----CCcChhHhhccccCCEEEccCCc-cccccC-hhhhhccceeeh-hhhc
Confidence             5789999999999974 3     22333456689999999999976 555555 667999999999 8886

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

Probab=99.89  E-value=1.7e-23  Score=183.56  Aligned_cols=252  Identities=13%  Similarity=0.097  Sum_probs=197.0

Q ss_pred             CcccEEeecCCCccc--ccCccccccccccEEecCC-CCCcccccccccccccCceeeeEEEcCccCCCCCccccccCcc
Q 044247           12 YNLERVNVSGCSHLR--ELPQGIGKLRKLMYLDNDY-TDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNL   88 (333)
Q Consensus        12 ~~L~~L~l~~~~~~~--~lp~~i~~l~~L~~L~l~~-~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~   88 (333)
                      .++++|+++++...+  .+|..++.+++|++|++++ |.....+|..++.+++|++|++++|...   +..+..+.++++
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~---~~~p~~~~~l~~  126 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVS---GAIPDFLSQIKT  126 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCE---EECCGGGGGCTT
T ss_pred             ceEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeC---CcCCHHHhCCCC
Confidence            579999999999555  7999999999999999995 6455578888999999999999999876   346777889999


Q ss_pred             CceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCC-CccEEEEeeec
Q 044247           89 LRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPP-NLKELHIHEYR  167 (333)
Q Consensus        89 L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~L~~L~l~~~~  167 (333)
                      |+.|++....-..    .....+..+++|++|++++|.                 ....++..+..++ +|+.|++++|.
T Consensus       127 L~~L~Ls~N~l~~----~~p~~~~~l~~L~~L~L~~N~-----------------l~~~~p~~l~~l~~~L~~L~L~~N~  185 (313)
T 1ogq_A          127 LVTLDFSYNALSG----TLPPSISSLPNLVGITFDGNR-----------------ISGAIPDSYGSFSKLFTSMTISRNR  185 (313)
T ss_dssp             CCEEECCSSEEES----CCCGGGGGCTTCCEEECCSSC-----------------CEEECCGGGGCCCTTCCEEECCSSE
T ss_pred             CCEEeCCCCccCC----cCChHHhcCCCCCeEECcCCc-----------------ccCcCCHHHhhhhhcCcEEECcCCe
Confidence            9998886532110    112367788999999999995                 3345667777777 99999999987


Q ss_pred             CCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEE
Q 044247          168 GRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRL  246 (333)
Q Consensus       168 ~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L  246 (333)
                      .... + |..+..++ |+.|++++|...+..+. ++.+++|+.|++++|. +...+..            +..+++|++|
T Consensus       186 l~~~-~-~~~~~~l~-L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~------------~~~l~~L~~L  249 (313)
T 1ogq_A          186 LTGK-I-PPTFANLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNS-LAFDLGK------------VGLSKNLNGL  249 (313)
T ss_dssp             EEEE-C-CGGGGGCC-CSEEECCSSEEEECCGGGCCTTSCCSEEECCSSE-ECCBGGG------------CCCCTTCCEE
T ss_pred             eecc-C-ChHHhCCc-ccEEECcCCcccCcCCHHHhcCCCCCEEECCCCc-eeeecCc------------ccccCCCCEE
Confidence            6631 4 77787776 99999999954444444 7889999999999998 4322222            4578999999


Q ss_pred             eeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccChhhHh
Q 044247          247 RFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHILQE  311 (333)
Q Consensus       247 ~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~~l~~  311 (333)
                      +++++.      +.+.+|..+..+++|++|++++|.....+|.. ..+++|+.+++ .+++.+..
T Consensus       250 ~Ls~N~------l~~~~p~~l~~l~~L~~L~Ls~N~l~~~ip~~-~~l~~L~~l~l-~~N~~lc~  306 (313)
T 1ogq_A          250 DLRNNR------IYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQG-GNLQRFDVSAY-ANNKCLCG  306 (313)
T ss_dssp             ECCSSC------CEECCCGGGGGCTTCCEEECCSSEEEEECCCS-TTGGGSCGGGT-CSSSEEES
T ss_pred             ECcCCc------ccCcCChHHhcCcCCCEEECcCCcccccCCCC-ccccccChHHh-cCCCCccC
Confidence            999964      33446677789999999999997666677775 67999999999 88886543

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

Probab=99.89  E-value=8.4e-23  Score=195.75  Aligned_cols=266  Identities=12%  Similarity=0.145  Sum_probs=152.8

Q ss_pred             cccchhcCC------CcccEEeecCCCcccccCc--cccccccccEEecCCCCCcccccccccccccCceeeeEEEcCcc
Q 044247            3 KLPETLCEL------YNLERVNVSGCSHLRELPQ--GIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGY   74 (333)
Q Consensus         3 ~lp~~l~~l------~~L~~L~l~~~~~~~~lp~--~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~   74 (333)
                      .+|..++.+      ++|++|++++|. +..+|.  .++.+++|++|++++|.....+| .++.+++|++|++++|....
T Consensus       290 ~lp~~~~~L~~~~~l~~L~~L~L~~n~-l~~ip~~~~l~~l~~L~~L~L~~N~l~g~ip-~~~~l~~L~~L~L~~N~l~~  367 (636)
T 4eco_A          290 QLKDDWQALADAPVGEKIQIIYIGYNN-LKTFPVETSLQKMKKLGMLECLYNQLEGKLP-AFGSEIKLASLNLAYNQITE  367 (636)
T ss_dssp             HHHHHHHHHHHSGGGGTCCEEECCSSC-CSSCCCHHHHTTCTTCCEEECCSCCCEEECC-CCEEEEEESEEECCSSEEEE
T ss_pred             cchHHHHhhhccccCCCCCEEECCCCc-CCccCchhhhccCCCCCEEeCcCCcCccchh-hhCCCCCCCEEECCCCcccc
Confidence            367777766      888888888887 558887  78888888888888884433777 77888888888888776653


Q ss_pred             CCCCCccccccCcc-CceeEecCCC--CCCChhhHHHHhhcc--cCCccceEEeecCCCCCchhhhcccCCccccccccc
Q 044247           75 DRACSLGSLKKLNL-LRQCSIDGLG--GVSDAGEARRAELEK--KKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLL  149 (333)
Q Consensus        75 ~~~~~~~~l~~l~~-L~~L~l~~~~--~~~~~~~~~~~~l~~--~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (333)
                          .+..+..+++ |+.|++....  .++.       .+..  +++|++|++++|.+.+                 ..+
T Consensus       368 ----lp~~l~~l~~~L~~L~Ls~N~l~~lp~-------~~~~~~l~~L~~L~Ls~N~l~~-----------------~~p  419 (636)
T 4eco_A          368 ----IPANFCGFTEQVENLSFAHNKLKYIPN-------IFDAKSVSVMSAIDFSYNEIGS-----------------VDG  419 (636)
T ss_dssp             ----CCTTSEEECTTCCEEECCSSCCSSCCS-------CCCTTCSSCEEEEECCSSCTTT-----------------TTT
T ss_pred             ----ccHhhhhhcccCcEEEccCCcCcccch-------hhhhcccCccCEEECcCCcCCC-----------------cch
Confidence                5556777777 8877775432  2222       2333  2367777877775432                 122


Q ss_pred             ccCC-------CCCCccEEEEeeecCCCCccCchh-hhcCCCccEEEeecCCCCCCCCC--CCC-------Cccccceec
Q 044247          150 DALG-------PPPNLKELHIHEYRGRRNVVPKNW-VMSLTNLRVLHLFECRNCEHLPP--LGK-------LTSLEDLYI  212 (333)
Q Consensus       150 ~~l~-------~~~~L~~L~l~~~~~~~~~~~~~~-~~~~~~L~~L~l~~~~~~~~l~~--~~~-------l~~L~~L~l  212 (333)
                      ..+.       .+++|+.|++++|....  + |.. +..+++|+.|++++|. +..+|.  +..       +++|+.|++
T Consensus       420 ~~l~~~~~~~~~~~~L~~L~Ls~N~l~~--l-p~~~~~~l~~L~~L~Ls~N~-l~~i~~~~~~~~~~~~~~l~~L~~L~L  495 (636)
T 4eco_A          420 KNFDPLDPTPFKGINVSSINLSNNQISK--F-PKELFSTGSPLSSINLMGNM-LTEIPKNSLKDENENFKNTYLLTSIDL  495 (636)
T ss_dssp             CSSCTTCSSCCCCCCEEEEECCSSCCCS--C-CTHHHHTTCCCSEEECCSSC-CSBCCSSSSEETTEECTTGGGCCEEEC
T ss_pred             hhhcccccccccCCCCCEEECcCCccCc--C-CHHHHccCCCCCEEECCCCC-CCCcCHHHhccccccccccCCccEEEC
Confidence            2222       34455555555555544  4 332 2335555555555552 223332  111       115555555


Q ss_pred             cccccccccccccc--CCCCCCC-----------CCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecc
Q 044247          213 AGMKSVKRVGNEFL--GVESDTD-----------GSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQ  279 (333)
Q Consensus       213 ~~~~~l~~i~~~~~--~~~~~~~-----------~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~  279 (333)
                      ++|. ++.+|..+.  .....+.           ...+..+++|++|+++++..+..-.+.+.+|..+..+++|++|+++
T Consensus       496 s~N~-l~~lp~~~~~~~l~~L~~L~Ls~N~l~~ip~~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~~l~~l~~L~~L~Ls  574 (636)
T 4eco_A          496 RFNK-LTKLSDDFRATTLPYLVGIDLSYNSFSKFPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIG  574 (636)
T ss_dssp             CSSC-CCBCCGGGSTTTCTTCCEEECCSSCCSSCCCGGGGCSSCCEEECCSCBCTTCCBCCCCCCTTGGGCSSCCEEECC
T ss_pred             cCCc-CCccChhhhhccCCCcCEEECCCCCCCCcChhhhcCCCCCEEECCCCcccccCcccccChHHHhcCCCCCEEECC
Confidence            5554 334443321  0000000           0013455566666665443222223345566677778888888888


Q ss_pred             cCcCcccCCcccCCCCCcceEEEcccCh
Q 044247          280 SCRELKALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       280 ~c~~l~~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                      +|.. +.+|..+.  ++|+.|++ ++|+
T Consensus       575 ~N~l-~~ip~~~~--~~L~~L~L-s~N~  598 (636)
T 4eco_A          575 SNDI-RKVNEKIT--PNISVLDI-KDNP  598 (636)
T ss_dssp             SSCC-CBCCSCCC--TTCCEEEC-CSCT
T ss_pred             CCcC-CccCHhHh--CcCCEEEC-cCCC
Confidence            7554 77776544  78888888 7775

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

Probab=99.88  E-value=9.6e-22  Score=182.31  Aligned_cols=271  Identities=15%  Similarity=0.098  Sum_probs=165.3

Q ss_pred             cchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCccccccc-ccccccCceeeeEEEcCccCCCCCcccc
Q 044247            5 PETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVG-IGELIRLRRVTKFVVCGGYDRACSLGSL   83 (333)
Q Consensus         5 p~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~-i~~l~~L~~L~l~~~~~~~~~~~~~~~l   83 (333)
                      |..+.++++|++|++++|......|..+.++++|++|++++| .+..+|.. ++.+++|++|++++|....   ..+..+
T Consensus        49 ~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~i~~---~~~~~~  124 (477)
T 2id5_A           49 QDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSN-RLKLIPLGVFTGLSNLTKLDISENKIVI---LLDYMF  124 (477)
T ss_dssp             TTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCCSCCTTSSTTCTTCCEEECTTSCCCE---ECTTTT
T ss_pred             HhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCC-cCCccCcccccCCCCCCEEECCCCcccc---CChhHc
Confidence            457888888888888888744455777888888888888887 55666543 6778888888887776552   233445


Q ss_pred             ccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhc----c----cCCcccccccccccCCCC
Q 044247           84 KKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAG----R----RENEEDEDERLLDALGPP  155 (333)
Q Consensus        84 ~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~----~----~~~~~~~~~~~~~~l~~~  155 (333)
                      ..+++|+.|++....- ..   .....+..+++|++|++++|.+.........    +    ..++. ........+..+
T Consensus       125 ~~l~~L~~L~l~~n~l-~~---~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~-i~~~~~~~~~~l  199 (477)
T 2id5_A          125 QDLYNLKSLEVGDNDL-VY---ISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLN-INAIRDYSFKRL  199 (477)
T ss_dssp             TTCTTCCEEEECCTTC-CE---ECTTSSTTCTTCCEEEEESCCCSSCCHHHHTTCTTCCEEEEESCC-CCEECTTCSCSC
T ss_pred             cccccCCEEECCCCcc-ce---eChhhccCCCCCCEEECCCCcCcccChhHhcccCCCcEEeCCCCc-CcEeChhhcccC
Confidence            6667777766654211 10   0012345566667777766654321100000    0    00000 111222345556


Q ss_pred             CCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCC
Q 044247          156 PNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTD  233 (333)
Q Consensus       156 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~  233 (333)
                      ++|+.|++++|..... + +.......+|+.|++++| .++.++.  ++.+++|+.|++++|. +..++...        
T Consensus       200 ~~L~~L~l~~~~~~~~-~-~~~~~~~~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~--------  267 (477)
T 2id5_A          200 YRLKVLEISHWPYLDT-M-TPNCLYGLNLTSLSITHC-NLTAVPYLAVRHLVYLRFLNLSYNP-ISTIEGSM--------  267 (477)
T ss_dssp             TTCCEEEEECCTTCCE-E-CTTTTTTCCCSEEEEESS-CCCSCCHHHHTTCTTCCEEECCSSC-CCEECTTS--------
T ss_pred             cccceeeCCCCccccc-c-CcccccCccccEEECcCC-cccccCHHHhcCccccCeeECCCCc-CCccChhh--------
Confidence            6666666666554431 3 333333446777777776 4445553  6677788888888776 55554332        


Q ss_pred             CCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCc-ccCCCCCcceEEEcccCh
Q 044247          234 GSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPD-HLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       234 ~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~-~~~~l~~L~~L~l~~~c~  307 (333)
                         +..+++|++|+++++ .+..+     .+..+..+++|++|++++| .++.++. .+..+++|+.|++ .+++
T Consensus       268 ---~~~l~~L~~L~L~~n-~l~~~-----~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l-~~N~  331 (477)
T 2id5_A          268 ---LHELLRLQEIQLVGG-QLAVV-----EPYAFRGLNYLRVLNVSGN-QLTTLEESVFHSVGNLETLIL-DSNP  331 (477)
T ss_dssp             ---CTTCTTCCEEECCSS-CCSEE-----CTTTBTTCTTCCEEECCSS-CCSCCCGGGBSCGGGCCEEEC-CSSC
T ss_pred             ---ccccccCCEEECCCC-ccceE-----CHHHhcCcccCCEEECCCC-cCceeCHhHcCCCcccCEEEc-cCCC
Confidence               457788888888875 33322     3445668899999999985 5666665 4577899999999 7665

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

Probab=99.88  E-value=1.4e-22  Score=194.18  Aligned_cols=114  Identities=18%  Similarity=0.123  Sum_probs=86.6

Q ss_pred             ccchhc--CCCcccEEeecCCCcccccCccccccccccEEecCCCCCcc--ccccccccc------ccCceeeeEEEcCc
Q 044247            4 LPETLC--ELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLR--YLPVGIGEL------IRLRRVTKFVVCGG   73 (333)
Q Consensus         4 lp~~l~--~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~--~~p~~i~~l------~~L~~L~l~~~~~~   73 (333)
                      +|..++  ++++|++|++++|...+.+|..++++++|++|++++|..+.  .+|..++.+      ++|++|++.+|...
T Consensus       239 ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~  318 (636)
T 4eco_A          239 KTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLK  318 (636)
T ss_dssp             TTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCS
T ss_pred             CchhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEECcCCCCCccccchHHHHhhhccccCCCCCEEECCCCcCC
Confidence            899999  99999999999999778999999999999999999995244  588877776      89999999888765


Q ss_pred             cCCCCCcc--ccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecC
Q 044247           74 YDRACSLG--SLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDN  126 (333)
Q Consensus        74 ~~~~~~~~--~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~  126 (333)
                      .    .+.  .+.++++|+.|++....-...    +. .+..+++|++|++++|.
T Consensus       319 ~----ip~~~~l~~l~~L~~L~L~~N~l~g~----ip-~~~~l~~L~~L~L~~N~  364 (636)
T 4eco_A          319 T----FPVETSLQKMKKLGMLECLYNQLEGK----LP-AFGSEIKLASLNLAYNQ  364 (636)
T ss_dssp             S----CCCHHHHTTCTTCCEEECCSCCCEEE----CC-CCEEEEEESEEECCSSE
T ss_pred             c----cCchhhhccCCCCCEEeCcCCcCccc----hh-hhCCCCCCCEEECCCCc
Confidence            3    555  678888888887765321101    11 34555667777776663

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=99.88  E-value=2.1e-22  Score=185.56  Aligned_cols=130  Identities=17%  Similarity=0.175  Sum_probs=98.2

Q ss_pred             CCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCC-CCCCCccccceecccccccccccccccCCCCCCCC
Q 044247          156 PNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLP-PLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDG  234 (333)
Q Consensus       156 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~-~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~  234 (333)
                      ++|+.|++++|....  ..+..+..+++|+.|++++|...+..+ .++.+++|++|++++|. ++.++...         
T Consensus       275 ~~L~~L~l~~n~l~~--~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~---------  342 (455)
T 3v47_A          275 SGVKTCDLSKSKIFA--LLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNF-LGSIDSRM---------  342 (455)
T ss_dssp             SCCCEEECCSSCCCE--ECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSC-CCEECGGG---------
T ss_pred             cCceEEEecCccccc--cchhhcccCCCCCEEECCCCcccccChhHhcCcccCCEEECCCCc-cCCcChhH---------
Confidence            578899998887766  436678889999999999985433334 37889999999999997 55554332         


Q ss_pred             CccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCc-ccCCCCCcceEEEcccCh
Q 044247          235 SSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPD-HLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       235 ~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~-~~~~l~~L~~L~l~~~c~  307 (333)
                        +..+++|++|+++++. +..     ..|..+..+++|++|++++| .++.+|. .+..+++|+.|++ ++++
T Consensus       343 --~~~l~~L~~L~Ls~N~-l~~-----~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l-~~N~  406 (455)
T 3v47_A          343 --FENLDKLEVLDLSYNH-IRA-----LGDQSFLGLPNLKELALDTN-QLKSVPDGIFDRLTSLQKIWL-HTNP  406 (455)
T ss_dssp             --GTTCTTCCEEECCSSC-CCE-----ECTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEEC-CSSC
T ss_pred             --hcCcccCCEEECCCCc-ccc-----cChhhccccccccEEECCCC-ccccCCHhHhccCCcccEEEc-cCCC
Confidence              5688999999999963 332     23455668999999999985 5666665 4577999999999 7654

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

Probab=99.88  E-value=3.5e-22  Score=185.24  Aligned_cols=270  Identities=15%  Similarity=0.079  Sum_probs=186.0

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCccc-ccccccccccCceeeeEEEcCccCCCCC
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRY-LPVGIGELIRLRRVTKFVVCGGYDRACS   79 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~-~p~~i~~l~~L~~L~l~~~~~~~~~~~~   79 (333)
                      ++.+|..+.  +++++|++++|......+..+..+++|++|++++| .+.. .|..++.+++|++|++.+|....   ..
T Consensus        23 l~~ip~~~~--~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~i~~~~~~~~~~l~~L~~L~L~~n~l~~---~~   96 (477)
T 2id5_A           23 FVAVPEGIP--TETRLLDLGKNRIKTLNQDEFASFPHLEELELNEN-IVSAVEPGAFNNLFNLRTLGLRSNRLKL---IP   96 (477)
T ss_dssp             CSSCCSCCC--TTCSEEECCSSCCCEECTTTTTTCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECCSSCCCS---CC
T ss_pred             cCcCCCCCC--CCCcEEECCCCccceECHhHccCCCCCCEEECCCC-ccCEeChhhhhCCccCCEEECCCCcCCc---cC
Confidence            356777664  68999999999933444678999999999999999 4454 47779999999999999987653   23


Q ss_pred             ccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCcc
Q 044247           80 LGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLK  159 (333)
Q Consensus        80 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~  159 (333)
                      ...+..+++|+.|++....- ..   .....+..+++|++|++++|.+                 ....+..+..+++|+
T Consensus        97 ~~~~~~l~~L~~L~Ls~n~i-~~---~~~~~~~~l~~L~~L~l~~n~l-----------------~~~~~~~~~~l~~L~  155 (477)
T 2id5_A           97 LGVFTGLSNLTKLDISENKI-VI---LLDYMFQDLYNLKSLEVGDNDL-----------------VYISHRAFSGLNSLE  155 (477)
T ss_dssp             TTSSTTCTTCCEEECTTSCC-CE---ECTTTTTTCTTCCEEEECCTTC-----------------CEECTTSSTTCTTCC
T ss_pred             cccccCCCCCCEEECCCCcc-cc---CChhHccccccCCEEECCCCcc-----------------ceeChhhccCCCCCC
Confidence            33467889999998875322 11   1113577889999999999953                 233345778889999


Q ss_pred             EEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCC-----
Q 044247          160 ELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDT-----  232 (333)
Q Consensus       160 ~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~-----  232 (333)
                      .|++++|....  +++..+..+++|+.|++++|. +..++.  +..+++|+.|++++|..+..++...+.....+     
T Consensus       156 ~L~l~~n~l~~--~~~~~l~~l~~L~~L~l~~n~-i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~  232 (477)
T 2id5_A          156 QLTLEKCNLTS--IPTEALSHLHGLIVLRLRHLN-INAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSIT  232 (477)
T ss_dssp             EEEEESCCCSS--CCHHHHTTCTTCCEEEEESCC-CCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEE
T ss_pred             EEECCCCcCcc--cChhHhcccCCCcEEeCCCCc-CcEeChhhcccCcccceeeCCCCccccccCcccccCccccEEECc
Confidence            99999988777  634567789999999999884 333333  77788888888888776666554432211000     


Q ss_pred             -----CCC--ccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEccc
Q 044247          233 -----DGS--SVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGA  305 (333)
Q Consensus       233 -----~~~--~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~  305 (333)
                           ...  .+..+++|++|+++++. +..+.     +..+..+++|++|++++|......+..+..+++|+.|++ ++
T Consensus       233 ~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~-----~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L-~~  305 (477)
T 2id5_A          233 HCNLTAVPYLAVRHLVYLRFLNLSYNP-ISTIE-----GSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNV-SG  305 (477)
T ss_dssp             SSCCCSCCHHHHTTCTTCCEEECCSSC-CCEEC-----TTSCTTCTTCCEEECCSSCCSEECTTTBTTCTTCCEEEC-CS
T ss_pred             CCcccccCHHHhcCccccCeeECCCCc-CCccC-----hhhccccccCCEEECCCCccceECHHHhcCcccCCEEEC-CC
Confidence                 000  13445566666666542 22221     233456788888888876544444666777888888888 77


Q ss_pred             Ch
Q 044247          306 CH  307 (333)
Q Consensus       306 c~  307 (333)
                      |.
T Consensus       306 N~  307 (477)
T 2id5_A          306 NQ  307 (477)
T ss_dssp             SC
T ss_pred             Cc
Confidence            63

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

Probab=99.88  E-value=3.3e-22  Score=195.93  Aligned_cols=255  Identities=14%  Similarity=0.177  Sum_probs=154.2

Q ss_pred             ccchhc--CCCcccEEeecCCCcccccCccccccccccEEecCCCCCcc--cccccccccc-------cCceeeeEEEcC
Q 044247            4 LPETLC--ELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLR--YLPVGIGELI-------RLRRVTKFVVCG   72 (333)
Q Consensus         4 lp~~l~--~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~--~~p~~i~~l~-------~L~~L~l~~~~~   72 (333)
                      +|..++  ++++|++|++++|...+.+|..++++++|++|++++|..+.  .+|..++.++       +|++|++++|..
T Consensus       481 iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L  560 (876)
T 4ecn_A          481 ENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNL  560 (876)
T ss_dssp             TTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCC
T ss_pred             CChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcC
Confidence            899988  99999999999998788999999999999999999995355  4887777766       999999998877


Q ss_pred             ccCCCCCcc--ccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccc
Q 044247           73 GYDRACSLG--SLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLD  150 (333)
Q Consensus        73 ~~~~~~~~~--~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (333)
                      ..    .+.  .+.++++|+.|++....- ...    . .+..+++|+.|++++|.+.                  .++.
T Consensus       561 ~~----ip~~~~l~~L~~L~~L~Ls~N~l-~~l----p-~~~~L~~L~~L~Ls~N~l~------------------~lp~  612 (876)
T 4ecn_A          561 EE----FPASASLQKMVKLGLLDCVHNKV-RHL----E-AFGTNVKLTDLKLDYNQIE------------------EIPE  612 (876)
T ss_dssp             CB----CCCHHHHTTCTTCCEEECTTSCC-CBC----C-CCCTTSEESEEECCSSCCS------------------CCCT
T ss_pred             Cc----cCChhhhhcCCCCCEEECCCCCc-ccc----h-hhcCCCcceEEECcCCccc------------------cchH
Confidence            53    555  688888999988865332 111    1 4667788888888888532                  3444


Q ss_pred             cCCCCCC-ccEEEEeeecCCCCccCchhhhcCC--CccEEEeecCCC----------------------------CCCCC
Q 044247          151 ALGPPPN-LKELHIHEYRGRRNVVPKNWVMSLT--NLRVLHLFECRN----------------------------CEHLP  199 (333)
Q Consensus       151 ~l~~~~~-L~~L~l~~~~~~~~~~~~~~~~~~~--~L~~L~l~~~~~----------------------------~~~l~  199 (333)
                      .+..+++ |+.|++++|....  + |..+..++  +|+.|++++|..                            +..+|
T Consensus       613 ~l~~l~~~L~~L~Ls~N~L~~--l-p~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N~L~~lp  689 (876)
T 4ecn_A          613 DFCAFTDQVEGLGFSHNKLKY--I-PNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFP  689 (876)
T ss_dssp             TSCEECTTCCEEECCSSCCCS--C-CSCCCTTCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSSCCCSCC
T ss_pred             HHhhccccCCEEECcCCCCCc--C-chhhhccccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccCCcCCccC
Confidence            4555555 6666666555444  4 44333222  244444444432                            22333


Q ss_pred             C--CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccc--cCCCcce
Q 044247          200 P--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEII--IMPRLSS  275 (333)
Q Consensus       200 ~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~--~~~~L~~  275 (333)
                      .  +..+++|+.|++++|. +..+|...+....    +....+++|+.|++++| ++..      +|..+.  .+++|+.
T Consensus       690 ~~~~~~l~~L~~L~Ls~N~-L~~ip~~~~~~~~----~~l~nl~~L~~L~Ls~N-~L~~------lp~~l~~~~l~~L~~  757 (876)
T 4ecn_A          690 TELFATGSPISTIILSNNL-MTSIPENSLKPKD----GNYKNTYLLTTIDLRFN-KLTS------LSDDFRATTLPYLSN  757 (876)
T ss_dssp             HHHHHTTCCCSEEECCSCC-CSCCCTTSSSCTT----SCCTTGGGCCEEECCSS-CCCC------CCGGGSTTTCTTCCE
T ss_pred             HHHHccCCCCCEEECCCCc-CCccChHHhcccc----ccccccCCccEEECCCC-CCcc------chHHhhhccCCCcCE
Confidence            3  2245666666666665 4455543332100    00112236666666554 2221      223332  4455555


Q ss_pred             EecccCcCcccCCcccCCCCCcceEEE
Q 044247          276 LSIQSCRELKALPDHLLQKSTLQNLEI  302 (333)
Q Consensus       276 L~l~~c~~l~~l~~~~~~l~~L~~L~l  302 (333)
                      |++++| .++.+|..+..+++|+.|++
T Consensus       758 L~Ls~N-~L~~lp~~l~~L~~L~~L~L  783 (876)
T 4ecn_A          758 MDVSYN-CFSSFPTQPLNSSQLKAFGI  783 (876)
T ss_dssp             EECCSS-CCSSCCCGGGGCTTCCEEEC
T ss_pred             EEeCCC-CCCccchhhhcCCCCCEEEC
Confidence            555543 23334444444555555555

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

Probab=99.88  E-value=9.7e-22  Score=187.56  Aligned_cols=187  Identities=18%  Similarity=0.170  Sum_probs=112.5

Q ss_pred             hhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccC
Q 044247            7 TLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKL   86 (333)
Q Consensus         7 ~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l   86 (333)
                      .++.+++|++|++++|. +..+|..++.+++|++|++++|......|..++.+++|++|++.+|....  ......+..+
T Consensus       273 ~~~~l~~L~~L~l~~n~-l~~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~--~~~~~~~~~l  349 (606)
T 3t6q_A          273 TFHCFSGLQELDLTATH-LSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRL--ELGTGCLENL  349 (606)
T ss_dssp             TTTTCTTCSEEECTTSC-CSCCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCC--BCCSSTTTTC
T ss_pred             HhccccCCCEEeccCCc-cCCCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCccc--ccchhhhhcc
Confidence            37778888888888887 66788778888888888888874333345567788888888887776542  2223346677


Q ss_pred             ccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeee
Q 044247           87 NLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEY  166 (333)
Q Consensus        87 ~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~  166 (333)
                      ++|+.|++....- .... .....+..+++|++|++++|.+                 ....+..+..+++|+.|++++|
T Consensus       350 ~~L~~L~l~~n~l-~~~~-~~~~~~~~l~~L~~L~l~~n~l-----------------~~~~~~~~~~l~~L~~L~l~~n  410 (606)
T 3t6q_A          350 ENLRELDLSHDDI-ETSD-CCNLQLRNLSHLQSLNLSYNEP-----------------LSLKTEAFKECPQLELLDLAFT  410 (606)
T ss_dssp             TTCCEEECCSSCC-CEEE-ESTTTTTTCTTCCEEECCSCSC-----------------EEECTTTTTTCTTCSEEECTTC
T ss_pred             CcCCEEECCCCcc-cccc-CcchhcccCCCCCEEECCCCcC-----------------CcCCHHHhcCCccCCeEECCCC
Confidence            7777777654321 1100 0012456677788888877742                 2233445556666666666665


Q ss_pred             cCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceeccccc
Q 044247          167 RGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMK  216 (333)
Q Consensus       167 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~  216 (333)
                      ..... .++..+..+++|+.|++++|......+. ++.+++|++|++++|.
T Consensus       411 ~l~~~-~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~  460 (606)
T 3t6q_A          411 RLKVK-DAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNH  460 (606)
T ss_dssp             CEECC-TTCCTTTTCTTCCEEECTTCCCBTTCTTTTTTCTTCCEEECTTCB
T ss_pred             cCCCc-ccchhhhCcccCCEEECCCCccCCcCHHHHhCCCCCCEEECCCCC
Confidence            54431 1022355566666666666633222232 5556666666666665

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

Probab=99.88  E-value=1e-21  Score=192.42  Aligned_cols=268  Identities=13%  Similarity=0.110  Sum_probs=151.8

Q ss_pred             ccchhcCCC-------cccEEeecCCCcccccCc--cccccccccEEecCCCCCcccccccccccccCceeeeEEEcCcc
Q 044247            4 LPETLCELY-------NLERVNVSGCSHLRELPQ--GIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGY   74 (333)
Q Consensus         4 lp~~l~~l~-------~L~~L~l~~~~~~~~lp~--~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~   74 (333)
                      +|..++.++       +|++|++++|. +..+|.  .++.+++|+.|++++| .+..+| .++.+++|+.|++++|....
T Consensus       533 iP~~i~~L~~~~~~l~~L~~L~Ls~N~-L~~ip~~~~l~~L~~L~~L~Ls~N-~l~~lp-~~~~L~~L~~L~Ls~N~l~~  609 (876)
T 4ecn_A          533 LKADWTRLADDEDTGPKIQIFYMGYNN-LEEFPASASLQKMVKLGLLDCVHN-KVRHLE-AFGTNVKLTDLKLDYNQIEE  609 (876)
T ss_dssp             HHHHHHHHHHCTTTTTTCCEEECCSSC-CCBCCCHHHHTTCTTCCEEECTTS-CCCBCC-CCCTTSEESEEECCSSCCSC
T ss_pred             chHHHHhhhhcccccCCccEEEeeCCc-CCccCChhhhhcCCCCCEEECCCC-Ccccch-hhcCCCcceEEECcCCcccc
Confidence            666666665       88888888888 558888  7888888888888888 455777 68888888888888877653


Q ss_pred             CCCCCccccccCcc-CceeEecCCC--CCCChhhHHHHhhccc--CCccceEEeecCCCCCchhhhcccCCccccccccc
Q 044247           75 DRACSLGSLKKLNL-LRQCSIDGLG--GVSDAGEARRAELEKK--KNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLL  149 (333)
Q Consensus        75 ~~~~~~~~l~~l~~-L~~L~l~~~~--~~~~~~~~~~~~l~~~--~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (333)
                          .+..+..+++ |+.|++....  .++.       .+..+  ++|+.|++++|.+.+..              ..++
T Consensus       610 ----lp~~l~~l~~~L~~L~Ls~N~L~~lp~-------~~~~~~~~~L~~L~Ls~N~l~g~i--------------p~l~  664 (876)
T 4ecn_A          610 ----IPEDFCAFTDQVEGLGFSHNKLKYIPN-------IFNAKSVYVMGSVDFSYNKIGSEG--------------RNIS  664 (876)
T ss_dssp             ----CCTTSCEECTTCCEEECCSSCCCSCCS-------CCCTTCSSCEEEEECCSSCTTTTS--------------SSCS
T ss_pred             ----chHHHhhccccCCEEECcCCCCCcCch-------hhhccccCCCCEEECcCCcCCCcc--------------ccch
Confidence                5556777777 8887775432  2221       23333  34788888877643211              1111


Q ss_pred             ccCC--CCCCccEEEEeeecCCCCccCchhh-hcCCCccEEEeecCCCCCCCCC--CC-------CCccccceecccccc
Q 044247          150 DALG--PPPNLKELHIHEYRGRRNVVPKNWV-MSLTNLRVLHLFECRNCEHLPP--LG-------KLTSLEDLYIAGMKS  217 (333)
Q Consensus       150 ~~l~--~~~~L~~L~l~~~~~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~l~~--~~-------~l~~L~~L~l~~~~~  217 (333)
                      ..+.  ..++|+.|++++|....  + |..+ ..+++|+.|++++| .+..+|.  +.       ++++|+.|++++|. 
T Consensus       665 ~~l~~~~~~~L~~L~Ls~N~L~~--l-p~~~~~~l~~L~~L~Ls~N-~L~~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~-  739 (876)
T 4ecn_A          665 CSMDDYKGINASTVTLSYNEIQK--F-PTELFATGSPISTIILSNN-LMTSIPENSLKPKDGNYKNTYLLTTIDLRFNK-  739 (876)
T ss_dssp             SCTTTCCCCCEEEEECCSSCCCS--C-CHHHHHTTCCCSEEECCSC-CCSCCCTTSSSCTTSCCTTGGGCCEEECCSSC-
T ss_pred             hhhccccCCCcCEEEccCCcCCc--c-CHHHHccCCCCCEEECCCC-cCCccChHHhccccccccccCCccEEECCCCC-
Confidence            1111  22355555555555444  4 3332 24555555555554 2223332  11       11245555555544 


Q ss_pred             ccccccccc--CCCCCCC-----------CCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCc
Q 044247          218 VKRVGNEFL--GVESDTD-----------GSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCREL  284 (333)
Q Consensus       218 l~~i~~~~~--~~~~~~~-----------~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l  284 (333)
                      +..+|..+.  .....+.           ...+..+++|+.|++++++.+..-.+.+.+|..+..+++|+.|++++|.. 
T Consensus       740 L~~lp~~l~~~~l~~L~~L~Ls~N~L~~lp~~l~~L~~L~~L~Ls~N~~ls~N~l~~~ip~~l~~L~~L~~L~Ls~N~L-  818 (876)
T 4ecn_A          740 LTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSNDI-  818 (876)
T ss_dssp             CCCCCGGGSTTTCTTCCEEECCSSCCSSCCCGGGGCTTCCEEECCCCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSCC-
T ss_pred             CccchHHhhhccCCCcCEEEeCCCCCCccchhhhcCCCCCEEECCCCCCcccccccccChHHHhcCCCCCEEECCCCCC-
Confidence            333433211  0000000           00134556666666655443333334455666677778888888877654 


Q ss_pred             ccCCcccCCCCCcceEEEcccChh
Q 044247          285 KALPDHLLQKSTLQNLEIWGACHI  308 (333)
Q Consensus       285 ~~l~~~~~~l~~L~~L~l~~~c~~  308 (333)
                      +.+|..+.  ++|+.|++ ++|+.
T Consensus       819 ~~Ip~~l~--~~L~~LdL-s~N~l  839 (876)
T 4ecn_A          819 RKVDEKLT--PQLYILDI-ADNPN  839 (876)
T ss_dssp             CBCCSCCC--SSSCEEEC-CSCTT
T ss_pred             CccCHhhc--CCCCEEEC-CCCCC
Confidence            77776543  57888888 77753

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

Probab=99.88  E-value=4.7e-23  Score=180.71  Aligned_cols=240  Identities=15%  Similarity=0.097  Sum_probs=188.6

Q ss_pred             cccchhcCCCcccEEeecC-CCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcc
Q 044247            3 KLPETLCELYNLERVNVSG-CSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLG   81 (333)
Q Consensus         3 ~lp~~l~~l~~L~~L~l~~-~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~   81 (333)
                      .+|..++++++|++|++++ +...+.+|..++.+++|++|++++|.....+|..++.+++|++|++++|...   +..+.
T Consensus        67 ~~~~~l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~---~~~p~  143 (313)
T 1ogq_A           67 PIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALS---GTLPP  143 (313)
T ss_dssp             ECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEE---SCCCG
T ss_pred             ccChhHhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCEEeCCCCccC---CcCCh
Confidence            5899999999999999995 7755789999999999999999999554478888999999999999998876   44677


Q ss_pred             ccccCccCceeEecCCCCCCChhhHHHHhhcccC-CccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccE
Q 044247           82 SLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKK-NLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKE  160 (333)
Q Consensus        82 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~-~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~  160 (333)
                      .+..+++|+.|++....-.    ......+..++ +|++|++++|.                 .....+..+..++ |+.
T Consensus       144 ~~~~l~~L~~L~L~~N~l~----~~~p~~l~~l~~~L~~L~L~~N~-----------------l~~~~~~~~~~l~-L~~  201 (313)
T 1ogq_A          144 SISSLPNLVGITFDGNRIS----GAIPDSYGSFSKLFTSMTISRNR-----------------LTGKIPPTFANLN-LAF  201 (313)
T ss_dssp             GGGGCTTCCEEECCSSCCE----EECCGGGGCCCTTCCEEECCSSE-----------------EEEECCGGGGGCC-CSE
T ss_pred             HHhcCCCCCeEECcCCccc----CcCCHHHhhhhhcCcEEECcCCe-----------------eeccCChHHhCCc-ccE
Confidence            8889999999988754321    11223566777 99999999995                 3335556666665 999


Q ss_pred             EEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccC
Q 044247          161 LHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAF  240 (333)
Q Consensus       161 L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l  240 (333)
                      |++++|..... . +..+..+++|+.|++++|......+.++.+++|++|++++|.....+|..            +..+
T Consensus       202 L~Ls~N~l~~~-~-~~~~~~l~~L~~L~L~~N~l~~~~~~~~~l~~L~~L~Ls~N~l~~~~p~~------------l~~l  267 (313)
T 1ogq_A          202 VDLSRNMLEGD-A-SVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQG------------LTQL  267 (313)
T ss_dssp             EECCSSEEEEC-C-GGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSSCCEECCCGG------------GGGC
T ss_pred             EECcCCcccCc-C-CHHHhcCCCCCEEECCCCceeeecCcccccCCCCEEECcCCcccCcCChH------------HhcC
Confidence            99999877651 3 77788899999999999965555666888999999999999843355544            6789


Q ss_pred             CCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCC
Q 044247          241 PKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALP  288 (333)
Q Consensus       241 ~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~  288 (333)
                      ++|++|+++++. +.     +.+|.. ..+++|+.+++.+++.+...|
T Consensus       268 ~~L~~L~Ls~N~-l~-----~~ip~~-~~l~~L~~l~l~~N~~lc~~p  308 (313)
T 1ogq_A          268 KFLHSLNVSFNN-LC-----GEIPQG-GNLQRFDVSAYANNKCLCGSP  308 (313)
T ss_dssp             TTCCEEECCSSE-EE-----EECCCS-TTGGGSCGGGTCSSSEEESTT
T ss_pred             cCCCEEECcCCc-cc-----ccCCCC-ccccccChHHhcCCCCccCCC
Confidence            999999999964 32     233333 478999999999988776544

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=99.88  E-value=3.6e-21  Score=177.33  Aligned_cols=107  Identities=14%  Similarity=0.171  Sum_probs=74.4

Q ss_pred             CCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccC
Q 044247          182 TNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLG  260 (333)
Q Consensus       182 ~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~  260 (333)
                      ++|+.|++++|...+..+. ++.+++|++|++++|. +..++...           +..+++|++|+++++ .+..    
T Consensus       275 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~-----------~~~l~~L~~L~Ls~N-~l~~----  337 (455)
T 3v47_A          275 SGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNE-INKIDDNA-----------FWGLTHLLKLNLSQN-FLGS----  337 (455)
T ss_dssp             SCCCEEECCSSCCCEECTTTTTTCTTCCEEECTTSC-CCEECTTT-----------TTTCTTCCEEECCSS-CCCE----
T ss_pred             cCceEEEecCccccccchhhcccCCCCCEEECCCCc-ccccChhH-----------hcCcccCCEEECCCC-ccCC----
Confidence            4667777776643333333 6778888888888887 44443221           567888999999886 3322    


Q ss_pred             CccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccCh
Q 044247          261 TAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       261 ~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                       ..+..+..+++|++|++++|......|..+..+++|+.|++ ++|.
T Consensus       338 -~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L-~~N~  382 (455)
T 3v47_A          338 -IDSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELAL-DTNQ  382 (455)
T ss_dssp             -ECGGGGTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEEC-CSSC
T ss_pred             -cChhHhcCcccCCEEECCCCcccccChhhccccccccEEEC-CCCc
Confidence             23345667899999999997554445677888999999999 8875

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

Probab=99.87  E-value=1.8e-21  Score=175.79  Aligned_cols=264  Identities=18%  Similarity=0.172  Sum_probs=163.2

Q ss_pred             Ccccch-hcCCCcccEEeecCCCccccc-CccccccccccEEecCCCCCcccc-cccccccccCceeeeEEEcCccCCCC
Q 044247            2 EKLPET-LCELYNLERVNVSGCSHLREL-PQGIGKLRKLMYLDNDYTDSLRYL-PVGIGELIRLRRVTKFVVCGGYDRAC   78 (333)
Q Consensus         2 ~~lp~~-l~~l~~L~~L~l~~~~~~~~l-p~~i~~l~~L~~L~l~~~~~~~~~-p~~i~~l~~L~~L~l~~~~~~~~~~~   78 (333)
                      ..+|.. +..+++|++|++++|. +..+ +..+..+++|++|++++|. +..+ |..++.+++|++|++.+|....    
T Consensus        58 ~~l~~~~~~~l~~L~~L~L~~n~-i~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n~l~~----  131 (390)
T 3o6n_A           58 RKLPAALLDSFRQVELLNLNDLQ-IEEIDTYAFAYAHTIQKLYMGFNA-IRYLPPHVFQNVPLLTVLVLERNDLSS----  131 (390)
T ss_dssp             SEECTHHHHHCCCCSEEECTTSC-CCEECTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCC----
T ss_pred             hhCChhHhcccccCcEEECCCCc-ccccChhhccCCCCcCEEECCCCC-CCcCCHHHhcCCCCCCEEECCCCccCc----
Confidence            456655 5778888888888887 4444 4467888888888888884 4444 4457788888888888776653    


Q ss_pred             Cccc-cccCccCceeEecCCC--CCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhc-cc-----CCccc------
Q 044247           79 SLGS-LKKLNLLRQCSIDGLG--GVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAG-RR-----ENEED------  143 (333)
Q Consensus        79 ~~~~-l~~l~~L~~L~l~~~~--~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~-~~-----~~~~~------  143 (333)
                      .+.. +..+++|+.|++....  .+..      ..+..+++|++|++++|.+......... +.     .+...      
T Consensus       132 l~~~~~~~l~~L~~L~L~~n~l~~~~~------~~~~~l~~L~~L~l~~n~l~~~~~~~l~~L~~L~l~~n~l~~~~~~~  205 (390)
T 3o6n_A          132 LPRGIFHNTPKLTTLSMSNNNLERIED------DTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPI  205 (390)
T ss_dssp             CCTTTTTTCTTCCEEECCSSCCCBCCT------TTTSSCTTCCEEECCSSCCSBCCGGGCTTCSEEECCSSCCSEEECCS
T ss_pred             CCHHHhcCCCCCcEEECCCCccCccCh------hhccCCCCCCEEECCCCcCCccccccccccceeecccccccccCCCC
Confidence            3333 4667778877775432  2211      2456677788888877765432111000 00     00000      


Q ss_pred             ----------ccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceec
Q 044247          144 ----------EDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYI  212 (333)
Q Consensus       144 ----------~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l  212 (333)
                                ....++.  ...++|+.|++++|....    ..++..+++|+.|++++|...+..+. ++.+++|+.|++
T Consensus       206 ~L~~L~l~~n~l~~~~~--~~~~~L~~L~l~~n~l~~----~~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L  279 (390)
T 3o6n_A          206 AVEELDASHNSINVVRG--PVNVELTILKLQHNNLTD----TAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYI  279 (390)
T ss_dssp             SCSEEECCSSCCCEEEC--CCCSSCCEEECCSSCCCC----CGGGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEEC
T ss_pred             cceEEECCCCeeeeccc--cccccccEEECCCCCCcc----cHHHcCCCCccEEECCCCcCCCcChhHccccccCCEEEC
Confidence                      0000000  112466777777766655    44566778888888887743332232 667778888888


Q ss_pred             ccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccC
Q 044247          213 AGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLL  292 (333)
Q Consensus       213 ~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~  292 (333)
                      ++|. ++.++..            ...+++|++|+++++ .+..      +|..+..+++|++|++++|+ ++.++  +.
T Consensus       280 ~~n~-l~~~~~~------------~~~l~~L~~L~L~~n-~l~~------~~~~~~~l~~L~~L~L~~N~-i~~~~--~~  336 (390)
T 3o6n_A          280 SNNR-LVALNLY------------GQPIPTLKVLDLSHN-HLLH------VERNQPQFDRLENLYLDHNS-IVTLK--LS  336 (390)
T ss_dssp             CSSC-CCEEECS------------SSCCTTCCEEECCSS-CCCC------CGGGHHHHTTCSEEECCSSC-CCCCC--CC
T ss_pred             CCCc-CcccCcc------------cCCCCCCCEEECCCC-ccee------cCccccccCcCCEEECCCCc-cceeC--ch
Confidence            8776 5555432            346788888888886 3433      33445578889999998854 55554  55


Q ss_pred             CCCCcceEEEcccCh
Q 044247          293 QKSTLQNLEIWGACH  307 (333)
Q Consensus       293 ~l~~L~~L~l~~~c~  307 (333)
                      .+++|+.|++ .+++
T Consensus       337 ~~~~L~~L~l-~~N~  350 (390)
T 3o6n_A          337 THHTLKNLTL-SHND  350 (390)
T ss_dssp             TTCCCSEEEC-CSSC
T ss_pred             hhccCCEEEc-CCCC
Confidence            6889999999 8765

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

Probab=99.87  E-value=1.5e-21  Score=186.29  Aligned_cols=264  Identities=16%  Similarity=0.113  Sum_probs=199.6

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCccccccc-ccccccCceeeeEEEcCccCCCCC
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVG-IGELIRLRRVTKFVVCGGYDRACS   79 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~-i~~l~~L~~L~l~~~~~~~~~~~~   79 (333)
                      ++.+|..++.+++|++|++++|......|..++.+++|++|++++|.....+|.. ++.+++|++|++++|..... ...
T Consensus       290 l~~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~-~~~  368 (606)
T 3t6q_A          290 LSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETS-DCC  368 (606)
T ss_dssp             CSCCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCCSSTTTTCTTCCEEECCSSCCCEE-EES
T ss_pred             cCCCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccccchhhhhccCcCCEEECCCCccccc-cCc
Confidence            4578999999999999999999944555778999999999999999655466654 88999999999998877530 011


Q ss_pred             ccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccc-cccCCCCCCc
Q 044247           80 LGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERL-LDALGPPPNL  158 (333)
Q Consensus        80 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~L  158 (333)
                      +..+..+++|+.|++....- .   ......+..+++|++|++++|.+                 .... ...+..+++|
T Consensus       369 ~~~~~~l~~L~~L~l~~n~l-~---~~~~~~~~~l~~L~~L~l~~n~l-----------------~~~~~~~~~~~l~~L  427 (606)
T 3t6q_A          369 NLQLRNLSHLQSLNLSYNEP-L---SLKTEAFKECPQLELLDLAFTRL-----------------KVKDAQSPFQNLHLL  427 (606)
T ss_dssp             TTTTTTCTTCCEEECCSCSC-E---EECTTTTTTCTTCSEEECTTCCE-----------------ECCTTCCTTTTCTTC
T ss_pred             chhcccCCCCCEEECCCCcC-C---cCCHHHhcCCccCCeEECCCCcC-----------------CCcccchhhhCcccC
Confidence            45678889999988875432 1   11123577889999999999852                 2222 2347788999


Q ss_pred             cEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCC-C---CCCCCCccccceecccccccccccccccCCCCCCCC
Q 044247          159 KELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEH-L---PPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDG  234 (333)
Q Consensus       159 ~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~-l---~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~  234 (333)
                      +.|++++|....  ..+..+..+++|+.|++++|...+. +   ..++.+++|+.|++++|. +..++...         
T Consensus       428 ~~L~l~~n~l~~--~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~---------  495 (606)
T 3t6q_A          428 KVLNLSHSLLDI--SSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCD-LSSIDQHA---------  495 (606)
T ss_dssp             CEEECTTCCCBT--TCTTTTTTCTTCCEEECTTCBCGGGEECSSCGGGGCTTCCEEECTTSC-CCEECTTT---------
T ss_pred             CEEECCCCccCC--cCHHHHhCCCCCCEEECCCCCCCccccccchhhccCCCccEEECCCCc-cCccChhh---------
Confidence            999999998766  4266788899999999999954331 2   237789999999999998 55553322         


Q ss_pred             CccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccChh
Q 044247          235 SSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHI  308 (333)
Q Consensus       235 ~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~~  308 (333)
                        +..+++|++|+++++. +     ....|..+..+++| +|++++|......|..+..+++|+.+++ .+|+-
T Consensus       496 --~~~l~~L~~L~Ls~N~-l-----~~~~~~~l~~l~~L-~L~L~~N~l~~~~~~~~~~l~~L~~L~l-~~N~~  559 (606)
T 3t6q_A          496 --FTSLKMMNHVDLSHNR-L-----TSSSIEALSHLKGI-YLNLASNHISIILPSLLPILSQQRTINL-RQNPL  559 (606)
T ss_dssp             --TTTCTTCCEEECCSSC-C-----CGGGGGGGTTCCSC-EEECCSSCCCCCCGGGHHHHHTSSEEEC-TTCCE
T ss_pred             --hccccCCCEEECCCCc-c-----CcCChhHhCccccc-EEECcCCcccccCHhhcccCCCCCEEeC-CCCCc
Confidence              5688999999999974 3     33345567788999 9999997555444556677899999999 87663

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.86  E-value=4.5e-21  Score=182.59  Aligned_cols=266  Identities=17%  Similarity=0.127  Sum_probs=164.4

Q ss_pred             cccch-hcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCccccc-ccccccccCceeeeEEEcCccCCCCCc
Q 044247            3 KLPET-LCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLP-VGIGELIRLRRVTKFVVCGGYDRACSL   80 (333)
Q Consensus         3 ~lp~~-l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p-~~i~~l~~L~~L~l~~~~~~~~~~~~~   80 (333)
                      .+|.. +..+++|++|++++|...+..|..++.+++|++|++++|. +..+| ..++.+++|++|++++|....    .+
T Consensus        65 ~lp~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n~l~~----l~  139 (597)
T 3oja_B           65 KLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNA-IRYLPPHVFQNVPLLTVLVLERNDLSS----LP  139 (597)
T ss_dssp             EECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCC----CC
T ss_pred             CcCHHHHccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCc-CCCCCHHHHcCCCCCCEEEeeCCCCCC----CC
Confidence            45554 5667888888888887333444467778888888888773 44444 346777888888887776553    33


Q ss_pred             cc-cccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhc-cc-----CCccc----------
Q 044247           81 GS-LKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAG-RR-----ENEED----------  143 (333)
Q Consensus        81 ~~-l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~-~~-----~~~~~----------  143 (333)
                      .. +..+++|+.|++....- ..   .....+..+++|++|++++|.+......... +.     .+...          
T Consensus       140 ~~~~~~l~~L~~L~Ls~N~l-~~---~~~~~~~~l~~L~~L~L~~N~l~~~~~~~l~~L~~L~l~~n~l~~l~~~~~L~~  215 (597)
T 3oja_B          140 RGIFHNTPKLTTLSMSNNNL-ER---IEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEE  215 (597)
T ss_dssp             TTTTTTCTTCCEEECCSSCC-CB---CCTTTTTTCTTCCEEECTTSCCSBCCGGGCTTCSEEECCSSCCSEEECCTTCSE
T ss_pred             HHHhccCCCCCEEEeeCCcC-CC---CChhhhhcCCcCcEEECcCCCCCCcChhhhhhhhhhhcccCccccccCCchhhe
Confidence            33 46677777776654321 11   0112455667777777777765432111000 00     00000          


Q ss_pred             ------ccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceeccccc
Q 044247          144 ------EDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMK  216 (333)
Q Consensus       144 ------~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~  216 (333)
                            ....++.  ...++|+.|++++|....    +.++..+++|+.|++++|...+..|. ++.+++|+.|++++|.
T Consensus       216 L~ls~n~l~~~~~--~~~~~L~~L~L~~n~l~~----~~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~  289 (597)
T 3oja_B          216 LDASHNSINVVRG--PVNVELTILKLQHNNLTD----TAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNR  289 (597)
T ss_dssp             EECCSSCCCEEEC--SCCSCCCEEECCSSCCCC----CGGGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECTTSC
T ss_pred             eeccCCccccccc--ccCCCCCEEECCCCCCCC----ChhhccCCCCCEEECCCCccCCCCHHHhcCccCCCEEECCCCC
Confidence                  0000000  112467777777777665    56677888888888888844333333 7778888888888887


Q ss_pred             ccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCC
Q 044247          217 SVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKST  296 (333)
Q Consensus       217 ~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~  296 (333)
                       +..++..            ...+++|+.|++++|. +.      .+|..+..+++|+.|++++|. +..++  +..+++
T Consensus       290 -l~~l~~~------------~~~l~~L~~L~Ls~N~-l~------~i~~~~~~l~~L~~L~L~~N~-l~~~~--~~~~~~  346 (597)
T 3oja_B          290 -LVALNLY------------GQPIPTLKVLDLSHNH-LL------HVERNQPQFDRLENLYLDHNS-IVTLK--LSTHHT  346 (597)
T ss_dssp             -CCEEECS------------SSCCTTCCEEECCSSC-CC------CCGGGHHHHTTCSEEECCSSC-CCCCC--CCTTCC
T ss_pred             -CCCCCcc------------cccCCCCcEEECCCCC-CC------ccCcccccCCCCCEEECCCCC-CCCcC--hhhcCC
Confidence             5555433            4568889999998863 33      344556688999999999865 55554  556889


Q ss_pred             cceEEEcccCh
Q 044247          297 LQNLEIWGACH  307 (333)
Q Consensus       297 L~~L~l~~~c~  307 (333)
                      |+.|++ .+|+
T Consensus       347 L~~L~l-~~N~  356 (597)
T 3oja_B          347 LKNLTL-SHND  356 (597)
T ss_dssp             CSEEEC-CSSC
T ss_pred             CCEEEe-eCCC
Confidence            999999 8765

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

Probab=99.86  E-value=2e-20  Score=165.11  Aligned_cols=252  Identities=15%  Similarity=0.159  Sum_probs=181.9

Q ss_pred             CcccchhcCCCcccEEeecCCCcccccC-ccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCc
Q 044247            2 EKLPETLCELYNLERVNVSGCSHLRELP-QGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSL   80 (333)
Q Consensus         2 ~~lp~~l~~l~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~   80 (333)
                      +.+|..+.  ++|++|++++|. +..++ ..++.+++|++|++++|......|..++.+++|++|++++|....    .+
T Consensus        44 ~~lp~~~~--~~l~~L~L~~n~-i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~----l~  116 (330)
T 1xku_A           44 EKVPKDLP--PDTALLDLQNNK-ITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKE----LP  116 (330)
T ss_dssp             CSCCCSCC--TTCCEEECCSSC-CCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCSB----CC
T ss_pred             cccCccCC--CCCeEEECCCCc-CCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEECCCCcCCc----cC
Confidence            45676554  689999999998 55554 478999999999999994433347789999999999999887654    23


Q ss_pred             cccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccE
Q 044247           81 GSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKE  160 (333)
Q Consensus        81 ~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~  160 (333)
                      ..+.  ++|+.|++....- ..   .....+..+++|++|++++|.+.               ........+..+++|+.
T Consensus       117 ~~~~--~~L~~L~l~~n~l-~~---~~~~~~~~l~~L~~L~l~~n~l~---------------~~~~~~~~~~~l~~L~~  175 (330)
T 1xku_A          117 EKMP--KTLQELRVHENEI-TK---VRKSVFNGLNQMIVVELGTNPLK---------------SSGIENGAFQGMKKLSY  175 (330)
T ss_dssp             SSCC--TTCCEEECCSSCC-CB---BCHHHHTTCTTCCEEECCSSCCC---------------GGGBCTTGGGGCTTCCE
T ss_pred             hhhc--ccccEEECCCCcc-cc---cCHhHhcCCccccEEECCCCcCC---------------ccCcChhhccCCCCcCE
Confidence            3322  5788887765321 11   12245778899999999998642               11233456777899999


Q ss_pred             EEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCC--CCCCCccccceecccccccccccccccCCCCCCCCCccc
Q 044247          161 LHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLP--PLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVI  238 (333)
Q Consensus       161 L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~--~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~  238 (333)
                      |+++++....  + |..+  +++|+.|++++|. +..++  .++.+++|+.|++++|. ++.++...           +.
T Consensus       176 L~l~~n~l~~--l-~~~~--~~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~-----------~~  237 (330)
T 1xku_A          176 IRIADTNITT--I-PQGL--PPSLTELHLDGNK-ITKVDAASLKGLNNLAKLGLSFNS-ISAVDNGS-----------LA  237 (330)
T ss_dssp             EECCSSCCCS--C-CSSC--CTTCSEEECTTSC-CCEECTGGGTTCTTCCEEECCSSC-CCEECTTT-----------GG
T ss_pred             EECCCCcccc--C-Cccc--cccCCEEECCCCc-CCccCHHHhcCCCCCCEEECCCCc-CceeChhh-----------cc
Confidence            9999988877  6 6544  4899999999984 44443  27888999999999987 55554322           56


Q ss_pred             cCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcc-cC------CCCCcceEEEcccChh
Q 044247          239 AFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDH-LL------QKSTLQNLEIWGACHI  308 (333)
Q Consensus       239 ~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~-~~------~l~~L~~L~l~~~c~~  308 (333)
                      .+++|++|+++++ .+.      .+|..+..+++|++|++++| .++.++.. +.      ..++|+.+++ .+++.
T Consensus       238 ~l~~L~~L~L~~N-~l~------~lp~~l~~l~~L~~L~l~~N-~i~~~~~~~f~~~~~~~~~~~l~~l~l-~~N~~  305 (330)
T 1xku_A          238 NTPHLRELHLNNN-KLV------KVPGGLADHKYIQVVYLHNN-NISAIGSNDFCPPGYNTKKASYSGVSL-FSNPV  305 (330)
T ss_dssp             GSTTCCEEECCSS-CCS------SCCTTTTTCSSCCEEECCSS-CCCCCCTTSSSCSSCCTTSCCCSEEEC-CSSSS
T ss_pred             CCCCCCEEECCCC-cCc------cCChhhccCCCcCEEECCCC-cCCccChhhcCCcccccccccccceEe-ecCcc
Confidence            7899999999986 443      34455668899999999985 45555542 21      2478899999 88774

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

Probab=99.86  E-value=3.8e-20  Score=171.07  Aligned_cols=263  Identities=19%  Similarity=0.238  Sum_probs=118.2

Q ss_pred             hcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCc
Q 044247            8 LCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLN   87 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~   87 (333)
                      ++.+++|++|++++|. +..++. ++.+++|++|++++| .+..++. +..+++|++|++++|....     ...+..++
T Consensus        86 ~~~l~~L~~L~l~~n~-l~~~~~-~~~l~~L~~L~L~~n-~l~~~~~-~~~l~~L~~L~l~~n~l~~-----~~~~~~l~  156 (466)
T 1o6v_A           86 LKNLTKLVDILMNNNQ-IADITP-LANLTNLTGLTLFNN-QITDIDP-LKNLTNLNRLELSSNTISD-----ISALSGLT  156 (466)
T ss_dssp             GTTCTTCCEEECCSSC-CCCCGG-GTTCTTCCEEECCSS-CCCCCGG-GTTCTTCSEEEEEEEEECC-----CGGGTTCT
T ss_pred             hhccccCCEEECCCCc-cccChh-hcCCCCCCEEECCCC-CCCCChH-HcCCCCCCEEECCCCccCC-----ChhhccCC
Confidence            5555555555555554 333333 555666666666665 3444443 5666666666666665442     12344444


Q ss_pred             cCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhc--c----cCCcccccccccccCCCCCCccEE
Q 044247           88 LLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAG--R----RENEEDEDERLLDALGPPPNLKEL  161 (333)
Q Consensus        88 ~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~--~----~~~~~~~~~~~~~~l~~~~~L~~L  161 (333)
                      +|+.|.+..  .+...     ..+..+++|++|++++|.+.....-...  +    ..++  ...... .+..+++|+.|
T Consensus       157 ~L~~L~l~~--~~~~~-----~~~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n--~l~~~~-~~~~l~~L~~L  226 (466)
T 1o6v_A          157 SLQQLSFGN--QVTDL-----KPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNN--QISDIT-PLGILTNLDEL  226 (466)
T ss_dssp             TCSEEEEEE--SCCCC-----GGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSS--CCCCCG-GGGGCTTCCEE
T ss_pred             cccEeecCC--cccCc-----hhhccCCCCCEEECcCCcCCCChhhccCCCCCEEEecCC--cccccc-cccccCCCCEE
Confidence            444444431  11110     1244555666666666544321100000  0    0000  000000 12334455555


Q ss_pred             EEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCC----------CCC
Q 044247          162 HIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGV----------ESD  231 (333)
Q Consensus       162 ~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~----------~~~  231 (333)
                      ++++|....  +  ..+..+++|+.|++++| .+..+++++.+++|+.|++++|. +..++. +...          ...
T Consensus       227 ~l~~n~l~~--~--~~l~~l~~L~~L~l~~n-~l~~~~~~~~l~~L~~L~l~~n~-l~~~~~-~~~l~~L~~L~L~~n~l  299 (466)
T 1o6v_A          227 SLNGNQLKD--I--GTLASLTNLTDLDLANN-QISNLAPLSGLTKLTELKLGANQ-ISNISP-LAGLTALTNLELNENQL  299 (466)
T ss_dssp             ECCSSCCCC--C--GGGGGCTTCSEEECCSS-CCCCCGGGTTCTTCSEEECCSSC-CCCCGG-GTTCTTCSEEECCSSCC
T ss_pred             ECCCCCccc--c--hhhhcCCCCCEEECCCC-ccccchhhhcCCCCCEEECCCCc-cCcccc-ccCCCccCeEEcCCCcc
Confidence            555554444  2  23444555555555555 22333334455555555555554 222221 0000          000


Q ss_pred             CCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccCh
Q 044247          232 TDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       232 ~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                      +...++..+++|+.|++++| .+..+.      . +..+++|++|++++| .++.++ .+..+++|+.|++ .+|.
T Consensus       300 ~~~~~~~~l~~L~~L~L~~n-~l~~~~------~-~~~l~~L~~L~l~~n-~l~~~~-~l~~l~~L~~L~l-~~n~  364 (466)
T 1o6v_A          300 EDISPISNLKNLTYLTLYFN-NISDIS------P-VSSLTKLQRLFFYNN-KVSDVS-SLANLTNINWLSA-GHNQ  364 (466)
T ss_dssp             SCCGGGGGCTTCSEEECCSS-CCSCCG------G-GGGCTTCCEEECCSS-CCCCCG-GGTTCTTCCEEEC-CSSC
T ss_pred             cCchhhcCCCCCCEEECcCC-cCCCch------h-hccCccCCEeECCCC-ccCCch-hhccCCCCCEEeC-CCCc
Confidence            00111334455555555554 222211      1 345677777777765 444443 3555777777777 7664

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

Probab=99.86  E-value=1.1e-20  Score=167.08  Aligned_cols=250  Identities=13%  Similarity=0.128  Sum_probs=180.0

Q ss_pred             CCcccchhcCCCcccEEeecCCCccccc-CccccccccccEEecCCCCCcccc-cccccccccCceeeeEEEcCccCCCC
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLREL-PQGIGKLRKLMYLDNDYTDSLRYL-PVGIGELIRLRRVTKFVVCGGYDRAC   78 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~l-p~~i~~l~~L~~L~l~~~~~~~~~-p~~i~~l~~L~~L~l~~~~~~~~~~~   78 (333)
                      ++.+|..+.  ++|++|++++|. +..+ |..+..+++|++|++++|. +..+ |..++.+++|++|++++|....    
T Consensus        45 l~~ip~~~~--~~l~~L~l~~n~-i~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n~l~~----  116 (332)
T 2ft3_A           45 LKAVPKEIS--PDTTLLDLQNND-ISELRKDDFKGLQHLYALVLVNNK-ISKIHEKAFSPLRKLQKLYISKNHLVE----  116 (332)
T ss_dssp             CSSCCSCCC--TTCCEEECCSSC-CCEECTTTTTTCTTCCEEECCSSC-CCEECGGGSTTCTTCCEEECCSSCCCS----
T ss_pred             ccccCCCCC--CCCeEEECCCCc-CCccCHhHhhCCCCCcEEECCCCc-cCccCHhHhhCcCCCCEEECCCCcCCc----
Confidence            356777664  689999999998 5544 5679999999999999994 4554 7779999999999999887654    


Q ss_pred             CccccccCccCceeEecCC--CCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCC
Q 044247           79 SLGSLKKLNLLRQCSIDGL--GGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPP  156 (333)
Q Consensus        79 ~~~~l~~l~~L~~L~l~~~--~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  156 (333)
                      .+..+.  ++|+.|++...  ..++.      ..+..+++|++|++++|.+..               ....+..+..+ 
T Consensus       117 l~~~~~--~~L~~L~l~~n~i~~~~~------~~~~~l~~L~~L~l~~n~l~~---------------~~~~~~~~~~l-  172 (332)
T 2ft3_A          117 IPPNLP--SSLVELRIHDNRIRKVPK------GVFSGLRNMNCIEMGGNPLEN---------------SGFEPGAFDGL-  172 (332)
T ss_dssp             CCSSCC--TTCCEEECCSSCCCCCCS------GGGSSCSSCCEEECCSCCCBG---------------GGSCTTSSCSC-
T ss_pred             cCcccc--ccCCEEECCCCccCccCH------hHhCCCccCCEEECCCCcccc---------------CCCCcccccCC-
Confidence            333332  67888877643  33322      357788999999999996321               12334455555 


Q ss_pred             CccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCC--CCCCCccccceecccccccccccccccCCCCCCCC
Q 044247          157 NLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLP--PLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDG  234 (333)
Q Consensus       157 ~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~--~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~  234 (333)
                      +|+.|++++|....  + |..+  +++|+.|++++|. +..++  .++.+++|+.|++++|. ++.++...         
T Consensus       173 ~L~~L~l~~n~l~~--l-~~~~--~~~L~~L~l~~n~-i~~~~~~~l~~l~~L~~L~L~~N~-l~~~~~~~---------  236 (332)
T 2ft3_A          173 KLNYLRISEAKLTG--I-PKDL--PETLNELHLDHNK-IQAIELEDLLRYSKLYRLGLGHNQ-IRMIENGS---------  236 (332)
T ss_dssp             CCSCCBCCSSBCSS--C-CSSS--CSSCSCCBCCSSC-CCCCCTTSSTTCTTCSCCBCCSSC-CCCCCTTG---------
T ss_pred             ccCEEECcCCCCCc--c-Cccc--cCCCCEEECCCCc-CCccCHHHhcCCCCCCEEECCCCc-CCcCChhH---------
Confidence            89999999988877  6 6544  4789999999984 44444  37888999999999987 55554322         


Q ss_pred             CccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCc-ccCC------CCCcceEEEcccCh
Q 044247          235 SSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPD-HLLQ------KSTLQNLEIWGACH  307 (333)
Q Consensus       235 ~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~-~~~~------l~~L~~L~l~~~c~  307 (333)
                        +..+++|++|+++++ .+.      .+|..+..+++|++|+++++ .++.++. .+..      .++|+.+++ .+++
T Consensus       237 --~~~l~~L~~L~L~~N-~l~------~lp~~l~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~~~~~~~l~~L~l-~~N~  305 (332)
T 2ft3_A          237 --LSFLPTLRELHLDNN-KLS------RVPAGLPDLKLLQVVYLHTN-NITKVGVNDFCPVGFGVKRAYYNGISL-FNNP  305 (332)
T ss_dssp             --GGGCTTCCEEECCSS-CCC------BCCTTGGGCTTCCEEECCSS-CCCBCCTTSSSCSSCCSSSCCBSEEEC-CSSS
T ss_pred             --hhCCCCCCEEECCCC-cCe------ecChhhhcCccCCEEECCCC-CCCccChhHccccccccccccccceEe-ecCc
Confidence              568889999999986 443      34455668899999999985 4555543 2221      467899999 8887


Q ss_pred             hh
Q 044247          308 IL  309 (333)
Q Consensus       308 ~l  309 (333)
                      ..
T Consensus       306 ~~  307 (332)
T 2ft3_A          306 VP  307 (332)
T ss_dssp             SC
T ss_pred             cc
Confidence            43

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=99.85  E-value=3.3e-21  Score=171.78  Aligned_cols=263  Identities=14%  Similarity=0.101  Sum_probs=178.4

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccCc-cccccccccEEecCCCCCcccc-cccccccccCceeeeEEEcCccCCCC
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELPQ-GIGKLRKLMYLDNDYTDSLRYL-PVGIGELIRLRRVTKFVVCGGYDRAC   78 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~l~~~~~~~~~-p~~i~~l~~L~~L~l~~~~~~~~~~~   78 (333)
                      ++.+|..+.  ++|++|++++|. +..+|. .+.++++|++|++++| .+..+ |..++.+++|++|++++|....   .
T Consensus        43 l~~iP~~~~--~~L~~L~l~~n~-i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~l~~---~  115 (353)
T 2z80_A           43 LNSIPSGLT--EAVKSLDLSNNR-ITYISNSDLQRCVNLQALVLTSN-GINTIEEDSFSSLGSLEHLDLSYNYLSN---L  115 (353)
T ss_dssp             CSSCCTTCC--TTCCEEECTTSC-CCEECTTTTTTCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECCSSCCSS---C
T ss_pred             ccccccccc--ccCcEEECCCCc-CcccCHHHhccCCCCCEEECCCC-ccCccCHhhcCCCCCCCEEECCCCcCCc---C
Confidence            356777655  488999999988 555554 6888999999999888 44554 4558888999999998887653   2


Q ss_pred             CccccccCccCceeEecCC--CCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCC
Q 044247           79 SLGSLKKLNLLRQCSIDGL--GGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPP  156 (333)
Q Consensus        79 ~~~~l~~l~~L~~L~l~~~--~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  156 (333)
                      ....+..+++|+.|++...  ..++.     ...+..+++|++|++++|..                ........+..++
T Consensus       116 ~~~~~~~l~~L~~L~L~~n~l~~l~~-----~~~~~~l~~L~~L~l~~n~~----------------~~~~~~~~~~~l~  174 (353)
T 2z80_A          116 SSSWFKPLSSLTFLNLLGNPYKTLGE-----TSLFSHLTKLQILRVGNMDT----------------FTKIQRKDFAGLT  174 (353)
T ss_dssp             CHHHHTTCTTCSEEECTTCCCSSSCS-----SCSCTTCTTCCEEEEEESSS----------------CCEECTTTTTTCC
T ss_pred             CHhHhCCCccCCEEECCCCCCcccCc-----hhhhccCCCCcEEECCCCcc----------------ccccCHHHccCCC
Confidence            2233677888888887643  22221     01456778888999888731                1222245677788


Q ss_pred             CccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCCC
Q 044247          157 NLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDG  234 (333)
Q Consensus       157 ~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~  234 (333)
                      +|+.|++++|....  +.+..+..+++|+.|++++|. ++.++.  ++.+++|+.|++++|. ++.++...+..      
T Consensus       175 ~L~~L~l~~n~l~~--~~~~~l~~l~~L~~L~l~~n~-l~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~~~l~~------  244 (353)
T 2z80_A          175 FLEELEIDASDLQS--YEPKSLKSIQNVSHLILHMKQ-HILLLEIFVDVTSSVECLELRDTD-LDTFHFSELST------  244 (353)
T ss_dssp             EEEEEEEEETTCCE--ECTTTTTTCSEEEEEEEECSC-STTHHHHHHHHTTTEEEEEEESCB-CTTCCCC----------
T ss_pred             CCCEEECCCCCcCc--cCHHHHhccccCCeecCCCCc-cccchhhhhhhcccccEEECCCCc-ccccccccccc------
Confidence            88899988887665  336677788889999998884 444443  3457888999998887 54443222211      


Q ss_pred             CccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCccc-CCCCCcceEEEcccCh
Q 044247          235 SSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHL-LQKSTLQNLEIWGACH  307 (333)
Q Consensus       235 ~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~-~~l~~L~~L~l~~~c~  307 (333)
                        ....+.++.+++.++ .+.+.... .+|+.+..+++|++|++++| .++.+|..+ ..+++|+.|++ .+|+
T Consensus       245 --~~~~~~l~~l~L~~~-~l~~~~l~-~l~~~l~~l~~L~~L~Ls~N-~l~~i~~~~~~~l~~L~~L~L-~~N~  312 (353)
T 2z80_A          245 --GETNSLIKKFTFRNV-KITDESLF-QVMKLLNQISGLLELEFSRN-QLKSVPDGIFDRLTSLQKIWL-HTNP  312 (353)
T ss_dssp             ----CCCCCCEEEEESC-BCCHHHHH-HHHHHHHTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEEC-CSSC
T ss_pred             --ccccchhhccccccc-cccCcchh-hhHHHHhcccCCCEEECCCC-CCCccCHHHHhcCCCCCEEEe-eCCC
Confidence              335567777777764 23222111 24566778999999999985 667888764 78999999999 8764

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.85  E-value=6.2e-20  Score=173.58  Aligned_cols=90  Identities=14%  Similarity=0.012  Sum_probs=66.1

Q ss_pred             Cccc-chhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCc
Q 044247            2 EKLP-ETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSL   80 (333)
Q Consensus         2 ~~lp-~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~   80 (333)
                      ..+| ..++++++|++|++++|...+..|..++++++|++|++++| .+..+|..  .+++|++|++++|....  ...+
T Consensus        65 ~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~lp~~--~l~~L~~L~Ls~N~l~~--l~~p  139 (562)
T 3a79_B           65 SELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHN-RLQNISCC--PMASLRHLDLSFNDFDV--LPVC  139 (562)
T ss_dssp             CCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECTTS-CCCEECSC--CCTTCSEEECCSSCCSB--CCCC
T ss_pred             cccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECCCC-cCCccCcc--ccccCCEEECCCCCccc--cCch
Confidence            3444 57888888888888888733444677888888888888888 56677765  78888888888887653  2234


Q ss_pred             cccccCccCceeEecC
Q 044247           81 GSLKKLNLLRQCSIDG   96 (333)
Q Consensus        81 ~~l~~l~~L~~L~l~~   96 (333)
                      ..+.++++|+.|++..
T Consensus       140 ~~~~~l~~L~~L~L~~  155 (562)
T 3a79_B          140 KEFGNLTKLTFLGLSA  155 (562)
T ss_dssp             GGGGGCTTCCEEEEEC
T ss_pred             HhhcccCcccEEecCC
Confidence            6778888888877765

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

Probab=99.85  E-value=3.8e-20  Score=163.41  Aligned_cols=240  Identities=15%  Similarity=0.201  Sum_probs=162.0

Q ss_pred             cccEEeecCCCcccccCccccccccccEEecCCCCCcccccc-cccccccCceeeeEEEcCccCCCCCccccccCccCce
Q 044247           13 NLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPV-GIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQ   91 (333)
Q Consensus        13 ~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~-~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~   91 (333)
                      ++++++++++. +..+|..+.  ++|+.|++++| .+..++. .++.+++|++|++.+|...   ...+..+..+++|+.
T Consensus        32 ~l~~l~~~~~~-l~~lp~~~~--~~l~~L~L~~n-~i~~~~~~~~~~l~~L~~L~L~~n~l~---~~~~~~~~~l~~L~~  104 (330)
T 1xku_A           32 HLRVVQCSDLG-LEKVPKDLP--PDTALLDLQNN-KITEIKDGDFKNLKNLHTLILINNKIS---KISPGAFAPLVKLER  104 (330)
T ss_dssp             ETTEEECTTSC-CCSCCCSCC--TTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSSCCC---CBCTTTTTTCTTCCE
T ss_pred             CCeEEEecCCC-ccccCccCC--CCCeEEECCCC-cCCEeChhhhccCCCCCEEECCCCcCC---eeCHHHhcCCCCCCE
Confidence            78888888877 667776553  67888888888 4555554 5788888888888877765   333556777888888


Q ss_pred             eEecCC--CCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCC
Q 044247           92 CSIDGL--GGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGR  169 (333)
Q Consensus        92 L~l~~~--~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~  169 (333)
                      |++...  ..++.       .+  .++|++|++++|.+                 .......+..+++|+.|++++|...
T Consensus       105 L~Ls~n~l~~l~~-------~~--~~~L~~L~l~~n~l-----------------~~~~~~~~~~l~~L~~L~l~~n~l~  158 (330)
T 1xku_A          105 LYLSKNQLKELPE-------KM--PKTLQELRVHENEI-----------------TKVRKSVFNGLNQMIVVELGTNPLK  158 (330)
T ss_dssp             EECCSSCCSBCCS-------SC--CTTCCEEECCSSCC-----------------CBBCHHHHTTCTTCCEEECCSSCCC
T ss_pred             EECCCCcCCccCh-------hh--cccccEEECCCCcc-----------------cccCHhHhcCCccccEEECCCCcCC
Confidence            777542  22222       11  26788888888853                 2222344667788888888887664


Q ss_pred             CCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeec
Q 044247          170 RNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFW  249 (333)
Q Consensus       170 ~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~  249 (333)
                      .....+..+..+++|+.|++++| .+..+|.. ..++|++|++++|. ++.++...           +..+++|++|+++
T Consensus       159 ~~~~~~~~~~~l~~L~~L~l~~n-~l~~l~~~-~~~~L~~L~l~~n~-l~~~~~~~-----------~~~l~~L~~L~Ls  224 (330)
T 1xku_A          159 SSGIENGAFQGMKKLSYIRIADT-NITTIPQG-LPPSLTELHLDGNK-ITKVDAAS-----------LKGLNNLAKLGLS  224 (330)
T ss_dssp             GGGBCTTGGGGCTTCCEEECCSS-CCCSCCSS-CCTTCSEEECTTSC-CCEECTGG-----------GTTCTTCCEEECC
T ss_pred             ccCcChhhccCCCCcCEEECCCC-ccccCCcc-ccccCCEEECCCCc-CCccCHHH-----------hcCCCCCCEEECC
Confidence            21011556777888888888887 44555542 23788888888887 55443221           5577888888888


Q ss_pred             cCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccCh
Q 044247          250 SMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       250 ~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                      ++. +..+.     +..+..+++|++|++++| .++.+|..+..+++|+.|++ .+|.
T Consensus       225 ~n~-l~~~~-----~~~~~~l~~L~~L~L~~N-~l~~lp~~l~~l~~L~~L~l-~~N~  274 (330)
T 1xku_A          225 FNS-ISAVD-----NGSLANTPHLRELHLNNN-KLVKVPGGLADHKYIQVVYL-HNNN  274 (330)
T ss_dssp             SSC-CCEEC-----TTTGGGSTTCCEEECCSS-CCSSCCTTTTTCSSCCEEEC-CSSC
T ss_pred             CCc-CceeC-----hhhccCCCCCCEEECCCC-cCccCChhhccCCCcCEEEC-CCCc
Confidence            753 33322     234557788888888885 56678877777888888888 7765

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

Probab=99.85  E-value=3.4e-20  Score=163.84  Aligned_cols=250  Identities=18%  Similarity=0.205  Sum_probs=155.9

Q ss_pred             CcccchhcCC------CcccEEeecCCCcccccCccccccccccEEecCCCCCcccc-cccccccccCceeeeEEEcCcc
Q 044247            2 EKLPETLCEL------YNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYL-PVGIGELIRLRRVTKFVVCGGY   74 (333)
Q Consensus         2 ~~lp~~l~~l------~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~-p~~i~~l~~L~~L~l~~~~~~~   74 (333)
                      .++|..+...      .++++++++++. +..+|..+.  ++|+.|++++| .+..+ |..+..+++|++|++.+|... 
T Consensus        17 ~~lp~~~~~~cp~~c~c~l~~l~~~~~~-l~~ip~~~~--~~l~~L~l~~n-~i~~~~~~~~~~l~~L~~L~L~~n~l~-   91 (332)
T 2ft3_A           17 DSLPPTYSAMCPFGCHCHLRVVQCSDLG-LKAVPKEIS--PDTTLLDLQNN-DISELRKDDFKGLQHLYALVLVNNKIS-   91 (332)
T ss_dssp             --------CCCCSSCEEETTEEECCSSC-CSSCCSCCC--TTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSCCC-
T ss_pred             ccCCCcccCCCCCCCcccCCEEECCCCC-ccccCCCCC--CCCeEEECCCC-cCCccCHhHhhCCCCCcEEECCCCccC-
Confidence            3455544432      368888888877 667776553  67888888887 44554 446778888888888877655 


Q ss_pred             CCCCCccccccCccCceeEecCC--CCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccC
Q 044247           75 DRACSLGSLKKLNLLRQCSIDGL--GGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDAL  152 (333)
Q Consensus        75 ~~~~~~~~l~~l~~L~~L~l~~~--~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  152 (333)
                        ...+..+..+++|+.|++...  ..++.       .+  .++|++|++++|.+.                 ......+
T Consensus        92 --~~~~~~~~~l~~L~~L~L~~n~l~~l~~-------~~--~~~L~~L~l~~n~i~-----------------~~~~~~~  143 (332)
T 2ft3_A           92 --KIHEKAFSPLRKLQKLYISKNHLVEIPP-------NL--PSSLVELRIHDNRIR-----------------KVPKGVF  143 (332)
T ss_dssp             --EECGGGSTTCTTCCEEECCSSCCCSCCS-------SC--CTTCCEEECCSSCCC-----------------CCCSGGG
T ss_pred             --ccCHhHhhCcCCCCEEECCCCcCCccCc-------cc--cccCCEEECCCCccC-----------------ccCHhHh
Confidence              233556777788888777542  22222       11  167888888887532                 1222346


Q ss_pred             CCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCC
Q 044247          153 GPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDT  232 (333)
Q Consensus       153 ~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~  232 (333)
                      ..+++|+.|++++|........+..+..+ +|+.|++++| .+..+|.. ..++|++|++++|. ++.++...       
T Consensus       144 ~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n-~l~~l~~~-~~~~L~~L~l~~n~-i~~~~~~~-------  212 (332)
T 2ft3_A          144 SGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRISEA-KLTGIPKD-LPETLNELHLDHNK-IQAIELED-------  212 (332)
T ss_dssp             SSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCSS-BCSSCCSS-SCSSCSCCBCCSSC-CCCCCTTS-------
T ss_pred             CCCccCCEEECCCCccccCCCCcccccCC-ccCEEECcCC-CCCccCcc-ccCCCCEEECCCCc-CCccCHHH-------
Confidence            67788888888877664200114445445 7888888887 34555541 23678888888876 44443221       


Q ss_pred             CCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccCh
Q 044247          233 DGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       233 ~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                          +..+++|++|+++++ .+..+     .+..+..+++|++|++++| .++.+|..+..+++|+.|++ .++.
T Consensus       213 ----l~~l~~L~~L~L~~N-~l~~~-----~~~~~~~l~~L~~L~L~~N-~l~~lp~~l~~l~~L~~L~l-~~N~  275 (332)
T 2ft3_A          213 ----LLRYSKLYRLGLGHN-QIRMI-----ENGSLSFLPTLRELHLDNN-KLSRVPAGLPDLKLLQVVYL-HTNN  275 (332)
T ss_dssp             ----STTCTTCSCCBCCSS-CCCCC-----CTTGGGGCTTCCEEECCSS-CCCBCCTTGGGCTTCCEEEC-CSSC
T ss_pred             ----hcCCCCCCEEECCCC-cCCcC-----ChhHhhCCCCCCEEECCCC-cCeecChhhhcCccCCEEEC-CCCC
Confidence                457778888888875 33222     2234557788888888874 56677777777888888888 7764

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

Probab=99.85  E-value=4.8e-20  Score=170.41  Aligned_cols=241  Identities=22%  Similarity=0.303  Sum_probs=132.6

Q ss_pred             hcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCc
Q 044247            8 LCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLN   87 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~   87 (333)
                      +..+++|++|++++|. +..+|. +..+++|++|++++| .+..++. ++.+++|++|++++|....    . ..+..++
T Consensus        64 ~~~l~~L~~L~Ls~n~-l~~~~~-~~~l~~L~~L~l~~n-~l~~~~~-~~~l~~L~~L~L~~n~l~~----~-~~~~~l~  134 (466)
T 1o6v_A           64 VEYLNNLTQINFSNNQ-LTDITP-LKNLTKLVDILMNNN-QIADITP-LANLTNLTGLTLFNNQITD----I-DPLKNLT  134 (466)
T ss_dssp             GGGCTTCCEEECCSSC-CCCCGG-GTTCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSCCCC----C-GGGTTCT
T ss_pred             hhhhcCCCEEECCCCc-cCCchh-hhccccCCEEECCCC-ccccChh-hcCCCCCCEEECCCCCCCC----C-hHHcCCC
Confidence            5566667777777666 555554 666667777777666 3444444 6666677777766665442    1 2256666


Q ss_pred             cCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeec
Q 044247           88 LLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYR  167 (333)
Q Consensus        88 ~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~  167 (333)
                      +|+.|++.... +...     ..+..+++|++|++..+ +.                  . ...+..+++|+.|++++|.
T Consensus       135 ~L~~L~l~~n~-l~~~-----~~~~~l~~L~~L~l~~~-~~------------------~-~~~~~~l~~L~~L~l~~n~  188 (466)
T 1o6v_A          135 NLNRLELSSNT-ISDI-----SALSGLTSLQQLSFGNQ-VT------------------D-LKPLANLTTLERLDISSNK  188 (466)
T ss_dssp             TCSEEEEEEEE-ECCC-----GGGTTCTTCSEEEEEES-CC------------------C-CGGGTTCTTCCEEECCSSC
T ss_pred             CCCEEECCCCc-cCCC-----hhhccCCcccEeecCCc-cc------------------C-chhhccCCCCCEEECcCCc
Confidence            66665554321 1111     13555666777766532 11                  1 1225566777777777766


Q ss_pred             CCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEe
Q 044247          168 GRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLR  247 (333)
Q Consensus       168 ~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~  247 (333)
                      ...  +  ..+..+++|+.|++++| .+...++++.+++|+.|++++|. ++.++.             +..+++|++|+
T Consensus       189 l~~--~--~~l~~l~~L~~L~l~~n-~l~~~~~~~~l~~L~~L~l~~n~-l~~~~~-------------l~~l~~L~~L~  249 (466)
T 1o6v_A          189 VSD--I--SVLAKLTNLESLIATNN-QISDITPLGILTNLDELSLNGNQ-LKDIGT-------------LASLTNLTDLD  249 (466)
T ss_dssp             CCC--C--GGGGGCTTCSEEECCSS-CCCCCGGGGGCTTCCEEECCSSC-CCCCGG-------------GGGCTTCSEEE
T ss_pred             CCC--C--hhhccCCCCCEEEecCC-cccccccccccCCCCEEECCCCC-cccchh-------------hhcCCCCCEEE
Confidence            555  3  33556677777777766 33444445566666666666665 333321             33444455554


Q ss_pred             eccCcccccc------------ccC----CccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccCh
Q 044247          248 FWSMSELEEW------------DLG----TAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       248 l~~~~~L~~~------------~~~----~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                      +++|. +..+            .++    ..++. +..+++|+.|++++| .++.++. +..+++|+.|++ ++|.
T Consensus       250 l~~n~-l~~~~~~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~L~~n-~l~~~~~-~~~l~~L~~L~L-~~n~  320 (466)
T 1o6v_A          250 LANNQ-ISNLAPLSGLTKLTELKLGANQISNISP-LAGLTALTNLELNEN-QLEDISP-ISNLKNLTYLTL-YFNN  320 (466)
T ss_dssp             CCSSC-CCCCGGGTTCTTCSEEECCSSCCCCCGG-GTTCTTCSEEECCSS-CCSCCGG-GGGCTTCSEEEC-CSSC
T ss_pred             CCCCc-cccchhhhcCCCCCEEECCCCccCcccc-ccCCCccCeEEcCCC-cccCchh-hcCCCCCCEEEC-cCCc
Confidence            44431 1111            000    01111 446777777777775 3444444 556788888888 7764

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.85  E-value=8.2e-20  Score=174.23  Aligned_cols=59  Identities=17%  Similarity=0.228  Sum_probs=34.0

Q ss_pred             CCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceeccccc
Q 044247          152 LGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMK  216 (333)
Q Consensus       152 l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~  216 (333)
                      +..+++|+.|+++++....  + + .+..+++|+.|++++|.. +.+|.+ .+++|+.|++++|.
T Consensus       281 ~~~l~~L~~L~l~~~~~~~--l-~-~l~~~~~L~~L~l~~n~l-~~lp~~-~l~~L~~L~l~~n~  339 (606)
T 3vq2_A          281 FHCLANVSAMSLAGVSIKY--L-E-DVPKHFKWQSLSIIRCQL-KQFPTL-DLPFLKSLTLTMNK  339 (606)
T ss_dssp             CGGGTTCSEEEEESCCCCC--C-C-CCCTTCCCSEEEEESCCC-SSCCCC-CCSSCCEEEEESCS
T ss_pred             cccCCCCCEEEecCccchh--h-h-hccccccCCEEEcccccC-cccccC-CCCccceeeccCCc
Confidence            3345666666666666655  4 4 455566666666666633 555544 55555555555553

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.85  E-value=1.2e-20  Score=179.71  Aligned_cols=246  Identities=15%  Similarity=0.153  Sum_probs=169.1

Q ss_pred             CCCcccEEeecCCCcccccCcc-ccccccccEEecCCCCCccccc-ccccccccCceeeeEEEcCccCCCCCccccccCc
Q 044247           10 ELYNLERVNVSGCSHLRELPQG-IGKLRKLMYLDNDYTDSLRYLP-VGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLN   87 (333)
Q Consensus        10 ~l~~L~~L~l~~~~~~~~lp~~-i~~l~~L~~L~l~~~~~~~~~p-~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~   87 (333)
                      .+.+++++++.++. +..+|.. +..+++|++|++++| .+..++ ..++.+++|++|++++|...   ...+..+..++
T Consensus        49 ~l~~l~~l~l~~~~-l~~lp~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~---~~~~~~~~~l~  123 (597)
T 3oja_B           49 TLNNQKIVTFKNST-MRKLPAALLDSFRQVELLNLNDL-QIEEIDTYAFAYAHTIQKLYMGFNAIR---YLPPHVFQNVP  123 (597)
T ss_dssp             GGCCCSEEEESSCE-ESEECTHHHHHCCCCSEEECTTS-CCCEECTTTTTTCTTCCEEECCSSCCC---CCCTTTTTTCT
T ss_pred             cCCCceEEEeeCCC-CCCcCHHHHccCCCCcEEECCCC-CCCCCChHHhcCCCCCCEEECCCCcCC---CCCHHHHcCCC
Confidence            46889999999998 7777765 577999999999999 455554 47899999999999998876   33445568899


Q ss_pred             cCceeEecCC--CCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEee
Q 044247           88 LLRQCSIDGL--GGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHE  165 (333)
Q Consensus        88 ~L~~L~l~~~--~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~  165 (333)
                      +|+.|++...  ..++.      ..+..+++|++|++++|.+.                 ...+..+..+++|+.|++++
T Consensus       124 ~L~~L~L~~n~l~~l~~------~~~~~l~~L~~L~Ls~N~l~-----------------~~~~~~~~~l~~L~~L~L~~  180 (597)
T 3oja_B          124 LLTVLVLERNDLSSLPR------GIFHNTPKLTTLSMSNNNLE-----------------RIEDDTFQATTSLQNLQLSS  180 (597)
T ss_dssp             TCCEEECCSSCCCCCCT------TTTTTCTTCCEEECCSSCCC-----------------BCCTTTTTTCTTCCEEECTT
T ss_pred             CCCEEEeeCCCCCCCCH------HHhccCCCCCEEEeeCCcCC-----------------CCChhhhhcCCcCcEEECcC
Confidence            9999888653  23332      24678899999999999643                 22334566667777777766


Q ss_pred             ecCCCCccCchhhh-------------------------------------cCCCccEEEeecCCCCCCCCCCCCCcccc
Q 044247          166 YRGRRNVVPKNWVM-------------------------------------SLTNLRVLHLFECRNCEHLPPLGKLTSLE  208 (333)
Q Consensus       166 ~~~~~~~~~~~~~~-------------------------------------~~~~L~~L~l~~~~~~~~l~~~~~l~~L~  208 (333)
                      |....  ++...+.                                     .+++|+.|++++| .+...+.++.+++|+
T Consensus       181 N~l~~--~~~~~l~~L~~L~l~~n~l~~l~~~~~L~~L~ls~n~l~~~~~~~~~~L~~L~L~~n-~l~~~~~l~~l~~L~  257 (597)
T 3oja_B          181 NRLTH--VDLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHN-NLTDTAWLLNYPGLV  257 (597)
T ss_dssp             SCCSB--CCGGGCTTCSEEECCSSCCSEEECCTTCSEEECCSSCCCEEECSCCSCCCEEECCSS-CCCCCGGGGGCTTCS
T ss_pred             CCCCC--cChhhhhhhhhhhcccCccccccCCchhheeeccCCcccccccccCCCCCEEECCCC-CCCCChhhccCCCCC
Confidence            65554  2111100                                     1234555555555 233344466777788


Q ss_pred             ceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCC
Q 044247          209 DLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALP  288 (333)
Q Consensus       209 ~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~  288 (333)
                      .|++++|. +..++...           +..+++|+.|+++++ .+..++      ..+..+++|+.|++++| .+..+|
T Consensus       258 ~L~Ls~N~-l~~~~~~~-----------~~~l~~L~~L~Ls~N-~l~~l~------~~~~~l~~L~~L~Ls~N-~l~~i~  317 (597)
T 3oja_B          258 EVDLSYNE-LEKIMYHP-----------FVKMQRLERLYISNN-RLVALN------LYGQPIPTLKVLDLSHN-HLLHVE  317 (597)
T ss_dssp             EEECCSSC-CCEEESGG-----------GTTCSSCCEEECTTS-CCCEEE------CSSSCCTTCCEEECCSS-CCCCCG
T ss_pred             EEECCCCc-cCCCCHHH-----------hcCccCCCEEECCCC-CCCCCC------cccccCCCCcEEECCCC-CCCccC
Confidence            88888776 43332211           457788888888874 444443      33346888999999885 455777


Q ss_pred             cccCCCCCcceEEEcccCh
Q 044247          289 DHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       289 ~~~~~l~~L~~L~l~~~c~  307 (333)
                      ..+..+++|+.|++ ++|.
T Consensus       318 ~~~~~l~~L~~L~L-~~N~  335 (597)
T 3oja_B          318 RNQPQFDRLENLYL-DHNS  335 (597)
T ss_dssp             GGHHHHTTCSEEEC-CSSC
T ss_pred             cccccCCCCCEEEC-CCCC
Confidence            77777888999999 8876

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

Probab=99.85  E-value=3e-20  Score=167.86  Aligned_cols=243  Identities=11%  Similarity=0.048  Sum_probs=164.8

Q ss_pred             Cccc-chhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCccccccc-ccccccCceeeeEEEcCccCCCCC
Q 044247            2 EKLP-ETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVG-IGELIRLRRVTKFVVCGGYDRACS   79 (333)
Q Consensus         2 ~~lp-~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~-i~~l~~L~~L~l~~~~~~~~~~~~   79 (333)
                      ..+| ..++.+++|++|++++|......|..++.+++|++|++++| .+..+|.. ++.+++|++|++++|....   ..
T Consensus        82 ~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~~~l~~L~~L~L~~n~l~~---~~  157 (390)
T 3o6n_A           82 EEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERN-DLSSLPRGIFHNTPKLTTLSMSNNNLER---IE  157 (390)
T ss_dssp             CEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCB---CC
T ss_pred             cccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEEECCCC-ccCcCCHHHhcCCCCCcEEECCCCccCc---cC
Confidence            3444 47888999999999999833444566888999999999998 66677766 4789999999998887653   33


Q ss_pred             ccccccCccCceeEecCCCCCCChhhHHHHhhcccCC-------------------ccceEEeecCCCCCchh--hhc--
Q 044247           80 LGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKN-------------------LFDLELDFDNLRDGDEE--QAG--  136 (333)
Q Consensus        80 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~-------------------L~~L~l~~~~~~~~~~~--~~~--  136 (333)
                      +..+..+++|+.|++....- ...      .+..+++                   |++|++++|.+......  ...  
T Consensus       158 ~~~~~~l~~L~~L~l~~n~l-~~~------~~~~l~~L~~L~l~~n~l~~~~~~~~L~~L~l~~n~l~~~~~~~~~~L~~  230 (390)
T 3o6n_A          158 DDTFQATTSLQNLQLSSNRL-THV------DLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTI  230 (390)
T ss_dssp             TTTTSSCTTCCEEECCSSCC-SBC------CGGGCTTCSEEECCSSCCSEEECCSSCSEEECCSSCCCEEECCCCSSCCE
T ss_pred             hhhccCCCCCCEEECCCCcC-Ccc------ccccccccceeecccccccccCCCCcceEEECCCCeeeeccccccccccE
Confidence            44567788888877764321 111      1222233                   33334333332110000  000  


Q ss_pred             -ccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceeccc
Q 044247          137 -RRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAG  214 (333)
Q Consensus       137 -~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~  214 (333)
                       ...++  .... ...+..+++|+.|++++|....  +.+..+..+++|+.|++++| .+..++. .+.+++|+.|++++
T Consensus       231 L~l~~n--~l~~-~~~l~~l~~L~~L~Ls~n~l~~--~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~l~~L~~L~L~~  304 (390)
T 3o6n_A          231 LKLQHN--NLTD-TAWLLNYPGLVEVDLSYNELEK--IMYHPFVKMQRLERLYISNN-RLVALNLYGQPIPTLKVLDLSH  304 (390)
T ss_dssp             EECCSS--CCCC-CGGGGGCTTCSEEECCSSCCCE--EESGGGTTCSSCCEEECCSS-CCCEEECSSSCCTTCCEEECCS
T ss_pred             EECCCC--CCcc-cHHHcCCCCccEEECCCCcCCC--cChhHccccccCCEEECCCC-cCcccCcccCCCCCCCEEECCC
Confidence             00011  1111 2456778999999999998776  43677888999999999999 4555555 66789999999999


Q ss_pred             ccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcC
Q 044247          215 MKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRE  283 (333)
Q Consensus       215 ~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~  283 (333)
                      |. +..++..            +..+++|++|+++++ .+..++        +..+++|++|++++++.
T Consensus       305 n~-l~~~~~~------------~~~l~~L~~L~L~~N-~i~~~~--------~~~~~~L~~L~l~~N~~  351 (390)
T 3o6n_A          305 NH-LLHVERN------------QPQFDRLENLYLDHN-SIVTLK--------LSTHHTLKNLTLSHNDW  351 (390)
T ss_dssp             SC-CCCCGGG------------HHHHTTCSEEECCSS-CCCCCC--------CCTTCCCSEEECCSSCE
T ss_pred             Cc-ceecCcc------------ccccCcCCEEECCCC-ccceeC--------chhhccCCEEEcCCCCc
Confidence            97 6666554            567899999999996 455543        33689999999998653

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.85  E-value=6.5e-20  Score=171.80  Aligned_cols=113  Identities=12%  Similarity=0.006  Sum_probs=80.3

Q ss_pred             ccc-chhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcc
Q 044247            3 KLP-ETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLG   81 (333)
Q Consensus         3 ~lp-~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~   81 (333)
                      .+| ..+.++++|++|++++|...+..|..++++++|++|++++| .+..+|..  .+++|++|++++|....  ...+.
T Consensus        35 ~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~lp~~--~l~~L~~L~L~~N~l~~--~~~p~  109 (520)
T 2z7x_B           35 ELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHN-KLVKISCH--PTVNLKHLDLSFNAFDA--LPICK  109 (520)
T ss_dssp             CCCHHHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCSS-CCCEEECC--CCCCCSEEECCSSCCSS--CCCCG
T ss_pred             ccChhhccccccccEEecCCCccCCcChHHhhcccCCCEEecCCC-ceeecCcc--ccCCccEEeccCCcccc--ccchh
Confidence            344 56788888888888888743445777888888888888888 55677765  78888888888877653  23456


Q ss_pred             ccccCccCceeEecCCCCCCChhhHHHHhhcccCCc--cceEEeecCC
Q 044247           82 SLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNL--FDLELDFDNL  127 (333)
Q Consensus        82 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L--~~L~l~~~~~  127 (333)
                      .+.++++|+.|++.... +..      ..+..+++|  ++|++++|.+
T Consensus       110 ~~~~l~~L~~L~L~~n~-l~~------~~~~~l~~L~L~~L~l~~n~l  150 (520)
T 2z7x_B          110 EFGNMSQLKFLGLSTTH-LEK------SSVLPIAHLNISKVLLVLGET  150 (520)
T ss_dssp             GGGGCTTCCEEEEEESS-CCG------GGGGGGTTSCEEEEEEEECTT
T ss_pred             hhccCCcceEEEecCcc-cch------hhccccccceeeEEEeecccc
Confidence            77888888887776532 221      245556667  8888888765

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

Probab=99.84  E-value=5.9e-20  Score=168.52  Aligned_cols=242  Identities=17%  Similarity=0.242  Sum_probs=163.9

Q ss_pred             ccEEeecCCCcccccCccccccccccEEecCCCCCcccc-cccccccccCceeeeEEEcCccCCCCCccccccCccCcee
Q 044247           14 LERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYL-PVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQC   92 (333)
Q Consensus        14 L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~-p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L   92 (333)
                      .+.++..+.. +..+|..+.  ++++.|++++| .+..+ +..+..+++|++|++++|...   ......+..+++|+.|
T Consensus        45 ~~~v~c~~~~-l~~iP~~~~--~~l~~L~L~~n-~i~~~~~~~~~~l~~L~~L~Ls~n~i~---~i~~~~~~~l~~L~~L  117 (440)
T 3zyj_A           45 FSKVICVRKN-LREVPDGIS--TNTRLLNLHEN-QIQIIKVNSFKHLRHLEILQLSRNHIR---TIEIGAFNGLANLNTL  117 (440)
T ss_dssp             SCEEECCSCC-CSSCCSCCC--TTCSEEECCSC-CCCEECTTTTSSCSSCCEEECCSSCCC---EECGGGGTTCSSCCEE
T ss_pred             CCEEEeCCCC-cCcCCCCCC--CCCcEEEccCC-cCCeeCHHHhhCCCCCCEEECCCCcCC---ccChhhccCCccCCEE
Confidence            4455555554 666776554  56777777777 34443 345677777777777776654   2233456667777777


Q ss_pred             EecCC--CCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCC
Q 044247           93 SIDGL--GGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRR  170 (333)
Q Consensus        93 ~l~~~--~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~  170 (333)
                      ++...  ..++.      ..+..+++|++|++++|.+                 .......+..+++|+.|+++++....
T Consensus       118 ~L~~n~l~~~~~------~~~~~l~~L~~L~L~~N~i-----------------~~~~~~~~~~l~~L~~L~l~~~~~l~  174 (440)
T 3zyj_A          118 ELFDNRLTTIPN------GAFVYLSKLKELWLRNNPI-----------------ESIPSYAFNRIPSLRRLDLGELKRLS  174 (440)
T ss_dssp             ECCSSCCSSCCT------TTSCSCSSCCEEECCSCCC-----------------CEECTTTTTTCTTCCEEECCCCTTCC
T ss_pred             ECCCCcCCeeCH------hHhhccccCceeeCCCCcc-----------------cccCHHHhhhCcccCEeCCCCCCCcc
Confidence            66542  22222      2466778888899888852                 22223467788899999998865444


Q ss_pred             CccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeecc
Q 044247          171 NVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWS  250 (333)
Q Consensus       171 ~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~  250 (333)
                      . +++..+..+++|+.|++++| .++.+|.+..+++|+.|++++|. ++.++...           +..+++|++|++.+
T Consensus       175 ~-i~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~-----------~~~l~~L~~L~L~~  240 (440)
T 3zyj_A          175 Y-ISEGAFEGLSNLRYLNLAMC-NLREIPNLTPLIKLDELDLSGNH-LSAIRPGS-----------FQGLMHLQKLWMIQ  240 (440)
T ss_dssp             E-ECTTTTTTCSSCCEEECTTS-CCSSCCCCTTCSSCCEEECTTSC-CCEECTTT-----------TTTCTTCCEEECTT
T ss_pred             e-eCcchhhcccccCeecCCCC-cCccccccCCCcccCEEECCCCc-cCccChhh-----------hccCccCCEEECCC
Confidence            2 42446778899999999998 56778888888999999999987 55554322           56788999999988


Q ss_pred             CccccccccCCccccccccCCCcceEecccCcCcccCCc-ccCCCCCcceEEEcccCh
Q 044247          251 MSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPD-HLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       251 ~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~-~~~~l~~L~~L~l~~~c~  307 (333)
                      + .+..+.     +..+..+++|++|++++| .++.++. .+..+++|+.|++ .++|
T Consensus       241 n-~l~~~~-----~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L-~~Np  290 (440)
T 3zyj_A          241 S-QIQVIE-----RNAFDNLQSLVEINLAHN-NLTLLPHDLFTPLHHLERIHL-HHNP  290 (440)
T ss_dssp             C-CCCEEC-----TTSSTTCTTCCEEECTTS-CCCCCCTTTTSSCTTCCEEEC-CSSC
T ss_pred             C-ceeEEC-----hhhhcCCCCCCEEECCCC-CCCccChhHhccccCCCEEEc-CCCC
Confidence            5 343332     234557899999999985 5656554 4567899999999 7654

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

Probab=99.84  E-value=6.6e-20  Score=168.73  Aligned_cols=104  Identities=16%  Similarity=0.110  Sum_probs=56.9

Q ss_pred             chhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcccccc
Q 044247            6 ETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKK   85 (333)
Q Consensus         6 ~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~   85 (333)
                      ..++++++|++|++++|. +..+| .++.+++|++|++++| .+..+|  ++.+++|++|++++|....    .  .+..
T Consensus        36 ~~~~~l~~L~~L~Ls~n~-l~~~~-~l~~l~~L~~L~Ls~n-~l~~~~--~~~l~~L~~L~Ls~N~l~~----~--~~~~  104 (457)
T 3bz5_A           36 ISEEQLATLTSLDCHNSS-ITDMT-GIEKLTGLTKLICTSN-NITTLD--LSQNTNLTYLACDSNKLTN----L--DVTP  104 (457)
T ss_dssp             EEHHHHTTCCEEECCSSC-CCCCT-TGGGCTTCSEEECCSS-CCSCCC--CTTCTTCSEEECCSSCCSC----C--CCTT
T ss_pred             cChhHcCCCCEEEccCCC-cccCh-hhcccCCCCEEEccCC-cCCeEc--cccCCCCCEEECcCCCCce----e--ecCC
Confidence            345566666777776665 44455 3666666666666666 344443  5566666666666665442    1  1455


Q ss_pred             CccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCC
Q 044247           86 LNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNL  127 (333)
Q Consensus        86 l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~  127 (333)
                      +++|+.|++.... +...      .+..+++|++|++++|.+
T Consensus       105 l~~L~~L~L~~N~-l~~l------~~~~l~~L~~L~l~~N~l  139 (457)
T 3bz5_A          105 LTKLTYLNCDTNK-LTKL------DVSQNPLLTYLNCARNTL  139 (457)
T ss_dssp             CTTCCEEECCSSC-CSCC------CCTTCTTCCEEECTTSCC
T ss_pred             CCcCCEEECCCCc-CCee------cCCCCCcCCEEECCCCcc
Confidence            5566665554321 1111      134455555555555543

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=99.84  E-value=7.1e-20  Score=168.59  Aligned_cols=242  Identities=19%  Similarity=0.226  Sum_probs=166.0

Q ss_pred             ccEEeecCCCcccccCccccccccccEEecCCCCCcccc-cccccccccCceeeeEEEcCccCCCCCccccccCccCcee
Q 044247           14 LERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYL-PVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQC   92 (333)
Q Consensus        14 L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~-p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L   92 (333)
                      ...++..+.. +..+|..+.  +++++|++++| .+..+ |..+..+++|++|++++|...   ...+..+..+++|+.|
T Consensus        56 ~~~v~c~~~~-l~~iP~~~~--~~l~~L~L~~n-~i~~~~~~~~~~l~~L~~L~Ls~n~i~---~~~~~~~~~l~~L~~L  128 (452)
T 3zyi_A           56 FSKVVCTRRG-LSEVPQGIP--SNTRYLNLMEN-NIQMIQADTFRHLHHLEVLQLGRNSIR---QIEVGAFNGLASLNTL  128 (452)
T ss_dssp             SCEEECCSSC-CSSCCSCCC--TTCSEEECCSS-CCCEECTTTTTTCTTCCEEECCSSCCC---EECTTTTTTCTTCCEE
T ss_pred             CcEEEECCCC-cCccCCCCC--CCccEEECcCC-cCceECHHHcCCCCCCCEEECCCCccC---CcChhhccCcccCCEE
Confidence            3456555554 666666443  57777777777 34443 455777777777777777654   2233456667777777


Q ss_pred             EecCC--CCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCC
Q 044247           93 SIDGL--GGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRR  170 (333)
Q Consensus        93 ~l~~~--~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~  170 (333)
                      ++...  ..++.      ..+..+++|++|++++|.+                 .......+..+++|+.|+++++....
T Consensus       129 ~L~~n~l~~~~~------~~~~~l~~L~~L~L~~N~l-----------------~~~~~~~~~~l~~L~~L~l~~~~~l~  185 (452)
T 3zyi_A          129 ELFDNWLTVIPS------GAFEYLSKLRELWLRNNPI-----------------ESIPSYAFNRVPSLMRLDLGELKKLE  185 (452)
T ss_dssp             ECCSSCCSBCCT------TTSSSCTTCCEEECCSCCC-----------------CEECTTTTTTCTTCCEEECCCCTTCC
T ss_pred             ECCCCcCCccCh------hhhcccCCCCEEECCCCCc-----------------ceeCHhHHhcCCcccEEeCCCCCCcc
Confidence            66542  22222      2466778899999988853                 22223467788999999998865444


Q ss_pred             CccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeecc
Q 044247          171 NVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWS  250 (333)
Q Consensus       171 ~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~  250 (333)
                      . +++..+..+++|+.|++++| .+..+|.+..+++|+.|++++|. +..++...           +..+++|++|++++
T Consensus       186 ~-i~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~-----------~~~l~~L~~L~L~~  251 (452)
T 3zyi_A          186 Y-ISEGAFEGLFNLKYLNLGMC-NIKDMPNLTPLVGLEELEMSGNH-FPEIRPGS-----------FHGLSSLKKLWVMN  251 (452)
T ss_dssp             E-ECTTTTTTCTTCCEEECTTS-CCSSCCCCTTCTTCCEEECTTSC-CSEECGGG-----------GTTCTTCCEEECTT
T ss_pred             c-cChhhccCCCCCCEEECCCC-cccccccccccccccEEECcCCc-CcccCccc-----------ccCccCCCEEEeCC
Confidence            2 42445778999999999998 56677888889999999999988 55553322           56888999999998


Q ss_pred             CccccccccCCccccccccCCCcceEecccCcCcccCCc-ccCCCCCcceEEEcccCh
Q 044247          251 MSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPD-HLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       251 ~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~-~~~~l~~L~~L~l~~~c~  307 (333)
                      + .+..+     .+..+..+++|++|++++| .++.++. .+..+++|+.|++ .+++
T Consensus       252 n-~l~~~-----~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L-~~Np  301 (452)
T 3zyi_A          252 S-QVSLI-----ERNAFDGLASLVELNLAHN-NLSSLPHDLFTPLRYLVELHL-HHNP  301 (452)
T ss_dssp             S-CCCEE-----CTTTTTTCTTCCEEECCSS-CCSCCCTTSSTTCTTCCEEEC-CSSC
T ss_pred             C-cCceE-----CHHHhcCCCCCCEEECCCC-cCCccChHHhccccCCCEEEc-cCCC
Confidence            5 34333     2344567899999999985 5666654 4567899999999 7654

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.84  E-value=1.7e-20  Score=178.94  Aligned_cols=249  Identities=18%  Similarity=0.119  Sum_probs=143.7

Q ss_pred             hcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCc
Q 044247            8 LCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLN   87 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~   87 (333)
                      +..+++|++|++.++. +..+| .+..+++|+.|++++|. +..+| .+ .+++|++|++.+|....     ...+..++
T Consensus       281 ~~~l~~L~~L~l~~~~-~~~l~-~l~~~~~L~~L~l~~n~-l~~lp-~~-~l~~L~~L~l~~n~~~~-----~~~~~~l~  350 (606)
T 3vq2_A          281 FHCLANVSAMSLAGVS-IKYLE-DVPKHFKWQSLSIIRCQ-LKQFP-TL-DLPFLKSLTLTMNKGSI-----SFKKVALP  350 (606)
T ss_dssp             CGGGTTCSEEEEESCC-CCCCC-CCCTTCCCSEEEEESCC-CSSCC-CC-CCSSCCEEEEESCSSCE-----ECCCCCCT
T ss_pred             cccCCCCCEEEecCcc-chhhh-hccccccCCEEEccccc-Ccccc-cC-CCCccceeeccCCcCcc-----chhhccCC
Confidence            6778888888888887 67777 68888888888888884 47777 45 78888888888774432     11445677


Q ss_pred             cCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeec
Q 044247           88 LLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYR  167 (333)
Q Consensus        88 ~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~  167 (333)
                      +|+.|++....- ... ......+..+++|++|++++|.                  ....+..+..+++|+.|++++|.
T Consensus       351 ~L~~L~ls~n~l-~~~-~~~~~~~~~~~~L~~L~L~~n~------------------l~~~~~~~~~l~~L~~L~l~~n~  410 (606)
T 3vq2_A          351 SLSYLDLSRNAL-SFS-GCCSYSDLGTNSLRHLDLSFNG------------------AIIMSANFMGLEELQHLDFQHST  410 (606)
T ss_dssp             TCCEEECCSSCE-EEE-EECCHHHHCCSCCCEEECCSCS------------------EEEECCCCTTCTTCCEEECTTSE
T ss_pred             CCCEEECcCCcc-CCC-cchhhhhccCCcccEeECCCCc------------------cccchhhccCCCCCCeeECCCCc
Confidence            777777664321 100 0011345566777777777773                  22233444455555555555544


Q ss_pred             CCCCccCc-hhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccc------------------------cccc
Q 044247          168 GRRNVVPK-NWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKS------------------------VKRV  221 (333)
Q Consensus       168 ~~~~~~~~-~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~------------------------l~~i  221 (333)
                      ...  ..+ ..+..+++|+.|++++|......+. ++.+++|++|++++|..                        +..+
T Consensus       411 l~~--~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~  488 (606)
T 3vq2_A          411 LKR--VTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQI  488 (606)
T ss_dssp             EES--TTTTTTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEE
T ss_pred             cCC--ccChhhhhccccCCEEECcCCCCCccchhhhcCCCCCCEEECCCCcCCCcchHHhhccCCCCCEEECCCCcCCcc
Confidence            333  201 2344455555555555433222222 44444555555544441                        2222


Q ss_pred             cccccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCC-CcceE
Q 044247          222 GNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKS-TLQNL  300 (333)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~-~L~~L  300 (333)
                      +...           +..+++|++|+++++. +     ....|..+..+++|+.|++++|. ++.+|..+..++ +|+.|
T Consensus       489 ~~~~-----------~~~l~~L~~L~Ls~N~-l-----~~~~~~~~~~l~~L~~L~l~~N~-l~~~p~~~~~l~~~L~~l  550 (606)
T 3vq2_A          489 SWGV-----------FDTLHRLQLLNMSHNN-L-----LFLDSSHYNQLYSLSTLDCSFNR-IETSKGILQHFPKSLAFF  550 (606)
T ss_dssp             CTTT-----------TTTCTTCCEEECCSSC-C-----SCEEGGGTTTCTTCCEEECTTSC-CCCEESCGGGSCTTCCEE
T ss_pred             Chhh-----------hcccccCCEEECCCCc-C-----CCcCHHHccCCCcCCEEECCCCc-CcccCHhHhhhcccCcEE
Confidence            1111           3455566666666542 2     22234556677888888888754 667777666666 58888


Q ss_pred             EEcccCh
Q 044247          301 EIWGACH  307 (333)
Q Consensus       301 ~l~~~c~  307 (333)
                      ++ .+++
T Consensus       551 ~l-~~N~  556 (606)
T 3vq2_A          551 NL-TNNS  556 (606)
T ss_dssp             EC-CSCC
T ss_pred             Ec-cCCC
Confidence            88 7655

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

Probab=99.84  E-value=4.5e-20  Score=169.83  Aligned_cols=184  Identities=13%  Similarity=0.082  Sum_probs=103.9

Q ss_pred             CcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcc
Q 044247            2 EKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLG   81 (333)
Q Consensus         2 ~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~   81 (333)
                      +.+| .++.+++|++|++++|. +..+|  ++.+++|++|++++| .+..++  ++.+++|++|++++|....    .  
T Consensus        55 ~~~~-~l~~l~~L~~L~Ls~n~-l~~~~--~~~l~~L~~L~Ls~N-~l~~~~--~~~l~~L~~L~L~~N~l~~----l--  121 (457)
T 3bz5_A           55 TDMT-GIEKLTGLTKLICTSNN-ITTLD--LSQNTNLTYLACDSN-KLTNLD--VTPLTKLTYLNCDTNKLTK----L--  121 (457)
T ss_dssp             CCCT-TGGGCTTCSEEECCSSC-CSCCC--CTTCTTCSEEECCSS-CCSCCC--CTTCTTCCEEECCSSCCSC----C--
T ss_pred             ccCh-hhcccCCCCEEEccCCc-CCeEc--cccCCCCCEEECcCC-CCceee--cCCCCcCCEEECCCCcCCe----e--
Confidence            4566 68889999999999998 65565  788899999999888 456654  7788888998888887653    1  


Q ss_pred             ccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCc-hhh--hc---ccCCcccccccccccCCCC
Q 044247           82 SLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGD-EEQ--AG---RRENEEDEDERLLDALGPP  155 (333)
Q Consensus        82 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~-~~~--~~---~~~~~~~~~~~~~~~l~~~  155 (333)
                      .+..+++|+.|++.... +...      .+..+++|++|++++|...... ...  ..   ....+  ....++  +..+
T Consensus       122 ~~~~l~~L~~L~l~~N~-l~~l------~l~~l~~L~~L~l~~n~~~~~~~~~~l~~L~~L~ls~n--~l~~l~--l~~l  190 (457)
T 3bz5_A          122 DVSQNPLLTYLNCARNT-LTEI------DVSHNTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFN--KITELD--VSQN  190 (457)
T ss_dssp             CCTTCTTCCEEECTTSC-CSCC------CCTTCTTCCEEECTTCSCCCCCCCTTCTTCCEEECCSS--CCCCCC--CTTC
T ss_pred             cCCCCCcCCEEECCCCc-ccee------ccccCCcCCEEECCCCCcccccccccCCcCCEEECCCC--ccceec--cccC
Confidence            26667777777665422 1111      1344555555555555211000 000  00   00000  011111  3444


Q ss_pred             CCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceeccccc
Q 044247          156 PNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMK  216 (333)
Q Consensus       156 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~  216 (333)
                      ++|+.|++++|....  + +  +..+++|+.|++++| .++.+| ++.+++|+.|++++|.
T Consensus       191 ~~L~~L~l~~N~l~~--~-~--l~~l~~L~~L~Ls~N-~l~~ip-~~~l~~L~~L~l~~N~  244 (457)
T 3bz5_A          191 KLLNRLNCDTNNITK--L-D--LNQNIQLTFLDCSSN-KLTEID-VTPLTQLTYFDCSVNP  244 (457)
T ss_dssp             TTCCEEECCSSCCSC--C-C--CTTCTTCSEEECCSS-CCSCCC-CTTCTTCSEEECCSSC
T ss_pred             CCCCEEECcCCcCCe--e-c--cccCCCCCEEECcCC-cccccC-ccccCCCCEEEeeCCc
Confidence            555555555555444  2 1  344556666666665 233344 5555666666666654

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

Probab=99.84  E-value=2e-20  Score=176.43  Aligned_cols=162  Identities=19%  Similarity=0.122  Sum_probs=85.0

Q ss_pred             cchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccc-cccccccCceeeeEEEcCccCCCCCcccc
Q 044247            5 PETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPV-GIGELIRLRRVTKFVVCGGYDRACSLGSL   83 (333)
Q Consensus         5 p~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~-~i~~l~~L~~L~l~~~~~~~~~~~~~~~l   83 (333)
                      |..++++++|++|++++|...+..|..++.+++|++|++++| .+..++. .++.+++|++|++++|....  ...+..+
T Consensus        43 ~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~Ls~n~l~~--~~~~~~~  119 (549)
T 2z81_A           43 HGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDN-HLSSLSSSWFGPLSSLKYLNLMGNPYQT--LGVTSLF  119 (549)
T ss_dssp             SSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTS-CCCSCCHHHHTTCTTCCEEECTTCCCSS--SCSSCSC
T ss_pred             hhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCC-ccCccCHHHhccCCCCcEEECCCCcccc--cchhhhh
Confidence            345666666666666666633333455666666667776666 3333333 36666667777666665542  1233455


Q ss_pred             ccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEE
Q 044247           84 KKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHI  163 (333)
Q Consensus        84 ~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l  163 (333)
                      .++++|+.|++.....+...   ....+..+++|++|++++|.+.                 ...+..+..+++|+.|++
T Consensus       120 ~~l~~L~~L~L~~n~~~~~~---~~~~~~~l~~L~~L~L~~n~l~-----------------~~~~~~l~~l~~L~~L~l  179 (549)
T 2z81_A          120 PNLTNLQTLRIGNVETFSEI---RRIDFAGLTSLNELEIKALSLR-----------------NYQSQSLKSIRDIHHLTL  179 (549)
T ss_dssp             TTCTTCCEEEEEESSSCCEE---CTTTTTTCCEEEEEEEEETTCC-----------------EECTTTTTTCSEEEEEEE
T ss_pred             hccCCccEEECCCCcccccc---CHhhhhcccccCeeeccCCccc-----------------ccChhhhhccccCceEec
Confidence            66666666666543211111   0124556667777777776532                 223344444555555555


Q ss_pred             eeecCCCCccCchhh-hcCCCccEEEeecC
Q 044247          164 HEYRGRRNVVPKNWV-MSLTNLRVLHLFEC  192 (333)
Q Consensus       164 ~~~~~~~~~~~~~~~-~~~~~L~~L~l~~~  192 (333)
                      +++....  + +.++ ..+++|++|++++|
T Consensus       180 ~~n~~~~--~-~~~~~~~l~~L~~L~L~~n  206 (549)
T 2z81_A          180 HLSESAF--L-LEIFADILSSVRYLELRDT  206 (549)
T ss_dssp             ECSBSTT--H-HHHHHHSTTTBSEEEEESC
T ss_pred             ccCcccc--c-chhhHhhcccccEEEccCC
Confidence            5444333  3 3222 23555555555554

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

Probab=99.83  E-value=7.1e-20  Score=173.31  Aligned_cols=84  Identities=18%  Similarity=0.047  Sum_probs=33.9

Q ss_pred             hcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccc-cccccccCceeeeEEEcCccCCCCCccccccC
Q 044247            8 LCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPV-GIGELIRLRRVTKFVVCGGYDRACSLGSLKKL   86 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~-~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l   86 (333)
                      ++++++|++|++++|......|..++++++|++|++++| .+..++. .++.+++|++|++++|....  ...+..+.++
T Consensus        72 ~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~~~l~~L~~L~L~~n~l~~--~~lp~~~~~l  148 (570)
T 2z63_A           72 YQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAHNLIQS--FKLPEYFSNL  148 (570)
T ss_dssp             TTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTS-CCCCSTTCSCTTCTTCCEEECCSSCCCC--CCCCGGGGGC
T ss_pred             ccCchhCCEEeCcCCcCCccCHhhhcCcccccccccccc-ccccCCCccccccccccEEecCCCccce--ecChhhhccc
Confidence            344444444444444411122233444444444444443 2222222 24444455555554444331  1123444555


Q ss_pred             ccCceeEe
Q 044247           87 NLLRQCSI   94 (333)
Q Consensus        87 ~~L~~L~l   94 (333)
                      ++|+.|++
T Consensus       149 ~~L~~L~l  156 (570)
T 2z63_A          149 TNLEHLDL  156 (570)
T ss_dssp             TTCCEEEC
T ss_pred             CCCCEEeC
Confidence            55555444

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

Probab=99.83  E-value=4.2e-19  Score=175.48  Aligned_cols=118  Identities=13%  Similarity=0.084  Sum_probs=76.8

Q ss_pred             cchhcCCCcccEEeecCCCccccc-CccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcc--
Q 044247            5 PETLCELYNLERVNVSGCSHLREL-PQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLG--   81 (333)
Q Consensus         5 p~~l~~l~~L~~L~l~~~~~~~~l-p~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~--   81 (333)
                      |..+.++++|++|++++|.....+ |..++++++|++|++++|......|..++.+++|++|++++|....   ..+.  
T Consensus        41 ~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls~n~l~~---~~~~~~  117 (844)
T 3j0a_A           41 ASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSD---AVLKDG  117 (844)
T ss_dssp             SSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCCEECTTSSCSCSSCCCEECTTCCCSS---CCSTTC
T ss_pred             hhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCcccCHhHccCCcccCEeeCcCCCCCc---ccccCc
Confidence            567778888888888888645555 6667888888888888874433346677788888888887776542   2222  


Q ss_pred             ccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCC
Q 044247           82 SLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLR  128 (333)
Q Consensus        82 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~  128 (333)
                      .+.++++|+.|++....-...   .....+..+++|++|++++|.+.
T Consensus       118 ~~~~L~~L~~L~Ls~N~l~~~---~~~~~~~~L~~L~~L~Ls~N~i~  161 (844)
T 3j0a_A          118 YFRNLKALTRLDLSKNQIRSL---YLHPSFGKLNSLKSIDFSSNQIF  161 (844)
T ss_dssp             CCSSCSSCCEEEEESCCCCCC---CCCGGGGTCSSCCEEEEESSCCC
T ss_pred             cccccCCCCEEECCCCccccc---ccchhHhhCCCCCEEECCCCcCC
Confidence            266777777776654321110   00124667777777777777654

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=99.83  E-value=2.1e-20  Score=163.23  Aligned_cols=136  Identities=17%  Similarity=0.130  Sum_probs=75.5

Q ss_pred             cCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCC-CCCC-CCCCccccceecccccccccccccccCC
Q 044247          151 ALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCE-HLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGV  228 (333)
Q Consensus       151 ~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~  228 (333)
                      .+..+++|+.|++++|....  ..+..+..+++|+.|++++|...+ .+|. ++.+++|++|++++|. ++.++...   
T Consensus       121 ~~~~l~~L~~L~l~~n~l~~--~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~---  194 (306)
T 2z66_A          121 VFLSLRNLIYLDISHTHTRV--AFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ-LEQLSPTA---  194 (306)
T ss_dssp             TTTTCTTCCEEECTTSCCEE--CSTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSC-CCEECTTT---
T ss_pred             hhhhccCCCEEECCCCcCCc--cchhhcccCcCCCEEECCCCccccccchhHHhhCcCCCEEECCCCC-cCCcCHHH---
Confidence            45556666666666665543  214445566677777776663322 1332 5666677777777665 44432211   


Q ss_pred             CCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCC-CcceEEEcccCh
Q 044247          229 ESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKS-TLQNLEIWGACH  307 (333)
Q Consensus       229 ~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~-~L~~L~l~~~c~  307 (333)
                              +..+++|++|+++++. +..++     +..+..+++|+.|++++|......+..+..++ +|+.|++ .+++
T Consensus       195 --------~~~l~~L~~L~L~~N~-l~~~~-----~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~L~L-~~N~  259 (306)
T 2z66_A          195 --------FNSLSSLQVLNMSHNN-FFSLD-----TFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNL-TQND  259 (306)
T ss_dssp             --------TTTCTTCCEEECTTSC-CSBCC-----SGGGTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCCEEEC-TTCC
T ss_pred             --------hcCCCCCCEEECCCCc-cCccC-----hhhccCcccCCEeECCCCCCcccCHHHHHhhhccCCEEEc-cCCC
Confidence                    3456677777776642 32221     11234567777777776554444455555553 6777777 6543

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

Probab=99.83  E-value=5.5e-20  Score=174.08  Aligned_cols=252  Identities=17%  Similarity=0.142  Sum_probs=187.9

Q ss_pred             ccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcccc
Q 044247            4 LPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSL   83 (333)
Q Consensus         4 lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l   83 (333)
                      +|..+..+++|++|++.+|. +..+|..+..+ +|++|++++| .+..+|.  ..+++|++|++.++....    ... .
T Consensus       274 ~~~~~~~l~~L~~L~l~~~~-l~~l~~~~~~~-~L~~L~l~~n-~~~~l~~--~~l~~L~~L~l~~n~~~~----~~~-~  343 (570)
T 2z63_A          274 IIDLFNCLTNVSSFSLVSVT-IERVKDFSYNF-GWQHLELVNC-KFGQFPT--LKLKSLKRLTFTSNKGGN----AFS-E  343 (570)
T ss_dssp             STTTTGGGTTCSEEEEESCE-ECSCCBCCSCC-CCSEEEEESC-BCSSCCB--CBCSSCCEEEEESCBSCC----BCC-C
T ss_pred             chhhhcCcCcccEEEecCcc-chhhhhhhccC-CccEEeeccC-cccccCc--ccccccCEEeCcCCcccc----ccc-c
Confidence            46678889999999999998 77888888888 9999999998 5567765  578899999998887653    111 1


Q ss_pred             ccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEE
Q 044247           84 KKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHI  163 (333)
Q Consensus        84 ~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l  163 (333)
                      ..+++|+.|++....- ... ......+..+++|++|++++|.                  ....+..+..+++|+.|++
T Consensus       344 ~~~~~L~~L~l~~n~l-~~~-~~~~~~~~~~~~L~~L~l~~n~------------------l~~~~~~~~~l~~L~~L~l  403 (570)
T 2z63_A          344 VDLPSLEFLDLSRNGL-SFK-GCCSQSDFGTTSLKYLDLSFNG------------------VITMSSNFLGLEQLEHLDF  403 (570)
T ss_dssp             CBCTTCCEEECCSSCC-BEE-EEEEHHHHTCSCCCEEECCSCS------------------EEEEEEEEETCTTCCEEEC
T ss_pred             ccCCCCCEEeCcCCcc-Ccc-ccccccccccCccCEEECCCCc------------------cccccccccccCCCCEEEc
Confidence            6788888888865432 111 0012356678999999999984                  3344444778899999999


Q ss_pred             eeecCCCCccCc-hhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceeccccccc-ccccccccCCCCCCCCCccccC
Q 044247          164 HEYRGRRNVVPK-NWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSV-KRVGNEFLGVESDTDGSSVIAF  240 (333)
Q Consensus       164 ~~~~~~~~~~~~-~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l-~~i~~~~~~~~~~~~~~~~~~l  240 (333)
                      ++|....  ..+ ..+..+++|+.|++++|......+. ++.+++|++|++++|... ..+|..            +..+
T Consensus       404 ~~n~l~~--~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~p~~------------~~~l  469 (570)
T 2z63_A          404 QHSNLKQ--MSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDI------------FTEL  469 (570)
T ss_dssp             TTSEEES--CTTSCTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSC------------CTTC
T ss_pred             cCCcccc--ccchhhhhcCCCCCEEeCcCCcccccchhhhhcCCcCcEEECcCCcCccccchhh------------hhcc
Confidence            9887655  312 4577899999999999965554554 788999999999999832 234433            6789


Q ss_pred             CCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCC-cccCCCCCcceEEEcccCh
Q 044247          241 PKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALP-DHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       241 ~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~-~~~~~l~~L~~L~l~~~c~  307 (333)
                      ++|++|++++|. +.     +..|..+..+++|++|++++|. ++.++ ..+..+++|+.|++ .+|+
T Consensus       470 ~~L~~L~l~~n~-l~-----~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l-~~N~  529 (570)
T 2z63_A          470 RNLTFLDLSQCQ-LE-----QLSPTAFNSLSSLQVLNMASNQ-LKSVPDGIFDRLTSLQKIWL-HTNP  529 (570)
T ss_dssp             TTCCEEECTTSC-CC-----EECTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEEC-CSSC
T ss_pred             cCCCEEECCCCc-cc-----cCChhhhhcccCCCEEeCCCCc-CCCCCHHHhhcccCCcEEEe-cCCc
Confidence            999999999974 33     2334556689999999999974 55554 46778999999999 8754

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.82  E-value=5.1e-19  Score=165.70  Aligned_cols=135  Identities=16%  Similarity=0.225  Sum_probs=87.4

Q ss_pred             ccccCCCCCCccEEEEeeecCCCC-ccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceeccccccccccccc
Q 044247          148 LLDALGPPPNLKELHIHEYRGRRN-VVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNE  224 (333)
Q Consensus       148 ~~~~l~~~~~L~~L~l~~~~~~~~-~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~  224 (333)
                      .+..+..+++|+.|++++|..... .+ |..+..+++|+.|++++|...+.+|.  +..+++|++|++++|.-...++  
T Consensus       340 ~~~~~~~l~~L~~L~L~~N~l~~l~~~-~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~--  416 (520)
T 2z7x_B          340 VFENCGHLTELETLILQMNQLKELSKI-AEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSNILTDTIF--  416 (520)
T ss_dssp             TTTTCCCCSSCCEEECCSSCCCBHHHH-HHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCTTCCEEECCSSCCCGGGG--
T ss_pred             hhhhhccCCCCCEEEccCCccCccccc-hHHHhhCCCCCEEECCCCcCCcccccchhccCccCCEEECcCCCCCcchh--
Confidence            345556667777777776665530 02 34455677777777777643332443  5566677777777766222222  


Q ss_pred             ccCCCCCCCCCccccC-CCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcc-cCCCCCcceEEE
Q 044247          225 FLGVESDTDGSSVIAF-PKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDH-LLQKSTLQNLEI  302 (333)
Q Consensus       225 ~~~~~~~~~~~~~~~l-~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~-~~~l~~L~~L~l  302 (333)
                                   ..+ ++|+.|++++| +++      .+|..+..+++|++|++++| .++.+|.. +..+++|+.|++
T Consensus       417 -------------~~l~~~L~~L~Ls~N-~l~------~ip~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~l~~L~~L~l  475 (520)
T 2z7x_B          417 -------------RCLPPRIKVLDLHSN-KIK------SIPKQVVKLEALQELNVASN-QLKSVPDGIFDRLTSLQKIWL  475 (520)
T ss_dssp             -------------GSCCTTCCEEECCSS-CCC------CCCGGGGGCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEEC
T ss_pred             -------------hhhcccCCEEECCCC-ccc------ccchhhhcCCCCCEEECCCC-cCCccCHHHhccCCcccEEEC
Confidence                         122 57888888875 333      35566668999999999986 56788875 778999999999


Q ss_pred             cccCh
Q 044247          303 WGACH  307 (333)
Q Consensus       303 ~~~c~  307 (333)
                       .+++
T Consensus       476 -~~N~  479 (520)
T 2z7x_B          476 -HTNP  479 (520)
T ss_dssp             -CSSC
T ss_pred             -cCCC
Confidence             8754

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

Probab=99.82  E-value=5e-19  Score=166.78  Aligned_cols=139  Identities=18%  Similarity=0.235  Sum_probs=89.0

Q ss_pred             CCCCCCccEEEEeeecCCCCccCc---hhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccC
Q 044247          152 LGPPPNLKELHIHEYRGRRNVVPK---NWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLG  227 (333)
Q Consensus       152 l~~~~~L~~L~l~~~~~~~~~~~~---~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~  227 (333)
                      +..+++|+.|++++|....  + +   ..+..+++|+.|++++| .++.+|. ++.+++|++|++++|. ++.++.....
T Consensus       357 ~~~l~~L~~L~Ls~N~l~~--~-~~~~~~~~~l~~L~~L~Ls~N-~l~~lp~~~~~~~~L~~L~Ls~N~-l~~l~~~~~~  431 (549)
T 2z81_A          357 KGAWPSLQTLVLSQNHLRS--M-QKTGEILLTLKNLTSLDISRN-TFHPMPDSCQWPEKMRFLNLSSTG-IRVVKTCIPQ  431 (549)
T ss_dssp             TTSSTTCCEEECTTSCCCC--H-HHHHHHGGGCTTCCEEECTTC-CCCCCCSCCCCCTTCCEEECTTSC-CSCCCTTSCT
T ss_pred             hhccccCcEEEccCCcccc--c-ccchhhhhcCCCCCEEECCCC-CCccCChhhcccccccEEECCCCC-cccccchhcC
Confidence            4556777777777776655  4 3   23567888888888888 4456665 6677888888888877 5544432110


Q ss_pred             CCCCCC--------CCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCC-cccCCCCCcc
Q 044247          228 VESDTD--------GSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALP-DHLLQKSTLQ  298 (333)
Q Consensus       228 ~~~~~~--------~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~-~~~~~l~~L~  298 (333)
                        ..+.        ......+++|++|+++++ +++.+      |. ...+++|+.|++++| .++.++ ..+..+++|+
T Consensus       432 --~L~~L~Ls~N~l~~~~~~l~~L~~L~Ls~N-~l~~i------p~-~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~  500 (549)
T 2z81_A          432 --TLEVLDVSNNNLDSFSLFLPRLQELYISRN-KLKTL------PD-ASLFPVLLVMKISRN-QLKSVPDGIFDRLTSLQ  500 (549)
T ss_dssp             --TCSEEECCSSCCSCCCCCCTTCCEEECCSS-CCSSC------CC-GGGCTTCCEEECCSS-CCCCCCTTGGGGCTTCC
T ss_pred             --CceEEECCCCChhhhcccCChhcEEECCCC-ccCcC------CC-cccCccCCEEecCCC-ccCCcCHHHHhcCcccC
Confidence              0000        001235677777777775 44433      33 236899999999986 455544 4577899999


Q ss_pred             eEEEcccCh
Q 044247          299 NLEIWGACH  307 (333)
Q Consensus       299 ~L~l~~~c~  307 (333)
                      .|++ .+|+
T Consensus       501 ~L~l-~~N~  508 (549)
T 2z81_A          501 KIWL-HTNP  508 (549)
T ss_dssp             EEEC-CSSC
T ss_pred             EEEe-cCCC
Confidence            9999 7765

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

Probab=99.82  E-value=5.9e-21  Score=167.65  Aligned_cols=247  Identities=13%  Similarity=0.037  Sum_probs=180.0

Q ss_pred             hcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCc
Q 044247            8 LCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLN   87 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~   87 (333)
                      +..+++|++|++++|......|..+..+++|++|++++| .+...+. +..+++|++|++++|....        +...+
T Consensus        30 ~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~-~~~l~~L~~L~Ls~n~l~~--------l~~~~   99 (317)
T 3o53_A           30 RQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSN-VLYETLD-LESLSTLRTLDLNNNYVQE--------LLVGP   99 (317)
T ss_dssp             HTTGGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTS-CCEEEEE-ETTCTTCCEEECCSSEEEE--------EEECT
T ss_pred             hccCCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCC-cCCcchh-hhhcCCCCEEECcCCcccc--------ccCCC
Confidence            445679999999999833444567899999999999998 4555444 8889999999998876542        22346


Q ss_pred             cCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeec
Q 044247           88 LLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYR  167 (333)
Q Consensus        88 ~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~  167 (333)
                      +|+.|++....- ...      ....+++|++|++++|.+.                 ......+..+++|+.|++++|.
T Consensus       100 ~L~~L~l~~n~l-~~~------~~~~~~~L~~L~l~~N~l~-----------------~~~~~~~~~l~~L~~L~Ls~N~  155 (317)
T 3o53_A          100 SIETLHAANNNI-SRV------SCSRGQGKKNIYLANNKIT-----------------MLRDLDEGCRSRVQYLDLKLNE  155 (317)
T ss_dssp             TCCEEECCSSCC-SEE------EECCCSSCEEEECCSSCCC-----------------SGGGBCTGGGSSEEEEECTTSC
T ss_pred             CcCEEECCCCcc-CCc------CccccCCCCEEECCCCCCC-----------------CccchhhhccCCCCEEECCCCC
Confidence            788877765322 211      1234678999999998632                 2223456677899999999988


Q ss_pred             CCCCccCchhh-hcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEE
Q 044247          168 GRRNVVPKNWV-MSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRL  246 (333)
Q Consensus       168 ~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L  246 (333)
                      ...  +.+..+ ..+++|+.|++++| .++.++....+++|++|++++|. ++.++..            +..+++|++|
T Consensus       156 l~~--~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~l~~L~~L~Ls~N~-l~~l~~~------------~~~l~~L~~L  219 (317)
T 3o53_A          156 IDT--VNFAELAASSDTLEHLNLQYN-FIYDVKGQVVFAKLKTLDLSSNK-LAFMGPE------------FQSAAGVTWI  219 (317)
T ss_dssp             CCE--EEGGGGGGGTTTCCEEECTTS-CCCEEECCCCCTTCCEEECCSSC-CCEECGG------------GGGGTTCSEE
T ss_pred             CCc--ccHHHHhhccCcCCEEECCCC-cCcccccccccccCCEEECCCCc-CCcchhh------------hcccCcccEE
Confidence            776  423444 46899999999998 45666666668999999999987 6666654            4578899999


Q ss_pred             eeccCccccccccCCccccccccCCCcceEecccCcCc-ccCCcccCCCCCcceEEEcccChhhHhh
Q 044247          247 RFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCREL-KALPDHLLQKSTLQNLEIWGACHILQER  312 (333)
Q Consensus       247 ~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l-~~l~~~~~~l~~L~~L~l~~~c~~l~~~  312 (333)
                      +++++ .+..      +|..+..+++|+.|++++++.. ..++..+..+++|+.+++ .+|..++..
T Consensus       220 ~L~~N-~l~~------l~~~~~~l~~L~~L~l~~N~~~~~~~~~~~~~~~~L~~l~l-~~~~~l~~~  278 (317)
T 3o53_A          220 SLRNN-KLVL------IEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAK-QTVKKLTGQ  278 (317)
T ss_dssp             ECTTS-CCCE------ECTTCCCCTTCCEEECTTCCCBHHHHHHHHHTCHHHHHHHH-HHHHHHHSS
T ss_pred             ECcCC-cccc------hhhHhhcCCCCCEEEccCCCccCcCHHHHHhccccceEEEC-CCchhccCC
Confidence            99986 4543      3444568899999999987655 456667777888999998 877777654

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

Probab=99.81  E-value=3.5e-19  Score=176.03  Aligned_cols=83  Identities=14%  Similarity=-0.081  Sum_probs=40.6

Q ss_pred             CCcccEEeecCCCcccccCccccccccccEEecCCCCCcccc-cccccccccCceeeeEEEcCccCCCCCccccccCccC
Q 044247           11 LYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYL-PVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLL   89 (333)
Q Consensus        11 l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~-p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L   89 (333)
                      .++|++|++++|......|..+.++++|++|++++|.....+ |..++.+++|++|++++|...   ...+..+..+++|
T Consensus        23 p~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~---~~~p~~~~~l~~L   99 (844)
T 3j0a_A           23 LNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIY---FLHPDAFQGLFHL   99 (844)
T ss_dssp             CTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCC---EECTTSSCSCSSC
T ss_pred             CCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCc---ccCHhHccCCccc
Confidence            345555555555522333444555555555555555333333 334555555555555555443   2223444555555


Q ss_pred             ceeEecC
Q 044247           90 RQCSIDG   96 (333)
Q Consensus        90 ~~L~l~~   96 (333)
                      +.|++..
T Consensus       100 ~~L~Ls~  106 (844)
T 3j0a_A          100 FELRLYF  106 (844)
T ss_dssp             CCEECTT
T ss_pred             CEeeCcC
Confidence            5555543

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=99.81  E-value=8.8e-19  Score=169.35  Aligned_cols=87  Identities=17%  Similarity=0.098  Sum_probs=62.2

Q ss_pred             cchhcCCCcccEEeecCCCcccccCc-cccccccccEEecCCCCCccccc-ccccccccCceeeeEEEcCccCCCCCccc
Q 044247            5 PETLCELYNLERVNVSGCSHLRELPQ-GIGKLRKLMYLDNDYTDSLRYLP-VGIGELIRLRRVTKFVVCGGYDRACSLGS   82 (333)
Q Consensus         5 p~~l~~l~~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~l~~~~~~~~~p-~~i~~l~~L~~L~l~~~~~~~~~~~~~~~   82 (333)
                      |..++++++|++|++++|. +..+|. .++.+++|++|++++| .+..++ ..++.+++|++|++++|...   ...+..
T Consensus        66 ~~~~~~l~~L~~L~L~~n~-l~~l~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~l~---~~~~~~  140 (680)
T 1ziw_A           66 PELCQKLPMLKVLNLQHNE-LSQLSDKTFAFCTNLTELHLMSN-SIQKIKNNPFVKQKNLITLDLSHNGLS---STKLGT  140 (680)
T ss_dssp             TTHHHHCTTCCEEECCSSC-CCCCCTTTTTTCTTCSEEECCSS-CCCCCCSCTTTTCTTCCEEECCSSCCS---CCCCCS
T ss_pred             HHHHhcccCcCEEECCCCc-cCccChhhhccCCCCCEEECCCC-ccCccChhHccccCCCCEEECCCCccc---ccCchh
Confidence            5667888888888888887 656665 5788888888888888 445544 45778888888888877655   333445


Q ss_pred             cccCccCceeEecC
Q 044247           83 LKKLNLLRQCSIDG   96 (333)
Q Consensus        83 l~~l~~L~~L~l~~   96 (333)
                      +..+++|+.|++..
T Consensus       141 ~~~l~~L~~L~L~~  154 (680)
T 1ziw_A          141 QVQLENLQELLLSN  154 (680)
T ss_dssp             SSCCTTCCEEECCS
T ss_pred             hcccccCCEEEccC
Confidence            56677777766654

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=99.80  E-value=1e-18  Score=168.83  Aligned_cols=160  Identities=19%  Similarity=0.197  Sum_probs=95.7

Q ss_pred             CcccchhcCCCcccEEeecCCCcccccC-ccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCc
Q 044247            2 EKLPETLCELYNLERVNVSGCSHLRELP-QGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSL   80 (333)
Q Consensus         2 ~~lp~~l~~l~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~   80 (333)
                      +++|..+.  +++++|++++|. +..+| ..++++++|++|++++|......|..++.+++|++|++++|....   ...
T Consensus        17 ~~ip~~~~--~~l~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~---l~~   90 (680)
T 1ziw_A           17 TQVPDDLP--TNITVLNLTHNQ-LRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQ---LSD   90 (680)
T ss_dssp             SSCCSCSC--TTCSEEECCSSC-CCCCCGGGGGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSCCCC---CCT
T ss_pred             cccccccC--CCCcEEECCCCC-CCCcCHHHHhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCCccCc---cCh
Confidence            45666554  677788888777 44444 457777788888887774333345556777778887777776542   222


Q ss_pred             cccccCccCceeEecCC--CCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCc
Q 044247           81 GSLKKLNLLRQCSIDGL--GGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNL  158 (333)
Q Consensus        81 ~~l~~l~~L~~L~l~~~--~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L  158 (333)
                      ..+.++++|+.|++...  ..++.      ..+..+++|++|++++|.+                 ....+..+..+++|
T Consensus        91 ~~~~~l~~L~~L~L~~n~l~~~~~------~~~~~l~~L~~L~Ls~n~l-----------------~~~~~~~~~~l~~L  147 (680)
T 1ziw_A           91 KTFAFCTNLTELHLMSNSIQKIKN------NPFVKQKNLITLDLSHNGL-----------------SSTKLGTQVQLENL  147 (680)
T ss_dssp             TTTTTCTTCSEEECCSSCCCCCCS------CTTTTCTTCCEEECCSSCC-----------------SCCCCCSSSCCTTC
T ss_pred             hhhccCCCCCEEECCCCccCccCh------hHccccCCCCEEECCCCcc-----------------cccCchhhcccccC
Confidence            24666777777766542  22221      2456677777777777753                 22233445566677


Q ss_pred             cEEEEeeecCCCCccCchhhh--cCCCccEEEeecC
Q 044247          159 KELHIHEYRGRRNVVPKNWVM--SLTNLRVLHLFEC  192 (333)
Q Consensus       159 ~~L~l~~~~~~~~~~~~~~~~--~~~~L~~L~l~~~  192 (333)
                      +.|++++|....  +.+..+.  .+++|+.|++++|
T Consensus       148 ~~L~L~~n~l~~--~~~~~~~~~~~~~L~~L~L~~n  181 (680)
T 1ziw_A          148 QELLLSNNKIQA--LKSEELDIFANSSLKKLELSSN  181 (680)
T ss_dssp             CEEECCSSCCCC--BCHHHHGGGTTCEESEEECTTC
T ss_pred             CEEEccCCcccc--cCHHHhhccccccccEEECCCC
Confidence            777776665544  3133332  3466666666666

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

Probab=99.80  E-value=2.9e-20  Score=172.51  Aligned_cols=243  Identities=14%  Similarity=0.053  Sum_probs=173.3

Q ss_pred             cccchhcCCC----cccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCC
Q 044247            3 KLPETLCELY----NLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRAC   78 (333)
Q Consensus         3 ~lp~~l~~l~----~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~   78 (333)
                      .+|..+..+.    +|++|++++|......|..++.+++|++|++++| .+...+. ++.+++|++|++++|....    
T Consensus        21 ~l~~~l~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~-l~~l~~L~~L~Ls~N~l~~----   94 (487)
T 3oja_A           21 SLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSN-VLYETLD-LESLSTLRTLDLNNNYVQE----   94 (487)
T ss_dssp             THHHHHHTTSTTGGGCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTS-CCEEEEE-CTTCTTCCEEECCSSEEEE----
T ss_pred             hhHHHHHHhcccCCCccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCC-CCCCCcc-cccCCCCCEEEecCCcCCC----
Confidence            3555555554    8999999999844455678999999999999999 4554444 8899999999998876543    


Q ss_pred             CccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCc
Q 044247           79 SLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNL  158 (333)
Q Consensus        79 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L  158 (333)
                          +...++|+.|++....- ...      ....+++|++|++++|.+.                 ...+..+..+++|
T Consensus        95 ----l~~~~~L~~L~L~~N~l-~~~------~~~~l~~L~~L~L~~N~l~-----------------~~~~~~~~~l~~L  146 (487)
T 3oja_A           95 ----LLVGPSIETLHAANNNI-SRV------SCSRGQGKKNIYLANNKIT-----------------MLRDLDEGCRSRV  146 (487)
T ss_dssp             ----EEECTTCCEEECCSSCC-CCE------EECCCSSCEEEECCSSCCC-----------------SGGGBCGGGGSSE
T ss_pred             ----CCCCCCcCEEECcCCcC-CCC------CccccCCCCEEECCCCCCC-----------------CCCchhhcCCCCC
Confidence                22336778877765322 221      1224578999999988632                 2334456677899


Q ss_pred             cEEEEeeecCCCCccCchhhh-cCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCcc
Q 044247          159 KELHIHEYRGRRNVVPKNWVM-SLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSV  237 (333)
Q Consensus       159 ~~L~l~~~~~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~  237 (333)
                      +.|++++|....  ..+..+. .+++|+.|++++| .+..++....+++|+.|++++|. +..++..            +
T Consensus       147 ~~L~Ls~N~l~~--~~~~~l~~~l~~L~~L~Ls~N-~l~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~------------~  210 (487)
T 3oja_A          147 QYLDLKLNEIDT--VNFAELAASSDTLEHLNLQYN-FIYDVKGQVVFAKLKTLDLSSNK-LAFMGPE------------F  210 (487)
T ss_dssp             EEEECTTSCCCE--EEGGGGGGGTTTCCEEECTTS-CCCEEECCCCCTTCCEEECCSSC-CCEECGG------------G
T ss_pred             CEEECCCCCCCC--cChHHHhhhCCcccEEecCCC-ccccccccccCCCCCEEECCCCC-CCCCCHh------------H
Confidence            999999887765  3255554 6899999999998 45556666678899999999987 6666554            4


Q ss_pred             ccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCc-ccCCcccCCCCCcceEEE
Q 044247          238 IAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCREL-KALPDHLLQKSTLQNLEI  302 (333)
Q Consensus       238 ~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l-~~l~~~~~~l~~L~~L~l  302 (333)
                      ..+++|+.|+++++ .+..      +|..+..+++|+.|++++|+.. ..+|..+..++.|+.+++
T Consensus       211 ~~l~~L~~L~Ls~N-~l~~------lp~~l~~l~~L~~L~l~~N~l~c~~~~~~~~~l~~L~~l~~  269 (487)
T 3oja_A          211 QSAAGVTWISLRNN-KLVL------IEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAK  269 (487)
T ss_dssp             GGGTTCSEEECTTS-CCCE------ECTTCCCCTTCCEEECTTCCBCHHHHHHHHTTCHHHHHHHH
T ss_pred             cCCCCccEEEecCC-cCcc------cchhhccCCCCCEEEcCCCCCcCcchHHHHHhCCCCcEEec
Confidence            57889999999985 4443      4455667889999999887654 355555666777777766

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=99.80  E-value=3.6e-19  Score=155.39  Aligned_cols=234  Identities=17%  Similarity=0.178  Sum_probs=174.7

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccCcc-ccccccccEEecCCCCCcccc---cccccccccCceeeeEEEcCccCC
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELPQG-IGKLRKLMYLDNDYTDSLRYL---PVGIGELIRLRRVTKFVVCGGYDR   76 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~-i~~l~~L~~L~l~~~~~~~~~---p~~i~~l~~L~~L~l~~~~~~~~~   76 (333)
                      ++.+|..+.  ++|++|++++|. +..+|.. +..+++|++|++++| .+..+   +..+..+++|++|++++|....  
T Consensus        19 l~~ip~~~~--~~l~~L~L~~n~-l~~i~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~--   92 (306)
T 2z66_A           19 LTSVPTGIP--SSATRLELESNK-LQSLPHGVFDKLTQLTKLSLSSN-GLSFKGCCSQSDFGTTSLKYLDLSFNGVIT--   92 (306)
T ss_dssp             CSSCCSCCC--TTCCEEECCSSC-CCCCCTTTTTTCTTCSEEECCSS-CCCEEEEEEHHHHSCSCCCEEECCSCSEEE--
T ss_pred             cccCCCCCC--CCCCEEECCCCc-cCccCHhHhhccccCCEEECCCC-ccCcccCcccccccccccCEEECCCCcccc--
Confidence            356777554  689999999998 7677765 689999999999998 44443   4556788999999999887654  


Q ss_pred             CCCccccccCccCceeEecCCC--CCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCC
Q 044247           77 ACSLGSLKKLNLLRQCSIDGLG--GVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGP  154 (333)
Q Consensus        77 ~~~~~~l~~l~~L~~L~l~~~~--~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  154 (333)
                        .+..+..+++|+.|++....  .++.     ...+..+++|++|++++|.                 .....+..+..
T Consensus        93 --l~~~~~~l~~L~~L~l~~n~l~~~~~-----~~~~~~l~~L~~L~l~~n~-----------------l~~~~~~~~~~  148 (306)
T 2z66_A           93 --MSSNFLGLEQLEHLDFQHSNLKQMSE-----FSVFLSLRNLIYLDISHTH-----------------TRVAFNGIFNG  148 (306)
T ss_dssp             --EEEEEETCTTCCEEECTTSEEESSTT-----TTTTTTCTTCCEEECTTSC-----------------CEECSTTTTTT
T ss_pred             --ChhhcCCCCCCCEEECCCCccccccc-----chhhhhccCCCEEECCCCc-----------------CCccchhhccc
Confidence              55668889999998886532  2211     1256778999999999985                 33344566788


Q ss_pred             CCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCCC
Q 044247          155 PPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTD  233 (333)
Q Consensus       155 ~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~  233 (333)
                      +++|+.|++++|......+ +..+..+++|+.|++++|...+..+. ++.+++|+.|++++|. ++.++...        
T Consensus       149 l~~L~~L~l~~n~l~~~~~-~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~--------  218 (306)
T 2z66_A          149 LSSLEVLKMAGNSFQENFL-PDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNN-FFSLDTFP--------  218 (306)
T ss_dssp             CTTCCEEECTTCEEGGGEE-CSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSC-CSBCCSGG--------
T ss_pred             CcCCCEEECCCCccccccc-hhHHhhCcCCCEEECCCCCcCCcCHHHhcCCCCCCEEECCCCc-cCccChhh--------
Confidence            8999999999887653124 67788899999999999944333333 7889999999999998 55554322        


Q ss_pred             CCccccCCCccEEeeccCccccccccCCccccccccCC-CcceEecccCcC
Q 044247          234 GSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMP-RLSSLSIQSCRE  283 (333)
Q Consensus       234 ~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~-~L~~L~l~~c~~  283 (333)
                         +..+++|+.|+++++. +.     +..+..+..++ +|++|++++++.
T Consensus       219 ---~~~l~~L~~L~L~~N~-l~-----~~~~~~~~~~~~~L~~L~L~~N~~  260 (306)
T 2z66_A          219 ---YKCLNSLQVLDYSLNH-IM-----TSKKQELQHFPSSLAFLNLTQNDF  260 (306)
T ss_dssp             ---GTTCTTCCEEECTTSC-CC-----BCSSSSCCCCCTTCCEEECTTCCE
T ss_pred             ---ccCcccCCEeECCCCC-Cc-----ccCHHHHHhhhccCCEEEccCCCe
Confidence               5678999999999974 32     33334455675 999999998653

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.79  E-value=1.8e-18  Score=163.57  Aligned_cols=116  Identities=17%  Similarity=0.021  Sum_probs=87.5

Q ss_pred             CCcccchhcCCCcccEEeecCCCccccc-CccccccccccEEecCCCCCcccc-cccccccccCceeeeEEEcCccCCCC
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLREL-PQGIGKLRKLMYLDNDYTDSLRYL-PVGIGELIRLRRVTKFVVCGGYDRAC   78 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~l-p~~i~~l~~L~~L~l~~~~~~~~~-p~~i~~l~~L~~L~l~~~~~~~~~~~   78 (333)
                      ++.+|..+.  ++|++|++++|. +..+ |..+..+++|++|++++| .+..+ |..++.+++|++|++++|....    
T Consensus        43 L~~ip~~~~--~~L~~L~Ls~N~-i~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~N~l~~----  114 (562)
T 3a79_B           43 LTHVPKDLP--PRTKALSLSQNS-ISELRMPDISFLSELRVLRLSHN-RIRSLDFHVFLFNQDLEYLDVSHNRLQN----  114 (562)
T ss_dssp             CCSCCTTSC--TTCCEEECCSSC-CCCCCGGGTTTCTTCCEEECCSC-CCCEECTTTTTTCTTCCEEECTTSCCCE----
T ss_pred             CccCCCCCC--CCcCEEECCCCC-ccccChhhhccCCCccEEECCCC-CCCcCCHHHhCCCCCCCEEECCCCcCCc----
Confidence            456787665  899999999999 5554 468999999999999999 55555 6678999999999999988764    


Q ss_pred             CccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCC
Q 044247           79 SLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRD  129 (333)
Q Consensus        79 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~  129 (333)
                      .+..  .+++|+.|++....- ...  .....+..+++|++|++++|.+..
T Consensus       115 lp~~--~l~~L~~L~Ls~N~l-~~l--~~p~~~~~l~~L~~L~L~~n~l~~  160 (562)
T 3a79_B          115 ISCC--PMASLRHLDLSFNDF-DVL--PVCKEFGNLTKLTFLGLSAAKFRQ  160 (562)
T ss_dssp             ECSC--CCTTCSEEECCSSCC-SBC--CCCGGGGGCTTCCEEEEECSBCCT
T ss_pred             cCcc--ccccCCEEECCCCCc-ccc--CchHhhcccCcccEEecCCCcccc
Confidence            3333  788899988865332 110  011357788999999999987654

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=99.79  E-value=2.2e-18  Score=148.89  Aligned_cols=178  Identities=20%  Similarity=0.173  Sum_probs=86.0

Q ss_pred             CcccEEeecCCCcccccC-ccccccccccEEecCCCCCcccc-cccccccccCceeeeEEEcCccCCCCCccccccCccC
Q 044247           12 YNLERVNVSGCSHLRELP-QGIGKLRKLMYLDNDYTDSLRYL-PVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLL   89 (333)
Q Consensus        12 ~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~l~~~~~~~~~-p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L   89 (333)
                      ++|++|++++|. +..++ ..+..+++|++|++++| .+..+ |..++.+++|++|++++|....  ...+..+..+++|
T Consensus        32 ~~l~~L~l~~n~-i~~~~~~~~~~~~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~~l~--~~~~~~~~~l~~L  107 (285)
T 1ozn_A           32 AASQRIFLHGNR-ISHVPAASFRACRNLTILWLHSN-VLARIDAAAFTGLALLEQLDLSDNAQLR--SVDPATFHGLGRL  107 (285)
T ss_dssp             TTCSEEECTTSC-CCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSCTTCC--CCCTTTTTTCTTC
T ss_pred             CCceEEEeeCCc-CCccCHHHcccCCCCCEEECCCC-ccceeCHhhcCCccCCCEEeCCCCCCcc--ccCHHHhcCCcCC
Confidence            466666666666 33333 34566666666666666 33333 4456666666666666654221  2223344555555


Q ss_pred             ceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCC
Q 044247           90 RQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGR  169 (333)
Q Consensus        90 ~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~  169 (333)
                      +.|++....- ...   ....+..+++|++|++++|.+.                 ......+..+++|+.|++++|...
T Consensus       108 ~~L~l~~n~l-~~~---~~~~~~~l~~L~~L~l~~n~l~-----------------~~~~~~~~~l~~L~~L~l~~n~l~  166 (285)
T 1ozn_A          108 HTLHLDRCGL-QEL---GPGLFRGLAALQYLYLQDNALQ-----------------ALPDDTFRDLGNLTHLFLHGNRIS  166 (285)
T ss_dssp             CEEECTTSCC-CCC---CTTTTTTCTTCCEEECCSSCCC-----------------CCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             CEEECCCCcC-CEE---CHhHhhCCcCCCEEECCCCccc-----------------ccCHhHhccCCCccEEECCCCccc
Confidence            5555543211 000   0123444555555555555321                 111223445555555555555544


Q ss_pred             CCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceeccccc
Q 044247          170 RNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMK  216 (333)
Q Consensus       170 ~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~  216 (333)
                      .  +++..+..+++|+.|++++|...+..+. ++.+++|+.|++++|.
T Consensus       167 ~--~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~  212 (285)
T 1ozn_A          167 S--VPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANN  212 (285)
T ss_dssp             E--ECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSC
T ss_pred             c--cCHHHhcCccccCEEECCCCcccccCHhHccCcccccEeeCCCCc
Confidence            4  3122344555555555555532222222 4455555555555554

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=99.78  E-value=1.7e-18  Score=154.17  Aligned_cols=235  Identities=14%  Similarity=0.078  Sum_probs=171.6

Q ss_pred             Ccccc-hhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCccccccc-ccccccCceeeeEEEcCccCCCCC
Q 044247            2 EKLPE-TLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVG-IGELIRLRRVTKFVVCGGYDRACS   79 (333)
Q Consensus         2 ~~lp~-~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~-i~~l~~L~~L~l~~~~~~~~~~~~   79 (333)
                      +.+|. .+.++++|++|++++|...+..|..++++++|++|++++| .+..+|.. ++.+++|++|++++|....    .
T Consensus        65 ~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~~----l  139 (353)
T 2z80_A           65 TYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYN-YLSNLSSSWFKPLSSLTFLNLLGNPYKT----L  139 (353)
T ss_dssp             CEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCSSCCHHHHTTCTTCSEEECTTCCCSS----S
T ss_pred             cccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCC-cCCcCCHhHhCCCccCCEEECCCCCCcc----c
Confidence            45665 7899999999999999844445667999999999999999 56677665 7899999999999987763    2


Q ss_pred             c--cccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCC
Q 044247           80 L--GSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPN  157 (333)
Q Consensus        80 ~--~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  157 (333)
                      +  ..+..+++|+.|++.....+...   ....+..+++|++|++++|.                 .....+..+..+++
T Consensus       140 ~~~~~~~~l~~L~~L~l~~n~~~~~~---~~~~~~~l~~L~~L~l~~n~-----------------l~~~~~~~l~~l~~  199 (353)
T 2z80_A          140 GETSLFSHLTKLQILRVGNMDTFTKI---QRKDFAGLTFLEELEIDASD-----------------LQSYEPKSLKSIQN  199 (353)
T ss_dssp             CSSCSCTTCTTCCEEEEEESSSCCEE---CTTTTTTCCEEEEEEEEETT-----------------CCEECTTTTTTCSE
T ss_pred             CchhhhccCCCCcEEECCCCcccccc---CHHHccCCCCCCEEECCCCC-----------------cCccCHHHHhcccc
Confidence            2  35778899999888764322211   11357788999999999995                 33344677888999


Q ss_pred             ccEEEEeeecCCCCccCchh-hhcCCCccEEEeecCCCCCCCCC-----CCCCccccceecccccc----cccccccccC
Q 044247          158 LKELHIHEYRGRRNVVPKNW-VMSLTNLRVLHLFECRNCEHLPP-----LGKLTSLEDLYIAGMKS----VKRVGNEFLG  227 (333)
Q Consensus       158 L~~L~l~~~~~~~~~~~~~~-~~~~~~L~~L~l~~~~~~~~l~~-----~~~l~~L~~L~l~~~~~----l~~i~~~~~~  227 (333)
                      |+.|++++|....  + +.. +..+++|+.|++++|. +..++.     ....+.++.++++++.-    +..++..   
T Consensus       200 L~~L~l~~n~l~~--~-~~~~~~~~~~L~~L~L~~n~-l~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~~l~~~---  272 (353)
T 2z80_A          200 VSHLILHMKQHIL--L-LEIFVDVTSSVECLELRDTD-LDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKL---  272 (353)
T ss_dssp             EEEEEEECSCSTT--H-HHHHHHHTTTEEEEEEESCB-CTTCCCC------CCCCCCEEEEESCBCCHHHHHHHHHH---
T ss_pred             CCeecCCCCcccc--c-hhhhhhhcccccEEECCCCc-cccccccccccccccchhhccccccccccCcchhhhHHH---
Confidence            9999999998766  6 544 4469999999999994 333321     33455677777776651    1223322   


Q ss_pred             CCCCCCCCccccCCCccEEeeccCccccccccCCccccc-cccCCCcceEecccCcCc
Q 044247          228 VESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGE-IIIMPRLSSLSIQSCREL  284 (333)
Q Consensus       228 ~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~-~~~~~~L~~L~l~~c~~l  284 (333)
                               +..+++|++|+++++ +++.++      .. +..+++|++|++++|+..
T Consensus       273 ---------l~~l~~L~~L~Ls~N-~l~~i~------~~~~~~l~~L~~L~L~~N~~~  314 (353)
T 2z80_A          273 ---------LNQISGLLELEFSRN-QLKSVP------DGIFDRLTSLQKIWLHTNPWD  314 (353)
T ss_dssp             ---------HHTCTTCCEEECCSS-CCCCCC------TTTTTTCTTCCEEECCSSCBC
T ss_pred             ---------HhcccCCCEEECCCC-CCCccC------HHHHhcCCCCCEEEeeCCCcc
Confidence                     568899999999996 454333      33 357899999999997543

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

Probab=99.77  E-value=3.1e-18  Score=157.08  Aligned_cols=229  Identities=14%  Similarity=0.140  Sum_probs=144.7

Q ss_pred             CcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCccccc-ccccccccCceeeeEEEcCccCCCCCc
Q 044247            2 EKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLP-VGIGELIRLRRVTKFVVCGGYDRACSL   80 (333)
Q Consensus         2 ~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p-~~i~~l~~L~~L~l~~~~~~~~~~~~~   80 (333)
                      +.+|..+.  +++++|++++|......+..+.++++|++|++++| .+..++ ..+..+++|++|++++|....   ...
T Consensus        56 ~~iP~~~~--~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n-~i~~i~~~~~~~l~~L~~L~L~~n~l~~---~~~  129 (440)
T 3zyj_A           56 REVPDGIS--TNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRN-HIRTIEIGAFNGLANLNTLELFDNRLTT---IPN  129 (440)
T ss_dssp             SSCCSCCC--TTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSS-CCCEECGGGGTTCSSCCEEECCSSCCSS---CCT
T ss_pred             CcCCCCCC--CCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCC-cCCccChhhccCCccCCEEECCCCcCCe---eCH
Confidence            45676554  57788888888733344466778888888888887 444443 457778888888888776652   223


Q ss_pred             cccccCccCceeEecCC--CCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccc-cccCCCCCC
Q 044247           81 GSLKKLNLLRQCSIDGL--GGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERL-LDALGPPPN  157 (333)
Q Consensus        81 ~~l~~l~~L~~L~l~~~--~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~  157 (333)
                      ..+..+++|+.|++...  ..++.      ..+..+++|++|++++++                 ....+ ...+..+++
T Consensus       130 ~~~~~l~~L~~L~L~~N~i~~~~~------~~~~~l~~L~~L~l~~~~-----------------~l~~i~~~~~~~l~~  186 (440)
T 3zyj_A          130 GAFVYLSKLKELWLRNNPIESIPS------YAFNRIPSLRRLDLGELK-----------------RLSYISEGAFEGLSN  186 (440)
T ss_dssp             TTSCSCSSCCEEECCSCCCCEECT------TTTTTCTTCCEEECCCCT-----------------TCCEECTTTTTTCSS
T ss_pred             hHhhccccCceeeCCCCcccccCH------HHhhhCcccCEeCCCCCC-----------------CcceeCcchhhcccc
Confidence            34666777777776542  22221      345667788888887753                 22222 235666777


Q ss_pred             ccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCC-CC-CCCCccccceecccccccccccccccCCCCCCCCC
Q 044247          158 LKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHL-PP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGS  235 (333)
Q Consensus       158 L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l-~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~  235 (333)
                      |+.|++++|....  + | .+..+++|+.|++++|. +..+ +. +..+++|+.|++++|. ++.++...          
T Consensus       187 L~~L~L~~n~l~~--~-~-~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~----------  250 (440)
T 3zyj_A          187 LRYLNLAMCNLRE--I-P-NLTPLIKLDELDLSGNH-LSAIRPGSFQGLMHLQKLWMIQSQ-IQVIERNA----------  250 (440)
T ss_dssp             CCEEECTTSCCSS--C-C-CCTTCSSCCEEECTTSC-CCEECTTTTTTCTTCCEEECTTCC-CCEECTTS----------
T ss_pred             cCeecCCCCcCcc--c-c-ccCCCcccCEEECCCCc-cCccChhhhccCccCCEEECCCCc-eeEEChhh----------
Confidence            8888887777666  5 4 35567778888887773 3333 22 6677777888877776 55443322          


Q ss_pred             ccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCc
Q 044247          236 SVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCR  282 (333)
Q Consensus       236 ~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~  282 (333)
                       +..+++|++|+++++ +++.++...     +..+++|+.|++++++
T Consensus       251 -~~~l~~L~~L~L~~N-~l~~~~~~~-----~~~l~~L~~L~L~~Np  290 (440)
T 3zyj_A          251 -FDNLQSLVEINLAHN-NLTLLPHDL-----FTPLHHLERIHLHHNP  290 (440)
T ss_dssp             -STTCTTCCEEECTTS-CCCCCCTTT-----TSSCTTCCEEECCSSC
T ss_pred             -hcCCCCCCEEECCCC-CCCccChhH-----hccccCCCEEEcCCCC
Confidence             456777777777774 565555322     1246777777777644

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=99.77  E-value=3.7e-18  Score=157.09  Aligned_cols=230  Identities=17%  Similarity=0.144  Sum_probs=125.9

Q ss_pred             CcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccc-cccccccccCceeeeEEEcCccCCCCCc
Q 044247            2 EKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYL-PVGIGELIRLRRVTKFVVCGGYDRACSL   80 (333)
Q Consensus         2 ~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~-p~~i~~l~~L~~L~l~~~~~~~~~~~~~   80 (333)
                      +.+|..+.  +++++|++++|......|..+.++++|++|++++| .+..+ +..+..+++|++|++++|....   ...
T Consensus        67 ~~iP~~~~--~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n-~i~~~~~~~~~~l~~L~~L~L~~n~l~~---~~~  140 (452)
T 3zyi_A           67 SEVPQGIP--SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRN-SIRQIEVGAFNGLASLNTLELFDNWLTV---IPS  140 (452)
T ss_dssp             SSCCSCCC--TTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSCCSB---CCT
T ss_pred             CccCCCCC--CCccEEECcCCcCceECHHHcCCCCCCCEEECCCC-ccCCcChhhccCcccCCEEECCCCcCCc---cCh
Confidence            44555443  56777777777633344556777777777777777 33443 3456677777777777766542   222


Q ss_pred             cccccCccCceeEecCC--CCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCccccccccc-ccCCCCCC
Q 044247           81 GSLKKLNLLRQCSIDGL--GGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLL-DALGPPPN  157 (333)
Q Consensus        81 ~~l~~l~~L~~L~l~~~--~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~~  157 (333)
                      ..+..+++|+.|++...  ..++.      ..+..+++|++|++++++                 ....+. ..+..+++
T Consensus       141 ~~~~~l~~L~~L~L~~N~l~~~~~------~~~~~l~~L~~L~l~~~~-----------------~l~~i~~~~~~~l~~  197 (452)
T 3zyi_A          141 GAFEYLSKLRELWLRNNPIESIPS------YAFNRVPSLMRLDLGELK-----------------KLEYISEGAFEGLFN  197 (452)
T ss_dssp             TTSSSCTTCCEEECCSCCCCEECT------TTTTTCTTCCEEECCCCT-----------------TCCEECTTTTTTCTT
T ss_pred             hhhcccCCCCEEECCCCCcceeCH------hHHhcCCcccEEeCCCCC-----------------CccccChhhccCCCC
Confidence            33556666666666432  11211      245556677777776642                 122222 24555666


Q ss_pred             ccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCCCCCc
Q 044247          158 LKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSS  236 (333)
Q Consensus       158 L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~  236 (333)
                      |+.|++++|....  + + .+..+++|+.|++++|...+..+. +..+++|+.|++++|. +..++...           
T Consensus       198 L~~L~L~~n~l~~--~-~-~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~-----------  261 (452)
T 3zyi_A          198 LKYLNLGMCNIKD--M-P-NLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQ-VSLIERNA-----------  261 (452)
T ss_dssp             CCEEECTTSCCSS--C-C-CCTTCTTCCEEECTTSCCSEECGGGGTTCTTCCEEECTTSC-CCEECTTT-----------
T ss_pred             CCEEECCCCcccc--c-c-cccccccccEEECcCCcCcccCcccccCccCCCEEEeCCCc-CceECHHH-----------
Confidence            6666666666555  4 3 244566666666666632222222 5566666666666665 43333221           


Q ss_pred             cccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCc
Q 044247          237 VIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCR  282 (333)
Q Consensus       237 ~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~  282 (333)
                      +..+++|+.|+++++ ++..++...     +..+++|+.|++++++
T Consensus       262 ~~~l~~L~~L~L~~N-~l~~~~~~~-----~~~l~~L~~L~L~~Np  301 (452)
T 3zyi_A          262 FDGLASLVELNLAHN-NLSSLPHDL-----FTPLRYLVELHLHHNP  301 (452)
T ss_dssp             TTTCTTCCEEECCSS-CCSCCCTTS-----STTCTTCCEEECCSSC
T ss_pred             hcCCCCCCEEECCCC-cCCccChHH-----hccccCCCEEEccCCC
Confidence            345566666666664 454444221     1145666666666543

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=99.76  E-value=1.3e-17  Score=143.97  Aligned_cols=172  Identities=17%  Similarity=0.147  Sum_probs=97.6

Q ss_pred             cEEeecCCCcccccCccccccccccEEecCCCCCccccc-ccccccccCceeeeEEEcCccCCCCCccccccCccCceeE
Q 044247           15 ERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLP-VGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCS   93 (333)
Q Consensus        15 ~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p-~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~   93 (333)
                      ++++.+++. +..+|..+  .++|++|++++| .+..++ ..++.+++|++|++.+|....   ..+..+..+++|+.|+
T Consensus        14 ~~~~c~~~~-l~~ip~~~--~~~l~~L~l~~n-~i~~~~~~~~~~~~~L~~L~l~~n~l~~---~~~~~~~~l~~L~~L~   86 (285)
T 1ozn_A           14 VTTSCPQQG-LQAVPVGI--PAASQRIFLHGN-RISHVPAASFRACRNLTILWLHSNVLAR---IDAAAFTGLALLEQLD   86 (285)
T ss_dssp             CEEECCSSC-CSSCCTTC--CTTCSEEECTTS-CCCEECTTTTTTCTTCCEEECCSSCCCE---ECTTTTTTCTTCCEEE
T ss_pred             eEEEcCcCC-cccCCcCC--CCCceEEEeeCC-cCCccCHHHcccCCCCCEEECCCCccce---eCHhhcCCccCCCEEe
Confidence            567777776 77788644  578999999998 555555 458889999999998776542   2244455566666666


Q ss_pred             ecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCcc
Q 044247           94 IDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVV  173 (333)
Q Consensus        94 l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~  173 (333)
                      +.....+...   ....+..+++|++|++++|.+                 ....+..+..+++|+.|++++|....  +
T Consensus        87 l~~n~~l~~~---~~~~~~~l~~L~~L~l~~n~l-----------------~~~~~~~~~~l~~L~~L~l~~n~l~~--~  144 (285)
T 1ozn_A           87 LSDNAQLRSV---DPATFHGLGRLHTLHLDRCGL-----------------QELGPGLFRGLAALQYLYLQDNALQA--L  144 (285)
T ss_dssp             CCSCTTCCCC---CTTTTTTCTTCCEEECTTSCC-----------------CCCCTTTTTTCTTCCEEECCSSCCCC--C
T ss_pred             CCCCCCcccc---CHHHhcCCcCCCEEECCCCcC-----------------CEECHhHhhCCcCCCEEECCCCcccc--c
Confidence            6543211111   012344555666666665532                 11223344455556666665555444  3


Q ss_pred             CchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceeccccc
Q 044247          174 PKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMK  216 (333)
Q Consensus       174 ~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~  216 (333)
                      ++..+..+++|+.|++++| .++.++.  ++.+++|++|++++|.
T Consensus       145 ~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~  188 (285)
T 1ozn_A          145 PDDTFRDLGNLTHLFLHGN-RISSVPERAFRGLHSLDRLLLHQNR  188 (285)
T ss_dssp             CTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSC
T ss_pred             CHhHhccCCCccEEECCCC-cccccCHHHhcCccccCEEECCCCc
Confidence            1233445555666666555 2333332  4455555555555554

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=99.76  E-value=1.9e-18  Score=158.81  Aligned_cols=243  Identities=18%  Similarity=0.179  Sum_probs=127.7

Q ss_pred             CcccchhcCCCcccEEeecCCCcccccCccccccccc-------------cEEecCCCCCcccccccccccccCceeeeE
Q 044247            2 EKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKL-------------MYLDNDYTDSLRYLPVGIGELIRLRRVTKF   68 (333)
Q Consensus         2 ~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L-------------~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~   68 (333)
                      ..+|.+++++++|++|++++|...+.+|..++.+++|             ++|++++| .+..+|..   .++|++|+++
T Consensus        24 ~~iP~~i~~L~~L~~L~l~~n~~~~~~p~~~~~l~~L~~l~l~~c~~~~l~~L~l~~~-~l~~lp~~---~~~L~~L~l~   99 (454)
T 1jl5_A           24 TEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHELELNNL-GLSSLPEL---PPHLESLVAS   99 (454)
T ss_dssp             ----------CCHHHHHHHHHHHHHTSCTTSCCCHHHHHHHHHHHHHHTCSEEECTTS-CCSCCCSC---CTTCSEEECC
T ss_pred             hhCChhHhcccchhhhhccCCcccccCCcccccchhcchhhhhhhhccCCCEEEecCC-ccccCCCC---cCCCCEEEcc
Confidence            4577778888888888888777556777777777664             77777777 45555542   3567777777


Q ss_pred             EEcCccCCCCCccccccCccCceeEecCCCCCCChhhHHHHhhccc-CCccceEEeecCCCCCchhhhcccCCccccccc
Q 044247           69 VVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKK-KNLFDLELDFDNLRDGDEEQAGRRENEEDEDER  147 (333)
Q Consensus        69 ~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~-~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~  147 (333)
                      +|....    .+..   +++|+.|++.... +..        +... ++|++|++++|.+                  ..
T Consensus       100 ~n~l~~----lp~~---~~~L~~L~l~~n~-l~~--------l~~~~~~L~~L~L~~n~l------------------~~  145 (454)
T 1jl5_A          100 CNSLTE----LPEL---PQSLKSLLVDNNN-LKA--------LSDLPPLLEYLGVSNNQL------------------EK  145 (454)
T ss_dssp             SSCCSS----CCCC---CTTCCEEECCSSC-CSC--------CCSCCTTCCEEECCSSCC------------------SS
T ss_pred             CCcCCc----cccc---cCCCcEEECCCCc-cCc--------ccCCCCCCCEEECcCCCC------------------CC
Confidence            666543    2221   2456665554321 111        1111 4677777777742                  22


Q ss_pred             ccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceeccccccccccccccc-
Q 044247          148 LLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFL-  226 (333)
Q Consensus       148 ~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~-  226 (333)
                      ++ .+..+++|++|++++|....  + |..   +++|++|++++| .++.+|.++.+++|++|++++|. ++.++.... 
T Consensus       146 lp-~~~~l~~L~~L~l~~N~l~~--l-p~~---~~~L~~L~L~~n-~l~~l~~~~~l~~L~~L~l~~N~-l~~l~~~~~~  216 (454)
T 1jl5_A          146 LP-ELQNSSFLKIIDVDNNSLKK--L-PDL---PPSLEFIAAGNN-QLEELPELQNLPFLTAIYADNNS-LKKLPDLPLS  216 (454)
T ss_dssp             CC-CCTTCTTCCEEECCSSCCSC--C-CCC---CTTCCEEECCSS-CCSSCCCCTTCTTCCEEECCSSC-CSSCCCCCTT
T ss_pred             Cc-ccCCCCCCCEEECCCCcCcc--c-CCC---cccccEEECcCC-cCCcCccccCCCCCCEEECCCCc-CCcCCCCcCc
Confidence            33 46677777777777776655  5 432   357777777777 44446666777777777777765 333322100 


Q ss_pred             ------CCCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceE
Q 044247          227 ------GVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNL  300 (333)
Q Consensus       227 ------~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L  300 (333)
                            .....+..+.+..+++|++|+++++ .++.++      .   .+++|++|++++| .++.+|..   +++|+.|
T Consensus       217 L~~L~l~~n~l~~lp~~~~l~~L~~L~l~~N-~l~~l~------~---~~~~L~~L~l~~N-~l~~l~~~---~~~L~~L  282 (454)
T 1jl5_A          217 LESIVAGNNILEELPELQNLPFLTTIYADNN-LLKTLP------D---LPPSLEALNVRDN-YLTDLPEL---PQSLTFL  282 (454)
T ss_dssp             CCEEECCSSCCSSCCCCTTCTTCCEEECCSS-CCSSCC------S---CCTTCCEEECCSS-CCSCCCCC---CTTCCEE
T ss_pred             ccEEECcCCcCCcccccCCCCCCCEEECCCC-cCCccc------c---cccccCEEECCCC-cccccCcc---cCcCCEE
Confidence                  0000000111345555666665553 222221      1   2356666666654 34444432   3566666


Q ss_pred             EEcccC
Q 044247          301 EIWGAC  306 (333)
Q Consensus       301 ~l~~~c  306 (333)
                      ++ ++|
T Consensus       283 ~l-s~N  287 (454)
T 1jl5_A          283 DV-SEN  287 (454)
T ss_dssp             EC-CSS
T ss_pred             EC-cCC
Confidence            66 554

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.75  E-value=2.6e-17  Score=156.20  Aligned_cols=239  Identities=19%  Similarity=0.175  Sum_probs=146.1

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCc
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSL   80 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~   80 (333)
                      ++.+|..+.  ++|++|++++|. +..+|.   .+++|++|++++| .+..+|.   .+++|++|++++|....    .+
T Consensus        52 L~~lp~~l~--~~L~~L~L~~N~-l~~lp~---~l~~L~~L~Ls~N-~l~~lp~---~l~~L~~L~Ls~N~l~~----l~  117 (622)
T 3g06_A           52 LTTLPDCLP--AHITTLVIPDNN-LTSLPA---LPPELRTLEVSGN-QLTSLPV---LPPGLLELSIFSNPLTH----LP  117 (622)
T ss_dssp             CSCCCSCCC--TTCSEEEECSCC-CSCCCC---CCTTCCEEEECSC-CCSCCCC---CCTTCCEEEECSCCCCC----CC
T ss_pred             cCccChhhC--CCCcEEEecCCC-CCCCCC---cCCCCCEEEcCCC-cCCcCCC---CCCCCCEEECcCCcCCC----CC
Confidence            356677665  788888888887 667776   5678888888888 5666665   56788888888776653    22


Q ss_pred             cccccCccCceeEecCC--CCCCChhhHHHHhhcccCCccceEEeecCCCCCchh-hhc--c-cCCcccccccccccCCC
Q 044247           81 GSLKKLNLLRQCSIDGL--GGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEE-QAG--R-RENEEDEDERLLDALGP  154 (333)
Q Consensus        81 ~~l~~l~~L~~L~l~~~--~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~-~~~--~-~~~~~~~~~~~~~~l~~  154 (333)
                      .   .+++|+.|++...  ..++.          .+++|++|++++|.+...... ...  + ..++  ....++   ..
T Consensus       118 ~---~l~~L~~L~L~~N~l~~lp~----------~l~~L~~L~Ls~N~l~~l~~~~~~L~~L~L~~N--~l~~l~---~~  179 (622)
T 3g06_A          118 A---LPSGLCKLWIFGNQLTSLPV----------LPPGLQELSVSDNQLASLPALPSELCKLWAYNN--QLTSLP---ML  179 (622)
T ss_dssp             C---CCTTCCEEECCSSCCSCCCC----------CCTTCCEEECCSSCCSCCCCCCTTCCEEECCSS--CCSCCC---CC
T ss_pred             C---CCCCcCEEECCCCCCCcCCC----------CCCCCCEEECcCCcCCCcCCccCCCCEEECCCC--CCCCCc---cc
Confidence            2   3455666655432  22221          236777888877754321000 000  0 0000  001111   22


Q ss_pred             CCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCC
Q 044247          155 PPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDG  234 (333)
Q Consensus       155 ~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~  234 (333)
                      +++|+.|++++|....  + +.   .+++|+.|++++| .+..+|.  .+++|+.|++++|. ++.++            
T Consensus       180 ~~~L~~L~Ls~N~l~~--l-~~---~~~~L~~L~L~~N-~l~~l~~--~~~~L~~L~Ls~N~-L~~lp------------  237 (622)
T 3g06_A          180 PSGLQELSVSDNQLAS--L-PT---LPSELYKLWAYNN-RLTSLPA--LPSGLKELIVSGNR-LTSLP------------  237 (622)
T ss_dssp             CTTCCEEECCSSCCSC--C-CC---CCTTCCEEECCSS-CCSSCCC--CCTTCCEEECCSSC-CSCCC------------
T ss_pred             CCCCcEEECCCCCCCC--C-CC---ccchhhEEECcCC-cccccCC--CCCCCCEEEccCCc-cCcCC------------
Confidence            3556666666655554  4 33   2456666666665 3344443  24667777777765 44443            


Q ss_pred             CccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccChh
Q 044247          235 SSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHI  308 (333)
Q Consensus       235 ~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~~  308 (333)
                         ..+++|++|+++++ ++..++      .   .+++|+.|++++| .++.+|..+..+++|+.|++ .+|+.
T Consensus       238 ---~~l~~L~~L~Ls~N-~L~~lp------~---~~~~L~~L~Ls~N-~L~~lp~~l~~l~~L~~L~L-~~N~l  296 (622)
T 3g06_A          238 ---VLPSELKELMVSGN-RLTSLP------M---LPSGLLSLSVYRN-QLTRLPESLIHLSSETTVNL-EGNPL  296 (622)
T ss_dssp             ---CCCTTCCEEECCSS-CCSCCC------C---CCTTCCEEECCSS-CCCSCCGGGGGSCTTCEEEC-CSCCC
T ss_pred             ---CCCCcCcEEECCCC-CCCcCC------c---ccccCcEEeCCCC-CCCcCCHHHhhccccCEEEe-cCCCC
Confidence               25678888888885 454433      2   4689999999985 67788988888999999999 88863

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=99.75  E-value=1e-17  Score=146.32  Aligned_cols=191  Identities=16%  Similarity=0.223  Sum_probs=133.4

Q ss_pred             hcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCc
Q 044247            8 LCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLN   87 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~   87 (333)
                      ...+++|++|++.+|. +..+| .+..+++|++|++++| .+..++. +..+++|++|++++|....     ...+..++
T Consensus        37 ~~~l~~L~~L~l~~~~-i~~l~-~~~~l~~L~~L~L~~n-~i~~~~~-~~~l~~L~~L~L~~n~l~~-----~~~~~~l~  107 (308)
T 1h6u_A           37 QADLDGITTLSAFGTG-VTTIE-GVQYLNNLIGLELKDN-QITDLAP-LKNLTKITELELSGNPLKN-----VSAIAGLQ  107 (308)
T ss_dssp             HHHHHTCCEEECTTSC-CCCCT-TGGGCTTCCEEECCSS-CCCCCGG-GTTCCSCCEEECCSCCCSC-----CGGGTTCT
T ss_pred             HHHcCCcCEEEeeCCC-ccCch-hhhccCCCCEEEccCC-cCCCChh-HccCCCCCEEEccCCcCCC-----chhhcCCC
Confidence            4567888899998887 66676 4888889999999888 5666666 8888889999888887653     24577777


Q ss_pred             cCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeec
Q 044247           88 LLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYR  167 (333)
Q Consensus        88 ~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~  167 (333)
                      +|+.|++.... +...     ..+..+++|++|++++|.+.+                  .. .+..+++|+.|++++|.
T Consensus       108 ~L~~L~l~~n~-l~~~-----~~l~~l~~L~~L~l~~n~l~~------------------~~-~l~~l~~L~~L~l~~n~  162 (308)
T 1h6u_A          108 SIKTLDLTSTQ-ITDV-----TPLAGLSNLQVLYLDLNQITN------------------IS-PLAGLTNLQYLSIGNAQ  162 (308)
T ss_dssp             TCCEEECTTSC-CCCC-----GGGTTCTTCCEEECCSSCCCC------------------CG-GGGGCTTCCEEECCSSC
T ss_pred             CCCEEECCCCC-CCCc-----hhhcCCCCCCEEECCCCccCc------------------Cc-cccCCCCccEEEccCCc
Confidence            78887776533 2221     136677788888887775321                  11 15566778888888777


Q ss_pred             CCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEe
Q 044247          168 GRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLR  247 (333)
Q Consensus       168 ~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~  247 (333)
                      ...  + +. +..+++|+.|++++| .+..++.+..+++|++|++++|. +..++.             +..+++|+.|+
T Consensus       163 l~~--~-~~-l~~l~~L~~L~l~~n-~l~~~~~l~~l~~L~~L~L~~N~-l~~~~~-------------l~~l~~L~~L~  223 (308)
T 1h6u_A          163 VSD--L-TP-LANLSKLTTLKADDN-KISDISPLASLPNLIEVHLKNNQ-ISDVSP-------------LANTSNLFIVT  223 (308)
T ss_dssp             CCC--C-GG-GTTCTTCCEEECCSS-CCCCCGGGGGCTTCCEEECTTSC-CCBCGG-------------GTTCTTCCEEE
T ss_pred             CCC--C-hh-hcCCCCCCEEECCCC-ccCcChhhcCCCCCCEEEccCCc-cCcccc-------------ccCCCCCCEEE
Confidence            666  4 43 667788888888877 45556667777788888888776 444431             45777788888


Q ss_pred             eccC
Q 044247          248 FWSM  251 (333)
Q Consensus       248 l~~~  251 (333)
                      ++++
T Consensus       224 l~~N  227 (308)
T 1h6u_A          224 LTNQ  227 (308)
T ss_dssp             EEEE
T ss_pred             ccCC
Confidence            7774

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

Probab=99.75  E-value=1.3e-18  Score=152.62  Aligned_cols=236  Identities=16%  Similarity=0.109  Sum_probs=174.0

Q ss_pred             cccEEeecCCCcccccCccccccccccEEecCCCCCcccc-cccccccccCceeeeEEEcCccCCCCCccccccCccCce
Q 044247           13 NLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYL-PVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQ   91 (333)
Q Consensus        13 ~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~-p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~   91 (333)
                      .++..+++.+.........+..+++|++|++++| .+..+ |..++.+++|++|++++|....    .. .+..+++|+.
T Consensus        11 ~l~i~~ls~~~l~~~~~~~~~~~~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~l~~----~~-~~~~l~~L~~   84 (317)
T 3o53_A           11 RYKIEKVTDSSLKQALASLRQSAWNVKELDLSGN-PLSQISAADLAPFTKLELLNLSSNVLYE----TL-DLESLSTLRT   84 (317)
T ss_dssp             EEEEESCCTTTHHHHHHHHHTTGGGCSEEECTTS-CCCCCCHHHHTTCTTCCEEECTTSCCEE----EE-EETTCTTCCE
T ss_pred             ceeEeeccccchhhhHHHHhccCCCCCEEECcCC-ccCcCCHHHhhCCCcCCEEECCCCcCCc----ch-hhhhcCCCCE
Confidence            4566667766622233344456889999999999 45554 4678999999999999988753    22 3788899999


Q ss_pred             eEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCC
Q 044247           92 CSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRN  171 (333)
Q Consensus        92 L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~  171 (333)
                      |++.... +.        .+...++|++|++++|.+.                  ....  ..+++|+.|++++|.... 
T Consensus        85 L~Ls~n~-l~--------~l~~~~~L~~L~l~~n~l~------------------~~~~--~~~~~L~~L~l~~N~l~~-  134 (317)
T 3o53_A           85 LDLNNNY-VQ--------ELLVGPSIETLHAANNNIS------------------RVSC--SRGQGKKNIYLANNKITM-  134 (317)
T ss_dssp             EECCSSE-EE--------EEEECTTCCEEECCSSCCS------------------EEEE--CCCSSCEEEECCSSCCCS-
T ss_pred             EECcCCc-cc--------cccCCCCcCEEECCCCccC------------------CcCc--cccCCCCEEECCCCCCCC-
Confidence            8887532 11        2334589999999999632                  2211  235789999999998877 


Q ss_pred             ccCchhhhcCCCccEEEeecCCCCCCCC-C-C-CCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEee
Q 044247          172 VVPKNWVMSLTNLRVLHLFECRNCEHLP-P-L-GKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRF  248 (333)
Q Consensus       172 ~~~~~~~~~~~~L~~L~l~~~~~~~~l~-~-~-~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l  248 (333)
                       +.+..+..+++|+.|++++|. +..++ . + +.+++|++|++++|. ++.++.             ...+++|++|++
T Consensus       135 -~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~-------------~~~l~~L~~L~L  198 (317)
T 3o53_A          135 -LRDLDEGCRSRVQYLDLKLNE-IDTVNFAELAASSDTLEHLNLQYNF-IYDVKG-------------QVVFAKLKTLDL  198 (317)
T ss_dssp             -GGGBCTGGGSSEEEEECTTSC-CCEEEGGGGGGGTTTCCEEECTTSC-CCEEEC-------------CCCCTTCCEEEC
T ss_pred             -ccchhhhccCCCCEEECCCCC-CCcccHHHHhhccCcCCEEECCCCc-Cccccc-------------ccccccCCEEEC
Confidence             534467789999999999994 44433 2 3 468999999999998 665533             346899999999


Q ss_pred             ccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccChhh
Q 044247          249 WSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHIL  309 (333)
Q Consensus       249 ~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~~l  309 (333)
                      +++ .+..+      +..+..+++|++|++++| .++.+|..+..+++|+.|++ .+|+..
T Consensus       199 s~N-~l~~l------~~~~~~l~~L~~L~L~~N-~l~~l~~~~~~l~~L~~L~l-~~N~~~  250 (317)
T 3o53_A          199 SSN-KLAFM------GPEFQSAAGVTWISLRNN-KLVLIEKALRFSQNLEHFDL-RGNGFH  250 (317)
T ss_dssp             CSS-CCCEE------CGGGGGGTTCSEEECTTS-CCCEECTTCCCCTTCCEEEC-TTCCCB
T ss_pred             CCC-cCCcc------hhhhcccCcccEEECcCC-cccchhhHhhcCCCCCEEEc-cCCCcc
Confidence            996 44433      344668899999999995 67788888888999999999 887644

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

Probab=99.75  E-value=1.3e-18  Score=152.40  Aligned_cols=244  Identities=14%  Similarity=0.051  Sum_probs=171.5

Q ss_pred             hcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcc--ccccccc-------ccccCceeeeEEEcCccCCCC
Q 044247            8 LCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLR--YLPVGIG-------ELIRLRRVTKFVVCGGYDRAC   78 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~--~~p~~i~-------~l~~L~~L~l~~~~~~~~~~~   78 (333)
                      ++.+++|++|++++|. + .+|..+...  |+.|++++| .+.  .+|..+.       .+++|++|++++|...   +.
T Consensus        39 ~~~~~~L~~l~l~~n~-l-~~p~~~~~~--L~~L~L~~n-~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~n~l~---~~  110 (312)
T 1wwl_A           39 YGGGRSLEYLLKRVDT-E-ADLGQFTDI--IKSLSLKRL-TVRAARIPSRILFGALRVLGISGLQELTLENLEVT---GT  110 (312)
T ss_dssp             EEEEEECTTHHHHCCT-T-CCCHHHHHH--HHHCCCCEE-EEEEEECBHHHHHHHHHHHTTSCCCEEEEEEEBCB---SC
T ss_pred             EccCCCceeEeecccc-c-ccHHHHHHH--Hhhcccccc-cccCCCcCHHHHHHHHHhcCcCCccEEEccCCccc---ch
Confidence            4567788899999988 4 778777655  888999888 333  3454444       6899999999999876   33


Q ss_pred             Ccccc--ccCccCceeEecCCCCCCChhhHHHHhhccc-----CCccceEEeecCCCCCchhhhcccCCccccccccccc
Q 044247           79 SLGSL--KKLNLLRQCSIDGLGGVSDAGEARRAELEKK-----KNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDA  151 (333)
Q Consensus        79 ~~~~l--~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~-----~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (333)
                      .+..+  ..+++|+.|++....- ....    ..+..+     ++|++|++++|.+                 ....+..
T Consensus       111 ~~~~~~~~~l~~L~~L~Ls~N~l-~~~~----~~~~~l~~~~~~~L~~L~L~~N~l-----------------~~~~~~~  168 (312)
T 1wwl_A          111 APPPLLEATGPDLNILNLRNVSW-ATRD----AWLAELQQWLKPGLKVLSIAQAHS-----------------LNFSCEQ  168 (312)
T ss_dssp             CCCCSSSCCSCCCSEEEEESCBC-SSSS----SHHHHHHTTCCTTCCEEEEESCSC-----------------CCCCTTT
T ss_pred             hHHHHHHhcCCCccEEEccCCCC-cchh----HHHHHHHHhhcCCCcEEEeeCCCC-----------------ccchHHH
Confidence            44444  7888899988765321 1111    122333     8999999999963                 2333467


Q ss_pred             CCCCCCccEEEEeeecCCCC-ccCchhh--hcCCCccEEEeecCCCCCCCCC-----CCCCccccceeccccccccccc-
Q 044247          152 LGPPPNLKELHIHEYRGRRN-VVPKNWV--MSLTNLRVLHLFECRNCEHLPP-----LGKLTSLEDLYIAGMKSVKRVG-  222 (333)
Q Consensus       152 l~~~~~L~~L~l~~~~~~~~-~~~~~~~--~~~~~L~~L~l~~~~~~~~l~~-----~~~l~~L~~L~l~~~~~l~~i~-  222 (333)
                      +..+++|+.|++++|..... .+ +..+  ..+++|+.|++++| .++.++.     +..+++|++|++++|. +...+ 
T Consensus       169 ~~~l~~L~~L~Ls~N~l~~~~~~-~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~  245 (312)
T 1wwl_A          169 VRVFPALSTLDLSDNPELGERGL-ISALCPLKFPTLQVLALRNA-GMETPSGVCSALAAARVQLQGLDLSHNS-LRDAAG  245 (312)
T ss_dssp             CCCCSSCCEEECCSCTTCHHHHH-HHHSCTTSCTTCCEEECTTS-CCCCHHHHHHHHHHTTCCCSEEECTTSC-CCSSCC
T ss_pred             hccCCCCCEEECCCCCcCcchHH-HHHHHhccCCCCCEEECCCC-cCcchHHHHHHHHhcCCCCCEEECCCCc-CCcccc
Confidence            88899999999999875430 01 2233  67899999999999 4443332     3467899999999998 44432 


Q ss_pred             ccccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEE
Q 044247          223 NEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEI  302 (333)
Q Consensus       223 ~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l  302 (333)
                      ...           ...+++|++|+++++ .++.      +|..+.  ++|++|+++++ .++.+|. +..+++|+.|++
T Consensus       246 ~~~-----------~~~l~~L~~L~Ls~N-~l~~------ip~~~~--~~L~~L~Ls~N-~l~~~p~-~~~l~~L~~L~L  303 (312)
T 1wwl_A          246 APS-----------CDWPSQLNSLNLSFT-GLKQ------VPKGLP--AKLSVLDLSYN-RLDRNPS-PDELPQVGNLSL  303 (312)
T ss_dssp             CSC-----------CCCCTTCCEEECTTS-CCSS------CCSSCC--SEEEEEECCSS-CCCSCCC-TTTSCEEEEEEC
T ss_pred             hhh-----------hhhcCCCCEEECCCC-ccCh------hhhhcc--CCceEEECCCC-CCCCChh-HhhCCCCCEEec
Confidence            111           346789999999996 4443      333333  89999999984 6777777 778999999999


Q ss_pred             cccCh
Q 044247          303 WGACH  307 (333)
Q Consensus       303 ~~~c~  307 (333)
                       .+++
T Consensus       304 -~~N~  307 (312)
T 1wwl_A          304 -KGNP  307 (312)
T ss_dssp             -TTCT
T ss_pred             -cCCC
Confidence             7765

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.75  E-value=2.2e-17  Score=157.87  Aligned_cols=117  Identities=14%  Similarity=0.159  Sum_probs=78.1

Q ss_pred             CCccc-chhcCCCcccEEeecCCCcccccC-ccccccccccEEecCCCCCcccccc-cccccccCceeeeEEEcCccCCC
Q 044247            1 IEKLP-ETLCELYNLERVNVSGCSHLRELP-QGIGKLRKLMYLDNDYTDSLRYLPV-GIGELIRLRRVTKFVVCGGYDRA   77 (333)
Q Consensus         1 ~~~lp-~~l~~l~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~l~~~~~~~~~p~-~i~~l~~L~~L~l~~~~~~~~~~   77 (333)
                      |+++| ..+.++++|++|++++|. +..+| .++.++++|++|++++| .++.+|. .++.+++|++|++++|....   
T Consensus        64 i~~l~~~~f~~l~~L~~L~Ls~N~-i~~i~~~~f~~L~~L~~L~Ls~N-~l~~l~~~~f~~L~~L~~L~Ls~N~l~~---  138 (635)
T 4g8a_A           64 LRHLGSYSFFSFPELQVLDLSRCE-IQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLSSLQKLVAVETNLAS---  138 (635)
T ss_dssp             CCEECTTTTTTCTTCCEEECTTCC-CCEECTTTTTTCTTCCEEECTTC-CCCEECGGGGTTCTTCCEEECTTSCCCC---
T ss_pred             CCCCCHHHHhCCCCCCEEECCCCc-CCCcChhHhcCCCCCCEEEccCC-cCCCCCHHHhcCCCCCCEEECCCCcCCC---
Confidence            34565 368888888888888887 65554 45788888888888888 5666664 46788888888888876653   


Q ss_pred             CCccccccCccCceeEecCCC--CCCChhhHHHHhhcccCCccceEEeecCC
Q 044247           78 CSLGSLKKLNLLRQCSIDGLG--GVSDAGEARRAELEKKKNLFDLELDFDNL  127 (333)
Q Consensus        78 ~~~~~l~~l~~L~~L~l~~~~--~~~~~~~~~~~~l~~~~~L~~L~l~~~~~  127 (333)
                      .....+.++++|+.|++....  .+..     ...+..+++|++|++++|.+
T Consensus       139 l~~~~~~~L~~L~~L~Ls~N~l~~~~~-----~~~~~~l~~L~~L~L~~N~l  185 (635)
T 4g8a_A          139 LENFPIGHLKTLKELNVAHNLIQSFKL-----PEYFSNLTNLEHLDLSSNKI  185 (635)
T ss_dssp             STTCCCTTCTTCCEEECCSSCCCCCCC-----CGGGGGCTTCCEEECCSSCC
T ss_pred             CChhhhhcCcccCeeccccCccccCCC-----chhhccchhhhhhcccCccc
Confidence            223346677777777765422  2111     12445566777777766654

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.75  E-value=2.5e-17  Score=138.46  Aligned_cols=197  Identities=14%  Similarity=0.097  Sum_probs=109.4

Q ss_pred             cccEEeecCCCcccccCc-cccccccccEEecCCCCCcccccc-cccccccCceeeeEE-EcCccCCCCCccccccCccC
Q 044247           13 NLERVNVSGCSHLRELPQ-GIGKLRKLMYLDNDYTDSLRYLPV-GIGELIRLRRVTKFV-VCGGYDRACSLGSLKKLNLL   89 (333)
Q Consensus        13 ~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~l~~~~~~~~~p~-~i~~l~~L~~L~l~~-~~~~~~~~~~~~~l~~l~~L   89 (333)
                      +|++|++++|. +..+|. .+..+++|++|++++|..++.++. .+..+++|++|++.+ +...                
T Consensus        32 ~l~~L~l~~n~-l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~----------------   94 (239)
T 2xwt_C           32 STQTLKLIETH-LRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLT----------------   94 (239)
T ss_dssp             TCCEEEEESCC-CSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCC----------------
T ss_pred             cccEEEEeCCc-ceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCee----------------
Confidence            45555555555 333332 455555555555555532444433 345555555555554 3222                


Q ss_pred             ceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCcc---EEEEeee
Q 044247           90 RQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLK---ELHIHEY  166 (333)
Q Consensus        90 ~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~---~L~l~~~  166 (333)
                               .++.      ..+..+++|++|++++|.+                  ..++. +..+++|+   .|++++|
T Consensus        95 ---------~i~~------~~f~~l~~L~~L~l~~n~l------------------~~lp~-~~~l~~L~~L~~L~l~~N  140 (239)
T 2xwt_C           95 ---------YIDP------DALKELPLLKFLGIFNTGL------------------KMFPD-LTKVYSTDIFFILEITDN  140 (239)
T ss_dssp             ---------EECT------TSEECCTTCCEEEEEEECC------------------CSCCC-CTTCCBCCSEEEEEEESC
T ss_pred             ---------EcCH------HHhCCCCCCCEEeCCCCCC------------------ccccc-cccccccccccEEECCCC
Confidence                     1111      1344566777777777742                  22222 55555555   7777777


Q ss_pred             -cCCCCccCchhhhcCCCcc-EEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCCCCCccccC-CC
Q 044247          167 -RGRRNVVPKNWVMSLTNLR-VLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAF-PK  242 (333)
Q Consensus       167 -~~~~~~~~~~~~~~~~~L~-~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l-~~  242 (333)
                       ....  +++..+..+++|+ .|++++| .++.+|. ....++|+.|++++|..++.++...           +..+ ++
T Consensus       141 ~~l~~--i~~~~~~~l~~L~~~L~l~~n-~l~~i~~~~~~~~~L~~L~L~~n~~l~~i~~~~-----------~~~l~~~  206 (239)
T 2xwt_C          141 PYMTS--IPVNAFQGLCNETLTLKLYNN-GFTSVQGYAFNGTKLDAVYLNKNKYLTVIDKDA-----------FGGVYSG  206 (239)
T ss_dssp             TTCCE--ECTTTTTTTBSSEEEEECCSC-CCCEECTTTTTTCEEEEEECTTCTTCCEECTTT-----------TTTCSBC
T ss_pred             cchhh--cCcccccchhcceeEEEcCCC-CCcccCHhhcCCCCCCEEEcCCCCCcccCCHHH-----------hhccccC
Confidence             5554  5234466777777 8888777 3445554 2222678888888775466665433           3455 77


Q ss_pred             ccEEeeccCccccccccCCccccccccCCCcceEecccCcC
Q 044247          243 LKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRE  283 (333)
Q Consensus       243 L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~  283 (333)
                      |++|++++ ..++.++..        .|++|+.|++.++..
T Consensus       207 L~~L~l~~-N~l~~l~~~--------~~~~L~~L~l~~~~~  238 (239)
T 2xwt_C          207 PSLLDVSQ-TSVTALPSK--------GLEHLKELIARNTWT  238 (239)
T ss_dssp             CSEEECTT-CCCCCCCCT--------TCTTCSEEECTTC--
T ss_pred             CcEEECCC-CccccCChh--------HhccCceeeccCccC
Confidence            88888877 356655533        467888888777643

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

Probab=99.73  E-value=6.9e-18  Score=147.70  Aligned_cols=226  Identities=16%  Similarity=0.097  Sum_probs=161.7

Q ss_pred             ccchhcCCCcccEEeecCCCcc-cccCcccc-------ccccccEEecCCCCCcccccccc--cccccCceeeeEEEcCc
Q 044247            4 LPETLCELYNLERVNVSGCSHL-RELPQGIG-------KLRKLMYLDNDYTDSLRYLPVGI--GELIRLRRVTKFVVCGG   73 (333)
Q Consensus         4 lp~~l~~l~~L~~L~l~~~~~~-~~lp~~i~-------~l~~L~~L~l~~~~~~~~~p~~i--~~l~~L~~L~l~~~~~~   73 (333)
                      +|..+...  |++|+++++... ..+|..+.       .+++|++|++++|.....+|..+  +.+++|++|++++|...
T Consensus        57 ~p~~~~~~--L~~L~L~~n~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~  134 (312)
T 1wwl_A           57 DLGQFTDI--IKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWA  134 (312)
T ss_dssp             CCHHHHHH--HHHCCCCEEEEEEEECBHHHHHHHHHHHTTSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCS
T ss_pred             cHHHHHHH--HhhcccccccccCCCcCHHHHHHHHHhcCcCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCCCc
Confidence            47666655  888888888732 35666555       78999999999985444677765  88999999999988876


Q ss_pred             cCCCCCccccccC-----ccCceeEecCC--CCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccc
Q 044247           74 YDRACSLGSLKKL-----NLLRQCSIDGL--GGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDE  146 (333)
Q Consensus        74 ~~~~~~~~~l~~l-----~~L~~L~l~~~--~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~  146 (333)
                      .    .+..+..+     ++|+.|++...  ..+..      ..+..+++|++|++++|.+.+               ..
T Consensus       135 ~----~~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~------~~~~~l~~L~~L~Ls~N~l~~---------------~~  189 (312)
T 1wwl_A          135 T----RDAWLAELQQWLKPGLKVLSIAQAHSLNFSC------EQVRVFPALSTLDLSDNPELG---------------ER  189 (312)
T ss_dssp             S----SSSHHHHHHTTCCTTCCEEEEESCSCCCCCT------TTCCCCSSCCEEECCSCTTCH---------------HH
T ss_pred             c----hhHHHHHHHHhhcCCCcEEEeeCCCCccchH------HHhccCCCCCEEECCCCCcCc---------------ch
Confidence            4    24555555     78888777643  22221      357788999999999995321               01


Q ss_pred             cccccC--CCCCCccEEEEeeecCCCCccCc----hhhhcCCCccEEEeecCCCCCCC--CCCCCCccccceeccccccc
Q 044247          147 RLLDAL--GPPPNLKELHIHEYRGRRNVVPK----NWVMSLTNLRVLHLFECRNCEHL--PPLGKLTSLEDLYIAGMKSV  218 (333)
Q Consensus       147 ~~~~~l--~~~~~L~~L~l~~~~~~~~~~~~----~~~~~~~~L~~L~l~~~~~~~~l--~~~~~l~~L~~L~l~~~~~l  218 (333)
                      ..+..+  ..+++|+.|++++|....  + +    ..+..+++|+.|++++|...+..  +.+..+++|++|++++|. +
T Consensus       190 ~~~~~~~~~~l~~L~~L~L~~N~l~~--~-~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~Ls~N~-l  265 (312)
T 1wwl_A          190 GLISALCPLKFPTLQVLALRNAGMET--P-SGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSFTG-L  265 (312)
T ss_dssp             HHHHHSCTTSCTTCCEEECTTSCCCC--H-HHHHHHHHHTTCCCSEEECTTSCCCSSCCCSCCCCCTTCCEEECTTSC-C
T ss_pred             HHHHHHHhccCCCCCEEECCCCcCcc--h-HHHHHHHHhcCCCCCEEECCCCcCCcccchhhhhhcCCCCEEECCCCc-c
Confidence            122233  778999999999998774  3 2    23346799999999999544433  236668999999999998 6


Q ss_pred             ccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCc
Q 044247          219 KRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCR  282 (333)
Q Consensus       219 ~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~  282 (333)
                      +.+|..            +.  ++|++|+++++ +++.++. -.      .+++|++|++++++
T Consensus       266 ~~ip~~------------~~--~~L~~L~Ls~N-~l~~~p~-~~------~l~~L~~L~L~~N~  307 (312)
T 1wwl_A          266 KQVPKG------------LP--AKLSVLDLSYN-RLDRNPS-PD------ELPQVGNLSLKGNP  307 (312)
T ss_dssp             SSCCSS------------CC--SEEEEEECCSS-CCCSCCC-TT------TSCEEEEEECTTCT
T ss_pred             Chhhhh------------cc--CCceEEECCCC-CCCCChh-Hh------hCCCCCEEeccCCC
Confidence            666543            22  79999999985 6777753 22      68999999999854

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=99.73  E-value=2.2e-17  Score=141.85  Aligned_cols=87  Identities=18%  Similarity=0.157  Sum_probs=55.1

Q ss_pred             CcccchhcCCCcccEEeecCCCcccccC-ccccccccccEEecCCCCCccccc-ccccccccCceeeeEEEcCccCCCCC
Q 044247            2 EKLPETLCELYNLERVNVSGCSHLRELP-QGIGKLRKLMYLDNDYTDSLRYLP-VGIGELIRLRRVTKFVVCGGYDRACS   79 (333)
Q Consensus         2 ~~lp~~l~~l~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~l~~~~~~~~~p-~~i~~l~~L~~L~l~~~~~~~~~~~~   79 (333)
                      ..+|..+.  ++|++|++++|. +..++ ..+.++++|++|++++| .+..++ ..++.+++|++|++++|....   ..
T Consensus        20 ~~ip~~l~--~~l~~L~ls~n~-l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~~---~~   92 (276)
T 2z62_A           20 YKIPDNLP--FSTKNLDLSFNP-LRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLILTGNPIQS---LA   92 (276)
T ss_dssp             SSCCSSSC--TTCCEEECTTCC-CCEECTTTTTTCTTCSEEECTTC-CCCEECTTTTTTCTTCCEEECTTCCCCE---EC
T ss_pred             cccCCCCC--CCccEEECCCCc-ccccCHhHhccccCCcEEECCCC-cCCccCHHHccCCcCCCEEECCCCccCc---cC
Confidence            45666554  468888888887 54444 36777888888888887 444544 357777888888887766542   22


Q ss_pred             ccccccCccCceeEec
Q 044247           80 LGSLKKLNLLRQCSID   95 (333)
Q Consensus        80 ~~~l~~l~~L~~L~l~   95 (333)
                      +..+..+++|+.|.+.
T Consensus        93 ~~~~~~l~~L~~L~l~  108 (276)
T 2z62_A           93 LGAFSGLSSLQKLVAV  108 (276)
T ss_dssp             TTTTTTCTTCCEEECT
T ss_pred             hhhhcCCccccEEECC
Confidence            2344555555555554

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=99.72  E-value=1e-16  Score=138.71  Aligned_cols=198  Identities=16%  Similarity=0.114  Sum_probs=147.5

Q ss_pred             hhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccC
Q 044247            7 TLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKL   86 (333)
Q Consensus         7 ~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l   86 (333)
                      .++++++++++++.++. +..+|..+.  ++++.|++++|......+..+..+++|++|++++|....    . .....+
T Consensus         5 ~~~~l~~l~~l~~~~~~-l~~ip~~~~--~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~----~-~~~~~l   76 (290)
T 1p9a_G            5 EVSKVASHLEVNCDKRN-LTALPPDLP--KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTK----L-QVDGTL   76 (290)
T ss_dssp             EEECSTTCCEEECTTSC-CSSCCSCCC--TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCE----E-ECCSCC
T ss_pred             cccccCCccEEECCCCC-CCcCCCCCC--CCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccCc----c-cCCCCC
Confidence            36789999999999988 888887664  789999999995433345668899999999999887653    2 222677


Q ss_pred             ccCceeEecCC--CCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEe
Q 044247           87 NLLRQCSIDGL--GGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIH  164 (333)
Q Consensus        87 ~~L~~L~l~~~--~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~  164 (333)
                      ++|+.|++...  ..++.       .+..+++|++|++++|.+.                 ...+..+..+++|+.|+++
T Consensus        77 ~~L~~L~Ls~N~l~~l~~-------~~~~l~~L~~L~l~~N~l~-----------------~l~~~~~~~l~~L~~L~L~  132 (290)
T 1p9a_G           77 PVLGTLDLSHNQLQSLPL-------LGQTLPALTVLDVSFNRLT-----------------SLPLGALRGLGELQELYLK  132 (290)
T ss_dssp             TTCCEEECCSSCCSSCCC-------CTTTCTTCCEEECCSSCCC-----------------CCCSSTTTTCTTCCEEECT
T ss_pred             CcCCEEECCCCcCCcCch-------hhccCCCCCEEECCCCcCc-----------------ccCHHHHcCCCCCCEEECC
Confidence            78888777543  22222       4567788999999988532                 2223567788899999999


Q ss_pred             eecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCCCCccccCCC
Q 044247          165 EYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPK  242 (333)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~  242 (333)
                      +|....  +++..+..+++|+.|++++| .++.++.  +..+++|+.|++++|. ++.+|..            +..+++
T Consensus       133 ~N~l~~--~~~~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~l~~L~~L~L~~N~-l~~ip~~------------~~~~~~  196 (290)
T 1p9a_G          133 GNELKT--LPPGLLTPTPKLEKLSLANN-NLTELPAGLLNGLENLDTLLLQENS-LYTIPKG------------FFGSHL  196 (290)
T ss_dssp             TSCCCC--CCTTTTTTCTTCCEEECTTS-CCSCCCTTTTTTCTTCCEEECCSSC-CCCCCTT------------TTTTCC
T ss_pred             CCCCCc--cChhhcccccCCCEEECCCC-cCCccCHHHhcCcCCCCEEECCCCc-CCccChh------------hccccc
Confidence            888776  63455677889999999988 4566665  6778899999999887 6777665            345668


Q ss_pred             ccEEeeccCc
Q 044247          243 LKRLRFWSMS  252 (333)
Q Consensus       243 L~~L~l~~~~  252 (333)
                      |+.+++.+++
T Consensus       197 L~~l~L~~Np  206 (290)
T 1p9a_G          197 LPFAFLHGNP  206 (290)
T ss_dssp             CSEEECCSCC
T ss_pred             CCeEEeCCCC
Confidence            8899988754

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.72  E-value=9.7e-19  Score=154.61  Aligned_cols=58  Identities=5%  Similarity=-0.134  Sum_probs=23.4

Q ss_pred             CcccEEeecCCCcccccCccccccccccEEecCCCCCccc-ccccccccccCceeeeEEE
Q 044247           12 YNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRY-LPVGIGELIRLRRVTKFVV   70 (333)
Q Consensus        12 ~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~-~p~~i~~l~~L~~L~l~~~   70 (333)
                      +++++|++.++. +...+..+..+++|++|++++|..... ++..+..+++|++|++.+|
T Consensus        70 ~~l~~L~l~~n~-l~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~~~  128 (336)
T 2ast_B           70 QGVIAFRCPRSF-MDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGL  128 (336)
T ss_dssp             TTCSEEECTTCE-ECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTC
T ss_pred             ccceEEEcCCcc-ccccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCcCc
Confidence            444444444444 222222233444444444444421111 3333444444444444444

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

Probab=99.71  E-value=5.8e-17  Score=138.97  Aligned_cols=207  Identities=20%  Similarity=0.175  Sum_probs=133.1

Q ss_pred             ccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCceeEecCCC--CCCChhhHHHH
Q 044247           32 IGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLG--GVSDAGEARRA  109 (333)
Q Consensus        32 i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~--~~~~~~~~~~~  109 (333)
                      ...+++|+.|++++| .+..++ .++.+++|++|++++|....     ...+..+++|+.|++....  .++.      .
T Consensus        37 ~~~l~~L~~L~l~~~-~i~~~~-~l~~l~~L~~L~l~~n~l~~-----~~~l~~l~~L~~L~L~~n~l~~~~~------~  103 (272)
T 3rfs_A           37 QNELNSIDQIIANNS-DIKSVQ-GIQYLPNVRYLALGGNKLHD-----ISALKELTNLTYLILTGNQLQSLPN------G  103 (272)
T ss_dssp             HHHHTTCCEEECTTS-CCCCCT-TGGGCTTCCEEECTTSCCCC-----CGGGTTCTTCCEEECTTSCCCCCCT------T
T ss_pred             cccccceeeeeeCCC-Cccccc-ccccCCCCcEEECCCCCCCC-----chhhcCCCCCCEEECCCCccCccCh------h
Confidence            344555556665555 333332 25555556666555554431     2345555555555554321  1111      2


Q ss_pred             hhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEe
Q 044247          110 ELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHL  189 (333)
Q Consensus       110 ~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l  189 (333)
                      .+..+++|++|++++|.+.                 ......+..+++|+.|++++|....  +++..+..+++|+.|++
T Consensus       104 ~~~~l~~L~~L~L~~n~l~-----------------~~~~~~~~~l~~L~~L~L~~n~l~~--~~~~~~~~l~~L~~L~l  164 (272)
T 3rfs_A          104 VFDKLTNLKELVLVENQLQ-----------------SLPDGVFDKLTNLTYLNLAHNQLQS--LPKGVFDKLTNLTELDL  164 (272)
T ss_dssp             TTTTCTTCCEEECTTSCCC-----------------CCCTTTTTTCTTCCEEECCSSCCCC--CCTTTTTTCTTCCEEEC
T ss_pred             HhcCCcCCCEEECCCCcCC-----------------ccCHHHhccCCCCCEEECCCCccCc--cCHHHhccCccCCEEEC
Confidence            3566788888888888532                 2223446778899999999887776  53445678899999999


Q ss_pred             ecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCcccccc
Q 044247          190 FECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEI  267 (333)
Q Consensus       190 ~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~  267 (333)
                      ++|. +..+++  ++.+++|+.|++++|. +..++...           +..+++|+.|++.+++-      . +     
T Consensus       165 ~~n~-l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~-----------~~~l~~L~~L~l~~N~~------~-~-----  219 (272)
T 3rfs_A          165 SYNQ-LQSLPEGVFDKLTQLKDLRLYQNQ-LKSVPDGV-----------FDRLTSLQYIWLHDNPW------D-C-----  219 (272)
T ss_dssp             CSSC-CCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTT-----------TTTCTTCCEEECCSSCB------C-C-----
T ss_pred             CCCC-cCccCHHHhcCCccCCEEECCCCc-CCccCHHH-----------HhCCcCCCEEEccCCCc------c-c-----
Confidence            9984 455555  6788999999999987 55554432           46788999999998641      1 2     


Q ss_pred             ccCCCcceEecccCcCcccCCcccCCCCC
Q 044247          268 IIMPRLSSLSIQSCRELKALPDHLLQKST  296 (333)
Q Consensus       268 ~~~~~L~~L~l~~c~~l~~l~~~~~~l~~  296 (333)
                       .+|+|+.+++.++.....+|..++.++.
T Consensus       220 -~~~~l~~l~~~~n~~~g~ip~~~~~~~~  247 (272)
T 3rfs_A          220 -TCPGIRYLSEWINKHSGVVRNSAGSVAP  247 (272)
T ss_dssp             -CTTTTHHHHHHHHHTGGGBBCTTSCBCG
T ss_pred             -cCcHHHHHHHHHHhCCCcccCcccccCC
Confidence             5788999988876666677776654443

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

Probab=99.71  E-value=3.9e-16  Score=133.67  Aligned_cols=195  Identities=24%  Similarity=0.263  Sum_probs=117.8

Q ss_pred             cccEEeecCCCcccccCccccccccccEEecCCCCCcccccc-cccccccCceeeeEEEcCccCCCCCccccccCccCce
Q 044247           13 NLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPV-GIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQ   91 (333)
Q Consensus        13 ~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~-~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~   91 (333)
                      +.++++++++. +..+|..+.  +++++|++++| .+..++. .++.+++|++|++++|....   .....+..+++|+.
T Consensus        17 ~~~~l~~~~~~-l~~ip~~~~--~~l~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~---i~~~~~~~l~~L~~   89 (270)
T 2o6q_A           17 NKNSVDCSSKK-LTAIPSNIP--ADTKKLDLQSN-KLSSLPSKAFHRLTKLRLLYLNDNKLQT---LPAGIFKELKNLET   89 (270)
T ss_dssp             TTTEEECTTSC-CSSCCSCCC--TTCSEEECCSS-CCSCCCTTSSSSCTTCCEEECCSSCCSC---CCTTTTSSCTTCCE
T ss_pred             CCCEEEccCCC-CCccCCCCC--CCCCEEECcCC-CCCeeCHHHhcCCCCCCEEECCCCccCe---eChhhhcCCCCCCE
Confidence            46788888887 667776554  67888888888 4555553 57788888888888776542   12222355666666


Q ss_pred             eEecC--CCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCC
Q 044247           92 CSIDG--LGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGR  169 (333)
Q Consensus        92 L~l~~--~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~  169 (333)
                      |++..  +..++.      ..+..+++|++|++++|.+.                 ......+..+++|+.|++++|...
T Consensus        90 L~l~~n~l~~~~~------~~~~~l~~L~~L~l~~n~l~-----------------~~~~~~~~~l~~L~~L~Ls~n~l~  146 (270)
T 2o6q_A           90 LWVTDNKLQALPI------GVFDQLVNLAELRLDRNQLK-----------------SLPPRVFDSLTKLTYLSLGYNELQ  146 (270)
T ss_dssp             EECCSSCCCCCCT------TTTTTCSSCCEEECCSSCCC-----------------CCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             EECCCCcCCcCCH------hHcccccCCCEEECCCCccC-----------------eeCHHHhCcCcCCCEEECCCCcCC
Confidence            66643  222221      23455667777777766421                 122234556677777777776665


Q ss_pred             CCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEe
Q 044247          170 RNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLR  247 (333)
Q Consensus       170 ~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~  247 (333)
                      .  +++..+..+++|+.|++++| .+..++.  +..+++|++|++++|. ++.++...           +..+++|+.|+
T Consensus       147 ~--~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~-----------~~~l~~L~~L~  211 (270)
T 2o6q_A          147 S--LPKGVFDKLTSLKELRLYNN-QLKRVPEGAFDKLTELKTLKLDNNQ-LKRVPEGA-----------FDSLEKLKMLQ  211 (270)
T ss_dssp             C--CCTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSC-CSCCCTTT-----------TTTCTTCCEEE
T ss_pred             c--cCHhHccCCcccceeEecCC-cCcEeChhHhccCCCcCEEECCCCc-CCcCCHHH-----------hccccCCCEEE
Confidence            5  42333556677777777776 3344443  5566777777777765 44444332           34566677777


Q ss_pred             eccCc
Q 044247          248 FWSMS  252 (333)
Q Consensus       248 l~~~~  252 (333)
                      +++++
T Consensus       212 l~~N~  216 (270)
T 2o6q_A          212 LQENP  216 (270)
T ss_dssp             CCSSC
T ss_pred             ecCCC
Confidence            76643

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=99.70  E-value=5.2e-16  Score=137.94  Aligned_cols=98  Identities=16%  Similarity=0.144  Sum_probs=45.7

Q ss_pred             CccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCC
Q 044247          183 NLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGT  261 (333)
Q Consensus       183 ~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~  261 (333)
                      .++.|++++| .++.++. .....+|+.|++.++..++.++...           +..+++|++|+++++ +++.++.. 
T Consensus       155 ~l~~L~L~~N-~i~~i~~~~f~~~~L~~l~l~~~n~l~~i~~~~-----------f~~l~~L~~LdLs~N-~l~~lp~~-  220 (350)
T 4ay9_X          155 ESVILWLNKN-GIQEIHNSAFNGTQLDELNLSDNNNLEELPNDV-----------FHGASGPVILDISRT-RIHSLPSY-  220 (350)
T ss_dssp             SCEEEECCSS-CCCEECTTSSTTEEEEEEECTTCTTCCCCCTTT-----------TTTEECCSEEECTTS-CCCCCCSS-
T ss_pred             hhhhhccccc-cccCCChhhccccchhHHhhccCCcccCCCHHH-----------hccCcccchhhcCCC-CcCccChh-
Confidence            3555555555 2333332 2233455555555444455554332           234455555555553 34333311 


Q ss_pred             ccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEE
Q 044247          262 AIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEI  302 (333)
Q Consensus       262 ~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l  302 (333)
                             .|.+|+.|.+.++..++.+|. +..+++|+.+++
T Consensus       221 -------~~~~L~~L~~l~~~~l~~lP~-l~~l~~L~~l~l  253 (350)
T 4ay9_X          221 -------GLENLKKLRARSTYNLKKLPT-LEKLVALMEASL  253 (350)
T ss_dssp             -------SCTTCCEEECTTCTTCCCCCC-TTTCCSCCEEEC
T ss_pred             -------hhccchHhhhccCCCcCcCCC-chhCcChhhCcC
Confidence                   245555555555555555553 334555555555

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

Probab=99.70  E-value=2.9e-16  Score=134.42  Aligned_cols=183  Identities=21%  Similarity=0.285  Sum_probs=141.6

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccC-ccccccccccEEecCCCCCccccccc-ccccccCceeeeEEEcCccCCCC
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELP-QGIGKLRKLMYLDNDYTDSLRYLPVG-IGELIRLRRVTKFVVCGGYDRAC   78 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~l~~~~~~~~~p~~-i~~l~~L~~L~l~~~~~~~~~~~   78 (333)
                      ++.+|..+.  ++|++|++++|. +..++ ..+..+++|++|++++| .+..+|.. +..+++|++|++.+|....   .
T Consensus        28 l~~ip~~~~--~~l~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n-~l~~i~~~~~~~l~~L~~L~l~~n~l~~---~  100 (270)
T 2o6q_A           28 LTAIPSNIP--ADTKKLDLQSNK-LSSLPSKAFHRLTKLRLLYLNDN-KLQTLPAGIFKELKNLETLWVTDNKLQA---L  100 (270)
T ss_dssp             CSSCCSCCC--TTCSEEECCSSC-CSCCCTTSSSSCTTCCEEECCSS-CCSCCCTTTTSSCTTCCEEECCSSCCCC---C
T ss_pred             CCccCCCCC--CCCCEEECcCCC-CCeeCHHHhcCCCCCCEEECCCC-ccCeeChhhhcCCCCCCEEECCCCcCCc---C
Confidence            356776655  689999999998 65555 47899999999999998 56677665 5789999999999988763   3


Q ss_pred             CccccccCccCceeEecCC--CCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCC
Q 044247           79 SLGSLKKLNLLRQCSIDGL--GGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPP  156 (333)
Q Consensus        79 ~~~~l~~l~~L~~L~l~~~--~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  156 (333)
                      ....+..+++|+.|++...  ..++.      ..+..+++|++|++++|.+.                 ......+..++
T Consensus       101 ~~~~~~~l~~L~~L~l~~n~l~~~~~------~~~~~l~~L~~L~Ls~n~l~-----------------~~~~~~~~~l~  157 (270)
T 2o6q_A          101 PIGVFDQLVNLAELRLDRNQLKSLPP------RVFDSLTKLTYLSLGYNELQ-----------------SLPKGVFDKLT  157 (270)
T ss_dssp             CTTTTTTCSSCCEEECCSSCCCCCCT------TTTTTCTTCCEEECCSSCCC-----------------CCCTTTTTTCT
T ss_pred             CHhHcccccCCCEEECCCCccCeeCH------HHhCcCcCCCEEECCCCcCC-----------------ccCHhHccCCc
Confidence            3345677888999888653  23322      34678899999999999532                 22233477889


Q ss_pred             CccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceeccccc
Q 044247          157 NLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMK  216 (333)
Q Consensus       157 ~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~  216 (333)
                      +|+.|++++|....  +++..+..+++|+.|++++| .++.++.  +..+++|+.|++++|+
T Consensus       158 ~L~~L~L~~n~l~~--~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N~  216 (270)
T 2o6q_A          158 SLKELRLYNNQLKR--VPEGAFDKLTELKTLKLDNN-QLKRVPEGAFDSLEKLKMLQLQENP  216 (270)
T ss_dssp             TCCEEECCSSCCSC--CCTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             ccceeEecCCcCcE--eChhHhccCCCcCEEECCCC-cCCcCCHHHhccccCCCEEEecCCC
Confidence            99999999998877  63445778999999999999 4556665  7789999999999987

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

Probab=99.70  E-value=4.3e-17  Score=151.22  Aligned_cols=224  Identities=16%  Similarity=0.088  Sum_probs=166.8

Q ss_pred             ccCccccc----cccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCceeEecCCCCCCC
Q 044247           27 ELPQGIGK----LRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSD  102 (333)
Q Consensus        27 ~lp~~i~~----l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  102 (333)
                      .+|..+..    +++|++|++++|......|..++.+++|++|++++|....    .+ .+..+++|+.|++.... +. 
T Consensus        21 ~l~~~l~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~----~~-~l~~l~~L~~L~Ls~N~-l~-   93 (487)
T 3oja_A           21 SLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYE----TL-DLESLSTLRTLDLNNNY-VQ-   93 (487)
T ss_dssp             THHHHHHTTSTTGGGCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSCCEE----EE-ECTTCTTCCEEECCSSE-EE-
T ss_pred             hhHHHHHHhcccCCCccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCCC----Cc-ccccCCCCCEEEecCCc-CC-
Confidence            44555544    4599999999994433345679999999999999988753    22 27888999998887532 11 


Q ss_pred             hhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCC
Q 044247          103 AGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLT  182 (333)
Q Consensus       103 ~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~  182 (333)
                             .+...++|++|++++|.+..                  .+.  ..+++|+.|++++|....  +.+..+..++
T Consensus        94 -------~l~~~~~L~~L~L~~N~l~~------------------~~~--~~l~~L~~L~L~~N~l~~--~~~~~~~~l~  144 (487)
T 3oja_A           94 -------ELLVGPSIETLHAANNNISR------------------VSC--SRGQGKKNIYLANNKITM--LRDLDEGCRS  144 (487)
T ss_dssp             -------EEEECTTCCEEECCSSCCCC------------------EEE--CCCSSCEEEECCSSCCCS--GGGBCGGGGS
T ss_pred             -------CCCCCCCcCEEECcCCcCCC------------------CCc--cccCCCCEEECCCCCCCC--CCchhhcCCC
Confidence                   23344899999999996432                  111  235789999999998776  5355778899


Q ss_pred             CccEEEeecCCCCCCCCC-CC-CCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccC
Q 044247          183 NLRVLHLFECRNCEHLPP-LG-KLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLG  260 (333)
Q Consensus       183 ~L~~L~l~~~~~~~~l~~-~~-~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~  260 (333)
                      +|+.|++++|...+..|. +. .+++|+.|++++|. +..++.             ...+++|+.|+++++ .+..    
T Consensus       145 ~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N~-l~~~~~-------------~~~l~~L~~L~Ls~N-~l~~----  205 (487)
T 3oja_A          145 RVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNF-IYDVKG-------------QVVFAKLKTLDLSSN-KLAF----  205 (487)
T ss_dssp             SEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSC-CCEEEC-------------CCCCTTCCEEECCSS-CCCE----
T ss_pred             CCCEEECCCCCCCCcChHHHhhhCCcccEEecCCCc-cccccc-------------cccCCCCCEEECCCC-CCCC----
Confidence            999999999954433333 43 68999999999998 555533             346899999999996 4443    


Q ss_pred             CccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccChhh
Q 044247          261 TAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHIL  309 (333)
Q Consensus       261 ~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~~l  309 (333)
                        +|..+..+++|+.|++++ +.+..+|..+..+++|+.|++ .+|+..
T Consensus       206 --~~~~~~~l~~L~~L~Ls~-N~l~~lp~~l~~l~~L~~L~l-~~N~l~  250 (487)
T 3oja_A          206 --MGPEFQSAAGVTWISLRN-NKLVLIEKALRFSQNLEHFDL-RGNGFH  250 (487)
T ss_dssp             --ECGGGGGGTTCSEEECTT-SCCCEECTTCCCCTTCCEEEC-TTCCBC
T ss_pred             --CCHhHcCCCCccEEEecC-CcCcccchhhccCCCCCEEEc-CCCCCc
Confidence              334466899999999998 467788888888999999999 887644

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=99.70  E-value=2.6e-16  Score=144.64  Aligned_cols=156  Identities=22%  Similarity=0.142  Sum_probs=94.9

Q ss_pred             CcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCce
Q 044247           12 YNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQ   91 (333)
Q Consensus        12 ~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~   91 (333)
                      ++|++|++++|. +..+| .++.+++|++|++++| .+..+|..+   .+|++|++++|....    . +.+..+++|+.
T Consensus       131 ~~L~~L~L~~n~-l~~lp-~~~~l~~L~~L~l~~N-~l~~lp~~~---~~L~~L~L~~n~l~~----l-~~~~~l~~L~~  199 (454)
T 1jl5_A          131 PLLEYLGVSNNQ-LEKLP-ELQNSSFLKIIDVDNN-SLKKLPDLP---PSLEFIAAGNNQLEE----L-PELQNLPFLTA  199 (454)
T ss_dssp             TTCCEEECCSSC-CSSCC-CCTTCTTCCEEECCSS-CCSCCCCCC---TTCCEEECCSSCCSS----C-CCCTTCTTCCE
T ss_pred             CCCCEEECcCCC-CCCCc-ccCCCCCCCEEECCCC-cCcccCCCc---ccccEEECcCCcCCc----C-ccccCCCCCCE
Confidence            578888888887 65677 4888888888888888 555666543   578888888776653    2 25677777877


Q ss_pred             eEecCCC--CCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCC
Q 044247           92 CSIDGLG--GVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGR  169 (333)
Q Consensus        92 L~l~~~~--~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~  169 (333)
                      |++....  .++.          ..++|++|++++|.+                  ..++ .+..+++|+.|++++|...
T Consensus       200 L~l~~N~l~~l~~----------~~~~L~~L~l~~n~l------------------~~lp-~~~~l~~L~~L~l~~N~l~  250 (454)
T 1jl5_A          200 IYADNNSLKKLPD----------LPLSLESIVAGNNIL------------------EELP-ELQNLPFLTTIYADNNLLK  250 (454)
T ss_dssp             EECCSSCCSSCCC----------CCTTCCEEECCSSCC------------------SSCC-CCTTCTTCCEEECCSSCCS
T ss_pred             EECCCCcCCcCCC----------CcCcccEEECcCCcC------------------Cccc-ccCCCCCCCEEECCCCcCC
Confidence            7765432  2211          124677777777742                  2233 3556666666666666555


Q ss_pred             CCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceeccccc
Q 044247          170 RNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMK  216 (333)
Q Consensus       170 ~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~  216 (333)
                      .  + |..   +++|+.|++++|. +..+|..  +++|+.|++++|.
T Consensus       251 ~--l-~~~---~~~L~~L~l~~N~-l~~l~~~--~~~L~~L~ls~N~  288 (454)
T 1jl5_A          251 T--L-PDL---PPSLEALNVRDNY-LTDLPEL--PQSLTFLDVSENI  288 (454)
T ss_dssp             S--C-CSC---CTTCCEEECCSSC-CSCCCCC--CTTCCEEECCSSC
T ss_pred             c--c-ccc---ccccCEEECCCCc-ccccCcc--cCcCCEEECcCCc
Confidence            4  4 331   3556666666652 3333331  2455555555544

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

Probab=99.70  E-value=3.5e-17  Score=140.37  Aligned_cols=58  Identities=17%  Similarity=0.222  Sum_probs=25.1

Q ss_pred             CCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEc
Q 044247           10 ELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVC   71 (333)
Q Consensus        10 ~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~   71 (333)
                      .+++|+.|++.++. +..++. +..+++|++|++++| .+..++ .++.+++|++|++.+|.
T Consensus        39 ~l~~L~~L~l~~~~-i~~~~~-l~~l~~L~~L~l~~n-~l~~~~-~l~~l~~L~~L~L~~n~   96 (272)
T 3rfs_A           39 ELNSIDQIIANNSD-IKSVQG-IQYLPNVRYLALGGN-KLHDIS-ALKELTNLTYLILTGNQ   96 (272)
T ss_dssp             HHTTCCEEECTTSC-CCCCTT-GGGCTTCCEEECTTS-CCCCCG-GGTTCTTCCEEECTTSC
T ss_pred             cccceeeeeeCCCC-cccccc-cccCCCCcEEECCCC-CCCCch-hhcCCCCCCEEECCCCc
Confidence            34444444444444 333332 444444444444444 223322 34444444444444443

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.70  E-value=1.8e-18  Score=155.97  Aligned_cols=258  Identities=17%  Similarity=0.106  Sum_probs=143.9

Q ss_pred             cccchhcCCCcccEEeecCCCcccc----cCccccccccccEEecCCCCC--cc-cccccc-------cccccCceeeeE
Q 044247            3 KLPETLCELYNLERVNVSGCSHLRE----LPQGIGKLRKLMYLDNDYTDS--LR-YLPVGI-------GELIRLRRVTKF   68 (333)
Q Consensus         3 ~lp~~l~~l~~L~~L~l~~~~~~~~----lp~~i~~l~~L~~L~l~~~~~--~~-~~p~~i-------~~l~~L~~L~l~   68 (333)
                      .++..+..+++|++|++++|.....    ++..+..+++|++|++++|..  +. .+|.++       ..+++|++|+++
T Consensus        23 ~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls  102 (386)
T 2ca6_A           23 SVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLS  102 (386)
T ss_dssp             TTSHHHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECC
T ss_pred             HHHHHHhcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECC
Confidence            4667778888888888888873333    344466788888888888621  11 234333       577888888888


Q ss_pred             EEcCccCCC-CCccccccCccCceeEecCCCCCCChhhHHHHhhccc---------CCccceEEeecCCCCCchhhhccc
Q 044247           69 VVCGGYDRA-CSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKK---------KNLFDLELDFDNLRDGDEEQAGRR  138 (333)
Q Consensus        69 ~~~~~~~~~-~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~---------~~L~~L~l~~~~~~~~~~~~~~~~  138 (333)
                      +|....... ..+..+..+++|+.|++....--......+...+..+         ++|++|++++|.+.  +.      
T Consensus       103 ~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~--~~------  174 (386)
T 2ca6_A          103 DNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLE--NG------  174 (386)
T ss_dssp             SCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCT--GG------
T ss_pred             CCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCC--cH------
Confidence            776652000 1344566777788877765432111111222334444         77888888777521  00      


Q ss_pred             CCcccccccccccCCCCCCccEEEEeeecCCCC----ccCchhhhcCCCccEEEeecCCCC----CCCCC-CCCCccccc
Q 044247          139 ENEEDEDERLLDALGPPPNLKELHIHEYRGRRN----VVPKNWVMSLTNLRVLHLFECRNC----EHLPP-LGKLTSLED  209 (333)
Q Consensus       139 ~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~----~~~~~~~~~~~~L~~L~l~~~~~~----~~l~~-~~~l~~L~~  209 (333)
                           ....+...+..+++|+.|++++|.....    .. +..+..+++|+.|++++|...    ..++. +..+++|++
T Consensus       175 -----~~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~-~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~  248 (386)
T 2ca6_A          175 -----SMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLL-LEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRE  248 (386)
T ss_dssp             -----GHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHH-HTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCE
T ss_pred             -----HHHHHHHHHHhCCCcCEEECcCCCCCHhHHHHHH-HHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCE
Confidence                 1111223455667788888877765420    01 225556777888888777421    22333 566777788


Q ss_pred             eecccccccccccccccCCCCCCCCCcc--ccCCCccEEeeccCccccccccCCcccccc-ccCCCcceEecccCcCc
Q 044247          210 LYIAGMKSVKRVGNEFLGVESDTDGSSV--IAFPKLKRLRFWSMSELEEWDLGTAIKGEI-IIMPRLSSLSIQSCREL  284 (333)
Q Consensus       210 L~l~~~~~l~~i~~~~~~~~~~~~~~~~--~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~-~~~~~L~~L~l~~c~~l  284 (333)
                      |++++|. +.......+...       +  ..+++|++|++++|. +..... ..+|..+ ..+++|++|++++|+.-
T Consensus       249 L~L~~n~-i~~~~~~~l~~~-------l~~~~~~~L~~L~L~~n~-i~~~g~-~~l~~~l~~~l~~L~~L~l~~N~l~  316 (386)
T 2ca6_A          249 LGLNDCL-LSARGAAAVVDA-------FSKLENIGLQTLRLQYNE-IELDAV-RTLKTVIDEKMPDLLFLELNGNRFS  316 (386)
T ss_dssp             EECTTCC-CCHHHHHHHHHH-------HHTCSSCCCCEEECCSSC-CBHHHH-HHHHHHHHHHCTTCCEEECTTSBSC
T ss_pred             EECCCCC-CchhhHHHHHHH-------HhhccCCCeEEEECcCCc-CCHHHH-HHHHHHHHhcCCCceEEEccCCcCC
Confidence            8887776 332211000000       2  236777777777753 322100 0133333 34677788877776543

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=99.70  E-value=4.8e-16  Score=138.17  Aligned_cols=226  Identities=15%  Similarity=0.129  Sum_probs=157.5

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccCc-cccccccccEEecCCCCCccccccc-ccccccCceeeeEE-EcCccCCC
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELPQ-GIGKLRKLMYLDNDYTDSLRYLPVG-IGELIRLRRVTKFV-VCGGYDRA   77 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~l~~~~~~~~~p~~-i~~l~~L~~L~l~~-~~~~~~~~   77 (333)
                      ++++|..+  .+++++|++++|. +..+|. ++.++++|++|++++|...+.+|.. +..+++++++...+ +...   .
T Consensus        21 Lt~iP~~l--~~~l~~L~Ls~N~-i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~---~   94 (350)
T 4ay9_X           21 VTEIPSDL--PRNAIELRFVLTK-LRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLL---Y   94 (350)
T ss_dssp             CCSCCTTC--CTTCSEEEEESCC-CSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTCC---E
T ss_pred             CCccCcCc--CCCCCEEEccCCc-CCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCccc---c
Confidence            45677766  3678889998888 777775 5788889999999888555666643 56777777655444 3333   2


Q ss_pred             CCccccccCccCceeEecC--CCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCccccccccc-ccCCC
Q 044247           78 CSLGSLKKLNLLRQCSIDG--LGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLL-DALGP  154 (333)
Q Consensus        78 ~~~~~l~~l~~L~~L~l~~--~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~l~~  154 (333)
                      ..+..+..+++|+.|.+..  +..++.      ..+....++..+++..+.                 ....+. ..+..
T Consensus        95 l~~~~f~~l~~L~~L~l~~n~l~~~~~------~~~~~~~~l~~l~l~~~~-----------------~i~~l~~~~f~~  151 (350)
T 4ay9_X           95 INPEAFQNLPNLQYLLISNTGIKHLPD------VHKIHSLQKVLLDIQDNI-----------------NIHTIERNSFVG  151 (350)
T ss_dssp             ECTTSBCCCTTCCEEEEEEECCSSCCC------CTTCCBSSCEEEEEESCT-----------------TCCEECTTSSTT
T ss_pred             cCchhhhhccccccccccccccccCCc------hhhcccchhhhhhhcccc-----------------ccccccccchhh
Confidence            2345567778888876643  333332      122334456666665542                 222222 23444


Q ss_pred             C-CCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCC
Q 044247          155 P-PNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESD  231 (333)
Q Consensus       155 ~-~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  231 (333)
                      . ..++.|++++|....  + +.......+|+.|.+.++..++.+|.  ++.+++|+.|++++|. ++.+|.        
T Consensus       152 ~~~~l~~L~L~~N~i~~--i-~~~~f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~-l~~lp~--------  219 (350)
T 4ay9_X          152 LSFESVILWLNKNGIQE--I-HNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTR-IHSLPS--------  219 (350)
T ss_dssp             SBSSCEEEECCSSCCCE--E-CTTSSTTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTSC-CCCCCS--------
T ss_pred             cchhhhhhccccccccC--C-ChhhccccchhHHhhccCCcccCCCHHHhccCcccchhhcCCCC-cCccCh--------
Confidence            4 468899999998887  7 55554567899999998878888886  7899999999999997 777764        


Q ss_pred             CCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEeccc
Q 044247          232 TDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQS  280 (333)
Q Consensus       232 ~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~  280 (333)
                            ..+..|+.|.+.++.+++.++.       +..+++|+.+++.+
T Consensus       220 ------~~~~~L~~L~~l~~~~l~~lP~-------l~~l~~L~~l~l~~  255 (350)
T 4ay9_X          220 ------YGLENLKKLRARSTYNLKKLPT-------LEKLVALMEASLTY  255 (350)
T ss_dssp             ------SSCTTCCEEECTTCTTCCCCCC-------TTTCCSCCEEECSC
T ss_pred             ------hhhccchHhhhccCCCcCcCCC-------chhCcChhhCcCCC
Confidence                  3677889999888888877763       23689999999875

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=99.70  E-value=2e-16  Score=138.08  Aligned_cols=181  Identities=17%  Similarity=0.169  Sum_probs=145.7

Q ss_pred             CcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcc
Q 044247            2 EKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLG   81 (333)
Q Consensus         2 ~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~   81 (333)
                      ..+| .+..+++|++|++++|. +..++. +..+++|++|++++| .+..++ .+..+++|++|++++|....     ..
T Consensus        54 ~~l~-~~~~l~~L~~L~L~~n~-i~~~~~-~~~l~~L~~L~L~~n-~l~~~~-~~~~l~~L~~L~l~~n~l~~-----~~  123 (308)
T 1h6u_A           54 TTIE-GVQYLNNLIGLELKDNQ-ITDLAP-LKNLTKITELELSGN-PLKNVS-AIAGLQSIKTLDLTSTQITD-----VT  123 (308)
T ss_dssp             CCCT-TGGGCTTCCEEECCSSC-CCCCGG-GTTCCSCCEEECCSC-CCSCCG-GGTTCTTCCEEECTTSCCCC-----CG
T ss_pred             cCch-hhhccCCCCEEEccCCc-CCCChh-HccCCCCCEEEccCC-cCCCch-hhcCCCCCCEEECCCCCCCC-----ch
Confidence            4566 58899999999999998 777777 999999999999999 566665 58899999999999988763     23


Q ss_pred             ccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEE
Q 044247           82 SLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKEL  161 (333)
Q Consensus        82 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L  161 (333)
                      .+..+++|+.|++....- ....     .+..+++|++|++++|.+.                  .+.. +..+++|+.|
T Consensus       124 ~l~~l~~L~~L~l~~n~l-~~~~-----~l~~l~~L~~L~l~~n~l~------------------~~~~-l~~l~~L~~L  178 (308)
T 1h6u_A          124 PLAGLSNLQVLYLDLNQI-TNIS-----PLAGLTNLQYLSIGNAQVS------------------DLTP-LANLSKLTTL  178 (308)
T ss_dssp             GGTTCTTCCEEECCSSCC-CCCG-----GGGGCTTCCEEECCSSCCC------------------CCGG-GTTCTTCCEE
T ss_pred             hhcCCCCCCEEECCCCcc-CcCc-----cccCCCCccEEEccCCcCC------------------CChh-hcCCCCCCEE
Confidence            488899999998876432 2221     2778899999999999542                  2222 7788999999


Q ss_pred             EEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccc
Q 044247          162 HIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGN  223 (333)
Q Consensus       162 ~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~  223 (333)
                      ++++|....  + +. +..+++|+.|++++| .+..++++..+++|+.|++++|+ +...+.
T Consensus       179 ~l~~n~l~~--~-~~-l~~l~~L~~L~L~~N-~l~~~~~l~~l~~L~~L~l~~N~-i~~~~~  234 (308)
T 1h6u_A          179 KADDNKISD--I-SP-LASLPNLIEVHLKNN-QISDVSPLANTSNLFIVTLTNQT-ITNQPV  234 (308)
T ss_dssp             ECCSSCCCC--C-GG-GGGCTTCCEEECTTS-CCCBCGGGTTCTTCCEEEEEEEE-EECCCE
T ss_pred             ECCCCccCc--C-hh-hcCCCCCCEEEccCC-ccCccccccCCCCCCEEEccCCe-eecCCe
Confidence            999998887  5 43 778999999999999 55666678899999999999998 555543

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.70  E-value=4.2e-16  Score=130.96  Aligned_cols=205  Identities=17%  Similarity=0.149  Sum_probs=144.7

Q ss_pred             ccccCccccccccccEEecCCCCCcccccc-cccccccCceeeeEEEc-CccCCCCCccccccCccCceeEecCCCCCCC
Q 044247           25 LRELPQGIGKLRKLMYLDNDYTDSLRYLPV-GIGELIRLRRVTKFVVC-GGYDRACSLGSLKKLNLLRQCSIDGLGGVSD  102 (333)
Q Consensus        25 ~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~-~i~~l~~L~~L~l~~~~-~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  102 (333)
                      +..+|. +.  ++|++|++++| .+..+|. .++.+++|++|++.+|. ...                         ++.
T Consensus        23 l~~ip~-~~--~~l~~L~l~~n-~l~~i~~~~~~~l~~L~~L~l~~n~~l~~-------------------------i~~   73 (239)
T 2xwt_C           23 IQRIPS-LP--PSTQTLKLIET-HLRTIPSHAFSNLPNISRIYVSIDVTLQQ-------------------------LES   73 (239)
T ss_dssp             CSSCCC-CC--TTCCEEEEESC-CCSEECTTTTTTCTTCCEEEEECCSSCCE-------------------------ECT
T ss_pred             ccccCC-CC--CcccEEEEeCC-cceEECHHHccCCCCCcEEeCCCCCCcce-------------------------eCH
Confidence            555565 32  36777777776 4455444 45666667777666554 221                         111


Q ss_pred             hhhHHHHhhcccCCccceEEee-cCCCCCchhhhcccCCcccccccc-cccCCCCCCccEEEEeeecCCCCccCchhhhc
Q 044247          103 AGEARRAELEKKKNLFDLELDF-DNLRDGDEEQAGRRENEEDEDERL-LDALGPPPNLKELHIHEYRGRRNVVPKNWVMS  180 (333)
Q Consensus       103 ~~~~~~~~l~~~~~L~~L~l~~-~~~~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~  180 (333)
                            ..+..+++|++|++++ |.+                  ..+ ...+..+++|+.|++++|....  + |. +..
T Consensus        74 ------~~f~~l~~L~~L~l~~~n~l------------------~~i~~~~f~~l~~L~~L~l~~n~l~~--l-p~-~~~  125 (239)
T 2xwt_C           74 ------HSFYNLSKVTHIEIRNTRNL------------------TYIDPDALKELPLLKFLGIFNTGLKM--F-PD-LTK  125 (239)
T ss_dssp             ------TTEESCTTCCEEEEEEETTC------------------CEECTTSEECCTTCCEEEEEEECCCS--C-CC-CTT
T ss_pred             ------hHcCCCcCCcEEECCCCCCe------------------eEcCHHHhCCCCCCCEEeCCCCCCcc--c-cc-ccc
Confidence                  1355678899999988 642                  233 3467788999999999999887  7 65 777


Q ss_pred             CCCcc---EEEeecCCCCCCCCC--CCCCcccc-ceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccc
Q 044247          181 LTNLR---VLHLFECRNCEHLPP--LGKLTSLE-DLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSEL  254 (333)
Q Consensus       181 ~~~L~---~L~l~~~~~~~~l~~--~~~l~~L~-~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L  254 (333)
                      +++|+   .|++++|..++.++.  ++.+++|+ .|++++|. ++.++...+           .. ++|++|+++++..+
T Consensus       126 l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~-l~~i~~~~~-----------~~-~~L~~L~L~~n~~l  192 (239)
T 2xwt_C          126 VYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNG-FTSVQGYAF-----------NG-TKLDAVYLNKNKYL  192 (239)
T ss_dssp             CCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCC-CCEECTTTT-----------TT-CEEEEEECTTCTTC
T ss_pred             ccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCC-CcccCHhhc-----------CC-CCCCEEEcCCCCCc
Confidence            88887   999999956666665  78899999 99999987 667765432           23 79999999997667


Q ss_pred             cccccCCccccccccC-CCcceEecccCcCcccCCcccCCCCCcceEEEcccChh
Q 044247          255 EEWDLGTAIKGEIIIM-PRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHI  308 (333)
Q Consensus       255 ~~~~~~~~~~~~~~~~-~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~~  308 (333)
                      +.++.     ..+..+ ++|++|++++ +.++.+|..  .+++|+.|++ .++..
T Consensus       193 ~~i~~-----~~~~~l~~~L~~L~l~~-N~l~~l~~~--~~~~L~~L~l-~~~~~  238 (239)
T 2xwt_C          193 TVIDK-----DAFGGVYSGPSLLDVSQ-TSVTALPSK--GLEHLKELIA-RNTWT  238 (239)
T ss_dssp             CEECT-----TTTTTCSBCCSEEECTT-CCCCCCCCT--TCTTCSEEEC-TTC--
T ss_pred             ccCCH-----HHhhccccCCcEEECCC-CccccCChh--HhccCceeec-cCccC
Confidence            65542     223467 8999999998 567777775  5899999999 88754

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.69  E-value=1.4e-18  Score=156.71  Aligned_cols=252  Identities=15%  Similarity=0.047  Sum_probs=173.9

Q ss_pred             ccccCccccccccccEEecCCCCCccc----ccccccccccCceeeeEEEcCccCCCCCcccc-------ccCccCceeE
Q 044247           25 LRELPQGIGKLRKLMYLDNDYTDSLRY----LPVGIGELIRLRRVTKFVVCGGYDRACSLGSL-------KKLNLLRQCS   93 (333)
Q Consensus        25 ~~~lp~~i~~l~~L~~L~l~~~~~~~~----~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l-------~~l~~L~~L~   93 (333)
                      ...++..+..+++|++|++++|.....    ++..+..+++|++|++++|......+..+..+       ..+++|+.|+
T Consensus        21 ~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~  100 (386)
T 2ca6_A           21 EKSVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVR  100 (386)
T ss_dssp             HHTTSHHHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEE
T ss_pred             HHHHHHHHhcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEE
Confidence            567788889999999999999933222    33446789999999999875543112233333       6788999998


Q ss_pred             ecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCC---------CCccEEEEe
Q 044247           94 IDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPP---------PNLKELHIH  164 (333)
Q Consensus        94 l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~---------~~L~~L~l~  164 (333)
                      +....--......+...+..+++|++|++++|.+.+.             ....+...+..+         ++|+.|+++
T Consensus       101 Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~-------------~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~  167 (386)
T 2ca6_A          101 LSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQ-------------AGAKIARALQELAVNKKAKNAPPLRSIICG  167 (386)
T ss_dssp             CCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHH-------------HHHHHHHHHHHHHHHHHHHTCCCCCEEECC
T ss_pred             CCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHH-------------HHHHHHHHHHHHhhhhhcccCCCCcEEECC
Confidence            8765432222234556778899999999999976321             122233334334         899999999


Q ss_pred             eecCCCCccCc---hhhhcCCCccEEEeecCCCCC------CCC-CCCCCccccceeccccccc-----ccccccccCCC
Q 044247          165 EYRGRRNVVPK---NWVMSLTNLRVLHLFECRNCE------HLP-PLGKLTSLEDLYIAGMKSV-----KRVGNEFLGVE  229 (333)
Q Consensus       165 ~~~~~~~~~~~---~~~~~~~~L~~L~l~~~~~~~------~l~-~~~~l~~L~~L~l~~~~~l-----~~i~~~~~~~~  229 (333)
                      +|......+ +   ..+..+++|+.|++++|. +.      ..+ .+..+++|+.|++++|. +     ..++..     
T Consensus       168 ~n~l~~~~~-~~l~~~l~~~~~L~~L~L~~n~-l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~-l~~~g~~~l~~~-----  239 (386)
T 2ca6_A          168 RNRLENGSM-KEWAKTFQSHRLLHTVKMVQNG-IRPEGIEHLLLEGLAYCQELKVLDLQDNT-FTHLGSSALAIA-----  239 (386)
T ss_dssp             SSCCTGGGH-HHHHHHHHHCTTCCEEECCSSC-CCHHHHHHHHHTTGGGCTTCCEEECCSSC-CHHHHHHHHHHH-----
T ss_pred             CCCCCcHHH-HHHHHHHHhCCCcCEEECcCCC-CCHhHHHHHHHHHhhcCCCccEEECcCCC-CCcHHHHHHHHH-----
Confidence            988763213 4   345578999999999994 44      234 57788999999999998 4     334432     


Q ss_pred             CCCCCCccccCCCccEEeeccCccccccccCCccccccc--cCCCcceEecccCcCcc----cCCccc-CCCCCcceEEE
Q 044247          230 SDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEII--IMPRLSSLSIQSCRELK----ALPDHL-LQKSTLQNLEI  302 (333)
Q Consensus       230 ~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~--~~~~L~~L~l~~c~~l~----~l~~~~-~~l~~L~~L~l  302 (333)
                             +..+++|++|++++|. +..... ..++..+.  .+++|+.|++++|..-.    .+|..+ ..+++|+.|++
T Consensus       240 -------l~~~~~L~~L~L~~n~-i~~~~~-~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~L~l  310 (386)
T 2ca6_A          240 -------LKSWPNLRELGLNDCL-LSARGA-AAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLEL  310 (386)
T ss_dssp             -------GGGCTTCCEEECTTCC-CCHHHH-HHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEEC
T ss_pred             -------HccCCCcCEEECCCCC-CchhhH-HHHHHHHhhccCCCeEEEECcCCcCCHHHHHHHHHHHHhcCCCceEEEc
Confidence                   5688999999999974 433210 01223332  38999999999976444    377665 55899999999


Q ss_pred             cccCh
Q 044247          303 WGACH  307 (333)
Q Consensus       303 ~~~c~  307 (333)
                       .+|+
T Consensus       311 -~~N~  314 (386)
T 2ca6_A          311 -NGNR  314 (386)
T ss_dssp             -TTSB
T ss_pred             -cCCc
Confidence             8875

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=99.69  E-value=3.7e-16  Score=135.19  Aligned_cols=199  Identities=19%  Similarity=0.121  Sum_probs=124.1

Q ss_pred             ccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCceeEecCCCCCCChhhHHHHhh
Q 044247           32 IGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAEL  111 (333)
Q Consensus        32 i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l  111 (333)
                      +++++++++++++++ .++.+|..+.  ++++.|++++|...   ...+..+..+++|+.|++.... +....     ..
T Consensus         6 ~~~l~~l~~l~~~~~-~l~~ip~~~~--~~l~~L~L~~N~l~---~~~~~~~~~l~~L~~L~L~~n~-l~~~~-----~~   73 (290)
T 1p9a_G            6 VSKVASHLEVNCDKR-NLTALPPDLP--KDTTILHLSENLLY---TFSLATLMPYTRLTQLNLDRAE-LTKLQ-----VD   73 (290)
T ss_dssp             EECSTTCCEEECTTS-CCSSCCSCCC--TTCCEEECTTSCCS---EEEGGGGTTCTTCCEEECTTSC-CCEEE-----CC
T ss_pred             ccccCCccEEECCCC-CCCcCCCCCC--CCCCEEEcCCCcCC---ccCHHHhhcCCCCCEEECCCCc-cCccc-----CC
Confidence            678899999999998 6788887664  68999999887765   2334456677777777665422 11111     11


Q ss_pred             cccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeec
Q 044247          112 EKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFE  191 (333)
Q Consensus       112 ~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~  191 (333)
                      ..+++|++|++++|.                  ...++..+..+++|+.|++++|....  +++..+..+++|+.|++++
T Consensus        74 ~~l~~L~~L~Ls~N~------------------l~~l~~~~~~l~~L~~L~l~~N~l~~--l~~~~~~~l~~L~~L~L~~  133 (290)
T 1p9a_G           74 GTLPVLGTLDLSHNQ------------------LQSLPLLGQTLPALTVLDVSFNRLTS--LPLGALRGLGELQELYLKG  133 (290)
T ss_dssp             SCCTTCCEEECCSSC------------------CSSCCCCTTTCTTCCEEECCSSCCCC--CCSSTTTTCTTCCEEECTT
T ss_pred             CCCCcCCEEECCCCc------------------CCcCchhhccCCCCCEEECCCCcCcc--cCHHHHcCCCCCCEEECCC
Confidence            455677777777763                  23444555666777777777766665  5234566677777777777


Q ss_pred             CCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCcccccccc
Q 044247          192 CRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIII  269 (333)
Q Consensus       192 ~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~  269 (333)
                      | .+..++.  +..+++|+.|++++|. ++.++...           +..+++|+.|+++++ .++.      +|..+..
T Consensus       134 N-~l~~~~~~~~~~l~~L~~L~L~~N~-l~~l~~~~-----------~~~l~~L~~L~L~~N-~l~~------ip~~~~~  193 (290)
T 1p9a_G          134 N-ELKTLPPGLLTPTPKLEKLSLANNN-LTELPAGL-----------LNGLENLDTLLLQEN-SLYT------IPKGFFG  193 (290)
T ss_dssp             S-CCCCCCTTTTTTCTTCCEEECTTSC-CSCCCTTT-----------TTTCTTCCEEECCSS-CCCC------CCTTTTT
T ss_pred             C-CCCccChhhcccccCCCEEECCCCc-CCccCHHH-----------hcCcCCCCEEECCCC-cCCc------cChhhcc
Confidence            6 3444443  5566777777777766 55554432           345667777777664 3332      3344445


Q ss_pred             CCCcceEecccCc
Q 044247          270 MPRLSSLSIQSCR  282 (333)
Q Consensus       270 ~~~L~~L~l~~c~  282 (333)
                      .++|+.|++++++
T Consensus       194 ~~~L~~l~L~~Np  206 (290)
T 1p9a_G          194 SHLLPFAFLHGNP  206 (290)
T ss_dssp             TCCCSEEECCSCC
T ss_pred             cccCCeEEeCCCC
Confidence            6667777766543

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.69  E-value=7.8e-16  Score=147.13  Aligned_cols=116  Identities=16%  Similarity=0.175  Sum_probs=90.4

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccC-ccccccccccEEecCCCCCcccccc-cccccccCceeeeEEEcCccCCCC
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELP-QGIGKLRKLMYLDNDYTDSLRYLPV-GIGELIRLRRVTKFVVCGGYDRAC   78 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~l~~~~~~~~~p~-~i~~l~~L~~L~l~~~~~~~~~~~   78 (333)
                      ++++|..+.  +++++|++++|. +..+| .++.++++|++|++++| .+..+|. .++.+++|++|++++|....   .
T Consensus        43 l~~vP~~lp--~~~~~LdLs~N~-i~~l~~~~f~~l~~L~~L~Ls~N-~i~~i~~~~f~~L~~L~~L~Ls~N~l~~---l  115 (635)
T 4g8a_A           43 FYKIPDNLP--FSTKNLDLSFNP-LRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLILTGNPIQS---L  115 (635)
T ss_dssp             CSSCCSSSC--TTCCEEECTTSC-CCEECTTTTTTCTTCCEEECTTC-CCCEECTTTTTTCTTCCEEECTTCCCCE---E
T ss_pred             cCccCCCCC--cCCCEEEeeCCC-CCCCCHHHHhCCCCCCEEECCCC-cCCCcChhHhcCCCCCCEEEccCCcCCC---C
Confidence            356776654  478999999998 76665 57999999999999999 6677755 58999999999999998753   2


Q ss_pred             CccccccCccCceeEecCC--CCCCChhhHHHHhhcccCCccceEEeecCCCC
Q 044247           79 SLGSLKKLNLLRQCSIDGL--GGVSDAGEARRAELEKKKNLFDLELDFDNLRD  129 (333)
Q Consensus        79 ~~~~l~~l~~L~~L~l~~~--~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~  129 (333)
                      ....+..+++|+.|++...  ..++.      ..++.+++|++|++++|.+..
T Consensus       116 ~~~~f~~L~~L~~L~Ls~N~l~~l~~------~~~~~L~~L~~L~Ls~N~l~~  162 (635)
T 4g8a_A          116 ALGAFSGLSSLQKLVAVETNLASLEN------FPIGHLKTLKELNVAHNLIQS  162 (635)
T ss_dssp             CGGGGTTCTTCCEEECTTSCCCCSTT------CCCTTCTTCCEEECCSSCCCC
T ss_pred             CHHHhcCCCCCCEEECCCCcCCCCCh------hhhhcCcccCeeccccCcccc
Confidence            3445788999999888653  33332      247788999999999998753

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=99.66  E-value=8e-16  Score=132.08  Aligned_cols=65  Identities=15%  Similarity=0.115  Sum_probs=40.7

Q ss_pred             ccccCccccccccccEEecCCCCCcccccc-cccccccCceeeeEEEcCccCCCCCccccccCccCceeEec
Q 044247           25 LRELPQGIGKLRKLMYLDNDYTDSLRYLPV-GIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSID   95 (333)
Q Consensus        25 ~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~-~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~   95 (333)
                      +..+|..+.  ++|++|++++| .+..++. .+..+++|++|++.+|....   .....+..+++|+.|++.
T Consensus        19 l~~ip~~l~--~~l~~L~ls~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~---~~~~~~~~l~~L~~L~L~   84 (276)
T 2z62_A           19 FYKIPDNLP--FSTKNLDLSFN-PLRHLGSYSFFSFPELQVLDLSRCEIQT---IEDGAYQSLSHLSTLILT   84 (276)
T ss_dssp             CSSCCSSSC--TTCCEEECTTC-CCCEECTTTTTTCTTCSEEECTTCCCCE---ECTTTTTTCTTCCEEECT
T ss_pred             ccccCCCCC--CCccEEECCCC-cccccCHhHhccccCCcEEECCCCcCCc---cCHHHccCCcCCCEEECC
Confidence            456776553  57999999988 5555554 67888899999887775542   122233444444444443

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=99.65  E-value=3.7e-16  Score=135.28  Aligned_cols=170  Identities=21%  Similarity=0.205  Sum_probs=114.6

Q ss_pred             hcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCc
Q 044247            8 LCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLN   87 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~   87 (333)
                      +..+++|++|++++|. +..++. +..+++|++|++++| .+..++. +..+++|++|++++|....     +..+..++
T Consensus        42 ~~~l~~L~~L~l~~~~-i~~~~~-~~~l~~L~~L~L~~n-~l~~~~~-l~~l~~L~~L~l~~n~l~~-----~~~l~~l~  112 (291)
T 1h6t_A           42 QNELNSIDQIIANNSD-IKSVQG-IQYLPNVTKLFLNGN-KLTDIKP-LANLKNLGWLFLDENKVKD-----LSSLKDLK  112 (291)
T ss_dssp             HHHHHTCCEEECTTSC-CCCCTT-GGGCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSCCCC-----GGGGTTCT
T ss_pred             hhhcCcccEEEccCCC-cccChh-HhcCCCCCEEEccCC-ccCCCcc-cccCCCCCEEECCCCcCCC-----ChhhccCC
Confidence            4567788888888887 666654 777888888888887 5555555 7788888888888776542     34467777


Q ss_pred             cCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeec
Q 044247           88 LLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYR  167 (333)
Q Consensus        88 ~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~  167 (333)
                      +|+.|++.... +...     ..+..+++|++|++++|.+.                  .+ ..+..+++|+.|++++|.
T Consensus       113 ~L~~L~L~~n~-i~~~-----~~l~~l~~L~~L~l~~n~l~------------------~~-~~l~~l~~L~~L~L~~N~  167 (291)
T 1h6t_A          113 KLKSLSLEHNG-ISDI-----NGLVHLPQLESLYLGNNKIT------------------DI-TVLSRLTKLDTLSLEDNQ  167 (291)
T ss_dssp             TCCEEECTTSC-CCCC-----GGGGGCTTCCEEECCSSCCC------------------CC-GGGGGCTTCSEEECCSSC
T ss_pred             CCCEEECCCCc-CCCC-----hhhcCCCCCCEEEccCCcCC------------------cc-hhhccCCCCCEEEccCCc
Confidence            77777776532 2221     24556677777777777432                  22 345566777777777776


Q ss_pred             CCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceeccccc
Q 044247          168 GRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMK  216 (333)
Q Consensus       168 ~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~  216 (333)
                      ...  + +. +..+++|+.|++++| .++.++.+..+++|+.|++++|.
T Consensus       168 l~~--~-~~-l~~l~~L~~L~L~~N-~i~~l~~l~~l~~L~~L~l~~n~  211 (291)
T 1h6t_A          168 ISD--I-VP-LAGLTKLQNLYLSKN-HISDLRALAGLKNLDVLELFSQE  211 (291)
T ss_dssp             CCC--C-GG-GTTCTTCCEEECCSS-CCCBCGGGTTCTTCSEEEEEEEE
T ss_pred             ccc--c-hh-hcCCCccCEEECCCC-cCCCChhhccCCCCCEEECcCCc
Confidence            665  4 33 666777777777777 45556666777777777777766

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.65  E-value=7.1e-15  Score=139.54  Aligned_cols=229  Identities=18%  Similarity=0.084  Sum_probs=148.1

Q ss_pred             CCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCc
Q 044247           11 LYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLR   90 (333)
Q Consensus        11 l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~   90 (333)
                      ..++++|+++++. +..+|..+.  ++|++|++++| .+..+|.   .+++|++|++++|....    .+.   .+++|+
T Consensus        39 ~~~l~~L~ls~n~-L~~lp~~l~--~~L~~L~L~~N-~l~~lp~---~l~~L~~L~Ls~N~l~~----lp~---~l~~L~  104 (622)
T 3g06_A           39 NNGNAVLNVGESG-LTTLPDCLP--AHITTLVIPDN-NLTSLPA---LPPELRTLEVSGNQLTS----LPV---LPPGLL  104 (622)
T ss_dssp             HHCCCEEECCSSC-CSCCCSCCC--TTCSEEEECSC-CCSCCCC---CCTTCCEEEECSCCCSC----CCC---CCTTCC
T ss_pred             CCCCcEEEecCCC-cCccChhhC--CCCcEEEecCC-CCCCCCC---cCCCCCEEEcCCCcCCc----CCC---CCCCCC
Confidence            3468999999998 779998776  89999999999 6778876   57899999999988653    333   567888


Q ss_pred             eeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCC
Q 044247           91 QCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRR  170 (333)
Q Consensus        91 ~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~  170 (333)
                      .|++.... +....       ..+++|++|++++|.+.                  .++..   +++|+.|++++|....
T Consensus       105 ~L~Ls~N~-l~~l~-------~~l~~L~~L~L~~N~l~------------------~lp~~---l~~L~~L~Ls~N~l~~  155 (622)
T 3g06_A          105 ELSIFSNP-LTHLP-------ALPSGLCKLWIFGNQLT------------------SLPVL---PPGLQELSVSDNQLAS  155 (622)
T ss_dssp             EEEECSCC-CCCCC-------CCCTTCCEEECCSSCCS------------------CCCCC---CTTCCEEECCSSCCSC
T ss_pred             EEECcCCc-CCCCC-------CCCCCcCEEECCCCCCC------------------cCCCC---CCCCCEEECcCCcCCC
Confidence            88876532 22211       14578999999999542                  22222   3678888888776665


Q ss_pred             CccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCC----C-CCccccCCCccE
Q 044247          171 NVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDT----D-GSSVIAFPKLKR  245 (333)
Q Consensus       171 ~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~----~-~~~~~~l~~L~~  245 (333)
                        + +.   .+++|+.|++++| .+..+|  ..+++|+.|++++|. ++.++..........    . ......+++|++
T Consensus       156 --l-~~---~~~~L~~L~L~~N-~l~~l~--~~~~~L~~L~Ls~N~-l~~l~~~~~~L~~L~L~~N~l~~l~~~~~~L~~  225 (622)
T 3g06_A          156 --L-PA---LPSELCKLWAYNN-QLTSLP--MLPSGLQELSVSDNQ-LASLPTLPSELYKLWAYNNRLTSLPALPSGLKE  225 (622)
T ss_dssp             --C-CC---CCTTCCEEECCSS-CCSCCC--CCCTTCCEEECCSSC-CSCCCCCCTTCCEEECCSSCCSSCCCCCTTCCE
T ss_pred             --c-CC---ccCCCCEEECCCC-CCCCCc--ccCCCCcEEECCCCC-CCCCCCccchhhEEECcCCcccccCCCCCCCCE
Confidence              5 43   2455666666665 334444  334566666666655 433332110000000    0 000113467888


Q ss_pred             EeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccCh
Q 044247          246 LRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       246 L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                      |+++++ +++.++         ..+++|+.|++++| .++.+|.   .+++|+.|++ .+|.
T Consensus       226 L~Ls~N-~L~~lp---------~~l~~L~~L~Ls~N-~L~~lp~---~~~~L~~L~L-s~N~  272 (622)
T 3g06_A          226 LIVSGN-RLTSLP---------VLPSELKELMVSGN-RLTSLPM---LPSGLLSLSV-YRNQ  272 (622)
T ss_dssp             EECCSS-CCSCCC---------CCCTTCCEEECCSS-CCSCCCC---CCTTCCEEEC-CSSC
T ss_pred             EEccCC-ccCcCC---------CCCCcCcEEECCCC-CCCcCCc---ccccCcEEeC-CCCC
Confidence            888775 454433         25689999999985 6777777   4789999999 8874

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.65  E-value=5.7e-18  Score=156.12  Aligned_cols=141  Identities=17%  Similarity=0.147  Sum_probs=75.1

Q ss_pred             CCCCccEEEEeeecCCCCc---cCchhhhcCCCccEEEeecCCCCCCC-----CC--CCCCccccceecccccccccccc
Q 044247          154 PPPNLKELHIHEYRGRRNV---VPKNWVMSLTNLRVLHLFECRNCEHL-----PP--LGKLTSLEDLYIAGMKSVKRVGN  223 (333)
Q Consensus       154 ~~~~L~~L~l~~~~~~~~~---~~~~~~~~~~~L~~L~l~~~~~~~~l-----~~--~~~l~~L~~L~l~~~~~l~~i~~  223 (333)
                      .+++|+.|++++|......   + +..+..+++|+.|++++|. +++.     ..  ....++|++|++++|. +.....
T Consensus       254 ~~~~L~~L~L~~n~l~~~~~~~l-~~~l~~~~~L~~L~Ls~n~-i~~~~~~~l~~~l~~~~~~L~~L~L~~n~-l~~~~~  330 (461)
T 1z7x_W          254 PSSRLRTLWIWECGITAKGCGDL-CRVLRAKESLKELSLAGNE-LGDEGARLLCETLLEPGCQLESLWVKSCS-FTAACC  330 (461)
T ss_dssp             TTCCCCEEECTTSCCCHHHHHHH-HHHHHHCTTCCEEECTTCC-CHHHHHHHHHHHHTSTTCCCCEEECTTSC-CBGGGH
T ss_pred             CCCCceEEECcCCCCCHHHHHHH-HHHHhhCCCcceEECCCCC-CchHHHHHHHHHhccCCccceeeEcCCCC-CchHHH
Confidence            4566777777666543310   1 2334456777777777763 2211     00  1123567777777766 332211


Q ss_pred             cccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccc-cCCCcceEecccCcCcc----cCCcccCCCCCcc
Q 044247          224 EFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEII-IMPRLSSLSIQSCRELK----ALPDHLLQKSTLQ  298 (333)
Q Consensus       224 ~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~-~~~~L~~L~l~~c~~l~----~l~~~~~~l~~L~  298 (333)
                      ..+..       .+..+++|++|+++++ .+.+..... +...+. ..++|++|++++|..-.    .++..+..+++|+
T Consensus       331 ~~l~~-------~l~~~~~L~~L~Ls~n-~i~~~~~~~-l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~  401 (461)
T 1z7x_W          331 SHFSS-------VLAQNRFLLELQISNN-RLEDAGVRE-LCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLR  401 (461)
T ss_dssp             HHHHH-------HHHHCSSCCEEECCSS-BCHHHHHHH-HHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCCCCC
T ss_pred             HHHHH-------HHhhCCCccEEEccCC-ccccccHHH-HHHHHcCCCCceEEEECCCCCCChhhHHHHHHHHHhCCCcc
Confidence            00000       0345678888888775 343321100 001111 25788888888875332    5666666688888


Q ss_pred             eEEEcccCh
Q 044247          299 NLEIWGACH  307 (333)
Q Consensus       299 ~L~l~~~c~  307 (333)
                      .|++ ++|+
T Consensus       402 ~L~l-~~N~  409 (461)
T 1z7x_W          402 ELDL-SNNC  409 (461)
T ss_dssp             EEEC-CSSS
T ss_pred             EEEC-CCCC
Confidence            8888 8775

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.65  E-value=5.5e-18  Score=156.21  Aligned_cols=40  Identities=25%  Similarity=0.209  Sum_probs=20.4

Q ss_pred             ccccCCCcceEecccCcCcccC-Cc----ccC-CCCCcceEEEcccCh
Q 044247          266 EIIIMPRLSSLSIQSCRELKAL-PD----HLL-QKSTLQNLEIWGACH  307 (333)
Q Consensus       266 ~~~~~~~L~~L~l~~c~~l~~l-~~----~~~-~l~~L~~L~l~~~c~  307 (333)
                      .+..+++|++|++++|. ++.. +.    .+. ..++|+.|++ ++|.
T Consensus       336 ~l~~~~~L~~L~Ls~n~-i~~~~~~~l~~~l~~~~~~L~~L~L-~~n~  381 (461)
T 1z7x_W          336 VLAQNRFLLELQISNNR-LEDAGVRELCQGLGQPGSVLRVLWL-ADCD  381 (461)
T ss_dssp             HHHHCSSCCEEECCSSB-CHHHHHHHHHHHHTSTTCCCCEEEC-TTSC
T ss_pred             HHhhCCCccEEEccCCc-cccccHHHHHHHHcCCCCceEEEEC-CCCC
Confidence            34455666666666653 3221 11    111 1456777777 6664

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=99.63  E-value=5.9e-17  Score=153.99  Aligned_cols=265  Identities=12%  Similarity=0.062  Sum_probs=139.7

Q ss_pred             ccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCC--------------------------ccccccccc
Q 044247            4 LPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDS--------------------------LRYLPVGIG   57 (333)
Q Consensus         4 lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~--------------------------~~~~p~~i~   57 (333)
                      ++..+.++++|++|++.+|. +..+|..+..+++|++|+++.+..                          ...+|..+.
T Consensus       212 l~~~~~~~~~L~~L~L~~~~-~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l~~~~~  290 (592)
T 3ogk_B          212 LETIARNCRSLVSVKVGDFE-ILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFP  290 (592)
T ss_dssp             HHHHHHHCTTCCEEECSSCB-GGGGHHHHHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTCCTTTGGGGGG
T ss_pred             HHHHHhhCCCCcEEeccCcc-HHHHHHHHhhhhHHHhhcccccccccchHHHHHHhhccccccccCccccchhHHHHHHh
Confidence            44556678889999998887 555676677777777777764311                          122333334


Q ss_pred             ccccCceeeeEEEcCccCCCCCccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEee----------c-C
Q 044247           58 ELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDF----------D-N  126 (333)
Q Consensus        58 ~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~----------~-~  126 (333)
                      .+++|++|++++|....  ......+..+++|+.|.+..  .+  ...........+++|++|++.+          + .
T Consensus       291 ~~~~L~~L~Ls~~~l~~--~~~~~~~~~~~~L~~L~L~~--~~--~~~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~~~~  364 (592)
T 3ogk_B          291 FAAQIRKLDLLYALLET--EDHCTLIQKCPNLEVLETRN--VI--GDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGL  364 (592)
T ss_dssp             GGGGCCEEEETTCCCCH--HHHHHHHTTCTTCCEEEEEG--GG--HHHHHHHHHHHCTTCCEEEEECCCCSSTTSSTTCC
T ss_pred             hcCCCcEEecCCCcCCH--HHHHHHHHhCcCCCEEeccC--cc--CHHHHHHHHHhCCCCCEEEeecCccccccccccCc
Confidence            44555555555444221  11111234445555544441  11  1122223334455566666652          1 1


Q ss_pred             CCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhh-cCCCccEEEeec---CCCCCCCCC--
Q 044247          127 LRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVM-SLTNLRVLHLFE---CRNCEHLPP--  200 (333)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~-~~~~L~~L~l~~---~~~~~~l~~--  200 (333)
                      +                ....+......+++|+.|+++.+..... . ...+. .+++|+.|++++   |..+++.|.  
T Consensus       365 ~----------------~~~~~~~l~~~~~~L~~L~l~~~~l~~~-~-~~~l~~~~~~L~~L~l~~~~~~n~l~~~p~~~  426 (592)
T 3ogk_B          365 V----------------SQRGLIALAQGCQELEYMAVYVSDITNE-S-LESIGTYLKNLCDFRLVLLDREERITDLPLDN  426 (592)
T ss_dssp             C----------------CHHHHHHHHHHCTTCSEEEEEESCCCHH-H-HHHHHHHCCSCCEEEEEECSCCSCCSSCCCHH
T ss_pred             c----------------CHHHHHHHHhhCccCeEEEeecCCccHH-H-HHHHHhhCCCCcEEEEeecCCCccccCchHHH
Confidence            1                1111111223456777777754443321 1 22333 377777777763   334444321  


Q ss_pred             -----CCCCccccceecccccc-cccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcc
Q 044247          201 -----LGKLTSLEDLYIAGMKS-VKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLS  274 (333)
Q Consensus       201 -----~~~l~~L~~L~l~~~~~-l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~  274 (333)
                           +.++++|+.|+++.|.+ +.......+          ...+++|++|++++|. +.+.    +++..+..+++|+
T Consensus       427 ~~~~~~~~~~~L~~L~L~~~~~~l~~~~~~~~----------~~~~~~L~~L~L~~n~-l~~~----~~~~~~~~~~~L~  491 (592)
T 3ogk_B          427 GVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYI----------GQYSPNVRWMLLGYVG-ESDE----GLMEFSRGCPNLQ  491 (592)
T ss_dssp             HHHHHHHHCTTCCEEEEECCGGGCCHHHHHHH----------HHSCTTCCEEEECSCC-SSHH----HHHHHHTCCTTCC
T ss_pred             HHHHHHHhCCCCCEEEEecCCCCccHHHHHHH----------HHhCccceEeeccCCC-CCHH----HHHHHHhcCcccC
Confidence                 33467778888765542 111110000          2347778888887753 3221    2333345678999


Q ss_pred             eEecccCcCcc--cCCcccCCCCCcceEEEcccChhhHh
Q 044247          275 SLSIQSCRELK--ALPDHLLQKSTLQNLEIWGACHILQE  311 (333)
Q Consensus       275 ~L~l~~c~~l~--~l~~~~~~l~~L~~L~l~~~c~~l~~  311 (333)
                      +|++++|+ ++  .++.....+++|+.|++ ++|. +++
T Consensus       492 ~L~l~~n~-l~~~~~~~~~~~l~~L~~L~l-s~n~-it~  527 (592)
T 3ogk_B          492 KLEMRGCC-FSERAIAAAVTKLPSLRYLWV-QGYR-ASM  527 (592)
T ss_dssp             EEEEESCC-CBHHHHHHHHHHCSSCCEEEE-ESCB-CCT
T ss_pred             eeeccCCC-CcHHHHHHHHHhcCccCeeEC-cCCc-CCH
Confidence            99999987 43  24444456889999999 8887 443

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

Probab=99.63  E-value=4e-16  Score=136.35  Aligned_cols=223  Identities=14%  Similarity=0.043  Sum_probs=155.5

Q ss_pred             CcccEEeecCCCccc----ccCccccccccccEEecCCCCCcccccccc--cccccCceeeeEEEcCccCCCCC-ccccc
Q 044247           12 YNLERVNVSGCSHLR----ELPQGIGKLRKLMYLDNDYTDSLRYLPVGI--GELIRLRRVTKFVVCGGYDRACS-LGSLK   84 (333)
Q Consensus        12 ~~L~~L~l~~~~~~~----~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i--~~l~~L~~L~l~~~~~~~~~~~~-~~~l~   84 (333)
                      ..++.+.+..+....    .++. ...+++|++|++++|......|..+  ..+++|++|++++|......... ...+.
T Consensus        64 ~~l~~l~l~~~~~~~~~~~~~~~-~~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~  142 (310)
T 4glp_A           64 LRVRRLTVGAAQVPAQLLVGALR-VLAYSRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQW  142 (310)
T ss_dssp             CCCCEEEECSCCCBHHHHHHHHH-HHHHSCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTT
T ss_pred             cceeEEEEeCCcCCHHHHHHHHH-hcccCceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhh
Confidence            357888888887321    1222 2346779999999996555667666  88999999999998876310100 12334


Q ss_pred             cCccCceeEecCCC--CCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccc--cccCCCCCCccE
Q 044247           85 KLNLLRQCSIDGLG--GVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERL--LDALGPPPNLKE  160 (333)
Q Consensus        85 ~l~~L~~L~l~~~~--~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~~~~~L~~  160 (333)
                      .+++|+.|++....  .+..      ..+..+++|++|++++|.+..               ....  ...+..+++|++
T Consensus       143 ~~~~L~~L~Ls~n~l~~~~~------~~~~~l~~L~~L~Ls~N~l~~---------------~~~~~~~~~~~~l~~L~~  201 (310)
T 4glp_A          143 LKPGLKVLSIAQAHSPAFSC------EQVRAFPALTSLDLSDNPGLG---------------ERGLMAALCPHKFPAIQN  201 (310)
T ss_dssp             BCSCCCEEEEECCSSCCCCT------TSCCCCTTCCEEECCSCTTCH---------------HHHHHTTSCTTSSCCCCS
T ss_pred             hccCCCEEEeeCCCcchhhH------HHhccCCCCCEEECCCCCCcc---------------chhhhHHHhhhcCCCCCE
Confidence            68889988876532  2221      356788999999999996321               1112  223457889999


Q ss_pred             EEEeeecCCCCccCch----hhhcCCCccEEEeecCCCCCCCCC-CCCC---ccccceecccccccccccccccCCCCCC
Q 044247          161 LHIHEYRGRRNVVPKN----WVMSLTNLRVLHLFECRNCEHLPP-LGKL---TSLEDLYIAGMKSVKRVGNEFLGVESDT  232 (333)
Q Consensus       161 L~l~~~~~~~~~~~~~----~~~~~~~L~~L~l~~~~~~~~l~~-~~~l---~~L~~L~l~~~~~l~~i~~~~~~~~~~~  232 (333)
                      |++++|....  + +.    .+..+++|+.|++++|......|. ++.+   ++|++|++++|. ++.+|..        
T Consensus       202 L~Ls~N~l~~--l-~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~-l~~lp~~--------  269 (310)
T 4glp_A          202 LALRNTGMET--P-TGVCAALAAAGVQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFAG-LEQVPKG--------  269 (310)
T ss_dssp             CBCCSSCCCC--H-HHHHHHHHHHTCCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSSC-CCSCCSC--------
T ss_pred             EECCCCCCCc--h-HHHHHHHHhcCCCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCCC-CCchhhh--------
Confidence            9999998876  5 44    246789999999999954444343 4444   799999999998 6666543        


Q ss_pred             CCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCc
Q 044247          233 DGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCR  282 (333)
Q Consensus       233 ~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~  282 (333)
                            .+++|++|+++++ .++.++.. .      .+++|+.|++++++
T Consensus       270 ------~~~~L~~L~Ls~N-~l~~~~~~-~------~l~~L~~L~L~~N~  305 (310)
T 4glp_A          270 ------LPAKLRVLDLSSN-RLNRAPQP-D------ELPEVDNLTLDGNP  305 (310)
T ss_dssp             ------CCSCCSCEECCSC-CCCSCCCT-T------SCCCCSCEECSSTT
T ss_pred             ------hcCCCCEEECCCC-cCCCCchh-h------hCCCccEEECcCCC
Confidence                  2479999999985 67776542 2      67999999999865

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.63  E-value=5.7e-17  Score=143.18  Aligned_cols=191  Identities=15%  Similarity=0.138  Sum_probs=114.1

Q ss_pred             cccchhcCCCcccEEeecCCCcccc-cCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCC-CCc
Q 044247            3 KLPETLCELYNLERVNVSGCSHLRE-LPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRA-CSL   80 (333)
Q Consensus         3 ~lp~~l~~l~~L~~L~l~~~~~~~~-lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~-~~~   80 (333)
                      ..+..+..+++|++|++++|..... +|..+..+++|++|++++|......+..++.+++|++|++.+|....  . ...
T Consensus        84 ~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~--~~~l~  161 (336)
T 2ast_B           84 QPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFS--EFALQ  161 (336)
T ss_dssp             SCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCC--HHHHH
T ss_pred             ccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCC--HHHHH
Confidence            3445577899999999999983334 88888999999999999995444566678888999999887763221  1 122


Q ss_pred             cccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeec-CCCCCchhhhcccCCcccccccccccCCCCC-Cc
Q 044247           81 GSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFD-NLRDGDEEQAGRRENEEDEDERLLDALGPPP-NL  158 (333)
Q Consensus        81 ~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~L  158 (333)
                      ..+..+                            ++|++|++++| .+.                ...+...+..++ +|
T Consensus       162 ~~~~~~----------------------------~~L~~L~l~~~~~l~----------------~~~~~~~~~~l~~~L  197 (336)
T 2ast_B          162 TLLSSC----------------------------SRLDELNLSWCFDFT----------------EKHVQVAVAHVSETI  197 (336)
T ss_dssp             HHHHHC----------------------------TTCCEEECCCCTTCC----------------HHHHHHHHHHSCTTC
T ss_pred             HHHhcC----------------------------CCCCEEcCCCCCCcC----------------hHHHHHHHHhcccCC
Confidence            223344                            45555555544 321                011222233344 55


Q ss_pred             cEEEEeeec--CCCCccCchhhhcCCCccEEEeecCCCCCC--CCCCCCCccccceecccccccccccccccCCCCCCCC
Q 044247          159 KELHIHEYR--GRRNVVPKNWVMSLTNLRVLHLFECRNCEH--LPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDG  234 (333)
Q Consensus       159 ~~L~l~~~~--~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~--l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~  234 (333)
                      +.|++++|.  .....+ +..+..+++|+.|++++|..+++  ++.++.+++|++|++++|..+...  . ...      
T Consensus       198 ~~L~l~~~~~~~~~~~l-~~~~~~~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l~~~~~~~~~--~-~~~------  267 (336)
T 2ast_B          198 TQLNLSGYRKNLQKSDL-STLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPE--T-LLE------  267 (336)
T ss_dssp             CEEECCSCGGGSCHHHH-HHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGG--G-GGG------
T ss_pred             CEEEeCCCcccCCHHHH-HHHHhhCCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEeeCCCCCCCCHH--H-HHH------
Confidence            555555553  111113 44455677777777777753332  333666677777777777522211  1 111      


Q ss_pred             CccccCCCccEEeeccC
Q 044247          235 SSVIAFPKLKRLRFWSM  251 (333)
Q Consensus       235 ~~~~~l~~L~~L~l~~~  251 (333)
                        +..+++|++|++++|
T Consensus       268 --l~~~~~L~~L~l~~~  282 (336)
T 2ast_B          268 --LGEIPTLKTLQVFGI  282 (336)
T ss_dssp             --GGGCTTCCEEECTTS
T ss_pred             --HhcCCCCCEEeccCc
Confidence              456778888888876

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=99.63  E-value=4e-17  Score=155.15  Aligned_cols=38  Identities=21%  Similarity=0.269  Sum_probs=27.8

Q ss_pred             cCCCcceEecccCcCcc-cCCcccCCCCCcceEEEcccCh
Q 044247          269 IMPRLSSLSIQSCRELK-ALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       269 ~~~~L~~L~l~~c~~l~-~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                      .+++|++|++++|..-. .++..+..+++|+.|++ ++|+
T Consensus       461 ~~~~L~~L~L~~n~l~~~~~~~~~~~~~~L~~L~l-~~n~  499 (592)
T 3ogk_B          461 YSPNVRWMLLGYVGESDEGLMEFSRGCPNLQKLEM-RGCC  499 (592)
T ss_dssp             SCTTCCEEEECSCCSSHHHHHHHHTCCTTCCEEEE-ESCC
T ss_pred             hCccceEeeccCCCCCHHHHHHHHhcCcccCeeec-cCCC
Confidence            47888888888765322 34445567899999999 9997

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.61  E-value=4.8e-17  Score=145.31  Aligned_cols=250  Identities=11%  Similarity=0.039  Sum_probs=158.3

Q ss_pred             ccchhcCCCcccEEeecCCCcccccC-----ccccccc-cccEEecCCCCCccc-cccccccc-----ccCceeeeEEEc
Q 044247            4 LPETLCELYNLERVNVSGCSHLRELP-----QGIGKLR-KLMYLDNDYTDSLRY-LPVGIGEL-----IRLRRVTKFVVC   71 (333)
Q Consensus         4 lp~~l~~l~~L~~L~l~~~~~~~~lp-----~~i~~l~-~L~~L~l~~~~~~~~-~p~~i~~l-----~~L~~L~l~~~~   71 (333)
                      +|..+...++|++|++++|. +...+     ..+..++ +|++|++++| .+.. .+..+..+     ++|++|++++|.
T Consensus        14 ~~~~~~~~~~L~~L~Ls~n~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~   91 (362)
T 3goz_A           14 VEEFTSIPHGVTSLDLSLNN-LYSISTVELIQAFANTPASVTSLNLSGN-SLGFKNSDELVQILAAIPANVTSLNLSGNF   91 (362)
T ss_dssp             HHHHHTSCTTCCEEECTTSC-GGGSCHHHHHHHHHTCCTTCCEEECCSS-CGGGSCHHHHHHHHHTSCTTCCEEECCSSC
T ss_pred             HHHHHhCCCCceEEEccCCC-CChHHHHHHHHHHHhCCCceeEEECcCC-CCCHHHHHHHHHHHhccCCCccEEECcCCc
Confidence            45556666779999999998 55444     5677888 8999999999 4444 34445554     899999999988


Q ss_pred             CccCCCCCccc----cccC-ccCceeEecCCCCCCChhhHHHHhhccc-CCccceEEeecCCCCCchhhhcccCCccccc
Q 044247           72 GGYDRACSLGS----LKKL-NLLRQCSIDGLGGVSDAGEARRAELEKK-KNLFDLELDFDNLRDGDEEQAGRRENEEDED  145 (333)
Q Consensus        72 ~~~~~~~~~~~----l~~l-~~L~~L~l~~~~~~~~~~~~~~~~l~~~-~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~  145 (333)
                      ...   .....    +..+ ++|+.|++....--......+...+..+ ++|++|++++|.+.+.             ..
T Consensus        92 l~~---~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~-------------~~  155 (362)
T 3goz_A           92 LSY---KSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIK-------------SS  155 (362)
T ss_dssp             GGG---SCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGS-------------CH
T ss_pred             CCh---HHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHH-------------HH
Confidence            653   22332    3444 7888888876442222223333445553 6999999999864321             11


Q ss_pred             ccccccCCCCC-CccEEEEeeecCCCCccCchh----hhcC-CCccEEEeecCCCCCC-----CCC-CCC-Cccccceec
Q 044247          146 ERLLDALGPPP-NLKELHIHEYRGRRNVVPKNW----VMSL-TNLRVLHLFECRNCEH-----LPP-LGK-LTSLEDLYI  212 (333)
Q Consensus       146 ~~~~~~l~~~~-~L~~L~l~~~~~~~~~~~~~~----~~~~-~~L~~L~l~~~~~~~~-----l~~-~~~-l~~L~~L~l  212 (333)
                      ..+...+...+ +|+.|++++|....  ..+..    +..+ ++|+.|++++|. ++.     ++. +.. .++|++|++
T Consensus       156 ~~l~~~l~~~~~~L~~L~Ls~n~l~~--~~~~~l~~~l~~~~~~L~~L~Ls~N~-i~~~~~~~l~~~l~~~~~~L~~L~L  232 (362)
T 3goz_A          156 DELIQILAAIPANVNSLNLRGNNLAS--KNCAELAKFLASIPASVTSLDLSANL-LGLKSYAELAYIFSSIPNHVVSLNL  232 (362)
T ss_dssp             HHHHHHHHTSCTTCCEEECTTSCGGG--SCHHHHHHHHHTSCTTCCEEECTTSC-GGGSCHHHHHHHHHHSCTTCCEEEC
T ss_pred             HHHHHHHhcCCccccEeeecCCCCch--hhHHHHHHHHHhCCCCCCEEECCCCC-CChhHHHHHHHHHhcCCCCceEEEC
Confidence            23344444554 89999999987665  31333    3345 599999999984 443     222 322 358999999


Q ss_pred             ccccccccccccccCCCCCCCCCccccCCCccEEeeccCcccccccc--CCccccccccCCCcceEecccCcC
Q 044247          213 AGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDL--GTAIKGEIIIMPRLSSLSIQSCRE  283 (333)
Q Consensus       213 ~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~--~~~~~~~~~~~~~L~~L~l~~c~~  283 (333)
                      ++|. +...+...+...       ...+++|++|++++|. +..+..  ...++..+..+++|++|++++++.
T Consensus       233 s~N~-l~~~~~~~l~~~-------~~~l~~L~~L~L~~n~-l~~i~~~~~~~l~~~~~~l~~L~~LdL~~N~l  296 (362)
T 3goz_A          233 CLNC-LHGPSLENLKLL-------KDSLKHLQTVYLDYDI-VKNMSKEQCKALGAAFPNIQKIILVDKNGKEI  296 (362)
T ss_dssp             CSSC-CCCCCHHHHHHT-------TTTTTTCSEEEEEHHH-HTTCCHHHHHHHHTTSTTCCEEEEECTTSCBC
T ss_pred             cCCC-CCcHHHHHHHHH-------HhcCCCccEEEeccCC-ccccCHHHHHHHHHHhccCCceEEEecCCCcC
Confidence            9987 554432211110       4677899999999863 222220  111233445778899999998653

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A

Probab=99.61  E-value=1.9e-15  Score=143.26  Aligned_cols=174  Identities=20%  Similarity=0.174  Sum_probs=137.9

Q ss_pred             hcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCc
Q 044247            8 LCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLN   87 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~   87 (333)
                      +..+.+|+.|++++|. +..+|. +..+++|+.|++++| .+..++. +..+++|+.|++++|....     ++.+..++
T Consensus        39 ~~~L~~L~~L~l~~n~-i~~l~~-l~~l~~L~~L~Ls~N-~l~~~~~-l~~l~~L~~L~Ls~N~l~~-----l~~l~~l~  109 (605)
T 1m9s_A           39 QNELNSIDQIIANNSD-IKSVQG-IQYLPNVTKLFLNGN-KLTDIKP-LTNLKNLGWLFLDENKIKD-----LSSLKDLK  109 (605)
T ss_dssp             HHHHTTCCCCBCTTCC-CCCCTT-GGGCTTCCEEECTTS-CCCCCGG-GGGCTTCCEEECCSSCCCC-----CTTSTTCT
T ss_pred             hhcCCCCCEEECcCCC-CCCChH-HccCCCCCEEEeeCC-CCCCChh-hccCCCCCEEECcCCCCCC-----ChhhccCC
Confidence            5678899999999998 777774 889999999999998 5566665 8899999999999887753     34678888


Q ss_pred             cCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeec
Q 044247           88 LLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYR  167 (333)
Q Consensus        88 ~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~  167 (333)
                      +|+.|++....- ...     ..+..+++|+.|++++|.+.                  .+ ..+..+++|+.|++++|.
T Consensus       110 ~L~~L~Ls~N~l-~~l-----~~l~~l~~L~~L~Ls~N~l~------------------~l-~~l~~l~~L~~L~Ls~N~  164 (605)
T 1m9s_A          110 KLKSLSLEHNGI-SDI-----NGLVHLPQLESLYLGNNKIT------------------DI-TVLSRLTKLDTLSLEDNQ  164 (605)
T ss_dssp             TCCEEECTTSCC-CCC-----GGGGGCTTCSEEECCSSCCC------------------CC-GGGGSCTTCSEEECCSSC
T ss_pred             CCCEEEecCCCC-CCC-----ccccCCCccCEEECCCCccC------------------Cc-hhhcccCCCCEEECcCCc
Confidence            999988876432 221     24778899999999998532                  22 567788999999999988


Q ss_pred             CCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccc
Q 044247          168 GRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRV  221 (333)
Q Consensus       168 ~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i  221 (333)
                      ...  + +. +..+++|+.|+|++| .+..++.+..+++|+.|++++|. +...
T Consensus       165 l~~--~-~~-l~~l~~L~~L~Ls~N-~i~~l~~l~~l~~L~~L~L~~N~-l~~~  212 (605)
T 1m9s_A          165 ISD--I-VP-LAGLTKLQNLYLSKN-HISDLRALAGLKNLDVLELFSQE-CLNK  212 (605)
T ss_dssp             CCC--C-GG-GTTCTTCCEEECCSS-CCCBCGGGTTCTTCSEEECCSEE-EECC
T ss_pred             CCC--c-hh-hccCCCCCEEECcCC-CCCCChHHccCCCCCEEEccCCc-CcCC
Confidence            877  5 44 778999999999998 56667778889999999999987 4433

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.60  E-value=9.7e-17  Score=143.33  Aligned_cols=262  Identities=10%  Similarity=0.035  Sum_probs=170.7

Q ss_pred             EEeecCCCcccccCccccccccccEEecCCCCCccccc-----ccccccc-cCceeeeEEEcCccCCCCCccccccC---
Q 044247           16 RVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLP-----VGIGELI-RLRRVTKFVVCGGYDRACSLGSLKKL---   86 (333)
Q Consensus        16 ~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p-----~~i~~l~-~L~~L~l~~~~~~~~~~~~~~~l~~l---   86 (333)
                      ++.++.+...+.+|..+...++|++|++++| .+...+     ..+..++ +|++|++++|....   ..+..+..+   
T Consensus         2 ~~~ls~n~~~~~~~~~~~~~~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~---~~~~~l~~~l~~   77 (362)
T 3goz_A            2 NYKLTLHPGSNPVEEFTSIPHGVTSLDLSLN-NLYSISTVELIQAFANTPASVTSLNLSGNSLGF---KNSDELVQILAA   77 (362)
T ss_dssp             EEECCCCTTCCHHHHHHTSCTTCCEEECTTS-CGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGG---SCHHHHHHHHHT
T ss_pred             ccccccccchHHHHHHHhCCCCceEEEccCC-CCChHHHHHHHHHHHhCCCceeEEECcCCCCCH---HHHHHHHHHHhc
Confidence            4567788755567776666677999999999 455554     4567788 89999999987763   334445443   


Q ss_pred             --ccCceeEecCCCCCCChhhHHHHhhccc-CCccceEEeecCCCCCchhhhcccCCcccccccccccCCC-CCCccEEE
Q 044247           87 --NLLRQCSIDGLGGVSDAGEARRAELEKK-KNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGP-PPNLKELH  162 (333)
Q Consensus        87 --~~L~~L~l~~~~~~~~~~~~~~~~l~~~-~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~L~~L~  162 (333)
                        ++|+.|++....--......+...+..+ ++|++|++++|.+.+.             ....+...+.. .++|+.|+
T Consensus        78 ~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~-------------~~~~l~~~l~~~~~~L~~L~  144 (362)
T 3goz_A           78 IPANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSK-------------SSSEFKQAFSNLPASITSLN  144 (362)
T ss_dssp             SCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGS-------------CHHHHHHHHTTSCTTCCEEE
T ss_pred             cCCCccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcH-------------HHHHHHHHHHhCCCceeEEE
Confidence              8899998876543222333444556666 8999999999974322             11223334455 36999999


Q ss_pred             EeeecCCCCc---cCchhhhcCC-CccEEEeecCCCCCCCCC------CCCC-ccccceecccccccccccccccCCCCC
Q 044247          163 IHEYRGRRNV---VPKNWVMSLT-NLRVLHLFECRNCEHLPP------LGKL-TSLEDLYIAGMKSVKRVGNEFLGVESD  231 (333)
Q Consensus       163 l~~~~~~~~~---~~~~~~~~~~-~L~~L~l~~~~~~~~l~~------~~~l-~~L~~L~l~~~~~l~~i~~~~~~~~~~  231 (333)
                      +++|......   + +..+..++ +|+.|++++|. ++....      +..+ ++|++|++++|. +.......+...  
T Consensus       145 Ls~N~l~~~~~~~l-~~~l~~~~~~L~~L~Ls~n~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-i~~~~~~~l~~~--  219 (362)
T 3goz_A          145 LRGNDLGIKSSDEL-IQILAAIPANVNSLNLRGNN-LASKNCAELAKFLASIPASVTSLDLSANL-LGLKSYAELAYI--  219 (362)
T ss_dssp             CTTSCGGGSCHHHH-HHHHHTSCTTCCEEECTTSC-GGGSCHHHHHHHHHTSCTTCCEEECTTSC-GGGSCHHHHHHH--
T ss_pred             ccCCcCCHHHHHHH-HHHHhcCCccccEeeecCCC-CchhhHHHHHHHHHhCCCCCCEEECCCCC-CChhHHHHHHHH--
Confidence            9998766310   2 33344555 99999999994 433321      3344 599999999998 554211101000  


Q ss_pred             CCCCcccc-CCCccEEeeccCccccccccCCccccccccCCCcceEecccCcC-------cccCCcccCCCCCcceEEEc
Q 044247          232 TDGSSVIA-FPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRE-------LKALPDHLLQKSTLQNLEIW  303 (333)
Q Consensus       232 ~~~~~~~~-l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~-------l~~l~~~~~~l~~L~~L~l~  303 (333)
                           +.. .++|++|+++++ .+.+.... .+...+..+++|+.|++++|..       +..++..+..+++|+.|++ 
T Consensus       220 -----l~~~~~~L~~L~Ls~N-~l~~~~~~-~l~~~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~~~l~~L~~LdL-  291 (362)
T 3goz_A          220 -----FSSIPNHVVSLNLCLN-CLHGPSLE-NLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDK-  291 (362)
T ss_dssp             -----HHHSCTTCCEEECCSS-CCCCCCHH-HHHHTTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTSTTCCEEEEECT-
T ss_pred             -----HhcCCCCceEEECcCC-CCCcHHHH-HHHHHHhcCCCccEEEeccCCccccCHHHHHHHHHHhccCCceEEEec-
Confidence                 223 459999999996 44443211 1123345789999999999761       2334456667889999999 


Q ss_pred             ccCh
Q 044247          304 GACH  307 (333)
Q Consensus       304 ~~c~  307 (333)
                      ++++
T Consensus       292 ~~N~  295 (362)
T 3goz_A          292 NGKE  295 (362)
T ss_dssp             TSCB
T ss_pred             CCCc
Confidence            8765

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

Probab=99.59  E-value=4.2e-15  Score=129.83  Aligned_cols=205  Identities=12%  Similarity=0.027  Sum_probs=147.1

Q ss_pred             CCCcccEEeecCCCcccccCccc--cccccccEEecCCCCCccccc----ccccccccCceeeeEEEcCccCCCCCcccc
Q 044247           10 ELYNLERVNVSGCSHLRELPQGI--GKLRKLMYLDNDYTDSLRYLP----VGIGELIRLRRVTKFVVCGGYDRACSLGSL   83 (333)
Q Consensus        10 ~l~~L~~L~l~~~~~~~~lp~~i--~~l~~L~~L~l~~~~~~~~~p----~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l   83 (333)
                      .+++|++|++++|...+..|..+  ..+++|++|++++|......+    ..+..+++|++|++++|...   ...+..+
T Consensus        89 ~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~---~~~~~~~  165 (310)
T 4glp_A           89 AYSRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSP---AFSCEQV  165 (310)
T ss_dssp             HHSCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSC---CCCTTSC
T ss_pred             ccCceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcc---hhhHHHh
Confidence            35679999999999667788877  889999999999995433322    23457899999999999875   4455677


Q ss_pred             ccCccCceeEecCCCCCCChhhHH--HHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccc-cCCCCCCccE
Q 044247           84 KKLNLLRQCSIDGLGGVSDAGEAR--RAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLD-ALGPPPNLKE  160 (333)
Q Consensus        84 ~~l~~L~~L~l~~~~~~~~~~~~~--~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~l~~~~~L~~  160 (333)
                      ..+++|+.|++....-...  ...  ...+..+++|++|++++|.+..               ...... .+..+++|+.
T Consensus       166 ~~l~~L~~L~Ls~N~l~~~--~~~~~~~~~~~l~~L~~L~Ls~N~l~~---------------l~~~~~~l~~~l~~L~~  228 (310)
T 4glp_A          166 RAFPALTSLDLSDNPGLGE--RGLMAALCPHKFPAIQNLALRNTGMET---------------PTGVCAALAAAGVQPHS  228 (310)
T ss_dssp             CCCTTCCEEECCSCTTCHH--HHHHTTSCTTSSCCCCSCBCCSSCCCC---------------HHHHHHHHHHHTCCCSS
T ss_pred             ccCCCCCEEECCCCCCccc--hhhhHHHhhhcCCCCCEEECCCCCCCc---------------hHHHHHHHHhcCCCCCE
Confidence            8899999998876432110  111  1123578899999999996431               111112 2356789999


Q ss_pred             EEEeeecCCCCccCchhhhcC---CCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCcc
Q 044247          161 LHIHEYRGRRNVVPKNWVMSL---TNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSV  237 (333)
Q Consensus       161 L~l~~~~~~~~~~~~~~~~~~---~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~  237 (333)
                      |++++|....  ..|..+..+   ++|++|++++| .++.+|..- +++|+.|++++|. ++.++.             .
T Consensus       229 L~Ls~N~l~~--~~p~~~~~~~~~~~L~~L~Ls~N-~l~~lp~~~-~~~L~~L~Ls~N~-l~~~~~-------------~  290 (310)
T 4glp_A          229 LDLSHNSLRA--TVNPSAPRCMWSSALNSLNLSFA-GLEQVPKGL-PAKLRVLDLSSNR-LNRAPQ-------------P  290 (310)
T ss_dssp             EECTTSCCCC--CCCSCCSSCCCCTTCCCEECCSS-CCCSCCSCC-CSCCSCEECCSCC-CCSCCC-------------T
T ss_pred             EECCCCCCCc--cchhhHHhccCcCcCCEEECCCC-CCCchhhhh-cCCCCEEECCCCc-CCCCch-------------h
Confidence            9999988766  324445544   79999999999 455666522 3899999999998 655532             4


Q ss_pred             ccCCCccEEeeccCc
Q 044247          238 IAFPKLKRLRFWSMS  252 (333)
Q Consensus       238 ~~l~~L~~L~l~~~~  252 (333)
                      ..+++|+.|++++++
T Consensus       291 ~~l~~L~~L~L~~N~  305 (310)
T 4glp_A          291 DELPEVDNLTLDGNP  305 (310)
T ss_dssp             TSCCCCSCEECSSTT
T ss_pred             hhCCCccEEECcCCC
Confidence            578999999999853

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=99.58  E-value=2.6e-14  Score=120.92  Aligned_cols=174  Identities=21%  Similarity=0.217  Sum_probs=95.0

Q ss_pred             CcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCce
Q 044247           12 YNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQ   91 (333)
Q Consensus        12 ~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~   91 (333)
                      ...++++++++. +..+|..+.  ++++.|++++|......+..+..+++|++|++++|....   .....+..++    
T Consensus        14 ~~~~~l~~~~~~-l~~~p~~~~--~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~---~~~~~~~~l~----   83 (251)
T 3m19_A           14 EGKKEVDCQGKS-LDSVPSGIP--ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQT---LSAGVFDDLT----   83 (251)
T ss_dssp             GGGTEEECTTCC-CSSCCSCCC--TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCC---CCTTTTTTCT----
T ss_pred             CCCeEEecCCCC-ccccCCCCC--CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCc---cCHhHhccCC----
Confidence            457788888887 777887655  688888888884333334457788888888887766542   2222233444    


Q ss_pred             eEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCC
Q 044247           92 CSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRN  171 (333)
Q Consensus        92 L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~  171 (333)
                                              +|++|++++|.+.                 ......+..+++|+.|++++|.... 
T Consensus        84 ------------------------~L~~L~L~~n~l~-----------------~~~~~~~~~l~~L~~L~L~~N~l~~-  121 (251)
T 3m19_A           84 ------------------------ELGTLGLANNQLA-----------------SLPLGVFDHLTQLDKLYLGGNQLKS-  121 (251)
T ss_dssp             ------------------------TCCEEECTTSCCC-----------------CCCTTTTTTCTTCCEEECCSSCCCC-
T ss_pred             ------------------------cCCEEECCCCccc-----------------ccChhHhcccCCCCEEEcCCCcCCC-
Confidence                                    4444555444311                 1112234445555555555555444 


Q ss_pred             ccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeec
Q 044247          172 VVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFW  249 (333)
Q Consensus       172 ~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~  249 (333)
                       +++..+..+++|+.|++++| .+..++.  ++.+++|+.|++++|. ++.++...           +..+++|+.|++.
T Consensus       122 -~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~-----------~~~l~~L~~L~l~  187 (251)
T 3m19_A          122 -LPSGVFDRLTKLKELRLNTN-QLQSIPAGAFDKLTNLQTLSLSTNQ-LQSVPHGA-----------FDRLGKLQTITLF  187 (251)
T ss_dssp             -CCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTT-----------TTTCTTCCEEECC
T ss_pred             -cChhHhccCCcccEEECcCC-cCCccCHHHcCcCcCCCEEECCCCc-CCccCHHH-----------HhCCCCCCEEEee
Confidence             42223445556666666655 3333333  4555566666666554 33333221           3355566666665


Q ss_pred             cC
Q 044247          250 SM  251 (333)
Q Consensus       250 ~~  251 (333)
                      ++
T Consensus       188 ~N  189 (251)
T 3m19_A          188 GN  189 (251)
T ss_dssp             SC
T ss_pred             CC
Confidence            53

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=99.54  E-value=3e-14  Score=123.23  Aligned_cols=169  Identities=20%  Similarity=0.250  Sum_probs=124.3

Q ss_pred             ccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCceeEecCCCCCCChhhHHHHhh
Q 044247           32 IGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAEL  111 (333)
Q Consensus        32 i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l  111 (333)
                      ...+++|+.|++++| .+..++ .++.+++|++|++++|....    ... +..+++|+.|++.... +...     ..+
T Consensus        42 ~~~l~~L~~L~l~~~-~i~~~~-~~~~l~~L~~L~L~~n~l~~----~~~-l~~l~~L~~L~l~~n~-l~~~-----~~l  108 (291)
T 1h6t_A           42 QNELNSIDQIIANNS-DIKSVQ-GIQYLPNVTKLFLNGNKLTD----IKP-LANLKNLGWLFLDENK-VKDL-----SSL  108 (291)
T ss_dssp             HHHHHTCCEEECTTS-CCCCCT-TGGGCTTCCEEECCSSCCCC----CGG-GTTCTTCCEEECCSSC-CCCG-----GGG
T ss_pred             hhhcCcccEEEccCC-CcccCh-hHhcCCCCCEEEccCCccCC----Ccc-cccCCCCCEEECCCCc-CCCC-----hhh
Confidence            567889999999998 566665 48889999999998887653    222 7788888888876533 2221     236


Q ss_pred             cccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeec
Q 044247          112 EKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFE  191 (333)
Q Consensus       112 ~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~  191 (333)
                      ..+++|++|++++|.+.                  .+ ..+..+++|+.|++++|....  +  ..+..+++|+.|++++
T Consensus       109 ~~l~~L~~L~L~~n~i~------------------~~-~~l~~l~~L~~L~l~~n~l~~--~--~~l~~l~~L~~L~L~~  165 (291)
T 1h6t_A          109 KDLKKLKSLSLEHNGIS------------------DI-NGLVHLPQLESLYLGNNKITD--I--TVLSRLTKLDTLSLED  165 (291)
T ss_dssp             TTCTTCCEEECTTSCCC------------------CC-GGGGGCTTCCEEECCSSCCCC--C--GGGGGCTTCSEEECCS
T ss_pred             ccCCCCCEEECCCCcCC------------------CC-hhhcCCCCCCEEEccCCcCCc--c--hhhccCCCCCEEEccC
Confidence            77888888888888532                  21 346667888888888888776  3  4577788888888888


Q ss_pred             CCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccC
Q 044247          192 CRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSM  251 (333)
Q Consensus       192 ~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~  251 (333)
                      | .+..+++++.+++|+.|++++|. ++.++.             +..+++|+.|+++++
T Consensus       166 N-~l~~~~~l~~l~~L~~L~L~~N~-i~~l~~-------------l~~l~~L~~L~l~~n  210 (291)
T 1h6t_A          166 N-QISDIVPLAGLTKLQNLYLSKNH-ISDLRA-------------LAGLKNLDVLELFSQ  210 (291)
T ss_dssp             S-CCCCCGGGTTCTTCCEEECCSSC-CCBCGG-------------GTTCTTCSEEEEEEE
T ss_pred             C-ccccchhhcCCCccCEEECCCCc-CCCChh-------------hccCCCCCEEECcCC
Confidence            8 45556567888888888888886 555532             567888888888875

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=99.54  E-value=5.7e-14  Score=118.80  Aligned_cols=162  Identities=20%  Similarity=0.259  Sum_probs=110.3

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccc-cccccccccCceeeeEEEcCccCCCCC
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYL-PVGIGELIRLRRVTKFVVCGGYDRACS   79 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~-p~~i~~l~~L~~L~l~~~~~~~~~~~~   79 (333)
                      ++.+|..+.  +++++|++++|......+..+..+++|++|++++| .+..+ +..+..+++|++|++++|....   ..
T Consensus        26 l~~~p~~~~--~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~~---~~   99 (251)
T 3m19_A           26 LDSVPSGIP--ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYN-QLQTLSAGVFDDLTELGTLGLANNQLAS---LP   99 (251)
T ss_dssp             CSSCCSCCC--TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECTTSCCCC---CC
T ss_pred             ccccCCCCC--CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCC-cCCccCHhHhccCCcCCEEECCCCcccc---cC
Confidence            356777666  68999999999944555667999999999999999 44554 4457899999999998776542   11


Q ss_pred             ccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCcc
Q 044247           80 LGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLK  159 (333)
Q Consensus        80 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~  159 (333)
                      ..                            .+..+++|++|++++|.+.                 ......+..+++|+
T Consensus       100 ~~----------------------------~~~~l~~L~~L~L~~N~l~-----------------~~~~~~~~~l~~L~  134 (251)
T 3m19_A          100 LG----------------------------VFDHLTQLDKLYLGGNQLK-----------------SLPSGVFDRLTKLK  134 (251)
T ss_dssp             TT----------------------------TTTTCTTCCEEECCSSCCC-----------------CCCTTTTTTCTTCC
T ss_pred             hh----------------------------HhcccCCCCEEEcCCCcCC-----------------CcChhHhccCCccc
Confidence            11                            2334456666666666421                 11123355667777


Q ss_pred             EEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceeccccc
Q 044247          160 ELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMK  216 (333)
Q Consensus       160 ~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~  216 (333)
                      .|++++|....  +++..+..+++|+.|++++|. +..+++  +..+++|+.|++++|+
T Consensus       135 ~L~Ls~N~l~~--~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~N~  190 (251)
T 3m19_A          135 ELRLNTNQLQS--IPAGAFDKLTNLQTLSLSTNQ-LQSVPHGAFDRLGKLQTITLFGNQ  190 (251)
T ss_dssp             EEECCSSCCCC--CCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSCC
T ss_pred             EEECcCCcCCc--cCHHHcCcCcCCCEEECCCCc-CCccCHHHHhCCCCCCEEEeeCCc
Confidence            77777776665  523356677788888888773 444443  6677788888888776

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=99.52  E-value=1.1e-15  Score=145.25  Aligned_cols=280  Identities=15%  Similarity=0.049  Sum_probs=142.5

Q ss_pred             ccchhcCCCcccEEeecCCC-cc--cccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcC--------
Q 044247            4 LPETLCELYNLERVNVSGCS-HL--RELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCG--------   72 (333)
Q Consensus         4 lp~~l~~l~~L~~L~l~~~~-~~--~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~--------   72 (333)
                      ++.....+++|++|++++|. .+  ..++..+..+++|++|++++|..+..++..+..+++|++|++..+..        
T Consensus       176 l~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~  255 (594)
T 2p1m_B          176 LSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYS  255 (594)
T ss_dssp             GGGSCTTCCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTTSCHHHHHHHHHHCTTCSEEECSBCCCCCCHHHHH
T ss_pred             HHHHhhcCCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCCCcHHHHHHHHhcCCcceEcccccccCccchhhHH
Confidence            33444467788999988885 11  22333345578888888888855555666566677777776443311        


Q ss_pred             ------------------cc-CCCCCccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchh
Q 044247           73 ------------------GY-DRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEE  133 (333)
Q Consensus        73 ------------------~~-~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~  133 (333)
                                        .. .....+..+..+++|+.|++.... +.  .......+..+++|++|++.+| +.+....
T Consensus       256 ~l~~~l~~~~~L~~Ls~~~~~~~~~l~~~~~~~~~L~~L~L~~~~-l~--~~~l~~~~~~~~~L~~L~l~~~-~~~~~l~  331 (594)
T 2p1m_B          256 GLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYAT-VQ--SYDLVKLLCQCPKLQRLWVLDY-IEDAGLE  331 (594)
T ss_dssp             HHHHHHHTCTTCCEEECCBTCCGGGGGGGHHHHTTCCEEECTTCC-CC--HHHHHHHHTTCTTCCEEEEEGG-GHHHHHH
T ss_pred             HHHHHHhcCCCcccccCCcccchhhHHHHHHhhCCCCEEEccCCC-CC--HHHHHHHHhcCCCcCEEeCcCc-cCHHHHH
Confidence                              00 000111122356677777776654 32  2233344556677777777665 1100000


Q ss_pred             hhc-----cc-------------CCcccccccccccC-CCCCCccEEEEeeecCCCCccCchhhh-cCCCccEEEee---
Q 044247          134 QAG-----RR-------------ENEEDEDERLLDAL-GPPPNLKELHIHEYRGRRNVVPKNWVM-SLTNLRVLHLF---  190 (333)
Q Consensus       134 ~~~-----~~-------------~~~~~~~~~~~~~l-~~~~~L~~L~l~~~~~~~~~~~~~~~~-~~~~L~~L~l~---  190 (333)
                      ...     +.             ..+. ........+ ..+++|+.|.++.+..... . ...+. .+++|+.|+++   
T Consensus       332 ~l~~~~~~L~~L~L~~~~~~g~~~~~~-l~~~~l~~l~~~~~~L~~L~~~~~~l~~~-~-~~~l~~~~~~L~~L~L~~~~  408 (594)
T 2p1m_B          332 VLASTCKDLRELRVFPSEPFVMEPNVA-LTEQGLVSVSMGCPKLESVLYFCRQMTNA-A-LITIARNRPNMTRFRLCIIE  408 (594)
T ss_dssp             HHHHHCTTCCEEEEECSCTTCSSCSSC-CCHHHHHHHHHHCTTCCEEEEEESCCCHH-H-HHHHHHHCTTCCEEEEEESS
T ss_pred             HHHHhCCCCCEEEEecCcccccccCCC-CCHHHHHHHHHhchhHHHHHHhcCCcCHH-H-HHHHHhhCCCcceeEeeccc
Confidence            000     00             0000 000001111 1245666665444333220 0 11222 46777777777   


Q ss_pred             --cCCCCCCCCC-------CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCC
Q 044247          191 --ECRNCEHLPP-------LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGT  261 (333)
Q Consensus       191 --~~~~~~~l~~-------~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~  261 (333)
                        +|..++..|.       +..+++|+.|+++++  +........          ...+++|+.|++++|. +.+.    
T Consensus       409 ~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~L~~~--l~~~~~~~l----------~~~~~~L~~L~L~~~~-i~~~----  471 (594)
T 2p1m_B          409 PKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGL--LTDKVFEYI----------GTYAKKMEMLSVAFAG-DSDL----  471 (594)
T ss_dssp             TTCCCTTTCCCTHHHHHHHHHHCTTCCEEECCSS--CCHHHHHHH----------HHHCTTCCEEEEESCC-SSHH----
T ss_pred             CCCcccccCCchhhHHHHHHhhCCCccEEeecCc--ccHHHHHHH----------HHhchhccEeeccCCC-CcHH----
Confidence              3444443332       344567777777551  222111100          1236778888887764 2111    


Q ss_pred             ccccccccCCCcceEecccCcCccc-CCcccCCCCCcceEEEcccChh
Q 044247          262 AIKGEIIIMPRLSSLSIQSCRELKA-LPDHLLQKSTLQNLEIWGACHI  308 (333)
Q Consensus       262 ~~~~~~~~~~~L~~L~l~~c~~l~~-l~~~~~~l~~L~~L~l~~~c~~  308 (333)
                      ++......+++|++|++++|+.-.. +......+++|+.|++ ++|+.
T Consensus       472 ~~~~l~~~~~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~l-~~~~~  518 (594)
T 2p1m_B          472 GMHHVLSGCDSLRKLEIRDCPFGDKALLANASKLETMRSLWM-SSCSV  518 (594)
T ss_dssp             HHHHHHHHCTTCCEEEEESCSCCHHHHHHTGGGGGGSSEEEE-ESSCC
T ss_pred             HHHHHHhcCCCcCEEECcCCCCcHHHHHHHHHhCCCCCEEee-eCCCC
Confidence            1111224689999999999886222 2224455889999999 99975

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=99.52  E-value=2.7e-16  Score=149.40  Aligned_cols=116  Identities=13%  Similarity=0.006  Sum_probs=62.7

Q ss_pred             cCCCcccEEeecCCCcccccCcccc-ccccccEEecCCCCCccc--ccccccccccCceeeeEEEcCccCCCCCccc-cc
Q 044247            9 CELYNLERVNVSGCSHLRELPQGIG-KLRKLMYLDNDYTDSLRY--LPVGIGELIRLRRVTKFVVCGGYDRACSLGS-LK   84 (333)
Q Consensus         9 ~~l~~L~~L~l~~~~~~~~lp~~i~-~l~~L~~L~l~~~~~~~~--~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~-l~   84 (333)
                      ..+++|++|++++|......+..+. .+++|++|++++|..+..  ++.....+++|++|++.+|............ ..
T Consensus       102 ~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~  181 (594)
T 2p1m_B          102 SSYTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPD  181 (594)
T ss_dssp             HHCTTCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCT
T ss_pred             HhCCCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhh
Confidence            3566777777777763334444454 577777777777744333  3333446777777777766533100011111 22


Q ss_pred             cCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeec
Q 044247           85 KLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFD  125 (333)
Q Consensus        85 ~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~  125 (333)
                      .+++|+.|++..... .............+++|++|++.+|
T Consensus       182 ~~~~L~~L~l~~~~~-~~~~~~l~~l~~~~~~L~~L~L~~~  221 (594)
T 2p1m_B          182 TYTSLVSLNISCLAS-EVSFSALERLVTRCPNLKSLKLNRA  221 (594)
T ss_dssp             TCCCCCEEECTTCCS-CCCHHHHHHHHHHCTTCCEEECCTT
T ss_pred             cCCcCcEEEecccCC-cCCHHHHHHHHHhCCCCcEEecCCC
Confidence            455677777765441 1111223333445677777777766

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=99.51  E-value=6.1e-14  Score=114.11  Aligned_cols=151  Identities=15%  Similarity=0.215  Sum_probs=89.2

Q ss_pred             cccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCceeEecCCCCCCChhhHHHHhhc
Q 044247           33 GKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELE  112 (333)
Q Consensus        33 ~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~  112 (333)
                      +.+++|++|++++| .+..+| ++..+++|++|++.+|...     .+..+..+++|+.|++....- .   ......+.
T Consensus        41 ~~l~~L~~L~l~~n-~i~~l~-~l~~l~~L~~L~l~~n~~~-----~~~~l~~l~~L~~L~l~~n~l-~---~~~~~~l~  109 (197)
T 4ezg_A           41 AQMNSLTYITLANI-NVTDLT-GIEYAHNIKDLTINNIHAT-----NYNPISGLSNLERLRIMGKDV-T---SDKIPNLS  109 (197)
T ss_dssp             HHHHTCCEEEEESS-CCSCCT-TGGGCTTCSEEEEESCCCS-----CCGGGTTCTTCCEEEEECTTC-B---GGGSCCCT
T ss_pred             hhcCCccEEeccCC-CccChH-HHhcCCCCCEEEccCCCCC-----cchhhhcCCCCCEEEeECCcc-C---cccChhhc
Confidence            34445555555544 333444 3444555555555444222     223444445555544443211 0   00112345


Q ss_pred             ccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeec-CCCCccCchhhhcCCCccEEEeec
Q 044247          113 KKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYR-GRRNVVPKNWVMSLTNLRVLHLFE  191 (333)
Q Consensus       113 ~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~-~~~~~~~~~~~~~~~~L~~L~l~~  191 (333)
                      .+++|++|++++|.                 .....+..+..+++|+.|++++|. ...  + + .+..+++|+.|++++
T Consensus       110 ~l~~L~~L~Ls~n~-----------------i~~~~~~~l~~l~~L~~L~L~~n~~i~~--~-~-~l~~l~~L~~L~l~~  168 (197)
T 4ezg_A          110 GLTSLTLLDISHSA-----------------HDDSILTKINTLPKVNSIDLSYNGAITD--I-M-PLKTLPELKSLNIQF  168 (197)
T ss_dssp             TCTTCCEEECCSSB-----------------CBGGGHHHHTTCSSCCEEECCSCTBCCC--C-G-GGGGCSSCCEEECTT
T ss_pred             CCCCCCEEEecCCc-----------------cCcHhHHHHhhCCCCCEEEccCCCCccc--c-H-hhcCCCCCCEEECCC
Confidence            56778888888775                 223345566777888888888887 555  4 4 577888999999988


Q ss_pred             CCCCCCCCCCCCCccccceeccccc
Q 044247          192 CRNCEHLPPLGKLTSLEDLYIAGMK  216 (333)
Q Consensus       192 ~~~~~~l~~~~~l~~L~~L~l~~~~  216 (333)
                      | .+.+++.+..+++|++|++++|+
T Consensus       169 n-~i~~~~~l~~l~~L~~L~l~~N~  192 (197)
T 4ezg_A          169 D-GVHDYRGIEDFPKLNQLYAFSQT  192 (197)
T ss_dssp             B-CCCCCTTGGGCSSCCEEEECBC-
T ss_pred             C-CCcChHHhccCCCCCEEEeeCcc
Confidence            8 45667778888899999998886

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A

Probab=99.51  E-value=1.6e-14  Score=136.83  Aligned_cols=187  Identities=19%  Similarity=0.234  Sum_probs=137.0

Q ss_pred             cccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCcee
Q 044247           13 NLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQC   92 (333)
Q Consensus        13 ~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L   92 (333)
                      ++..+.+..+. +..+.. +..+++|+.|++++| .+..++ .++.+++|+.|++++|....    .+ .+..+++|+.|
T Consensus        22 ~l~~l~l~~~~-i~~~~~-~~~L~~L~~L~l~~n-~i~~l~-~l~~l~~L~~L~Ls~N~l~~----~~-~l~~l~~L~~L   92 (605)
T 1m9s_A           22 ETIKDNLKKKS-VTDAVT-QNELNSIDQIIANNS-DIKSVQ-GIQYLPNVTKLFLNGNKLTD----IK-PLTNLKNLGWL   92 (605)
T ss_dssp             HHHHHHTTCSC-TTSEEC-HHHHTTCCCCBCTTC-CCCCCT-TGGGCTTCCEEECTTSCCCC----CG-GGGGCTTCCEE
T ss_pred             HHHHHhccCCC-cccccc-hhcCCCCCEEECcCC-CCCCCh-HHccCCCCCEEEeeCCCCCC----Ch-hhccCCCCCEE
Confidence            34445555554 333333 567899999999998 566766 48899999999999887653    22 27888889998


Q ss_pred             EecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCc
Q 044247           93 SIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNV  172 (333)
Q Consensus        93 ~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~  172 (333)
                      .+.... +...     ..+..+++|+.|++++|.+.                  . ...+..+++|+.|++++|....  
T Consensus        93 ~Ls~N~-l~~l-----~~l~~l~~L~~L~Ls~N~l~------------------~-l~~l~~l~~L~~L~Ls~N~l~~--  145 (605)
T 1m9s_A           93 FLDENK-IKDL-----SSLKDLKKLKSLSLEHNGIS------------------D-INGLVHLPQLESLYLGNNKITD--  145 (605)
T ss_dssp             ECCSSC-CCCC-----TTSTTCTTCCEEECTTSCCC------------------C-CGGGGGCTTCSEEECCSSCCCC--
T ss_pred             ECcCCC-CCCC-----hhhccCCCCCEEEecCCCCC------------------C-CccccCCCccCEEECCCCccCC--
Confidence            886543 2221     24677889999999988542                  2 2346678899999999988777  


Q ss_pred             cCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCc
Q 044247          173 VPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMS  252 (333)
Q Consensus       173 ~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~  252 (333)
                      +  ..+..+++|+.|+|++| .+..+++++.+++|+.|++++|. +..++.             +..+++|+.|++++|+
T Consensus       146 l--~~l~~l~~L~~L~Ls~N-~l~~~~~l~~l~~L~~L~Ls~N~-i~~l~~-------------l~~l~~L~~L~L~~N~  208 (605)
T 1m9s_A          146 I--TVLSRLTKLDTLSLEDN-QISDIVPLAGLTKLQNLYLSKNH-ISDLRA-------------LAGLKNLDVLELFSQE  208 (605)
T ss_dssp             C--GGGGSCTTCSEEECCSS-CCCCCGGGTTCTTCCEEECCSSC-CCBCGG-------------GTTCTTCSEEECCSEE
T ss_pred             c--hhhcccCCCCEEECcCC-cCCCchhhccCCCCCEEECcCCC-CCCChH-------------HccCCCCCEEEccCCc
Confidence            4  55778999999999998 45555558889999999999987 555532             5688899999998853

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=99.50  E-value=1.8e-13  Score=111.34  Aligned_cols=152  Identities=16%  Similarity=0.154  Sum_probs=116.6

Q ss_pred             ccccccCceeeeEEEcCccCCCCCccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhh
Q 044247           56 IGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQA  135 (333)
Q Consensus        56 i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~  135 (333)
                      .+.+++|++|++.++....    .+ .+..+++|+.|++... .+...     ..+..+++|++|++++|.         
T Consensus        40 ~~~l~~L~~L~l~~n~i~~----l~-~l~~l~~L~~L~l~~n-~~~~~-----~~l~~l~~L~~L~l~~n~---------   99 (197)
T 4ezg_A           40 EAQMNSLTYITLANINVTD----LT-GIEYAHNIKDLTINNI-HATNY-----NPISGLSNLERLRIMGKD---------   99 (197)
T ss_dssp             HHHHHTCCEEEEESSCCSC----CT-TGGGCTTCSEEEEESC-CCSCC-----GGGTTCTTCCEEEEECTT---------
T ss_pred             hhhcCCccEEeccCCCccC----hH-HHhcCCCCCEEEccCC-CCCcc-----hhhhcCCCCCEEEeECCc---------
Confidence            4678999999999887653    23 6788889999888765 32222     257778999999999985         


Q ss_pred             cccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccc
Q 044247          136 GRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGM  215 (333)
Q Consensus       136 ~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~  215 (333)
                              .....+..+..+++|+.|++++|..... . +..+..+++|+.|++++|..++.++.++.+++|+.|++++|
T Consensus       100 --------l~~~~~~~l~~l~~L~~L~Ls~n~i~~~-~-~~~l~~l~~L~~L~L~~n~~i~~~~~l~~l~~L~~L~l~~n  169 (197)
T 4ezg_A          100 --------VTSDKIPNLSGLTSLTLLDISHSAHDDS-I-LTKINTLPKVNSIDLSYNGAITDIMPLKTLPELKSLNIQFD  169 (197)
T ss_dssp             --------CBGGGSCCCTTCTTCCEEECCSSBCBGG-G-HHHHTTCSSCCEEECCSCTBCCCCGGGGGCSSCCEEECTTB
T ss_pred             --------cCcccChhhcCCCCCCEEEecCCccCcH-h-HHHHhhCCCCCEEEccCCCCccccHhhcCCCCCCEEECCCC
Confidence                    3334566788889999999999887651 3 66778899999999999965777888888899999999988


Q ss_pred             cccccccccccCCCCCCCCCccccCCCccEEeeccC
Q 044247          216 KSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSM  251 (333)
Q Consensus       216 ~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~  251 (333)
                      . +..++.             +..+++|+.|++.++
T Consensus       170 ~-i~~~~~-------------l~~l~~L~~L~l~~N  191 (197)
T 4ezg_A          170 G-VHDYRG-------------IEDFPKLNQLYAFSQ  191 (197)
T ss_dssp             C-CCCCTT-------------GGGCSSCCEEEECBC
T ss_pred             C-CcChHH-------------hccCCCCCEEEeeCc
Confidence            7 555431             567888888888874

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

Probab=99.48  E-value=2.6e-14  Score=121.70  Aligned_cols=167  Identities=22%  Similarity=0.202  Sum_probs=111.3

Q ss_pred             CCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccC
Q 044247           10 ELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLL   89 (333)
Q Consensus        10 ~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L   89 (333)
                      .+.++..+++.++. +..++ .+..+++|+.|++++| .+..++ .++.+++|++|++++|....    .+. +..+++|
T Consensus        17 ~l~~l~~l~l~~~~-i~~~~-~~~~l~~L~~L~l~~n-~i~~l~-~l~~l~~L~~L~L~~N~i~~----~~~-l~~l~~L   87 (263)
T 1xeu_A           17 GLANAVKQNLGKQS-VTDLV-SQKELSGVQNFNGDNS-NIQSLA-GMQFFTNLKELHLSHNQISD----LSP-LKDLTKL   87 (263)
T ss_dssp             HHHHHHHHHHTCSC-TTSEE-CHHHHTTCSEEECTTS-CCCCCT-TGGGCTTCCEEECCSSCCCC----CGG-GTTCSSC
T ss_pred             HHHHHHHHHhcCCC-ccccc-chhhcCcCcEEECcCC-Ccccch-HHhhCCCCCEEECCCCccCC----Chh-hccCCCC
Confidence            35556666677666 55555 3677777888888777 556665 57777778888777776553    222 6666777


Q ss_pred             ceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCC
Q 044247           90 RQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGR  169 (333)
Q Consensus        90 ~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~  169 (333)
                      +.|++....- ....     .+.. ++|++|++++|.+.                  .+ ..+..+++|+.|++++|...
T Consensus        88 ~~L~L~~N~l-~~l~-----~~~~-~~L~~L~L~~N~l~------------------~~-~~l~~l~~L~~L~Ls~N~i~  141 (263)
T 1xeu_A           88 EELSVNRNRL-KNLN-----GIPS-ACLSRLFLDNNELR------------------DT-DSLIHLKNLEILSIRNNKLK  141 (263)
T ss_dssp             CEEECCSSCC-SCCT-----TCCC-SSCCEEECCSSCCS------------------BS-GGGTTCTTCCEEECTTSCCC
T ss_pred             CEEECCCCcc-CCcC-----cccc-CcccEEEccCCccC------------------CC-hhhcCcccccEEECCCCcCC
Confidence            7766654221 1110     1222 67888888888532                  22 34677788888888888877


Q ss_pred             CCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceeccccc
Q 044247          170 RNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMK  216 (333)
Q Consensus       170 ~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~  216 (333)
                      .  + + .+..+++|+.|++++| .+..++.++.+++|+.|++++|.
T Consensus       142 ~--~-~-~l~~l~~L~~L~L~~N-~i~~~~~l~~l~~L~~L~l~~N~  183 (263)
T 1xeu_A          142 S--I-V-MLGFLSKLEVLDLHGN-EITNTGGLTRLKKVNWIDLTGQK  183 (263)
T ss_dssp             B--C-G-GGGGCTTCCEEECTTS-CCCBCTTSTTCCCCCEEEEEEEE
T ss_pred             C--C-h-HHccCCCCCEEECCCC-cCcchHHhccCCCCCEEeCCCCc
Confidence            6  5 4 5777888888888888 44455667788888888888887

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

Probab=99.47  E-value=2.8e-13  Score=127.19  Aligned_cols=175  Identities=14%  Similarity=0.117  Sum_probs=111.1

Q ss_pred             cccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCcee
Q 044247           13 NLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQC   92 (333)
Q Consensus        13 ~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L   92 (333)
                      +|++|++++|. +..+|..+.  ++|++|++++| .+..+|   ..+++|++|++++|.+..    .+. +..  +|+.|
T Consensus        60 ~L~~L~Ls~n~-L~~lp~~l~--~~L~~L~Ls~N-~l~~ip---~~l~~L~~L~Ls~N~l~~----ip~-l~~--~L~~L  125 (571)
T 3cvr_A           60 QFSELQLNRLN-LSSLPDNLP--PQITVLEITQN-ALISLP---ELPASLEYLDACDNRLST----LPE-LPA--SLKHL  125 (571)
T ss_dssp             TCSEEECCSSC-CSCCCSCCC--TTCSEEECCSS-CCSCCC---CCCTTCCEEECCSSCCSC----CCC-CCT--TCCEE
T ss_pred             CccEEEeCCCC-CCccCHhHc--CCCCEEECcCC-CCcccc---cccCCCCEEEccCCCCCC----cch-hhc--CCCEE
Confidence            88999999887 666887663  78999999888 566777   457888999888887653    222 332  66666


Q ss_pred             EecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCc
Q 044247           93 SIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNV  172 (333)
Q Consensus        93 ~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~  172 (333)
                      ++.... +.....       .+++|+.|++++|.+.                  .++.   .+++|+.|++++|....  
T Consensus       126 ~Ls~N~-l~~lp~-------~l~~L~~L~Ls~N~l~------------------~lp~---~l~~L~~L~Ls~N~L~~--  174 (571)
T 3cvr_A          126 DVDNNQ-LTMLPE-------LPALLEYINADNNQLT------------------MLPE---LPTSLEVLSVRNNQLTF--  174 (571)
T ss_dssp             ECCSSC-CSCCCC-------CCTTCCEEECCSSCCS------------------CCCC---CCTTCCEEECCSSCCSC--
T ss_pred             ECCCCc-CCCCCC-------cCccccEEeCCCCccC------------------cCCC---cCCCcCEEECCCCCCCC--
Confidence            665421 111111       3567777777777432                  2222   34677777777777666  


Q ss_pred             cCchhhhcCCCccEEEeecCCCCCCCCCCCCCccc-------cceecccccccccccccccCCCCCCCCCccccCCCccE
Q 044247          173 VPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSL-------EDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKR  245 (333)
Q Consensus       173 ~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L-------~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~  245 (333)
                      + |. +.  ++|+.|++++| .++.+|.+..  +|       +.|++++|. ++.+|..            +..+++|+.
T Consensus       175 l-p~-l~--~~L~~L~Ls~N-~L~~lp~~~~--~L~~~~~~L~~L~Ls~N~-l~~lp~~------------l~~l~~L~~  234 (571)
T 3cvr_A          175 L-PE-LP--ESLEALDVSTN-LLESLPAVPV--RNHHSEETEIFFRCRENR-ITHIPEN------------ILSLDPTCT  234 (571)
T ss_dssp             C-CC-CC--TTCCEEECCSS-CCSSCCCCC----------CCEEEECCSSC-CCCCCGG------------GGGSCTTEE
T ss_pred             c-ch-hh--CCCCEEECcCC-CCCchhhHHH--hhhcccccceEEecCCCc-ceecCHH------------HhcCCCCCE
Confidence            5 55 43  77777777777 4445555322  55       777777776 5566554            345677777


Q ss_pred             EeeccCc
Q 044247          246 LRFWSMS  252 (333)
Q Consensus       246 L~l~~~~  252 (333)
                      |++++++
T Consensus       235 L~L~~N~  241 (571)
T 3cvr_A          235 IILEDNP  241 (571)
T ss_dssp             EECCSSS
T ss_pred             EEeeCCc
Confidence            7777753

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=99.47  E-value=2e-15  Score=142.10  Aligned_cols=120  Identities=21%  Similarity=0.248  Sum_probs=70.8

Q ss_pred             CccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCCCCC
Q 044247          157 NLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGS  235 (333)
Q Consensus       157 ~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~  235 (333)
                      .|+.|++++|....  + |. +..+++|+.|++++| .+..+|. ++.+++|+.|++++|. ++.+| .           
T Consensus       442 ~L~~L~Ls~n~l~~--l-p~-~~~l~~L~~L~Ls~N-~l~~lp~~~~~l~~L~~L~Ls~N~-l~~lp-~-----------  503 (567)
T 1dce_A          442 DVRVLHLAHKDLTV--L-CH-LEQLLLVTHLDLSHN-RLRALPPALAALRCLEVLQASDNA-LENVD-G-----------  503 (567)
T ss_dssp             TCSEEECTTSCCSS--C-CC-GGGGTTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCSSC-CCCCG-G-----------
T ss_pred             CceEEEecCCCCCC--C-cC-ccccccCcEeecCcc-cccccchhhhcCCCCCEEECCCCC-CCCCc-c-----------
Confidence            36667776666665  5 54 666777777777776 3445554 6666777777777765 44444 1           


Q ss_pred             ccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCccc----CCCCCcceEE
Q 044247          236 SVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHL----LQKSTLQNLE  301 (333)
Q Consensus       236 ~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~----~~l~~L~~L~  301 (333)
                       +..+++|+.|+++++ .++.+.    .|..+..+++|+.|+++++ .++.+|...    ..+|+|+.|+
T Consensus       504 -l~~l~~L~~L~Ls~N-~l~~~~----~p~~l~~l~~L~~L~L~~N-~l~~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          504 -VANLPRLQELLLCNN-RLQQSA----AIQPLVSCPRLVLLNLQGN-SLCQEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             -GTTCSSCCEEECCSS-CCCSSS----TTGGGGGCTTCCEEECTTS-GGGGSSSCTTHHHHHCTTCSEEE
T ss_pred             -cCCCCCCcEEECCCC-CCCCCC----CcHHHhcCCCCCEEEecCC-cCCCCccHHHHHHHHCcccCccC
Confidence             456677777777764 332221    1445556777777777764 344444322    2266776665

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=99.44  E-value=2.2e-15  Score=141.92  Aligned_cols=205  Identities=15%  Similarity=0.109  Sum_probs=114.4

Q ss_pred             cccccccEEecCCCCCcccccccccccccCceeeeEEEcCcc----------CCCCCccccccCccCceeEecCCCCCCC
Q 044247           33 GKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGY----------DRACSLGSLKKLNLLRQCSIDGLGGVSD  102 (333)
Q Consensus        33 ~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~----------~~~~~~~~l~~l~~L~~L~l~~~~~~~~  102 (333)
                      ..+++|+.|++++| .++.+|..++.+++|+.|++.++....          ..+..+..+..+++|+.|+.-....+..
T Consensus       346 ~~~~~L~~L~Ls~n-~L~~Lp~~i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~~l~~l~~L~~L~~l~~n~~~~  424 (567)
T 1dce_A          346 ATDEQLFRCELSVE-KSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDD  424 (567)
T ss_dssp             STTTTSSSCCCCHH-HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHH
T ss_pred             ccCccceeccCChh-hHHhhHHHHHHHHHHHHhccccchhhhhHHHHHHhcccccCCHHHHHHHHhcccCcchhhcccch
Confidence            44666777777766 556667667777777777664432100          0022233344444444443100000000


Q ss_pred             hhhH--HHHhhcc--cCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhh
Q 044247          103 AGEA--RRAELEK--KKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWV  178 (333)
Q Consensus       103 ~~~~--~~~~l~~--~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~  178 (333)
                      ....  ....+..  ...|+.|++++|.+                  ..++. +..+++|+.|++++|....  + |..+
T Consensus       425 L~~l~l~~n~i~~l~~~~L~~L~Ls~n~l------------------~~lp~-~~~l~~L~~L~Ls~N~l~~--l-p~~~  482 (567)
T 1dce_A          425 LRSKFLLENSVLKMEYADVRVLHLAHKDL------------------TVLCH-LEQLLLVTHLDLSHNRLRA--L-PPAL  482 (567)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSEEECTTSCC------------------SSCCC-GGGGTTCCEEECCSSCCCC--C-CGGG
T ss_pred             hhhhhhhcccccccCccCceEEEecCCCC------------------CCCcC-ccccccCcEeecCcccccc--c-chhh
Confidence            0000  0001111  12577777777742                  23333 6667788888888877776  7 7777


Q ss_pred             hcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccc--cccccCCCCCCCCCccccCCCccEEeeccCccccc
Q 044247          179 MSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRV--GNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEE  256 (333)
Q Consensus       179 ~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i--~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~  256 (333)
                      +.+++|+.|++++| .++.+|.++.+++|+.|++++|. ++.+  |..            +..+++|+.|+++++ .++.
T Consensus       483 ~~l~~L~~L~Ls~N-~l~~lp~l~~l~~L~~L~Ls~N~-l~~~~~p~~------------l~~l~~L~~L~L~~N-~l~~  547 (567)
T 1dce_A          483 AALRCLEVLQASDN-ALENVDGVANLPRLQELLLCNNR-LQQSAAIQP------------LVSCPRLVLLNLQGN-SLCQ  547 (567)
T ss_dssp             GGCTTCCEEECCSS-CCCCCGGGTTCSSCCEEECCSSC-CCSSSTTGG------------GGGCTTCCEEECTTS-GGGG
T ss_pred             hcCCCCCEEECCCC-CCCCCcccCCCCCCcEEECCCCC-CCCCCCcHH------------HhcCCCCCEEEecCC-cCCC
Confidence            77888888888887 44556677778888888888776 5544  333            567778888888874 3443


Q ss_pred             cccCCccccccccCCCcceEe
Q 044247          257 WDLGTAIKGEIIIMPRLSSLS  277 (333)
Q Consensus       257 ~~~~~~~~~~~~~~~~L~~L~  277 (333)
                      .+..  +...+..+|+|+.|+
T Consensus       548 ~~~~--~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          548 EEGI--QERLAEMLPSVSSIL  566 (567)
T ss_dssp             SSSC--TTHHHHHCTTCSEEE
T ss_pred             CccH--HHHHHHHCcccCccC
Confidence            3311  112233467777775

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

Probab=99.40  E-value=2.1e-12  Score=105.86  Aligned_cols=171  Identities=22%  Similarity=0.192  Sum_probs=92.7

Q ss_pred             cEEeecCCCcccccCccccccccccEEecCCCCCccccccc-ccccccCceeeeEEEcCccCCCCCccccccCccCceeE
Q 044247           15 ERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVG-IGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCS   93 (333)
Q Consensus        15 ~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~-i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~   93 (333)
                      +.++..++. +..+|..+  .++|++|++++| .+..++.. ++.+++|++|++.+|....   .....+..+++|+.|+
T Consensus        10 ~~v~c~~~~-l~~~p~~~--~~~l~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~---~~~~~~~~l~~L~~L~   82 (208)
T 2o6s_A           10 TTVECYSQG-RTSVPTGI--PAQTTYLDLETN-SLKSLPNGVFDELTSLTQLYLGGNKLQS---LPNGVFNKLTSLTYLN   82 (208)
T ss_dssp             TEEECCSSC-CSSCCSCC--CTTCSEEECCSS-CCCCCCTTTTTTCTTCSEEECCSSCCCC---CCTTTTTTCTTCCEEE
T ss_pred             CEEEecCCC-ccCCCCCC--CCCCcEEEcCCC-ccCcCChhhhcccccCcEEECCCCccCc---cChhhcCCCCCcCEEE
Confidence            455555554 55555433  346777777776 34444433 4566677777766655432   1122234455555554


Q ss_pred             ecCC--CCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCC
Q 044247           94 IDGL--GGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRN  171 (333)
Q Consensus        94 l~~~--~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~  171 (333)
                      +...  ..++.      ..+..+++|++|++++|.+.                 ......+..+++|+.|++++|.... 
T Consensus        83 Ls~n~l~~~~~------~~~~~l~~L~~L~L~~N~l~-----------------~~~~~~~~~l~~L~~L~l~~N~l~~-  138 (208)
T 2o6s_A           83 LSTNQLQSLPN------GVFDKLTQLKELALNTNQLQ-----------------SLPDGVFDKLTQLKDLRLYQNQLKS-  138 (208)
T ss_dssp             CCSSCCCCCCT------TTTTTCTTCCEEECCSSCCC-----------------CCCTTTTTTCTTCCEEECCSSCCSC-
T ss_pred             CCCCcCCccCH------hHhcCccCCCEEEcCCCcCc-----------------ccCHhHhccCCcCCEEECCCCccce-
Confidence            4321  11111      13455667777777766421                 1112335566777777777776655 


Q ss_pred             ccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccc
Q 044247          172 VVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGN  223 (333)
Q Consensus       172 ~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~  223 (333)
                       +++..+..+++|+.|++++|..      .+.+++|+.|+++.+.....+|.
T Consensus       139 -~~~~~~~~l~~L~~L~l~~N~~------~~~~~~l~~L~~~~n~~~g~ip~  183 (208)
T 2o6s_A          139 -VPDGVFDRLTSLQYIWLHDNPW------DCTCPGIRYLSEWINKHSGVVRN  183 (208)
T ss_dssp             -CCTTTTTTCTTCCEEECCSCCB------CCCTTTTHHHHHHHHHCTTTBBC
T ss_pred             -eCHHHhccCCCccEEEecCCCe------ecCCCCHHHHHHHHHhCCceeec
Confidence             4233456677777777777732      24456677777776664444443

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

Probab=99.40  E-value=7.8e-13  Score=112.55  Aligned_cols=152  Identities=18%  Similarity=0.192  Sum_probs=120.3

Q ss_pred             CcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcc
Q 044247            2 EKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLG   81 (333)
Q Consensus         2 ~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~   81 (333)
                      +.++ .+..+++|++|++++|. +..++ .+..+++|++|++++| .+..++. ++.+++|++|++++|....     .+
T Consensus        32 ~~~~-~~~~l~~L~~L~l~~n~-i~~l~-~l~~l~~L~~L~L~~N-~i~~~~~-l~~l~~L~~L~L~~N~l~~-----l~  101 (263)
T 1xeu_A           32 TDLV-SQKELSGVQNFNGDNSN-IQSLA-GMQFFTNLKELHLSHN-QISDLSP-LKDLTKLEELSVNRNRLKN-----LN  101 (263)
T ss_dssp             TSEE-CHHHHTTCSEEECTTSC-CCCCT-TGGGCTTCCEEECCSS-CCCCCGG-GTTCSSCCEEECCSSCCSC-----CT
T ss_pred             cccc-chhhcCcCcEEECcCCC-cccch-HHhhCCCCCEEECCCC-ccCCChh-hccCCCCCEEECCCCccCC-----cC
Confidence            3455 57889999999999998 77888 5999999999999999 6677776 8999999999999998764     12


Q ss_pred             ccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEE
Q 044247           82 SLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKEL  161 (333)
Q Consensus        82 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L  161 (333)
                      .+.. ++|+.|++.... +...     ..+..+++|+.|++++|.+.                  .+ ..+..+++|+.|
T Consensus       102 ~~~~-~~L~~L~L~~N~-l~~~-----~~l~~l~~L~~L~Ls~N~i~------------------~~-~~l~~l~~L~~L  155 (263)
T 1xeu_A          102 GIPS-ACLSRLFLDNNE-LRDT-----DSLIHLKNLEILSIRNNKLK------------------SI-VMLGFLSKLEVL  155 (263)
T ss_dssp             TCCC-SSCCEEECCSSC-CSBS-----GGGTTCTTCCEEECTTSCCC------------------BC-GGGGGCTTCCEE
T ss_pred             cccc-CcccEEEccCCc-cCCC-----hhhcCcccccEEECCCCcCC------------------CC-hHHccCCCCCEE
Confidence            2333 788888887643 2222     24778899999999999642                  22 257778999999


Q ss_pred             EEeeecCCCCccCchhhhcCCCccEEEeecCC
Q 044247          162 HIHEYRGRRNVVPKNWVMSLTNLRVLHLFECR  193 (333)
Q Consensus       162 ~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  193 (333)
                      ++++|....    ...+..+++|+.|++++|.
T Consensus       156 ~L~~N~i~~----~~~l~~l~~L~~L~l~~N~  183 (263)
T 1xeu_A          156 DLHGNEITN----TGGLTRLKKVNWIDLTGQK  183 (263)
T ss_dssp             ECTTSCCCB----CTTSTTCCCCCEEEEEEEE
T ss_pred             ECCCCcCcc----hHHhccCCCCCEEeCCCCc
Confidence            999998877    3557789999999999984

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

Probab=99.40  E-value=2.6e-12  Score=105.26  Aligned_cols=141  Identities=18%  Similarity=0.188  Sum_probs=90.5

Q ss_pred             hcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEee
Q 044247          111 LEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLF  190 (333)
Q Consensus       111 l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~  190 (333)
                      +..+++|++|++++|.+.                 ......+..+++|++|++++|....  +++..+..+++|+.|+++
T Consensus        48 ~~~l~~L~~L~l~~n~l~-----------------~~~~~~~~~l~~L~~L~Ls~n~l~~--~~~~~~~~l~~L~~L~L~  108 (208)
T 2o6s_A           48 FDELTSLTQLYLGGNKLQ-----------------SLPNGVFNKLTSLTYLNLSTNQLQS--LPNGVFDKLTQLKELALN  108 (208)
T ss_dssp             TTTCTTCSEEECCSSCCC-----------------CCCTTTTTTCTTCCEEECCSSCCCC--CCTTTTTTCTTCCEEECC
T ss_pred             hcccccCcEEECCCCccC-----------------ccChhhcCCCCCcCEEECCCCcCCc--cCHhHhcCccCCCEEEcC
Confidence            344566777777766421                 1112345667788888888777665  523445678888888888


Q ss_pred             cCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccc
Q 044247          191 ECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEII  268 (333)
Q Consensus       191 ~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~  268 (333)
                      +| .+..++.  ++.+++|++|++++|. ++.++...           +..+++|++|++++++      +.       .
T Consensus       109 ~N-~l~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~-----------~~~l~~L~~L~l~~N~------~~-------~  162 (208)
T 2o6s_A          109 TN-QLQSLPDGVFDKLTQLKDLRLYQNQ-LKSVPDGV-----------FDRLTSLQYIWLHDNP------WD-------C  162 (208)
T ss_dssp             SS-CCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTT-----------TTTCTTCCEEECCSCC------BC-------C
T ss_pred             CC-cCcccCHhHhccCCcCCEEECCCCc-cceeCHHH-----------hccCCCccEEEecCCC------ee-------c
Confidence            87 3445544  6778888888888876 55554432           3567788888888753      11       1


Q ss_pred             cCCCcceEecccCcCcccCCcccCCCCC
Q 044247          269 IMPRLSSLSIQSCRELKALPDHLLQKST  296 (333)
Q Consensus       269 ~~~~L~~L~l~~c~~l~~l~~~~~~l~~  296 (333)
                      .+++|+.|++..+..-..+|..++.++.
T Consensus       163 ~~~~l~~L~~~~n~~~g~ip~~~~~l~~  190 (208)
T 2o6s_A          163 TCPGIRYLSEWINKHSGVVRNSAGSVAP  190 (208)
T ss_dssp             CTTTTHHHHHHHHHCTTTBBCTTSSBCT
T ss_pred             CCCCHHHHHHHHHhCCceeeccCccccC
Confidence            4678888888776555567766554443

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

Probab=99.37  E-value=2.9e-12  Score=120.26  Aligned_cols=170  Identities=18%  Similarity=0.146  Sum_probs=127.1

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCc
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSL   80 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~   80 (333)
                      +..+|..+.  ++|++|++++|. +..+|   ..+++|++|++++| .+..+|. +..  +|++|++++|....    .+
T Consensus        71 L~~lp~~l~--~~L~~L~Ls~N~-l~~ip---~~l~~L~~L~Ls~N-~l~~ip~-l~~--~L~~L~Ls~N~l~~----lp  136 (571)
T 3cvr_A           71 LSSLPDNLP--PQITVLEITQNA-LISLP---ELPASLEYLDACDN-RLSTLPE-LPA--SLKHLDVDNNQLTM----LP  136 (571)
T ss_dssp             CSCCCSCCC--TTCSEEECCSSC-CSCCC---CCCTTCCEEECCSS-CCSCCCC-CCT--TCCEEECCSSCCSC----CC
T ss_pred             CCccCHhHc--CCCCEEECcCCC-Ccccc---cccCCCCEEEccCC-CCCCcch-hhc--CCCEEECCCCcCCC----CC
Confidence            356777664  889999999998 77888   56899999999999 6677887 655  99999999988763    33


Q ss_pred             cccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccE
Q 044247           81 GSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKE  160 (333)
Q Consensus        81 ~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~  160 (333)
                      .   .+++|+.|++.... +.....       .+++|++|++++|.+                  ..++. +.  ++|+.
T Consensus       137 ~---~l~~L~~L~Ls~N~-l~~lp~-------~l~~L~~L~Ls~N~L------------------~~lp~-l~--~~L~~  184 (571)
T 3cvr_A          137 E---LPALLEYINADNNQ-LTMLPE-------LPTSLEVLSVRNNQL------------------TFLPE-LP--ESLEA  184 (571)
T ss_dssp             C---CCTTCCEEECCSSC-CSCCCC-------CCTTCCEEECCSSCC------------------SCCCC-CC--TTCCE
T ss_pred             C---cCccccEEeCCCCc-cCcCCC-------cCCCcCEEECCCCCC------------------CCcch-hh--CCCCE
Confidence            3   57888888876532 221111       457999999999953                  23444 43  89999


Q ss_pred             EEEeeecCCCCccCchhhhcCCCc-------cEEEeecCCCCCCCCC-CCCCccccceecccccccccccc
Q 044247          161 LHIHEYRGRRNVVPKNWVMSLTNL-------RVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGN  223 (333)
Q Consensus       161 L~l~~~~~~~~~~~~~~~~~~~~L-------~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~  223 (333)
                      |++++|....  + |. +..  +|       +.|++++| .++.+|. +..+++|+.|++++|.....++.
T Consensus       185 L~Ls~N~L~~--l-p~-~~~--~L~~~~~~L~~L~Ls~N-~l~~lp~~l~~l~~L~~L~L~~N~l~~~~p~  248 (571)
T 3cvr_A          185 LDVSTNLLES--L-PA-VPV--RNHHSEETEIFFRCREN-RITHIPENILSLDPTCTIILEDNPLSSRIRE  248 (571)
T ss_dssp             EECCSSCCSS--C-CC-CC----------CCEEEECCSS-CCCCCCGGGGGSCTTEEEECCSSSCCHHHHH
T ss_pred             EECcCCCCCc--h-hh-HHH--hhhcccccceEEecCCC-cceecCHHHhcCCCCCEEEeeCCcCCCcCHH
Confidence            9999998887  7 66 432  67       99999999 5667776 77799999999999984444443

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.35  E-value=7.8e-12  Score=104.07  Aligned_cols=148  Identities=20%  Similarity=0.167  Sum_probs=88.8

Q ss_pred             ccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCceeE
Q 044247           14 LERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCS   93 (333)
Q Consensus        14 L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~   93 (333)
                      .+.++.+++. +..+|..+.  ++|++|++++|......|..+..+++|++|++.+|....                   
T Consensus        21 ~~~v~c~~~~-l~~ip~~~~--~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~-------------------   78 (229)
T 3e6j_A           21 GTTVDCRSKR-HASVPAGIP--TNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGA-------------------   78 (229)
T ss_dssp             TTEEECTTSC-CSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCC-------------------
T ss_pred             CCEeEccCCC-cCccCCCCC--CCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCC-------------------
Confidence            3456665555 556665443  666677776663322234445666666666665554321                   


Q ss_pred             ecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCcc
Q 044247           94 IDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVV  173 (333)
Q Consensus        94 l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~  173 (333)
                            ++.      ..+..+++|+.|++++|.+.                 ......+..+++|+.|++++|....  +
T Consensus        79 ------i~~------~~~~~l~~L~~L~Ls~N~l~-----------------~l~~~~~~~l~~L~~L~Ls~N~l~~--l  127 (229)
T 3e6j_A           79 ------LPV------GVFDSLTQLTVLDLGTNQLT-----------------VLPSAVFDRLVHLKELFMCCNKLTE--L  127 (229)
T ss_dssp             ------CCT------TTTTTCTTCCEEECCSSCCC-----------------CCCTTTTTTCTTCCEEECCSSCCCS--C
T ss_pred             ------cCh------hhcccCCCcCEEECCCCcCC-----------------ccChhHhCcchhhCeEeccCCcccc--c
Confidence                  110      12344566777777777421                 1112345567777888887777776  6


Q ss_pred             CchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceeccccc
Q 044247          174 PKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMK  216 (333)
Q Consensus       174 ~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~  216 (333)
                       |..+..+++|+.|++++| .+..++.  +..+++|+.|++++|+
T Consensus       128 -p~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N~  170 (229)
T 3e6j_A          128 -PRGIERLTHLTHLALDQN-QLKSIPHGAFDRLSSLTHAYLFGNP  170 (229)
T ss_dssp             -CTTGGGCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             -CcccccCCCCCEEECCCC-cCCccCHHHHhCCCCCCEEEeeCCC
Confidence             666777788888888877 4445543  6667778888887776

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=99.33  E-value=1.2e-11  Score=102.30  Aligned_cols=129  Identities=16%  Similarity=0.228  Sum_probs=99.9

Q ss_pred             CCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCC-CC-CCCCccccceecccccccccccccccCCCCCCC
Q 044247          156 PNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHL-PP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTD  233 (333)
Q Consensus       156 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l-~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~  233 (333)
                      ++++.|+++++....  +++..+..+++|+.|++++|. +..+ +. ++++++|++|++++|. ++.++...        
T Consensus        32 ~~l~~L~l~~n~i~~--i~~~~~~~l~~L~~L~Ls~N~-i~~~~~~~~~~l~~L~~L~Ls~N~-l~~l~~~~--------   99 (220)
T 2v9t_B           32 ETITEIRLEQNTIKV--IPPGAFSPYKKLRRIDLSNNQ-ISELAPDAFQGLRSLNSLVLYGNK-ITELPKSL--------   99 (220)
T ss_dssp             TTCCEEECCSSCCCE--ECTTSSTTCTTCCEEECCSSC-CCEECTTTTTTCSSCCEEECCSSC-CCCCCTTT--------
T ss_pred             cCCCEEECCCCcCCC--cCHhHhhCCCCCCEEECCCCc-CCCcCHHHhhCCcCCCEEECCCCc-CCccCHhH--------
Confidence            689999999998877  634467889999999999994 4444 33 8889999999999998 77776543        


Q ss_pred             CCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCc-ccCCCCCcceEEEcccCh
Q 044247          234 GSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPD-HLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       234 ~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~-~~~~l~~L~~L~l~~~c~  307 (333)
                         +..+++|++|+++++ .+..+     .+..+..+++|+.|+++++ .++.++. .+..+++|+.|++ .+++
T Consensus       100 ---f~~l~~L~~L~L~~N-~l~~~-----~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L-~~N~  163 (220)
T 2v9t_B          100 ---FEGLFSLQLLLLNAN-KINCL-----RVDAFQDLHNLNLLSLYDN-KLQTIAKGTFSPLRAIQTMHL-AQNP  163 (220)
T ss_dssp             ---TTTCTTCCEEECCSS-CCCCC-----CTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEEC-CSSC
T ss_pred             ---ccCCCCCCEEECCCC-CCCEe-----CHHHcCCCCCCCEEECCCC-cCCEECHHHHhCCCCCCEEEe-CCCC
Confidence               457899999999985 34333     2345668899999999985 5555554 5777999999999 7654

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.33  E-value=1.9e-11  Score=101.78  Aligned_cols=128  Identities=22%  Similarity=0.232  Sum_probs=103.1

Q ss_pred             CCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCC
Q 044247          156 PNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTD  233 (333)
Q Consensus       156 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~  233 (333)
                      ++|+.|++++|....  +.+..+..+++|+.|++++|. ++.++.  ++.+++|+.|++++|. ++.++...        
T Consensus        40 ~~L~~L~Ls~n~i~~--~~~~~~~~l~~L~~L~L~~N~-l~~i~~~~~~~l~~L~~L~Ls~N~-l~~l~~~~--------  107 (229)
T 3e6j_A           40 TNAQILYLHDNQITK--LEPGVFDSLINLKELYLGSNQ-LGALPVGVFDSLTQLTVLDLGTNQ-LTVLPSAV--------  107 (229)
T ss_dssp             TTCSEEECCSSCCCC--CCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTT--------
T ss_pred             CCCCEEEcCCCccCc--cCHHHhhCccCCcEEECCCCC-CCCcChhhcccCCCcCEEECCCCc-CCccChhH--------
Confidence            799999999998877  536678889999999999994 566665  6889999999999997 66665543        


Q ss_pred             CCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCc-ccCCCCCcceEEEcccCh
Q 044247          234 GSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPD-HLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       234 ~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~-~~~~l~~L~~L~l~~~c~  307 (333)
                         +..+++|++|+++++ ++..      +|..+..+++|+.|+++++ .++.++. .+..+++|+.|++ .+++
T Consensus       108 ---~~~l~~L~~L~Ls~N-~l~~------lp~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l-~~N~  170 (229)
T 3e6j_A          108 ---FDRLVHLKELFMCCN-KLTE------LPRGIERLTHLTHLALDQN-QLKSIPHGAFDRLSSLTHAYL-FGNP  170 (229)
T ss_dssp             ---TTTCTTCCEEECCSS-CCCS------CCTTGGGCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEEC-TTSC
T ss_pred             ---hCcchhhCeEeccCC-cccc------cCcccccCCCCCEEECCCC-cCCccCHHHHhCCCCCCEEEe-eCCC
Confidence               468899999999985 4543      4455668999999999985 6667664 5777999999999 8654

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=99.31  E-value=1.3e-11  Score=102.07  Aligned_cols=146  Identities=15%  Similarity=0.212  Sum_probs=91.5

Q ss_pred             cEEeecCCCcccccCccccccccccEEecCCCCCcccccc-cccccccCceeeeEEEcCccCCCCCccccccCccCceeE
Q 044247           15 ERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPV-GIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCS   93 (333)
Q Consensus        15 ~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~-~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~   93 (333)
                      +.++.+++. +..+|..+.  ++|+.|++++| .+..++. .+..+++|+.|++++|....   ..+.            
T Consensus        14 ~~v~c~~~~-l~~iP~~l~--~~l~~L~l~~n-~i~~i~~~~~~~l~~L~~L~Ls~N~i~~---~~~~------------   74 (220)
T 2v9t_B           14 NIVDCRGKG-LTEIPTNLP--ETITEIRLEQN-TIKVIPPGAFSPYKKLRRIDLSNNQISE---LAPD------------   74 (220)
T ss_dssp             TEEECTTSC-CSSCCSSCC--TTCCEEECCSS-CCCEECTTSSTTCTTCCEEECCSSCCCE---ECTT------------
T ss_pred             CEEEcCCCC-cCcCCCccC--cCCCEEECCCC-cCCCcCHhHhhCCCCCCEEECCCCcCCC---cCHH------------
Confidence            567777776 677776554  67888888887 4555544 57777888888877665442   1122            


Q ss_pred             ecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCccccccccc-ccCCCCCCccEEEEeeecCCCCc
Q 044247           94 IDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLL-DALGPPPNLKELHIHEYRGRRNV  172 (333)
Q Consensus        94 l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~~L~~L~l~~~~~~~~~  172 (333)
                                      .+..+++|++|++++|.+                  ..++ ..+..+++|+.|++++|....  
T Consensus        75 ----------------~~~~l~~L~~L~Ls~N~l------------------~~l~~~~f~~l~~L~~L~L~~N~l~~--  118 (220)
T 2v9t_B           75 ----------------AFQGLRSLNSLVLYGNKI------------------TELPKSLFEGLFSLQLLLLNANKINC--  118 (220)
T ss_dssp             ----------------TTTTCSSCCEEECCSSCC------------------CCCCTTTTTTCTTCCEEECCSSCCCC--
T ss_pred             ----------------HhhCCcCCCEEECCCCcC------------------CccCHhHccCCCCCCEEECCCCCCCE--
Confidence                            234445666666666632                  1222 234556777777777766655  


Q ss_pred             cCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceeccccc
Q 044247          173 VPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMK  216 (333)
Q Consensus       173 ~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~  216 (333)
                      +.+..+..+++|+.|++++|. ++.++.  +..+++|+.|++++|+
T Consensus       119 ~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N~  163 (220)
T 2v9t_B          119 LRVDAFQDLHNLNLLSLYDNK-LQTIAKGTFSPLRAIQTMHLAQNP  163 (220)
T ss_dssp             CCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             eCHHHcCCCCCCCEEECCCCc-CCEECHHHHhCCCCCCEEEeCCCC
Confidence            434556677777777777773 344443  6667777777777776

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

Probab=99.30  E-value=7.8e-12  Score=111.41  Aligned_cols=170  Identities=18%  Similarity=0.128  Sum_probs=104.8

Q ss_pred             cEEeecCCCcccccCccccccccccEEecCCCCCccccccc-cc-ccccCceeeeEEEcCccCCCCCccccccCccCcee
Q 044247           15 ERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVG-IG-ELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQC   92 (333)
Q Consensus        15 ~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~-i~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L   92 (333)
                      ++++.+++. +..+|..+.  +.++.|++++| .+..++.. +. .+++|++|++++|.+..   .....+..+++|+.|
T Consensus        21 ~~l~c~~~~-l~~iP~~~~--~~l~~L~Ls~N-~l~~l~~~~~~~~l~~L~~L~L~~N~i~~---i~~~~~~~l~~L~~L   93 (361)
T 2xot_A           21 NILSCSKQQ-LPNVPQSLP--SYTALLDLSHN-NLSRLRAEWTPTRLTNLHSLLLSHNHLNF---ISSEAFVPVPNLRYL   93 (361)
T ss_dssp             TEEECCSSC-CSSCCSSCC--TTCSEEECCSS-CCCEECTTSSSSCCTTCCEEECCSSCCCE---ECTTTTTTCTTCCEE
T ss_pred             CEEEeCCCC-cCccCccCC--CCCCEEECCCC-CCCccChhhhhhcccccCEEECCCCcCCc---cChhhccCCCCCCEE
Confidence            567777766 666776543  35777888777 45555443 44 67778888877776552   223345666677776


Q ss_pred             EecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCc
Q 044247           93 SIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNV  172 (333)
Q Consensus        93 ~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~  172 (333)
                      ++.... +...   ....+..+++|++|++++|.+                 ....+..+..+++|+.|++++|....  
T Consensus        94 ~Ls~N~-l~~~---~~~~~~~l~~L~~L~L~~N~i-----------------~~~~~~~~~~l~~L~~L~L~~N~l~~--  150 (361)
T 2xot_A           94 DLSSNH-LHTL---DEFLFSDLQALEVLLLYNNHI-----------------VVVDRNAFEDMAQLQKLYLSQNQISR--  150 (361)
T ss_dssp             ECCSSC-CCEE---CTTTTTTCTTCCEEECCSSCC-----------------CEECTTTTTTCTTCCEEECCSSCCCS--
T ss_pred             ECCCCc-CCcC---CHHHhCCCcCCCEEECCCCcc-----------------cEECHHHhCCcccCCEEECCCCcCCe--
Confidence            665421 1111   112456677888888887752                 22234567777888888888877776  


Q ss_pred             cCchhh----hcCCCccEEEeecCCCCCCCCC--CCCCcc--ccceeccccc
Q 044247          173 VPKNWV----MSLTNLRVLHLFECRNCEHLPP--LGKLTS--LEDLYIAGMK  216 (333)
Q Consensus       173 ~~~~~~----~~~~~L~~L~l~~~~~~~~l~~--~~~l~~--L~~L~l~~~~  216 (333)
                      + +..+    ..+++|+.|++++| .+..++.  +..++.  |+.|++++|+
T Consensus       151 l-~~~~~~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~l~~~~l~~l~l~~N~  200 (361)
T 2xot_A          151 F-PVELIKDGNKLPKLMLLDLSSN-KLKKLPLTDLQKLPAWVKNGLYLHNNP  200 (361)
T ss_dssp             C-CGGGTC----CTTCCEEECCSS-CCCCCCHHHHHHSCHHHHTTEECCSSC
T ss_pred             e-CHHHhcCcccCCcCCEEECCCC-CCCccCHHHhhhccHhhcceEEecCCC
Confidence            6 4433    45788888888887 4455553  445555  4778887776

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.28  E-value=3.3e-11  Score=99.65  Aligned_cols=129  Identities=13%  Similarity=0.188  Sum_probs=99.2

Q ss_pred             CCccEEEEeeecCCCCccC-chhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCC
Q 044247          156 PNLKELHIHEYRGRRNVVP-KNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDT  232 (333)
Q Consensus       156 ~~L~~L~l~~~~~~~~~~~-~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~  232 (333)
                      +.++.|+++++....  +. +..+..+++|+.|++++|. ++.+++  ++.+++|++|++++|. ++.++...       
T Consensus        32 ~~~~~L~L~~N~l~~--~~~~~~~~~l~~L~~L~L~~N~-i~~i~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~-------  100 (220)
T 2v70_A           32 QYTAELRLNNNEFTV--LEATGIFKKLPQLRKINFSNNK-ITDIEEGAFEGASGVNEILLTSNR-LENVQHKM-------  100 (220)
T ss_dssp             TTCSEEECCSSCCCE--ECCCCCGGGCTTCCEEECCSSC-CCEECTTTTTTCTTCCEEECCSSC-CCCCCGGG-------
T ss_pred             CCCCEEEcCCCcCCc--cCchhhhccCCCCCEEECCCCc-CCEECHHHhCCCCCCCEEECCCCc-cCccCHhH-------
Confidence            467899999988776  41 2347789999999999994 555543  8899999999999998 66665433       


Q ss_pred             CCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccC-CcccCCCCCcceEEEcccCh
Q 044247          233 DGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKAL-PDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       233 ~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l-~~~~~~l~~L~~L~l~~~c~  307 (333)
                          +..+++|++|+++++. +..+     .|..+..+++|+.|+++++ .++.+ |..+..+++|+.|++ .+++
T Consensus       101 ----~~~l~~L~~L~Ls~N~-l~~~-----~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L-~~N~  164 (220)
T 2v70_A          101 ----FKGLESLKTLMLRSNR-ITCV-----GNDSFIGLSSVRLLSLYDN-QITTVAPGAFDTLHSLSTLNL-LANP  164 (220)
T ss_dssp             ----GTTCSSCCEEECTTSC-CCCB-----CTTSSTTCTTCSEEECTTS-CCCCBCTTTTTTCTTCCEEEC-CSCC
T ss_pred             ----hcCCcCCCEEECCCCc-CCeE-----CHhHcCCCccCCEEECCCC-cCCEECHHHhcCCCCCCEEEe-cCcC
Confidence                4688999999999963 4332     3445668899999999985 45554 677888999999999 8764

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.26  E-value=3.1e-11  Score=99.75  Aligned_cols=147  Identities=19%  Similarity=0.213  Sum_probs=90.4

Q ss_pred             cEEeecCCCcccccCccccccccccEEecCCCCCcccc-cc-cccccccCceeeeEEEcCccCCCCCccccccCccCcee
Q 044247           15 ERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYL-PV-GIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQC   92 (333)
Q Consensus        15 ~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~-p~-~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L   92 (333)
                      ++++++++. +..+|..+.  +.+++|++++| .+..+ +. .+..+++|++|++++|.+..   ....           
T Consensus        14 ~~l~~s~n~-l~~iP~~~~--~~~~~L~L~~N-~l~~~~~~~~~~~l~~L~~L~L~~N~i~~---i~~~-----------   75 (220)
T 2v70_A           14 TTVDCSNQK-LNKIPEHIP--QYTAELRLNNN-EFTVLEATGIFKKLPQLRKINFSNNKITD---IEEG-----------   75 (220)
T ss_dssp             TEEECCSSC-CSSCCSCCC--TTCSEEECCSS-CCCEECCCCCGGGCTTCCEEECCSSCCCE---ECTT-----------
T ss_pred             CEeEeCCCC-cccCccCCC--CCCCEEEcCCC-cCCccCchhhhccCCCCCEEECCCCcCCE---ECHH-----------
Confidence            578888777 667776553  35678888887 45554 32 36777888888877665442   1111           


Q ss_pred             EecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCc
Q 044247           93 SIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNV  172 (333)
Q Consensus        93 ~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~  172 (333)
                                       .+..+++|++|++++|.+.                 ......+..+++|+.|++++|....  
T Consensus        76 -----------------~~~~l~~L~~L~Ls~N~l~-----------------~~~~~~~~~l~~L~~L~Ls~N~l~~--  119 (220)
T 2v70_A           76 -----------------AFEGASGVNEILLTSNRLE-----------------NVQHKMFKGLESLKTLMLRSNRITC--  119 (220)
T ss_dssp             -----------------TTTTCTTCCEEECCSSCCC-----------------CCCGGGGTTCSSCCEEECTTSCCCC--
T ss_pred             -----------------HhCCCCCCCEEECCCCccC-----------------ccCHhHhcCCcCCCEEECCCCcCCe--
Confidence                             2344556666666666421                 1222345566777777777766655  


Q ss_pred             cCchhhhcCCCccEEEeecCCCCCCC-CC-CCCCccccceeccccc
Q 044247          173 VPKNWVMSLTNLRVLHLFECRNCEHL-PP-LGKLTSLEDLYIAGMK  216 (333)
Q Consensus       173 ~~~~~~~~~~~L~~L~l~~~~~~~~l-~~-~~~l~~L~~L~l~~~~  216 (333)
                      +.+..+..+++|+.|++++|. +..+ |. ++.+++|+.|++++|+
T Consensus       120 ~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N~  164 (220)
T 2v70_A          120 VGNDSFIGLSSVRLLSLYDNQ-ITTVAPGAFDTLHSLSTLNLLANP  164 (220)
T ss_dssp             BCTTSSTTCTTCSEEECTTSC-CCCBCTTTTTTCTTCCEEECCSCC
T ss_pred             ECHhHcCCCccCCEEECCCCc-CCEECHHHhcCCCCCCEEEecCcC
Confidence            424556667777777777773 3333 32 6667777777777776

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=99.25  E-value=1.1e-11  Score=97.90  Aligned_cols=132  Identities=19%  Similarity=0.263  Sum_probs=102.8

Q ss_pred             CCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceeccccccccc-ccccccCCCCCC
Q 044247          154 PPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKR-VGNEFLGVESDT  232 (333)
Q Consensus       154 ~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~-i~~~~~~~~~~~  232 (333)
                      ..++|+.|++++|......+ |..+..+++|+.|++++|. +..++.++.+++|++|++++|. +.. ++..        
T Consensus        22 ~~~~L~~L~l~~n~l~~~~i-~~~~~~l~~L~~L~l~~n~-l~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~--------   90 (168)
T 2ell_A           22 TPAAVRELVLDNCKSNDGKI-EGLTAEFVNLEFLSLINVG-LISVSNLPKLPKLKKLELSENR-IFGGLDML--------   90 (168)
T ss_dssp             CTTSCSEEECCSCBCBTTBC-SSCCGGGGGCCEEEEESSC-CCCCSSCCCCSSCCEEEEESCC-CCSCCCHH--------
T ss_pred             CcccCCEEECCCCCCChhhH-HHHHHhCCCCCEEeCcCCC-CCChhhhccCCCCCEEECcCCc-CchHHHHH--------
Confidence            34789999999998771117 7777889999999999995 5556668899999999999998 544 3322        


Q ss_pred             CCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCc----ccCCCCCcceEEEcccCh
Q 044247          233 DGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPD----HLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       233 ~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~----~~~~l~~L~~L~l~~~c~  307 (333)
                          ...+++|++|+++++ .+..++.    +..+..+++|+.|++++| .+..++.    .+..+++|+.|++ .+|.
T Consensus        91 ----~~~l~~L~~L~Ls~N-~l~~~~~----~~~l~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~l~~L~~L~l-~~n~  158 (168)
T 2ell_A           91 ----AEKLPNLTHLNLSGN-KLKDIST----LEPLKKLECLKSLDLFNC-EVTNLNDYRESVFKLLPQLTYLDG-YDRE  158 (168)
T ss_dssp             ----HHHCTTCCEEECBSS-SCCSSGG----GGGGSSCSCCCEEECCSS-GGGTSTTHHHHHHTTCSSCCEETT-EETT
T ss_pred             ----HhhCCCCCEEeccCC-ccCcchh----HHHHhcCCCCCEEEeeCC-cCcchHHHHHHHHHhCccCcEecC-CCCC
Confidence                456999999999996 5555431    134568999999999996 4556665    6778999999999 8876

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

Probab=99.25  E-value=1.2e-11  Score=110.20  Aligned_cols=166  Identities=16%  Similarity=0.087  Sum_probs=118.6

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccCcc-cc-ccccccEEecCCCCCccccc-ccccccccCceeeeEEEcCccCCC
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELPQG-IG-KLRKLMYLDNDYTDSLRYLP-VGIGELIRLRRVTKFVVCGGYDRA   77 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~-i~-~l~~L~~L~l~~~~~~~~~p-~~i~~l~~L~~L~l~~~~~~~~~~   77 (333)
                      ++.+|..+.  ..+++|++++|. +..++.. +. .+++|++|++++| .+..++ ..+..+++|++|++++|....   
T Consensus        30 l~~iP~~~~--~~l~~L~Ls~N~-l~~l~~~~~~~~l~~L~~L~L~~N-~i~~i~~~~~~~l~~L~~L~Ls~N~l~~---  102 (361)
T 2xot_A           30 LPNVPQSLP--SYTALLDLSHNN-LSRLRAEWTPTRLTNLHSLLLSHN-HLNFISSEAFVPVPNLRYLDLSSNHLHT---  102 (361)
T ss_dssp             CSSCCSSCC--TTCSEEECCSSC-CCEECTTSSSSCCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSCCCE---
T ss_pred             cCccCccCC--CCCCEEECCCCC-CCccChhhhhhcccccCEEECCCC-cCCccChhhccCCCCCCEEECCCCcCCc---
Confidence            356777665  458999999998 6655544 55 8999999999999 556665 458999999999999988763   


Q ss_pred             CCccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCC
Q 044247           78 CSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPN  157 (333)
Q Consensus        78 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  157 (333)
                      .....+..+++|+.|++....- ..   .....+..+++|++|++++|.+..              ........+..+++
T Consensus       103 ~~~~~~~~l~~L~~L~L~~N~i-~~---~~~~~~~~l~~L~~L~L~~N~l~~--------------l~~~~~~~~~~l~~  164 (361)
T 2xot_A          103 LDEFLFSDLQALEVLLLYNNHI-VV---VDRNAFEDMAQLQKLYLSQNQISR--------------FPVELIKDGNKLPK  164 (361)
T ss_dssp             ECTTTTTTCTTCCEEECCSSCC-CE---ECTTTTTTCTTCCEEECCSSCCCS--------------CCGGGTC----CTT
T ss_pred             CCHHHhCCCcCCCEEECCCCcc-cE---ECHHHhCCcccCCEEECCCCcCCe--------------eCHHHhcCcccCCc
Confidence            2334567888999988865321 11   112357788999999999996432              11122222256899


Q ss_pred             ccEEEEeeecCCCCccCchhhhcCCC--ccEEEeecCC
Q 044247          158 LKELHIHEYRGRRNVVPKNWVMSLTN--LRVLHLFECR  193 (333)
Q Consensus       158 L~~L~l~~~~~~~~~~~~~~~~~~~~--L~~L~l~~~~  193 (333)
                      |+.|++++|....  +++..+..++.  ++.|++.+|.
T Consensus       165 L~~L~L~~N~l~~--l~~~~~~~l~~~~l~~l~l~~N~  200 (361)
T 2xot_A          165 LMLLDLSSNKLKK--LPLTDLQKLPAWVKNGLYLHNNP  200 (361)
T ss_dssp             CCEEECCSSCCCC--CCHHHHHHSCHHHHTTEECCSSC
T ss_pred             CCEEECCCCCCCc--cCHHHhhhccHhhcceEEecCCC
Confidence            9999999999887  73456777777  4889999884

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=99.19  E-value=3.8e-11  Score=94.78  Aligned_cols=136  Identities=17%  Similarity=0.123  Sum_probs=81.7

Q ss_pred             CCcccEEeecCCCcc-cccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccC
Q 044247           11 LYNLERVNVSGCSHL-RELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLL   89 (333)
Q Consensus        11 l~~L~~L~l~~~~~~-~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L   89 (333)
                      .++|++|++++|... +.+|..+..+++|++|++++| .+..+ ..+..+++|++|++++|....   ..+         
T Consensus        23 ~~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n-~l~~~-~~~~~l~~L~~L~Ls~N~l~~---~~~---------   88 (168)
T 2ell_A           23 PAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINV-GLISV-SNLPKLPKLKKLELSENRIFG---GLD---------   88 (168)
T ss_dssp             TTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESS-CCCCC-SSCCCCSSCCEEEEESCCCCS---CCC---------
T ss_pred             cccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCC-CCCCh-hhhccCCCCCEEECcCCcCch---HHH---------
Confidence            355666666666522 255555566666666666665 34444 445556666666665554431   011         


Q ss_pred             ceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCC
Q 044247           90 RQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGR  169 (333)
Q Consensus        90 ~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~  169 (333)
                                         ..+..+++|++|++++|.+.+.                ..+..+..+++|+.|++++|...
T Consensus        89 -------------------~~~~~l~~L~~L~Ls~N~l~~~----------------~~~~~l~~l~~L~~L~l~~N~l~  133 (168)
T 2ell_A           89 -------------------MLAEKLPNLTHLNLSGNKLKDI----------------STLEPLKKLECLKSLDLFNCEVT  133 (168)
T ss_dssp             -------------------HHHHHCTTCCEEECBSSSCCSS----------------GGGGGGSSCSCCCEEECCSSGGG
T ss_pred             -------------------HHHhhCCCCCEEeccCCccCcc----------------hhHHHHhcCCCCCEEEeeCCcCc
Confidence                               1333467788888888753211                11256677888888888888777


Q ss_pred             CCccCch----hhhcCCCccEEEeecCCCCCCCC
Q 044247          170 RNVVPKN----WVMSLTNLRVLHLFECRNCEHLP  199 (333)
Q Consensus       170 ~~~~~~~----~~~~~~~L~~L~l~~~~~~~~l~  199 (333)
                      .  + +.    .+..+++|+.|++++|. ...+|
T Consensus       134 ~--~-~~~~~~~~~~l~~L~~L~l~~n~-~~~~~  163 (168)
T 2ell_A          134 N--L-NDYRESVFKLLPQLTYLDGYDRE-DQEAP  163 (168)
T ss_dssp             T--S-TTHHHHHHTTCSSCCEETTEETT-SCBCC
T ss_pred             c--h-HHHHHHHHHhCccCcEecCCCCC-hhhcc
Confidence            6  5 44    66788999999999884 33343

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

Probab=99.16  E-value=1.9e-11  Score=94.47  Aligned_cols=127  Identities=20%  Similarity=0.291  Sum_probs=96.2

Q ss_pred             CCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceeccccccccc-ccccccCCCCCCC
Q 044247          155 PPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKR-VGNEFLGVESDTD  233 (333)
Q Consensus       155 ~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~-i~~~~~~~~~~~~  233 (333)
                      .++++.|++++|......+ |..+..+++|+.|++++| .+..++.++.+++|++|++++|. +.. ++..         
T Consensus        16 ~~~l~~L~l~~n~l~~~~~-~~~~~~l~~L~~L~l~~n-~l~~~~~~~~l~~L~~L~Ls~n~-i~~~~~~~---------   83 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKL-EGLTDEFEELEFLSTINV-GLTSIANLPKLNKLKKLELSDNR-VSGGLEVL---------   83 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBC-CSCCTTCTTCCEEECTTS-CCCCCTTCCCCTTCCEEECCSSC-CCSCTHHH---------
T ss_pred             CccCeEEEccCCcCChhHH-HHHHhhcCCCcEEECcCC-CCCCchhhhcCCCCCEEECCCCc-ccchHHHH---------
Confidence            4789999999998771116 777788999999999999 45556668889999999999998 444 4332         


Q ss_pred             CCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCc----ccCCCCCcceEEE
Q 044247          234 GSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPD----HLLQKSTLQNLEI  302 (333)
Q Consensus       234 ~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~----~~~~l~~L~~L~l  302 (333)
                         ...+++|++|+++++. +..++    .+..+..+++|++|++++| .++.++.    .+..+++|+.|++
T Consensus        84 ---~~~l~~L~~L~ls~N~-i~~~~----~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~l~~L~~L~l  147 (149)
T 2je0_A           84 ---AEKCPNLTHLNLSGNK-IKDLS----TIEPLKKLENLKSLDLFNC-EVTNLNDYRENVFKLLPQLTYLDG  147 (149)
T ss_dssp             ---HHHCTTCCEEECTTSC-CCSHH----HHGGGGGCTTCCEEECTTC-GGGGSTTHHHHHHHHCTTCCEETT
T ss_pred             ---hhhCCCCCEEECCCCc-CCChH----HHHHHhhCCCCCEEeCcCC-cccchHHHHHHHHHHCCCcccccC
Confidence               4568999999999863 54432    1244568999999999986 4555554    5667899999887

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=99.14  E-value=2.2e-10  Score=100.61  Aligned_cols=239  Identities=10%  Similarity=0.075  Sum_probs=141.8

Q ss_pred             CCcccEEeecCCCccc--------------------ccC-ccccc--------cccccEEecCCCCCcccccc-cccccc
Q 044247           11 LYNLERVNVSGCSHLR--------------------ELP-QGIGK--------LRKLMYLDNDYTDSLRYLPV-GIGELI   60 (333)
Q Consensus        11 l~~L~~L~l~~~~~~~--------------------~lp-~~i~~--------l~~L~~L~l~~~~~~~~~p~-~i~~l~   60 (333)
                      +++|++|++++|. +.                    .+| .++.+        |++|+.|++..  .+..++. .+..++
T Consensus        48 l~~L~~LdLs~n~-i~~~~~~~~~~~~~~~~~~~~~~I~~~aF~~~~~~~~~g~~~L~~l~L~~--~i~~I~~~aF~~~~  124 (329)
T 3sb4_A           48 FPSLKVLDISNAE-IKMYSGKAGTYPNGKFYIYMANFVPAYAFSNVVNGVTKGKQTLEKVILSE--KIKNIEDAAFKGCD  124 (329)
T ss_dssp             CTTCCEEEEEEEE-ECCEEESSSSSGGGCCEEECTTEECTTTTEEEETTEEEECTTCCC-CBCT--TCCEECTTTTTTCT
T ss_pred             hccCeEEecCcce-eEEecCccccccccccccccccccCHHHhcccccccccccCCCcEEECCc--cccchhHHHhhcCc
Confidence            7889999999987 43                    222 23556        88888888877  4555554 377888


Q ss_pred             cCceeeeEEEcCccCCCCCccccccCccCceeEecC------CCCCCChhhHHHHhhcccCCcc-ceEEeecCCCCCchh
Q 044247           61 RLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDG------LGGVSDAGEARRAELEKKKNLF-DLELDFDNLRDGDEE  133 (333)
Q Consensus        61 ~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~------~~~~~~~~~~~~~~l~~~~~L~-~L~l~~~~~~~~~~~  133 (333)
                      +|+.+++.++.......   ..+....++..+....      ...+..      ..+..+..|+ .+.+....    .  
T Consensus       125 ~L~~l~l~~n~i~~i~~---~aF~~~~~l~~l~~~~~~~~~~~~~i~~------~~f~~~~~L~~~i~~~~~~----~--  189 (329)
T 3sb4_A          125 NLKICQIRKKTAPNLLP---EALADSVTAIFIPLGSSDAYRFKNRWEH------FAFIEGEPLETTIQVGAMG----K--  189 (329)
T ss_dssp             TCCEEEBCCSSCCEECT---TSSCTTTCEEEECTTCTHHHHTSTTTTT------SCEEESCCCEEEEEECTTC----C--
T ss_pred             ccceEEcCCCCccccch---hhhcCCCceEEecCcchhhhhccccccc------cccccccccceeEEecCCC----c--
Confidence            88888887765442112   2222233333222221      000000      1233344444 33332221    0  


Q ss_pred             hhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhh-hcCCCccEEEeecCCCCCCCCC--CCCCccccce
Q 044247          134 QAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWV-MSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDL  210 (333)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L  210 (333)
                                ........-....++..+.+.+.-...  - ...+ ..+++|+.+++.+| .+..++.  +.++++|+.+
T Consensus       190 ----------l~~~~~~~~~~~~~~~~l~~~~~l~~~--~-~~~l~~~~~~L~~l~L~~n-~i~~I~~~aF~~~~~L~~l  255 (329)
T 3sb4_A          190 ----------LEDEIMKAGLQPRDINFLTIEGKLDNA--D-FKLIRDYMPNLVSLDISKT-NATTIPDFTFAQKKYLLKI  255 (329)
T ss_dssp             ----------HHHHHHHTTCCGGGCSEEEEEECCCHH--H-HHHHHHHCTTCCEEECTTB-CCCEECTTTTTTCTTCCEE
T ss_pred             ----------HHHHHhhcccCccccceEEEeeeecHH--H-HHHHHHhcCCCeEEECCCC-CcceecHhhhhCCCCCCEE
Confidence                      111112222234566777776643222  1 1122 24889999999987 4566665  8889999999


Q ss_pred             ecccccccccccccccCCCCCCCCCccccCCCcc-EEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCc
Q 044247          211 YIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLK-RLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPD  289 (333)
Q Consensus       211 ~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~-~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~  289 (333)
                      ++.++  ++.++...           +..+++|+ .+.+.+  +++.+.     +..+..+++|+++++.+ +.++.++.
T Consensus       256 ~l~~n--i~~I~~~a-----------F~~~~~L~~~l~l~~--~l~~I~-----~~aF~~c~~L~~l~l~~-n~i~~I~~  314 (329)
T 3sb4_A          256 KLPHN--LKTIGQRV-----------FSNCGRLAGTLELPA--SVTAIE-----FGAFMGCDNLRYVLATG-DKITTLGD  314 (329)
T ss_dssp             ECCTT--CCEECTTT-----------TTTCTTCCEEEEECT--TCCEEC-----TTTTTTCTTEEEEEECS-SCCCEECT
T ss_pred             ECCcc--cceehHHH-----------hhCChhccEEEEEcc--cceEEc-----hhhhhCCccCCEEEeCC-CccCccch
Confidence            99886  77776654           46788898 998886  444443     13455789999999876 56666655


Q ss_pred             -ccCCCCCcceEEE
Q 044247          290 -HLLQKSTLQNLEI  302 (333)
Q Consensus       290 -~~~~l~~L~~L~l  302 (333)
                       .+..+++|+.++.
T Consensus       315 ~aF~~~~~L~~ly~  328 (329)
T 3sb4_A          315 ELFGNGVPSKLIYK  328 (329)
T ss_dssp             TTTCTTCCCCEEEC
T ss_pred             hhhcCCcchhhhcc
Confidence             6677888888864

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=99.13  E-value=5.4e-11  Score=94.70  Aligned_cols=136  Identities=15%  Similarity=0.206  Sum_probs=105.1

Q ss_pred             cCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCC
Q 044247          151 ALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVES  230 (333)
Q Consensus       151 ~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~  230 (333)
                      .+..+++|+.|++++|....  + +......++|+.|++++| .++.++.++.+++|++|++++|. ++.++...     
T Consensus        14 ~~~~~~~L~~L~l~~n~l~~--i-~~~~~~~~~L~~L~Ls~N-~l~~~~~l~~l~~L~~L~Ls~N~-l~~~~~~~-----   83 (176)
T 1a9n_A           14 QYTNAVRDRELDLRGYKIPV--I-ENLGATLDQFDAIDFSDN-EIRKLDGFPLLRRLKTLLVNNNR-ICRIGEGL-----   83 (176)
T ss_dssp             EEECTTSCEEEECTTSCCCS--C-CCGGGGTTCCSEEECCSS-CCCEECCCCCCSSCCEEECCSSC-CCEECSCH-----
T ss_pred             hcCCcCCceEEEeeCCCCch--h-HHhhhcCCCCCEEECCCC-CCCcccccccCCCCCEEECCCCc-ccccCcch-----
Confidence            34567899999999998887  6 654444569999999999 45566778999999999999998 66666442     


Q ss_pred             CCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcc----cCCCCCcceEEEcccC
Q 044247          231 DTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDH----LLQKSTLQNLEIWGAC  306 (333)
Q Consensus       231 ~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~----~~~l~~L~~L~l~~~c  306 (333)
                            +..+++|++|+++++ .+..++.-    ..+..+++|+.|++++|+ +..+|..    +..+++|+.|++ ..+
T Consensus        84 ------~~~l~~L~~L~L~~N-~i~~~~~~----~~l~~l~~L~~L~l~~N~-i~~~~~~~~~~~~~l~~L~~Ld~-~~n  150 (176)
T 1a9n_A           84 ------DQALPDLTELILTNN-SLVELGDL----DPLASLKSLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLDF-QKV  150 (176)
T ss_dssp             ------HHHCTTCCEEECCSC-CCCCGGGG----GGGGGCTTCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEETT-EEC
T ss_pred             ------hhcCCCCCEEECCCC-cCCcchhh----HhhhcCCCCCEEEecCCC-CCCcHhHHHHHHHHCCccceeCC-CcC
Confidence                  368999999999996 45444321    145689999999999965 4566663    677999999999 887


Q ss_pred             hhh
Q 044247          307 HIL  309 (333)
Q Consensus       307 ~~l  309 (333)
                      ..-
T Consensus       151 ~~~  153 (176)
T 1a9n_A          151 KLK  153 (176)
T ss_dssp             CHH
T ss_pred             CHH
Confidence            643

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

Probab=99.09  E-value=1.1e-10  Score=90.24  Aligned_cols=129  Identities=16%  Similarity=0.143  Sum_probs=83.6

Q ss_pred             CCCcccEEeecCCCcc-cccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCcc
Q 044247           10 ELYNLERVNVSGCSHL-RELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNL   88 (333)
Q Consensus        10 ~l~~L~~L~l~~~~~~-~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~   88 (333)
                      ..++|++|++++|... +.+|..+..+++|++|++++| .+..+ ..++.+++|++|++++|....   ..+.       
T Consensus        15 ~~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n-~l~~~-~~~~~l~~L~~L~Ls~n~i~~---~~~~-------   82 (149)
T 2je0_A           15 TPSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINV-GLTSI-ANLPKLNKLKKLELSDNRVSG---GLEV-------   82 (149)
T ss_dssp             CGGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTS-CCCCC-TTCCCCTTCCEEECCSSCCCS---CTHH-------
T ss_pred             CCccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCC-CCCCc-hhhhcCCCCCEEECCCCcccc---hHHH-------
Confidence            3567888888888733 377777788888888888887 55555 557777888888877665542   1111       


Q ss_pred             CceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecC
Q 044247           89 LRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRG  168 (333)
Q Consensus        89 L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~  168 (333)
                                           .+..+++|++|++++|.+.+                ...+..+..+++|+.|++++|..
T Consensus        83 ---------------------~~~~l~~L~~L~ls~N~i~~----------------~~~~~~~~~l~~L~~L~l~~N~l  125 (149)
T 2je0_A           83 ---------------------LAEKCPNLTHLNLSGNKIKD----------------LSTIEPLKKLENLKSLDLFNCEV  125 (149)
T ss_dssp             ---------------------HHHHCTTCCEEECTTSCCCS----------------HHHHGGGGGCTTCCEEECTTCGG
T ss_pred             ---------------------HhhhCCCCCEEECCCCcCCC----------------hHHHHHHhhCCCCCEEeCcCCcc
Confidence                                 23345666666666664211                01124556667777777777776


Q ss_pred             CCCccCch----hhhcCCCccEEEee
Q 044247          169 RRNVVPKN----WVMSLTNLRVLHLF  190 (333)
Q Consensus       169 ~~~~~~~~----~~~~~~~L~~L~l~  190 (333)
                      ..  + +.    .+..+++|+.|+++
T Consensus       126 ~~--~-~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A          126 TN--L-NDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             GG--S-TTHHHHHHHHCTTCCEETTB
T ss_pred             cc--h-HHHHHHHHHHCCCcccccCC
Confidence            65  4 33    56678888888765

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=99.09  E-value=1.6e-10  Score=92.01  Aligned_cols=60  Identities=15%  Similarity=0.159  Sum_probs=30.5

Q ss_pred             hcCCCcccEEeecCCCcccccCccccccc-cccEEecCCCCCcccccccccccccCceeeeEEEc
Q 044247            8 LCELYNLERVNVSGCSHLRELPQGIGKLR-KLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVC   71 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~lp~~i~~l~-~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~   71 (333)
                      +..+.+|++|++++|. +..+|. +..+. +|++|++++| .+..+ ..++.+++|++|++++|.
T Consensus        15 ~~~~~~L~~L~l~~n~-l~~i~~-~~~~~~~L~~L~Ls~N-~l~~~-~~l~~l~~L~~L~Ls~N~   75 (176)
T 1a9n_A           15 YTNAVRDRELDLRGYK-IPVIEN-LGATLDQFDAIDFSDN-EIRKL-DGFPLLRRLKTLLVNNNR   75 (176)
T ss_dssp             EECTTSCEEEECTTSC-CCSCCC-GGGGTTCCSEEECCSS-CCCEE-CCCCCCSSCCEEECCSSC
T ss_pred             cCCcCCceEEEeeCCC-CchhHH-hhhcCCCCCEEECCCC-CCCcc-cccccCCCCCEEECCCCc
Confidence            3445556666666665 444443 33333 5666666655 33333 335555555555555443

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

Probab=99.05  E-value=2.8e-11  Score=117.29  Aligned_cols=64  Identities=27%  Similarity=0.282  Sum_probs=30.0

Q ss_pred             CCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceeccccccccccc
Q 044247          154 PPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVG  222 (333)
Q Consensus       154 ~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~  222 (333)
                      .+++|+.|+|++|....  + |..+..+++|+.|+|++|. +..+|. ++.+++|++|++++|. ++.+|
T Consensus       245 ~l~~L~~L~Ls~N~l~~--l-p~~~~~l~~L~~L~Ls~N~-l~~lp~~~~~l~~L~~L~L~~N~-l~~lp  309 (727)
T 4b8c_D          245 KYDFLTRLYLNGNSLTE--L-PAEIKNLSNLRVLDLSHNR-LTSLPAELGSCFQLKYFYFFDNM-VTTLP  309 (727)
T ss_dssp             GCCSCSCCBCTTSCCSC--C-CGGGGGGTTCCEEECTTSC-CSSCCSSGGGGTTCSEEECCSSC-CCCCC
T ss_pred             CCCCCCEEEeeCCcCcc--c-ChhhhCCCCCCEEeCcCCc-CCccChhhcCCCCCCEEECCCCC-CCccC
Confidence            44455555555544443  4 4444445555555555542 223333 4444555555555543 33443

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=99.03  E-value=1.4e-09  Score=87.68  Aligned_cols=105  Identities=19%  Similarity=0.297  Sum_probs=74.5

Q ss_pred             CccEEEEeeecCCCCccCch--hhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCCC
Q 044247          157 NLKELHIHEYRGRRNVVPKN--WVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTD  233 (333)
Q Consensus       157 ~L~~L~l~~~~~~~~~~~~~--~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~  233 (333)
                      +++.|+++++....  + +.  .+..+++|++|++++|...+..|. ++.+++|++|++++|. ++.++...        
T Consensus        30 ~l~~L~l~~n~i~~--~-~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~--------   97 (192)
T 1w8a_A           30 HTTELLLNDNELGR--I-SSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENK-IKEISNKM--------   97 (192)
T ss_dssp             TCSEEECCSCCCCS--B-CCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCC-CCEECSSS--------
T ss_pred             CCCEEECCCCcCCc--c-CCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCc-CCccCHHH--------
Confidence            88889998887766  5 33  377888999999988843333333 7788889999998887 55554432        


Q ss_pred             CCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCc
Q 044247          234 GSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCR  282 (333)
Q Consensus       234 ~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~  282 (333)
                         +..+++|++|+++++ ++..     ..|..+..+++|++|++++++
T Consensus        98 ---~~~l~~L~~L~L~~N-~l~~-----~~~~~~~~l~~L~~L~L~~N~  137 (192)
T 1w8a_A           98 ---FLGLHQLKTLNLYDN-QISC-----VMPGSFEHLNSLTSLNLASNP  137 (192)
T ss_dssp             ---STTCTTCCEEECCSS-CCCE-----ECTTSSTTCTTCCEEECTTCC
T ss_pred             ---hcCCCCCCEEECCCC-cCCe-----eCHHHhhcCCCCCEEEeCCCC
Confidence               457788888888885 3332     234455678888888888754

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=99.03  E-value=2e-11  Score=99.21  Aligned_cols=115  Identities=19%  Similarity=0.142  Sum_probs=86.7

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCc
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSL   80 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~   80 (333)
                      ++.+|..++.+++|++|++++|. +..+| .+..+++|++|++++| .+..+|..+..+++|++|++++|....     .
T Consensus        37 l~~l~~~~~~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           37 IEKMDATLSTLKACKHLALSTNN-IEKIS-SLSGMENLRILSLGRN-LIKKIENLDAVADTLEELWISYNQIAS-----L  108 (198)
T ss_dssp             CCCCHHHHHHTTTCSEEECSEEE-ESCCC-CHHHHTTCCEEEEEEE-EECSCSSHHHHHHHCSEEEEEEEECCC-----H
T ss_pred             HhhhhHHHhcCCCCCEEECCCCC-Ccccc-ccccCCCCCEEECCCC-CcccccchhhcCCcCCEEECcCCcCCc-----C
Confidence            35667788899999999999887 66677 6888999999999888 566788777778899999999887763     3


Q ss_pred             cccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecC
Q 044247           81 GSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDN  126 (333)
Q Consensus        81 ~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~  126 (333)
                      +.+..+++|+.|++.... +.....  ...+..+++|++|++++|.
T Consensus       109 ~~~~~l~~L~~L~l~~N~-i~~~~~--~~~l~~l~~L~~L~l~~N~  151 (198)
T 1ds9_A          109 SGIEKLVNLRVLYMSNNK-ITNWGE--IDKLAALDKLEDLLLAGNP  151 (198)
T ss_dssp             HHHHHHHHSSEEEESEEE-CCCHHH--HHHHTTTTTCSEEEECSCH
T ss_pred             CccccCCCCCEEECCCCc-CCchhH--HHHHhcCCCCCEEEecCCc
Confidence            367778888888776432 222111  1356778899999998884

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

Probab=99.02  E-value=7.1e-11  Score=114.50  Aligned_cols=113  Identities=16%  Similarity=-0.055  Sum_probs=63.8

Q ss_pred             cCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCceeEecCC--CCCCChhh
Q 044247           28 LPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGL--GGVSDAGE  105 (333)
Q Consensus        28 lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~--~~~~~~~~  105 (333)
                      .|..+..+++|+.|++++| .+..+|..+..+++|++|++++|.+..    .+..+.++++|+.|++...  ..++    
T Consensus       216 ~~~~~~~l~~L~~L~Ls~n-~l~~l~~~~~~l~~L~~L~Ls~N~l~~----lp~~~~~l~~L~~L~Ls~N~l~~lp----  286 (727)
T 4b8c_D          216 PKDSKYDDQLWHALDLSNL-QIFNISANIFKYDFLTRLYLNGNSLTE----LPAEIKNLSNLRVLDLSHNRLTSLP----  286 (727)
T ss_dssp             ------CCCCCCEEECTTS-CCSCCCGGGGGCCSCSCCBCTTSCCSC----CCGGGGGGTTCCEEECTTSCCSSCC----
T ss_pred             ChhhhccCCCCcEEECCCC-CCCCCChhhcCCCCCCEEEeeCCcCcc----cChhhhCCCCCCEEeCcCCcCCccC----
Confidence            3445566666666666666 445666666666666666666665542    4455566666666655432  2222    


Q ss_pred             HHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCC
Q 044247          106 ARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRR  170 (333)
Q Consensus       106 ~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~  170 (333)
                         ..+..+++|++|++++|.                  ...++..+..+++|+.|++++|....
T Consensus       287 ---~~~~~l~~L~~L~L~~N~------------------l~~lp~~~~~l~~L~~L~L~~N~l~~  330 (727)
T 4b8c_D          287 ---AELGSCFQLKYFYFFDNM------------------VTTLPWEFGNLCNLQFLGVEGNPLEK  330 (727)
T ss_dssp             ---SSGGGGTTCSEEECCSSC------------------CCCCCSSTTSCTTCCCEECTTSCCCS
T ss_pred             ---hhhcCCCCCCEEECCCCC------------------CCccChhhhcCCCccEEeCCCCccCC
Confidence               245556677777777663                  23445556667777777777766554

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

Probab=99.02  E-value=2.8e-09  Score=86.08  Aligned_cols=105  Identities=15%  Similarity=0.166  Sum_probs=76.8

Q ss_pred             CCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCC
Q 044247          156 PNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTD  233 (333)
Q Consensus       156 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~  233 (333)
                      ++++.|+++++....  + |..+..+++|+.|++++| .++.+++  +..+++|++|++++|. ++.++...        
T Consensus        31 ~~l~~L~L~~n~i~~--i-p~~~~~l~~L~~L~Ls~N-~i~~i~~~~f~~l~~L~~L~Ls~N~-l~~i~~~~--------   97 (193)
T 2wfh_A           31 RDVTELYLDGNQFTL--V-PKELSNYKHLTLIDLSNN-RISTLSNQSFSNMTQLLTLILSYNR-LRCIPPRT--------   97 (193)
T ss_dssp             TTCCEEECCSSCCCS--C-CGGGGGCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC-CCBCCTTT--------
T ss_pred             CCCCEEECCCCcCch--h-HHHhhcccCCCEEECCCC-cCCEeCHhHccCCCCCCEEECCCCc-cCEeCHHH--------
Confidence            578899999888877  7 777888899999999988 4455554  7888899999999887 66655432        


Q ss_pred             CCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCc
Q 044247          234 GSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCR  282 (333)
Q Consensus       234 ~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~  282 (333)
                         +..+++|+.|+++++ .+..++.     ..+..+++|+.|++++++
T Consensus        98 ---f~~l~~L~~L~L~~N-~l~~~~~-----~~~~~l~~L~~L~L~~N~  137 (193)
T 2wfh_A           98 ---FDGLKSLRLLSLHGN-DISVVPE-----GAFNDLSALSHLAIGANP  137 (193)
T ss_dssp             ---TTTCTTCCEEECCSS-CCCBCCT-----TTTTTCTTCCEEECCSSC
T ss_pred             ---hCCCCCCCEEECCCC-CCCeeCh-----hhhhcCccccEEEeCCCC
Confidence               457788888888884 4443331     234467888888888754

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

Probab=98.99  E-value=3.2e-09  Score=85.72  Aligned_cols=123  Identities=15%  Similarity=0.159  Sum_probs=94.1

Q ss_pred             cEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCCCCCcc
Q 044247          159 KELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSV  237 (333)
Q Consensus       159 ~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~  237 (333)
                      +.++++++....  + |..+  .++|+.|++++| .++.+|. ++.+++|+.|++++|. ++.++...           +
T Consensus        13 ~~l~~~~~~l~~--i-p~~~--~~~l~~L~L~~n-~i~~ip~~~~~l~~L~~L~Ls~N~-i~~i~~~~-----------f   74 (193)
T 2wfh_A           13 TVVRCSNKGLKV--L-PKGI--PRDVTELYLDGN-QFTLVPKELSNYKHLTLIDLSNNR-ISTLSNQS-----------F   74 (193)
T ss_dssp             TEEECTTSCCSS--C-CSCC--CTTCCEEECCSS-CCCSCCGGGGGCTTCCEEECCSSC-CCCCCTTT-----------T
T ss_pred             CEEEcCCCCCCc--C-CCCC--CCCCCEEECCCC-cCchhHHHhhcccCCCEEECCCCc-CCEeCHhH-----------c
Confidence            467777777666  7 6544  579999999999 4566765 8889999999999998 66665432           5


Q ss_pred             ccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCc-ccCCCCCcceEEEcccCh
Q 044247          238 IAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPD-HLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       238 ~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~-~~~~l~~L~~L~l~~~c~  307 (333)
                      ..+++|++|+++++ .++.++     +..+..+++|+.|++++ +.++.++. .+..+++|+.|++ .+++
T Consensus        75 ~~l~~L~~L~Ls~N-~l~~i~-----~~~f~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L-~~N~  137 (193)
T 2wfh_A           75 SNMTQLLTLILSYN-RLRCIP-----PRTFDGLKSLRLLSLHG-NDISVVPEGAFNDLSALSHLAI-GANP  137 (193)
T ss_dssp             TTCTTCCEEECCSS-CCCBCC-----TTTTTTCTTCCEEECCS-SCCCBCCTTTTTTCTTCCEEEC-CSSC
T ss_pred             cCCCCCCEEECCCC-ccCEeC-----HHHhCCCCCCCEEECCC-CCCCeeChhhhhcCccccEEEe-CCCC
Confidence            68899999999995 454443     23456789999999998 45667766 4677999999999 7654

>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=98.98  E-value=2.5e-09  Score=86.25  Aligned_cols=124  Identities=10%  Similarity=0.151  Sum_probs=93.8

Q ss_pred             cEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC---CCCCccccceecccccccccccccccCCCCCCCCC
Q 044247          159 KELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP---LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGS  235 (333)
Q Consensus       159 ~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~---~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~  235 (333)
                      +.++++++....  + |..+  .++++.|++++| .+..++.   ++.+++|++|++++|. ++.+....          
T Consensus        11 ~~l~~s~~~l~~--i-p~~~--~~~l~~L~l~~n-~i~~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~----------   73 (192)
T 1w8a_A           11 TTVDCTGRGLKE--I-PRDI--PLHTTELLLNDN-ELGRISSDGLFGRLPHLVKLELKRNQ-LTGIEPNA----------   73 (192)
T ss_dssp             TEEECTTSCCSS--C-CSCC--CTTCSEEECCSC-CCCSBCCSCSGGGCTTCCEEECCSSC-CCCBCTTT----------
T ss_pred             CEEEcCCCCcCc--C-ccCC--CCCCCEEECCCC-cCCccCCccccccCCCCCEEECCCCC-CCCcCHhH----------
Confidence            678888877776  7 6544  459999999999 4555553   7889999999999998 55553322          


Q ss_pred             ccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccCh
Q 044247          236 SVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       236 ~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                       +..+++|++|+++++ .++.+.     +..+..+++|++|+++++..-...|..+..+++|+.|++ .+++
T Consensus        74 -~~~l~~L~~L~Ls~N-~l~~~~-----~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L-~~N~  137 (192)
T 1w8a_A           74 -FEGASHIQELQLGEN-KIKEIS-----NKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNL-ASNP  137 (192)
T ss_dssp             -TTTCTTCCEEECCSC-CCCEEC-----SSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEEC-TTCC
T ss_pred             -cCCcccCCEEECCCC-cCCccC-----HHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEe-CCCC
Confidence             568899999999995 444433     234557899999999996544455777888999999999 7654

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.97  E-value=4.7e-08  Score=87.96  Aligned_cols=237  Identities=8%  Similarity=0.048  Sum_probs=149.8

Q ss_pred             hcCCCcccEEeecCCCcccccC-ccccccccccEEecCCCCCccccc-ccccccccCceeeeEEEcCccCCCCCcccccc
Q 044247            8 LCELYNLERVNVSGCSHLRELP-QGIGKLRKLMYLDNDYTDSLRYLP-VGIGELIRLRRVTKFVVCGGYDRACSLGSLKK   85 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~l~~~~~~~~~p-~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~   85 (333)
                      +.++ +|+.+.+..+  +..++ .++.++ +|+.+.+..  .+..++ ..+..+.+|+.+++..+.........+   . 
T Consensus       132 F~~~-~L~~i~l~~~--i~~I~~~aF~~~-~L~~i~lp~--~l~~I~~~aF~~c~~L~~l~l~~n~l~~I~~~aF---~-  201 (401)
T 4fdw_A          132 FRNS-QIAKVVLNEG--LKSIGDMAFFNS-TVQEIVFPS--TLEQLKEDIFYYCYNLKKADLSKTKITKLPASTF---V-  201 (401)
T ss_dssp             TTTC-CCSEEECCTT--CCEECTTTTTTC-CCCEEECCT--TCCEECSSTTTTCTTCCEEECTTSCCSEECTTTT---T-
T ss_pred             cccC-CccEEEeCCC--ccEECHHhcCCC-CceEEEeCC--CccEehHHHhhCcccCCeeecCCCcceEechhhE---e-
Confidence            4443 6888887765  44444 345554 688888875  445554 347788889998887655443112222   2 


Q ss_pred             CccCceeEecC-CCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEe
Q 044247           86 LNLLRQCSIDG-LGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIH  164 (333)
Q Consensus        86 l~~L~~L~l~~-~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~  164 (333)
                      ..+|+.+.+.. +..+..      ..+..+++|+.+.+..+                  ...--..+|.. .+|+.+.+.
T Consensus       202 ~~~L~~l~lp~~l~~I~~------~aF~~~~~L~~l~l~~~------------------l~~I~~~aF~~-~~L~~i~lp  256 (401)
T 4fdw_A          202 YAGIEEVLLPVTLKEIGS------QAFLKTSQLKTIEIPEN------------------VSTIGQEAFRE-SGITTVKLP  256 (401)
T ss_dssp             TCCCSEEECCTTCCEECT------TTTTTCTTCCCEECCTT------------------CCEECTTTTTT-CCCSEEEEE
T ss_pred             ecccCEEEeCCchheehh------hHhhCCCCCCEEecCCC------------------ccCcccccccc-CCccEEEeC
Confidence            35677666642 222333      46778889999988765                  22222344555 689999985


Q ss_pred             eecCCCCccCchhhhcCCCccEEEeecCCCC----CCCCC--CCCCccccceecccccccccccccccCCCCCCCCCccc
Q 044247          165 EYRGRRNVVPKNWVMSLTNLRVLHLFECRNC----EHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVI  238 (333)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~----~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~  238 (333)
                      +. ...  ++...|..+++|+.+.+.++...    ..++.  +.+|++|+.+++.+.  ++.++...           +.
T Consensus       257 ~~-i~~--I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~~~--i~~I~~~a-----------F~  320 (401)
T 4fdw_A          257 NG-VTN--IASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIPES--IRILGQGL-----------LG  320 (401)
T ss_dssp             TT-CCE--ECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCCTT--CCEECTTT-----------TT
T ss_pred             CC-ccE--EChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeCCc--eEEEhhhh-----------hc
Confidence            42 233  43556778999999999887332    12333  888999999999853  77776554           46


Q ss_pred             cCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCc-ccCCC-CCcceEEEccc
Q 044247          239 AFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPD-HLLQK-STLQNLEIWGA  305 (333)
Q Consensus       239 ~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~-~~~~l-~~L~~L~l~~~  305 (333)
                      .+++|+.+.+..  +++.+..     ..+..+ +|+++.+.++ ....++. .+..+ .+++.|++ -.
T Consensus       321 ~c~~L~~l~lp~--~l~~I~~-----~aF~~~-~L~~l~l~~n-~~~~l~~~~F~~~~~~l~~l~v-p~  379 (401)
T 4fdw_A          321 GNRKVTQLTIPA--NVTQINF-----SAFNNT-GIKEVKVEGT-TPPQVFEKVWYGFPDDITVIRV-PA  379 (401)
T ss_dssp             TCCSCCEEEECT--TCCEECT-----TSSSSS-CCCEEEECCS-SCCBCCCSSCCCSCTTCCEEEE-CG
T ss_pred             CCCCccEEEECc--cccEEcH-----HhCCCC-CCCEEEEcCC-CCcccccccccCCCCCccEEEe-CH
Confidence            788999999965  3444431     234567 9999999885 4444433 34445 47889999 54

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=98.95  E-value=3.6e-11  Score=97.67  Aligned_cols=107  Identities=11%  Similarity=-0.002  Sum_probs=65.5

Q ss_pred             hcCCCcccEEeecCCCccc------ccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcc
Q 044247            8 LCELYNLERVNVSGCSHLR------ELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLG   81 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~------~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~   81 (333)
                      +.....++.++++.+...+      .+|..++.+++|++|++++| .+..+| .+..+++|+.|++++|....    .+.
T Consensus        14 ~~~~~~l~~l~l~~~~l~~~~~~l~~l~~~~~~l~~L~~L~ls~n-~l~~l~-~~~~l~~L~~L~l~~n~l~~----l~~   87 (198)
T 1ds9_A           14 FEERKSVVATEAEKVELHGMIPPIEKMDATLSTLKACKHLALSTN-NIEKIS-SLSGMENLRILSLGRNLIKK----IEN   87 (198)
T ss_dssp             HHHTTCCCCTTCSEEECCBCCTTCCCCHHHHHHTTTCSEEECSEE-EESCCC-CHHHHTTCCEEEEEEEEECS----CSS
T ss_pred             HHhcccccCcchheeEeccccCcHhhhhHHHhcCCCCCEEECCCC-CCcccc-ccccCCCCCEEECCCCCccc----ccc
Confidence            3344555555555554333      34447888999999999988 566677 78889999999998887653    333


Q ss_pred             ccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecC
Q 044247           82 SLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDN  126 (333)
Q Consensus        82 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~  126 (333)
                      .+..+++|+.|++.... +...     ..+..+++|++|++++|.
T Consensus        88 ~~~~~~~L~~L~L~~N~-l~~l-----~~~~~l~~L~~L~l~~N~  126 (198)
T 1ds9_A           88 LDAVADTLEELWISYNQ-IASL-----SGIEKLVNLRVLYMSNNK  126 (198)
T ss_dssp             HHHHHHHCSEEEEEEEE-CCCH-----HHHHHHHHSSEEEESEEE
T ss_pred             hhhcCCcCCEEECcCCc-CCcC-----CccccCCCCCEEECCCCc
Confidence            44445556665554321 1111     124445566666666663

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

Probab=98.95  E-value=1e-08  Score=81.41  Aligned_cols=105  Identities=21%  Similarity=0.309  Sum_probs=51.4

Q ss_pred             CCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccc
Q 044247          181 LTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWD  258 (333)
Q Consensus       181 ~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~  258 (333)
                      +++|+.|++++|. ++.++.  ++.+++|++|++++|. ++.++...           +..+++|++|+++++ .++.++
T Consensus        27 ~~~l~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~-----------~~~l~~L~~L~l~~N-~l~~~~   92 (177)
T 2o6r_A           27 PSSATRLELESNK-LQSLPHGVFDKLTQLTKLSLSQNQ-IQSLPDGV-----------FDKLTKLTILYLHEN-KLQSLP   92 (177)
T ss_dssp             CTTCSEEECCSSC-CCCCCTTTTTTCTTCSEEECCSSC-CCCCCTTT-----------TTTCTTCCEEECCSS-CCCCCC
T ss_pred             CCCCcEEEeCCCc-ccEeCHHHhcCcccccEEECCCCc-ceEeChhH-----------ccCCCccCEEECCCC-CccccC
Confidence            3556666666553 333332  4555566666666554 44333321           235556666666553 232221


Q ss_pred             cCCccccccccCCCcceEecccCcCcccCCcc-cCCCCCcceEEEcccC
Q 044247          259 LGTAIKGEIIIMPRLSSLSIQSCRELKALPDH-LLQKSTLQNLEIWGAC  306 (333)
Q Consensus       259 ~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~-~~~l~~L~~L~l~~~c  306 (333)
                           +..+..+++|++|+++++ .++.+|.. +..+++|+.|++ .++
T Consensus        93 -----~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~l-~~N  134 (177)
T 2o6r_A           93 -----NGVFDKLTQLKELALDTN-QLKSVPDGIFDRLTSLQKIWL-HTN  134 (177)
T ss_dssp             -----TTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEEC-CSS
T ss_pred             -----HHHhhCCcccCEEECcCC-cceEeCHHHhcCCcccCEEEe-cCC
Confidence                 112234566666666653 34444443 344566666666 544

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

Probab=98.94  E-value=8.5e-09  Score=81.89  Aligned_cols=107  Identities=21%  Similarity=0.252  Sum_probs=83.1

Q ss_pred             CCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCC
Q 044247          156 PNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTD  233 (333)
Q Consensus       156 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~  233 (333)
                      ++|+.|+++++....  +++..+..+++|++|++++| .+..++.  ++.+++|+.|++++|. ++.++...        
T Consensus        28 ~~l~~L~l~~n~l~~--~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~--------   95 (177)
T 2o6r_A           28 SSATRLELESNKLQS--LPHGVFDKLTQLTKLSLSQN-QIQSLPDGVFDKLTKLTILYLHENK-LQSLPNGV--------   95 (177)
T ss_dssp             TTCSEEECCSSCCCC--CCTTTTTTCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTT--------
T ss_pred             CCCcEEEeCCCcccE--eCHHHhcCcccccEEECCCC-cceEeChhHccCCCccCEEECCCCC-ccccCHHH--------
Confidence            689999999988776  63455678999999999999 4556665  6889999999999997 66665442        


Q ss_pred             CCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcC
Q 044247          234 GSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRE  283 (333)
Q Consensus       234 ~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~  283 (333)
                         +..+++|++|+++++ .+..++.     ..+..+++|++|++++++.
T Consensus        96 ---~~~l~~L~~L~l~~N-~l~~~~~-----~~~~~l~~L~~L~l~~N~~  136 (177)
T 2o6r_A           96 ---FDKLTQLKELALDTN-QLKSVPD-----GIFDRLTSLQKIWLHTNPW  136 (177)
T ss_dssp             ---TTTCTTCCEEECCSS-CCSCCCT-----TTTTTCTTCCEEECCSSCB
T ss_pred             ---hhCCcccCEEECcCC-cceEeCH-----HHhcCCcccCEEEecCCCe
Confidence               457899999999986 5544332     2235689999999998754

>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=98.90  E-value=4.8e-09  Score=92.06  Aligned_cols=221  Identities=10%  Similarity=0.029  Sum_probs=130.9

Q ss_pred             CCcccEEeecCCCcccccC-ccccccccccEEecCCCCCcccccc-cccccccCceeeeEEEcCc-cCCCCCccccccCc
Q 044247           11 LYNLERVNVSGCSHLRELP-QGIGKLRKLMYLDNDYTDSLRYLPV-GIGELIRLRRVTKFVVCGG-YDRACSLGSLKKLN   87 (333)
Q Consensus        11 l~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~l~~~~~~~~~p~-~i~~l~~L~~L~l~~~~~~-~~~~~~~~~l~~l~   87 (333)
                      |++|+.|++.. . +..++ .++.+|++|+.+++..+ .+..++. .+..+.++..+........ .........+..+.
T Consensus       100 ~~~L~~l~L~~-~-i~~I~~~aF~~~~~L~~l~l~~n-~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~  176 (329)
T 3sb4_A          100 KQTLEKVILSE-K-IKNIEDAAFKGCDNLKICQIRKK-TAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGE  176 (329)
T ss_dssp             CTTCCC-CBCT-T-CCEECTTTTTTCTTCCEEEBCCS-SCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESC
T ss_pred             cCCCcEEECCc-c-ccchhHHHhhcCcccceEEcCCC-CccccchhhhcCCCceEEecCcchhhhhcccccccccccccc
Confidence            99999999999 5 65555 46889999999999998 4445543 4666666666554331100 00011122233444


Q ss_pred             cCce-eEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccC-CCCCCccEEEEee
Q 044247           88 LLRQ-CSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDAL-GPPPNLKELHIHE  165 (333)
Q Consensus        88 ~L~~-L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l-~~~~~L~~L~l~~  165 (333)
                      .|+. +.+.....   ........-....++..+.+.+.-                  .......+ ..+++|+.+++.+
T Consensus       177 ~L~~~i~~~~~~~---l~~~~~~~~~~~~~~~~l~~~~~l------------------~~~~~~~l~~~~~~L~~l~L~~  235 (329)
T 3sb4_A          177 PLETTIQVGAMGK---LEDEIMKAGLQPRDINFLTIEGKL------------------DNADFKLIRDYMPNLVSLDISK  235 (329)
T ss_dssp             CCEEEEEECTTCC---HHHHHHHTTCCGGGCSEEEEEECC------------------CHHHHHHHHHHCTTCCEEECTT
T ss_pred             ccceeEEecCCCc---HHHHHhhcccCccccceEEEeeee------------------cHHHHHHHHHhcCCCeEEECCC
Confidence            5552 44433222   222222222234566777766551                  11111111 1367888888888


Q ss_pred             ecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCcccc-ceecccccccccccccccCCCCCCCCCccccCCC
Q 044247          166 YRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLE-DLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPK  242 (333)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~-~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~  242 (333)
                      +....  ++...|..+.+|+.+++.++  +..++.  +.++++|+ .+++.+  .++.++...           +..+++
T Consensus       236 n~i~~--I~~~aF~~~~~L~~l~l~~n--i~~I~~~aF~~~~~L~~~l~l~~--~l~~I~~~a-----------F~~c~~  298 (329)
T 3sb4_A          236 TNATT--IPDFTFAQKKYLLKIKLPHN--LKTIGQRVFSNCGRLAGTLELPA--SVTAIEFGA-----------FMGCDN  298 (329)
T ss_dssp             BCCCE--ECTTTTTTCTTCCEEECCTT--CCEECTTTTTTCTTCCEEEEECT--TCCEECTTT-----------TTTCTT
T ss_pred             CCcce--ecHhhhhCCCCCCEEECCcc--cceehHHHhhCChhccEEEEEcc--cceEEchhh-----------hhCCcc
Confidence            77666  63456777888888888876  555554  77888888 888877  366676543           457888


Q ss_pred             ccEEeeccCccccccccCCccccccccCCCcceEec
Q 044247          243 LKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSI  278 (333)
Q Consensus       243 L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l  278 (333)
                      |+.+++.+ .+++.+....     +..+++|+.+..
T Consensus       299 L~~l~l~~-n~i~~I~~~a-----F~~~~~L~~ly~  328 (329)
T 3sb4_A          299 LRYVLATG-DKITTLGDEL-----FGNGVPSKLIYK  328 (329)
T ss_dssp             EEEEEECS-SCCCEECTTT-----TCTTCCCCEEEC
T ss_pred             CCEEEeCC-CccCccchhh-----hcCCcchhhhcc
Confidence            88888865 3555554221     224678877753

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.88  E-value=6.5e-08  Score=87.05  Aligned_cols=216  Identities=13%  Similarity=0.066  Sum_probs=143.0

Q ss_pred             hcCCCcccEEeecCCCcccccC-ccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccC
Q 044247            8 LCELYNLERVNVSGCSHLRELP-QGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKL   86 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l   86 (333)
                      +.+ .+|+.+.+...  +..++ .++.+|++|+.+++..+ .+..++...-...+|+.+.+..+ ..   ......+..+
T Consensus       154 F~~-~~L~~i~lp~~--l~~I~~~aF~~c~~L~~l~l~~n-~l~~I~~~aF~~~~L~~l~lp~~-l~---~I~~~aF~~~  225 (401)
T 4fdw_A          154 FFN-STVQEIVFPST--LEQLKEDIFYYCYNLKKADLSKT-KITKLPASTFVYAGIEEVLLPVT-LK---EIGSQAFLKT  225 (401)
T ss_dssp             TTT-CCCCEEECCTT--CCEECSSTTTTCTTCCEEECTTS-CCSEECTTTTTTCCCSEEECCTT-CC---EECTTTTTTC
T ss_pred             cCC-CCceEEEeCCC--ccEehHHHhhCcccCCeeecCCC-cceEechhhEeecccCEEEeCCc-hh---eehhhHhhCC
Confidence            444 46999998862  55444 56888999999999887 66777766444688998887532 11   2233455667


Q ss_pred             ccCceeEecC-CCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEee
Q 044247           87 NLLRQCSIDG-LGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHE  165 (333)
Q Consensus        87 ~~L~~L~l~~-~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~  165 (333)
                      ++|+.+.+.. +..+..      ..+.. .+|+.+.+..+                  ...-...+|..|++|+.+.+.+
T Consensus       226 ~~L~~l~l~~~l~~I~~------~aF~~-~~L~~i~lp~~------------------i~~I~~~aF~~c~~L~~l~l~~  280 (401)
T 4fdw_A          226 SQLKTIEIPENVSTIGQ------EAFRE-SGITTVKLPNG------------------VTNIASRAFYYCPELAEVTTYG  280 (401)
T ss_dssp             TTCCCEECCTTCCEECT------TTTTT-CCCSEEEEETT------------------CCEECTTTTTTCTTCCEEEEES
T ss_pred             CCCCEEecCCCccCccc------ccccc-CCccEEEeCCC------------------ccEEChhHhhCCCCCCEEEeCC
Confidence            7788877753 332322      23444 68999998544                  3233356788999999999987


Q ss_pred             ecCC-----CCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCCCCccc
Q 044247          166 YRGR-----RNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVI  238 (333)
Q Consensus       166 ~~~~-----~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~  238 (333)
                      +...     .  ++...|..+++|+.+.+..+  +..++.  +.+|++|+.+++.++  ++.++...           +.
T Consensus       281 ~~~~~~~~~~--I~~~aF~~c~~L~~l~l~~~--i~~I~~~aF~~c~~L~~l~lp~~--l~~I~~~a-----------F~  343 (401)
T 4fdw_A          281 STFNDDPEAM--IHPYCLEGCPKLARFEIPES--IRILGQGLLGGNRKVTQLTIPAN--VTQINFSA-----------FN  343 (401)
T ss_dssp             SCCCCCTTCE--ECTTTTTTCTTCCEECCCTT--CCEECTTTTTTCCSCCEEEECTT--CCEECTTS-----------SS
T ss_pred             ccccCCcccE--ECHHHhhCCccCCeEEeCCc--eEEEhhhhhcCCCCccEEEECcc--ccEEcHHh-----------CC
Confidence            6543     2  32566778999999999853  555554  888999999999765  67776554           45


Q ss_pred             cCCCccEEeeccCccccccccCCccccccccCC-CcceEeccc
Q 044247          239 AFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMP-RLSSLSIQS  280 (333)
Q Consensus       239 ~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~-~L~~L~l~~  280 (333)
                      .+ +|+.+++.+. .+..+.  .   ..+..++ +++.|.+-.
T Consensus       344 ~~-~L~~l~l~~n-~~~~l~--~---~~F~~~~~~l~~l~vp~  379 (401)
T 4fdw_A          344 NT-GIKEVKVEGT-TPPQVF--E---KVWYGFPDDITVIRVPA  379 (401)
T ss_dssp             SS-CCCEEEECCS-SCCBCC--C---SSCCCSCTTCCEEEECG
T ss_pred             CC-CCCEEEEcCC-CCcccc--c---ccccCCCCCccEEEeCH
Confidence            66 9999999884 332222  1   1233343 567776654

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

Probab=98.71  E-value=5.7e-08  Score=76.89  Aligned_cols=82  Identities=16%  Similarity=0.223  Sum_probs=58.1

Q ss_pred             CCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCC
Q 044247          156 PNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTD  233 (333)
Q Consensus       156 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~  233 (333)
                      ++|+.|++++|....  +++..+..+++|++|++++| .+..+|.  ++.+++|+.|++++|. ++.++...        
T Consensus        33 ~~L~~L~Ls~N~l~~--~~~~~~~~l~~L~~L~Ls~N-~l~~i~~~~~~~l~~L~~L~L~~N~-l~~l~~~~--------  100 (174)
T 2r9u_A           33 TDKQRLWLNNNQITK--LEPGVFDHLVNLQQLYFNSN-KLTAIPTGVFDKLTQLTQLDLNDNH-LKSIPRGA--------  100 (174)
T ss_dssp             TTCSEEECCSSCCCC--CCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTT--------
T ss_pred             CCCcEEEeCCCCccc--cCHHHhcCCcCCCEEECCCC-CCCccChhHhCCcchhhEEECCCCc-cceeCHHH--------
Confidence            678888888877766  53556777888888888887 4555655  5677888888888876 55555432        


Q ss_pred             CCccccCCCccEEeeccCc
Q 044247          234 GSSVIAFPKLKRLRFWSMS  252 (333)
Q Consensus       234 ~~~~~~l~~L~~L~l~~~~  252 (333)
                         +..+++|+.|++.+++
T Consensus       101 ---~~~l~~L~~L~L~~N~  116 (174)
T 2r9u_A          101 ---FDNLKSLTHIYLYNNP  116 (174)
T ss_dssp             ---TTTCTTCSEEECCSSC
T ss_pred             ---hccccCCCEEEeCCCC
Confidence               3567788888887753

>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=98.70  E-value=5.4e-08  Score=76.71  Aligned_cols=82  Identities=18%  Similarity=0.191  Sum_probs=61.8

Q ss_pred             CCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCC
Q 044247          156 PNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTD  233 (333)
Q Consensus       156 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~  233 (333)
                      ++|+.|++++|....  +.+..+..+++|++|++++| .+..+++  ++.+++|++|++++|. ++.++...        
T Consensus        30 ~~l~~L~L~~N~i~~--~~~~~~~~l~~L~~L~Ls~N-~l~~l~~~~f~~l~~L~~L~L~~N~-l~~~~~~~--------   97 (170)
T 3g39_A           30 TTTQVLYLYDNQITK--LEPGVFDRLTQLTRLDLDNN-QLTVLPAGVFDKLTQLTQLSLNDNQ-LKSIPRGA--------   97 (170)
T ss_dssp             TTCSEEECCSSCCCC--CCTTTTTTCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTT--------
T ss_pred             CCCcEEEcCCCcCCc--cChhhhcCcccCCEEECCCC-CcCccChhhccCCCCCCEEECCCCc-cCEeCHHH--------
Confidence            688888888888776  53566778888999999888 4556655  5788889999998887 66665432        


Q ss_pred             CCccccCCCccEEeeccCc
Q 044247          234 GSSVIAFPKLKRLRFWSMS  252 (333)
Q Consensus       234 ~~~~~~l~~L~~L~l~~~~  252 (333)
                         +..+++|++|++++++
T Consensus        98 ---~~~l~~L~~L~L~~N~  113 (170)
T 3g39_A           98 ---FDNLKSLTHIWLLNNP  113 (170)
T ss_dssp             ---TTTCTTCCEEECCSSC
T ss_pred             ---hcCCCCCCEEEeCCCC
Confidence               4577888888888753

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

Probab=98.65  E-value=4.9e-08  Score=77.26  Aligned_cols=100  Identities=20%  Similarity=0.196  Sum_probs=61.8

Q ss_pred             cEEeecCCCcccccCccccccccccEEecCCCCCcccc-cccccccccCceeeeEEEcCccCCCCCccccccCccCceeE
Q 044247           15 ERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYL-PVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCS   93 (333)
Q Consensus        15 ~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~-p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~   93 (333)
                      +.++++++. +..+|..+.  ++|++|++++| .+..+ |..++.+++|+.|++++|....   .....+..+++|+.|+
T Consensus        15 ~~l~~~~n~-l~~iP~~~~--~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~N~l~~---i~~~~~~~l~~L~~L~   87 (174)
T 2r9u_A           15 TLVNCQNIR-LASVPAGIP--TDKQRLWLNNN-QITKLEPGVFDHLVNLQQLYFNSNKLTA---IPTGVFDKLTQLTQLD   87 (174)
T ss_dssp             SEEECCSSC-CSSCCSCCC--TTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCC---CCTTTTTTCTTCCEEE
T ss_pred             cEEEeCCCC-CCccCCCcC--CCCcEEEeCCC-CccccCHHHhcCCcCCCEEECCCCCCCc---cChhHhCCcchhhEEE
Confidence            567777776 667776554  67777777777 34444 4556777777777777776553   1222245666777766


Q ss_pred             ecC--CCCCCChhhHHHHhhcccCCccceEEeecCC
Q 044247           94 IDG--LGGVSDAGEARRAELEKKKNLFDLELDFDNL  127 (333)
Q Consensus        94 l~~--~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~  127 (333)
                      +..  +..++.      ..+..+++|++|++++|.+
T Consensus        88 L~~N~l~~l~~------~~~~~l~~L~~L~L~~N~~  117 (174)
T 2r9u_A           88 LNDNHLKSIPR------GAFDNLKSLTHIYLYNNPW  117 (174)
T ss_dssp             CCSSCCCCCCT------TTTTTCTTCSEEECCSSCB
T ss_pred             CCCCccceeCH------HHhccccCCCEEEeCCCCc
Confidence            643  222222      2356677888888888754

>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=98.58  E-value=1.1e-07  Score=75.01  Aligned_cols=101  Identities=24%  Similarity=0.200  Sum_probs=65.3

Q ss_pred             ccEEeecCCCcccccCccccccccccEEecCCCCCcccc-cccccccccCceeeeEEEcCccCCCCCccccccCccCcee
Q 044247           14 LERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYL-PVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQC   92 (333)
Q Consensus        14 L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~-p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L   92 (333)
                      .++++++++. +..+|..+.  ++|++|++++| .+..+ |..+..+++|++|++++|....   .....+..+++|+.|
T Consensus        11 ~~~l~~s~n~-l~~ip~~~~--~~l~~L~L~~N-~i~~~~~~~~~~l~~L~~L~Ls~N~l~~---l~~~~f~~l~~L~~L   83 (170)
T 3g39_A           11 GTTVDCSGKS-LASVPTGIP--TTTQVLYLYDN-QITKLEPGVFDRLTQLTRLDLDNNQLTV---LPAGVFDKLTQLTQL   83 (170)
T ss_dssp             TTEEECTTSC-CSSCCSCCC--TTCSEEECCSS-CCCCCCTTTTTTCTTCSEEECCSSCCCC---CCTTTTTTCTTCCEE
T ss_pred             CCEEEeCCCC-cCccCccCC--CCCcEEEcCCC-cCCccChhhhcCcccCCEEECCCCCcCc---cChhhccCCCCCCEE
Confidence            5677777776 666776553  67778888777 44444 4557777788888887776653   222334667777776


Q ss_pred             EecC--CCCCCChhhHHHHhhcccCCccceEEeecCC
Q 044247           93 SIDG--LGGVSDAGEARRAELEKKKNLFDLELDFDNL  127 (333)
Q Consensus        93 ~l~~--~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~  127 (333)
                      ++..  +..++.      ..+..+++|++|++++|.+
T Consensus        84 ~L~~N~l~~~~~------~~~~~l~~L~~L~L~~N~~  114 (170)
T 3g39_A           84 SLNDNQLKSIPR------GAFDNLKSLTHIWLLNNPW  114 (170)
T ss_dssp             ECCSSCCCCCCT------TTTTTCTTCCEEECCSSCB
T ss_pred             ECCCCccCEeCH------HHhcCCCCCCEEEeCCCCC
Confidence            6643  333222      2466678888888888854

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.57  E-value=4.2e-09  Score=93.91  Aligned_cols=61  Identities=13%  Similarity=0.033  Sum_probs=29.7

Q ss_pred             CCcccEEeecCCCcccccCccccc-----cccccEEecCCCCCccc-cccc-ccccccCceeeeEEEcC
Q 044247           11 LYNLERVNVSGCSHLRELPQGIGK-----LRKLMYLDNDYTDSLRY-LPVG-IGELIRLRRVTKFVVCG   72 (333)
Q Consensus        11 l~~L~~L~l~~~~~~~~lp~~i~~-----l~~L~~L~l~~~~~~~~-~p~~-i~~l~~L~~L~l~~~~~   72 (333)
                      +++|++|++++|.........+..     .++|++|++++|. +.. .... ...+.+|++|++++|..
T Consensus        71 ~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~-l~~~~~~~l~~~L~~L~~L~Ls~n~l  138 (372)
T 3un9_A           71 LSSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQ-LDPAGLRTLLPVFLRARKLGLQLNSL  138 (372)
T ss_dssp             HTTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCC-CCHHHHHHTHHHHHTEEEEECCSSCC
T ss_pred             HhhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCC-CCHHHHHHHHHHHHhccHhhcCCCCC
Confidence            345667777776622221222221     2567777777663 222 1111 22345666666666544

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.44  E-value=2.1e-07  Score=73.04  Aligned_cols=113  Identities=11%  Similarity=0.043  Sum_probs=74.2

Q ss_pred             ccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCccccc-cccccc----ccCceeeeEEEcCccCCCC
Q 044247            4 LPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLP-VGIGEL----IRLRRVTKFVVCGGYDRAC   78 (333)
Q Consensus         4 lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p-~~i~~l----~~L~~L~l~~~~~~~~~~~   78 (333)
                      +|.....-.+|+.|++++|.....--..+.++++|++|++++|..+++.. ..+..+    ++|++|++++|....  ..
T Consensus        53 LP~~~~~~~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~IT--D~  130 (176)
T 3e4g_A           53 LPTGPLDKYKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVT--DK  130 (176)
T ss_dssp             SCCCSTTCCCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCC--HH
T ss_pred             CCcccCCCceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCC--HH
Confidence            55443334578999999998444444557889999999999986665421 224443    468899998887554  44


Q ss_pred             CccccccCccCceeEecCCCCCCChhhHHHHhhcccCCcc
Q 044247           79 SLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLF  118 (333)
Q Consensus        79 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~  118 (333)
                      ....+.++++|+.|.+.++..+.+........-..+|+++
T Consensus       131 Gl~~L~~~~~L~~L~L~~c~~Itd~gl~~~~L~~~lP~l~  170 (176)
T 3e4g_A          131 GIIALHHFRNLKYLFLSDLPGVKEKEKIVQAFKTSLPSLE  170 (176)
T ss_dssp             HHHHGGGCTTCCEEEEESCTTCCCHHHHHHHHHHHCTTCE
T ss_pred             HHHHHhcCCCCCEEECCCCCCCCchHHHHHHHHHHCCCcE
Confidence            5666778888888888888877765433333333445443

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.41  E-value=8e-06  Score=73.24  Aligned_cols=215  Identities=12%  Similarity=0.032  Sum_probs=105.2

Q ss_pred             ccccccccccEEecCCCCCcccccc-cccccccCceeeeEEEcCccCCCCCccccccCccCceeEecCCCC-CCChhhHH
Q 044247           30 QGIGKLRKLMYLDNDYTDSLRYLPV-GIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGG-VSDAGEAR  107 (333)
Q Consensus        30 ~~i~~l~~L~~L~l~~~~~~~~~p~-~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~-~~~~~~~~  107 (333)
                      .++.++++|+.+.+..+  ...++. .+..+.+|+.+.+..+-..    .....+.+...|+.+.+..-.. +.      
T Consensus       156 ~aF~~c~~L~~i~l~~~--~~~I~~~~F~~c~~L~~i~l~~~~~~----I~~~~F~~~~~L~~i~~~~~~~~i~------  223 (394)
T 4fs7_A          156 EAFATCESLEYVSLPDS--METLHNGLFSGCGKLKSIKLPRNLKI----IRDYCFAECILLENMEFPNSLYYLG------  223 (394)
T ss_dssp             TTTTTCTTCCEEECCTT--CCEECTTTTTTCTTCCBCCCCTTCCE----ECTTTTTTCTTCCBCCCCTTCCEEC------
T ss_pred             hhhcccCCCcEEecCCc--cceeccccccCCCCceEEEcCCCceE----eCchhhccccccceeecCCCceEee------
Confidence            34667788888887654  233433 3566777777766432110    0112223334444333321110 11      


Q ss_pred             HHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEE
Q 044247          108 RAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVL  187 (333)
Q Consensus       108 ~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L  187 (333)
                       .......+|+.+.+...                  ...-...++..+..++.+.+......   +....+..+.+++.+
T Consensus       224 -~~~~~~~~l~~i~ip~~------------------~~~i~~~~f~~~~~l~~~~~~~~~~~---i~~~~F~~~~~l~~~  281 (394)
T 4fs7_A          224 -DFALSKTGVKNIIIPDS------------------FTELGKSVFYGCTDLESISIQNNKLR---IGGSLFYNCSGLKKV  281 (394)
T ss_dssp             -TTTTTTCCCCEEEECTT------------------CCEECSSTTTTCSSCCEEEECCTTCE---ECSCTTTTCTTCCEE
T ss_pred             -hhhcccCCCceEEECCC------------------ceecccccccccccceeEEcCCCcce---eecccccccccccee
Confidence             11223356666666433                  11122345566677777776543222   113344456666666


Q ss_pred             EeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCcccccc
Q 044247          188 HLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEI  267 (333)
Q Consensus       188 ~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~  267 (333)
                      ...... +. -..+..+.+|+.+.+.++  ++.++...           +..+.+|+++++..  +++.+..     ..+
T Consensus       282 ~~~~~~-i~-~~~F~~~~~L~~i~l~~~--i~~I~~~a-----------F~~c~~L~~i~lp~--~v~~I~~-----~aF  339 (394)
T 4fs7_A          282 IYGSVI-VP-EKTFYGCSSLTEVKLLDS--VKFIGEEA-----------FESCTSLVSIDLPY--LVEEIGK-----RSF  339 (394)
T ss_dssp             EECSSE-EC-TTTTTTCTTCCEEEECTT--CCEECTTT-----------TTTCTTCCEECCCT--TCCEECT-----TTT
T ss_pred             ccCcee-ec-cccccccccccccccccc--cceechhh-----------hcCCCCCCEEEeCC--cccEEhH-----Hhc
Confidence            655431 11 112455666777766543  45554432           34566677776643  2332221     223


Q ss_pred             ccCCCcceEecccCcCcccCCc-ccCCCCCcceEEE
Q 044247          268 IIMPRLSSLSIQSCRELKALPD-HLLQKSTLQNLEI  302 (333)
Q Consensus       268 ~~~~~L~~L~l~~c~~l~~l~~-~~~~l~~L~~L~l  302 (333)
                      ..|.+|+.+.+..  .++.+.. .+..+++|+.+++
T Consensus       340 ~~c~~L~~i~lp~--~l~~I~~~aF~~C~~L~~i~l  373 (394)
T 4fs7_A          340 RGCTSLSNINFPL--SLRKIGANAFQGCINLKKVEL  373 (394)
T ss_dssp             TTCTTCCEECCCT--TCCEECTTTBTTCTTCCEEEE
T ss_pred             cCCCCCCEEEECc--cccEehHHHhhCCCCCCEEEE
Confidence            4566777776643  2444433 4555677777777

>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=98.39  E-value=5.2e-07  Score=79.50  Aligned_cols=88  Identities=19%  Similarity=0.193  Sum_probs=62.2

Q ss_pred             CCcccchhcCCCcccEEeecC-CCcccccC-ccccccccccEEecCCCCCccccc-ccccccccCceeeeEEEcCccCCC
Q 044247            1 IEKLPETLCELYNLERVNVSG-CSHLRELP-QGIGKLRKLMYLDNDYTDSLRYLP-VGIGELIRLRRVTKFVVCGGYDRA   77 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~-~~~~~~lp-~~i~~l~~L~~L~l~~~~~~~~~p-~~i~~l~~L~~L~l~~~~~~~~~~   77 (333)
                      ++++|. +..+++|++|+|++ |. +..+| ..++++++|++|++++| .+..++ ..++.+++|++|++++|....   
T Consensus        21 l~~ip~-l~~~~~L~~L~l~~~n~-l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~l~~N~l~~---   94 (347)
T 2ifg_A           21 LDSLHH-LPGAENLTELYIENQQH-LQHLELRDLRGLGELRNLTIVKS-GLRFVAPDAFHFTPRLSRLNLSFNALES---   94 (347)
T ss_dssp             CTTTTT-SCSCSCCSEEECCSCSS-CCEECGGGSCSCCCCSEEECCSS-CCCEECTTGGGSCSCCCEEECCSSCCSC---
T ss_pred             CCccCC-CCCCCCeeEEEccCCCC-CCCcChhHhccccCCCEEECCCC-ccceeCHHHhcCCcCCCEEeCCCCccce---
Confidence            456888 88888899999986 66 65555 56888889999999888 455544 457888889999888887754   


Q ss_pred             CCccc-cccCccCceeEecC
Q 044247           78 CSLGS-LKKLNLLRQCSIDG   96 (333)
Q Consensus        78 ~~~~~-l~~l~~L~~L~l~~   96 (333)
                       .+.. +..++ |+.|.+..
T Consensus        95 -~~~~~~~~~~-L~~l~l~~  112 (347)
T 2ifg_A           95 -LSWKTVQGLS-LQELVLSG  112 (347)
T ss_dssp             -CCSTTTCSCC-CCEEECCS
T ss_pred             -eCHHHcccCC-ceEEEeeC
Confidence             2222 23333 66666654

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.37  E-value=9e-08  Score=84.77  Aligned_cols=166  Identities=16%  Similarity=0.046  Sum_probs=93.2

Q ss_pred             ccCccccccccccEEecCCCCC----c-----ccccccccccccCceeeeEEEcCccCCCCCccccccCccCceeEecCC
Q 044247           27 ELPQGIGKLRKLMYLDNDYTDS----L-----RYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGL   97 (333)
Q Consensus        27 ~lp~~i~~l~~L~~L~l~~~~~----~-----~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~   97 (333)
                      .+..++..+++|+.|.+.+...    +     ..++..+..+++|+.|++.++....    . ..+ .+++|+.|.+...
T Consensus       130 ~L~~s~~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l~----l-~~~-~~~~L~~L~L~~~  203 (362)
T 2ra8_A          130 GIVENKEKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNLS----I-GKK-PRPNLKSLEIISG  203 (362)
T ss_dssp             HHHTTHHHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTCB----C-CSC-BCTTCSEEEEECS
T ss_pred             HHHHhhhhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCce----e-ccc-cCCCCcEEEEecC
Confidence            3455566677888887754311    1     1233335667888888887663221    1 112 2677888777643


Q ss_pred             CCCCChhhHHHHhh--cccCCccceEEeecC-CCCCchhhhcccCCcccccccccccC--CCCCCccEEEEeeecCCCCc
Q 044247           98 GGVSDAGEARRAEL--EKKKNLFDLELDFDN-LRDGDEEQAGRRENEEDEDERLLDAL--GPPPNLKELHIHEYRGRRNV  172 (333)
Q Consensus        98 ~~~~~~~~~~~~~l--~~~~~L~~L~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l--~~~~~L~~L~l~~~~~~~~~  172 (333)
                      . +..  +.. ..+  ..+++|++|+++.+. ....+.           ....+...+  ..+++|+.|++.+|..... 
T Consensus       204 ~-l~~--~~l-~~l~~~~lp~L~~L~L~~~~~~~~~~~-----------~~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~-  267 (362)
T 2ra8_A          204 G-LPD--SVV-EDILGSDLPNLEKLVLYVGVEDYGFDG-----------DMNVFRPLFSKDRFPNLKWLGIVDAEEQNV-  267 (362)
T ss_dssp             B-CCH--HHH-HHHHHSBCTTCCEEEEECBCGGGTCCS-----------CGGGTGGGSCTTTCTTCCEEEEESCTTHHH-
T ss_pred             C-CCh--HHH-HHHHHccCCCCcEEEEeccccccccch-----------hHHHHHHHHhcCCCCCcCEEeCCCCCCchH-
Confidence            2 221  222 222  367899999886421 000000           011112222  3478999999988775431 


Q ss_pred             cCchhhh---cCCCccEEEeecCCCCCC-----CC-CCCCCccccceeccccc
Q 044247          173 VPKNWVM---SLTNLRVLHLFECRNCEH-----LP-PLGKLTSLEDLYIAGMK  216 (333)
Q Consensus       173 ~~~~~~~---~~~~L~~L~l~~~~~~~~-----l~-~~~~l~~L~~L~l~~~~  216 (333)
                      . ...+.   .+++|+.|+|+.| .+++     ++ .+..+++|+.|++++|.
T Consensus       268 ~-~~~la~a~~~~~L~~LdLs~n-~L~d~G~~~L~~~L~~l~~L~~L~L~~n~  318 (362)
T 2ra8_A          268 V-VEMFLESDILPQLETMDISAG-VLTDEGARLLLDHVDKIKHLKFINMKYNY  318 (362)
T ss_dssp             H-HHHHHHCSSGGGCSEEECCSS-CCBHHHHHHHHTTHHHHTTCSEEECCSBB
T ss_pred             H-HHHHHhCccCCCCCEEECCCC-CCChHHHHHHHhhcccCCcceEEECCCCc
Confidence            1 11222   4789999999887 4443     22 23567899999999886

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.36  E-value=1.2e-05  Score=72.20  Aligned_cols=57  Identities=9%  Similarity=0.153  Sum_probs=40.4

Q ss_pred             hhcCCCcccEEeecCCCcccccC-ccccccccccEEecCCCCCcccccc-cccccccCceeee
Q 044247            7 TLCELYNLERVNVSGCSHLRELP-QGIGKLRKLMYLDNDYTDSLRYLPV-GIGELIRLRRVTK   67 (333)
Q Consensus         7 ~l~~l~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~l~~~~~~~~~p~-~i~~l~~L~~L~l   67 (333)
                      .+.+|++|+.+.+..+  +..++ .++.+|++|+.+++..+  ++.++. .+..+.+|+.+.+
T Consensus        66 AF~~c~~L~~i~lp~~--i~~I~~~aF~~c~~L~~i~lp~~--l~~I~~~aF~~c~~L~~i~~  124 (394)
T 4fs7_A           66 AFQGCRKVTEIKIPST--VREIGEFAFENCSKLEIINIPDS--VKMIGRCTFSGCYALKSILL  124 (394)
T ss_dssp             TTTTCTTEEEEECCTT--CCEECTTTTTTCTTCCEECCCTT--CCEECTTTTTTCTTCCCCCC
T ss_pred             HhhCCCCceEEEeCCC--ccCcchhHhhCCCCCcEEEeCCC--ceEccchhhcccccchhhcc
Confidence            4678999999999754  55544 56888999999999754  455543 3666777776654

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.36  E-value=1.4e-07  Score=83.59  Aligned_cols=137  Identities=20%  Similarity=0.218  Sum_probs=74.6

Q ss_pred             ccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCC--CCCC--CCCccccceecccccc-------c
Q 044247          150 DALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEH--LPPL--GKLTSLEDLYIAGMKS-------V  218 (333)
Q Consensus       150 ~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~--l~~~--~~l~~L~~L~l~~~~~-------l  218 (333)
                      ..+..+|+|+.|+++++.+..  + +. + ..++|+.|++..|. +..  +..+  ..+|+|+.|+|+.+..       +
T Consensus       166 ~ll~~~P~L~~L~L~g~~~l~--l-~~-~-~~~~L~~L~L~~~~-l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~  239 (362)
T 2ra8_A          166 PVLDAMPLLNNLKIKGTNNLS--I-GK-K-PRPNLKSLEIISGG-LPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDM  239 (362)
T ss_dssp             HHHHTCTTCCEEEEECCBTCB--C-CS-C-BCTTCSEEEEECSB-CCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCG
T ss_pred             HHHhcCCCCcEEEEeCCCCce--e-cc-c-cCCCCcEEEEecCC-CChHHHHHHHHccCCCCcEEEEeccccccccchhH
Confidence            334556788888887765444  4 33 3 37788888887663 221  1112  2577888888753211       1


Q ss_pred             ccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCccc-----CCcccCC
Q 044247          219 KRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKA-----LPDHLLQ  293 (333)
Q Consensus       219 ~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~-----l~~~~~~  293 (333)
                      +.+... +.         ...+|+|+.|++.+|.--....  ..+. ....+|+|+.|+++.| .++.     ++..+..
T Consensus       240 ~~l~~~-l~---------~~~~p~Lr~L~L~~~~i~~~~~--~~la-~a~~~~~L~~LdLs~n-~L~d~G~~~L~~~L~~  305 (362)
T 2ra8_A          240 NVFRPL-FS---------KDRFPNLKWLGIVDAEEQNVVV--EMFL-ESDILPQLETMDISAG-VLTDEGARLLLDHVDK  305 (362)
T ss_dssp             GGTGGG-SC---------TTTCTTCCEEEEESCTTHHHHH--HHHH-HCSSGGGCSEEECCSS-CCBHHHHHHHHTTHHH
T ss_pred             HHHHHH-Hh---------cCCCCCcCEEeCCCCCCchHHH--HHHH-hCccCCCCCEEECCCC-CCChHHHHHHHhhccc
Confidence            111111 00         2357888888887754211110  0000 0125788888888764 4432     3334445


Q ss_pred             CCCcceEEEcccCh
Q 044247          294 KSTLQNLEIWGACH  307 (333)
Q Consensus       294 l~~L~~L~l~~~c~  307 (333)
                      +++|+.|++ +.|.
T Consensus       306 l~~L~~L~L-~~n~  318 (362)
T 2ra8_A          306 IKHLKFINM-KYNY  318 (362)
T ss_dssp             HTTCSEEEC-CSBB
T ss_pred             CCcceEEEC-CCCc
Confidence            788888888 7664

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.34  E-value=9.8e-09  Score=91.53  Aligned_cols=38  Identities=13%  Similarity=-0.070  Sum_probs=19.8

Q ss_pred             cccccEEecCCCCCcccc-ccccc-----ccccCceeeeEEEcCc
Q 044247           35 LRKLMYLDNDYTDSLRYL-PVGIG-----ELIRLRRVTKFVVCGG   73 (333)
Q Consensus        35 l~~L~~L~l~~~~~~~~~-p~~i~-----~l~~L~~L~l~~~~~~   73 (333)
                      +++|+.|++++|. +... ...+.     ...+|++|++++|...
T Consensus        71 ~~~L~~L~Ls~n~-l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~  114 (372)
T 3un9_A           71 LSSLRQLNLAGVR-MTPVKCTVVAAVLGSGRHALDEVNLASCQLD  114 (372)
T ss_dssp             HTTCCEEECTTSC-CCHHHHHHHHHHHSSCSSCEEEEECTTCCCC
T ss_pred             HhhCCEEEecCCC-CCHHHHHHHHHHHhhCCCCceEEEecCCCCC
Confidence            4567777777773 3321 11121     1256777777666543

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.31  E-value=1.3e-07  Score=74.23  Aligned_cols=89  Identities=17%  Similarity=0.180  Sum_probs=47.5

Q ss_pred             CCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCC--CCCCCC----CccccceecccccccccccccccCCC
Q 044247          156 PNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEH--LPPLGK----LTSLEDLYIAGMKSVKRVGNEFLGVE  229 (333)
Q Consensus       156 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~--l~~~~~----l~~L~~L~l~~~~~l~~i~~~~~~~~  229 (333)
                      .+|+.|++++|......+  ..+..+++|+.|+|++|..+++  +..++.    +++|++|++++|..++.-.-..    
T Consensus        61 ~~L~~LDLs~~~Itd~GL--~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~----  134 (176)
T 3e4g_A           61 YKIQAIDATDSCIMSIGF--DHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIA----  134 (176)
T ss_dssp             CCEEEEEEESCCCCGGGG--GGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHH----
T ss_pred             ceEeEEeCcCCCccHHHH--HHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHH----
Confidence            356666666655333111  2234566666666666654443  111222    2456777777766554432211    


Q ss_pred             CCCCCCccccCCCccEEeeccCcccccc
Q 044247          230 SDTDGSSVIAFPKLKRLRFWSMSELEEW  257 (333)
Q Consensus       230 ~~~~~~~~~~l~~L~~L~l~~~~~L~~~  257 (333)
                             +..+++|++|++++|+++++.
T Consensus       135 -------L~~~~~L~~L~L~~c~~Itd~  155 (176)
T 3e4g_A          135 -------LHHFRNLKYLFLSDLPGVKEK  155 (176)
T ss_dssp             -------GGGCTTCCEEEEESCTTCCCH
T ss_pred             -------HhcCCCCCEEECCCCCCCCch
Confidence                   345677777777777766553

>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=98.26  E-value=3.6e-06  Score=74.11  Aligned_cols=98  Identities=20%  Similarity=0.173  Sum_probs=61.8

Q ss_pred             EEEeee-cCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCCCCcc
Q 044247          161 LHIHEY-RGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSV  237 (333)
Q Consensus       161 L~l~~~-~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~  237 (333)
                      ++.++. ....  + |. +..+++|+.|+|+++..++.++.  ++.+++|+.|+|++|. ++.++...           +
T Consensus        13 v~~~~~n~l~~--i-p~-l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~-----------~   76 (347)
T 2ifg_A           13 LRCTRDGALDS--L-HH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSG-LRFVAPDA-----------F   76 (347)
T ss_dssp             EECCSSCCCTT--T-TT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSC-CCEECTTG-----------G
T ss_pred             EEcCCCCCCCc--c-CC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCc-cceeCHHH-----------h
Confidence            455554 4444  6 66 77777888888886225565554  7778888888888876 66555432           4


Q ss_pred             ccCCCccEEeeccCccccccccCCccccccccCCCcceEecccC
Q 044247          238 IAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSC  281 (333)
Q Consensus       238 ~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c  281 (333)
                      ..+++|+.|+|+++ +|..++      ..+.....|+.|++.++
T Consensus        77 ~~l~~L~~L~l~~N-~l~~~~------~~~~~~~~L~~l~l~~N  113 (347)
T 2ifg_A           77 HFTPRLSRLNLSFN-ALESLS------WKTVQGLSLQELVLSGN  113 (347)
T ss_dssp             GSCSCCCEEECCSS-CCSCCC------STTTCSCCCCEEECCSS
T ss_pred             cCCcCCCEEeCCCC-ccceeC------HHHcccCCceEEEeeCC
Confidence            57778888888874 454433      21222233788887764

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=98.07  E-value=0.00049  Score=61.50  Aligned_cols=107  Identities=12%  Similarity=0.167  Sum_probs=63.6

Q ss_pred             hhcCCCccEEEeecCCCCCCCC--CCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCcccc
Q 044247          178 VMSLTNLRVLHLFECRNCEHLP--PLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELE  255 (333)
Q Consensus       178 ~~~~~~L~~L~l~~~~~~~~l~--~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~  255 (333)
                      |..+.+|+.+.+....  ..+.  .+.++++|+.+.+.+.  ++.++...           +..+.+|+++.+..  +++
T Consensus       261 F~~c~~L~~i~lp~~~--~~I~~~aF~~c~~L~~i~l~~~--i~~I~~~a-----------F~~c~~L~~i~lp~--~v~  323 (394)
T 4gt6_A          261 FDSCAYLASVKMPDSV--VSIGTGAFMNCPALQDIEFSSR--ITELPESV-----------FAGCISLKSIDIPE--GIT  323 (394)
T ss_dssp             TTTCSSCCEEECCTTC--CEECTTTTTTCTTCCEEECCTT--CCEECTTT-----------TTTCTTCCEEECCT--TCC
T ss_pred             eeecccccEEeccccc--ceecCcccccccccccccCCCc--ccccCcee-----------ecCCCCcCEEEeCC--ccc
Confidence            3345666666665431  1222  2556677777776532  55555443           45667777777754  233


Q ss_pred             ccccCCccccccccCCCcceEecccCcCcccCCc-ccCCCCCcceEEEcccChhh
Q 044247          256 EWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPD-HLLQKSTLQNLEIWGACHIL  309 (333)
Q Consensus       256 ~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~-~~~~l~~L~~L~l~~~c~~l  309 (333)
                      .+.     ...+..|.+|+++.+-.  .++.+.. .+..+++|+.+++ .+....
T Consensus       324 ~I~-----~~aF~~C~~L~~i~ip~--sv~~I~~~aF~~C~~L~~i~~-~~~~~~  370 (394)
T 4gt6_A          324 QIL-----DDAFAGCEQLERIAIPS--SVTKIPESAFSNCTALNNIEY-SGSRSQ  370 (394)
T ss_dssp             EEC-----TTTTTTCTTCCEEEECT--TCCBCCGGGGTTCTTCCEEEE-SSCHHH
T ss_pred             Eeh-----HhHhhCCCCCCEEEECc--ccCEEhHhHhhCCCCCCEEEE-CCceee
Confidence            322     12355678899998853  4666654 5677899999999 765443

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.65  E-value=1.6e-05  Score=63.24  Aligned_cols=118  Identities=13%  Similarity=0.020  Sum_probs=82.9

Q ss_pred             cchhcCCCcccEEeecCC-Ccc----cccCccccccccccEEecCCCCCccc-----ccccccccccCceeeeEEEcCcc
Q 044247            5 PETLCELYNLERVNVSGC-SHL----RELPQGIGKLRKLMYLDNDYTDSLRY-----LPVGIGELIRLRRVTKFVVCGGY   74 (333)
Q Consensus         5 p~~l~~l~~L~~L~l~~~-~~~----~~lp~~i~~l~~L~~L~l~~~~~~~~-----~p~~i~~l~~L~~L~l~~~~~~~   74 (333)
                      ...+...+.|++|++++| ...    ..+...+...++|++|++++|. +..     +...+...++|++|++++|.+..
T Consensus        29 ~~~l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~-i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~  107 (185)
T 1io0_A           29 KRIQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTR-SNDPVAFALAEMLKVNNTLKSLNVESNFISG  107 (185)
T ss_dssp             HHHHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSC-CCHHHHHHHHHHHHHCSSCCEEECCSSCCCH
T ss_pred             HHHHhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCC-CChHHHHHHHHHHHhCCCcCEEECcCCcCCH
Confidence            345677899999999999 622    2355567778999999999994 432     33445667899999999987753


Q ss_pred             CCCC---CccccccCccCceeEe--cCCCCCCC-hhhHHHHhhcccCCccceEEeecC
Q 044247           75 DRAC---SLGSLKKLNLLRQCSI--DGLGGVSD-AGEARRAELEKKKNLFDLELDFDN  126 (333)
Q Consensus        75 ~~~~---~~~~l~~l~~L~~L~l--~~~~~~~~-~~~~~~~~l~~~~~L~~L~l~~~~  126 (333)
                        ..   ....+...+.|+.|++  ... .+.+ ....+...+...++|++|++++|.
T Consensus       108 --~g~~~l~~~L~~n~~L~~L~L~~~~N-~i~~~g~~~l~~~L~~n~~L~~L~L~~n~  162 (185)
T 1io0_A          108 --SGILALVEALQSNTSLIELRIDNQSQ-PLGNNVEMEIANMLEKNTTLLKFGYHFTQ  162 (185)
T ss_dssp             --HHHHHHHHGGGGCSSCCEEECCCCSS-CCCHHHHHHHHHHHHHCSSCCEEECCCSS
T ss_pred             --HHHHHHHHHHHhCCCceEEEecCCCC-CCCHHHHHHHHHHHHhCCCcCEEeccCCC
Confidence              11   2445677788999998  432 2332 222345566677899999999985

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.59  E-value=0.0012  Score=58.86  Aligned_cols=125  Identities=15%  Similarity=0.191  Sum_probs=80.6

Q ss_pred             ccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccC
Q 044247          150 DALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLG  227 (333)
Q Consensus       150 ~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~  227 (333)
                      .+|..+..|+.+.+......   +....+..+.+|+.+.+...  +..++.  +.++.+|+.+++..+  ++.++...  
T Consensus       259 ~aF~~c~~L~~i~lp~~~~~---I~~~aF~~c~~L~~i~l~~~--i~~I~~~aF~~c~~L~~i~lp~~--v~~I~~~a--  329 (394)
T 4gt6_A          259 HAFDSCAYLASVKMPDSVVS---IGTGAFMNCPALQDIEFSSR--ITELPESVFAGCISLKSIDIPEG--ITQILDDA--  329 (394)
T ss_dssp             TTTTTCSSCCEEECCTTCCE---ECTTTTTTCTTCCEEECCTT--CCEECTTTTTTCTTCCEEECCTT--CCEECTTT--
T ss_pred             ceeeecccccEEecccccce---ecCcccccccccccccCCCc--ccccCceeecCCCCcCEEEeCCc--ccEehHhH--
Confidence            46778889999888653322   21445667899999998753  445554  888999999999764  67776544  


Q ss_pred             CCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEE
Q 044247          228 VESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEI  302 (333)
Q Consensus       228 ~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l  302 (333)
                               +..+.+|+++.+..  +++.+.  .   ..+..|.+|+.+.+.+....  + ..+....+|+.+.+
T Consensus       330 ---------F~~C~~L~~i~ip~--sv~~I~--~---~aF~~C~~L~~i~~~~~~~~--~-~~~~~~~~L~~i~i  385 (394)
T 4gt6_A          330 ---------FAGCEQLERIAIPS--SVTKIP--E---SAFSNCTALNNIEYSGSRSQ--W-NAISTDSGLQNLPV  385 (394)
T ss_dssp             ---------TTTCTTCCEEEECT--TCCBCC--G---GGGTTCTTCCEEEESSCHHH--H-HTCBCCCCC-----
T ss_pred             ---------hhCCCCCCEEEECc--ccCEEh--H---hHhhCCCCCCEEEECCceee--h-hhhhccCCCCEEEe
Confidence                     56788999999864  343332  1   23557899999998864321  1 23445677888777

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.52  E-value=1.5e-05  Score=63.51  Aligned_cols=99  Identities=19%  Similarity=0.141  Sum_probs=56.3

Q ss_pred             hhhHHHHhhcccCCccceEEeec-CCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCc---cCchhh
Q 044247          103 AGEARRAELEKKKNLFDLELDFD-NLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNV---VPKNWV  178 (333)
Q Consensus       103 ~~~~~~~~l~~~~~L~~L~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~---~~~~~~  178 (333)
                      ..+.+...+...+.|++|++++| .+.+.             ....+...+...++|++|++++|......   + ...+
T Consensus        24 ~~~~l~~~l~~~~~L~~L~L~~n~~i~~~-------------g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l-~~~L   89 (185)
T 1io0_A           24 VEETLKRIQNNDPDLEEVNLNNIMNIPVP-------------TLKACAEALKTNTYVKKFSIVGTRSNDPVAFAL-AEML   89 (185)
T ss_dssp             HHHHHHHHHTTCTTCCEEECTTCTTCCHH-------------HHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHH-HHHH
T ss_pred             HHHHHHHHHhcCCCCCEEEecCCCCCCHH-------------HHHHHHHHHHhCCCcCEEECcCCCCChHHHHHH-HHHH
Confidence            34455566777788888888877 64321             22334455566677888888877654310   1 1223


Q ss_pred             hcCCCccEEEeecCCCCCC-----C-CCCCCCccccceec--cccc
Q 044247          179 MSLTNLRVLHLFECRNCEH-----L-PPLGKLTSLEDLYI--AGMK  216 (333)
Q Consensus       179 ~~~~~L~~L~l~~~~~~~~-----l-~~~~~l~~L~~L~l--~~~~  216 (333)
                      ...++|+.|+|++|. +++     + ..+...++|++|++  ++|.
T Consensus        90 ~~n~~L~~L~L~~N~-i~~~g~~~l~~~L~~n~~L~~L~L~~~~N~  134 (185)
T 1io0_A           90 KVNNTLKSLNVESNF-ISGSGILALVEALQSNTSLIELRIDNQSQP  134 (185)
T ss_dssp             HHCSSCCEEECCSSC-CCHHHHHHHHHGGGGCSSCCEEECCCCSSC
T ss_pred             HhCCCcCEEECcCCc-CCHHHHHHHHHHHHhCCCceEEEecCCCCC
Confidence            345678888887773 332     1 11344456666666  4444

>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=97.19  E-value=0.00024  Score=59.73  Aligned_cols=61  Identities=15%  Similarity=0.082  Sum_probs=28.2

Q ss_pred             CCCcccEEeecCCCccc--ccCccccccccccEEecCCCCCcccccccccccc--cCceeeeEEEcC
Q 044247           10 ELYNLERVNVSGCSHLR--ELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELI--RLRRVTKFVVCG   72 (333)
Q Consensus        10 ~l~~L~~L~l~~~~~~~--~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~--~L~~L~l~~~~~   72 (333)
                      ++++|+.|++++|...+  .+|..+..+++|+.|++++| .+..+ ..+..+.  +|++|++.+|..
T Consensus       168 ~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N-~i~~~-~~l~~l~~l~L~~L~L~~Npl  232 (267)
T 3rw6_A          168 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGN-ELKSE-RELDKIKGLKLEELWLDGNSL  232 (267)
T ss_dssp             HCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTS-CCCSG-GGGGGGTTSCCSEEECTTSTT
T ss_pred             hCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCC-ccCCc-hhhhhcccCCcceEEccCCcC
Confidence            34555555555555211  23344445555555555555 33332 1233333  555555554443

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=97.09  E-value=0.018  Score=50.79  Aligned_cols=32  Identities=6%  Similarity=-0.081  Sum_probs=16.2

Q ss_pred             cccEEeecCCCcccccCccccccccccEEecCCC
Q 044247           13 NLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYT   46 (333)
Q Consensus        13 ~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~   46 (333)
                      +|+.+.+..+  +..+........+|+.+.+..+
T Consensus        92 ~l~~i~~~~~--l~~I~~~aF~~~~L~~i~lp~~  123 (379)
T 4h09_A           92 KLQSYTGMER--VKKFGDYVFQGTDLDDFEFPGA  123 (379)
T ss_dssp             CCCEEEECTT--CCEECTTTTTTCCCSEEECCTT
T ss_pred             CCceEECCce--eeEeccceeccCCcccccCCCc
Confidence            4565555433  3344433223346777777543

>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=97.06  E-value=0.00037  Score=58.55  Aligned_cols=60  Identities=27%  Similarity=0.382  Sum_probs=35.6

Q ss_pred             CCCCccEEEEeeecCCCCccC--chhhhcCCCccEEEeecCCCCCCCCCCCCCc--cccceeccccc
Q 044247          154 PPPNLKELHIHEYRGRRNVVP--KNWVMSLTNLRVLHLFECRNCEHLPPLGKLT--SLEDLYIAGMK  216 (333)
Q Consensus       154 ~~~~L~~L~l~~~~~~~~~~~--~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~--~L~~L~l~~~~  216 (333)
                      .+++|+.|++++|....  +.  +..+..+++|+.|+|++| .+..+..++.+.  +|++|++++|+
T Consensus       168 ~l~~L~~L~Ls~N~l~~--l~~l~~~~~~l~~L~~L~Ls~N-~i~~~~~l~~l~~l~L~~L~L~~Np  231 (267)
T 3rw6_A          168 NIPELLSLNLSNNRLYR--LDDMSSIVQKAPNLKILNLSGN-ELKSERELDKIKGLKLEELWLDGNS  231 (267)
T ss_dssp             HCTTCCEEECTTSCCCC--CGGGTTHHHHSTTCCEEECTTS-CCCSGGGGGGGTTSCCSEEECTTST
T ss_pred             hCCCCCEEECCCCCCCC--CccchhHHhhCCCCCEEECCCC-ccCCchhhhhcccCCcceEEccCCc
Confidence            35677777777766655  30  234456777777777776 333333333333  67777777776

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=96.77  E-value=0.031  Score=49.32  Aligned_cols=105  Identities=15%  Similarity=0.083  Sum_probs=58.2

Q ss_pred             hhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEe
Q 044247          110 ELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHL  189 (333)
Q Consensus       110 ~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l  189 (333)
                      .+..+..|+.+.+..+                  ...-...++..+.+|+.+.+...- ..  ++...+..+.+|+.+.+
T Consensus       235 ~f~~~~~L~~i~lp~~------------------v~~I~~~aF~~~~~l~~i~l~~~i-~~--i~~~aF~~c~~L~~i~l  293 (379)
T 4h09_A          235 AFYGMKALDEIAIPKN------------------VTSIGSFLLQNCTALKTLNFYAKV-KT--VPYLLCSGCSNLTKVVM  293 (379)
T ss_dssp             TTTTCSSCCEEEECTT------------------CCEECTTTTTTCTTCCEEEECCCC-SE--ECTTTTTTCTTCCEEEE
T ss_pred             cccCCccceEEEcCCC------------------ccEeCccccceeehhccccccccc-ee--ccccccccccccccccc
Confidence            4455667777776544                  222223456666777777765421 11  21334556777777777


Q ss_pred             ecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeec
Q 044247          190 FECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFW  249 (333)
Q Consensus       190 ~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~  249 (333)
                      .++ .++.++.  +.+|.+|+.+.+.++  ++.++...           +..+.+|+++.+.
T Consensus       294 ~~~-~i~~I~~~aF~~c~~L~~i~lp~~--l~~I~~~a-----------F~~C~~L~~i~ip  341 (379)
T 4h09_A          294 DNS-AIETLEPRVFMDCVKLSSVTLPTA--LKTIQVYA-----------FKNCKALSTISYP  341 (379)
T ss_dssp             CCT-TCCEECTTTTTTCTTCCEEECCTT--CCEECTTT-----------TTTCTTCCCCCCC
T ss_pred             ccc-ccceehhhhhcCCCCCCEEEcCcc--ccEEHHHH-----------hhCCCCCCEEEEC
Confidence            654 3343433  666777777777543  55555433           3455666666664

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=91.83  E-value=0.17  Score=37.13  Aligned_cols=12  Identities=25%  Similarity=0.462  Sum_probs=5.2

Q ss_pred             cCCCccEEeecc
Q 044247          239 AFPKLKRLRFWS  250 (333)
Q Consensus       239 ~l~~L~~L~l~~  250 (333)
                      .+++|+.|+|.+
T Consensus        53 ~l~~L~~L~L~~   64 (130)
T 3rfe_A           53 ALPALRTAHLGA   64 (130)
T ss_dssp             GCTTCCEEECCS
T ss_pred             hccccCEEEecC
Confidence            344444444444

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=91.69  E-value=0.053  Score=43.03  Aligned_cols=115  Identities=13%  Similarity=0.050  Sum_probs=75.1

Q ss_pred             hcCCCcccEEeecCCCccc-----ccCccccccccccEEecCCCCCccc-----ccccccccccCceeeeEEEcCccCCC
Q 044247            8 LCELYNLERVNVSGCSHLR-----ELPQGIGKLRKLMYLDNDYTDSLRY-----LPVGIGELIRLRRVTKFVVCGGYDRA   77 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~-----~lp~~i~~l~~L~~L~l~~~~~~~~-----~p~~i~~l~~L~~L~l~~~~~~~~~~   77 (333)
                      +..-+.|++|++.++..++     .+-.++..-+.|+.|++++|. +..     +...+..-..|++|++..|.+..  .
T Consensus        37 l~~n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~-igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~--~  113 (197)
T 1pgv_A           37 REDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTA-ISDSEARGLIELIETSPSLRVLNVESNFLTP--E  113 (197)
T ss_dssp             HTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSC-CBHHHHTTHHHHHHHCSSCCEEECCSSBCCH--H
T ss_pred             HhcCCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCC-CChHHHHHHHHHHhcCCccCeEecCCCcCCH--H
Confidence            4456789999999862242     355567778899999999994 432     33335567789999999988763  1


Q ss_pred             C---CccccccCccCceeEecCCC--CCCC-hhhHHHHhhcccCCccceEEeec
Q 044247           78 C---SLGSLKKLNLLRQCSIDGLG--GVSD-AGEARRAELEKKKNLFDLELDFD  125 (333)
Q Consensus        78 ~---~~~~l~~l~~L~~L~l~~~~--~~~~-~~~~~~~~l~~~~~L~~L~l~~~  125 (333)
                      .   ....+..-+.|+.|.+....  .+.+ ....+...+..-+.|++|+++.+
T Consensus       114 Ga~ala~aL~~N~tL~~L~L~n~~~~~ig~~g~~~ia~aL~~N~tL~~L~l~~~  167 (197)
T 1pgv_A          114 LLARLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFA  167 (197)
T ss_dssp             HHHHHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             HHHHHHHHHhhCCceeEEECCCCcCcCcCHHHHHHHHHHHHhCCCcCeEeccCC
Confidence            1   22345555678888886421  2222 11234455666678999998766

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=91.42  E-value=0.044  Score=43.49  Aligned_cols=44  Identities=18%  Similarity=0.124  Sum_probs=22.2

Q ss_pred             hhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeee
Q 044247          110 ELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEY  166 (333)
Q Consensus       110 ~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~  166 (333)
                      .+..-+.|++|+++.|.+.+.             -...+.+++..-..|+.|+++++
T Consensus        93 aL~~N~tL~~L~L~~N~Ig~~-------------Ga~ala~aL~~N~tL~~L~L~n~  136 (197)
T 1pgv_A           93 LIETSPSLRVLNVESNFLTPE-------------LLARLLRSTLVTQSIVEFKADNQ  136 (197)
T ss_dssp             HHHHCSSCCEEECCSSBCCHH-------------HHHHHHHHTTTTCCCSEEECCCC
T ss_pred             HHhcCCccCeEecCCCcCCHH-------------HHHHHHHHHhhCCceeEEECCCC
Confidence            333345666666666654321             22333444555555666666543

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=90.74  E-value=0.26  Score=36.10  Aligned_cols=54  Identities=22%  Similarity=0.111  Sum_probs=35.6

Q ss_pred             EEeecCCCccc--ccCccccccccccEEecCCCCCccccccc-ccccccCceeeeEEEcCc
Q 044247           16 RVNVSGCSHLR--ELPQGIGKLRKLMYLDNDYTDSLRYLPVG-IGELIRLRRVTKFVVCGG   73 (333)
Q Consensus        16 ~L~l~~~~~~~--~lp~~i~~l~~L~~L~l~~~~~~~~~p~~-i~~l~~L~~L~l~~~~~~   73 (333)
                      +++-++.. +.  .+|..+  -++|++|+|++| .+..+|.+ +..+++|+.|++.+|...
T Consensus        12 ~v~Cs~~~-L~~~~vP~~l--p~~l~~L~Ls~N-~l~~l~~~~f~~l~~L~~L~L~~NP~~   68 (130)
T 3rfe_A           12 LVDCGRRG-LTWASLPTAF--PVDTTELVLTGN-NLTALPPGLLDALPALRTAHLGANPWR   68 (130)
T ss_dssp             EEECCSSC-CCTTTSCSCC--CTTCSEEECTTS-CCSSCCTTTGGGCTTCCEEECCSSCCB
T ss_pred             EEEeCCCC-CccccCCCCC--CcCCCEEECCCC-cCCccChhhhhhccccCEEEecCCCee
Confidence            55555555 55  677533  236888888888 56666654 567788888888776543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	333
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	0.002

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]} Length = 313

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

 Score = 37.0 bits (84), Expect = 0.002
 Identities = 8/39 (20%), Positives = 13/39 (33%)

Query: 176 NWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAG 214
             +  L  L  L++     C  +P  G L   +    A 
Sbjct: 262 QGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYAN 300

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	333
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.79
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.78
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.78
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.77
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.76
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.7
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.7
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.67
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.65
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.64
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.64
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.63
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.61
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.57
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.55
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.53
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.52
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.52
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.48
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.45
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.4
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.27
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.24
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.15
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.11
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.08
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.03
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.9
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.9
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.81
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.79
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.77
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.61
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.6
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.54
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.5
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	96.99
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	96.86
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.44
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.43
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.2
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.06

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.79  E-value=3.5e-18  Score=151.36  Aligned_cols=242  Identities=20%  Similarity=0.256  Sum_probs=145.2

Q ss_pred             hhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCC----------
Q 044247            7 TLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDR----------   76 (333)
Q Consensus         7 ~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~----------   76 (333)
                      .++.|++|++|++++|. +..+|. ++++++|++|++++| .+..++. ++.+++|+.|++.++......          
T Consensus        61 gl~~L~nL~~L~Ls~N~-l~~l~~-l~~L~~L~~L~L~~n-~i~~i~~-l~~l~~L~~L~~~~~~~~~~~~~~~~~~~~~  136 (384)
T d2omza2          61 GVEYLNNLTQINFSNNQ-LTDITP-LKNLTKLVDILMNNN-QIADITP-LANLTNLTGLTLFNNQITDIDPLKNLTNLNR  136 (384)
T ss_dssp             TGGGCTTCCEEECCSSC-CCCCGG-GTTCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSCCCCCGGGTTCTTCSE
T ss_pred             ccccCCCCCEEeCcCCc-CCCCcc-ccCCccccccccccc-ccccccc-ccccccccccccccccccccccccccccccc
Confidence            57778888888888887 767765 888888888888888 4555543 778888888877655433200          


Q ss_pred             --------------------------------------------------CCCccccccCccCceeEecCCCCCCChhhH
Q 044247           77 --------------------------------------------------ACSLGSLKKLNLLRQCSIDGLGGVSDAGEA  106 (333)
Q Consensus        77 --------------------------------------------------~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~  106 (333)
                                                                        .........++++..+.+.... +...   
T Consensus       137 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~l~~n~-i~~~---  212 (384)
T d2omza2         137 LELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQ-ISDI---  212 (384)
T ss_dssp             EEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSC-CCCC---
T ss_pred             cccccccccccccccccccccccccccccchhhhhccccccccccccccccccccccccccccceeeccCCc-cCCC---
Confidence                                                              0000111222233333332211 1110   


Q ss_pred             HHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccE
Q 044247          107 RRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRV  186 (333)
Q Consensus       107 ~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~  186 (333)
                        .....+++|++|++.+|.+.+                   ...+..+++|+.++++++....  + + .+..+++|+.
T Consensus       213 --~~~~~~~~L~~L~l~~n~l~~-------------------~~~l~~l~~L~~L~l~~n~l~~--~-~-~~~~~~~L~~  267 (384)
T d2omza2         213 --TPLGILTNLDELSLNGNQLKD-------------------IGTLASLTNLTDLDLANNQISN--L-A-PLSGLTKLTE  267 (384)
T ss_dssp             --GGGGGCTTCCEEECCSSCCCC-------------------CGGGGGCTTCSEEECCSSCCCC--C-G-GGTTCTTCSE
T ss_pred             --CcccccCCCCEEECCCCCCCC-------------------cchhhcccccchhccccCccCC--C-C-cccccccCCE
Confidence              123456789999999885432                   1245566788888888877666  4 3 3566788888


Q ss_pred             EEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccc
Q 044247          187 LHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGE  266 (333)
Q Consensus       187 L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~  266 (333)
                      |+++++ .+..++++..++.++.+++..|. +..++.             ...+++++.|+++++ +++++.       .
T Consensus       268 L~l~~~-~l~~~~~~~~~~~l~~l~~~~n~-l~~~~~-------------~~~~~~l~~L~ls~n-~l~~l~-------~  324 (384)
T d2omza2         268 LKLGAN-QISNISPLAGLTALTNLELNENQ-LEDISP-------------ISNLKNLTYLTLYFN-NISDIS-------P  324 (384)
T ss_dssp             EECCSS-CCCCCGGGTTCTTCSEEECCSSC-CSCCGG-------------GGGCTTCSEEECCSS-CCSCCG-------G
T ss_pred             eeccCc-ccCCCCccccccccccccccccc-cccccc-------------cchhcccCeEECCCC-CCCCCc-------c
Confidence            888777 44555556666777777777665 333321             346666677776664 343332       1


Q ss_pred             cccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccCh
Q 044247          267 IIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       267 ~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                      +..+++|++|++++| .++.++. +..+++|+.|++ .+|.
T Consensus       325 l~~l~~L~~L~L~~n-~l~~l~~-l~~l~~L~~L~l-~~N~  362 (384)
T d2omza2         325 VSSLTKLQRLFFANN-KVSDVSS-LANLTNINWLSA-GHNQ  362 (384)
T ss_dssp             GGGCTTCCEEECCSS-CCCCCGG-GGGCTTCCEEEC-CSSC
T ss_pred             cccCCCCCEEECCCC-CCCCChh-HcCCCCCCEEEC-CCCc
Confidence            235667777777665 4555543 455667777777 6653

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.78  E-value=1.5e-19  Score=156.28  Aligned_cols=249  Identities=14%  Similarity=0.096  Sum_probs=177.6

Q ss_pred             cccEEeecCCCccc--ccCccccccccccEEecCCCCCc-ccccccccccccCceeeeEEEcCccCCCCCccccccCccC
Q 044247           13 NLERVNVSGCSHLR--ELPQGIGKLRKLMYLDNDYTDSL-RYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLL   89 (333)
Q Consensus        13 ~L~~L~l~~~~~~~--~lp~~i~~l~~L~~L~l~~~~~~-~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L   89 (333)
                      +++.|+++++...+  .+|..++++++|++|+++++..+ ..+|..++++++|++|++++|...   +..+..+..+.+|
T Consensus        51 ~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~---~~~~~~~~~~~~L  127 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVS---GAIPDFLSQIKTL  127 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCE---EECCGGGGGCTTC
T ss_pred             EEEEEECCCCCCCCCCCCChHHhcCccccccccccccccccccccccccccccchhhhcccccc---ccccccccchhhh
Confidence            68899999987433  68899999999999999874344 478999999999999999999876   3345556778888


Q ss_pred             ceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCc-cEEEEeeecC
Q 044247           90 RQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNL-KELHIHEYRG  168 (333)
Q Consensus        90 ~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L-~~L~l~~~~~  168 (333)
                      +.+.+.......    .....+..++.++.+++++|.                 ....++..+..+..+ +.+.++++..
T Consensus       128 ~~l~l~~N~~~~----~~p~~l~~l~~L~~l~l~~n~-----------------l~~~ip~~~~~l~~l~~~l~~~~n~l  186 (313)
T d1ogqa_         128 VTLDFSYNALSG----TLPPSISSLPNLVGITFDGNR-----------------ISGAIPDSYGSFSKLFTSMTISRNRL  186 (313)
T ss_dssp             CEEECCSSEEES----CCCGGGGGCTTCCEEECCSSC-----------------CEEECCGGGGCCCTTCCEEECCSSEE
T ss_pred             cccccccccccc----cCchhhccCcccceeeccccc-----------------cccccccccccccccccccccccccc
Confidence            887775432211    112367788999999999885                 334455666666555 7777777665


Q ss_pred             CCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEe
Q 044247          169 RRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLR  247 (333)
Q Consensus       169 ~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~  247 (333)
                      ..  ..+..+..+.. ..+++..+......+. .+.+++|+.+++.++.....++ .            +..+++|+.|+
T Consensus       187 ~~--~~~~~~~~l~~-~~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~-~------------~~~~~~L~~L~  250 (313)
T d1ogqa_         187 TG--KIPPTFANLNL-AFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLG-K------------VGLSKNLNGLD  250 (313)
T ss_dssp             EE--ECCGGGGGCCC-SEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGG-G------------CCCCTTCCEEE
T ss_pred             cc--ccccccccccc-ccccccccccccccccccccccccccccccccccccccc-c------------ccccccccccc
Confidence            44  21555555544 4688887755555555 6778899999999887332332 2            46778999999


Q ss_pred             eccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccChhh
Q 044247          248 FWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACHIL  309 (333)
Q Consensus       248 l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~~l  309 (333)
                      ++++.      +.+.+|+++..+++|++|+++++..-..+|. ...+++|+.+++ .+++.+
T Consensus       251 Ls~N~------l~g~iP~~l~~L~~L~~L~Ls~N~l~g~iP~-~~~L~~L~~l~l-~~N~~l  304 (313)
T d1ogqa_         251 LRNNR------IYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQ-GGNLQRFDVSAY-ANNKCL  304 (313)
T ss_dssp             CCSSC------CEECCCGGGGGCTTCCEEECCSSEEEEECCC-STTGGGSCGGGT-CSSSEE
T ss_pred             CccCe------ecccCChHHhCCCCCCEEECcCCcccccCCC-cccCCCCCHHHh-CCCccc
Confidence            99864      3445777888999999999998654446775 456788888888 776644

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.78  E-value=1e-19  Score=157.35  Aligned_cols=240  Identities=16%  Similarity=0.100  Sum_probs=174.2

Q ss_pred             cccchhcCCCcccEEeecC-CCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcc
Q 044247            3 KLPETLCELYNLERVNVSG-CSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLG   81 (333)
Q Consensus         3 ~lp~~l~~l~~L~~L~l~~-~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~   81 (333)
                      .+|.+++++++|++|++++ +...+.+|..++++++|++|++++|......+..+..+.+|+.+++..|...   ...+.
T Consensus        67 ~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~~---~~~p~  143 (313)
T d1ogqa_          67 PIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALS---GTLPP  143 (313)
T ss_dssp             ECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEE---SCCCG
T ss_pred             CCChHHhcCccccccccccccccccccccccccccccchhhhccccccccccccccchhhhccccccccccc---ccCch
Confidence            4899999999999999997 4545689999999999999999999554455666888999999999887765   45677


Q ss_pred             ccccCccCceeEecCCCCCCChhhHHHHhhcccCCc-cceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccE
Q 044247           82 SLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNL-FDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKE  160 (333)
Q Consensus        82 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L-~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~  160 (333)
                      .+.+++.++.+.+......    ......+..+..+ +.+.+.++.                 .....+..+..+. ...
T Consensus       144 ~l~~l~~L~~l~l~~n~l~----~~ip~~~~~l~~l~~~l~~~~n~-----------------l~~~~~~~~~~l~-~~~  201 (313)
T d1ogqa_         144 SISSLPNLVGITFDGNRIS----GAIPDSYGSFSKLFTSMTISRNR-----------------LTGKIPPTFANLN-LAF  201 (313)
T ss_dssp             GGGGCTTCCEEECCSSCCE----EECCGGGGCCCTTCCEEECCSSE-----------------EEEECCGGGGGCC-CSE
T ss_pred             hhccCcccceeeccccccc----ccccccccccccccccccccccc-----------------ccccccccccccc-ccc
Confidence            8899999999887653221    0112245555554 677777774                 2223334444433 345


Q ss_pred             EEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccC
Q 044247          161 LHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAF  240 (333)
Q Consensus       161 L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l  240 (333)
                      +++..+..... + +..+..+++++.+++.+|.....++.++.+++|+.|++++|.....+|..            ++.+
T Consensus       202 l~l~~~~~~~~-~-~~~~~~~~~l~~l~~~~~~l~~~~~~~~~~~~L~~L~Ls~N~l~g~iP~~------------l~~L  267 (313)
T d1ogqa_         202 VDLSRNMLEGD-A-SVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQG------------LTQL  267 (313)
T ss_dssp             EECCSSEEEEC-C-GGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSSCCEECCCGG------------GGGC
T ss_pred             ccccccccccc-c-cccccccccccccccccccccccccccccccccccccCccCeecccCChH------------HhCC
Confidence            77766544331 3 66677889999999999866556666888999999999999844467765            6789


Q ss_pred             CCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCC
Q 044247          241 PKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALP  288 (333)
Q Consensus       241 ~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~  288 (333)
                      ++|++|+++++ +++     +.+|+ ...+.+|+.+++.+++.+...|
T Consensus       268 ~~L~~L~Ls~N-~l~-----g~iP~-~~~L~~L~~l~l~~N~~l~g~p  308 (313)
T d1ogqa_         268 KFLHSLNVSFN-NLC-----GEIPQ-GGNLQRFDVSAYANNKCLCGSP  308 (313)
T ss_dssp             TTCCEEECCSS-EEE-----EECCC-STTGGGSCGGGTCSSSEEESTT
T ss_pred             CCCCEEECcCC-ccc-----ccCCC-cccCCCCCHHHhCCCccccCCC
Confidence            99999999995 443     33442 3467889999999987776544

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.77  E-value=5.8e-18  Score=145.56  Aligned_cols=253  Identities=14%  Similarity=0.129  Sum_probs=178.3

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccCc-cccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCC
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELPQ-GIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACS   79 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~   79 (333)
                      ++++|..+.  +++++|++++|. +..+|. ++.++++|++|++++|......|..+..+++|++|++.+|....    .
T Consensus        22 L~~lP~~l~--~~l~~L~Ls~N~-i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~n~l~~----l   94 (305)
T d1xkua_          22 LEKVPKDLP--PDTALLDLQNNK-ITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKE----L   94 (305)
T ss_dssp             CCSCCCSCC--TTCCEEECCSSC-CCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCSB----C
T ss_pred             CCccCCCCC--CCCCEEECcCCc-CCCcChhHhhccccccccccccccccccchhhhhCCCccCEecccCCccCc----C
Confidence            457888775  689999999998 888875 68899999999999995544446668999999999999887654    2


Q ss_pred             ccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCcc
Q 044247           80 LGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLK  159 (333)
Q Consensus        80 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~  159 (333)
                      +...  ...+..|...... +....   ...+.....+..+....+...               ........+..+++|+
T Consensus        95 ~~~~--~~~l~~L~~~~n~-l~~l~---~~~~~~~~~~~~l~~~~n~~~---------------~~~~~~~~~~~l~~L~  153 (305)
T d1xkua_          95 PEKM--PKTLQELRVHENE-ITKVR---KSVFNGLNQMIVVELGTNPLK---------------SSGIENGAFQGMKKLS  153 (305)
T ss_dssp             CSSC--CTTCCEEECCSSC-CCBBC---HHHHTTCTTCCEEECCSSCCC---------------GGGBCTTGGGGCTTCC
T ss_pred             ccch--hhhhhhhhccccc-hhhhh---hhhhhcccccccccccccccc---------------ccCCCccccccccccC
Confidence            2221  2344555443321 11111   123444556666666655311               2233345566778999


Q ss_pred             EEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceecccccccccccccccCCCCCCCCCccc
Q 044247          160 ELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVI  238 (333)
Q Consensus       160 ~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~  238 (333)
                      .++++++....  + +..  .+++|+.|++++|......+. +..++.++.|++++|. +..++...           +.
T Consensus       154 ~l~l~~n~l~~--l-~~~--~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~-l~~~~~~~-----------~~  216 (305)
T d1xkua_         154 YIRIADTNITT--I-PQG--LPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNS-ISAVDNGS-----------LA  216 (305)
T ss_dssp             EEECCSSCCCS--C-CSS--CCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSC-CCEECTTT-----------GG
T ss_pred             ccccccCCccc--c-Ccc--cCCccCEEECCCCcCCCCChhHhhcccccccccccccc-cccccccc-----------cc
Confidence            99999988776  6 544  378999999999855444443 7788999999999987 66665433           56


Q ss_pred             cCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCc-------ccCCCCCcceEEEcccCh
Q 044247          239 AFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPD-------HLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       239 ~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~-------~~~~l~~L~~L~l~~~c~  307 (333)
                      .+++|++|+++++ +++.+      |+.+..+++|+.|+++++ .++.++.       .....++|+.|++ .+++
T Consensus       217 ~l~~L~~L~L~~N-~L~~l------p~~l~~l~~L~~L~Ls~N-~i~~i~~~~f~~~~~~~~~~~L~~L~L-~~N~  283 (305)
T d1xkua_         217 NTPHLRELHLNNN-KLVKV------PGGLADHKYIQVVYLHNN-NISAIGSNDFCPPGYNTKKASYSGVSL-FSNP  283 (305)
T ss_dssp             GSTTCCEEECCSS-CCSSC------CTTTTTCSSCCEEECCSS-CCCCCCTTSSSCSSCCTTSCCCSEEEC-CSSS
T ss_pred             ccccceeeecccc-ccccc------ccccccccCCCEEECCCC-ccCccChhhccCcchhcccCCCCEEEC-CCCc
Confidence            8899999999997 55443      455668999999999985 5777654       2334688999999 8887

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.76  E-value=1.6e-17  Score=147.15  Aligned_cols=261  Identities=17%  Similarity=0.167  Sum_probs=144.0

Q ss_pred             cCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCcc
Q 044247            9 CELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNL   88 (333)
Q Consensus         9 ~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~   88 (333)
                      ..+.+|++|++.+++ +..+. .+..+++|++|++++| .++.+|. ++.+++|++|++++|....     ...+..+++
T Consensus        41 ~~l~~l~~L~l~~~~-I~~l~-gl~~L~nL~~L~Ls~N-~l~~l~~-l~~L~~L~~L~L~~n~i~~-----i~~l~~l~~  111 (384)
T d2omza2          41 TDLDQVTTLQADRLG-IKSID-GVEYLNNLTQINFSNN-QLTDITP-LKNLTKLVDILMNNNQIAD-----ITPLANLTN  111 (384)
T ss_dssp             HHHTTCCEEECCSSC-CCCCT-TGGGCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSCCCC-----CGGGTTCTT
T ss_pred             HHhCCCCEEECCCCC-CCCcc-ccccCCCCCEEeCcCC-cCCCCcc-ccCCccccccccccccccc-----ccccccccc
Confidence            457789999999998 77764 5889999999999999 6777764 8999999999999988753     334778888


Q ss_pred             CceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhh------------------ccc-CCcc-----cc
Q 044247           89 LRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQA------------------GRR-ENEE-----DE  144 (333)
Q Consensus        89 L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~------------------~~~-~~~~-----~~  144 (333)
                      |+.+.+.........      .......+.......+.+........                  ... ....     ..
T Consensus       112 L~~L~~~~~~~~~~~------~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  185 (384)
T d2omza2         112 LTGLTLFNNQITDID------PLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSN  185 (384)
T ss_dssp             CCEEECCSSCCCCCG------GGTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSS
T ss_pred             ccccccccccccccc------cccccccccccccccccccccccccccccccccccccccchhhhhcccccccccccccc
Confidence            888877643321110      11111222222222221110000000                  000 0000     00


Q ss_pred             cccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceeccccccccccccc
Q 044247          145 DERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNE  224 (333)
Q Consensus       145 ~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~  224 (333)
                      ..........+++++.+.++++....  + +. ...+++|+.|++++| .+++++.+..+++|+.|++++|. +..++. 
T Consensus       186 ~~~~~~~~~~l~~~~~l~l~~n~i~~--~-~~-~~~~~~L~~L~l~~n-~l~~~~~l~~l~~L~~L~l~~n~-l~~~~~-  258 (384)
T d2omza2         186 KVSDISVLAKLTNLESLIATNNQISD--I-TP-LGILTNLDELSLNGN-QLKDIGTLASLTNLTDLDLANNQ-ISNLAP-  258 (384)
T ss_dssp             CCCCCGGGGGCTTCSEEECCSSCCCC--C-GG-GGGCTTCCEEECCSS-CCCCCGGGGGCTTCSEEECCSSC-CCCCGG-
T ss_pred             ccccccccccccccceeeccCCccCC--C-Cc-ccccCCCCEEECCCC-CCCCcchhhcccccchhccccCc-cCCCCc-
Confidence            01111222334555555555554444  2 21 234555555555555 33444444555555555555554 333221 


Q ss_pred             ccCCCCCCCCCccccCCCccEEeeccCccccccc------------cCC---ccccccccCCCcceEecccCcCcccCCc
Q 044247          225 FLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWD------------LGT---AIKGEIIIMPRLSSLSIQSCRELKALPD  289 (333)
Q Consensus       225 ~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~------------~~~---~~~~~~~~~~~L~~L~l~~c~~l~~l~~  289 (333)
                                  +..+++|++|+++++. +..+.            ...   .-...+..+++++.|+++++ +++.++.
T Consensus       259 ------------~~~~~~L~~L~l~~~~-l~~~~~~~~~~~l~~l~~~~n~l~~~~~~~~~~~l~~L~ls~n-~l~~l~~  324 (384)
T d2omza2         259 ------------LSGLTKLTELKLGANQ-ISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFN-NISDISP  324 (384)
T ss_dssp             ------------GTTCTTCSEEECCSSC-CCCCGGGTTCTTCSEEECCSSCCSCCGGGGGCTTCSEEECCSS-CCSCCGG
T ss_pred             ------------ccccccCCEeeccCcc-cCCCCccccccccccccccccccccccccchhcccCeEECCCC-CCCCCcc
Confidence                        3344455555554321 11110            000   00123557899999999985 6666654


Q ss_pred             ccCCCCCcceEEEcccCh
Q 044247          290 HLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       290 ~~~~l~~L~~L~l~~~c~  307 (333)
                       +..+++|++|++ ++|.
T Consensus       325 -l~~l~~L~~L~L-~~n~  340 (384)
T d2omza2         325 -VSSLTKLQRLFF-ANNK  340 (384)
T ss_dssp             -GGGCTTCCEEEC-CSSC
T ss_pred             -cccCCCCCEEEC-CCCC
Confidence             667999999999 9884

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.70  E-value=8.8e-17  Score=132.06  Aligned_cols=101  Identities=18%  Similarity=0.244  Sum_probs=54.1

Q ss_pred             CCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCC
Q 044247          153 GPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDT  232 (333)
Q Consensus       153 ~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~  232 (333)
                      ...+.++.+.++++....    ...+..+++|+.|.+.+| .+...+.++++++|++|++++|. ++.++.         
T Consensus       126 ~~~~~~~~l~~~~~~~~~----~~~~~~~~~L~~L~l~~n-~~~~~~~l~~l~~L~~L~Ls~n~-l~~l~~---------  190 (227)
T d1h6ua2         126 AGLSNLQVLYLDLNQITN----ISPLAGLTNLQYLSIGNA-QVSDLTPLANLSKLTTLKADDNK-ISDISP---------  190 (227)
T ss_dssp             TTCTTCCEEECCSSCCCC----CGGGGGCTTCCEEECCSS-CCCCCGGGTTCTTCCEEECCSSC-CCCCGG---------
T ss_pred             ccccchhhhhchhhhhch----hhhhcccccccccccccc-ccccchhhcccccceecccCCCc-cCCChh---------
Confidence            344555555555554443    223445666666666665 33344445566666666666664 444332         


Q ss_pred             CCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEeccc
Q 044247          233 DGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQS  280 (333)
Q Consensus       233 ~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~  280 (333)
                          +..+++|++|++++| ++++++.       +..+++|+.|++++
T Consensus       191 ----l~~l~~L~~L~Ls~N-~lt~i~~-------l~~l~~L~~L~lsn  226 (227)
T d1h6ua2         191 ----LASLPNLIEVHLKNN-QISDVSP-------LANTSNLFIVTLTN  226 (227)
T ss_dssp             ----GGGCTTCCEEECTTS-CCCBCGG-------GTTCTTCCEEEEEE
T ss_pred             ----hcCCCCCCEEECcCC-cCCCCcc-------cccCCCCCEEEeeC
Confidence                345666666666665 4555541       11456666666653

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.70  E-value=5.4e-16  Score=133.04  Aligned_cols=237  Identities=16%  Similarity=0.129  Sum_probs=164.6

Q ss_pred             CCcccc-hhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCC
Q 044247            1 IEKLPE-TLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACS   79 (333)
Q Consensus         1 ~~~lp~-~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~   79 (333)
                      |+.+|+ .+.++++|++|++++|......|..+..+++|++|++++| .++.+|..  ....++.|...++....   ..
T Consensus        43 i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~n-~l~~l~~~--~~~~l~~L~~~~n~l~~---l~  116 (305)
T d1xkua_          43 ITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKN-QLKELPEK--MPKTLQELRVHENEITK---VR  116 (305)
T ss_dssp             CCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSS-CCSBCCSS--CCTTCCEEECCSSCCCB---BC
T ss_pred             CCCcChhHhhccccccccccccccccccchhhhhCCCccCEecccCC-ccCcCccc--hhhhhhhhhccccchhh---hh
Confidence            467886 6899999999999999944555777999999999999999 67788764  34678888877765542   12


Q ss_pred             ccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCcc
Q 044247           80 LGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLK  159 (333)
Q Consensus        80 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~  159 (333)
                      ...+.....+..+.......  .........+..+++|+.+++.++.+                  ..++..  .+++|+
T Consensus       117 ~~~~~~~~~~~~l~~~~n~~--~~~~~~~~~~~~l~~L~~l~l~~n~l------------------~~l~~~--~~~~L~  174 (305)
T d1xkua_         117 KSVFNGLNQMIVVELGTNPL--KSSGIENGAFQGMKKLSYIRIADTNI------------------TTIPQG--LPPSLT  174 (305)
T ss_dssp             HHHHTTCTTCCEEECCSSCC--CGGGBCTTGGGGCTTCCEEECCSSCC------------------CSCCSS--CCTTCS
T ss_pred             hhhhhccccccccccccccc--cccCCCccccccccccCccccccCCc------------------cccCcc--cCCccC
Confidence            22233444444444433211  11111223566778899999988842                  223222  257899


Q ss_pred             EEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCCCCcc
Q 044247          160 ELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSV  237 (333)
Q Consensus       160 ~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~  237 (333)
                      .|+++++....  ..+..+..++.++.|++++| .+..++.  +.++++|++|++++|. ++.+|..            +
T Consensus       175 ~L~l~~n~~~~--~~~~~~~~~~~l~~L~~s~n-~l~~~~~~~~~~l~~L~~L~L~~N~-L~~lp~~------------l  238 (305)
T d1xkua_         175 ELHLDGNKITK--VDAASLKGLNNLAKLGLSFN-SISAVDNGSLANTPHLRELHLNNNK-LVKVPGG------------L  238 (305)
T ss_dssp             EEECTTSCCCE--ECTGGGTTCTTCCEEECCSS-CCCEECTTTGGGSTTCCEEECCSSC-CSSCCTT------------T
T ss_pred             EEECCCCcCCC--CChhHhhccccccccccccc-cccccccccccccccceeeeccccc-ccccccc------------c
Confidence            99998877665  32566778899999999998 4555443  7788999999999996 7777654            5


Q ss_pred             ccCCCccEEeeccCccccccccCCc-cccccccCCCcceEecccCc
Q 044247          238 IAFPKLKRLRFWSMSELEEWDLGTA-IKGEIIIMPRLSSLSIQSCR  282 (333)
Q Consensus       238 ~~l~~L~~L~l~~~~~L~~~~~~~~-~~~~~~~~~~L~~L~l~~c~  282 (333)
                      ..+++|++|+++++ +++.+....- .+......++|+.|++.+++
T Consensus       239 ~~l~~L~~L~Ls~N-~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~  283 (305)
T d1xkua_         239 ADHKYIQVVYLHNN-NISAIGSNDFCPPGYNTKKASYSGVSLFSNP  283 (305)
T ss_dssp             TTCSSCCEEECCSS-CCCCCCTTSSSCSSCCTTSCCCSEEECCSSS
T ss_pred             ccccCCCEEECCCC-ccCccChhhccCcchhcccCCCCEEECCCCc
Confidence            68899999999985 5776642111 11233467889999999866

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=3.3e-16  Score=131.75  Aligned_cols=190  Identities=18%  Similarity=0.144  Sum_probs=98.9

Q ss_pred             EEeecCCCcccccCccccccccccEEecCCCCCccccc-ccccccccCceeeeEEEcCccCCCCCccccccCccCceeEe
Q 044247           16 RVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLP-VGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSI   94 (333)
Q Consensus        16 ~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p-~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l   94 (333)
                      ..+-++++ +..+|+.+.  +++++|++++| .+..+| ..+..+++|++|++.+|....     .+....+++|+.|++
T Consensus        14 ~v~C~~~~-L~~iP~~lp--~~l~~L~Ls~N-~i~~l~~~~f~~l~~L~~L~L~~N~l~~-----l~~~~~l~~L~~L~L   84 (266)
T d1p9ag_          14 EVNCDKRN-LTALPPDLP--KDTTILHLSEN-LLYTFSLATLMPYTRLTQLNLDRAELTK-----LQVDGTLPVLGTLDL   84 (266)
T ss_dssp             EEECTTSC-CSSCCSCCC--TTCCEEECTTS-CCSEEEGGGGTTCTTCCEEECTTSCCCE-----EECCSCCTTCCEEEC
T ss_pred             EEEccCCC-CCeeCcCcC--cCCCEEECcCC-cCCCcCHHHhhccccccccccccccccc-----ccccccccccccccc
Confidence            33444333 444444332  34555555555 333333 234455555555555444331     112234444555444


Q ss_pred             cCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccC
Q 044247           95 DGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVP  174 (333)
Q Consensus        95 ~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~  174 (333)
                      .... +...    ...+..+++|+.|+++++.+                 .......+..+.+++.|.++++....  ++
T Consensus        85 s~N~-l~~~----~~~~~~l~~L~~L~l~~~~~-----------------~~~~~~~~~~l~~l~~L~l~~n~l~~--l~  140 (266)
T d1p9ag_          85 SHNQ-LQSL----PLLGQTLPALTVLDVSFNRL-----------------TSLPLGALRGLGELQELYLKGNELKT--LP  140 (266)
T ss_dssp             CSSC-CSSC----CCCTTTCTTCCEEECCSSCC-----------------CCCCSSTTTTCTTCCEEECTTSCCCC--CC
T ss_pred             cccc-cccc----cccccccccccccccccccc-----------------ceeeccccccccccccccccccccce--ec
Confidence            3211 1100    01344456666666666631                 12223344556677777777766655  53


Q ss_pred             chhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCc
Q 044247          175 KNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMS  252 (333)
Q Consensus       175 ~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~  252 (333)
                      +..+..+++++.+++++| .++.++.  ++.+++|++|++++|. ++.+|..            +..+++|+.|++++++
T Consensus       141 ~~~~~~l~~l~~l~l~~N-~l~~~~~~~~~~l~~L~~L~Ls~N~-L~~lp~~------------~~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         141 PGLLTPTPKLEKLSLANN-NLTELPAGLLNGLENLDTLLLQENS-LYTIPKG------------FFGSHLLPFAFLHGNP  206 (266)
T ss_dssp             TTTTTTCTTCCEEECTTS-CCSCCCTTTTTTCTTCCEEECCSSC-CCCCCTT------------TTTTCCCSEEECCSCC
T ss_pred             cccccccccchhcccccc-cccccCccccccccccceeecccCC-CcccChh------------HCCCCCCCEEEecCCC
Confidence            444556777777777777 3444443  6667777777777776 6666654            3356677777777644

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=1.3e-15  Score=129.27  Aligned_cols=63  Identities=21%  Similarity=0.259  Sum_probs=31.3

Q ss_pred             cCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceeccccc
Q 044247          151 ALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMK  216 (333)
Q Consensus       151 ~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~  216 (333)
                      .+...++|+.++++++....  +++..+..+++|+.|++++| .+..+++  +.++++|+.+++++|.
T Consensus       124 ~~~~~~~L~~l~l~~N~l~~--i~~~~f~~~~~L~~L~l~~N-~l~~l~~~~f~~l~~L~~l~l~~N~  188 (284)
T d1ozna_         124 LFRGLAALQYLYLQDNALQA--LPDDTFRDLGNLTHLFLHGN-RISSVPERAFRGLHSLDRLLLHQNR  188 (284)
T ss_dssp             TTTTCTTCCEEECCSSCCCC--CCTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSC
T ss_pred             ccchhcccchhhhccccccc--cChhHhccccchhhcccccC-cccccchhhhccccccchhhhhhcc
Confidence            34444555555555555444  32334444555555555555 2333332  4455555555555554

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=1.2e-15  Score=129.44  Aligned_cols=133  Identities=18%  Similarity=0.209  Sum_probs=71.5

Q ss_pred             cCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCC
Q 044247          151 ALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGV  228 (333)
Q Consensus       151 ~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~  228 (333)
                      .+..+++|++|+++++....  +.+..+..+++|+.+++++| .++.++.  +..+++|+.|++++|. ++.++...   
T Consensus       100 ~~~~l~~L~~L~l~~n~~~~--~~~~~~~~~~~L~~l~l~~N-~l~~i~~~~f~~~~~L~~L~l~~N~-l~~l~~~~---  172 (284)
T d1ozna_         100 TFHGLGRLHTLHLDRCGLQE--LGPGLFRGLAALQYLYLQDN-ALQALPDDTFRDLGNLTHLFLHGNR-ISSVPERA---  172 (284)
T ss_dssp             TTTTCTTCCEEECTTSCCCC--CCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC-CCEECTTT---
T ss_pred             hhcccccCCEEecCCccccc--ccccccchhcccchhhhccc-cccccChhHhccccchhhcccccCc-ccccchhh---
Confidence            34455566666665555443  31334445666666666666 3444433  5556666667666665 55554432   


Q ss_pred             CCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEccc
Q 044247          229 ESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGA  305 (333)
Q Consensus       229 ~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~  305 (333)
                              +..+++|+.+++.++. +.     ...|..+..+++|++|+++++..-...+..+..+++|+.|++ .+
T Consensus       173 --------f~~l~~L~~l~l~~N~-l~-----~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l-~~  234 (284)
T d1ozna_         173 --------FRGLHSLDRLLLHQNR-VA-----HVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRL-ND  234 (284)
T ss_dssp             --------TTTCTTCCEEECCSSC-CC-----EECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEEC-CS
T ss_pred             --------hccccccchhhhhhcc-cc-----ccChhHhhhhhhcccccccccccccccccccccccccCEEEe-cC
Confidence                    3456666666666642 22     112334455666677776664332222334555666666666 54

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=1.6e-15  Score=127.47  Aligned_cols=183  Identities=20%  Similarity=0.118  Sum_probs=138.0

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccC-ccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCC
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELP-QGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACS   79 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~   79 (333)
                      ++++|..+.  +++++|++++|. +..+| .++.++++|++|++++| .++.+|. ++.+++|++|++++|....    .
T Consensus        22 L~~iP~~lp--~~l~~L~Ls~N~-i~~l~~~~f~~l~~L~~L~L~~N-~l~~l~~-~~~l~~L~~L~Ls~N~l~~----~   92 (266)
T d1p9ag_          22 LTALPPDLP--KDTTILHLSENL-LYTFSLATLMPYTRLTQLNLDRA-ELTKLQV-DGTLPVLGTLDLSHNQLQS----L   92 (266)
T ss_dssp             CSSCCSCCC--TTCCEEECTTSC-CSEEEGGGGTTCTTCCEEECTTS-CCCEEEC-CSCCTTCCEEECCSSCCSS----C
T ss_pred             CCeeCcCcC--cCCCEEECcCCc-CCCcCHHHhhccccccccccccc-ccccccc-ccccccccccccccccccc----c
Confidence            457787765  579999999998 66665 56888999999999998 6677764 5789999999999887654    4


Q ss_pred             ccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCcc
Q 044247           80 LGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLK  159 (333)
Q Consensus        80 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~  159 (333)
                      +..+..+++|+.|++........    ....+..+.++++|.+.+|.+.                 .-....+..+++++
T Consensus        93 ~~~~~~l~~L~~L~l~~~~~~~~----~~~~~~~l~~l~~L~l~~n~l~-----------------~l~~~~~~~l~~l~  151 (266)
T d1p9ag_          93 PLLGQTLPALTVLDVSFNRLTSL----PLGALRGLGELQELYLKGNELK-----------------TLPPGLLTPTPKLE  151 (266)
T ss_dssp             CCCTTTCTTCCEEECCSSCCCCC----CSSTTTTCTTCCEEECTTSCCC-----------------CCCTTTTTTCTTCC
T ss_pred             cccccccccccccccccccccee----eccccccccccccccccccccc-----------------eeccccccccccch
Confidence            55677788888888765432111    1134566788999999888532                 22234456678999


Q ss_pred             EEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceeccccc
Q 044247          160 ELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMK  216 (333)
Q Consensus       160 ~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~  216 (333)
                      .+++++|....  +++..+..+++|++|+|++| .++.+|. +..+++|+.|++++|+
T Consensus       152 ~l~l~~N~l~~--~~~~~~~~l~~L~~L~Ls~N-~L~~lp~~~~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         152 KLSLANNNLTE--LPAGLLNGLENLDTLLLQEN-SLYTIPKGFFGSHLLPFAFLHGNP  206 (266)
T ss_dssp             EEECTTSCCSC--CCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCCCSEEECCSCC
T ss_pred             hcccccccccc--cCccccccccccceeecccC-CCcccChhHCCCCCCCEEEecCCC
Confidence            99999988777  63556778999999999998 4667775 7778899999999987

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.63  E-value=2.7e-15  Score=123.02  Aligned_cols=123  Identities=20%  Similarity=0.275  Sum_probs=79.8

Q ss_pred             cCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCC
Q 044247          151 ALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVES  230 (333)
Q Consensus       151 ~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~  230 (333)
                      .+..+++|+.++++++....    ...+...+.+..+.++.+ .......+..+++|+.|++++|. +...+.       
T Consensus       102 ~l~~l~~L~~l~l~~~~~~~----~~~~~~~~~~~~l~~~~~-~~~~~~~~~~~~~L~~L~l~~n~-~~~~~~-------  168 (227)
T d1h6ua2         102 AIAGLQSIKTLDLTSTQITD----VTPLAGLSNLQVLYLDLN-QITNISPLAGLTNLQYLSIGNAQ-VSDLTP-------  168 (227)
T ss_dssp             GGTTCTTCCEEECTTSCCCC----CGGGTTCTTCCEEECCSS-CCCCCGGGGGCTTCCEEECCSSC-CCCCGG-------
T ss_pred             cccccccccccccccccccc----cchhccccchhhhhchhh-hhchhhhhccccccccccccccc-cccchh-------
Confidence            35566777777777666555    333455777788877776 33344446667778888887775 332211       


Q ss_pred             CCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEE
Q 044247          231 DTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEI  302 (333)
Q Consensus       231 ~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l  302 (333)
                            +..+++|++|+++++ ++++++.       +..+++|++|++++| .++.++. +.++++|+.|++
T Consensus       169 ------l~~l~~L~~L~Ls~n-~l~~l~~-------l~~l~~L~~L~Ls~N-~lt~i~~-l~~l~~L~~L~l  224 (227)
T d1h6ua2         169 ------LANLSKLTTLKADDN-KISDISP-------LASLPNLIEVHLKNN-QISDVSP-LANTSNLFIVTL  224 (227)
T ss_dssp             ------GTTCTTCCEEECCSS-CCCCCGG-------GGGCTTCCEEECTTS-CCCBCGG-GTTCTTCCEEEE
T ss_pred             ------hcccccceecccCCC-ccCCChh-------hcCCCCCCEEECcCC-cCCCCcc-cccCCCCCEEEe
Confidence                  457778888888775 4544331       346788888888876 5666664 566788888877

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.61  E-value=3.1e-15  Score=120.09  Aligned_cols=163  Identities=23%  Similarity=0.250  Sum_probs=104.7

Q ss_pred             cccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCceeEecCCCCCCChhhHHHHhhc
Q 044247           33 GKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELE  112 (333)
Q Consensus        33 ~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~  112 (333)
                      ..++++++|++++| .+..++ +++.+++|++|++++|....     ...+..+++|+.|.+........      ..+.
T Consensus        37 ~~l~~l~~L~l~~~-~i~~l~-~l~~l~nL~~L~Ls~N~l~~-----~~~l~~l~~L~~L~l~~n~~~~~------~~l~  103 (199)
T d2omxa2          37 TDLDQVTTLQADRL-GIKSID-GVEYLNNLTQINFSNNQLTD-----ITPLKNLTKLVDILMNNNQIADI------TPLA  103 (199)
T ss_dssp             HHHTTCCEEECTTS-CCCCCT-TGGGCTTCCEEECCSSCCCC-----CGGGTTCTTCCEEECCSSCCCCC------GGGT
T ss_pred             HHhcCCCEEECCCC-CCCCcc-ccccCCCcCcCccccccccC-----cccccCCcccccccccccccccc------cccc
Confidence            34566666666666 444442 35666666666666665432     22355666666666654322111      1355


Q ss_pred             ccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecC
Q 044247          113 KKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFEC  192 (333)
Q Consensus       113 ~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  192 (333)
                      .++.|+.++++++...                  . ...+..+++|+.|++++|....  +  ..+..+++|+.|++.+|
T Consensus       104 ~l~~L~~L~l~~~~~~------------------~-~~~~~~l~~L~~L~l~~n~l~~--~--~~l~~~~~L~~L~l~~n  160 (199)
T d2omxa2         104 NLTNLTGLTLFNNQIT------------------D-IDPLKNLTNLNRLELSSNTISD--I--SALSGLTSLQQLNFSSN  160 (199)
T ss_dssp             TCTTCSEEECCSSCCC------------------C-CGGGTTCTTCSEEECCSSCCCC--C--GGGTTCTTCSEEECCSS
T ss_pred             cccccccccccccccc------------------c-ccccchhhhhHHhhhhhhhhcc--c--ccccccccccccccccc
Confidence            6677888887776421                  1 2345667888888888877665  3  35677888889888887


Q ss_pred             CCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEE
Q 044247          193 RNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRL  246 (333)
Q Consensus       193 ~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L  246 (333)
                       .+.++++++++++|++|++++|+ ++.++.             +..+++|++|
T Consensus       161 -~l~~l~~l~~l~~L~~L~ls~N~-i~~i~~-------------l~~L~~L~~L  199 (199)
T d2omxa2         161 -QVTDLKPLANLTTLERLDISSNK-VSDISV-------------LAKLTNLESL  199 (199)
T ss_dssp             -CCCCCGGGTTCTTCCEEECCSSC-CCCCGG-------------GGGCTTCSEE
T ss_pred             -cccCCccccCCCCCCEEECCCCC-CCCCcc-------------ccCCCCCCcC
Confidence             56677778888889999998886 666542             5677788765

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.57  E-value=9.7e-15  Score=118.12  Aligned_cols=166  Identities=20%  Similarity=0.265  Sum_probs=111.1

Q ss_pred             ccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCceeEecCCCCCCChhhHHHHhhcc
Q 044247           34 KLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEK  113 (333)
Q Consensus        34 ~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~  113 (333)
                      .+.+|++|++++| .+..++ +++.+++|++|++++|....     ...+..+++|+.|++... .+...     ..+..
T Consensus        44 ~L~~L~~L~l~~~-~i~~l~-~l~~l~~L~~L~L~~n~i~~-----l~~~~~l~~L~~L~l~~n-~i~~l-----~~l~~  110 (210)
T d1h6ta2          44 ELNSIDQIIANNS-DIKSVQ-GIQYLPNVTKLFLNGNKLTD-----IKPLANLKNLGWLFLDEN-KVKDL-----SSLKD  110 (210)
T ss_dssp             HHHTCCEEECTTS-CCCCCT-TGGGCTTCCEEECCSSCCCC-----CGGGTTCTTCCEEECCSS-CCCCG-----GGGTT
T ss_pred             HhcCccEEECcCC-CCCCch-hHhhCCCCCEEeCCCccccC-----ccccccCccccccccccc-ccccc-----ccccc
Confidence            4566777777766 444443 36667777777776665542     223556666777666542 22221     13556


Q ss_pred             cCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCC
Q 044247          114 KKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECR  193 (333)
Q Consensus       114 ~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  193 (333)
                      +++|+.|++.++.+                  .. ...+..+++++.++++++....    ...+..+++|+.+++++| 
T Consensus       111 l~~L~~L~l~~~~~------------------~~-~~~l~~l~~l~~l~~~~n~l~~----~~~~~~l~~L~~l~l~~n-  166 (210)
T d1h6ta2         111 LKKLKSLSLEHNGI------------------SD-INGLVHLPQLESLYLGNNKITD----ITVLSRLTKLDTLSLEDN-  166 (210)
T ss_dssp             CTTCCEEECTTSCC------------------CC-CGGGGGCTTCCEEECCSSCCCC----CGGGGGCTTCSEEECCSS-
T ss_pred             cccccccccccccc------------------cc-cccccccccccccccccccccc----cccccccccccccccccc-
Confidence            77888888877742                  11 2345566788888888877665    455677889999999988 


Q ss_pred             CCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeecc
Q 044247          194 NCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWS  250 (333)
Q Consensus       194 ~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~  250 (333)
                      .+..+++++.+++|+.|++++|. ++.++.             +..+++|+.|++++
T Consensus       167 ~l~~i~~l~~l~~L~~L~Ls~N~-i~~l~~-------------l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         167 QISDIVPLAGLTKLQNLYLSKNH-ISDLRA-------------LAGLKNLDVLELFS  209 (210)
T ss_dssp             CCCCCGGGTTCTTCCEEECCSSC-CCBCGG-------------GTTCTTCSEEEEEE
T ss_pred             cccccccccCCCCCCEEECCCCC-CCCChh-------------hcCCCCCCEEEccC
Confidence            45667778888999999999886 666542             56888999998864

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.55  E-value=2.8e-14  Score=114.36  Aligned_cols=150  Identities=20%  Similarity=0.244  Sum_probs=70.7

Q ss_pred             ccccCceeeeEEEcCccCCCCCccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcc
Q 044247           58 ELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGR  137 (333)
Q Consensus        58 ~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~  137 (333)
                      .+.++++|++.++....     ..++..+++|+.|++.+. .+...     ..+..+++|++|++++|.+          
T Consensus        38 ~l~~l~~L~l~~~~i~~-----l~~l~~l~nL~~L~Ls~N-~l~~~-----~~l~~l~~L~~L~l~~n~~----------   96 (199)
T d2omxa2          38 DLDQVTTLQADRLGIKS-----IDGVEYLNNLTQINFSNN-QLTDI-----TPLKNLTKLVDILMNNNQI----------   96 (199)
T ss_dssp             HHTTCCEEECTTSCCCC-----CTTGGGCTTCCEEECCSS-CCCCC-----GGGTTCTTCCEEECCSSCC----------
T ss_pred             HhcCCCEEECCCCCCCC-----ccccccCCCcCcCccccc-cccCc-----ccccCCccccccccccccc----------
Confidence            44555555555544331     233445555555555442 12221     1244555555555555521          


Q ss_pred             cCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccc
Q 044247          138 RENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKS  217 (333)
Q Consensus       138 ~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~  217 (333)
                              ..+ ..+..+++|+.|+++++....    ...+..+++|+.|++++| .+..++.+..+++|+.|++.+|. 
T Consensus        97 --------~~~-~~l~~l~~L~~L~l~~~~~~~----~~~~~~l~~L~~L~l~~n-~l~~~~~l~~~~~L~~L~l~~n~-  161 (199)
T d2omxa2          97 --------ADI-TPLANLTNLTGLTLFNNQITD----IDPLKNLTNLNRLELSSN-TISDISALSGLTSLQQLNFSSNQ-  161 (199)
T ss_dssp             --------CCC-GGGTTCTTCSEEECCSSCCCC----CGGGTTCTTCSEEECCSS-CCCCCGGGTTCTTCSEEECCSSC-
T ss_pred             --------ccc-ccccccccccccccccccccc----ccccchhhhhHHhhhhhh-hhccccccccccccccccccccc-
Confidence                    111 124445555555555554444    233445555555555555 23344445555555555555554 


Q ss_pred             cccccccccCCCCCCCCCccccCCCccEEeeccCcccccc
Q 044247          218 VKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEW  257 (333)
Q Consensus       218 l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~  257 (333)
                      ++.++.             ++.+++|++|+++++ +++++
T Consensus       162 l~~l~~-------------l~~l~~L~~L~ls~N-~i~~i  187 (199)
T d2omxa2         162 VTDLKP-------------LANLTTLERLDISSN-KVSDI  187 (199)
T ss_dssp             CCCCGG-------------GTTCTTCCEEECCSS-CCCCC
T ss_pred             ccCCcc-------------ccCCCCCCEEECCCC-CCCCC
Confidence            333321             345555555555554 34444

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.53  E-value=7.5e-14  Score=115.28  Aligned_cols=103  Identities=14%  Similarity=0.080  Sum_probs=44.6

Q ss_pred             cEEeecCCCcccccCccccccccccEEecCCCCCcccccc-cccccccCceeeeEEEcCccCCCCCccccccCccCceeE
Q 044247           15 ERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPV-GIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCS   93 (333)
Q Consensus        15 ~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~-~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~   93 (333)
                      ++++..+.. +..+|..+.  +++++|++++| .+..+|. .+.++++|++|++.+|....  ......+..++.++.+.
T Consensus        11 ~~i~c~~~~-l~~iP~~l~--~~l~~L~Ls~n-~i~~l~~~~f~~l~~L~~L~ls~n~~~~--~i~~~~f~~l~~l~~l~   84 (242)
T d1xwdc1          11 RVFLCQESK-VTEIPSDLP--RNAIELRFVLT-KLRVIQKGAFSGFGDLEKIEISQNDVLE--VIEADVFSNLPKLHEIR   84 (242)
T ss_dssp             SEEEEESCS-CSSCCSCSC--SCCSEEEEESC-CCCEECTTTTTTCTTCCEEEEESCTTCC--EECSSSEESCTTCCEEE
T ss_pred             CEEEEeCCC-CCCcCCCCC--CCCCEEECcCC-cCCccChhHhhccchhhhhhhccccccc--eeecccccccccccccc
Confidence            344444443 445554332  34555555555 3444443 24555555555555554432  11122233444444443


Q ss_pred             ecCCCCCCChhhHHHHhhcccCCccceEEeecC
Q 044247           94 IDGLGGVSDAGEARRAELEKKKNLFDLELDFDN  126 (333)
Q Consensus        94 l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~  126 (333)
                      +.....+...   ....+.++++|+++.+.++.
T Consensus        85 ~~~~n~l~~~---~~~~~~~l~~L~~l~l~~~~  114 (242)
T d1xwdc1          85 IEKANNLLYI---NPEAFQNLPNLQYLLISNTG  114 (242)
T ss_dssp             EECCTTCCEE---CTTSEECCTTCCEEEEESCC
T ss_pred             cccccccccc---ccccccccccccccccchhh
Confidence            3222111110   01234555666666666553

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.52  E-value=4.5e-14  Score=114.14  Aligned_cols=167  Identities=20%  Similarity=0.195  Sum_probs=104.9

Q ss_pred             cccccCceeeeEEEcCccCCCCCccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhc
Q 044247           57 GELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAG  136 (333)
Q Consensus        57 ~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~  136 (333)
                      ..+.+|++|++.++....     ..++..+++|+.|++.... +...     ..+..+++|++|++++|.+         
T Consensus        43 ~~L~~L~~L~l~~~~i~~-----l~~l~~l~~L~~L~L~~n~-i~~l-----~~~~~l~~L~~L~l~~n~i---------  102 (210)
T d1h6ta2          43 NELNSIDQIIANNSDIKS-----VQGIQYLPNVTKLFLNGNK-LTDI-----KPLANLKNLGWLFLDENKV---------  102 (210)
T ss_dssp             HHHHTCCEEECTTSCCCC-----CTTGGGCTTCCEEECCSSC-CCCC-----GGGTTCTTCCEEECCSSCC---------
T ss_pred             HHhcCccEEECcCCCCCC-----chhHhhCCCCCEEeCCCcc-ccCc-----cccccCccccccccccccc---------
Confidence            346677777777665542     2346677777777776532 2221     1245667778888777743         


Q ss_pred             ccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceeccccc
Q 044247          137 RRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMK  216 (333)
Q Consensus       137 ~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~  216 (333)
                               ..+ ..+..+++|+.|+++++....  +  ..+..+++++.+++++| .+.+.+..+.+++|+.+++++|.
T Consensus       103 ---------~~l-~~l~~l~~L~~L~l~~~~~~~--~--~~l~~l~~l~~l~~~~n-~l~~~~~~~~l~~L~~l~l~~n~  167 (210)
T d1h6ta2         103 ---------KDL-SSLKDLKKLKSLSLEHNGISD--I--NGLVHLPQLESLYLGNN-KITDITVLSRLTKLDTLSLEDNQ  167 (210)
T ss_dssp             ---------CCG-GGGTTCTTCCEEECTTSCCCC--C--GGGGGCTTCCEEECCSS-CCCCCGGGGGCTTCSEEECCSSC
T ss_pred             ---------ccc-ccccccccccccccccccccc--c--ccccccccccccccccc-ccccccccccccccccccccccc
Confidence                     222 245667778888877777665  3  34666777888887776 44555556667778888887776


Q ss_pred             ccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEeccc
Q 044247          217 SVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQS  280 (333)
Q Consensus       217 ~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~  280 (333)
                       +..++.             +..+++|++|+++++ .+++++.-       ..+++|+.|++++
T Consensus       168 -l~~i~~-------------l~~l~~L~~L~Ls~N-~i~~l~~l-------~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         168 -ISDIVP-------------LAGLTKLQNLYLSKN-HISDLRAL-------AGLKNLDVLELFS  209 (210)
T ss_dssp             -CCCCGG-------------GTTCTTCCEEECCSS-CCCBCGGG-------TTCTTCSEEEEEE
T ss_pred             -cccccc-------------ccCCCCCCEEECCCC-CCCCChhh-------cCCCCCCEEEccC
Confidence             444422             456777888888775 56665421       1567788877764

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.52  E-value=4.2e-15  Score=126.04  Aligned_cols=187  Identities=19%  Similarity=0.140  Sum_probs=87.0

Q ss_pred             cccccCceeeeEEEcCccCCCCCccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhc
Q 044247           57 GELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAG  136 (333)
Q Consensus        57 ~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~  136 (333)
                      ....+|++|+++++....  .....-+.++++|++|.+.++. +   .+.....+..+++|++|++++|.-    .    
T Consensus        43 ~~~~~L~~LdLs~~~i~~--~~l~~l~~~c~~L~~L~L~~~~-l---~~~~~~~l~~~~~L~~L~Ls~c~~----i----  108 (284)
T d2astb2          43 FSPFRVQHMDLSNSVIEV--STLHGILSQCSKLQNLSLEGLR-L---SDPIVNTLAKNSNLVRLNLSGCSG----F----  108 (284)
T ss_dssp             CCCBCCCEEECTTCEECH--HHHHHHHTTBCCCSEEECTTCB-C---CHHHHHHHTTCTTCSEEECTTCBS----C----
T ss_pred             ccCCCCCEEECCCCccCH--HHHHHHHHhCCCcccccccccC-C---CcHHHHHHhcCCCCcCcccccccc----c----
Confidence            344567777766554332  1122234555666666665542 1   122333455566666666665420    0    


Q ss_pred             ccCCcccccccccccCCCCCCccEEEEeeecCCCC-ccCchhhh-cCCCccEEEeecCC-CCCC--CCC-CCCCccccce
Q 044247          137 RRENEEDEDERLLDALGPPPNLKELHIHEYRGRRN-VVPKNWVM-SLTNLRVLHLFECR-NCEH--LPP-LGKLTSLEDL  210 (333)
Q Consensus       137 ~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~-~~~~~~~~-~~~~L~~L~l~~~~-~~~~--l~~-~~~l~~L~~L  210 (333)
                             ....+......+++|++|++++|..... .+ ...+. .+++|+.|++++|. .+++  +.. ...+++|++|
T Consensus       109 -------td~~l~~l~~~~~~L~~L~ls~c~~~~~~~~-~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L  180 (284)
T d2astb2         109 -------SEFALQTLLSSCSRLDELNLSWCFDFTEKHV-QVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHL  180 (284)
T ss_dssp             -------CHHHHHHHHHHCTTCCEEECCCCTTCCHHHH-HHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEE
T ss_pred             -------cccccchhhHHHHhccccccccccccccccc-hhhhcccccccchhhhccccccccccccccccccccccccc
Confidence                   0011111123456666666666544330 01 11111 24566666666552 1221  111 2345666666


Q ss_pred             ecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccC
Q 044247          211 YIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSC  281 (333)
Q Consensus       211 ~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c  281 (333)
                      ++++|..++.-.   +..        +..+++|++|++++|.++.+-.+     ..+..+|+|++|++.+|
T Consensus       181 ~L~~~~~itd~~---~~~--------l~~~~~L~~L~L~~C~~i~~~~l-----~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         181 DLSDSVMLKNDC---FQE--------FFQLNYLQHLSLSRCYDIIPETL-----LELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             ECTTCTTCCGGG---GGG--------GGGCTTCCEEECTTCTTCCGGGG-----GGGGGCTTCCEEECTTS
T ss_pred             ccccccCCCchh---hhh--------hcccCcCCEEECCCCCCCChHHH-----HHHhcCCCCCEEeeeCC
Confidence            666655443221   111        34566666666666655433221     11235566666666665

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=5.9e-15  Score=125.09  Aligned_cols=214  Identities=16%  Similarity=0.140  Sum_probs=132.7

Q ss_pred             ccccccccEEecCCCCCccc-ccccccccccCceeeeEEEcCccCCCCCccccccCccCceeEecCCCCCCChhhHHHHh
Q 044247           32 IGKLRKLMYLDNDYTDSLRY-LPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQCSIDGLGGVSDAGEARRAE  110 (333)
Q Consensus        32 i~~l~~L~~L~l~~~~~~~~-~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~  110 (333)
                      .....+|++|++++|..... +...+..+++|++|++.+|...   ...+..+..+++|+.|++.++..+.+  ..+...
T Consensus        42 ~~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~---~~~~~~l~~~~~L~~L~Ls~c~~itd--~~l~~l  116 (284)
T d2astb2          42 HFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLS---DPIVNTLAKNSNLVRLNLSGCSGFSE--FALQTL  116 (284)
T ss_dssp             CCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCC---HHHHHHHTTCTTCSEEECTTCBSCCH--HHHHHH
T ss_pred             hccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCC---cHHHHHHhcCCCCcCccccccccccc--cccchh
Confidence            34556788888887732222 3333567788888888777543   33455667778888888877666543  334444


Q ss_pred             hcccCCccceEEeecCCCCCchhhhcccCCcccccccccccC-CCCCCccEEEEeeecC-CC-CccCchhhhcCCCccEE
Q 044247          111 LEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDAL-GPPPNLKELHIHEYRG-RR-NVVPKNWVMSLTNLRVL  187 (333)
Q Consensus       111 l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l-~~~~~L~~L~l~~~~~-~~-~~~~~~~~~~~~~L~~L  187 (333)
                      ...+++|++|++++|.-.               ........+ ..+++|+.|+++++.. .. ..+ ......+++|++|
T Consensus       117 ~~~~~~L~~L~ls~c~~~---------------~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l-~~l~~~~~~L~~L  180 (284)
T d2astb2         117 LSSCSRLDELNLSWCFDF---------------TEKHVQVAVAHVSETITQLNLSGYRKNLQKSDL-STLVRRCPNLVHL  180 (284)
T ss_dssp             HHHCTTCCEEECCCCTTC---------------CHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHH-HHHHHHCTTCSEE
T ss_pred             hHHHHhcccccccccccc---------------ccccchhhhcccccccchhhhcccccccccccc-ccccccccccccc
Confidence            567889999999887310               111111222 2347899999987532 22 012 2233478999999


Q ss_pred             EeecCCCCCC--CCCCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCcccc
Q 044247          188 HLFECRNCEH--LPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKG  265 (333)
Q Consensus       188 ~l~~~~~~~~--l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~  265 (333)
                      ++++|..+++  +..++.+++|++|++++|..+..-.   +..        ++.+|+|+.|++.+|-.-..+..-..   
T Consensus       181 ~L~~~~~itd~~~~~l~~~~~L~~L~L~~C~~i~~~~---l~~--------L~~~~~L~~L~l~~~~~d~~l~~l~~---  246 (284)
T d2astb2         181 DLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPET---LLE--------LGEIPTLKTLQVFGIVPDGTLQLLKE---  246 (284)
T ss_dssp             ECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGG---GGG--------GGGCTTCCEEECTTSSCTTCHHHHHH---
T ss_pred             ccccccCCCchhhhhhcccCcCCEEECCCCCCCChHH---HHH--------HhcCCCCCEEeeeCCCCHHHHHHHHH---
Confidence            9999866653  3447788999999999987664322   111        56789999999998733222322212   


Q ss_pred             ccccCCCcceEecccCcCcccC
Q 044247          266 EIIIMPRLSSLSIQSCRELKAL  287 (333)
Q Consensus       266 ~~~~~~~L~~L~l~~c~~l~~l  287 (333)
                         .+|+|+.    +|..++.+
T Consensus       247 ---~lp~L~i----~~~~ls~~  261 (284)
T d2astb2         247 ---ALPHLQI----NCSHFTTI  261 (284)
T ss_dssp             ---HSTTSEE----SCCCSCCT
T ss_pred             ---hCccccc----cCccCCCC
Confidence               4677663    45666543

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=1.2e-12  Score=107.83  Aligned_cols=189  Identities=16%  Similarity=0.141  Sum_probs=106.5

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccCc-cccccccccEEecCCCCCcccccc-cccccccCceeeeEEEcCccCCCC
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELPQ-GIGKLRKLMYLDNDYTDSLRYLPV-GIGELIRLRRVTKFVVCGGYDRAC   78 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~l~~~~~~~~~p~-~i~~l~~L~~L~l~~~~~~~~~~~   78 (333)
                      ++.+|..+.  +++++|++++|. +..+|. .+.++++|++|++++|.....++. .+..+++++++.+..+....  ..
T Consensus        20 l~~iP~~l~--~~l~~L~Ls~n~-i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~--~~   94 (242)
T d1xwdc1          20 VTEIPSDLP--RNAIELRFVLTK-LRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLL--YI   94 (242)
T ss_dssp             CSSCCSCSC--SCCSEEEEESCC-CCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCC--EE
T ss_pred             CCCcCCCCC--CCCCEEECcCCc-CCccChhHhhccchhhhhhhccccccceeecccccccccccccccccccccc--cc
Confidence            356776654  578888888887 666665 477888888888888855444443 36678888888776544332  33


Q ss_pred             CccccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEE---eecCCCCCchhhhcccCCcccccccc-cccCCC
Q 044247           79 SLGSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLEL---DFDNLRDGDEEQAGRRENEEDEDERL-LDALGP  154 (333)
Q Consensus        79 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l---~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~l~~  154 (333)
                      ....+..+++|+.+.+....- ...     .....+..++.+..   ..+.                  ...+ ...+..
T Consensus        95 ~~~~~~~l~~L~~l~l~~~~l-~~~-----~~~~~~~~l~~l~~~~~~n~~------------------l~~i~~~~~~~  150 (242)
T d1xwdc1          95 NPEAFQNLPNLQYLLISNTGI-KHL-----PDVHKIHSLQKVLLDIQDNIN------------------IHTIERNSFVG  150 (242)
T ss_dssp             CTTSEECCTTCCEEEEESCCC-CSC-----CCCTTTCBSSCEEEEEESCTT------------------CCEECTTSSTT
T ss_pred             ccccccccccccccccchhhh-ccc-----ccccccccccccccccccccc------------------ccccccccccc
Confidence            445567778888877765321 111     01222333443332   2221                  1111 122333


Q ss_pred             C-CCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceeccccccccccc
Q 044247          155 P-PNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVG  222 (333)
Q Consensus       155 ~-~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~  222 (333)
                      + ..++.++++++....  + +.......++..+...++..++.++.  +.++++|++|++++|. ++.++
T Consensus       151 ~~~~l~~L~l~~n~l~~--i-~~~~~~~~~l~~~~~l~~n~l~~l~~~~f~~l~~L~~L~Ls~N~-l~~l~  217 (242)
T d1xwdc1         151 LSFESVILWLNKNGIQE--I-HNCAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTR-IHSLP  217 (242)
T ss_dssp             SBSSCEEEECCSSCCCE--E-CTTTTTTCCEEEEECTTCTTCCCCCTTTTTTSCCCSEEECTTSC-CCCCC
T ss_pred             ccccceeeecccccccc--c-ccccccchhhhccccccccccccccHHHhcCCCCCCEEECCCCc-CCccC
Confidence            2 356666666665554  4 33333345555554444445555554  5666777777776665 55554

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.40  E-value=1.8e-11  Score=105.90  Aligned_cols=267  Identities=21%  Similarity=0.149  Sum_probs=129.8

Q ss_pred             CcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCcc
Q 044247            2 EKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLG   81 (333)
Q Consensus         2 ~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~   81 (333)
                      +.+|+.   .++|++|++++|. +..+|..+   .+|+.|++.+| .+..++. +  .+.|++|++++|....     .+
T Consensus        51 ~~lp~~---~~~L~~L~Ls~N~-l~~lp~~~---~~L~~L~l~~n-~l~~l~~-l--p~~L~~L~L~~n~l~~-----lp  114 (353)
T d1jl5a_          51 SSLPEL---PPHLESLVASCNS-LTELPELP---QSLKSLLVDNN-NLKALSD-L--PPLLEYLGVSNNQLEK-----LP  114 (353)
T ss_dssp             SCCCSC---CTTCSEEECCSSC-CSSCCCCC---TTCCEEECCSS-CCSCCCS-C--CTTCCEEECCSSCCSS-----CC
T ss_pred             CCCCCC---CCCCCEEECCCCC-Ccccccch---hhhhhhhhhhc-ccchhhh-h--cccccccccccccccc-----cc
Confidence            455643   3567777777776 66666543   35666666666 3344432 1  1357777777766543     22


Q ss_pred             ccccCccCceeEecCCCCC--CChh------------hHHHHhhcccCCccceEEeecCCCCCchhhhc---ccCCcccc
Q 044247           82 SLKKLNLLRQCSIDGLGGV--SDAG------------EARRAELEKKKNLFDLELDFDNLRDGDEEQAG---RRENEEDE  144 (333)
Q Consensus        82 ~l~~l~~L~~L~l~~~~~~--~~~~------------~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~---~~~~~~~~  144 (333)
                      ....+++|+.+.+......  +...            ......+..++.++.+.+..+...........   ....+  .
T Consensus       115 ~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~l~~l~~l~~L~l~~n~~~~~~~~~~~~~~l~~~~--~  192 (353)
T d1jl5a_         115 ELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGN--N  192 (353)
T ss_dssp             CCTTCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCSSCCCCCTTCCEEECCS--S
T ss_pred             chhhhccceeeccccccccccccccccccchhhccccccccccccccccceeccccccccccccccccccccccccc--c
Confidence            3456677777766432211  1000            00001233455666666665543211100000   00000  0


Q ss_pred             cccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceeccccc--cccccc
Q 044247          145 DERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMK--SVKRVG  222 (333)
Q Consensus       145 ~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~--~l~~i~  222 (333)
                      .......+..++.|+.++++++....  + +.   ...++..+.+.++.... .+.  ..+.+...++..+.  .+..++
T Consensus       193 ~~~~~~~~~~l~~L~~l~l~~n~~~~--~-~~---~~~~l~~~~~~~~~~~~-~~~--~~~~l~~~~~~~~~~~~l~~l~  263 (353)
T d1jl5a_         193 ILEELPELQNLPFLTTIYADNNLLKT--L-PD---LPPSLEALNVRDNYLTD-LPE--LPQSLTFLDVSENIFSGLSELP  263 (353)
T ss_dssp             CCSSCCCCTTCTTCCEEECCSSCCSS--C-CS---CCTTCCEEECCSSCCSC-CCC--CCTTCCEEECCSSCCSEESCCC
T ss_pred             cccccccccccccccccccccccccc--c-cc---ccccccccccccccccc-ccc--cccccccccccccccccccccc
Confidence            00112233455677777777665554  3 32   24556666666653222 111  11222222222211  111111


Q ss_pred             ccccCC-CCCCC-CCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceE
Q 044247          223 NEFLGV-ESDTD-GSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNL  300 (333)
Q Consensus       223 ~~~~~~-~~~~~-~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L  300 (333)
                      ...... ..... ......+++|++|++++| +++.++      +   .+++|+.|++++| .++.+|..   +++|+.|
T Consensus       264 ~~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~N-~l~~lp------~---~~~~L~~L~L~~N-~L~~l~~~---~~~L~~L  329 (353)
T d1jl5a_         264 PNLYYLNASSNEIRSLCDLPPSLEELNVSNN-KLIELP------A---LPPRLERLIASFN-HLAEVPEL---PQNLKQL  329 (353)
T ss_dssp             TTCCEEECCSSCCSEECCCCTTCCEEECCSS-CCSCCC------C---CCTTCCEEECCSS-CCSCCCCC---CTTCCEE
T ss_pred             chhcccccccCccccccccCCCCCEEECCCC-ccCccc------c---ccCCCCEEECCCC-cCCccccc---cCCCCEE
Confidence            100000 00000 001234678999999986 455443      1   4689999999875 57788764   5789999


Q ss_pred             EEcccChhhHh
Q 044247          301 EIWGACHILQE  311 (333)
Q Consensus       301 ~l~~~c~~l~~  311 (333)
                      ++ ++|+ ++.
T Consensus       330 ~L-~~N~-L~~  338 (353)
T d1jl5a_         330 HV-EYNP-LRE  338 (353)
T ss_dssp             EC-CSSC-CSS
T ss_pred             EC-cCCc-CCC
Confidence            99 8887 543

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.27  E-value=1.7e-10  Score=99.63  Aligned_cols=262  Identities=19%  Similarity=0.131  Sum_probs=137.3

Q ss_pred             CcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCccccccCccCce
Q 044247           12 YNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSLGSLKKLNLLRQ   91 (333)
Q Consensus        12 ~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~~   91 (333)
                      .++++|++++++ +..+|+.   +++|++|++++| .++.+|..   +.+|++|++.++....     ...+.  +.|++
T Consensus        38 ~~l~~LdLs~~~-L~~lp~~---~~~L~~L~Ls~N-~l~~lp~~---~~~L~~L~l~~n~l~~-----l~~lp--~~L~~  102 (353)
T d1jl5a_          38 RQAHELELNNLG-LSSLPEL---PPHLESLVASCN-SLTELPEL---PQSLKSLLVDNNNLKA-----LSDLP--PLLEY  102 (353)
T ss_dssp             HTCSEEECTTSC-CSCCCSC---CTTCSEEECCSS-CCSSCCCC---CTTCCEEECCSSCCSC-----CCSCC--TTCCE
T ss_pred             cCCCEEEeCCCC-CCCCCCC---CCCCCEEECCCC-CCcccccc---hhhhhhhhhhhcccch-----hhhhc--ccccc
Confidence            468999999998 8889863   578999999988 77888865   4678999888876653     11221  35777


Q ss_pred             eEecCCCCCCChhhHHHHhhcccCCccceEEeecCCCCCchhhhcccCC-cccccccccccCCCCCCccEEEEeeecCCC
Q 044247           92 CSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDNLRDGDEEQAGRREN-EEDEDERLLDALGPPPNLKELHIHEYRGRR  170 (333)
Q Consensus        92 L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~  170 (333)
                      |++.... +....     .+..+++|+.|++.++.+............. ...........+..++.++.+.++++....
T Consensus       103 L~L~~n~-l~~lp-----~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~l~~l~~l~~L~l~~n~~~~  176 (353)
T d1jl5a_         103 LGVSNNQ-LEKLP-----ELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKK  176 (353)
T ss_dssp             EECCSSC-CSSCC-----CCTTCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCSS
T ss_pred             ccccccc-ccccc-----chhhhccceeeccccccccccccccccccchhhccccccccccccccccceecccccccccc
Confidence            7776432 22211     2456789999999887543211100000000 000001112233445666666666554443


Q ss_pred             CccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCC--CCC---CCccccCCCccE
Q 044247          171 NVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVES--DTD---GSSVIAFPKLKR  245 (333)
Q Consensus       171 ~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~--~~~---~~~~~~l~~L~~  245 (333)
                        . +..   ....+.+....+ ....++....++.|+.+++++|. ...++........  ...   .......+.+..
T Consensus       177 --~-~~~---~~~~~~l~~~~~-~~~~~~~~~~l~~L~~l~l~~n~-~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~  248 (353)
T d1jl5a_         177 --L-PDL---PLSLESIVAGNN-ILEELPELQNLPFLTTIYADNNL-LKTLPDLPPSLEALNVRDNYLTDLPELPQSLTF  248 (353)
T ss_dssp             --C-CCC---CTTCCEEECCSS-CCSSCCCCTTCTTCCEEECCSSC-CSSCCSCCTTCCEEECCSSCCSCCCCCCTTCCE
T ss_pred             --c-ccc---cccccccccccc-ccccccccccccccccccccccc-ccccccccccccccccccccccccccccccccc
Confidence              2 211   112233333322 33444555666777777777665 2222211100000  000   000111223333


Q ss_pred             EeeccC--ccccccc--------cCCccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccCh
Q 044247          246 LRFWSM--SELEEWD--------LGTAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       246 L~l~~~--~~L~~~~--------~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                      .++...  .++..++        ....++.....+++|++|++++| .++.+|..   +++|+.|++ .+|.
T Consensus       249 ~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~N-~l~~lp~~---~~~L~~L~L-~~N~  315 (353)
T d1jl5a_         249 LDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNN-KLIELPAL---PPRLERLIA-SFNH  315 (353)
T ss_dssp             EECCSSCCSEESCCCTTCCEEECCSSCCSEECCCCTTCCEEECCSS-CCSCCCCC---CTTCCEEEC-CSSC
T ss_pred             cccccccccccccccchhcccccccCccccccccCCCCCEEECCCC-ccCccccc---cCCCCEEEC-CCCc
Confidence            333221  1222221        11112233345789999999986 57788754   789999999 8774

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.24  E-value=5e-12  Score=97.30  Aligned_cols=129  Identities=16%  Similarity=0.219  Sum_probs=100.9

Q ss_pred             CCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCC
Q 044247          152 LGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESD  231 (333)
Q Consensus       152 l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  231 (333)
                      +.++.+++.|++++|....  + +..+..+++|+.|++++| .+..++.+..+++|++|++++|. ++.++...      
T Consensus        14 ~~n~~~lr~L~L~~n~I~~--i-~~~~~~l~~L~~L~Ls~N-~i~~l~~~~~l~~L~~L~ls~N~-i~~l~~~~------   82 (162)
T d1a9na_          14 YTNAVRDRELDLRGYKIPV--I-ENLGATLDQFDAIDFSDN-EIRKLDGFPLLRRLKTLLVNNNR-ICRIGEGL------   82 (162)
T ss_dssp             EECTTSCEEEECTTSCCCS--C-CCGGGGTTCCSEEECCSS-CCCEECCCCCCSSCCEEECCSSC-CCEECSCH------
T ss_pred             ccCcCcCcEEECCCCCCCc--c-CccccccccCCEEECCCC-CCCccCCcccCcchhhhhccccc-ccCCCccc------
Confidence            4566789999999999888  7 766678999999999999 56777888899999999999998 77776542      


Q ss_pred             CCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCc----ccCCCCCcceEEE
Q 044247          232 TDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPD----HLLQKSTLQNLEI  302 (333)
Q Consensus       232 ~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~----~~~~l~~L~~L~l  302 (333)
                           ...+++|+.|+++++ .+.+++.-    ..+..+++|++|++++|+ +...+.    .+..+|+|+.|+-
T Consensus        83 -----~~~l~~L~~L~L~~N-~i~~~~~l----~~l~~l~~L~~L~l~~N~-i~~~~~~r~~~i~~lp~L~~LD~  146 (162)
T d1a9na_          83 -----DQALPDLTELILTNN-SLVELGDL----DPLASLKSLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLDF  146 (162)
T ss_dssp             -----HHHCTTCCEEECCSC-CCCCGGGG----GGGGGCTTCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEETT
T ss_pred             -----cccccccccceeccc-cccccccc----cccccccccchhhcCCCc-cccccchHHHHHHHCCCcCeeCC
Confidence                 357899999999996 45554311    124578999999999975 444443    3556899998876

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.15  E-value=5.3e-11  Score=87.08  Aligned_cols=61  Identities=20%  Similarity=0.248  Sum_probs=35.7

Q ss_pred             CCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCCCCCCccccceeccccc
Q 044247          152 LGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMK  216 (333)
Q Consensus       152 l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~  216 (333)
                      +..+++|++|++++|....  + |..+..+++|+.|++++| .++.++.++.+++|++|++++|.
T Consensus        16 l~~l~~L~~L~ls~N~l~~--l-p~~~~~l~~L~~L~l~~N-~i~~l~~~~~l~~L~~L~l~~N~   76 (124)
T d1dcea3          16 LEQLLLVTHLDLSHNRLRA--L-PPALAALRCLEVLQASDN-ALENVDGVANLPRLQELLLCNNR   76 (124)
T ss_dssp             GGGGTTCCEEECCSSCCCC--C-CGGGGGCTTCCEEECCSS-CCCCCGGGTTCSSCCEEECCSSC
T ss_pred             cccCCCCCEEECCCCccCc--c-hhhhhhhhcccccccccc-cccccCccccccccCeEECCCCc
Confidence            4455566666666665555  5 555555666666666665 44455555556666666666655

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.11  E-value=5.8e-11  Score=91.18  Aligned_cols=63  Identities=14%  Similarity=0.075  Sum_probs=42.9

Q ss_pred             hcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCc
Q 044247            8 LCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGG   73 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~   73 (333)
                      +.++.+|++|++++|+ +..++..+..+++|+.|++++| .+..++ ++..+++|++|++++|...
T Consensus        14 ~~n~~~lr~L~L~~n~-I~~i~~~~~~l~~L~~L~Ls~N-~i~~l~-~~~~l~~L~~L~ls~N~i~   76 (162)
T d1a9na_          14 YTNAVRDRELDLRGYK-IPVIENLGATLDQFDAIDFSDN-EIRKLD-GFPLLRRLKTLLVNNNRIC   76 (162)
T ss_dssp             EECTTSCEEEECTTSC-CCSCCCGGGGTTCCSEEECCSS-CCCEEC-CCCCCSSCCEEECCSSCCC
T ss_pred             ccCcCcCcEEECCCCC-CCccCccccccccCCEEECCCC-CCCccC-CcccCcchhhhhccccccc
Confidence            4456677777777777 6666665566777777777777 455553 4667777777777766554

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.08  E-value=1.1e-10  Score=85.36  Aligned_cols=62  Identities=26%  Similarity=0.316  Sum_probs=28.2

Q ss_pred             hcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcC
Q 044247            8 LCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCG   72 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~   72 (333)
                      ++.+++|++|++++|. +..+|..++.+++|+.|++++| .++.+| +++.+++|++|++.+|..
T Consensus        16 l~~l~~L~~L~ls~N~-l~~lp~~~~~l~~L~~L~l~~N-~i~~l~-~~~~l~~L~~L~l~~N~i   77 (124)
T d1dcea3          16 LEQLLLVTHLDLSHNR-LRALPPALAALRCLEVLQASDN-ALENVD-GVANLPRLQELLLCNNRL   77 (124)
T ss_dssp             GGGGTTCCEEECCSSC-CCCCCGGGGGCTTCCEEECCSS-CCCCCG-GGTTCSSCCEEECCSSCC
T ss_pred             cccCCCCCEEECCCCc-cCcchhhhhhhhcccccccccc-cccccC-ccccccccCeEECCCCcc
Confidence            4444444444444444 4444444444444444444444 333333 244444444444444443

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=99.03  E-value=8.5e-12  Score=99.32  Aligned_cols=115  Identities=19%  Similarity=0.142  Sum_probs=88.5

Q ss_pred             CCcccchhcCCCcccEEeecCCCcccccCccccccccccEEecCCCCCcccccccccccccCceeeeEEEcCccCCCCCc
Q 044247            1 IEKLPETLCELYNLERVNVSGCSHLRELPQGIGKLRKLMYLDNDYTDSLRYLPVGIGELIRLRRVTKFVVCGGYDRACSL   80 (333)
Q Consensus         1 ~~~lp~~l~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~l~~~~~~~~~~~~~   80 (333)
                      ++.+|.+++.+++|++|++++|. +..++. +..+++|++|++++| .+..+|.....+++|++|++.+|....     .
T Consensus        37 i~~l~~sl~~L~~L~~L~Ls~n~-I~~i~~-l~~l~~L~~L~Ls~N-~i~~i~~~~~~~~~L~~L~l~~N~i~~-----l  108 (198)
T d1m9la_          37 IEKMDATLSTLKACKHLALSTNN-IEKISS-LSGMENLRILSLGRN-LIKKIENLDAVADTLEELWISYNQIAS-----L  108 (198)
T ss_dssp             CCCCHHHHHHTTTCCEEECSEEE-ESCCCC-HHHHTTCCEEECCEE-EECSCSSHHHHHHHCCEEECSEEECCC-----H
T ss_pred             hhhhhhHHhcccccceeECcccC-CCCccc-ccCCccccChhhccc-ccccccccccccccccccccccccccc-----c
Confidence            35677889999999999999998 777764 889999999999998 667777655567789999999997753     3


Q ss_pred             cccccCccCceeEecCCCCCCChhhHHHHhhcccCCccceEEeecC
Q 044247           81 GSLKKLNLLRQCSIDGLGGVSDAGEARRAELEKKKNLFDLELDFDN  126 (333)
Q Consensus        81 ~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~  126 (333)
                      ..+..+++|+.|++.... +.....  ...+..+++|++|++++|+
T Consensus       109 ~~~~~l~~L~~L~L~~N~-i~~~~~--~~~l~~l~~L~~L~L~~N~  151 (198)
T d1m9la_         109 SGIEKLVNLRVLYMSNNK-ITNWGE--IDKLAALDKLEDLLLAGNP  151 (198)
T ss_dssp             HHHHHHHHSSEEEESEEE-CCCHHH--HHHHTTTTTCSEEEECSSH
T ss_pred             ccccccccccccccccch-hccccc--cccccCCCccceeecCCCc
Confidence            567788889988876421 222221  2357788999999999884

>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=98.90  E-value=4.6e-09  Score=82.74  Aligned_cols=116  Identities=17%  Similarity=0.223  Sum_probs=79.8

Q ss_pred             ccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC-CCCCccccceeccccccccccccc
Q 044247          146 ERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP-LGKLTSLEDLYIAGMKSVKRVGNE  224 (333)
Q Consensus       146 ~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~-~~~l~~L~~L~l~~~~~l~~i~~~  224 (333)
                      ..++..+.  +++++|++++|..... +++..|..+++|+.|++++|......+. +..+++|++|++++|. ++.++..
T Consensus        21 ~~iP~~lp--~~l~~L~Ls~N~i~~~-~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~-l~~l~~~   96 (192)
T d1w8aa_          21 KEIPRDIP--LHTTELLLNDNELGRI-SSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENK-IKEISNK   96 (192)
T ss_dssp             SSCCSCCC--TTCSEEECCSCCCCSB-CCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCC-CCEECSS
T ss_pred             CccCCCCC--CCCCEEEeCCCCCccc-ccccccCCCceEeeeeccccccccccccccccccccceeeecccc-ccccCHH
Confidence            34444442  5788899988877541 2145667888999999988844333333 7778889999999887 7777655


Q ss_pred             ccCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCc
Q 044247          225 FLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCR  282 (333)
Q Consensus       225 ~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~  282 (333)
                      .           +..+++|++|+++++ +++.++.     ..+..+++|++|++++++
T Consensus        97 ~-----------F~~l~~L~~L~L~~N-~l~~i~~-----~~f~~l~~L~~l~L~~N~  137 (192)
T d1w8aa_          97 M-----------FLGLHQLKTLNLYDN-QISCVMP-----GSFEHLNSLTSLNLASNP  137 (192)
T ss_dssp             S-----------STTCTTCCEEECCSS-CCCEECT-----TSSTTCTTCCEEECTTCC
T ss_pred             H-----------HhCCCcccccccCCc-cccccCH-----HHhcCCcccccccccccc
Confidence            3           457888999998884 4554432     234567888888888754

>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=98.90  E-value=4.2e-09  Score=82.98  Aligned_cols=124  Identities=10%  Similarity=0.123  Sum_probs=91.7

Q ss_pred             cEEEEeeecCCCCccCchhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceecccccccccccccccCCCCCCCCCc
Q 044247          159 KELHIHEYRGRRNVVPKNWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSS  236 (333)
Q Consensus       159 ~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~  236 (333)
                      +.++.++....+  + |..+  .+++++|+|++|.....++.  ++.+++|+.|++++|. +..++...           
T Consensus        11 ~~v~Cs~~~L~~--i-P~~l--p~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~-i~~~~~~~-----------   73 (192)
T d1w8aa_          11 TTVDCTGRGLKE--I-PRDI--PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQ-LTGIEPNA-----------   73 (192)
T ss_dssp             TEEECTTSCCSS--C-CSCC--CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSC-CCCBCTTT-----------
T ss_pred             CEEEEeCCCcCc--c-CCCC--CCCCCEEEeCCCCCcccccccccCCCceEeeeeccccc-cccccccc-----------
Confidence            355666666666  7 6654  57899999999954333433  6889999999999988 55554432           


Q ss_pred             cccCCCccEEeeccCccccccccCCccccccccCCCcceEecccCcCcccCCc-ccCCCCCcceEEEcccCh
Q 044247          237 VIAFPKLKRLRFWSMSELEEWDLGTAIKGEIIIMPRLSSLSIQSCRELKALPD-HLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       237 ~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~-~~~~l~~L~~L~l~~~c~  307 (333)
                      +..+++|++|+++++ ++..++     +..+..+++|++|++++ +.++.++. .+..+++|+++++ .+.+
T Consensus        74 ~~~~~~L~~L~Ls~N-~l~~l~-----~~~F~~l~~L~~L~L~~-N~l~~i~~~~f~~l~~L~~l~L-~~N~  137 (192)
T d1w8aa_          74 FEGASHIQELQLGEN-KIKEIS-----NKMFLGLHQLKTLNLYD-NQISCVMPGSFEHLNSLTSLNL-ASNP  137 (192)
T ss_dssp             TTTCTTCCEEECCSC-CCCEEC-----SSSSTTCTTCCEEECCS-SCCCEECTTSSTTCTTCCEEEC-TTCC
T ss_pred             cccccccceeeeccc-cccccC-----HHHHhCCCcccccccCC-ccccccCHHHhcCCcccccccc-cccc
Confidence            567899999999995 555544     23456799999999998 56777655 5678999999999 7643

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.81  E-value=1e-10  Score=101.24  Aligned_cols=140  Identities=16%  Similarity=0.165  Sum_probs=62.2

Q ss_pred             CCCccEEEEeeecCCCCc---cCchhhhcCCCccEEEeecCCCCCC-----C-CCCCCCccccceecccccccccccccc
Q 044247          155 PPNLKELHIHEYRGRRNV---VPKNWVMSLTNLRVLHLFECRNCEH-----L-PPLGKLTSLEDLYIAGMKSVKRVGNEF  225 (333)
Q Consensus       155 ~~~L~~L~l~~~~~~~~~---~~~~~~~~~~~L~~L~l~~~~~~~~-----l-~~~~~l~~L~~L~l~~~~~l~~i~~~~  225 (333)
                      .+.|+.+.++++......   + ...+...++|+.|++++|..-..     + ..+..+++|+.|++++|. ++......
T Consensus       157 ~~~L~~l~l~~n~i~~~~~~~l-~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~-i~~~g~~~  234 (344)
T d2ca6a1         157 APPLRSIICGRNRLENGSMKEW-AKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNT-FTHLGSSA  234 (344)
T ss_dssp             CCCCCEEECCSSCCTGGGHHHH-HHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSC-CHHHHHHH
T ss_pred             Ccccceeecccccccccccccc-cchhhhhhhhcccccccccccccccccchhhhhcchhhhccccccccc-cccccccc
Confidence            345555655554332200   1 11233456666666666632110     1 114445666666666665 32211110


Q ss_pred             cCCCCCCCCCccccCCCccEEeeccCccccccccCCccccccc--cCCCcceEecccCcCccc-----CCcccC-CCCCc
Q 044247          226 LGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEII--IMPRLSSLSIQSCRELKA-----LPDHLL-QKSTL  297 (333)
Q Consensus       226 ~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~~--~~~~L~~L~l~~c~~l~~-----l~~~~~-~l~~L  297 (333)
                      ++..       +..+++|++|++++|. +.+.... .+...+.  ..++|++|++++|. ++.     +...+. ..++|
T Consensus       235 L~~~-------l~~~~~L~~L~Ls~n~-i~~~g~~-~l~~~l~~~~~~~L~~L~ls~N~-i~~~~~~~l~~~l~~~~~~L  304 (344)
T d2ca6a1         235 LAIA-------LKSWPNLRELGLNDCL-LSARGAA-AVVDAFSKLENIGLQTLRLQYNE-IELDAVRTLKTVIDEKMPDL  304 (344)
T ss_dssp             HHHH-------GGGCTTCCEEECTTCC-CCHHHHH-HHHHHHHTCSSCCCCEEECCSSC-CBHHHHHHHHHHHHHHCTTC
T ss_pred             cccc-------ccccccchhhhhhcCc-cCchhhH-HHHHHhhhccCCCCCEEECCCCc-CChHHHHHHHHHHHccCCCC
Confidence            1000       4466677777777653 3221100 0001111  23567777777654 321     222221 35677


Q ss_pred             ceEEEcccCh
Q 044247          298 QNLEIWGACH  307 (333)
Q Consensus       298 ~~L~l~~~c~  307 (333)
                      +.|++ .++.
T Consensus       305 ~~L~l-~~N~  313 (344)
T d2ca6a1         305 LFLEL-NGNR  313 (344)
T ss_dssp             CEEEC-TTSB
T ss_pred             CEEEC-CCCc
Confidence            77777 5543

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.79  E-value=2.8e-11  Score=96.23  Aligned_cols=108  Identities=23%  Similarity=0.247  Sum_probs=58.0

Q ss_pred             hhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccCchhhhcCCCccEEEe
Q 044247          110 ELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVPKNWVMSLTNLRVLHL  189 (333)
Q Consensus       110 ~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l  189 (333)
                      .+..+++|++|++++|.                  ...+ ..+..+++|+.|++++|....  + +.....+++|+.|++
T Consensus        43 sl~~L~~L~~L~Ls~n~------------------I~~i-~~l~~l~~L~~L~Ls~N~i~~--i-~~~~~~~~~L~~L~l  100 (198)
T d1m9la_          43 TLSTLKACKHLALSTNN------------------IEKI-SSLSGMENLRILSLGRNLIKK--I-ENLDAVADTLEELWI  100 (198)
T ss_dssp             HHHHTTTCCEEECSEEE------------------ESCC-CCHHHHTTCCEEECCEEEECS--C-SSHHHHHHHCCEEEC
T ss_pred             HHhcccccceeECcccC------------------CCCc-ccccCCccccChhhccccccc--c-ccccccccccccccc
Confidence            34555666666666663                  2222 234455666666666666555  4 444444556666666


Q ss_pred             ecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccC
Q 044247          190 FECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSM  251 (333)
Q Consensus       190 ~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~  251 (333)
                      ++| .++.++.+..+++|+.|++++|. ++.++.-  ..        +..+++|+.|+++++
T Consensus       101 ~~N-~i~~l~~~~~l~~L~~L~L~~N~-i~~~~~~--~~--------l~~l~~L~~L~L~~N  150 (198)
T d1m9la_         101 SYN-QIASLSGIEKLVNLRVLYMSNNK-ITNWGEI--DK--------LAALDKLEDLLLAGN  150 (198)
T ss_dssp             SEE-ECCCHHHHHHHHHSSEEEESEEE-CCCHHHH--HH--------HTTTTTCSEEEECSS
T ss_pred             ccc-cccccccccccccccccccccch-hcccccc--cc--------ccCCCccceeecCCC
Confidence            666 34444445556666666666655 3333210  00        345566666666654

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.77  E-value=2.1e-10  Score=99.20  Aligned_cols=257  Identities=18%  Similarity=0.111  Sum_probs=156.6

Q ss_pred             cccchhcCCCcccEEeecCCCcc----cccCccccccccccEEecCCCCCcc---c-------ccccccccccCceeeeE
Q 044247            3 KLPETLCELYNLERVNVSGCSHL----RELPQGIGKLRKLMYLDNDYTDSLR---Y-------LPVGIGELIRLRRVTKF   68 (333)
Q Consensus         3 ~lp~~l~~l~~L~~L~l~~~~~~----~~lp~~i~~l~~L~~L~l~~~~~~~---~-------~p~~i~~l~~L~~L~l~   68 (333)
                      .+...+.....|+.|++++|...    ..+...+...++|+.++++++....   .       +...+..+++|++|+++
T Consensus        22 ~l~~~L~~~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~  101 (344)
T d2ca6a1          22 SVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLS  101 (344)
T ss_dssp             TTSHHHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECC
T ss_pred             HHHHHHhhCCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCccccccc
Confidence            45567888999999999999732    2455557788999999998773211   1       12234567899999999


Q ss_pred             EEcCccCCC-CCccccccCccCceeEecCCCCCCCh-hhHHH---------HhhcccCCccceEEeecCCCCCchhhhcc
Q 044247           69 VVCGGYDRA-CSLGSLKKLNLLRQCSIDGLGGVSDA-GEARR---------AELEKKKNLFDLELDFDNLRDGDEEQAGR  137 (333)
Q Consensus        69 ~~~~~~~~~-~~~~~l~~l~~L~~L~l~~~~~~~~~-~~~~~---------~~l~~~~~L~~L~l~~~~~~~~~~~~~~~  137 (333)
                      +|....... .....+...++|+.|++.... +... ...+.         ......+.|+.+.+.++.+.+.       
T Consensus       102 ~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~-l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~-------  173 (344)
T d2ca6a1         102 DNAFGPTAQEPLIDFLSKHTPLEHLYLHNNG-LGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENG-------  173 (344)
T ss_dssp             SCCCCTTTHHHHHHHHHHCTTCCEEECCSSC-CHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGG-------
T ss_pred             ccccccccccchhhhhcccccchheeccccc-ccccccccccccccccccccccccCcccceeeccccccccc-------
Confidence            887653000 122345567889998887543 1111 01111         1123457899999988865332       


Q ss_pred             cCCcccccccccccCCCCCCccEEEEeeecCCCCc----cCchhhhcCCCccEEEeecCCCCCC-----CC-CCCCCccc
Q 044247          138 RENEEDEDERLLDALGPPPNLKELHIHEYRGRRNV----VPKNWVMSLTNLRVLHLFECRNCEH-----LP-PLGKLTSL  207 (333)
Q Consensus       138 ~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~----~~~~~~~~~~~L~~L~l~~~~~~~~-----l~-~~~~l~~L  207 (333)
                            ....+...+..+++|+.|++++|......    + ...+..+++|+.|++++|. ++.     +. .+..+++|
T Consensus       174 ------~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l-~~~l~~~~~L~~L~Ls~N~-i~~~g~~~L~~~l~~~~~L  245 (344)
T d2ca6a1         174 ------SMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLL-LEGLAYCQELKVLDLQDNT-FTHLGSSALAIALKSWPNL  245 (344)
T ss_dssp             ------GHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHH-HTTGGGCTTCCEEECCSSC-CHHHHHHHHHHHGGGCTTC
T ss_pred             ------ccccccchhhhhhhhcccccccccccccccccch-hhhhcchhhhccccccccc-ccccccccccccccccccc
Confidence                  22334445556789999999988754310    1 1234478999999999984 322     21 25678899


Q ss_pred             cceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccCCcccccc-ccCCCcceEecccCcC
Q 044247          208 EDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLGTAIKGEI-IIMPRLSSLSIQSCRE  283 (333)
Q Consensus       208 ~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~~~~~~~~-~~~~~L~~L~l~~c~~  283 (333)
                      ++|++++|. +.......++..     -.....+.|++|+++++ ++..-... .+...+ ..+++|++|+++++..
T Consensus       246 ~~L~Ls~n~-i~~~g~~~l~~~-----l~~~~~~~L~~L~ls~N-~i~~~~~~-~l~~~l~~~~~~L~~L~l~~N~~  314 (344)
T d2ca6a1         246 RELGLNDCL-LSARGAAAVVDA-----FSKLENIGLQTLRLQYN-EIELDAVR-TLKTVIDEKMPDLLFLELNGNRF  314 (344)
T ss_dssp             CEEECTTCC-CCHHHHHHHHHH-----HHTCSSCCCCEEECCSS-CCBHHHHH-HHHHHHHHHCTTCCEEECTTSBS
T ss_pred             hhhhhhcCc-cCchhhHHHHHH-----hhhccCCCCCEEECCCC-cCChHHHH-HHHHHHHccCCCCCEEECCCCcC
Confidence            999999997 433211111100     00124578999999986 35432111 011122 1578999999998543

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.61  E-value=4.2e-10  Score=100.54  Aligned_cols=40  Identities=20%  Similarity=0.126  Sum_probs=20.9

Q ss_pred             CCCCCccEEEEeeecCCCCcc--CchhhhcCCCccEEEeecC
Q 044247          153 GPPPNLKELHIHEYRGRRNVV--PKNWVMSLTNLRVLHLFEC  192 (333)
Q Consensus       153 ~~~~~L~~L~l~~~~~~~~~~--~~~~~~~~~~L~~L~l~~~  192 (333)
                      .....++.+++++|.......  ....+...+.++.+++++|
T Consensus       252 ~~~~~l~~l~l~~n~i~~~~~~~~~~~l~~~~~l~~l~l~~n  293 (460)
T d1z7xw1         252 HPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGN  293 (460)
T ss_dssp             STTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTC
T ss_pred             cccccccccccccccccccccccccccccccccccccccccc
Confidence            345677777777665443100  0112234566666666665

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.60  E-value=7.3e-08  Score=72.90  Aligned_cols=41  Identities=24%  Similarity=0.230  Sum_probs=17.5

Q ss_pred             hhhhcCCCccEEEeecCCCCCCCCC--CCCCccccceeccccc
Q 044247          176 NWVMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMK  216 (333)
Q Consensus       176 ~~~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~  216 (333)
                      ..+..+++|++|+++++..++.++.  +.++++|+.|++++|.
T Consensus        25 ~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~   67 (156)
T d2ifga3          25 HHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSG   67 (156)
T ss_dssp             TTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSC
T ss_pred             ccccCccccCeeecCCCccccccCchhhccccccCcceeeccc
Confidence            3333344444444444433333332  3444444444444443

>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=98.54  E-value=2.8e-07  Score=69.60  Aligned_cols=108  Identities=19%  Similarity=0.183  Sum_probs=81.3

Q ss_pred             CCCccEEEeecCCCCCCCCCCCCCccccceecccccccccccccccCCCCCCCCCccccCCCccEEeeccCccccccccC
Q 044247          181 LTNLRVLHLFECRNCEHLPPLGKLTSLEDLYIAGMKSVKRVGNEFLGVESDTDGSSVIAFPKLKRLRFWSMSELEEWDLG  260 (333)
Q Consensus       181 ~~~L~~L~l~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~~~~~  260 (333)
                      +...+.++..++...+....+..+++|++|++.++..++.++...           +.++++|+.|+++++ +++.+.. 
T Consensus         7 c~~~~~l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~-----------f~~l~~L~~L~Ls~N-~l~~i~~-   73 (156)
T d2ifga3           7 PHGSSGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRD-----------LRGLGELRNLTIVKS-GLRFVAP-   73 (156)
T ss_dssp             CSSSSCEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGG-----------SCSCCCCSEEECCSS-CCCEECT-
T ss_pred             cCCCCeEEecCCCCccCcccccCccccCeeecCCCccccccCchh-----------hccccccCcceeecc-ccCCccc-
Confidence            444566777776444444447788999999999887788887653           468999999999985 5655542 


Q ss_pred             CccccccccCCCcceEecccCcCcccCCcccCCCCCcceEEEcccCh
Q 044247          261 TAIKGEIIIMPRLSSLSIQSCRELKALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       261 ~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                          ..+..+++|++|++++ +.++.+|..+....+|+.|++ .+.+
T Consensus        74 ----~~f~~l~~L~~L~Ls~-N~l~~l~~~~~~~~~l~~L~L-~~Np  114 (156)
T d2ifga3          74 ----DAFHFTPRLSRLNLSF-NALESLSWKTVQGLSLQELVL-SGNP  114 (156)
T ss_dssp             ----TGGGSCSCCCEEECCS-SCCSCCCSTTTCSCCCCEEEC-CSSC
T ss_pred             ----ccccccccccceeccC-CCCcccChhhhcccccccccc-CCCc
Confidence                3355789999999998 678888886666778999999 8654

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.50  E-value=9.2e-10  Score=98.28  Aligned_cols=36  Identities=22%  Similarity=0.392  Sum_probs=23.8

Q ss_pred             CCCcceEecccCcCcc-----cCCcccCCCCCcceEEEcccCh
Q 044247          270 MPRLSSLSIQSCRELK-----ALPDHLLQKSTLQNLEIWGACH  307 (333)
Q Consensus       270 ~~~L~~L~l~~c~~l~-----~l~~~~~~l~~L~~L~l~~~c~  307 (333)
                      .+.|+.|++++|. ++     .+...+...++|++|++ +++.
T Consensus       368 ~~~L~~L~Ls~n~-i~~~~~~~l~~~l~~~~~L~~L~L-s~N~  408 (460)
T d1z7xw1         368 GSVLRVLWLADCD-VSDSSCSSLAATLLANHSLRELDL-SNNC  408 (460)
T ss_dssp             TCCCCEEECTTSC-CCHHHHHHHHHHHHHCCCCCEEEC-CSSS
T ss_pred             cCCCCEEECCCCC-CChHHHHHHHHHHhcCCCCCEEEC-CCCc
Confidence            4668888888874 43     23334455688888888 7663

>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=96.99  E-value=5.2e-05  Score=57.03  Aligned_cols=40  Identities=13%  Similarity=-0.019  Sum_probs=23.0

Q ss_pred             cccccccEEecCCCCCcccc---cccccccccCceeeeEEEcCc
Q 044247           33 GKLRKLMYLDNDYTDSLRYL---PVGIGELIRLRRVTKFVVCGG   73 (333)
Q Consensus        33 ~~l~~L~~L~l~~~~~~~~~---p~~i~~l~~L~~L~l~~~~~~   73 (333)
                      ..+++|++|++++| .++.+   +..++.+++|+.|++++|.+.
T Consensus        62 ~~~~~L~~L~Ls~N-~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~  104 (162)
T d1koha1          62 ENIPELLSLNLSNN-RLYRLDDMSSIVQKAPNLKILNLSGNELK  104 (162)
T ss_dssp             HHCTTCCCCCCCSS-CCCCCSGGGTHHHHSTTCCCCCCTTSCCC
T ss_pred             HhCCCCCEeeCCCc-cccCCchhHHHHhhCCcccccccccCccc
Confidence            45666666666666 33433   223455666666666666554

>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=96.86  E-value=8.8e-05  Score=55.70  Aligned_cols=38  Identities=26%  Similarity=0.277  Sum_probs=21.0

Q ss_pred             hhcCCCccEEEeecCCCCCCCCC--CCCCccccceeccccc
Q 044247          178 VMSLTNLRVLHLFECRNCEHLPP--LGKLTSLEDLYIAGMK  216 (333)
Q Consensus       178 ~~~~~~L~~L~l~~~~~~~~l~~--~~~l~~L~~L~l~~~~  216 (333)
                      +..+++|+.|++++| .+++++.  .....+|+.|++.+|+
T Consensus        87 ~~~l~~L~~L~Ls~N-~i~~l~~l~~l~~~~L~~L~L~~Np  126 (162)
T d1koha1          87 VQKAPNLKILNLSGN-ELKSERELDKIKGLKLEELWLDGNS  126 (162)
T ss_dssp             HHHSTTCCCCCCTTS-CCCCGGGHHHHTTCCCSSCCCTTST
T ss_pred             HhhCCcccccccccC-ccccchhhhhhhccccceeecCCCC
Confidence            345666666666666 3444443  1122356677777666

>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=96.44  E-value=0.00045  Score=51.93  Aligned_cols=68  Identities=15%  Similarity=0.034  Sum_probs=36.3

Q ss_pred             hhcccCCccceEEeecCCCCCchhhhcccCCcccccccccccCCCCCCccEEEEeeecCCCCccC-------chhhhcCC
Q 044247          110 ELEKKKNLFDLELDFDNLRDGDEEQAGRRENEEDEDERLLDALGPPPNLKELHIHEYRGRRNVVP-------KNWVMSLT  182 (333)
Q Consensus       110 ~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~-------~~~~~~~~  182 (333)
                      .+...+.|++|++++|.+.+.             ....+..++...++|+.|+++++....  +.       ...+..-+
T Consensus        67 ~L~~n~~L~~L~L~~n~i~~~-------------g~~~l~~aL~~n~sL~~L~l~~n~~~~--~g~~~~~~l~~~L~~n~  131 (167)
T d1pgva_          67 LIETSPSLRVLNVESNFLTPE-------------LLARLLRSTLVTQSIVEFKADNQRQSV--LGNQVEMDMMMAIEENE  131 (167)
T ss_dssp             HHHHCSSCCEEECCSSBCCHH-------------HHHHHHHHTTTTCCCSEEECCCCSSCC--CCHHHHHHHHHHHHHCS
T ss_pred             hhhhcccccceeeehhhcchH-------------HHHHHHHHHHhCCcCCEEECCCCcCCC--ccHHHHHHHHHHHHhCC
Confidence            344456677777777754321             223344556666777777776654332  20       11222456


Q ss_pred             CccEEEeecC
Q 044247          183 NLRVLHLFEC  192 (333)
Q Consensus       183 ~L~~L~l~~~  192 (333)
                      .|+.|+++++
T Consensus       132 sL~~l~l~~~  141 (167)
T d1pgva_         132 SLLRVGISFA  141 (167)
T ss_dssp             SCCEEECCCC
T ss_pred             CccEeeCcCC
Confidence            6777666554

>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=96.43  E-value=0.00035  Score=52.55  Aligned_cols=64  Identities=14%  Similarity=0.005  Sum_probs=40.3

Q ss_pred             CCCcccEEeecCCCccc-----ccCccccccccccEEecCCCCCccc----ccccccccccCceeeeEEEcCc
Q 044247           10 ELYNLERVNVSGCSHLR-----ELPQGIGKLRKLMYLDNDYTDSLRY----LPVGIGELIRLRRVTKFVVCGG   73 (333)
Q Consensus        10 ~l~~L~~L~l~~~~~~~-----~lp~~i~~l~~L~~L~l~~~~~~~~----~p~~i~~l~~L~~L~l~~~~~~   73 (333)
                      +.+.|+.|+++++..++     .+-..+...++|++|++++|..-..    +...+...+.|++|++++|.+.
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~   85 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLT   85 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCC
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcc
Confidence            45788899988754332     2344566778888888888833211    2223445667788877776554

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=96.20  E-value=0.00057  Score=51.21  Aligned_cols=64  Identities=11%  Similarity=-0.056  Sum_probs=35.3

Q ss_pred             hcCCCcccEEeecCCCcc-----cccCccccccccccEEecCCCCCccc-----ccccccccccCceeeeEEEcC
Q 044247            8 LCELYNLERVNVSGCSHL-----RELPQGIGKLRKLMYLDNDYTDSLRY-----LPVGIGELIRLRRVTKFVVCG   72 (333)
Q Consensus         8 l~~l~~L~~L~l~~~~~~-----~~lp~~i~~l~~L~~L~l~~~~~~~~-----~p~~i~~l~~L~~L~l~~~~~   72 (333)
                      ..+.+.|++|++.++..+     ..+-.++...++|++|++++| .+..     +...+...++++.+++.++..
T Consensus        13 ~~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n-~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~   86 (166)
T d1io0a_          13 QNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGT-RSNDPVAFALAEMLKVNNTLKSLNVESNFI   86 (166)
T ss_dssp             HTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTS-CCCHHHHHHHHHHHHHCSSCCEEECCSSCC
T ss_pred             HhcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCC-cccHHHHHHHHHHHhhcccchhhhhccccc
Confidence            345677777777764323     123444556777777777777 3222     122234455666666555443

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=96.06  E-value=0.00089  Score=50.10  Aligned_cols=15  Identities=7%  Similarity=0.124  Sum_probs=7.0

Q ss_pred             cCCCcccEEeecCCC
Q 044247            9 CELYNLERVNVSGCS   23 (333)
Q Consensus         9 ~~l~~L~~L~l~~~~   23 (333)
                      ...++|++|++++|.
T Consensus        43 ~~n~~L~~L~Ls~n~   57 (166)
T d1io0a_          43 KTNTYVKKFSIVGTR   57 (166)
T ss_dssp             TTCCSCCEEECTTSC
T ss_pred             hcCCccCeeeccCCc
Confidence            344444455554443