Citrus Sinensis ID: 040933

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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-------30
Protein Sequence
MAGDYVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFKHIQPEAYKATALSYDKLEGEELKNLFLLIGYAYVESIDELLRYGVGLGLFQGISKLDEARDRVSTLVYKLKASCMLLDEGLPMHDVIRDVAISIVSAEKNVFTATGELFDGCMEWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLPVEL
Secondary Structure (PSIPRED)
ccccccccccHHHHHHHHHHHccccHHHHHHHHHHHccccHHHHHHHHHHHccccccccccccHHHHHHHHHHHcccccHHHHHHHccccccccccHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHccccEEEEccccccccccccccccEEEEEEEEEccccccccccccccccccEEEEEEEcccccccccccccHHHcccccccEEEEcccccccccccccccccccEEEcccccccccccccccccccEEEccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHcccHHHHHHHHHHHHcccHHccccccccHHHHHHccHcccccHHHHHHEEEccccccccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHcccccEEEEcccccccccccccccHHHEEEEHcccccHHcccccccccccEEEEEEcccccccccccccHHHHHHcccEEEEEccccccccccccHHHHHHHEEEEcccccccccccHHHHHHcEEEEccccccEEccccc
Coil and Loop (DISEMBL)
magdyvegselKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKqlrrpsstnfkhiqpeaYKATALSYDKLEGEELKNLFLLIGYAYVESIDELLRYGVGLGLFQGISKLDEARDRVSTLVYKLKASCmlldeglpmhdVIRDVAISIVSAEKNVFTATGELfdgcmewsdENAVKLYTSIVLRdiktnvlpdrvlpecpqlklfsvradhqesssltipnnfFEKMIQVRVINLTymnllplpsslgllsnlrTLSLCYCKLLDISVTGELKKLEILCLrgsdiqqlpvel
Flexible Loop (DISEMBL)
MAGDYVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDAlkqlrrpsstnfkhiqpeayKATALSYDKLEGEELKNLFLLIGYAYVESIDELLRYGVGLGLFQGISKLDEARDRVSTLVYKLKASCMLLDEGLPMHDVIRDVAISIVSAEKNVFTATGELFDGCMEWSDENAVKLYTSIVLRDIKtnvlpdrvlpECPQLKlfsvradhqesssltipnnffEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILclrgsdiqqlpvel
Low Complexity Region (SEG)
MAGDYVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFKHIQPEAYKATALSYDKLEGEELKNLFLLIGYAYVESIDELLRYGVGLGLFQGISKLDEARDRVSTLVYKLKASCMLLDEGLPMHDVIRDVAISIVSAEKNVFTATGELFDGCMEWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMnllplpsslgllsnlrtlslCYCKLLDISVTGELKKLEILCLRGSDIQQLPVEL
Disordered region (IsUnstruct)
********SELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLR*****NFKHIQPEAYKATALSYDKLEGEELKNLFLLIGYAYVESIDELLRYGVGLGLFQGISKLDEARDRVSTLVYKLKASCMLLDEGLPMHDVIRDVAISIVSAEKNVFTATGELFDGCMEWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADH***SSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSD********
Disordered Region (DISOPRED)
**G***EGSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLR************EAYKATALSYDKLEGEELKNLFLLIGYAYVESIDELLRYGVGLGLFQGISKLDEARDRVSTLVYKLKASCMLLDEGLPMHDVIRDVAISIVSAEKNVFTATGELFDGCMEWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLPVE*
Disordered Region (DISEMBL)
********SELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFKHIQPEAYKATALSYDKLEGEELKNLFLLIGYAYVESIDELLRYGVGLGLFQGISKLDEARDRVSTLVYKLKASCMLLDEGLPMHDVIRDVAISIVSAEKNVFTATGELFDGCMEWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSV********SLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLPVEL
Disordered Region (DISPRO)
******EGSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFKHIQPEAYKATALSYDKLEGEELKNLFLLIGYAYVESIDELLRYGVGLGLFQGISKLDEARDRVSTLVYKLKASCMLLDEGLPMHDVIRDVAISIVSAEKNVFTATGELFDGCMEWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLPV**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAGDYVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFKHIQPEAYKATALSYDKLEGEELKNLFLLIGYAYVESIDELLRYGVGLGLFQGISKLDEARDRVSTLVYKLKASCMLLDEGLPMHDVIRDVAISIVSAEKNVFTATGELFDGCMEWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLPVEL
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	298	2.2.26 [Sep-21-2011]
O81825	919	Probable disease resistan	yes	no	0.959	0.311	0.301	7e-26
Q9T048	985	Disease resistance protei	no	no	0.942	0.285	0.298	2e-19
Q9LVT4	843	Probable disease resistan	no	no	0.906	0.320	0.261	5e-14
Q42484	909	Disease resistance protei	no	no	0.919	0.301	0.271	5e-12
Q9FLB4	874	Putative disease resistan	no	no	0.879	0.299	0.275	3e-11
Q8RXS5	888	Probable disease resistan	no	no	0.859	0.288	0.260	2e-10
P60839	884	Probable disease resistan	no	no	0.822	0.277	0.246	2e-09
O64973	889	Disease resistance protei	no	no	0.805	0.269	0.244	3e-09
Q9LMP6	851	Probable disease resistan	no	no	0.489	0.171	0.290	3e-09
Q940K0	889	Probable disease resistan	no	no	0.885	0.296	0.242	3e-08

>sp|O81825|DRL28_ARATH Probable disease resistance protein At4g27220 OS=Arabidopsis thaliana GN=At4g27220 PE=2 SV=1

 Score =  118 bits (295), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 91/302 (30%), Positives = 148/302 (49%), Gaps = 16/302 (5%)

Query: 3   GDYVEGSELKCVARDVAKECVGLPVSIVAVARALRSA-SIFKWKDALKQLRRPSSTNFKH 61
           G+      +K +A+DV+ EC GLP++I+ + R LR    +  WK  L  L+R + +    
Sbjct: 286 GEVANSDNVKPIAKDVSHECCGLPLAIITIGRTLRGKPQVEVWKHTLNLLKRSAPS--ID 343

Query: 62  IQPEAYKATALSYDKLEGEELKNLFL---LIGYAYVESIDELLRYGVGLGLFQGISKLDE 118
            + + +    LSYD L+ + +K+ FL   L    Y   + EL+ Y V  GL  G    ++
Sbjct: 344 TEEKIFGTLKLSYDFLQ-DNMKSCFLFCALFPEDYSIKVSELIMYWVAEGLLDGQHHYED 402

Query: 119 ARDRVSTLVYKLKASCMLLD----EGLPMHDVIRDVAISIVSAEKNVFTATGELFDGCME 174
             +   TLV +LK SC+L D    + + MHDV+RD AI  +S++   F +      G +E
Sbjct: 403 MMNEGVTLVERLKDSCLLEDGDSCDTVKMHDVVRDFAIWFMSSQGEGFHSLVMAGRGLIE 462

Query: 175 WSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMI 234
           +  +  V     + L   K   LP+ V+     L L      H +     +PN F +   
Sbjct: 463 FPQDKFVSSVQRVSLMANKLERLPNNVIEGVETLVLLLQGNSHVKE----VPNGFLQAFP 518

Query: 235 QVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYC-KLLDISVTGELKKLEILCLRGSDIQQ 293
            +R+++L+ + +  LP S   L +LR+L L  C KL ++     L KL+ L L  S I++
Sbjct: 519 NLRILDLSGVRIRTLPDSFSNLHSLRSLVLRNCKKLRNLPSLESLVKLQFLDLHESAIRE 578

Query: 294 LP 295
           LP
Sbjct: 579 LP 580

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

>sp|Q9T048|DRL27_ARATH Disease resistance protein At4g27190 OS=Arabidopsis thaliana GN=At4g27190 PE=2 SV=1

 Score = 96.3 bits (238), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 93/312 (29%), Positives = 151/312 (48%), Gaps = 31/312 (9%)

Query: 2   AGDYVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFK-WKDALKQLRRPSSTNFK 60
           AGD V    ++ +A+ V++EC GLP++I+ V  A+R     K W   L +L + S    K
Sbjct: 315 AGDVVRSDHVRKIAKAVSQECGGLPLAIITVGTAMRGKKNVKLWNHVLSKLSK-SVPWIK 373

Query: 61  HIQPEAYKATALSYDKLEGEELKNLFLLIGY---AYVESIDELLRYGVGLGLFQGISKLD 117
            I+ + ++   LSYD LE ++ K  FLL       Y   + E++RY +  G  + +   +
Sbjct: 374 SIEEKIFQPLKLSYDFLE-DKAKFCFLLCALFPEDYSIEVTEVVRYWMAEGFMEELGSQE 432

Query: 118 EARDRVSTLVYKLKASCMLLD----EGLPMHDVIRDVAISIVSAEKN-----VFTATGEL 168
           ++ +   T V  LK  C+L D    + + MHDV+RD AI I+S+ ++     V + TG  
Sbjct: 433 DSMNEGITTVESLKDYCLLEDGDRRDTVKMHDVVRDFAIWIMSSSQDDSHSLVMSGTG-- 490

Query: 169 FDGCMEWSDENAVKLYTS---IVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTI 225
                   D    KL  S   + L + K   LPD V   C +  +  ++ +        +
Sbjct: 491 ------LQDIRQDKLAPSLRRVSLMNNKLESLPDLVEEFCVKTSVLLLQGNFLLKE---V 541

Query: 226 PNNFFEKMIQVRVINLTYMNLLPLPS-SLGLLSNLRTLSLCYC-KLLDISVTGELKKLEI 283
           P  F +    +R++NL+   +   PS SL  L +L +L L  C KL+ +     L KLE+
Sbjct: 542 PIGFLQAFPTLRILNLSGTRIKSFPSCSLLRLFSLHSLFLRDCFKLVKLPSLETLAKLEL 601

Query: 284 LCLRGSDIQQLP 295
           L L G+ I + P
Sbjct: 602 LDLCGTHILEFP 613

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LVT4|DRL37_ARATH Probable disease resistance protein At5g47250 OS=Arabidopsis thaliana GN=At5g47250 PE=2 SV=1

 Score = 78.6 bits (192), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 83/318 (26%), Positives = 143/318 (44%), Gaps = 48/318 (15%)

Query: 9   SELKCVARDVAKECVGLPVSIVAVARALRSAS-IFKWKDALKQLRRPSSTNFKHIQPEAY 67
           +E+  +A+ +  +C GLP+++  + + + S S + +W+ AL  L    S   K  +   +
Sbjct: 332 NEISDIAKKIVAKCCGLPLALEVIRKTMASKSTVIQWRRALDTLESYRS-EMKGTEKGIF 390

Query: 68  KATALSYDKLEGEELKNLFL--LIGYAYVESIDELLRYGVGLGLFQGISKLDEARDRVST 125
           +   LSYD L+ +  K      L   AY    DEL+ Y +G G        + A+DR   
Sbjct: 391 QVLKLSYDYLKTKNAKCFLYCALFPKAYYIKQDELVEYWIGEGFIDEKDGRERAKDRGYE 450

Query: 126 LVYKLKASCMLLDEG--LPMHDVIRDVAISIVS----AEKNVFTATGEL--FDGCMEWSD 177
           ++  L  + +LL+    + MHD+IRD+A+ IVS     E+ V      L       +W+ 
Sbjct: 451 IIDNLVGAGLLLESNKKVYMHDMIRDMALWIVSEFRDGERYVVKTDAGLSQLPDVTDWTT 510

Query: 178 ENAVKLYTSIVLRDIKTNVLPDRVLPECP-QLKLFSVRADHQESSSLTIPNNFF------ 230
              + L+ +    +IK   +PD   PE P Q  L ++    Q +  + I   FF      
Sbjct: 511 VTKMSLFNN----EIKN--IPDD--PEFPDQTNLVTLFL--QNNRLVDIVGKFFLVMSTL 560

Query: 231 ------------------EKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSL-CYCKLLD 271
                               ++ +R++NL+  ++  LP  LG+LS L  L+L     L  
Sbjct: 561 VVLDLSWNFQITELPKGISALVSLRLLNLSGTSIKHLPEGLGVLSKLIHLNLESTSNLRS 620

Query: 272 ISVTGELKKLEILCLRGS 289
           + +  EL+KL++L   GS
Sbjct: 621 VGLISELQKLQVLRFYGS 638

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q42484|RPS2_ARATH Disease resistance protein RPS2 OS=Arabidopsis thaliana GN=RPS2 PE=1 SV=1

 Score = 72.0 bits (175), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 85/313 (27%), Positives = 148/313 (47%), Gaps = 39/313 (12%)

Query: 4   DYVEGSELKCVARDVAKECVGLPVSIVAVARAL-RSASIFKWKDALKQLRR-PSSTNFKH 61
           D +E S ++ +A  +  +C GLP++++ +  A+    +  +W  A + L R P+     +
Sbjct: 327 DLLESSSIRRLAEIIVSKCGGLPLALITLGGAMAHRETEEEWIHASEVLTRFPAEMKGMN 386

Query: 62  IQPEAYKATALSYDKLEGEELKNLFL---LIGYAYVESIDELLRYGVGLGLF---QGISK 115
                +     SYD LE + L++ FL   L    +   I++L+ Y VG G      G++ 
Sbjct: 387 Y---VFALLKFSYDNLESDLLRSCFLYCALFPEEHSIEIEQLVEYWVGEGFLTSSHGVNT 443

Query: 116 LDEARDRVSTLVYKLKASCMLLDEG-----LPMHDVIRDVAISIVSAE---KNVFTATGE 167
           + +       L+  LKA+C LL+ G     + MH+V+R  A+ + S +   K +      
Sbjct: 444 IYKG----YFLIGDLKAAC-LLETGDEKTQVKMHNVVRSFALWMASEQGTYKELILVEPS 498

Query: 168 LFDGCMEWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPN 227
           +  G  E       +    I L D +   LP++++  CP+L    ++   Q SS   IP 
Sbjct: 499 M--GHTEAPKAENWRQALVISLLDNRIQTLPEKLI--CPKLTTLMLQ---QNSSLKKIPT 551

Query: 228 NFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISV----TGELKKLEI 283
            FF  M  +RV++L++ ++  +P S+  L  L  LS+   K   ISV     G L+KL+ 
Sbjct: 552 GFFMHMPVLRVLDLSFTSITEIPLSIKYLVELYHLSMSGTK---ISVLPQELGNLRKLKH 608

Query: 284 LCL-RGSDIQQLP 295
           L L R   +Q +P
Sbjct: 609 LDLQRTQFLQTIP 621

Disease resistance (R) protein that specifically recognizes the AvrRpt2 type III effector avirulence protein from Pseudomonas syringae. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Acts via its interaction with RIN4, and probably triggers the plant resistance when RIN4 is degraded by AvrRpt2.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FLB4|DRL31_ARATH Putative disease resistance protein At5g05400 OS=Arabidopsis thaliana GN=At5g05400 PE=2 SV=1

 Score = 69.3 bits (168), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 86/312 (27%), Positives = 140/312 (44%), Gaps = 50/312 (16%)

Query: 14  VARDVAKECVGLPVSIVAVARAL-RSASIFKWKDALKQLRRPSSTNFKHIQPEAYKATAL 72
           VA+ +A++C GLP+++  +   + R  SI +W DA+          F  I+ +       
Sbjct: 337 VAKSIARKCNGLPLALNVIGETMARKKSIEEWHDAVGV--------FSGIEADILSILKF 388

Query: 73  SYDKLEGEELKNLFL---LIGYAYVESIDELLRYGVGLGLFQGISKLD-EARDRVSTLV- 127
           SYD L+ E+ K+ FL   L    Y    D+L+ Y VG G+  G   ++ +    + TL  
Sbjct: 389 SYDDLKCEKTKSCFLFSALFPEDYEIGKDDLIEYWVGQGIILGSKGINYKGYTIIGTLTR 448

Query: 128 -YKLKASCMLLDEGLPMHDVIRDVAISIVSA-----EKNVFT--ATGELFDGCMEWSDEN 179
            Y LK S     E + MHDV+R++A+ I S      +KNV    A  +L D   +  D+ 
Sbjct: 449 AYLLKESET--KEKVKMHDVVREMALWISSGCGDQKQKNVLVVEANAQLRD-IPKIEDQK 505

Query: 180 AVK----LYTSI---------------VLRDIKTNVLPDRVLPECPQLKLFSVRADHQES 220
           AV+    +Y  I               +LRD +   +    L   P L +  +  +    
Sbjct: 506 AVRRMSLIYNQIEEACESLHCPKLETLLLRDNRLRKISREFLSHVPILMVLDLSLN---P 562

Query: 221 SSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLD-ISVTGELK 279
           + + +P+  F  +  +R +NL+   +  LP  L  L NL  L+L +  +L  I    +L 
Sbjct: 563 NLIELPS--FSPLYSLRFLNLSCTGITSLPDGLYALRNLLYLNLEHTYMLKRIYEIHDLP 620

Query: 280 KLEILCLRGSDI 291
            LE+L L  S I
Sbjct: 621 NLEVLKLYASGI 632

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RXS5|DRL40_ARATH Probable disease resistance protein At5g63020 OS=Arabidopsis thaliana GN=At5g63020 PE=2 SV=2

 Score = 67.0 bits (162), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 73/280 (26%), Positives = 133/280 (47%), Gaps = 24/280 (8%)

Query: 3   GDYVEGS--ELKCVARDVAKECVGLPVSIVAVARALR-SASIFKWKDALKQLRRPSSTNF 59
           G+   GS  E+  VAR VAK+C GLP+++  +   +    ++ +W+ A+  L   S+  F
Sbjct: 325 GEITLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVL-TSSAAEF 383

Query: 60  KHIQPEAYKATALSYDKLEGEELKNLF---LLIGYAYVESIDELLRYGVGLGLFQGISKL 116
             ++ E       SYD L+ E+LK  F    L    +    ++L+ Y +G G        
Sbjct: 384 SGMEDEILPILKYSYDNLKSEQLKLCFQYCALFPEDHNIEKNDLVDYWIGEGFID--RNK 441

Query: 117 DEARDRVSTLVYKLKASCMLLDEG---LPMHDVIRDVAISIVS---AEKNVFTATGELFD 170
            +A ++   ++  L  SC+L++E    + MHDV+R++A+ I S    +K  F     L  
Sbjct: 442 GKAENQGYEIIGILVRSCLLMEENQETVKMHDVVREMALWIASDFGKQKENFIVQAGLQS 501

Query: 171 GCMEWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFF 230
             +   ++  V    S++  +I++     R  PE PQL    +R +        I ++FF
Sbjct: 502 RNIPEIEKWKVARRVSLMFNNIES----IRDAPESPQLITLLLRKNFLGH----ISSSFF 553

Query: 231 EKMIQVRVINLTY-MNLLPLPSSLGLLSNLRTLSLCYCKL 269
             M  + V++L+   +L  LP+ +    +L+ LSL   ++
Sbjct: 554 RLMPMLVVLDLSMNRDLRHLPNEISECVSLQYLSLSRTRI 593

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P60839|DRL2_ARATH Probable disease resistance protein At1g12290 OS=Arabidopsis thaliana GN=At1g12290 PE=2 SV=1

 Score = 63.2 bits (152), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 66/268 (24%), Positives = 112/268 (41%), Gaps = 23/268 (8%)

Query: 14  VARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFKHIQPEAYKATALS 73
           +AR VA+ C GLP+++  +   +      +  D    +    + NF  ++         S
Sbjct: 339 IARKVAQACCGLPLALNVIGETMACKKTTQEWDRAVDVSTTYAANFGAVKERILPILKYS 398

Query: 74  YDKLEGEELKNLFLLIGYAYVESIDE---LLRYGVGLGLFQGISKLDEARDRVSTLVYKL 130
           YD LE E +K  FL       + + E   L+ Y +  G   G      A      ++  L
Sbjct: 399 YDNLESESVKTCFLYCSLFPEDDLIEKERLIDYWICEGFIDGDENKKGAVGEGYEILGTL 458

Query: 131 KASCMLLDEG-------LPMHDVIRDVAISIVS----AEKNVFTATGELFDGCMEWSDEN 179
             + +L++ G       + MHDV+R++A+ I S     + N     G   +   +  D  
Sbjct: 459 VCASLLVEGGKFNNKSYVKMHDVVREMALWIASDLRKHKDNCIVRAGFRLNEIPKVKDWK 518

Query: 180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVI 239
            V    S+V   IK         PECP+L    ++ +      + I   FF  M ++ V+
Sbjct: 519 VVS-RMSLVNNRIK----EIHGSPECPKLTTLFLQDNRH---LVNISGEFFRSMPRLVVL 570

Query: 240 NLTY-MNLLPLPSSLGLLSNLRTLSLCY 266
           +L++ +NL  LP  +  L +LR L L Y
Sbjct: 571 DLSWNVNLSGLPDQISELVSLRYLDLSY 598

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64973|RPS5_ARATH Disease resistance protein RPS5 OS=Arabidopsis thaliana GN=RPS5 PE=1 SV=2

 Score = 62.8 bits (151), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 66/270 (24%), Positives = 123/270 (45%), Gaps = 30/270 (11%)

Query: 14  VARDVAKECVGLPVSIVAVARALR-SASIFKWKDALKQLRRPSSTNFKHIQPEAYKATAL 72
           +AR VA++C GLP+++  +  A+    ++ +W  A+  L   S+ +F  ++ E       
Sbjct: 340 LARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLT-SSAIDFSGMEDEILHVLKY 398

Query: 73  SYDKLEGEELKNLFL---LIGYAYVESIDELLRYGVGLGLFQGISKLDEARDRVSTLVYK 129
           SYD L GE +K+ FL   L    Y+   + L+ Y +  G        +   ++   ++  
Sbjct: 399 SYDNLNGELMKSCFLYCSLFPEDYLIDKEGLVDYWISEGFINEKEGRERNINQGYEIIGT 458

Query: 130 LKASCMLLDE-----GLPMHDVIRDVAISIVS-----AEKNVFTATGELFD--GCMEWSD 177
           L  +C+LL+E      + MHDV+R++A+ I S      EK +  A   L +     +W+ 
Sbjct: 459 LVRACLLLEEERNKSNVKMHDVVREMALWISSDLGKQKEKCIVRAGVGLREVPKVKDWNT 518

Query: 178 ENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVR 237
              + L  + +     ++        EC  L    +    Q++  + I   FF  M  + 
Sbjct: 519 VRKISLMNNEIEEIFDSH--------ECAALTTLFL----QKNDVVKISAEFFRCMPHLV 566

Query: 238 VINLT-YMNLLPLPSSLGLLSNLRTLSLCY 266
           V++L+   +L  LP  +  L++LR  +L Y
Sbjct: 567 VLDLSENQSLNELPEEISELASLRYFNLSY 596

Disease resistance (R) protein that specifically recognizes the avrPphB type III effector avirulence protein from Pseudomonas syringae. Also confers resistance against Hyaloperonospora parasitica (downy mildew). Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Requires PBS1 to trigger the defense reaction against avrPphB. Probably triggers the defense mechanism when PBS1 is cleaved by avrPphB, suggesting that it detects indirectly the protease activity of avrPphB, and possibly binds to the cleaved RPS5.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LMP6|DRL3_ARATH Probable disease resistance protein At1g15890 OS=Arabidopsis thaliana GN=At1g15890 PE=3 SV=2

 Score = 62.4 bits (150), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 45/155 (29%), Positives = 80/155 (51%), Gaps = 9/155 (5%)

Query: 10  ELKCVARDVAKECVGLPVSIVAVARALRS-ASIFKWKDALKQLRRPSSTNFKHIQPEAYK 68
           ++  +AR VA++C GLP+++  + +A+ S  ++ +W+  +  L   SS  F  ++ +   
Sbjct: 333 DIPTLARKVAEKCCGLPLALSVIGKAMASRETVQEWQHVIHVL-NSSSHEFPSMEEKILP 391

Query: 69  ATALSYDKLEGEELKNLFL---LIGYAYVESIDELLRYGVGLGLFQGISKLDEARDRVST 125
               SYD L+ E++K  FL   L    Y    +EL+ Y +  G   G    D A ++   
Sbjct: 392 VLKFSYDDLKDEKVKLCFLYCSLFPEDYEVRKEELIEYWMCEGFIDGNEDEDGANNKGHD 451

Query: 126 LVYKLKASCMLLDEGL----PMHDVIRDVAISIVS 156
           ++  L  + +L+D  L     MHDVIR++A+ I S
Sbjct: 452 IIGSLVRAHLLMDGELTTKVKMHDVIREMALWIAS 486

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q940K0|DRL15_ARATH Probable disease resistance protein At1g61180 OS=Arabidopsis thaliana GN=At1g61180 PE=2 SV=2

 Score = 59.3 bits (142), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 71/293 (24%), Positives = 134/293 (45%), Gaps = 29/293 (9%)

Query: 14  VARDVAKECVGLPVSIVAVARALRSASIFK-WKDALKQLRRPSSTNFKHIQPEAYKATAL 72
           +AR+VA++C GLP+++  +   + S ++ + W+ A+  +   S+  F  +Q +       
Sbjct: 336 LAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHAI-HVFNTSAAEFSDMQNKILPILKY 394

Query: 73  SYDKLEGEELKNLFLLI------GYAYVESIDELLRYGVGLGLFQGISKLDEARDRVSTL 126
           SYD L  E +K+ FL        G  Y E   +L+ Y +  G       +  AR++   +
Sbjct: 395 SYDSLGDEHIKSCFLYCALFPEDGEIYNE---KLIDYWICEGFIGEDQVIKRARNKGYAM 451

Query: 127 VYKLKASCMLLDEGL---PMHDVIRDVAISIVS----AEKNVFTATGELFDGCMEWSDEN 179
           +  L  + +L   G     MHDV+R++A+ I S     ++N     G       +  D  
Sbjct: 452 LGTLTRANLLTKVGTYYCVMHDVVREMALWIASDFGKQKENFVVQAGVGLHEIPKVKDWG 511

Query: 180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVI 239
           AV+   S++  DI+      +    C +L    ++++  ++    +P  F   M ++ V+
Sbjct: 512 AVR-KMSLMDNDIEEITCESK----CSELTTLFLQSNKLKN----LPGAFIRYMQKLVVL 562

Query: 240 NLTY-MNLLPLPSSLGLLSNLRTLSLCYCKLLDISVT-GELKKLEILCLRGSD 290
           +L+Y  +   LP  +  L +L+ L L    +  + +   ELKKL  L L  +D
Sbjct: 563 DLSYNRDFNKLPEQISGLVSLQFLDLSNTSIEHMPIGLKELKKLTFLDLTYTD 615

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	298
296087872	1152	unnamed protein product [Vitis vinifera]	0.976	0.252	0.465	1e-61
359488027	1520	PREDICTED: disease resistance protein At	0.976	0.191	0.465	2e-61
359488288	1340	PREDICTED: LOW QUALITY PROTEIN: probable	0.936	0.208	0.463	2e-60
147777048	1460	hypothetical protein VITISV_009359 [Viti	0.979	0.2	0.456	5e-60
147865073	1694	hypothetical protein VITISV_021876 [Viti	0.959	0.168	0.454	3e-59
224083434	1144	cc-nbs-lrr resistance protein [Populus t	0.966	0.251	0.458	6e-58
359488103	1530	PREDICTED: disease resistance protein At	0.976	0.190	0.447	4e-57
359488095	1347	PREDICTED: probable disease resistance p	0.976	0.216	0.437	8e-57
224111284	1340	cc-nbs-lrr resistance protein [Populus t	0.959	0.213	0.444	5e-55
302143583	806	unnamed protein product [Vitis vinifera]	0.966	0.357	0.434	4e-54

>gi|296087872|emb|CBI35155.3| unnamed protein product [Vitis vinifera]

 Score =  242 bits (618), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 141/303 (46%), Positives = 196/303 (64%), Gaps = 12/303 (3%)

Query: 1   MAGDYVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFK 60
           MAGD +E  +L+ +A DVAKEC GLP++IV VA+AL++  +  W+DAL+QL+R   TN K
Sbjct: 140 MAGDSIEEPDLQSIAIDVAKECAGLPIAIVTVAKALKNKGLSIWEDALRQLKRSIPTNIK 199

Query: 61  HIQPEAYKATALSYDKLEGEELKNLFLLIGYAYVE-SIDELLRYGVGLGLFQGISKLDEA 119
            +    Y    LSY  LEG+E+K+LFLL G    +  ID+LL+YG+GL LFQG + L+EA
Sbjct: 200 GMDAMVYSTLELSYKHLEGDEVKSLFLLCGLMSNKIYIDDLLKYGMGLRLFQGTNTLEEA 259

Query: 120 RDRVSTLVYKLKASCMLLDEG----LPMHDVIRDVAISIVSAEKNVFTATGELFDGCMEW 175
           ++R+ TLV  LKAS +LLD G    + MHDV+RDVAI+IVS    VF+      D  +EW
Sbjct: 260 KNRIDTLVDSLKASKLLLDTGHNSFVRMHDVVRDVAIAIVSKVHRVFSLRE---DELVEW 316

Query: 176 SDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQ 235
              + ++  T + L       LP  ++  CP+L+LF     H     L IP  FFE+M +
Sbjct: 317 PKMDELQTCTKMSLAYNDICELPIELV--CPELELFLFY--HTIDYHLKIPETFFEEMKK 372

Query: 236 VRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLP 295
           ++V++L+ M+   LPSSL  L+NLRTLSL +CKL DIS+  ELKKLE     GS+I++LP
Sbjct: 373 LKVLDLSNMHFTSLPSSLRCLTNLRTLSLNWCKLGDISIIVELKKLEFFSFMGSNIEKLP 432

Query: 296 VEL 298
            E+
Sbjct: 433 REI 435

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488027|ref|XP_002269288.2| PREDICTED: disease resistance protein At4g27190-like [Vitis vinifera]

 Score =  241 bits (616), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 141/303 (46%), Positives = 196/303 (64%), Gaps = 12/303 (3%)

Query: 1   MAGDYVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFK 60
           MAGD +E  +L+ +A DVAKEC GLP++IV VA+AL++  +  W+DAL+QL+R   TN K
Sbjct: 320 MAGDSIEEPDLQSIAIDVAKECAGLPIAIVTVAKALKNKGLSIWEDALRQLKRSIPTNIK 379

Query: 61  HIQPEAYKATALSYDKLEGEELKNLFLLIGYAYVE-SIDELLRYGVGLGLFQGISKLDEA 119
            +    Y    LSY  LEG+E+K+LFLL G    +  ID+LL+YG+GL LFQG + L+EA
Sbjct: 380 GMDAMVYSTLELSYKHLEGDEVKSLFLLCGLMSNKIYIDDLLKYGMGLRLFQGTNTLEEA 439

Query: 120 RDRVSTLVYKLKASCMLLDEG----LPMHDVIRDVAISIVSAEKNVFTATGELFDGCMEW 175
           ++R+ TLV  LKAS +LLD G    + MHDV+RDVAI+IVS    VF+      D  +EW
Sbjct: 440 KNRIDTLVDSLKASKLLLDTGHNSFVRMHDVVRDVAIAIVSKVHRVFSLRE---DELVEW 496

Query: 176 SDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQ 235
              + ++  T + L       LP  ++  CP+L+LF     H     L IP  FFE+M +
Sbjct: 497 PKMDELQTCTKMSLAYNDICELPIELV--CPELELFLFY--HTIDYHLKIPETFFEEMKK 552

Query: 236 VRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLP 295
           ++V++L+ M+   LPSSL  L+NLRTLSL +CKL DIS+  ELKKLE     GS+I++LP
Sbjct: 553 LKVLDLSNMHFTSLPSSLRCLTNLRTLSLNWCKLGDISIIVELKKLEFFSFMGSNIEKLP 612

Query: 296 VEL 298
            E+
Sbjct: 613 REI 615

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488288|ref|XP_003633735.1| PREDICTED: LOW QUALITY PROTEIN: probable disease resistance protein At1g61310-like [Vitis vinifera]

 Score =  239 bits (609), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 141/304 (46%), Positives = 192/304 (63%), Gaps = 25/304 (8%)

Query: 1   MAGDYVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFK 60
           M GD +E  +L  +A DVAKEC GLP++IV VA+AL++ ++  WKDALKQL+  +STN  
Sbjct: 320 MVGDSIENPDLLLIATDVAKECTGLPIAIVTVAKALKNKNVSIWKDALKQLKTQTSTNIT 379

Query: 61  HIQPEAYKATALSYDKLEGEELKNLFLLIG-YAYVESIDELLRYGVGLGLFQGISKLDEA 119
            +  + Y    LSY  LEG+E+K+LFLL G ++    I +LL+YG+GL LFQG + L+EA
Sbjct: 380 GMGTKVYSTLKLSYKHLEGDEVKSLFLLCGLFSNYIDIRDLLKYGMGLRLFQGTNTLEEA 439

Query: 120 RDRVSTLVYKLKASCMLLDEG----LPMHDVIRDVAISIVSAEKNVFT-ATGELFDGCME 174
           ++R+ TLV  LKAS +LL+        MHDV+++VAI I S E +VFT  TG   +   E
Sbjct: 440 KNRIETLVDNLKASNLLLETRYNAVFRMHDVVQNVAIEIASKEHHVFTFQTGVRME---E 496

Query: 175 WSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMI 234
           W + + ++ +T I L       LP+ +                  +SSL IPN FFE M 
Sbjct: 497 WPNMDELQKFTMIYLDCCDIRELPEGL----------------NHNSSLKIPNTFFEGMK 540

Query: 235 QVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQL 294
           Q++V++ T M+L  LPSSL  L+NLRTL L  CKL DI++  ELKKLEIL L  SDI+QL
Sbjct: 541 QLKVLDFTNMHLPSLPSSLHCLANLRTLCLDACKLGDITIIAELKKLEILSLMDSDIEQL 600

Query: 295 PVEL 298
           P EL
Sbjct: 601 PREL 604

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147777048|emb|CAN65562.1| hypothetical protein VITISV_009359 [Vitis vinifera]

 Score =  237 bits (604), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 138/302 (45%), Positives = 196/302 (64%), Gaps = 10/302 (3%)

Query: 2   AGDYVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFKH 61
           AGD +E  EL+ +A DVAKEC GLP++IV VA+AL++ ++  WKDAL+QL   +STN   
Sbjct: 318 AGDSIENPELQPIAVDVAKECAGLPIAIVTVAKALKNKNVAIWKDALQQLESQTSTNITG 377

Query: 62  IQPEAYKATALSYDKLEGEELKNLFLLIGYAYVE-SIDELLRYGVGLGLFQGISKLDEAR 120
           ++ + Y +  LSY+ LEG+E+K+L LL G  Y +  I +LL+YGVGL LFQG + L+EA+
Sbjct: 378 METKVYSSLKLSYEHLEGDEMKSLCLLCGLCYSQIYISDLLKYGVGLRLFQGTNTLEEAK 437

Query: 121 DRVSTLVYKLKASCMLLDEG----LPMHDVIRDVAISIVSAEKNVFTATGELFDGCMEWS 176
           +R+ TLV KLK+S  LL+ G    + MHD++R  A  I S + +VFT          EW 
Sbjct: 438 NRIDTLVDKLKSSNFLLETGHNAVVRMHDLVRSTARKIASEQLHVFTHQKTTVR-VEEWP 496

Query: 177 DENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQV 236
             + ++  T + L D   + LP+ +L  CP+L+LF  +   + SS++ IP+ FFE M Q+
Sbjct: 497 RTDELQKVTWVSLGDCDIHELPEGLL--CPELELF--QCYQKTSSAVKIPHTFFEGMKQL 552

Query: 237 RVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLPV 296
            V++ + M L  LP SL  L+NLRTL L  CKL DI +  +LKKLEIL L  SDI+QLP 
Sbjct: 553 EVLDFSNMQLPSLPLSLQCLANLRTLCLDGCKLGDIVIIAKLKKLEILSLIDSDIEQLPR 612

Query: 297 EL 298
           E+
Sbjct: 613 EI 614

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147865073|emb|CAN83232.1| hypothetical protein VITISV_021876 [Vitis vinifera]

 Score =  234 bits (598), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 140/308 (45%), Positives = 202/308 (65%), Gaps = 22/308 (7%)

Query: 2   AGDYVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFKH 61
           AGD +E  EL+ +A DVAKEC GLP++IV VA+AL++ ++  WKDAL+QL   +STN   
Sbjct: 318 AGDSIENPELQPIAVDVAKECAGLPIAIVTVAKALKNKNVSIWKDALQQLNSQTSTNITG 377

Query: 62  IQPEAYKATALSYDKLEGEELKNLFLLIG----YAYVESIDELLRYGVGLGLFQGISKLD 117
           ++ + Y +  LSY+ LEG+E+K+LFLL G    Y Y   I +LL+YG+GL LFQG + L+
Sbjct: 378 METKVYSSLKLSYEHLEGDEVKSLFLLCGLFSNYIY---IRDLLKYGMGLRLFQGTNTLE 434

Query: 118 EARDRVSTLVYKLKASCMLLDEG----LPMHDVIRDVAISIVSAEKNVFT---ATGELFD 170
           EA++R+ TLV  LK+S +LL+ G    + MHDV+R VA+ I S + +VFT    TG +  
Sbjct: 435 EAKNRIDTLVDNLKSSNLLLETGHNAVVRMHDVVRSVALDISSKDHHVFTLQQTTGRV-- 492

Query: 171 GCMEWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFF 230
              +W   + ++    +   +   + LP+ ++  CP+LKLF      + +S++ IPN FF
Sbjct: 493 --EKWPRIDELQKVIWVNQDECDIHELPEGLV--CPKLKLFICCL--KTNSAVKIPNTFF 546

Query: 231 EKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSD 290
           E M Q++V++ T M+L  LPSSL  L+NL+TL L  CKL DI +  ELKKLEIL L  SD
Sbjct: 547 EGMKQLQVLDFTQMHLPSLPSSLQCLANLQTLLLYGCKLGDIGIITELKKLEILSLIDSD 606

Query: 291 IQQLPVEL 298
           I+QLP E+
Sbjct: 607 IEQLPREI 614

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224083434|ref|XP_002307025.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222856474|gb|EEE94021.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  230 bits (586), Expect = 6e-58,   Method: Compositional matrix adjust.
 Identities = 139/303 (45%), Positives = 193/303 (63%), Gaps = 15/303 (4%)

Query: 1   MAGDYVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFK 60
           MAGD+VE  +L+ +A +VAK C GLPV+IV VARAL++ ++ +WK+AL++L+RPS  NF 
Sbjct: 323 MAGDHVEHPDLQSLAIEVAKMCAGLPVAIVTVARALKNKNLSQWKNALRELKRPSPRNFA 382

Query: 61  HIQPEAYKATALSYDKLEGEELKNLFLLIG-YAYVESIDELLRYGVGLGLFQGISKLDEA 119
            +Q + Y A  LSY+ LE +ELK+ FLL     Y  S  +LL+YG+GLGLF G   ++EA
Sbjct: 383 GVQEDVYAAIELSYNHLESKELKSTFLLCSRMGYNASTRDLLKYGMGLGLFSGFVTVEEA 442

Query: 120 RDRVSTLVYKLKASCMLL----DEGLPMHDVIRDVAISIVSAEKNVFTATGELFDGCMEW 175
           +DRV +LV+KLKAS +LL    D    MHD +RDVAISI   + +VF    E+     +W
Sbjct: 443 QDRVHSLVHKLKASGLLLENHSDWQFSMHDAVRDVAISIAFRDCHVFVGGDEVEP---KW 499

Query: 176 SDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQ 235
           S +N +K Y  I L    +N+   R + E PQLK   VR+   E  SL I +N    M +
Sbjct: 500 SAKNMLKKYKEIWL---SSNIELLREM-EYPQLKFLHVRS---EDPSLEISSNICRGMHK 552

Query: 236 VRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLP 295
           ++V+ LT ++L+ LPS L  L NLRTL L    L +I+  GELKKLEIL    S+I+ LP
Sbjct: 553 LKVLVLTNISLVSLPSPLHFLKNLRTLCLHQSSLGEIADIGELKKLEILSFAKSNIKHLP 612

Query: 296 VEL 298
            ++
Sbjct: 613 RQI 615

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488103|ref|XP_002263579.2| PREDICTED: disease resistance protein At4g27190-like [Vitis vinifera]

 Score =  227 bits (579), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 135/302 (44%), Positives = 195/302 (64%), Gaps = 11/302 (3%)

Query: 2   AGDYVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFKH 61
           AGD +E  EL+ +A DVAKEC GLP++IV VA+AL++ ++  WKDAL+QL+  +STN   
Sbjct: 318 AGDSIENPELQPIAVDVAKECAGLPIAIVTVAKALKNKNVSIWKDALQQLKSQTSTNITG 377

Query: 62  IQPEAYKATALSYDKLEGEELKNLFLLIG-YAYVESIDELLRYGVGLGLFQGISKLDEAR 120
           ++ + Y +  LSY+ LEG+E+K+L LL G ++    I +LL+YGVGL LFQG + L+E +
Sbjct: 378 METKVYSSLKLSYEHLEGDEVKSLCLLCGLFSRYIHIRDLLKYGVGLRLFQGTNTLEEVK 437

Query: 121 DRVSTLVYKLKASCMLLDEG----LPMHDVIRDVAISIVSAEKNVFTATGELFDGCMEWS 176
           +R+ TLV  LK+S  LL+ G    + MHD++R  A  I S + +VFT          EWS
Sbjct: 438 NRIDTLVDNLKSSNFLLETGRNAVVRMHDLVRSTARKIASEQHHVFTHQKTTVR-VEEWS 496

Query: 177 DENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQV 236
             + +++ T + L     + LP+ ++  CP+L+ F      + + ++ IPN FFE M Q+
Sbjct: 497 RIDELQV-TWVKLHHCDIHELPEGLV--CPKLEFFECFL--KTNLAVKIPNTFFEGMKQL 551

Query: 237 RVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLPV 296
           +V++LT M L  LP SL  L+NLRTL L  CKL DI +  ELKKLEIL L  SDI+QLP 
Sbjct: 552 KVLDLTGMQLPSLPLSLQSLANLRTLCLDGCKLGDIVIIAELKKLEILSLMDSDIEQLPR 611

Query: 297 EL 298
           E+
Sbjct: 612 EI 613

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488095|ref|XP_002270726.2| PREDICTED: probable disease resistance protein At4g27220-like [Vitis vinifera]

 Score =  226 bits (577), Expect = 8e-57,   Method: Compositional matrix adjust.
 Identities = 132/302 (43%), Positives = 196/302 (64%), Gaps = 11/302 (3%)

Query: 2   AGDYVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFKH 61
           AGD ++  EL+ +A DVAKEC GLP++IV VA+AL++ ++  WKDAL+QL+  +STN   
Sbjct: 318 AGDSIKNPELQPIAVDVAKECAGLPIAIVTVAKALKNKNVSIWKDALQQLKSQTSTNITG 377

Query: 62  IQPEAYKATALSYDKLEGEELKNLFLLIG-YAYVESIDELLRYGVGLGLFQGISKLDEAR 120
           ++ + Y +  LSY+ LEG+E+K+L LL G ++    I +LL+YGVGL LFQG + L+EA+
Sbjct: 378 METKVYSSLKLSYEHLEGDEVKSLCLLCGLFSSDIHIGDLLKYGVGLRLFQGTNTLEEAK 437

Query: 121 DRVSTLVYKLKASCMLLDEG----LPMHDVIRDVAISIVSAEKNVFTATGELFDGCMEWS 176
           +R+ TLV  LK+S  LL+      + MHD++R  A  I S +++VFT          EWS
Sbjct: 438 NRIDTLVDNLKSSNFLLETDHNAYVRMHDLVRSTARKIASEQRHVFTHQKTTVR-VEEWS 496

Query: 177 DENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQV 236
             + +++ T + L D   + LP+ ++  CP+L+ F      +  S++ IPN FFE M Q+
Sbjct: 497 RIDELQV-TWVKLHDCDIHELPEGLV--CPKLEFFECFL--KTHSAVKIPNTFFEGMKQL 551

Query: 237 RVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLPV 296
           +V++ + M L  LP S+  L+NLRTL L  CKL DI +  ELKKLEIL L  SD++QLP 
Sbjct: 552 KVLDFSRMQLPSLPLSIQCLANLRTLCLDGCKLGDIVIIAELKKLEILSLMSSDMEQLPR 611

Query: 297 EL 298
           E+
Sbjct: 612 EI 613

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224111284|ref|XP_002332949.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222834261|gb|EEE72738.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  220 bits (561), Expect = 5e-55,   Method: Compositional matrix adjust.
 Identities = 135/304 (44%), Positives = 185/304 (60%), Gaps = 18/304 (5%)

Query: 1   MAGDYVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFK 60
           M G  V+   ++ VA +VAK C GLP+ +  VARAL++  ++ WKDALKQL R    +  
Sbjct: 315 MVGVTVKNPSVQPVAAEVAKRCAGLPILLATVARALKNEDLYAWKDALKQLTR---FDKD 371

Query: 61  HIQPEAYKATALSYDKLEGEELKNLFLLIGY--AYVESIDELLRYGVGLGLFQGISKLDE 118
            I  + Y    LSY  L G+E+K+LFLL G    Y  SI +LL+Y +GL LF+G S L+E
Sbjct: 372 EIDNQVYSCLELSYKALRGDEIKSLFLLCGQFLTYDSSISDLLKYAIGLDLFKGRSTLEE 431

Query: 119 ARDRVSTLVYKLKASCMLL----DEGLPMHDVIRDVAISIVSAEKNVFTATGELFDGCME 174
           AR+R+ TLV +LKASC+LL    D  + MHDV++  A S+ S + +V     E      E
Sbjct: 432 ARNRLRTLVDELKASCLLLEGDKDGRVKMHDVVQSFAFSVASRDHHVLIVADEF----KE 487

Query: 175 WSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMI 234
           W   + ++ YT+I L   K   LP   + ECP L  F +     +  SL IP+NFF +M 
Sbjct: 488 WPTSDVLQQYTAISLPYRKIPDLP--AILECPNLNSFILL---NKDPSLQIPDNFFREMK 542

Query: 235 QVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQL 294
           +++V++LT +NL PLPSSL  L NL+TL L  C L DIS+ GELKKL++L L  SDI  L
Sbjct: 543 ELKVLDLTRVNLSPLPSSLQFLENLQTLCLDGCVLEDISIVGELKKLKVLSLISSDIVCL 602

Query: 295 PVEL 298
           P E+
Sbjct: 603 PREI 606

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143583|emb|CBI22336.3| unnamed protein product [Vitis vinifera]

 Score =  218 bits (554), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 133/306 (43%), Positives = 194/306 (63%), Gaps = 18/306 (5%)

Query: 2   AGDYVEGS-ELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFK 60
           AGD VE + EL+  A++V KEC GLPV+IV +A+AL+  S+  WK+AL++LR  + TN +
Sbjct: 294 AGDSVENNLELQPTAKEVVKECEGLPVAIVTIAKALKDESVAVWKNALEELRSSAPTNIR 353

Query: 61  HIQPEAYKATALSYDKLEGEELKNLFLLIG---YAYVESIDELLRYGVGLGLFQGISKLD 117
            +  + Y     SY+ L G+E+K+LFLL G   Y  + S+D L RY +GL LF  I  L+
Sbjct: 354 GVDDKVYGCLKWSYNHL-GDEVKSLFLLCGSLSYGDI-SMDHLFRYAMGLDLFDHIKSLE 411

Query: 118 EARDRVSTLVYKLKASCMLL-----DEGLPMHDVIRDVAISIVSAEKNVFTATGELFDGC 172
           +AR+++ TLV  LKAS  LL     ++ + MH V R+VA +I S + + F    +L  G 
Sbjct: 412 QARNKLVTLVRTLKASSFLLFMDADNKFVRMHGVAREVARAIASKDPHPFVVREDL--GF 469

Query: 173 MEWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEK 232
            EWS+ +  +  T   L       LP  ++  CP+L+ F +   H ++ SL IPN FFE 
Sbjct: 470 EEWSETHEFEKCTFTSLNCKAVLELPQGLV--CPELQFFLL---HNDNPSLNIPNTFFEG 524

Query: 233 MIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQ 292
           M +++V++L+YM+   LPSSL  L++LRTL L +CKL+DIS+ G+L KLE+L L GS IQ
Sbjct: 525 MKKLKVLDLSYMHFTTLPSSLDSLASLRTLRLDWCKLVDISLIGKLVKLEVLSLVGSTIQ 584

Query: 293 QLPVEL 298
           QLP E+
Sbjct: 585 QLPNEM 590

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	298
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.959	0.311	0.278	1.3e-21
TAIR|locus:2136447	985	AT4G27190 [Arabidopsis thalian	0.966	0.292	0.259	3e-18
TAIR|locus:2171579	843	AT5G47250 [Arabidopsis thalian	0.744	0.263	0.285	1.6e-11
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.768	0.257	0.269	5.1e-10
TAIR|locus:2005517	909	RPS2 "RESISTANT TO P. SYRINGAE	0.771	0.253	0.258	3.5e-09
TAIR|locus:2036214	851	AT1G15890 [Arabidopsis thalian	0.489	0.171	0.290	2.1e-08
TAIR|locus:2153474	874	AT5G05400 [Arabidopsis thalian	0.620	0.211	0.293	8.2e-08
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.463	0.155	0.288	4.1e-07
TAIR|locus:2031366	898	AT1G63350 "AT1G63350" [Arabido	0.768	0.255	0.232	9.2e-07
TAIR|locus:2031356	884	AT1G63360 [Arabidopsis thalian	0.751	0.253	0.245	2e-06

TAIR|locus:2131689 AT4G27220 [Arabidopsis thaliana (taxid:3702)]

 Score = 264 (98.0 bits), Expect = 1.3e-21, P = 1.3e-21
 Identities = 84/302 (27%), Positives = 138/302 (45%)

Query:     3 GDYVEGSELKCVARDVAKECVGLPVSIVAVARALRSA-SIFKWKDALKQLRRPSSTNFKH 61
             G+      +K +A+DV+ EC GLP++I+ + R LR    +  WK  L  L+R S+ +   
Sbjct:   286 GEVANSDNVKPIAKDVSHECCGLPLAIITIGRTLRGKPQVEVWKHTLNLLKR-SAPSID- 343

Query:    62 IQPEAYKATALSYDKLEGEELKNLFL---LIGYAYVESIDELLRYGVGLGLFQGISKLDE 118
              + + +    LSYD L+ + +K+ FL   L    Y   + EL+ Y V  GL  G    ++
Sbjct:   344 TEEKIFGTLKLSYDFLQ-DNMKSCFLFCALFPEDYSIKVSELIMYWVAEGLLDGQHHYED 402

Query:   119 ARDRVSTLVYKLKASCMLLD----EGLPMHDVIRDVAISIVSAEKNVFTATGELFDGCME 174
               +   TLV +LK SC+L D    + + MHDV+RD AI  +S++   F +      G +E
Sbjct:   403 MMNEGVTLVERLKDSCLLEDGDSCDTVKMHDVVRDFAIWFMSSQGEGFHSLVMAGRGLIE 462

Query:   175 WSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMI 234
             +  +  V     + L   K   LP+ V+     L L      H +     +PN F +   
Sbjct:   463 FPQDKFVSSVQRVSLMANKLERLPNNVIEGVETLVLLLQGNSHVKE----VPNGFLQAFP 518

Query:   235 QVRVINLTYMXXXXXXXXXXXXXXXXXXXXCYCKLL-DISVTGELKKLEILCLRGSDIQQ 293
              +R+++L+ +                      CK L ++     L KL+ L L  S I++
Sbjct:   519 NLRILDLSGVRIRTLPDSFSNLHSLRSLVLRNCKKLRNLPSLESLVKLQFLDLHESAIRE 578

Query:   294 LP 295
             LP
Sbjct:   579 LP 580

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2136447 AT4G27190 [Arabidopsis thaliana (taxid:3702)]

 Score = 233 (87.1 bits), Expect = 3.0e-18, P = 3.0e-18
 Identities = 79/305 (25%), Positives = 137/305 (44%)

Query:     2 AGDYVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFK-WKDALKQLRRPSSTNFK 60
             AGD V    ++ +A+ V++EC GLP++I+ V  A+R     K W   L +L + S    K
Sbjct:   315 AGDVVRSDHVRKIAKAVSQECGGLPLAIITVGTAMRGKKNVKLWNHVLSKLSK-SVPWIK 373

Query:    61 HIQPEAYKATALSYDKLEGEELKNLFLLIGYA---YVESIDELLRYGVGLGLFQGISKLD 117
              I+ + ++   LSYD LE ++ K  FLL       Y   + E++RY +  G  + +   +
Sbjct:   374 SIEEKIFQPLKLSYDFLE-DKAKFCFLLCALFPEDYSIEVTEVVRYWMAEGFMEELGSQE 432

Query:   118 EARDRVSTLVYKLKASCMLLD----EGLPMHDVIRDVAISIVSAEKNVFTATGELFDGCM 173
             ++ +   T V  LK  C+L D    + + MHDV+RD AI I+S+ ++   +      G  
Sbjct:   433 DSMNEGITTVESLKDYCLLEDGDRRDTVKMHDVVRDFAIWIMSSSQDDSHSLVMSGTGLQ 492

Query:   174 EWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKM 233
             +   +        + L + K   LPD V   C +  +  ++ +        +P  F +  
Sbjct:   493 DIRQDKLAPSLRRVSLMNNKLESLPDLVEEFCVKTSVLLLQGNFLLKE---VPIGFLQAF 549

Query:   234 IQVRVINLT---YMXXXXXXXXXXXXXXXXXXXXCYCKLLDISVTGELKKLEILCLRGSD 290
               +R++NL+                         C+ KL+ +     L KLE+L L G+ 
Sbjct:   550 PTLRILNLSGTRIKSFPSCSLLRLFSLHSLFLRDCF-KLVKLPSLETLAKLELLDLCGTH 608

Query:   291 IQQLP 295
             I + P
Sbjct:   609 ILEFP 613

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

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

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2171579 AT5G47250 [Arabidopsis thaliana (taxid:3702)]

 Score = 183 (69.5 bits), Expect = 1.6e-11, Sum P(2) = 1.6e-11
 Identities = 71/249 (28%), Positives = 122/249 (48%)

Query:     9 SELKCVARDVAKECVGLPVSIVAVARALRSAS-IFKWKDALKQLRRPSSTNFKHIQPEAY 67
             +E+  +A+ +  +C GLP+++  + + + S S + +W+ AL  L    S   K  +   +
Sbjct:   332 NEISDIAKKIVAKCCGLPLALEVIRKTMASKSTVIQWRRALDTLESYRS-EMKGTEKGIF 390

Query:    68 KATALSYDKLEGEELKNLFL---LIGYAYVESIDELLRYGVGLGLFQGISKLDEARDRVS 124
             +   LSYD L+ +  K  FL   L   AY    DEL+ Y +G G        + A+DR  
Sbjct:   391 QVLKLSYDYLKTKNAK-CFLYCALFPKAYYIKQDELVEYWIGEGFIDEKDGRERAKDRGY 449

Query:   125 TLVYKLKASCMLLDEG--LPMHDVIRDVAISIVS----AEKNVF-TATG--ELFDGCMEW 175
              ++  L  + +LL+    + MHD+IRD+A+ IVS     E+ V  T  G  +L D   +W
Sbjct:   450 EIIDNLVGAGLLLESNKKVYMHDMIRDMALWIVSEFRDGERYVVKTDAGLSQLPD-VTDW 508

Query:   176 SDENAVKLYTSIVLRDIKTNVLPDRVLPECP-QLKLFSVRADHQESSSLTIPNNFFEKMI 234
             +    + L+ +    +IK   +PD   PE P Q  L ++    Q +  + I   FF  M 
Sbjct:   509 TTVTKMSLFNN----EIKN--IPDD--PEFPDQTNLVTLFL--QNNRLVDIVGKFFLVMS 558

Query:   235 QVRVINLTY 243
              + V++L++
Sbjct:   559 TLVVLDLSW 567

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

TAIR|locus:2166320 AT5G63020 [Arabidopsis thaliana (taxid:3702)]

 Score = 171 (65.3 bits), Expect = 5.1e-10, P = 5.1e-10
 Identities = 68/252 (26%), Positives = 123/252 (48%)

Query:     3 GDYVEGS--ELKCVARDVAKECVGLPVSIVAVARALR-SASIFKWKDALKQLRRPSSTNF 59
             G+   GS  E+  VAR VAK+C GLP+++  +   +    ++ +W+ A+  L   S+  F
Sbjct:   325 GEITLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVLTS-SAAEF 383

Query:    60 KHIQPEAYKATALSYDKLEGEELKNLFLLIG-YAYVESID--ELLRYGVGLGLFQGISKL 116
               ++ E       SYD L+ E+LK  F     +    +I+  +L+ Y +G G F   +K 
Sbjct:   384 SGMEDEILPILKYSYDNLKSEQLKLCFQYCALFPEDHNIEKNDLVDYWIGEG-FIDRNK- 441

Query:   117 DEARDRVSTLVYKLKASCMLLDEG---LPMHDVIRDVAISIVS---AEKNVFTATGELFD 170
              +A ++   ++  L  SC+L++E    + MHDV+R++A+ I S    +K  F     L  
Sbjct:   442 GKAENQGYEIIGILVRSCLLMEENQETVKMHDVVREMALWIASDFGKQKENFIVQAGLQS 501

Query:   171 GCMEWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFF 230
               +   ++  V    S++  +I++     R  PE PQL    +R +        I ++FF
Sbjct:   502 RNIPEIEKWKVARRVSLMFNNIESI----RDAPESPQLITLLLRKNFLGH----ISSSFF 553

Query:   231 EKMIQVRVINLT 242
               M  + V++L+
Sbjct:   554 RLMPMLVVLDLS 565

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2005517 RPS2 "RESISTANT TO P. SYRINGAE 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 164 (62.8 bits), Expect = 3.5e-09, P = 3.5e-09
 Identities = 65/251 (25%), Positives = 119/251 (47%)

Query:     4 DYVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFK-WKDALKQLRRPSSTNFKHI 62
             D +E S ++ +A  +  +C GLP++++ +  A+      + W  A + L R      K +
Sbjct:   327 DLLESSSIRRLAEIIVSKCGGLPLALITLGGAMAHRETEEEWIHASEVLTR-FPAEMKGM 385

Query:    63 QPEAYKATALSYDKLEGEELKNLFL---LIGYAYVESIDELLRYGVGLGLFQGISKLDEA 119
                 +     SYD LE + L++ FL   L    +   I++L+ Y VG G       ++  
Sbjct:   386 N-YVFALLKFSYDNLESDLLRSCFLYCALFPEEHSIEIEQLVEYWVGEGFLTSSHGVNTI 444

Query:   120 RDRVSTLVYKLKASCMLL--DEG--LPMHDVIRDVAISIVSAEKNVFTATGELFDGCMEW 175
               +   L+  LKA+C+L   DE   + MH+V+R  A+ + S E+  +     L +  M  
Sbjct:   445 Y-KGYFLIGDLKAACLLETGDEKTQVKMHNVVRSFALWMAS-EQGTYKEL-ILVEPSMGH 501

Query:   176 SDENAVKLYTS---IVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEK 232
             ++    + +     I L D +   LP++++  CP+L    ++   Q SS   IP  FF  
Sbjct:   502 TEAPKAENWRQALVISLLDNRIQTLPEKLI--CPKLTTLMLQ---QNSSLKKIPTGFFMH 556

Query:   233 MIQVRVINLTY 243
             M  +RV++L++
Sbjct:   557 MPVLRVLDLSF 567

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

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

GO:0016045 "detection of bacterium" evidence=RCA;IMP

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

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

GO:0000165 "MAPK cascade" evidence=RCA

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

GO:0009595 "detection of biotic stimulus" evidence=RCA

GO:0009617 "response to bacterium" evidence=RCA

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

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

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

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

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

GO:0010200 "response to chitin" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

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

GO:0031347 "regulation of defense response" evidence=RCA

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

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

GO:0043900 "regulation of multi-organism process" evidence=RCA

GO:0045087 "innate immune response" evidence=RCA

GO:0050776 "regulation of immune response" evidence=RCA

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

GO:0051707 "response to other organism" evidence=RCA

TAIR|locus:2036214 AT1G15890 [Arabidopsis thaliana (taxid:3702)]

 Score = 157 (60.3 bits), Expect = 2.1e-08, P = 2.1e-08
 Identities = 45/155 (29%), Positives = 80/155 (51%)

Query:    10 ELKCVARDVAKECVGLPVSIVAVARALRSA-SIFKWKDALKQLRRPSSTNFKHIQPEAYK 68
             ++  +AR VA++C GLP+++  + +A+ S  ++ +W+  +  L   SS  F  ++ +   
Sbjct:   333 DIPTLARKVAEKCCGLPLALSVIGKAMASRETVQEWQHVIHVLNS-SSHEFPSMEEKILP 391

Query:    69 ATALSYDKLEGEELKNLFL---LIGYAYVESIDELLRYGVGLGLFQGISKLDEARDRVST 125
                 SYD L+ E++K  FL   L    Y    +EL+ Y +  G   G    D A ++   
Sbjct:   392 VLKFSYDDLKDEKVKLCFLYCSLFPEDYEVRKEELIEYWMCEGFIDGNEDEDGANNKGHD 451

Query:   126 LVYKLKASCMLLDEGLP----MHDVIRDVAISIVS 156
             ++  L  + +L+D  L     MHDVIR++A+ I S
Sbjct:   452 IIGSLVRAHLLMDGELTTKVKMHDVIREMALWIAS 486

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2153474 AT5G05400 [Arabidopsis thaliana (taxid:3702)]

 Score = 152 (58.6 bits), Expect = 8.2e-08, P = 8.2e-08
 Identities = 63/215 (29%), Positives = 102/215 (47%)

Query:    14 VARDVAKECVGLPVSIVAVARAL-RSASIFKWKDALKQLRRPSSTNFKHIQPEAYKATAL 72
             VA+ +A++C GLP+++  +   + R  SI +W DA+          F  I+ +       
Sbjct:   337 VAKSIARKCNGLPLALNVIGETMARKKSIEEWHDAVGV--------FSGIEADILSILKF 388

Query:    73 SYDKLEGEELKNLFL---LIGYAYVESIDELLRYGVGLGLFQGISKLD-EARDRVSTLV- 127
             SYD L+ E+ K+ FL   L    Y    D+L+ Y VG G+  G   ++ +    + TL  
Sbjct:   389 SYDDLKCEKTKSCFLFSALFPEDYEIGKDDLIEYWVGQGIILGSKGINYKGYTIIGTLTR 448

Query:   128 -YKLKASCMLLDEGLPMHDVIRDVAISIVSA-----EKNVFT--ATGELFDGCMEWSDEN 179
              Y LK S     E + MHDV+R++A+ I S      +KNV    A  +L D   +  D+ 
Sbjct:   449 AYLLKES--ETKEKVKMHDVVREMALWISSGCGDQKQKNVLVVEANAQLRD-IPKIEDQK 505

Query:   180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVR 214
             AV+   S++   I+        L  CP+L+   +R
Sbjct:   506 AVRRM-SLIYNQIEEAC---ESL-HCPKLETLLLR 535

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0006826 "iron ion transport" evidence=RCA

GO:0010106 "cellular response to iron ion starvation" evidence=RCA

GO:0010167 "response to nitrate" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

TAIR|locus:2201996 RPS5 "AT1G12220" [Arabidopsis thaliana (taxid:3702)]

 Score = 146 (56.5 bits), Expect = 4.1e-07, P = 4.1e-07
 Identities = 45/156 (28%), Positives = 82/156 (52%)

Query:    14 VARDVAKECVGLPVSIVAVARALR-SASIFKWKDALKQLRRPSSTNFKHIQPEAYKATAL 72
             +AR VA++C GLP+++  +  A+    ++ +W  A+  L   S+ +F  ++ E       
Sbjct:   340 LARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLTS-SAIDFSGMEDEILHVLKY 398

Query:    73 SYDKLEGEELKNLFL---LIGYAYVESIDELLRYGVGLGLF---QGISK-LDEARDRVST 125
             SYD L GE +K+ FL   L    Y+   + L+ Y +  G     +G  + +++  + + T
Sbjct:   399 SYDNLNGELMKSCFLYCSLFPEDYLIDKEGLVDYWISEGFINEKEGRERNINQGYEIIGT 458

Query:   126 LVYKLKASCMLLDE-----GLPMHDVIRDVAISIVS 156
             LV     +C+LL+E      + MHDV+R++A+ I S
Sbjct:   459 LV----RACLLLEEERNKSNVKMHDVVREMALWISS 490

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

GO:0006952 "defense response" evidence=IMP;TAS

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

TAIR|locus:2031366 AT1G63350 "AT1G63350" [Arabidopsis thaliana (taxid:3702)]

 Score = 143 (55.4 bits), Expect = 9.2e-07, P = 9.2e-07
 Identities = 60/258 (23%), Positives = 125/258 (48%)

Query:     3 GDYVEGS--ELKCVARDVAKECVGLPVSIVAVARALR-SASIFKWKDALKQLRRPSSTNF 59
             G    GS  E++ ++R VAK+C GLP+++  V+  +    ++ +W+ A+  L   ++  F
Sbjct:   323 GQITLGSDPEIRELSRVVAKKCCGLPLALNVVSETMSCKRTVQEWRHAIYVLNSYAA-KF 381

Query:    60 KHIQPEAYKATALSYDKLEGEELKNLFLLIGYAYVESI----DELLRYGVGLGLFQGISK 115
               +  +       SYD L+GE++K + LL    + E      + L+ Y +   +  G   
Sbjct:   382 SGMDDKILPLLKYSYDSLKGEDVK-MCLLYCALFPEDAKIRKENLIEYWICEEIIDGSEG 440

Query:   116 LDEARDRVSTLVYKLKASCMLLDE----G---LPMHDVIRDVAISIVS---AEKNVFTAT 165
             +D+A ++   ++  L  + +L++E    G   + +HDV+R++A+ I S    +   F   
Sbjct:   441 IDKAENQGYEIIGSLVRASLLMEEVELDGANIVCLHDVVREMALWIASDLGKQNEAFIVR 500

Query:   166 GEL-FDGCMEWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLT 224
               +     ++  + N V+   S++  +I    L  R+  +C +L    +++ H E     
Sbjct:   501 ASVGLREILKVENWNVVRRM-SLMKNNIAH--LDGRL--DCMELTTLLLQSTHLEK---- 551

Query:   225 IPNNFFEKMIQVRVINLT 242
             I + FF  M ++ V++L+
Sbjct:   552 ISSEFFNSMPKLAVLDLS 569

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2031356 AT1G63360 [Arabidopsis thaliana (taxid:3702)]

 Score = 140 (54.3 bits), Expect = 2.0e-06, P = 2.0e-06
 Identities = 61/248 (24%), Positives = 116/248 (46%)

Query:    14 VARDVAKECVGLPVSIVAVARALR-SASIFKWKDALKQLRRPSSTNFKHIQPEAYKATAL 72
             +AR VAK+C GLP+++  +   +    +I +W+ A+  L   ++  F  ++ +       
Sbjct:   336 LARIVAKKCCGLPLALNVIGETMSCKRTIQEWRHAIHVLNSYAA-EFIGMEDKVLPLLKY 394

Query:    73 SYDKLEGEELKNLFLLIGYAYVESI----DELLRYGVGLGLFQGISKLDEARDRVSTLVY 128
             SYD L+GE++K+  L     Y E      ++L+ + +   +  G   +++A D+   ++ 
Sbjct:   395 SYDNLKGEQVKSSLLYCAL-YPEDAKILKEDLIEHWICEEIIDGSEGIEKAEDKGYEIIG 453

Query:   129 KLKASCMLL--DEG-----LPMHDVIRDVAISIVSA---EKNVFTATGELFDGCMEWSDE 178
              L  + +L+  D+G     + MHDV+R++A+ I S    +K  F     +  G  E    
Sbjct:   454 CLVRASLLMEWDDGDGRRAVCMHDVVREMALWIASELGIQKEAFIVRAGV--GVREIPKI 511

Query:   179 NAVKLYTSIVLRDIKTNVLPDRVLPECPQLK--LFSVRADHQESSSL-TIPNNFFEKMIQ 235
                 +   + L + K + L      EC +L   L   R      S L TI + FF  M +
Sbjct:   512 KNWNVVRRMSLMENKIHHLVGSY--ECMELTTLLLGKREYGSIRSQLKTISSEFFNCMPK 569

Query:   236 VRVINLTY 243
             + V++L++
Sbjct:   570 LAVLDLSH 577

GO:0005634 "nucleus" evidence=ISM

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

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	298
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	3e-07
pfam12799	43	pfam12799, LRR_4, Leucine Rich repeats (2 copies)	0.003

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

 Score = 50.4 bits (121), Expect = 3e-07
 Identities = 24/82 (29%), Positives = 40/82 (48%), Gaps = 4/82 (4%)

Query: 7   EGSELKCVARDVAKECVGLPVSIVAVARALRSAS-IFKWKDALKQLRRPSSTNFKHIQPE 65
              EL+ VA+++ ++C GLP+++  +   L   S + +W+  L+QL        +    E
Sbjct: 176 PCPELEEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNN--ELAGRDGLNE 233

Query: 66  AYKATALSYDKLEGEELKNLFL 87
                +LSYD L    LK  FL
Sbjct: 234 VLSILSLSYDNLP-MHLKRCFL 254

Length = 285

>gnl|CDD|205079 pfam12799, LRR_4, Leucine Rich repeats (2 copies)

 Score = 34.8 bits (81), Expect = 0.003
 Identities = 14/39 (35%), Positives = 18/39 (46%)

Query: 258 NLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLPV 296
           NL TL L   ++ D+     L  LE L L G+ I  L  
Sbjct: 2   NLETLDLSNNQITDLPPLSNLPNLETLDLSGNKITDLSP 40

Leucine rich repeats are short sequence motifs present in a number of proteins with diverse functions and cellular locations. These repeats are usually involved in protein-protein interactions. Each Leucine Rich Repeat is composed of a beta-alpha unit. These units form elongated non-globular structures. Leucine Rich Repeats are often flanked by cysteine rich domains. Length = 43

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	298
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.98
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.67
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.33
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.12
KOG0472	565	consensus Leucine-rich repeat protein [Function un	98.96
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	98.92
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	98.89
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.87
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	98.86
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.82
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.8
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.76
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	98.72
KOG0472	565	consensus Leucine-rich repeat protein [Function un	98.71
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.66
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.65
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	98.65
PLN03150	623	hypothetical protein; Provisional	98.62
PLN03150	623	hypothetical protein; Provisional	98.59
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	98.57
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.56
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	98.45
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	98.44
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	98.41
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	98.41
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	98.4
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.4
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.38
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.36
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	98.27
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.16
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.08
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.07
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	97.93
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.93
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	97.92
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.88
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	97.74
PRK15386	426	type III secretion protein GogB; Provisional	97.74
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.64
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	97.64
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.63
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	97.61
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.6
KOG4237	498	consensus Extracellular matrix protein slit, conta	97.55
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.29
PRK15386	426	type III secretion protein GogB; Provisional	97.22
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.1
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	97.0
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	96.91
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	96.88
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	96.79
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	96.72
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.68
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	96.58
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.39
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.33
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	96.2
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	95.49
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	95.4
smart00370	26	LRR Leucine-rich repeats, outliers.	95.4
KOG2982	418	consensus Uncharacterized conserved protein [Funct	95.28
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	95.06
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	94.81
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.73
KOG2123	388	consensus Uncharacterized conserved protein [Funct	94.59
KOG2123	388	consensus Uncharacterized conserved protein [Funct	94.51
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	94.39
KOG0473	326	consensus Leucine-rich repeat protein [Function un	93.81
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	93.65
smart00370	26	LRR Leucine-rich repeats, outliers.	92.48
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	92.48
smart00364	26	LRR_BAC Leucine-rich repeats, bacterial type.	90.88
KOG2982	418	consensus Uncharacterized conserved protein [Funct	90.76
KOG3864	221	consensus Uncharacterized conserved protein [Funct	90.21
KOG0473	326	consensus Leucine-rich repeat protein [Function un	88.67
PRK04841	903	transcriptional regulator MalT; Provisional	86.65
smart00365	26	LRR_SD22 Leucine-rich repeat, SDS22-like subfamily	84.45

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=8.3e-49  Score=377.22  Aligned_cols=279  Identities=27%  Similarity=0.439  Sum_probs=245.0

Q ss_pred             CCcchHHHHHHHHHHcCCchhHHHHHHHHhcCC-CHHHHHHHHHHhcCCCCCCCCCchhhhhhHHhhhhcCCCCchhHHH
Q 040933            7 EGSELKCVARDVAKECVGLPVSIVAVARALRSA-SIFKWKDALKQLRRPSSTNFKHIQPEAYKATALSYDKLEGEELKNL   85 (298)
Q Consensus         7 ~~~~l~~i~~~i~~~c~GlPLal~~~g~~L~~k-~~~~W~~~~~~l~~~~~~~~~~~~~~~~~~l~~sY~~L~~~~lk~c   85 (298)
                      .++.++++|++||++|+|+|||++++|+.|+.| +.++|+++.+.+.+....+.++..+.++.+|++|||+||++ +|.|
T Consensus       337 ~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~~-lK~C  415 (889)
T KOG4658|consen  337 SHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPEE-LKSC  415 (889)
T ss_pred             ccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhHH-HHHH
Confidence            334599999999999999999999999999988 88899999999988866666667889999999999999977 9999


Q ss_pred             HHHhcC-C--CCCCHHHHHHHHhhcCCCCCcccHHHHHHHHHHHHHHHHhcCCcccCC-------ccchHHHHHHHHHHH
Q 040933           86 FLLIGY-A--YVESIDELLRYGVGLGLFQGISKLDEARDRVSTLVYKLKASCMLLDEG-------LPMHDVIRDVAISIV  155 (298)
Q Consensus        86 fl~~a~-p--~~~~~~~li~~wia~g~i~~~~~~~~~~~~~~~~i~~L~~~~l~~~~~-------~~mhdlv~~l~~~~~  155 (298)
                      |+|||. |  |.|++++||..|+||||+.+....+.+++.|.+++.+|+.++|++..+       |+|||+||++|.+++
T Consensus       416 FLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~~~kmHDvvRe~al~ia  495 (889)
T KOG4658|consen  416 FLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEGRKETVKMHDVVREMALWIA  495 (889)
T ss_pred             HHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccccceeEEEeeHHHHHHHHHHh
Confidence            999999 8  999999999999999999887777888999999999999999998642       999999999999999


Q ss_pred             h-----hcCceEEecCCccccCCCCCchhhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccc-cccccChHH
Q 040933          156 S-----AEKNVFTATGELFDGCMEWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQES-SSLTIPNNF  229 (298)
Q Consensus       156 ~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~-~~~~lp~~~  229 (298)
                      +     .++. +...+.+..   ..+....+..+|++++.+|.+..++..  ..+++|++|.+.+   +. ....++..+
T Consensus       496 s~~~~~~e~~-iv~~~~~~~---~~~~~~~~~~~rr~s~~~~~~~~~~~~--~~~~~L~tLll~~---n~~~l~~is~~f  566 (889)
T KOG4658|consen  496 SDFGKQEENQ-IVSDGVGLS---EIPQVKSWNSVRRMSLMNNKIEHIAGS--SENPKLRTLLLQR---NSDWLLEISGEF  566 (889)
T ss_pred             ccccccccce-EEECCcCcc---ccccccchhheeEEEEeccchhhccCC--CCCCccceEEEee---cchhhhhcCHHH
Confidence            9     5652 222222222   345666778999999999999999988  8888999999998   33 378889999


Q ss_pred             HhCCCCccEEEecCC-CCCCCCccccCCCCCcEeecCCCCCCC-CcccCCCCCCCEEeecCC-CCCCCC
Q 040933          230 FEKMIQVRVINLTYM-NLLPLPSSLGLLSNLRTLSLCYCKLLD-ISVTGELKKLEILCLRGS-DIQQLP  295 (298)
Q Consensus       230 ~~~l~~Lr~L~l~~~-~i~~lP~~i~~L~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~-~l~~lP  295 (298)
                      |..++.||||||++| .+.++|.+|+.|.|||||+++++.++. |.++++|.+|++|++..+ ++..+|
T Consensus       567 f~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~  635 (889)
T KOG4658|consen  567 FRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHLPSGLGNLKKLIYLNLEVTGRLESIP  635 (889)
T ss_pred             HhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCCccccchHHHHHHhhheecccccccccccc
Confidence            999999999999988 789999999999999999999999999 999999999999999988 444443

>PLN03210 Resistant to P

Probab=99.98  E-value=3.2e-31  Score=266.60  Aligned_cols=136  Identities=20%  Similarity=0.270  Sum_probs=111.5

Q ss_pred             CCCCCcchHHHHHHHHHHcCCchhHHHHHHHHhcCCCHHHHHHHHHHhcCCCCCCCCCchhhhhhHHhhhhcCCCCchhH
Q 040933            4 DYVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFKHIQPEAYKATALSYDKLEGEELK   83 (298)
Q Consensus         4 ~~~~~~~l~~i~~~i~~~c~GlPLal~~~g~~L~~k~~~~W~~~~~~l~~~~~~~~~~~~~~~~~~l~~sY~~L~~~~lk   83 (298)
                      +..+++++++++++||++|+|+||||+++|+.|++++..+|+.++++++...       ..+++++|++||++|++++.|
T Consensus       367 ~~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~L~~~~-------~~~I~~~L~~SYd~L~~~~~k  439 (1153)
T PLN03210        367 KNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGL-------DGKIEKTLRVSYDGLNNKKDK  439 (1153)
T ss_pred             CCCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHhCc-------cHHHHHHHHHhhhccCccchh
Confidence            4456678999999999999999999999999999999999999999987644       346799999999999864369


Q ss_pred             HHHHHhcC-CCCCCHHHHHHHHhhcCCCCCcccHHHHHHHHHHHHHHHHhcCCcccCC--ccchHHHHHHHHHHHhhc
Q 040933           84 NLFLLIGY-AYVESIDELLRYGVGLGLFQGISKLDEARDRVSTLVYKLKASCMLLDEG--LPMHDVIRDVAISIVSAE  158 (298)
Q Consensus        84 ~cfl~~a~-p~~~~~~~li~~wia~g~i~~~~~~~~~~~~~~~~i~~L~~~~l~~~~~--~~mhdlv~~l~~~~~~~~  158 (298)
                      .||+|+|+ |.+.+.+. +..|.+.+....           ...++.|+++||++...  ++|||++|+||+.+++++
T Consensus       440 ~~Fl~ia~ff~~~~~~~-v~~~l~~~~~~~-----------~~~l~~L~~ksLi~~~~~~~~MHdLl~~~~r~i~~~~  505 (1153)
T PLN03210        440 AIFRHIACLFNGEKVND-IKLLLANSDLDV-----------NIGLKNLVDKSLIHVREDIVEMHSLLQEMGKEIVRAQ  505 (1153)
T ss_pred             hhhheehhhcCCCCHHH-HHHHHHhcCCCc-----------hhChHHHHhcCCEEEcCCeEEhhhHHHHHHHHHHHhh
Confidence            99999999 76666655 555656554321           11277899999998764  999999999999998765

syringae 6; Provisional

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

Probab=99.67  E-value=1.5e-17  Score=144.23  Aligned_cols=104  Identities=27%  Similarity=0.509  Sum_probs=86.1

Q ss_pred             CCcchHHHHHHHHHHcCCchhHHHHHHHHhcCC-CHHHHHHHHHHhcCCCCCCCCCchhhhhhHHhhhhcCCCCchhHHH
Q 040933            7 EGSELKCVARDVAKECVGLPVSIVAVARALRSA-SIFKWKDALKQLRRPSSTNFKHIQPEAYKATALSYDKLEGEELKNL   85 (298)
Q Consensus         7 ~~~~l~~i~~~i~~~c~GlPLal~~~g~~L~~k-~~~~W~~~~~~l~~~~~~~~~~~~~~~~~~l~~sY~~L~~~~lk~c   85 (298)
                      .++.+++++++|+++|+|+|||++++|++|+.+ +..+|+.+++.+...... .......+..++..||+.||++ +|+|
T Consensus       177 ~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~-~~~~~~~~~~~l~~s~~~L~~~-~~~~  254 (287)
T PF00931_consen  177 SPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRE-SRDYDRSVFSALELSYDSLPDE-LRRC  254 (287)
T ss_dssp             --TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTC-SSGSCHHHHHHHHHHHHSSHTC-CHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccceechhcCCcc-HHHH
Confidence            456678899999999999999999999999755 889999999887766542 2123678999999999999998 8999


Q ss_pred             HHHhcC-C--CCCCHHHHHHHHhhcCCCCC
Q 040933           86 FLLIGY-A--YVESIDELLRYGVGLGLFQG  112 (298)
Q Consensus        86 fl~~a~-p--~~~~~~~li~~wia~g~i~~  112 (298)
                      |+|||+ |  +.++++.++++|+++||+..
T Consensus       255 f~~L~~f~~~~~i~~~~li~lW~~e~~i~~  284 (287)
T PF00931_consen  255 FLYLSIFPEGVPIPRERLIRLWVAEGFISS  284 (287)
T ss_dssp             HHHGGGSGTTS-EEHHHHHHHHTT-HHTC-
T ss_pred             HhhCcCCCCCceECHHHHHHHHHHCCCCcc
Confidence            999999 7  78999999999999999964

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

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

Probab=99.33  E-value=6.9e-14  Score=107.77  Aligned_cols=115  Identities=29%  Similarity=0.470  Sum_probs=70.4

Q ss_pred             chhhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCC-----------
Q 040933          177 DENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMN-----------  245 (298)
Q Consensus       177 ~~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~-----------  245 (298)
                      ......+++.+.+.+|+++++|.++ +.+++|+.|.+..    +.+..+|.++ ++++.|.+||+.+|+           
T Consensus        51 nia~l~nlevln~~nnqie~lp~~i-ssl~klr~lnvgm----nrl~~lprgf-gs~p~levldltynnl~e~~lpgnff  124 (264)
T KOG0617|consen   51 NIAELKNLEVLNLSNNQIEELPTSI-SSLPKLRILNVGM----NRLNILPRGF-GSFPALEVLDLTYNNLNENSLPGNFF  124 (264)
T ss_pred             cHHHhhhhhhhhcccchhhhcChhh-hhchhhhheecch----hhhhcCcccc-CCCchhhhhhccccccccccCCcchh
Confidence            3344556666666666666666653 5666666666654    4555556554 666666666666654           


Q ss_pred             --------------CCCCCccccCCCCCcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCCCC
Q 040933          246 --------------LLPLPSSLGLLSNLRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       246 --------------i~~lP~~i~~L~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                                    ++-+|+.+|+|++|+.|.+++|.+-+ |..+|.|..|+.|.+.+|++.-+|++
T Consensus       125 ~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdndll~lpkeig~lt~lrelhiqgnrl~vlppe  191 (264)
T KOG0617|consen  125 YMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDNDLLSLPKEIGDLTRLRELHIQGNRLTVLPPE  191 (264)
T ss_pred             HHHHHHHHHhcCCCcccCChhhhhhcceeEEeeccCchhhCcHHHHHHHHHHHHhcccceeeecChh
Confidence                          44456666666666666666666444 66666666666666666666666653

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

Probab=99.12  E-value=1.6e-12  Score=100.36  Aligned_cols=119  Identities=26%  Similarity=0.434  Sum_probs=103.0

Q ss_pred             CCCchhhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccc
Q 040933          174 EWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSL  253 (298)
Q Consensus       174 ~~~~~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i  253 (298)
                      ..+..-....++++-+++|++..+|+.+ .++.+|.+|.+..    +.+..+|.++ ++++.||.|++.-|++..+|..+
T Consensus        25 ~~~gLf~~s~ITrLtLSHNKl~~vppni-a~l~nlevln~~n----nqie~lp~~i-ssl~klr~lnvgmnrl~~lprgf   98 (264)
T KOG0617|consen   25 ELPGLFNMSNITRLTLSHNKLTVVPPNI-AELKNLEVLNLSN----NQIEELPTSI-SSLPKLRILNVGMNRLNILPRGF   98 (264)
T ss_pred             hcccccchhhhhhhhcccCceeecCCcH-HHhhhhhhhhccc----chhhhcChhh-hhchhhhheecchhhhhcCcccc
Confidence            4455556678999999999999999885 8899999999986    8899999998 99999999999999999999999


Q ss_pred             cCCCCCcEeecCCCCCCC---C-----------------------cccCCCCCCCEEeecCCCCCCCCCCC
Q 040933          254 GLLSNLRTLSLCYCKLLD---I-----------------------SVTGELKKLEILCLRGSDIQQLPVEL  298 (298)
Q Consensus       254 ~~L~~L~~L~l~~~~l~~---p-----------------------~~i~~L~~L~~L~l~~~~l~~lP~~i  298 (298)
                      |.++.|+.|++++|++.+   |                       +.+++|++||.|.++.|.+-++|.+|
T Consensus        99 gs~p~levldltynnl~e~~lpgnff~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdndll~lpkei  169 (264)
T KOG0617|consen   99 GSFPALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDNDLLSLPKEI  169 (264)
T ss_pred             CCCchhhhhhccccccccccCCcchhHHHHHHHHHhcCCCcccCChhhhhhcceeEEeeccCchhhCcHHH
Confidence            999999999998877554   3                       47788899999999999888888653

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

Probab=98.96  E-value=2.3e-11  Score=105.32  Aligned_cols=109  Identities=24%  Similarity=0.404  Sum_probs=96.5

Q ss_pred             hhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCC
Q 040933          179 NAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSN  258 (298)
Q Consensus       179 ~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~  258 (298)
                      ...+++..++++.|++..+|+.  .+++.|..|++..    +.+..+|.+....+.+|.+||+..|+++++|..++.|.+
T Consensus       203 g~l~~L~~LyL~~Nki~~lPef--~gcs~L~Elh~g~----N~i~~lpae~~~~L~~l~vLDLRdNklke~Pde~clLrs  276 (565)
T KOG0472|consen  203 GGLESLELLYLRRNKIRFLPEF--PGCSLLKELHVGE----NQIEMLPAEHLKHLNSLLVLDLRDNKLKEVPDEICLLRS  276 (565)
T ss_pred             cchhhhHHHHhhhcccccCCCC--CccHHHHHHHhcc----cHHHhhHHHHhcccccceeeeccccccccCchHHHHhhh
Confidence            3456677788888888888864  8888888888765    788899999988999999999999999999999999999


Q ss_pred             CcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCC
Q 040933          259 LRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       259 L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~l  294 (298)
                      |.+||+++|.++. |.++|+| +|+.|-+.||.++.+
T Consensus       277 L~rLDlSNN~is~Lp~sLgnl-hL~~L~leGNPlrTi  312 (565)
T KOG0472|consen  277 LERLDLSNNDISSLPYSLGNL-HLKFLALEGNPLRTI  312 (565)
T ss_pred             hhhhcccCCccccCCcccccc-eeeehhhcCCchHHH
Confidence            9999999999999 9999999 999999999987654

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

Probab=98.92  E-value=2.6e-09  Score=107.60  Aligned_cols=112  Identities=19%  Similarity=0.260  Sum_probs=69.1

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCC-CCccccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLP-LPSSLGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~-lP~~i~~L~~L  259 (298)
                      ...++.|.+.+|.+....+..+..+++|++|.+.+   +.....+|..+ .++++|++|++++|.+.. +|..++++.+|
T Consensus       139 l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~---n~l~~~~p~~~-~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L  214 (968)
T PLN00113        139 IPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGG---NVLVGKIPNSL-TNLTSLEFLTLASNQLVGQIPRELGQMKSL  214 (968)
T ss_pred             cCCCCEEECcCCcccccCChHHhcCCCCCEEECcc---CcccccCChhh-hhCcCCCeeeccCCCCcCcCChHHcCcCCc
Confidence            34566666666655432222235666677777666   33334555544 667777777777776654 56677777777


Q ss_pred             cEeecCCCCCCC--CcccCCCCCCCEEeecCCCCC-CCCC
Q 040933          260 RTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQ-QLPV  296 (298)
Q Consensus       260 ~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~-~lP~  296 (298)
                      ++|++++|.+..  |..++++++|++|++++|++. .+|.
T Consensus       215 ~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~  254 (968)
T PLN00113        215 KWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPS  254 (968)
T ss_pred             cEEECcCCccCCcCChhHhcCCCCCEEECcCceeccccCh
Confidence            777777777554  666777777777777777554 4443

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

Probab=98.89  E-value=3.2e-09  Score=106.93  Aligned_cols=113  Identities=24%  Similarity=0.316  Sum_probs=76.6

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCC-CCccccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLP-LPSSLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~-lP~~i~~L~~  258 (298)
                      ...+++.|.+.+|.+....+..+..+++|++|.+.+   +.....+|..+ ..+++|++|++++|.+.. +|..++.+++
T Consensus       162 ~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~---n~l~~~~p~~l-~~l~~L~~L~L~~n~l~~~~p~~l~~l~~  237 (968)
T PLN00113        162 SFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLAS---NQLVGQIPREL-GQMKSLKWIYLGYNNLSGEIPYEIGGLTS  237 (968)
T ss_pred             cCCCCCEEECccCcccccCChhhhhCcCCCeeeccC---CCCcCcCChHH-cCcCCccEEECcCCccCCcCChhHhcCCC
Confidence            345677777777776533322346677777777776   44444556554 777777777777777664 6777777777


Q ss_pred             CcEeecCCCCCCC--CcccCCCCCCCEEeecCCCCC-CCCC
Q 040933          259 LRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQ-QLPV  296 (298)
Q Consensus       259 L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~-~lP~  296 (298)
                      |++|++++|.+..  |..++++++|++|++++|++. .+|.
T Consensus       238 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~  278 (968)
T PLN00113        238 LNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPP  278 (968)
T ss_pred             CCEEECcCceeccccChhHhCCCCCCEEECcCCeeeccCch
Confidence            7777777777654  777777777777777777654 4453

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

Probab=98.87  E-value=2e-09  Score=85.49  Aligned_cols=103  Identities=17%  Similarity=0.292  Sum_probs=26.7

Q ss_pred             CccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccc-cCCCCCcE
Q 040933          183 LYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSL-GLLSNLRT  261 (298)
Q Consensus       183 ~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i-~~L~~L~~  261 (298)
                      +.+.|++.+|.++.+... -..+.+|+.|++++    +.+..+..  +..++.|+.|++++|.|+.+++.+ ..+++|+.
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~~   92 (175)
T PF14580_consen   20 KLRELNLRGNQISTIENL-GATLDKLEVLDLSN----NQITKLEG--LPGLPRLKTLDLSNNRISSISEGLDKNLPNLQE   92 (175)
T ss_dssp             ----------------S---TT-TT--EEE-TT----S--S--TT------TT--EEE--SS---S-CHHHHHH-TT--E
T ss_pred             ccccccccccccccccch-hhhhcCCCEEECCC----CCCccccC--ccChhhhhhcccCCCCCCccccchHHhCCcCCE
Confidence            345555555555555432 01345555665554    44444443  355555666666666655554333 23555666


Q ss_pred             eecCCCCCCC---CcccCCCCCCCEEeecCCCCC
Q 040933          262 LSLCYCKLLD---ISVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       262 L~l~~~~l~~---p~~i~~L~~L~~L~l~~~~l~  292 (298)
                      |++++|+|..   ...+..+++|++|++.+|.+.
T Consensus        93 L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~  126 (175)
T PF14580_consen   93 LYLSNNKISDLNELEPLSSLPKLRVLSLEGNPVC  126 (175)
T ss_dssp             EE-TTS---SCCCCGGGGG-TT--EEE-TT-GGG
T ss_pred             EECcCCcCCChHHhHHHHcCCCcceeeccCCccc
Confidence            6666555544   234445555566666555443

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

Probab=98.86  E-value=5.2e-10  Score=102.19  Aligned_cols=115  Identities=21%  Similarity=0.290  Sum_probs=94.9

Q ss_pred             hhhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCC
Q 040933          178 ENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLS  257 (298)
Q Consensus       178 ~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~  257 (298)
                      .-..+.++.+.+++|++.+.|.. +...+++-+|.+++    +.+..||...|-++.-|-+||||+|++..+|+.+-.|.
T Consensus        99 iF~l~dLt~lDLShNqL~EvP~~-LE~AKn~iVLNLS~----N~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~  173 (1255)
T KOG0444|consen   99 IFRLKDLTILDLSHNQLREVPTN-LEYAKNSIVLNLSY----NNIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLS  173 (1255)
T ss_pred             hcccccceeeecchhhhhhcchh-hhhhcCcEEEEccc----CccccCCchHHHhhHhHhhhccccchhhhcCHHHHHHh
Confidence            34467889999999999999987 36677888999987    78999999999999999999999999999999999999


Q ss_pred             CCcEeecCCCCCCC--CcccCCCCCCCEEeecCCC--CCCCCCC
Q 040933          258 NLRTLSLCYCKLLD--ISVTGELKKLEILCLRGSD--IQQLPVE  297 (298)
Q Consensus       258 ~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~--l~~lP~~  297 (298)
                      +|++|.|++|++..  ...+..+++|++|.+++++  +..+|.+
T Consensus       174 ~LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRTl~N~Pts  217 (1255)
T KOG0444|consen  174 MLQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTS  217 (1255)
T ss_pred             hhhhhhcCCChhhHHHHhcCccchhhhhhhcccccchhhcCCCc
Confidence            99999999998665  5556666777777777662  5566654

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

Probab=98.82  E-value=2.8e-09  Score=84.67  Aligned_cols=101  Identities=20%  Similarity=0.219  Sum_probs=55.6

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC--ccccCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP--SSLGLLSN  258 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP--~~i~~L~~  258 (298)
                      ..+++.+++++|.+..+...  ..+++|++|.+++    +.+..+++.+...+++|+.|++++|+|..+-  ..+..+++
T Consensus        41 l~~L~~L~Ls~N~I~~l~~l--~~L~~L~~L~L~~----N~I~~i~~~l~~~lp~L~~L~L~~N~I~~l~~l~~L~~l~~  114 (175)
T PF14580_consen   41 LDKLEVLDLSNNQITKLEGL--PGLPRLKTLDLSN----NRISSISEGLDKNLPNLQELYLSNNKISDLNELEPLSSLPK  114 (175)
T ss_dssp             -TT--EEE-TTS--S--TT------TT--EEE--S----S---S-CHHHHHH-TT--EEE-TTS---SCCCCGGGGG-TT
T ss_pred             hcCCCEEECCCCCCccccCc--cChhhhhhcccCC----CCCCccccchHHhCCcCCEEECcCCcCCChHHhHHHHcCCC
Confidence            46889999999999999875  8899999999998    7888887766567999999999999987753  46778999


Q ss_pred             CcEeecCCCCCCC-C----cccCCCCCCCEEeec
Q 040933          259 LRTLSLCYCKLLD-I----SVTGELKKLEILCLR  287 (298)
Q Consensus       259 L~~L~l~~~~l~~-p----~~i~~L~~L~~L~l~  287 (298)
                      |++|++.+|++.. +    .-+..+++|+.||-.
T Consensus       115 L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~~  148 (175)
T PF14580_consen  115 LRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDGQ  148 (175)
T ss_dssp             --EEE-TT-GGGGSTTHHHHHHHH-TT-SEETTE
T ss_pred             cceeeccCCcccchhhHHHHHHHHcChhheeCCE
Confidence            9999999999776 4    468889999999854

>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=98.80  E-value=3.9e-09  Score=69.03  Aligned_cols=58  Identities=26%  Similarity=0.358  Sum_probs=42.2

Q ss_pred             CCccEEEecCCCCCCCC-ccccCCCCCcEeecCCCCCCC--CcccCCCCCCCEEeecCCCC
Q 040933          234 IQVRVINLTYMNLLPLP-SSLGLLSNLRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDI  291 (298)
Q Consensus       234 ~~Lr~L~l~~~~i~~lP-~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l  291 (298)
                      ++|++|++++|+++.+| ..+..+++|++|++++|.++.  |..+..+++|++|++++|+|
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            35777777777777766 456677777777777777766  56677778888888877754

...

>PLN03210 Resistant to P

Probab=98.76  E-value=2.8e-08  Score=101.33  Aligned_cols=106  Identities=24%  Similarity=0.309  Sum_probs=50.5

Q ss_pred             CccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCC-CCCCCCccccCCCCCcE
Q 040933          183 LYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYM-NLLPLPSSLGLLSNLRT  261 (298)
Q Consensus       183 ~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~-~i~~lP~~i~~L~~L~~  261 (298)
                      ++|.+.+..+.+..+|..  ....+|+.|.+.+    +.+..++.++ ..+++|++|+++++ .+..+| .++.+++|++
T Consensus       590 ~Lr~L~~~~~~l~~lP~~--f~~~~L~~L~L~~----s~l~~L~~~~-~~l~~Lk~L~Ls~~~~l~~ip-~ls~l~~Le~  661 (1153)
T PLN03210        590 KLRLLRWDKYPLRCMPSN--FRPENLVKLQMQG----SKLEKLWDGV-HSLTGLRNIDLRGSKNLKEIP-DLSMATNLET  661 (1153)
T ss_pred             ccEEEEecCCCCCCCCCc--CCccCCcEEECcC----cccccccccc-ccCCCCCEEECCCCCCcCcCC-ccccCCcccE
Confidence            455555555555555544  2344555555544    3344444433 44455555555544 233344 3444455555


Q ss_pred             eecCCCC-CCC-CcccCCCCCCCEEeecCC-CCCCCCC
Q 040933          262 LSLCYCK-LLD-ISVTGELKKLEILCLRGS-DIQQLPV  296 (298)
Q Consensus       262 L~l~~~~-l~~-p~~i~~L~~L~~L~l~~~-~l~~lP~  296 (298)
                      |++++|. +.. |.+++++++|+.|++++| ++..+|.
T Consensus       662 L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~  699 (1153)
T PLN03210        662 LKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPT  699 (1153)
T ss_pred             EEecCCCCccccchhhhccCCCCEEeCCCCCCcCccCC
Confidence            5555544 333 444555555555555544 3444443

syringae 6; Provisional

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=98.72  E-value=2.6e-07  Score=89.33  Aligned_cols=103  Identities=20%  Similarity=0.301  Sum_probs=72.4

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNL  259 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L  259 (298)
                      .+..++.|.+.+|.+..+|...   +++|++|.+.+    +.+..+|..++   .+|+.|++++|++..+|..+.  .+|
T Consensus       197 Ip~~L~~L~Ls~N~LtsLP~~l---~~nL~~L~Ls~----N~LtsLP~~l~---~~L~~L~Ls~N~L~~LP~~l~--s~L  264 (754)
T PRK15370        197 IPEQITTLILDNNELKSLPENL---QGNIKTLYANS----NQLTSIPATLP---DTIQEMELSINRITELPERLP--SAL  264 (754)
T ss_pred             cccCCcEEEecCCCCCcCChhh---ccCCCEEECCC----CccccCChhhh---ccccEEECcCCccCcCChhHh--CCC
Confidence            3467888888888888887642   35788888876    45667776542   367777888887777776654  467


Q ss_pred             cEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          260 RTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       260 ~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      ++|++++|++.. |..+.  .+|++|++++|++..+|.
T Consensus       265 ~~L~Ls~N~L~~LP~~l~--~sL~~L~Ls~N~Lt~LP~  300 (754)
T PRK15370        265 QSLDLFHNKISCLPENLP--EELRYLSVYDNSIRTLPA  300 (754)
T ss_pred             CEEECcCCccCccccccC--CCCcEEECCCCccccCcc
Confidence            777777777777 66554  467777777777777664

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

Probab=98.71  E-value=5.8e-10  Score=96.81  Aligned_cols=111  Identities=23%  Similarity=0.245  Sum_probs=98.8

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcccc-CCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLG-LLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~-~L~~  258 (298)
                      .++.+.++....|.++.+|+.+ ..+.+|.-|++..    +.+..+|.  |..+..|..|+++.|.|+-+|..++ .|.+
T Consensus       181 ~m~~L~~ld~~~N~L~tlP~~l-g~l~~L~~LyL~~----Nki~~lPe--f~gcs~L~Elh~g~N~i~~lpae~~~~L~~  253 (565)
T KOG0472|consen  181 AMKRLKHLDCNSNLLETLPPEL-GGLESLELLYLRR----NKIRFLPE--FPGCSLLKELHVGENQIEMLPAEHLKHLNS  253 (565)
T ss_pred             HHHHHHhcccchhhhhcCChhh-cchhhhHHHHhhh----cccccCCC--CCccHHHHHHHhcccHHHhhHHHHhccccc
Confidence            4677888999999999998773 7777888888876    78888885  6999999999999999999998887 8999


Q ss_pred             CcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCCCC
Q 040933          259 LRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       259 L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      +.+||+++|++++ |.+++.|.+|..||+++|.|..+|.+
T Consensus       254 l~vLDLRdNklke~Pde~clLrsL~rLDlSNN~is~Lp~s  293 (565)
T KOG0472|consen  254 LLVLDLRDNKLKEVPDEICLLRSLERLDLSNNDISSLPYS  293 (565)
T ss_pred             ceeeeccccccccCchHHHHhhhhhhhcccCCccccCCcc
Confidence            9999999999999 99999999999999999999999965

>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=98.66  E-value=1.7e-08  Score=66.00  Aligned_cols=60  Identities=27%  Similarity=0.469  Sum_probs=49.5

Q ss_pred             CCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCCcEeecCCCCC
Q 040933          206 PQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNLRTLSLCYCKL  269 (298)
Q Consensus       206 ~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L~~L~l~~~~l  269 (298)
                      |+|++|.+.+    +.+..+|+..|..+++|++|++++|.++.+| ..+..+++|++|++++|++
T Consensus         1 p~L~~L~l~~----n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    1 PNLESLDLSN----NKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETS----STESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCC----CCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            4678888887    5778888888888999999999988888875 5678888999999988864

...

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.65  E-value=1.5e-08  Score=99.43  Aligned_cols=105  Identities=23%  Similarity=0.337  Sum_probs=92.3

Q ss_pred             cCccEEEEeCCC--CccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCC
Q 040933          182 KLYTSIVLRDIK--TNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNL  259 (298)
Q Consensus       182 ~~~~~l~l~~~~--~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L  259 (298)
                      .+++.+-+..|.  +..++...|..++.|++|++++   +.....+|..+ +.+-+||||+++++.++.+|..+++|..|
T Consensus       545 ~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~---~~~l~~LP~~I-~~Li~LryL~L~~t~I~~LP~~l~~Lk~L  620 (889)
T KOG4658|consen  545 PKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSG---NSSLSKLPSSI-GELVHLRYLDLSDTGISHLPSGLGNLKKL  620 (889)
T ss_pred             CccceEEEeecchhhhhcCHHHHhhCcceEEEECCC---CCccCcCChHH-hhhhhhhcccccCCCccccchHHHHHHhh
Confidence            468899888886  6777776678999999999999   78899999999 99999999999999999999999999999


Q ss_pred             cEeecCCCC-CCC-CcccCCCCCCCEEeecCCC
Q 040933          260 RTLSLCYCK-LLD-ISVTGELKKLEILCLRGSD  290 (298)
Q Consensus       260 ~~L~l~~~~-l~~-p~~i~~L~~L~~L~l~~~~  290 (298)
                      .||++..+. +.. |.....|++|++|.+....
T Consensus       621 ~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~  653 (889)
T KOG4658|consen  621 IYLNLEVTGRLESIPGILLELQSLRVLRLPRSA  653 (889)
T ss_pred             heeccccccccccccchhhhcccccEEEeeccc
Confidence            999999988 555 5666669999999987653

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

Probab=98.65  E-value=1.5e-09  Score=99.29  Aligned_cols=116  Identities=16%  Similarity=0.212  Sum_probs=58.6

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEeccccc-------------------ccccccccChHHHhCCCCccEEE
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADH-------------------QESSSLTIPNNFFEKMIQVRVIN  240 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~-------------------~~~~~~~lp~~~~~~l~~Lr~L~  240 (298)
                      ...+++.+.++.|++..+|.. +.++++|+.|.++++.                   ..+.+..+|+.+ .+++.|+.|.
T Consensus       220 ~l~NL~dvDlS~N~Lp~vPec-ly~l~~LrrLNLS~N~iteL~~~~~~W~~lEtLNlSrNQLt~LP~av-cKL~kL~kLy  297 (1255)
T KOG0444|consen  220 DLHNLRDVDLSENNLPIVPEC-LYKLRNLRRLNLSGNKITELNMTEGEWENLETLNLSRNQLTVLPDAV-CKLTKLTKLY  297 (1255)
T ss_pred             hhhhhhhccccccCCCcchHH-HhhhhhhheeccCcCceeeeeccHHHHhhhhhhccccchhccchHHH-hhhHHHHHHH
Confidence            445566666666666666655 2556666666666510                   002333344433 4444444444


Q ss_pred             ecCCC--CCCCCccccCCCCCcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCCCC
Q 040933          241 LTYMN--LLPLPSSLGLLSNLRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       241 l~~~~--i~~lP~~i~~L~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      +.+|+  +..+|+.||+|.+|+.+.+.+|.+.- |.++++..+|+.|.|+.|++-.||..
T Consensus       298 ~n~NkL~FeGiPSGIGKL~~Levf~aanN~LElVPEglcRC~kL~kL~L~~NrLiTLPea  357 (1255)
T KOG0444|consen  298 ANNNKLTFEGIPSGIGKLIQLEVFHAANNKLELVPEGLCRCVKLQKLKLDHNRLITLPEA  357 (1255)
T ss_pred             hccCcccccCCccchhhhhhhHHHHhhccccccCchhhhhhHHHHHhcccccceeechhh
Confidence            44442  23345555555555555555544444 55555555555555555555555543

>PLN03150 hypothetical protein; Provisional

Probab=98.62  E-value=6.5e-08  Score=92.45  Aligned_cols=102  Identities=19%  Similarity=0.246  Sum_probs=67.7

Q ss_pred             ccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCC-CCccccCCCCCcEe
Q 040933          184 YTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLP-LPSSLGLLSNLRTL  262 (298)
Q Consensus       184 ~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~-lP~~i~~L~~L~~L  262 (298)
                      ++.|.+.++.+....+..+..+++|+.|.+++   +.....+|..+ ..+++|++|+|++|++.. +|..++.|.+|++|
T Consensus       420 v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~---N~l~g~iP~~~-~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L  495 (623)
T PLN03150        420 IDGLGLDNQGLRGFIPNDISKLRHLQSINLSG---NSIRGNIPPSL-GSITSLEVLDLSYNSFNGSIPESLGQLTSLRIL  495 (623)
T ss_pred             EEEEECCCCCccccCCHHHhCCCCCCEEECCC---CcccCcCChHH-hCCCCCCEEECCCCCCCCCCchHHhcCCCCCEE
Confidence            55666677666533332346677777777776   34344666654 777777777777777764 67777777777777


Q ss_pred             ecCCCCCCC--CcccCCC-CCCCEEeecCC
Q 040933          263 SLCYCKLLD--ISVTGEL-KKLEILCLRGS  289 (298)
Q Consensus       263 ~l~~~~l~~--p~~i~~L-~~L~~L~l~~~  289 (298)
                      +|++|.+..  |..++.+ .++..+++.+|
T Consensus       496 ~Ls~N~l~g~iP~~l~~~~~~~~~l~~~~N  525 (623)
T PLN03150        496 NLNGNSLSGRVPAALGGRLLHRASFNFTDN  525 (623)
T ss_pred             ECcCCcccccCChHHhhccccCceEEecCC
Confidence            777777665  6666653 35667777766

>PLN03150 hypothetical protein; Provisional

Probab=98.59  E-value=1.5e-07  Score=90.00  Aligned_cols=87  Identities=26%  Similarity=0.447  Sum_probs=75.2

Q ss_pred             CCcEEecccccccccccccChHHHhCCCCccEEEecCCCCC-CCCccccCCCCCcEeecCCCCCCC--CcccCCCCCCCE
Q 040933          207 QLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLL-PLPSSLGLLSNLRTLSLCYCKLLD--ISVTGELKKLEI  283 (298)
Q Consensus       207 ~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~-~lP~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~  283 (298)
                      .++.|.+.+   +.....+|..+ ..+++|+.|+|++|.+. .+|..++.+.+|++|+|++|.+..  |..+++|++|++
T Consensus       419 ~v~~L~L~~---n~L~g~ip~~i-~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~  494 (623)
T PLN03150        419 FIDGLGLDN---QGLRGFIPNDI-SKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRI  494 (623)
T ss_pred             EEEEEECCC---CCccccCCHHH-hCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCE
Confidence            467788887   45555778776 99999999999999997 489999999999999999999886  899999999999


Q ss_pred             EeecCCCCC-CCCCC
Q 040933          284 LCLRGSDIQ-QLPVE  297 (298)
Q Consensus       284 L~l~~~~l~-~lP~~  297 (298)
                      |+|++|++. .+|..
T Consensus       495 L~Ls~N~l~g~iP~~  509 (623)
T PLN03150        495 LNLNGNSLSGRVPAA  509 (623)
T ss_pred             EECcCCcccccCChH
Confidence            999999876 67753

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

Probab=98.57  E-value=1.6e-08  Score=91.94  Aligned_cols=115  Identities=21%  Similarity=0.256  Sum_probs=81.0

Q ss_pred             CccEEEEeCCCCccCCCCcCCCCCCCcEEeccccc--------------------ccccccccChHHHhCCCCccEEEec
Q 040933          183 LYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADH--------------------QESSSLTIPNNFFEKMIQVRVINLT  242 (298)
Q Consensus       183 ~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~--------------------~~~~~~~lp~~~~~~l~~Lr~L~l~  242 (298)
                      .+..+.+..|.+..+|..+|..+++|+.|.+..+.                    ..+.+..+.++.|-.+..+++|+|+
T Consensus       198 sL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~l~L~  277 (873)
T KOG4194|consen  198 SLLTLKLSRNRITTLPQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEHLNLE  277 (873)
T ss_pred             hheeeecccCcccccCHHHhhhcchhhhhhccccceeeehhhhhcCchhhhhhhhhhcCcccccCcceeeecccceeecc
Confidence            45555555555555555555555555555444310                    0145666667777778888888888


Q ss_pred             CCCCCCCC-ccccCCCCCcEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCCCC
Q 040933          243 YMNLLPLP-SSLGLLSNLRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       243 ~~~i~~lP-~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      .|++..+- .++.+|+.|+.|+|++|.|..  ++++...++|+.|+|+.|+|.++|++
T Consensus       278 ~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i~~l~~~  335 (873)
T KOG4194|consen  278 TNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNRITRLDEG  335 (873)
T ss_pred             cchhhhhhcccccccchhhhhccchhhhheeecchhhhcccceeEeccccccccCChh
Confidence            88888764 567788888899999988888  88888888999999999888888763

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

Probab=98.56  E-value=1.2e-08  Score=85.65  Aligned_cols=108  Identities=20%  Similarity=0.261  Sum_probs=68.4

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEe-------------------
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINL-------------------  241 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l-------------------  241 (298)
                      ++.++.+.+++|.+..+..++ .-.|.+|.|+++.    +.+..+..  +..+.+|..|||                   
T Consensus       283 Wq~LtelDLS~N~I~~iDESv-KL~Pkir~L~lS~----N~i~~v~n--La~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIK  355 (490)
T KOG1259|consen  283 WQELTELDLSGNLITQIDESV-KLAPKLRRLILSQ----NRIRTVQN--LAELPQLQLLDLSGNLLAECVGWHLKLGNIK  355 (490)
T ss_pred             Hhhhhhccccccchhhhhhhh-hhccceeEEeccc----cceeeehh--hhhcccceEeecccchhHhhhhhHhhhcCEe
Confidence            444555666666665554442 3345555555554    33333332  244444445554                   


Q ss_pred             ----cCCCCCCCCccccCCCCCcEeecCCCCCCC---CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          242 ----TYMNLLPLPSSLGLLSNLRTLSLCYCKLLD---ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       242 ----~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~---p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                          +.|.|+.+. .+++|..|.+|++++|+|..   ..+||+|+.|++|.+.+|.+..+|+
T Consensus       356 tL~La~N~iE~LS-GL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~NPl~~~vd  416 (490)
T KOG1259|consen  356 TLKLAQNKIETLS-GLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTGNPLAGSVD  416 (490)
T ss_pred             eeehhhhhHhhhh-hhHhhhhheeccccccchhhHHHhcccccccHHHHHhhcCCCccccch
Confidence                444444442 66778888999999998877   6789999999999999988887764

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

Probab=98.45  E-value=2.6e-07  Score=84.17  Aligned_cols=107  Identities=21%  Similarity=0.263  Sum_probs=65.6

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-CccccCCCCCc
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLLSNLR  260 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~~L~  260 (298)
                      .++..|.+.+|.+..+....+..++.||+|+++.    +.+..+|...|..-.++++|+|++|.|+.+ -..+..|.+|.
T Consensus       125 ghl~~L~L~~N~I~sv~se~L~~l~alrslDLSr----N~is~i~~~sfp~~~ni~~L~La~N~It~l~~~~F~~lnsL~  200 (873)
T KOG4194|consen  125 GHLEKLDLRHNLISSVTSEELSALPALRSLDLSR----NLISEIPKPSFPAKVNIKKLNLASNRITTLETGHFDSLNSLL  200 (873)
T ss_pred             cceeEEeeeccccccccHHHHHhHhhhhhhhhhh----chhhcccCCCCCCCCCceEEeeccccccccccccccccchhe
Confidence            3456666666666655554445566666666665    555556655555556666666666666665 24566666666


Q ss_pred             EeecCCCCCCC-C-cccCCCCCCCEEeecCCCCC
Q 040933          261 TLSLCYCKLLD-I-SVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       261 ~L~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~l~  292 (298)
                      +|.|+.|.++. | ..|.+|++|+.|+|..|+|+
T Consensus       201 tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN~ir  234 (873)
T KOG4194|consen  201 TLKLSRNRITTLPQRSFKRLPKLESLDLNRNRIR  234 (873)
T ss_pred             eeecccCcccccCHHHhhhcchhhhhhcccccee
Confidence            77777776666 4 34555777777777666554

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

Probab=98.44  E-value=1.3e-08  Score=96.71  Aligned_cols=85  Identities=22%  Similarity=0.315  Sum_probs=50.7

Q ss_pred             CCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCC-CcccCCCCCC
Q 040933          203 PECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLD-ISVTGELKKL  281 (298)
Q Consensus       203 ~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~-p~~i~~L~~L  281 (298)
                      ..+++|+.|.+++    +.+..+|+..+.++..|+.|+||+|+++.+|..+.++..|++|...+|.+.. | .+.+++.|
T Consensus       380 ~~~~hLKVLhLsy----NrL~~fpas~~~kle~LeeL~LSGNkL~~Lp~tva~~~~L~tL~ahsN~l~~fP-e~~~l~qL  454 (1081)
T KOG0618|consen  380 VNFKHLKVLHLSY----NRLNSFPASKLRKLEELEELNLSGNKLTTLPDTVANLGRLHTLRAHSNQLLSFP-ELAQLPQL  454 (1081)
T ss_pred             ccccceeeeeecc----cccccCCHHHHhchHHhHHHhcccchhhhhhHHHHhhhhhHHHhhcCCceeech-hhhhcCcc
Confidence            5566666666665    5555666666666666666666666666666656665556666555555555 4 55555555


Q ss_pred             CEEeecCCCCC
Q 040933          282 EILCLRGSDIQ  292 (298)
Q Consensus       282 ~~L~l~~~~l~  292 (298)
                      +++|++.|+++
T Consensus       455 ~~lDlS~N~L~  465 (1081)
T KOG0618|consen  455 KVLDLSCNNLS  465 (1081)
T ss_pred             eEEecccchhh
Confidence            55555555443

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=98.41  E-value=3.4e-06  Score=81.60  Aligned_cols=60  Identities=22%  Similarity=0.255  Sum_probs=41.9

Q ss_pred             CCccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCC-CcccCC----------------C-CCCCEEeecCCCCCCCC
Q 040933          234 IQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLD-ISVTGE----------------L-KKLEILCLRGSDIQQLP  295 (298)
Q Consensus       234 ~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~-p~~i~~----------------L-~~L~~L~l~~~~l~~lP  295 (298)
                      ..|+.|++++|+++.+|..   +.+|++|++++|.+.. |....+                + .+|++|++++|+|..+|
T Consensus       282 ~~L~~L~Ls~N~Lt~LP~~---p~~L~~LdLS~N~L~~Lp~lp~~L~~L~Ls~N~L~~LP~lp~~Lq~LdLS~N~Ls~LP  358 (788)
T PRK15387        282 SGLCKLWIFGNQLTSLPVL---PPGLQELSVSDNQLASLPALPSELCKLWAYNNQLTSLPTLPSGLQELSVSDNQLASLP  358 (788)
T ss_pred             hhcCEEECcCCcccccccc---ccccceeECCCCccccCCCCcccccccccccCccccccccccccceEecCCCccCCCC
Confidence            4566777777777777753   3578899999888777 542111                1 26888888888888888


Q ss_pred             C
Q 040933          296 V  296 (298)
Q Consensus       296 ~  296 (298)
                      .
T Consensus       359 ~  359 (788)
T PRK15387        359 T  359 (788)
T ss_pred             C
Confidence            5

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

Probab=98.41  E-value=4.9e-08  Score=92.93  Aligned_cols=110  Identities=19%  Similarity=0.263  Sum_probs=98.0

Q ss_pred             CCCchhhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccc
Q 040933          174 EWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSL  253 (298)
Q Consensus       174 ~~~~~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i  253 (298)
                      .||.....++++.|.+.+|.+..+|...+.++..|+.|.++|    +.+..+|+.+ ..++.|++|...+|.+..+| .+
T Consensus       375 c~p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSG----NkL~~Lp~tv-a~~~~L~tL~ahsN~l~~fP-e~  448 (1081)
T KOG0618|consen  375 CFPVLVNFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSG----NKLTTLPDTV-ANLGRLHTLRAHSNQLLSFP-EL  448 (1081)
T ss_pred             chhhhccccceeeeeecccccccCCHHHHhchHHhHHHhccc----chhhhhhHHH-HhhhhhHHHhhcCCceeech-hh
Confidence            566667788999999999999999998888999999999998    8899999888 89999999999999999999 99


Q ss_pred             cCCCCCcEeecCCCCCCC---CcccCCCCCCCEEeecCCC
Q 040933          254 GLLSNLRTLSLCYCKLLD---ISVTGELKKLEILCLRGSD  290 (298)
Q Consensus       254 ~~L~~L~~L~l~~~~l~~---p~~i~~L~~L~~L~l~~~~  290 (298)
                      ..+..|+++|++.|.++.   |..... ++|++||++||.
T Consensus       449 ~~l~qL~~lDlS~N~L~~~~l~~~~p~-p~LkyLdlSGN~  487 (1081)
T KOG0618|consen  449 AQLPQLKVLDLSCNNLSEVTLPEALPS-PNLKYLDLSGNT  487 (1081)
T ss_pred             hhcCcceEEecccchhhhhhhhhhCCC-cccceeeccCCc
Confidence            999999999999999887   443333 899999999983

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=98.40  E-value=1.1e-06  Score=85.15  Aligned_cols=102  Identities=16%  Similarity=0.243  Sum_probs=85.3

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcE
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRT  261 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~  261 (298)
                      ++...+.+.++.+..+|..+   .++++.|.+.+    +.+..+|..++   .+|++|++++|+++.+|..+.  .+|+.
T Consensus       178 ~~~~~L~L~~~~LtsLP~~I---p~~L~~L~Ls~----N~LtsLP~~l~---~nL~~L~Ls~N~LtsLP~~l~--~~L~~  245 (754)
T PRK15370        178 NNKTELRLKILGLTTIPACI---PEQITTLILDN----NELKSLPENLQ---GNIKTLYANSNQLTSIPATLP--DTIQE  245 (754)
T ss_pred             cCceEEEeCCCCcCcCCccc---ccCCcEEEecC----CCCCcCChhhc---cCCCEEECCCCccccCChhhh--ccccE
Confidence            35678899998998888752   35799999987    67888998764   589999999999999997665  47999


Q ss_pred             eecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCCCC
Q 040933          262 LSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       262 L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      |++++|.+.. |..+.  .+|+.|++++|++..+|..
T Consensus       246 L~Ls~N~L~~LP~~l~--s~L~~L~Ls~N~L~~LP~~  280 (754)
T PRK15370        246 MELSINRITELPERLP--SALQSLDLFHNKISCLPEN  280 (754)
T ss_pred             EECcCCccCcCChhHh--CCCCEEECcCCccCccccc
Confidence            9999999988 87765  5899999999999998864

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

Probab=98.40  E-value=3.8e-08  Score=82.82  Aligned_cols=84  Identities=20%  Similarity=0.207  Sum_probs=66.5

Q ss_pred             CCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCC-C-----------
Q 040933          205 CPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLD-I-----------  272 (298)
Q Consensus       205 ~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~-p-----------  272 (298)
                      -..|..+++++    +.+..+..+. .-.+.+|+|++++|.|..+- ++..|++|+.|+|++|.+.. -           
T Consensus       283 Wq~LtelDLS~----N~I~~iDESv-KL~Pkir~L~lS~N~i~~v~-nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKt  356 (490)
T KOG1259|consen  283 WQELTELDLSG----NLITQIDESV-KLAPKLRRLILSQNRIRTVQ-NLAELPQLQLLDLSGNLLAECVGWHLKLGNIKT  356 (490)
T ss_pred             Hhhhhhccccc----cchhhhhhhh-hhccceeEEeccccceeeeh-hhhhcccceEeecccchhHhhhhhHhhhcCEee
Confidence            35688899998    7788888777 88899999999999998775 48888899999999877654 2           


Q ss_pred             -----------cccCCCCCCCEEeecCCCCCCC
Q 040933          273 -----------SVTGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       273 -----------~~i~~L~~L~~L~l~~~~l~~l  294 (298)
                                 +.+++|.+|..||+++|+|..+
T Consensus       357 L~La~N~iE~LSGL~KLYSLvnLDl~~N~Ie~l  389 (490)
T KOG1259|consen  357 LKLAQNKIETLSGLRKLYSLVNLDLSSNQIEEL  389 (490)
T ss_pred             eehhhhhHhhhhhhHhhhhheeccccccchhhH
Confidence                       3556677788888888876654

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

Probab=98.38  E-value=2.8e-07  Score=55.64  Aligned_cols=37  Identities=30%  Similarity=0.440  Sum_probs=22.5

Q ss_pred             CccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCC
Q 040933          235 QVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLD  271 (298)
Q Consensus       235 ~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~  271 (298)
                      +|++|++++|+|+.+|+.+++|++|++|++++|+++.
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~   38 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNNPISD   38 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCSB
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCCCCCC
Confidence            5666666666666666556666666666666666554

...

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

Probab=98.36  E-value=4.4e-07  Score=54.77  Aligned_cols=40  Identities=28%  Similarity=0.347  Sum_probs=32.9

Q ss_pred             CCCcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          257 SNLRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       257 ~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      ++|++|++++|+++. |+.+++|++|++|++++|+++++|.
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~i~~   41 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNNPISDISP   41 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCSBEGG
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCCCCCCCcC
Confidence            478999999999999 7779999999999999998887763

...

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=98.27  E-value=2.8e-06  Score=82.22  Aligned_cols=60  Identities=22%  Similarity=0.239  Sum_probs=37.9

Q ss_pred             CCCccEEEecCCCCCCCCccc---cCC--------------CCCcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCC
Q 040933          233 MIQVRVINLTYMNLLPLPSSL---GLL--------------SNLRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       233 l~~Lr~L~l~~~~i~~lP~~i---~~L--------------~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~l  294 (298)
                      +++|+.|++++|+++.+|...   ..|              .+|++|++++|+++. |...   .+|+.|++++|++..+
T Consensus       301 p~~L~~LdLS~N~L~~Lp~lp~~L~~L~Ls~N~L~~LP~lp~~Lq~LdLS~N~Ls~LP~lp---~~L~~L~Ls~N~L~~L  377 (788)
T PRK15387        301 PPGLQELSVSDNQLASLPALPSELCKLWAYNNQLTSLPTLPSGLQELSVSDNQLASLPTLP---SELYKLWAYNNRLTSL  377 (788)
T ss_pred             ccccceeECCCCccccCCCCcccccccccccCccccccccccccceEecCCCccCCCCCCC---cccceehhhccccccC
Confidence            367888888888777765421   111              257788888888777 6543   3555566666655555


Q ss_pred             C
Q 040933          295 P  295 (298)
Q Consensus       295 P  295 (298)
                      |
T Consensus       378 P  378 (788)
T PRK15387        378 P  378 (788)
T ss_pred             c
Confidence            5

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

Probab=98.16  E-value=4.3e-07  Score=82.52  Aligned_cols=110  Identities=20%  Similarity=0.298  Sum_probs=78.9

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCc
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLR  260 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~  260 (298)
                      .--++.+-+.+|++..+|..+ .....|..|+++.    +.+..+|..+ +.+.+||.|.+..|.+..+|++++.|+ |.
T Consensus       142 ~lpLkvli~sNNkl~~lp~~i-g~~~tl~~ld~s~----nei~slpsql-~~l~slr~l~vrRn~l~~lp~El~~Lp-Li  214 (722)
T KOG0532|consen  142 DLPLKVLIVSNNKLTSLPEEI-GLLPTLAHLDVSK----NEIQSLPSQL-GYLTSLRDLNVRRNHLEDLPEELCSLP-LI  214 (722)
T ss_pred             cCcceeEEEecCccccCCccc-ccchhHHHhhhhh----hhhhhchHHh-hhHHHHHHHHHhhhhhhhCCHHHhCCc-ee
Confidence            344666777777777777663 3555666666665    5666777766 777777777777777777777777554 77


Q ss_pred             EeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCCCC
Q 040933          261 TLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       261 ~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      .||++.|++.. |-.|.+|..||+|-|.+|.+++=|..
T Consensus       215 ~lDfScNkis~iPv~fr~m~~Lq~l~LenNPLqSPPAq  252 (722)
T KOG0532|consen  215 RLDFSCNKISYLPVDFRKMRHLQVLQLENNPLQSPPAQ  252 (722)
T ss_pred             eeecccCceeecchhhhhhhhheeeeeccCCCCCChHH
Confidence            78888888777 87888888888888877777776643

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

Probab=98.08  E-value=2.3e-07  Score=84.23  Aligned_cols=111  Identities=23%  Similarity=0.271  Sum_probs=93.4

Q ss_pred             hhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCC
Q 040933          179 NAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSN  258 (298)
Q Consensus       179 ~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~  258 (298)
                      .....++.+.+..|++..+|..  .-.--|+.|.++.    +.+..+|+++ +....|..||.+.|.+..+|+.++.|..
T Consensus       118 ~~L~~lt~l~ls~NqlS~lp~~--lC~lpLkvli~sN----Nkl~~lp~~i-g~~~tl~~ld~s~nei~slpsql~~l~s  190 (722)
T KOG0532|consen  118 CNLEALTFLDLSSNQLSHLPDG--LCDLPLKVLIVSN----NKLTSLPEEI-GLLPTLAHLDVSKNEIQSLPSQLGYLTS  190 (722)
T ss_pred             hhhhHHHHhhhccchhhcCChh--hhcCcceeEEEec----CccccCCccc-ccchhHHHhhhhhhhhhhchHHhhhHHH
Confidence            3456677888888888888876  3344588888886    8888999998 7889999999999999999999999999


Q ss_pred             CcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCCCC
Q 040933          259 LRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       259 L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      |+.|.++.|.+.. |..++. -.|..||++.|++..+|-.
T Consensus       191 lr~l~vrRn~l~~lp~El~~-LpLi~lDfScNkis~iPv~  229 (722)
T KOG0532|consen  191 LRDLNVRRNHLEDLPEELCS-LPLIRLDFSCNKISYLPVD  229 (722)
T ss_pred             HHHHHHhhhhhhhCCHHHhC-CceeeeecccCceeecchh
Confidence            9999999999888 888884 4688999999999999854

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

Probab=98.07  E-value=3e-07  Score=80.07  Aligned_cols=114  Identities=19%  Similarity=0.211  Sum_probs=88.9

Q ss_pred             hhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecC-CCCCCCCc-cccCC
Q 040933          179 NAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTY-MNLLPLPS-SLGLL  256 (298)
Q Consensus       179 ~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~-~~i~~lP~-~i~~L  256 (298)
                      +.+.....|.+..|.++.+|+.+|..+++||.|+++.    +.+..|.+..|..++.|-.|-+-+ |+|+.+|+ .++.|
T Consensus        64 ~LP~~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~----N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL  139 (498)
T KOG4237|consen   64 NLPPETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSK----NNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGL  139 (498)
T ss_pred             cCCCcceEEEeccCCcccCChhhccchhhhceecccc----cchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhH
Confidence            4566778888899999999998889999999999987    677778777788888776665554 78888884 47788


Q ss_pred             CCCcEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          257 SNLRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       257 ~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      ..|+-|.+.-|++.-  ...+..|++|..|.+-.|.++.++.
T Consensus       140 ~slqrLllNan~i~Cir~~al~dL~~l~lLslyDn~~q~i~~  181 (498)
T KOG4237|consen  140 SSLQRLLLNANHINCIRQDALRDLPSLSLLSLYDNKIQSICK  181 (498)
T ss_pred             HHHHHHhcChhhhcchhHHHHHHhhhcchhcccchhhhhhcc
Confidence            888888888777666  4667778888878777776666654

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

Probab=97.93  E-value=4.6e-06  Score=75.59  Aligned_cols=104  Identities=25%  Similarity=0.288  Sum_probs=73.6

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCC--CCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCC
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECP--QLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNL  259 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~--~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L  259 (298)
                      ..+..+.+.++.+..+++.  ....  +|+.|.+.+    +.+..+|..+ ..+++|+.|+++.|++..+|...+.+.+|
T Consensus       116 ~~l~~L~l~~n~i~~i~~~--~~~~~~nL~~L~l~~----N~i~~l~~~~-~~l~~L~~L~l~~N~l~~l~~~~~~~~~L  188 (394)
T COG4886         116 TNLTSLDLDNNNITDIPPL--IGLLKSNLKELDLSD----NKIESLPSPL-RNLPNLKNLDLSFNDLSDLPKLLSNLSNL  188 (394)
T ss_pred             cceeEEecCCcccccCccc--cccchhhcccccccc----cchhhhhhhh-hccccccccccCCchhhhhhhhhhhhhhh
Confidence            4577777777777777765  3332  677777776    5666665444 77777777777777777777776677777


Q ss_pred             cEeecCCCCCCC-CcccCCCCCCCEEeecCCCCC
Q 040933          260 RTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       260 ~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~  292 (298)
                      +.|+++++.+.. |..++.+..|++|.+++|.+.
T Consensus       189 ~~L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~~~  222 (394)
T COG4886         189 NNLDLSGNKISDLPPEIELLSALEELDLSNNSII  222 (394)
T ss_pred             hheeccCCccccCchhhhhhhhhhhhhhcCCcce
Confidence            777777777777 666666667777777777433

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

Probab=97.93  E-value=1.1e-06  Score=65.79  Aligned_cols=85  Identities=19%  Similarity=0.225  Sum_probs=69.8

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcE
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRT  261 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~  261 (298)
                      ..+..+++++|.++.+|+.....++.+++|.+..    +.+..+|.++ ..++.||.|+++.|.+...|.-|..|.+|-+
T Consensus        53 ~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~----neisdvPeE~-Aam~aLr~lNl~~N~l~~~p~vi~~L~~l~~  127 (177)
T KOG4579|consen   53 YELTKISLSDNGFKKFPKKFTIKFPTATTLNLAN----NEISDVPEEL-AAMPALRSLNLRFNPLNAEPRVIAPLIKLDM  127 (177)
T ss_pred             ceEEEEecccchhhhCCHHHhhccchhhhhhcch----hhhhhchHHH-hhhHHhhhcccccCccccchHHHHHHHhHHH
Confidence            3566788889998888888667778888888876    7788888884 8888888888888888888888888888888


Q ss_pred             eecCCCCCCC
Q 040933          262 LSLCYCKLLD  271 (298)
Q Consensus       262 L~l~~~~l~~  271 (298)
                      |+..++.+..
T Consensus       128 Lds~~na~~e  137 (177)
T KOG4579|consen  128 LDSPENARAE  137 (177)
T ss_pred             hcCCCCcccc
Confidence            8888887665

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

Probab=97.92  E-value=4.4e-06  Score=75.76  Aligned_cols=104  Identities=24%  Similarity=0.365  Sum_probs=58.8

Q ss_pred             CccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcEe
Q 040933          183 LYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTL  262 (298)
Q Consensus       183 ~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L  262 (298)
                      +++.+++.+|.+..++.. ...+++|+.|.+..    +.+..+|... ...+.|+.|++++|++..+|..++.+.+|++|
T Consensus       141 nL~~L~l~~N~i~~l~~~-~~~l~~L~~L~l~~----N~l~~l~~~~-~~~~~L~~L~ls~N~i~~l~~~~~~~~~L~~l  214 (394)
T COG4886         141 NLKELDLSDNKIESLPSP-LRNLPNLKNLDLSF----NDLSDLPKLL-SNLSNLNNLDLSGNKISDLPPEIELLSALEEL  214 (394)
T ss_pred             hcccccccccchhhhhhh-hhccccccccccCC----chhhhhhhhh-hhhhhhhheeccCCccccCchhhhhhhhhhhh
Confidence            556666666666655321 15556666666655    4555555533 35556666666666666666555555556666


Q ss_pred             ecCCCCCCC-CcccCCCCCCCEEeecCCCCC
Q 040933          263 SLCYCKLLD-ISVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       263 ~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~  292 (298)
                      .++++.+.. |..+.++.++..|.+.++++.
T Consensus       215 ~~~~N~~~~~~~~~~~~~~l~~l~l~~n~~~  245 (394)
T COG4886         215 DLSNNSIIELLSSLSNLKNLSGLELSNNKLE  245 (394)
T ss_pred             hhcCCcceecchhhhhcccccccccCCceee
Confidence            666664333 555666666666665555443

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

Probab=97.88  E-value=3.5e-06  Score=80.92  Aligned_cols=83  Identities=19%  Similarity=0.226  Sum_probs=52.0

Q ss_pred             CCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCC---CcccCCCC
Q 040933          203 PECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLD---ISVTGELK  279 (298)
Q Consensus       203 ~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~---p~~i~~L~  279 (298)
                      .-+|.|++|.+.+.   .....--...+.++++|+.||+|+++++.+ ..|+.|+||+.|.+++=.+..   ...+.+|+
T Consensus       145 ~~LPsL~sL~i~~~---~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknLq~L~mrnLe~e~~~~l~~LF~L~  220 (699)
T KOG3665|consen  145 TMLPSLRSLVISGR---QFDNDDFSQLCASFPNLRSLDISGTNISNL-SGISRLKNLQVLSMRNLEFESYQDLIDLFNLK  220 (699)
T ss_pred             hhCcccceEEecCc---eecchhHHHHhhccCccceeecCCCCccCc-HHHhccccHHHHhccCCCCCchhhHHHHhccc
Confidence            45677777777662   111110112346777777777777777777 567777777777777666554   34666777


Q ss_pred             CCCEEeecCC
Q 040933          280 KLEILCLRGS  289 (298)
Q Consensus       280 ~L~~L~l~~~  289 (298)
                      +|++||+|..
T Consensus       221 ~L~vLDIS~~  230 (699)
T KOG3665|consen  221 KLRVLDISRD  230 (699)
T ss_pred             CCCeeecccc
Confidence            7777777765

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

Probab=97.74  E-value=1.4e-05  Score=70.72  Aligned_cols=112  Identities=20%  Similarity=0.270  Sum_probs=81.8

Q ss_pred             hccCccEEEEeCCCCccCC-CCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC--ccccCC
Q 040933          180 AVKLYTSIVLRDIKTNVLP-DRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP--SSLGLL  256 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~-~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP--~~i~~L  256 (298)
                      ....+..|.+..+.+..-. ..+...+|+|..|.+.+   ++.+..--.+ +..++.|+.|||++|++...|  .-++.|
T Consensus       195 ~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~---N~~~~~~~~~-~~i~~~L~~LdLs~N~li~~~~~~~~~~l  270 (505)
T KOG3207|consen  195 LLSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEA---NEIILIKATS-TKILQTLQELDLSNNNLIDFDQGYKVGTL  270 (505)
T ss_pred             hhhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhc---ccccceecch-hhhhhHHhhccccCCcccccccccccccc
Confidence            4567888888888875221 11347788999999988   3322211111 356778999999999887776  678899


Q ss_pred             CCCcEeecCCCCCCC---Ccc-----cCCCCCCCEEeecCCCCCCCC
Q 040933          257 SNLRTLSLCYCKLLD---ISV-----TGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       257 ~~L~~L~l~~~~l~~---p~~-----i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      +.|+.|+++.|.+.+   |+.     ...+++|++|+++.|+++..|
T Consensus       271 ~~L~~Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I~~w~  317 (505)
T KOG3207|consen  271 PGLNQLNLSSTGIASIAEPDVESLDKTHTFPKLEYLNISENNIRDWR  317 (505)
T ss_pred             cchhhhhccccCcchhcCCCccchhhhcccccceeeecccCcccccc
Confidence            999999999998777   543     467789999999999887665

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.74  E-value=8.2e-05  Score=66.62  Aligned_cols=59  Identities=14%  Similarity=0.218  Sum_probs=27.2

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCC-CCCCCC
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYM-NLLPLP  250 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~-~i~~lP  250 (298)
                      .++++|.++++.+..+|..    .++|++|.+.+   +..+..+|..+   ..+|++|++++| .+..+|
T Consensus        52 ~~l~~L~Is~c~L~sLP~L----P~sLtsL~Lsn---c~nLtsLP~~L---P~nLe~L~Ls~Cs~L~sLP  111 (426)
T PRK15386         52 RASGRLYIKDCDIESLPVL----PNELTEITIEN---CNNLTTLPGSI---PEGLEKLTVCHCPEISGLP  111 (426)
T ss_pred             cCCCEEEeCCCCCcccCCC----CCCCcEEEccC---CCCcccCCchh---hhhhhheEccCcccccccc
Confidence            3445555555555555421    12455555554   34444444322   134555555554 444444

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

Probab=97.64  E-value=1.7e-05  Score=72.48  Aligned_cols=105  Identities=22%  Similarity=0.312  Sum_probs=58.9

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCc
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLR  260 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~  260 (298)
                      .+++..+.+..|.+..+... +..+++|+.|.+++    +.+..+..  +..+..|+.|++++|.|..++ .+..+.+|+
T Consensus        94 ~~~l~~l~l~~n~i~~i~~~-l~~~~~L~~L~ls~----N~I~~i~~--l~~l~~L~~L~l~~N~i~~~~-~~~~l~~L~  165 (414)
T KOG0531|consen   94 LKSLEALDLYDNKIEKIENL-LSSLVNLQVLDLSF----NKITKLEG--LSTLTLLKELNLSGNLISDIS-GLESLKSLK  165 (414)
T ss_pred             ccceeeeeccccchhhcccc-hhhhhcchheeccc----cccccccc--hhhccchhhheeccCcchhcc-CCccchhhh
Confidence            35566666666666666552 15566666666665    44544443  345555666666666666554 344456666


Q ss_pred             EeecCCCCCCC-Ccc-cCCCCCCCEEeecCCCCCC
Q 040933          261 TLSLCYCKLLD-ISV-TGELKKLEILCLRGSDIQQ  293 (298)
Q Consensus       261 ~L~l~~~~l~~-p~~-i~~L~~L~~L~l~~~~l~~  293 (298)
                      .+++++|.+.. ... ...+.+|+.+++.+|.+..
T Consensus       166 ~l~l~~n~i~~ie~~~~~~~~~l~~l~l~~n~i~~  200 (414)
T KOG0531|consen  166 LLDLSYNRIVDIENDELSELISLEELDLGGNSIRE  200 (414)
T ss_pred             cccCCcchhhhhhhhhhhhccchHHHhccCCchhc
Confidence            66666666555 221 3555666666666654443

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

Probab=97.64  E-value=3.2e-05  Score=67.79  Aligned_cols=106  Identities=21%  Similarity=0.228  Sum_probs=68.5

Q ss_pred             cCccEEEEeCCCCcc-----CCCCcCCCCCCCcEEeccccccccccc----ccChHHHhCCCCccEEEecCCCCCC----
Q 040933          182 KLYTSIVLRDIKTNV-----LPDRVLPECPQLKLFSVRADHQESSSL----TIPNNFFEKMIQVRVINLTYMNLLP----  248 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~-----l~~~~~~~~~~L~~L~l~~~~~~~~~~----~lp~~~~~~l~~Lr~L~l~~~~i~~----  248 (298)
                      .+++.+.+.+|.+..     +.. .+..+.+|+.|.+.+   +....    .++.. +..+++|++|++++|.+..    
T Consensus       137 ~~L~~L~L~~n~l~~~~~~~~~~-~~~~~~~L~~L~l~~---n~l~~~~~~~l~~~-l~~~~~L~~L~L~~n~i~~~~~~  211 (319)
T cd00116         137 PALEKLVLGRNRLEGASCEALAK-ALRANRDLKELNLAN---NGIGDAGIRALAEG-LKANCNLEVLDLNNNGLTDEGAS  211 (319)
T ss_pred             CCceEEEcCCCcCCchHHHHHHH-HHHhCCCcCEEECcC---CCCchHHHHHHHHH-HHhCCCCCEEeccCCccChHHHH
Confidence            577888888887762     111 234556788888877   22211    22222 2555788888888887753    


Q ss_pred             -CCccccCCCCCcEeecCCCCCCC--CcccCC-----CCCCCEEeecCCCCC
Q 040933          249 -LPSSLGLLSNLRTLSLCYCKLLD--ISVTGE-----LKKLEILCLRGSDIQ  292 (298)
Q Consensus       249 -lP~~i~~L~~L~~L~l~~~~l~~--p~~i~~-----L~~L~~L~l~~~~l~  292 (298)
                       ++..+..+++|++|++++|.+..  +..+..     .+.|+.|++++|.+.
T Consensus       212 ~l~~~~~~~~~L~~L~ls~n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~i~  263 (319)
T cd00116         212 ALAETLASLKSLEVLNLGDNNLTDAGAAALASALLSPNISLLTLSLSCNDIT  263 (319)
T ss_pred             HHHHHhcccCCCCEEecCCCcCchHHHHHHHHHHhccCCCceEEEccCCCCC
Confidence             34456677788888888888765  333222     368888888888764

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).

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

Probab=97.63  E-value=9.7e-05  Score=59.10  Aligned_cols=102  Identities=19%  Similarity=0.176  Sum_probs=83.5

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC--ccccCCCCC
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP--SSLGLLSNL  259 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP--~~i~~L~~L  259 (298)
                      ++...+.+.+|++..++..  ..++.|.+|.+..    +.+..+.+.+-..+++|..|.|.+|+|..+-  ..+..++.|
T Consensus        42 d~~d~iDLtdNdl~~l~~l--p~l~rL~tLll~n----NrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L  115 (233)
T KOG1644|consen   42 DQFDAIDLTDNDLRKLDNL--PHLPRLHTLLLNN----NRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKL  115 (233)
T ss_pred             cccceecccccchhhcccC--CCccccceEEecC----CcceeeccchhhhccccceEEecCcchhhhhhcchhccCCcc
Confidence            4566788889998888775  8899999999987    7888888877677788999999999887752  345567789


Q ss_pred             cEeecCCCCCCC-C----cccCCCCCCCEEeecCC
Q 040933          260 RTLSLCYCKLLD-I----SVTGELKKLEILCLRGS  289 (298)
Q Consensus       260 ~~L~l~~~~l~~-p----~~i~~L~~L~~L~l~~~  289 (298)
                      ++|.+-+|+++. .    -.+.++++|++||.+.-
T Consensus       116 ~~Ltll~Npv~~k~~YR~yvl~klp~l~~LDF~kV  150 (233)
T KOG1644|consen  116 EYLTLLGNPVEHKKNYRLYVLYKLPSLRTLDFQKV  150 (233)
T ss_pred             ceeeecCCchhcccCceeEEEEecCcceEeehhhh
Confidence            999999999776 3    47899999999998653

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

Probab=97.61  E-value=1.9e-05  Score=69.17  Aligned_cols=106  Identities=20%  Similarity=0.221  Sum_probs=76.2

Q ss_pred             CccEEEEeCCCCcc-----CCCCcCCCC-CCCcEEeccccccccccc----ccChHHHhCCCCccEEEecCCCCCC----
Q 040933          183 LYTSIVLRDIKTNV-----LPDRVLPEC-PQLKLFSVRADHQESSSL----TIPNNFFEKMIQVRVINLTYMNLLP----  248 (298)
Q Consensus       183 ~~~~l~l~~~~~~~-----l~~~~~~~~-~~L~~L~l~~~~~~~~~~----~lp~~~~~~l~~Lr~L~l~~~~i~~----  248 (298)
                      .++.+.+.+|.+..     +.. .+..+ ++|+.|.+.+   +....    .++. .+..+++|++|++++|.+..    
T Consensus       109 ~L~~L~ls~~~~~~~~~~~l~~-~l~~~~~~L~~L~L~~---n~l~~~~~~~~~~-~~~~~~~L~~L~l~~n~l~~~~~~  183 (319)
T cd00116         109 SLQELKLNNNGLGDRGLRLLAK-GLKDLPPALEKLVLGR---NRLEGASCEALAK-ALRANRDLKELNLANNGIGDAGIR  183 (319)
T ss_pred             cccEEEeeCCccchHHHHHHHH-HHHhCCCCceEEEcCC---CcCCchHHHHHHH-HHHhCCCcCEEECcCCCCchHHHH
Confidence            48899999887752     111 12445 7899999998   33221    2222 24777899999999998873    


Q ss_pred             -CCccccCCCCCcEeecCCCCCCC------CcccCCCCCCCEEeecCCCCCC
Q 040933          249 -LPSSLGLLSNLRTLSLCYCKLLD------ISVTGELKKLEILCLRGSDIQQ  293 (298)
Q Consensus       249 -lP~~i~~L~~L~~L~l~~~~l~~------p~~i~~L~~L~~L~l~~~~l~~  293 (298)
                       ++..+..+.+|++|++++|.+..      +..+..+++|++|++++|.+..
T Consensus       184 ~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~l~~  235 (319)
T cd00116         184 ALAEGLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDNNLTD  235 (319)
T ss_pred             HHHHHHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCCcCch
Confidence             44556667799999999998864      2456778899999999997763

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).

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

Probab=97.60  E-value=7.7e-06  Score=61.38  Aligned_cols=86  Identities=22%  Similarity=0.288  Sum_probs=50.3

Q ss_pred             CCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCC-CcccCCCCCCCEE
Q 040933          206 PQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLD-ISVTGELKKLEIL  284 (298)
Q Consensus       206 ~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~-p~~i~~L~~L~~L  284 (298)
                      ..|....+++    +....+|+.+-..++.+..|++++|.|..+|.++..++.|+.|+++.|++.. |..|..|.+|-.|
T Consensus        53 ~el~~i~ls~----N~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~N~l~~~p~vi~~L~~l~~L  128 (177)
T KOG4579|consen   53 YELTKISLSD----NGFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLRFNPLNAEPRVIAPLIKLDML  128 (177)
T ss_pred             ceEEEEeccc----chhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcccccCccccchHHHHHHHhHHHh
Confidence            3444555554    4555566555444555666666666666666666666666666666666555 6666666666666


Q ss_pred             eecCCCCCCCC
Q 040933          285 CLRGSDIQQLP  295 (298)
Q Consensus       285 ~l~~~~l~~lP  295 (298)
                      +..++.+.++|
T Consensus       129 ds~~na~~eid  139 (177)
T KOG4579|consen  129 DSPENARAEID  139 (177)
T ss_pred             cCCCCccccCc
Confidence            66555554444

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

Probab=97.55  E-value=3.1e-06  Score=73.89  Aligned_cols=108  Identities=14%  Similarity=0.146  Sum_probs=96.5

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~  258 (298)
                      ..+++|+|++++|+++.+.+.+|.+++.+.+|.+.+   ++.++.+|...|..+..|+.|.+..|.+..++ ..+..|.+
T Consensus        89 ~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg---~NkI~~l~k~~F~gL~slqrLllNan~i~Cir~~al~dL~~  165 (498)
T KOG4237|consen   89 TLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYG---NNKITDLPKGAFGGLSSLQRLLLNANHINCIRQDALRDLPS  165 (498)
T ss_pred             chhhhceecccccchhhcChHhhhhhHhhhHHHhhc---CCchhhhhhhHhhhHHHHHHHhcChhhhcchhHHHHHHhhh
Confidence            457899999999999999998899999999999888   79999999999999999999999999998875 56888999


Q ss_pred             CcEeecCCCCCCC-Cc-ccCCCCCCCEEeecCCC
Q 040933          259 LRTLSLCYCKLLD-IS-VTGELKKLEILCLRGSD  290 (298)
Q Consensus       259 L~~L~l~~~~l~~-p~-~i~~L~~L~~L~l~~~~  290 (298)
                      |..|.+.+|.++. +. ++..+.+++++.+..|.
T Consensus       166 l~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~np  199 (498)
T KOG4237|consen  166 LSLLSLYDNKIQSICKGTFQGLAAIKTLHLAQNP  199 (498)
T ss_pred             cchhcccchhhhhhccccccchhccchHhhhcCc
Confidence            9999999999888 54 78889999998877663

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

Probab=97.29  E-value=8.9e-05  Score=67.74  Aligned_cols=87  Identities=23%  Similarity=0.320  Sum_probs=52.0

Q ss_pred             CCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCCCcccCCCCCCC
Q 040933          203 PECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLE  282 (298)
Q Consensus       203 ~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~  282 (298)
                      ..+.++..+.+.+    +.+..+...+ ..+.+|++|++++|.|+.+. .+..+..|+.|++++|.+.....+..+.+|+
T Consensus        92 ~~~~~l~~l~l~~----n~i~~i~~~l-~~~~~L~~L~ls~N~I~~i~-~l~~l~~L~~L~l~~N~i~~~~~~~~l~~L~  165 (414)
T KOG0531|consen   92 SKLKSLEALDLYD----NKIEKIENLL-SSLVNLQVLDLSFNKITKLE-GLSTLTLLKELNLSGNLISDISGLESLKSLK  165 (414)
T ss_pred             ccccceeeeeccc----cchhhcccch-hhhhcchheecccccccccc-chhhccchhhheeccCcchhccCCccchhhh
Confidence            4555666666665    4444444322 55666666666666666654 4555666666666666666655555566666


Q ss_pred             EEeecCCCCCCCC
Q 040933          283 ILCLRGSDIQQLP  295 (298)
Q Consensus       283 ~L~l~~~~l~~lP  295 (298)
                      .+++++|++..++
T Consensus       166 ~l~l~~n~i~~ie  178 (414)
T KOG0531|consen  166 LLDLSYNRIVDIE  178 (414)
T ss_pred             cccCCcchhhhhh
Confidence            6666666555443

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.22  E-value=0.0025  Score=57.33  Aligned_cols=96  Identities=21%  Similarity=0.228  Sum_probs=61.0

Q ss_pred             hhccCccEEEEeC-CCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCC---CCCCCcccc
Q 040933          179 NAVKLYTSIVLRD-IKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMN---LLPLPSSLG  254 (298)
Q Consensus       179 ~~~~~~~~l~l~~-~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~---i~~lP~~i~  254 (298)
                      ..+..++.|.+.+ +.+..+|..   -.++|+.|.+.+   +..+..+|.       +|+.|++.++.   +..+|+++.
T Consensus        69 ~LP~sLtsL~Lsnc~nLtsLP~~---LP~nLe~L~Ls~---Cs~L~sLP~-------sLe~L~L~~n~~~~L~~LPssLk  135 (426)
T PRK15386         69 VLPNELTEITIENCNNLTTLPGS---IPEGLEKLTVCH---CPEISGLPE-------SVRSLEIKGSATDSIKNVPNGLT  135 (426)
T ss_pred             CCCCCCcEEEccCCCCcccCCch---hhhhhhheEccC---ccccccccc-------ccceEEeCCCCCcccccCcchHh
Confidence            4566788888875 444555543   135788888887   445555654       35666666553   455676665


Q ss_pred             CC------------------CCCcEeecCCCCCCC-CcccCCCCCCCEEeecCC
Q 040933          255 LL------------------SNLRTLSLCYCKLLD-ISVTGELKKLEILCLRGS  289 (298)
Q Consensus       255 ~L------------------~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~  289 (298)
                      .|                  .+|++|++++|.... |..+.  .+|++|+++.+
T Consensus       136 ~L~I~~~n~~~~~~lp~~LPsSLk~L~Is~c~~i~LP~~LP--~SLk~L~ls~n  187 (426)
T PRK15386        136 SLSINSYNPENQARIDNLISPSLKTLSLTGCSNIILPEKLP--ESLQSITLHIE  187 (426)
T ss_pred             heeccccccccccccccccCCcccEEEecCCCcccCccccc--ccCcEEEeccc
Confidence            54                  267888888888555 65444  57888887664

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

Probab=97.10  E-value=1.1e-05  Score=75.53  Aligned_cols=103  Identities=21%  Similarity=0.243  Sum_probs=62.7

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcE
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRT  261 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~  261 (298)
                      ..+++|.+++|++......  ..+++|+.|+++.    +.+..+|.-.-..++ |.+|.+++|.++++- .|.+|.+|+.
T Consensus       187 ~ale~LnLshNk~~~v~~L--r~l~~LkhLDlsy----N~L~~vp~l~~~gc~-L~~L~lrnN~l~tL~-gie~LksL~~  258 (1096)
T KOG1859|consen  187 PALESLNLSHNKFTKVDNL--RRLPKLKHLDLSY----NCLRHVPQLSMVGCK-LQLLNLRNNALTTLR-GIENLKSLYG  258 (1096)
T ss_pred             HHhhhhccchhhhhhhHHH--Hhccccccccccc----chhccccccchhhhh-heeeeecccHHHhhh-hHHhhhhhhc
Confidence            4566666777766665532  6666777777766    555555542212222 677777777666653 5666777777


Q ss_pred             eecCCCCCCC---CcccCCCCCCCEEeecCCCCC
Q 040933          262 LSLCYCKLLD---ISVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       262 L~l~~~~l~~---p~~i~~L~~L~~L~l~~~~l~  292 (298)
                      ||+++|-+..   ..-++.|..|+.|.|.||.+-
T Consensus       259 LDlsyNll~~hseL~pLwsLs~L~~L~LeGNPl~  292 (1096)
T KOG1859|consen  259 LDLSYNLLSEHSELEPLWSLSSLIVLWLEGNPLC  292 (1096)
T ss_pred             cchhHhhhhcchhhhHHHHHHHHHHHhhcCCccc
Confidence            7777766554   344556666667777766543

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

Probab=97.00  E-value=0.00022  Score=63.30  Aligned_cols=111  Identities=18%  Similarity=0.153  Sum_probs=75.9

Q ss_pred             ccCccEEEEeCCCCccCCCC-cCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCC-CCCCCCccccCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDR-VLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYM-NLLPLPSSLGLLSN  258 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~-~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~-~i~~lP~~i~~L~~  258 (298)
                      .+.++.|.++.|.+.....+ ....+++++.|.+.+   |...+.--..+...+++|.+|+|++| .+..--.+..-+..
T Consensus       171 Lp~Le~LNls~Nrl~~~~~s~~~~~l~~lK~L~l~~---CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~  247 (505)
T KOG3207|consen  171 LPSLENLNLSSNRLSNFISSNTTLLLSHLKQLVLNS---CGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQT  247 (505)
T ss_pred             cccchhcccccccccCCccccchhhhhhhheEEecc---CCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhH
Confidence            45666777777766544333 224567888888887   33332222233477899999999999 33322233445667


Q ss_pred             CcEeecCCCCCCC-C--cccCCCCCCCEEeecCCCCCCC
Q 040933          259 LRTLSLCYCKLLD-I--SVTGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       259 L~~L~l~~~~l~~-p--~~i~~L~~L~~L~l~~~~l~~l  294 (298)
                      |+.|+|++|++-. +  ..++.|+.|..|+++.|.+.++
T Consensus       248 L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~tgi~si  286 (505)
T KOG3207|consen  248 LQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSSTGIASI  286 (505)
T ss_pred             HhhccccCCcccccccccccccccchhhhhccccCcchh
Confidence            9999999999666 5  6789999999999999987753

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

Probab=96.91  E-value=0.00088  Score=64.73  Aligned_cols=106  Identities=17%  Similarity=0.243  Sum_probs=78.5

Q ss_pred             hccCccEEEEeCCCCccCC-CCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC--ccccCC
Q 040933          180 AVKLYTSIVLRDIKTNVLP-DRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP--SSLGLL  256 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~-~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP--~~i~~L  256 (298)
                      ..+.+++|.+.+-.+..-. .....+||+|++|++++    ..+..+ .++ +.+++|++|.+.+-.+..-+  ..+.+|
T Consensus       146 ~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~----TnI~nl-~GI-S~LknLq~L~mrnLe~e~~~~l~~LF~L  219 (699)
T KOG3665|consen  146 MLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISG----TNISNL-SGI-SRLKNLQVLSMRNLEFESYQDLIDLFNL  219 (699)
T ss_pred             hCcccceEEecCceecchhHHHHhhccCccceeecCC----CCccCc-HHH-hccccHHHHhccCCCCCchhhHHHHhcc
Confidence            4578899988875553211 11347899999999998    566666 445 89999999999988877633  578899


Q ss_pred             CCCcEeecCCCCCCC-C-------cccCCCCCCCEEeecCCCC
Q 040933          257 SNLRTLSLCYCKLLD-I-------SVTGELKKLEILCLRGSDI  291 (298)
Q Consensus       257 ~~L~~L~l~~~~l~~-p-------~~i~~L~~L~~L~l~~~~l  291 (298)
                      ++|+.||+|...... +       +.-.-|++|+.||.+++.+
T Consensus       220 ~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi  262 (699)
T KOG3665|consen  220 KKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDI  262 (699)
T ss_pred             cCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcch
Confidence            999999999876443 4       2223489999999998754

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

Probab=96.88  E-value=0.00037  Score=60.23  Aligned_cols=90  Identities=16%  Similarity=0.174  Sum_probs=41.8

Q ss_pred             cCccEEEEeCCCCccCCCC----cCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCC-----CCcc
Q 040933          182 KLYTSIVLRDIKTNVLPDR----VLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLP-----LPSS  252 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~----~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~-----lP~~  252 (298)
                      .++|.+..+.|.+..-+..    +|...+.|..+.+..+.-......+....|..+++|++|||..|.++.     +...
T Consensus       157 ~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~Laka  236 (382)
T KOG1909|consen  157 PKLRVFICGRNRLENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKA  236 (382)
T ss_pred             cceEEEEeeccccccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHH
Confidence            4455555555555433322    233445555555544110000011122224556666666666665543     3344


Q ss_pred             ccCCCCCcEeecCCCCCCC
Q 040933          253 LGLLSNLRTLSLCYCKLLD  271 (298)
Q Consensus       253 i~~L~~L~~L~l~~~~l~~  271 (298)
                      ++.+++|+.|++++|.++.
T Consensus       237 L~s~~~L~El~l~dcll~~  255 (382)
T KOG1909|consen  237 LSSWPHLRELNLGDCLLEN  255 (382)
T ss_pred             hcccchheeeccccccccc
Confidence            4455566666666665554

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

Probab=96.79  E-value=4.2e-05  Score=71.93  Aligned_cols=105  Identities=15%  Similarity=0.154  Sum_probs=81.4

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~  258 (298)
                      .+.++..++...|.+..+..+ +.-++.++.|+++.    +......  .+..++.|+.|||++|.+..+|.- ...+ +
T Consensus       162 ~Wn~L~~a~fsyN~L~~mD~S-Lqll~ale~LnLsh----Nk~~~v~--~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc-~  233 (1096)
T KOG1859|consen  162 VWNKLATASFSYNRLVLMDES-LQLLPALESLNLSH----NKFTKVD--NLRRLPKLKHLDLSYNCLRHVPQLSMVGC-K  233 (1096)
T ss_pred             hhhhHhhhhcchhhHHhHHHH-HHHHHHhhhhccch----hhhhhhH--HHHhcccccccccccchhccccccchhhh-h
Confidence            455677778888887766554 35567899999988    5555544  358899999999999999988732 2222 4


Q ss_pred             CcEeecCCCCCCCCcccCCCCCCCEEeecCCCCC
Q 040933          259 LRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       259 L~~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~l~  292 (298)
                      |+.|.+++|.++....|.+|.+|+.||++.|-|.
T Consensus       234 L~~L~lrnN~l~tL~gie~LksL~~LDlsyNll~  267 (1096)
T KOG1859|consen  234 LQLLNLRNNALTTLRGIENLKSLYGLDLSYNLLS  267 (1096)
T ss_pred             heeeeecccHHHhhhhHHhhhhhhccchhHhhhh
Confidence            9999999999999888999999999999998544

>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=96.72  E-value=0.00045  Score=34.79  Aligned_cols=21  Identities=29%  Similarity=0.433  Sum_probs=12.7

Q ss_pred             CccEEEecCCCCCCCCccccC
Q 040933          235 QVRVINLTYMNLLPLPSSLGL  255 (298)
Q Consensus       235 ~Lr~L~l~~~~i~~lP~~i~~  255 (298)
                      +|++|++++|+++.+|+++++
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT
T ss_pred             CccEEECCCCcCEeCChhhcC
Confidence            356666666666666655543

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 ....

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

Probab=96.68  E-value=0.0031  Score=50.65  Aligned_cols=83  Identities=19%  Similarity=0.292  Sum_probs=66.1

Q ss_pred             CCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccC-CCCCcEeecCCCCCCC---CcccCCCCC
Q 040933          205 CPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGL-LSNLRTLSLCYCKLLD---ISVTGELKK  280 (298)
Q Consensus       205 ~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~-L~~L~~L~l~~~~l~~---p~~i~~L~~  280 (298)
                      ..+...+++.+    +.+..++.  |..++.|..|.+.+|+|+.+-+.+.. +++|..|.|.+|+|..   ...+..+++
T Consensus        41 ~d~~d~iDLtd----Ndl~~l~~--lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~  114 (233)
T KOG1644|consen   41 LDQFDAIDLTD----NDLRKLDN--LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPK  114 (233)
T ss_pred             ccccceecccc----cchhhccc--CCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCc
Confidence            44666778877    66666665  68999999999999999998656664 5569999999999877   556778889


Q ss_pred             CCEEeecCCCCCC
Q 040933          281 LEILCLRGSDIQQ  293 (298)
Q Consensus       281 L~~L~l~~~~l~~  293 (298)
                      |++|.+-+|.+..
T Consensus       115 L~~Ltll~Npv~~  127 (233)
T KOG1644|consen  115 LEYLTLLGNPVEH  127 (233)
T ss_pred             cceeeecCCchhc
Confidence            9999998886654

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

Probab=96.58  E-value=0.0013  Score=30.80  Aligned_cols=17  Identities=29%  Similarity=0.475  Sum_probs=9.8

Q ss_pred             CCCCEEeecCCCCCCCC
Q 040933          279 KKLEILCLRGSDIQQLP  295 (298)
Q Consensus       279 ~~L~~L~l~~~~l~~lP  295 (298)
                      ++|+.|++++|+++++|
T Consensus         1 ~~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    1 PNLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             TT-SEEEETSS--SSE-
T ss_pred             CccCEEECCCCCCCCCc
Confidence            36778888888877776

...

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

Probab=96.39  E-value=0.0021  Score=53.51  Aligned_cols=103  Identities=22%  Similarity=0.232  Sum_probs=69.6

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEeccccccc--ccccccChHHHhCCCCccEEEecCCCCCC---CCcccc
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQE--SSSLTIPNNFFEKMIQVRVINLTYMNLLP---LPSSLG  254 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~--~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~---lP~~i~  254 (298)
                      ....+..+++.+..+..+...  ..+++|+.|.++.   +  .....++.-. ..+++|++|++++|+|+.   ++ .+.
T Consensus        41 ~~~~le~ls~~n~gltt~~~~--P~Lp~LkkL~lsd---n~~~~~~~l~vl~-e~~P~l~~l~ls~Nki~~lstl~-pl~  113 (260)
T KOG2739|consen   41 EFVELELLSVINVGLTTLTNF--PKLPKLKKLELSD---NYRRVSGGLEVLA-EKAPNLKVLNLSGNKIKDLSTLR-PLK  113 (260)
T ss_pred             cccchhhhhhhccceeecccC--CCcchhhhhcccC---Ccccccccceehh-hhCCceeEEeecCCccccccccc-hhh
Confidence            345566667666666555554  7788999999988   3  2222333333 566999999999998764   32 456


Q ss_pred             CCCCCcEeecCCCCCCC---C--cccCCCCCCCEEeecCC
Q 040933          255 LLSNLRTLSLCYCKLLD---I--SVTGELKKLEILCLRGS  289 (298)
Q Consensus       255 ~L~~L~~L~l~~~~l~~---p--~~i~~L~~L~~L~l~~~  289 (298)
                      .+.+|..|++..|....   +  ..+.-+++|.+||-...
T Consensus       114 ~l~nL~~Ldl~n~~~~~l~dyre~vf~ll~~L~~LD~~dv  153 (260)
T KOG2739|consen  114 ELENLKSLDLFNCSVTNLDDYREKVFLLLPSLKYLDGCDV  153 (260)
T ss_pred             hhcchhhhhcccCCccccccHHHHHHHHhhhhcccccccc
Confidence            77788899999988554   2  34556788888875544

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

Probab=96.33  E-value=0.0024  Score=53.18  Aligned_cols=85  Identities=26%  Similarity=0.291  Sum_probs=59.1

Q ss_pred             CCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCC--CCCC-CCccccCCCCCcEeecCCCCCCC---CcccC
Q 040933          203 PECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYM--NLLP-LPSSLGLLSNLRTLSLCYCKLLD---ISVTG  276 (298)
Q Consensus       203 ~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~--~i~~-lP~~i~~L~~L~~L~l~~~~l~~---p~~i~  276 (298)
                      ..+..|..|.+.+    .....+..  |..+++|+.|.++.|  .+.. ++...-.+++|++|++++|+++.   .....
T Consensus        40 d~~~~le~ls~~n----~gltt~~~--~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~pl~  113 (260)
T KOG2739|consen   40 DEFVELELLSVIN----VGLTTLTN--FPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRPLK  113 (260)
T ss_pred             ccccchhhhhhhc----cceeeccc--CCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccchhh
Confidence            3344455444443    23333333  568889999999999  4443 66667777999999999999775   34566


Q ss_pred             CCCCCCEEeecCCCCCC
Q 040933          277 ELKKLEILCLRGSDIQQ  293 (298)
Q Consensus       277 ~L~~L~~L~l~~~~l~~  293 (298)
                      ++.+|..|++..|....
T Consensus       114 ~l~nL~~Ldl~n~~~~~  130 (260)
T KOG2739|consen  114 ELENLKSLDLFNCSVTN  130 (260)
T ss_pred             hhcchhhhhcccCCccc
Confidence            77888899998885443

>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=96.20  E-value=0.0016  Score=32.73  Aligned_cols=20  Identities=30%  Similarity=0.182  Sum_probs=11.7

Q ss_pred             CCcEeecCCCCCCC-CcccCC
Q 040933          258 NLRTLSLCYCKLLD-ISVTGE  277 (298)
Q Consensus       258 ~L~~L~l~~~~l~~-p~~i~~  277 (298)
                      +|++|++++|+++. |+++++
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT
T ss_pred             CccEEECCCCcCEeCChhhcC
Confidence            35666666666656 555544

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

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

Probab=95.49  E-value=0.009  Score=27.88  Aligned_cols=16  Identities=31%  Similarity=0.607  Sum_probs=6.9

Q ss_pred             CccEEEecCCCCCCCC
Q 040933          235 QVRVINLTYMNLLPLP  250 (298)
Q Consensus       235 ~Lr~L~l~~~~i~~lP  250 (298)
                      +|+.|++++|+++++|
T Consensus         2 ~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             T-SEEEETSS--SSE-
T ss_pred             ccCEEECCCCCCCCCc
Confidence            4556666666555544

...

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

Probab=95.40  E-value=0.01  Score=31.02  Aligned_cols=20  Identities=30%  Similarity=0.416  Sum_probs=15.1

Q ss_pred             CCCCCEEeecCCCCCCCCCC
Q 040933          278 LKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       278 L~~L~~L~l~~~~l~~lP~~  297 (298)
                      |.+|++|++++|+|+.+|.+
T Consensus         1 L~~L~~L~L~~N~l~~lp~~   20 (26)
T smart00369        1 LPNLRELDLSNNQLSSLPPG   20 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHH
Confidence            46778888888888888764

>smart00370 LRR Leucine-rich repeats, outliers

Probab=95.40  E-value=0.01  Score=31.02  Aligned_cols=20  Identities=30%  Similarity=0.416  Sum_probs=15.1

Q ss_pred             CCCCCEEeecCCCCCCCCCC
Q 040933          278 LKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       278 L~~L~~L~l~~~~l~~lP~~  297 (298)
                      |.+|++|++++|+|+.+|.+
T Consensus         1 L~~L~~L~L~~N~l~~lp~~   20 (26)
T smart00370        1 LPNLRELDLSNNQLSSLPPG   20 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHH
Confidence            46778888888888888764

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.28  E-value=0.006  Score=52.02  Aligned_cols=87  Identities=22%  Similarity=0.196  Sum_probs=56.4

Q ss_pred             CCCCCCcEEeccccccccccc--ccChHHHhCCCCccEEEecCCCCCCCCccc-cCCCCCcEeecCCCCCCC---CcccC
Q 040933          203 PECPQLKLFSVRADHQESSSL--TIPNNFFEKMIQVRVINLTYMNLLPLPSSL-GLLSNLRTLSLCYCKLLD---ISVTG  276 (298)
Q Consensus       203 ~~~~~L~~L~l~~~~~~~~~~--~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i-~~L~~L~~L~l~~~~l~~---p~~i~  276 (298)
                      ..++.++.+++.++    .+.  .--..++.+++.|++|+++.|.+..--.+. -.+.+|+.|-|.++.+..   -....
T Consensus        68 ~~~~~v~elDL~~N----~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~  143 (418)
T KOG2982|consen   68 SSVTDVKELDLTGN----LISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLD  143 (418)
T ss_pred             HHhhhhhhhhcccc----hhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhh
Confidence            33566777777762    221  112334588899999999988765421122 356688899888888655   45566


Q ss_pred             CCCCCCEEeecCCCCCC
Q 040933          277 ELKKLEILCLRGSDIQQ  293 (298)
Q Consensus       277 ~L~~L~~L~l~~~~l~~  293 (298)
                      .++.++.|.++.|+++.
T Consensus       144 ~lP~vtelHmS~N~~rq  160 (418)
T KOG2982|consen  144 DLPKVTELHMSDNSLRQ  160 (418)
T ss_pred             cchhhhhhhhccchhhh
Confidence            77788888887775544

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

Probab=95.06  E-value=0.078  Score=39.50  Aligned_cols=103  Identities=16%  Similarity=0.273  Sum_probs=58.7

Q ss_pred             CccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCCcE
Q 040933          183 LYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNLRT  261 (298)
Q Consensus       183 ~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L~~  261 (298)
                      +++.+.+.. .+..+....|..+++|+.+.+..     .+..++...|..++.|+.+.+.. .+..++ ..+..+.+|+.
T Consensus        13 ~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~-----~~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l~~   85 (129)
T PF13306_consen   13 NLESITFPN-TIKKIGENAFSNCTSLKSINFPN-----NLTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTNLKN   85 (129)
T ss_dssp             T--EEEETS-T--EE-TTTTTT-TT-SEEEESS-----TTSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TTECE
T ss_pred             CCCEEEECC-CeeEeChhhcccccccccccccc-----cccccceeeeecccccccccccc-cccccccccccccccccc
Confidence            566666653 67778888788888899888765     37777888888888899999976 555554 34556888888


Q ss_pred             eecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCC
Q 040933          262 LSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       262 L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      +.+..+ +..  ...+.+. +|+.+.+.. .+..++
T Consensus        86 i~~~~~-~~~i~~~~f~~~-~l~~i~~~~-~~~~i~  118 (129)
T PF13306_consen   86 IDIPSN-ITEIGSSSFSNC-NLKEINIPS-NITKIE  118 (129)
T ss_dssp             EEETTT--BEEHTTTTTT--T--EEE-TT-B-SS--
T ss_pred             cccCcc-ccEEchhhhcCC-CceEEEECC-CccEEC
Confidence            888664 554  5566675 888888765 344444

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

Probab=94.81  E-value=0.018  Score=50.14  Aligned_cols=90  Identities=18%  Similarity=0.210  Sum_probs=65.9

Q ss_pred             CCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCC-----CCccccCCCCCcEeecCCCCCCC------
Q 040933          203 PECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLP-----LPSSLGLLSNLRTLSLCYCKLLD------  271 (298)
Q Consensus       203 ~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~-----lP~~i~~L~~L~~L~l~~~~l~~------  271 (298)
                      ..-++||++....+...+.........|...+.|+.+.++.|.|..     +-..+..++||+.|++++|.++.      
T Consensus       154 ~~~~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~L  233 (382)
T KOG1909|consen  154 ASKPKLRVFICGRNRLENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVAL  233 (382)
T ss_pred             CCCcceEEEEeeccccccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHH
Confidence            4557899998876322222222334457888999999999997753     34567789999999999998776      


Q ss_pred             CcccCCCCCCCEEeecCCCCC
Q 040933          272 ISVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       272 p~~i~~L~~L~~L~l~~~~l~  292 (298)
                      -..++.+++|+.|+++.|.++
T Consensus       234 akaL~s~~~L~El~l~dcll~  254 (382)
T KOG1909|consen  234 AKALSSWPHLRELNLGDCLLE  254 (382)
T ss_pred             HHHhcccchheeecccccccc
Confidence            145667789999999999765

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

Probab=94.73  E-value=0.052  Score=40.50  Aligned_cols=86  Identities=13%  Similarity=0.221  Sum_probs=55.3

Q ss_pred             CCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCCcEeecCCCCCCC--Cc
Q 040933          197 LPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNLRTLSLCYCKLLD--IS  273 (298)
Q Consensus       197 l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L~~L~l~~~~l~~--p~  273 (298)
                      ++..+|..+++|+.+.+..     ....++...|..+..|+.+.+..+ +..++ ..+..+..|+.+.+.. .+..  ..
T Consensus         3 i~~~~F~~~~~l~~i~~~~-----~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~   75 (129)
T PF13306_consen    3 IGNNAFYNCSNLESITFPN-----TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDN   75 (129)
T ss_dssp             E-TTTTTT-TT--EEEETS-----T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TT
T ss_pred             ECHHHHhCCCCCCEEEECC-----CeeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-cccccccc
Confidence            4556678888999998764     466788888999999999999885 77765 3566777899999976 4444  45


Q ss_pred             ccCCCCCCCEEeecCC
Q 040933          274 VTGELKKLEILCLRGS  289 (298)
Q Consensus       274 ~i~~L~~L~~L~l~~~  289 (298)
                      .+....+|+.+++..+
T Consensus        76 ~F~~~~~l~~i~~~~~   91 (129)
T PF13306_consen   76 AFSNCTNLKNIDIPSN   91 (129)
T ss_dssp             TTTT-TTECEEEETTT
T ss_pred             cccccccccccccCcc
Confidence            5667899999998654

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.59  E-value=0.0013  Score=55.47  Aligned_cols=96  Identities=17%  Similarity=0.108  Sum_probs=63.3

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC--ccccCCCCC
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP--SSLGLLSNL  259 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP--~~i~~L~~L  259 (298)
                      .+++.|+..++.+..+.-.  ..++.|.+|.++-    +.+..+.+  |..++.|+.|.|..|.|..+-  .-+.+|++|
T Consensus        19 ~~vkKLNcwg~~L~DIsic--~kMp~lEVLsLSv----NkIssL~p--l~rCtrLkElYLRkN~I~sldEL~YLknlpsL   90 (388)
T KOG2123|consen   19 ENVKKLNCWGCGLDDISIC--EKMPLLEVLSLSV----NKISSLAP--LQRCTRLKELYLRKNCIESLDELEYLKNLPSL   90 (388)
T ss_pred             HHhhhhcccCCCccHHHHH--HhcccceeEEeec----cccccchh--HHHHHHHHHHHHHhcccccHHHHHHHhcCchh
Confidence            4566666667766666544  6677777777776    55555544  577777888888888777653  346677778


Q ss_pred             cEeecCCCCCCC--Cc-----ccCCCCCCCEEe
Q 040933          260 RTLSLCYCKLLD--IS-----VTGELKKLEILC  285 (298)
Q Consensus       260 ~~L~l~~~~l~~--p~-----~i~~L~~L~~L~  285 (298)
                      +.|.|..|+...  +.     .+.-|++|+.||
T Consensus        91 r~LWL~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   91 RTLWLDENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             hhHhhccCCcccccchhHHHHHHHHcccchhcc
Confidence            888888777333  32     345567777665

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.51  E-value=0.0019  Score=54.47  Aligned_cols=79  Identities=20%  Similarity=0.201  Sum_probs=62.3

Q ss_pred             CCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCC---CcccCCCCCC
Q 040933          205 CPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLD---ISVTGELKKL  281 (298)
Q Consensus       205 ~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~---p~~i~~L~~L  281 (298)
                      +.+.+.|.+-|    +.+..|  +++..|+.|.||.|+-|+|+++- .+..+++|+.|+|+-|.|..   ..=+.+|++|
T Consensus        18 l~~vkKLNcwg----~~L~DI--sic~kMp~lEVLsLSvNkIssL~-pl~rCtrLkElYLRkN~I~sldEL~YLknlpsL   90 (388)
T KOG2123|consen   18 LENVKKLNCWG----CGLDDI--SICEKMPLLEVLSLSVNKISSLA-PLQRCTRLKELYLRKNCIESLDELEYLKNLPSL   90 (388)
T ss_pred             HHHhhhhcccC----CCccHH--HHHHhcccceeEEeeccccccch-hHHHHHHHHHHHHHhcccccHHHHHHHhcCchh
Confidence            44556666555    444444  34689999999999999999984 68889999999999999887   3446788999


Q ss_pred             CEEeecCCC
Q 040933          282 EILCLRGSD  290 (298)
Q Consensus       282 ~~L~l~~~~  290 (298)
                      ++|.|..|.
T Consensus        91 r~LWL~ENP   99 (388)
T KOG2123|consen   91 RTLWLDENP   99 (388)
T ss_pred             hhHhhccCC
Confidence            999998763

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

Probab=94.39  E-value=0.0099  Score=50.76  Aligned_cols=59  Identities=17%  Similarity=0.090  Sum_probs=46.9

Q ss_pred             hCCCCccEEEecCC-CCCC-CCccccCCCCCcEeecCCCCCCC---CcccCCCCCCCEEeecCC
Q 040933          231 EKMIQVRVINLTYM-NLLP-LPSSLGLLSNLRTLSLCYCKLLD---ISVTGELKKLEILCLRGS  289 (298)
Q Consensus       231 ~~l~~Lr~L~l~~~-~i~~-lP~~i~~L~~L~~L~l~~~~l~~---p~~i~~L~~L~~L~l~~~  289 (298)
                      ..+++|..|||+.| .++. .-..+.++.-|++|.++.|+.-.   .-.+...++|.+||+.||
T Consensus       310 ~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lSlsRCY~i~p~~~~~l~s~psl~yLdv~g~  373 (419)
T KOG2120|consen  310 RRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLSLSRCYDIIPETLLELNSKPSLVYLDVFGC  373 (419)
T ss_pred             HhCCceeeeccccccccCchHHHHHHhcchheeeehhhhcCCChHHeeeeccCcceEEEEeccc
Confidence            67889999999998 5554 44567788889999999998433   456788899999999887

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

Probab=93.81  E-value=0.0017  Score=53.37  Aligned_cols=83  Identities=6%  Similarity=0.044  Sum_probs=45.9

Q ss_pred             CCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCC-CcccCCCCCC
Q 040933          203 PECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLD-ISVTGELKKL  281 (298)
Q Consensus       203 ~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~-p~~i~~L~~L  281 (298)
                      ..+...+.|+++.    +....+... |..+..|..|+++.+.+..+|.+.+.+..++.+++..|..+. |.++++++++
T Consensus        39 ~~~kr~tvld~~s----~r~vn~~~n-~s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~n~~~~~p~s~~k~~~~  113 (326)
T KOG0473|consen   39 ASFKRVTVLDLSS----NRLVNLGKN-FSILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHKNNHSQQPKSQKKEPHP  113 (326)
T ss_pred             hccceeeeehhhh----hHHHhhccc-hHHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhccchhhCCccccccCCc
Confidence            3444555555554    222222222 245555556666666666666666666666666666555555 6666666666


Q ss_pred             CEEeecCCC
Q 040933          282 EILCLRGSD  290 (298)
Q Consensus       282 ~~L~l~~~~  290 (298)
                      +++++.+|.
T Consensus       114 k~~e~k~~~  122 (326)
T KOG0473|consen  114 KKNEQKKTE  122 (326)
T ss_pred             chhhhccCc
Confidence            666665553

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

Probab=93.65  E-value=0.0098  Score=50.79  Aligned_cols=105  Identities=14%  Similarity=0.119  Sum_probs=60.3

Q ss_pred             CccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccC-hHHHhCCCCccEEEecCCCCCC-------------
Q 040933          183 LYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIP-NNFFEKMIQVRVINLTYMNLLP-------------  248 (298)
Q Consensus       183 ~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp-~~~~~~l~~Lr~L~l~~~~i~~-------------  248 (298)
                      ++..+++.++++..-.-..+.+-.+|+.|.+++   ++.+.... .-+|.+++.|..|+++.|.+..             
T Consensus       211 kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm---~sG~t~n~~~ll~~scs~L~~LNlsWc~l~~~~Vtv~V~hise~  287 (419)
T KOG2120|consen  211 KLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSM---CSGFTENALQLLLSSCSRLDELNLSWCFLFTEKVTVAVAHISET  287 (419)
T ss_pred             hhhhccccccccCcHHHHHHhccccceeecccc---ccccchhHHHHHHHhhhhHhhcCchHhhccchhhhHHHhhhchh
Confidence            455555555554432222224445666666666   33333221 1234555555555555553211             


Q ss_pred             -----------------CCccccCCCCCcEeecCCCC-CCC--CcccCCCCCCCEEeecCCC
Q 040933          249 -----------------LPSSLGLLSNLRTLSLCYCK-LLD--ISVTGELKKLEILCLRGSD  290 (298)
Q Consensus       249 -----------------lP~~i~~L~~L~~L~l~~~~-l~~--p~~i~~L~~L~~L~l~~~~  290 (298)
                                       +.--...+++|..|||++|. ++.  ...+.+++.|++|.++.|+
T Consensus       288 l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lSlsRCY  349 (419)
T KOG2120|consen  288 LTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLSLSRCY  349 (419)
T ss_pred             hhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccCchHHHHHHhcchheeeehhhhc
Confidence                             11112357788899999987 665  5778899999999999984

>smart00370 LRR Leucine-rich repeats, outliers

Probab=92.48  E-value=0.11  Score=27.01  Aligned_cols=19  Identities=26%  Similarity=0.440  Sum_probs=11.2

Q ss_pred             CCccEEEecCCCCCCCCcc
Q 040933          234 IQVRVINLTYMNLLPLPSS  252 (298)
Q Consensus       234 ~~Lr~L~l~~~~i~~lP~~  252 (298)
                      .+|++|+|++|.++.+|..
T Consensus         2 ~~L~~L~L~~N~l~~lp~~   20 (26)
T smart00370        2 PNLRELDLSNNQLSSLPPG   20 (26)
T ss_pred             CCCCEEECCCCcCCcCCHH
Confidence            4556666666666666544

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

Probab=92.48  E-value=0.11  Score=27.01  Aligned_cols=19  Identities=26%  Similarity=0.440  Sum_probs=11.2

Q ss_pred             CCccEEEecCCCCCCCCcc
Q 040933          234 IQVRVINLTYMNLLPLPSS  252 (298)
Q Consensus       234 ~~Lr~L~l~~~~i~~lP~~  252 (298)
                      .+|++|+|++|.++.+|..
T Consensus         2 ~~L~~L~L~~N~l~~lp~~   20 (26)
T smart00369        2 PNLRELDLSNNQLSSLPPG   20 (26)
T ss_pred             CCCCEEECCCCcCCcCCHH
Confidence            4556666666666666544

>smart00364 LRR_BAC Leucine-rich repeats, bacterial type

Probab=90.88  E-value=0.16  Score=26.49  Aligned_cols=18  Identities=22%  Similarity=0.385  Sum_probs=14.4

Q ss_pred             CCCCEEeecCCCCCCCCC
Q 040933          279 KKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       279 ~~L~~L~l~~~~l~~lP~  296 (298)
                      ++|+.|++++|++.+||.
T Consensus         2 ~~L~~L~vs~N~Lt~LPe   19 (26)
T smart00364        2 PSLKELNVSNNQLTSLPE   19 (26)
T ss_pred             cccceeecCCCccccCcc
Confidence            467888888888888885

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.76  E-value=0.12  Score=44.27  Aligned_cols=61  Identities=28%  Similarity=0.322  Sum_probs=47.6

Q ss_pred             hCCCCccEEEecCCCCCCC---CccccCCCCCcEeecCCCCCCC-Cccc-CCCCCCCEEeecCCCC
Q 040933          231 EKMIQVRVINLTYMNLLPL---PSSLGLLSNLRTLSLCYCKLLD-ISVT-GELKKLEILCLRGSDI  291 (298)
Q Consensus       231 ~~l~~Lr~L~l~~~~i~~l---P~~i~~L~~L~~L~l~~~~l~~-p~~i-~~L~~L~~L~l~~~~l  291 (298)
                      .....++.|||.+|.|+..   -.-+.+|++|++|+++.|++.. ..+. ..+.+|++|-+.|+.+
T Consensus        68 ~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L  133 (418)
T KOG2982|consen   68 SSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGL  133 (418)
T ss_pred             HHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCC
Confidence            5567899999999988763   3345589999999999999877 3444 3567999999988754

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.21  E-value=0.043  Score=44.26  Aligned_cols=59  Identities=24%  Similarity=0.360  Sum_probs=33.5

Q ss_pred             HhCCCCccEEEecCC-CCCCC-Ccccc-CCCCCcEeecCCCC-CCC--CcccCCCCCCCEEeecC
Q 040933          230 FEKMIQVRVINLTYM-NLLPL-PSSLG-LLSNLRTLSLCYCK-LLD--ISVTGELKKLEILCLRG  288 (298)
Q Consensus       230 ~~~l~~Lr~L~l~~~-~i~~l-P~~i~-~L~~L~~L~l~~~~-l~~--p~~i~~L~~L~~L~l~~  288 (298)
                      +..++.++.|.+.+| .+..- -+-++ -.++|+.|++++|+ |++  ...+.++++|+.|.+.+
T Consensus       121 L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~l~~  185 (221)
T KOG3864|consen  121 LRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGLACLLKLKNLRRLHLYD  185 (221)
T ss_pred             HhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHHHHHHHhhhhHHHHhcC
Confidence            455666666666666 33220 01111 33567777777776 666  56666777777666544

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

Probab=88.67  E-value=0.012  Score=48.44  Aligned_cols=85  Identities=11%  Similarity=-0.000  Sum_probs=67.0

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCc
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLR  260 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~  260 (298)
                      .+.++.|.+..|+.-.+... |..+..+..|+++.    +.+..+|.++ +....++.+++..|+.+.+|.+.+.+++++
T Consensus        41 ~kr~tvld~~s~r~vn~~~n-~s~~t~~~rl~~sk----nq~~~~~~d~-~q~~e~~~~~~~~n~~~~~p~s~~k~~~~k  114 (326)
T KOG0473|consen   41 FKRVTVLDLSSNRLVNLGKN-FSILTRLVRLDLSK----NQIKFLPKDA-KQQRETVNAASHKNNHSQQPKSQKKEPHPK  114 (326)
T ss_pred             cceeeeehhhhhHHHhhccc-hHHHHHHHHHhccH----hhHhhChhhH-HHHHHHHHHHhhccchhhCCccccccCCcc
Confidence            45667777777777666544 24455666777776    6777788876 889999999999999999999999999999


Q ss_pred             EeecCCCCCCC
Q 040933          261 TLSLCYCKLLD  271 (298)
Q Consensus       261 ~L~l~~~~l~~  271 (298)
                      |+++.++.+..
T Consensus       115 ~~e~k~~~~~~  125 (326)
T KOG0473|consen  115 KNEQKKTEFFR  125 (326)
T ss_pred             hhhhccCcchH
Confidence            99999987543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=86.65  E-value=3.8  Score=41.46  Aligned_cols=119  Identities=10%  Similarity=0.124  Sum_probs=71.3

Q ss_pred             HHHHHHHHHcCCchhHHHHHHHHhcCCCHHHHHHHHHHhcCCCCCCCCCchhhhhhHHhh-hhcCCCCchhHHHHHHhcC
Q 040933           13 CVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFKHIQPEAYKATAL-SYDKLEGEELKNLFLLIGY   91 (298)
Q Consensus        13 ~i~~~i~~~c~GlPLal~~~g~~L~~k~~~~W~~~~~~l~~~~~~~~~~~~~~~~~~l~~-sY~~L~~~~lk~cfl~~a~   91 (298)
                      +...++.+.|+|.|+++..++..+....... ......+....       ...+.+.+.- .++.||++ .+..++..|+
T Consensus       206 ~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~~-~~~~~~~~~~~-------~~~~~~~l~~~v~~~l~~~-~~~~l~~~a~  276 (903)
T PRK04841        206 AESSRLCDDVEGWATALQLIALSARQNNSSL-HDSARRLAGIN-------ASHLSDYLVEEVLDNVDLE-TRHFLLRCSV  276 (903)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCCch-hhhhHhhcCCC-------chhHHHHHHHHHHhcCCHH-HHHHHHHhcc
Confidence            3457899999999999999988775432100 11111111000       1223444333 47899999 8999999999


Q ss_pred             -CCCCCHHHHHHHHhhcCCCCCcccHHHHHHHHHHHHHHHHhcCCcc-c--CC---ccchHHHHHHHHHHH
Q 040933           92 -AYVESIDELLRYGVGLGLFQGISKLDEARDRVSTLVYKLKASCMLL-D--EG---LPMHDVIRDVAISIV  155 (298)
Q Consensus        92 -p~~~~~~~li~~wia~g~i~~~~~~~~~~~~~~~~i~~L~~~~l~~-~--~~---~~mhdlv~~l~~~~~  155 (298)
                       + .++.+ +.....  |       ..++    .+.+..|.+.+++. .  .+   |+.|++++++.....
T Consensus       277 ~~-~~~~~-l~~~l~--~-------~~~~----~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~r~~l~~~l  332 (903)
T PRK04841        277 LR-SMNDA-LIVRVT--G-------EENG----QMRLEELERQGLFIQRMDDSGEWFRYHPLFASFLRHRC  332 (903)
T ss_pred             cc-cCCHH-HHHHHc--C-------CCcH----HHHHHHHHHCCCeeEeecCCCCEEehhHHHHHHHHHHH
Confidence             5 33433 222111  1       1112    34577777788864 2  11   889999999987665

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

Probab=84.45  E-value=0.77  Score=23.97  Aligned_cols=17  Identities=35%  Similarity=0.483  Sum_probs=10.6

Q ss_pred             CCCCCEEeecCCCCCCC
Q 040933          278 LKKLEILCLRGSDIQQL  294 (298)
Q Consensus       278 L~~L~~L~l~~~~l~~l  294 (298)
                      |.+|+.|+++.|+|+.+
T Consensus         1 L~~L~~L~L~~NkI~~I   17 (26)
T smart00365        1 LTNLEELDLSQNKIKKI   17 (26)
T ss_pred             CCccCEEECCCCcccee
Confidence            35667777777766544

---

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	298
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	7e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-04
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-06
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-06
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	7e-06
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-05
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-06
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	4e-06
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-05
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	7e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	5e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-05
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-05
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	7e-05
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	6e-04
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	6e-05
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	2e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	5e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	3e-05
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	4e-04
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-05
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-04
1o6v_A	466	Internalin A; bacterial infection, extracellular r	6e-05
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-04
1o6v_A	466	Internalin A; bacterial infection, extracellular r	5e-04
1o6v_A	466	Internalin A; bacterial infection, extracellular r	5e-04
1o6v_A	466	Internalin A; bacterial infection, extracellular r	6e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	9e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	8e-04
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	9e-05
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	1e-04
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-04
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	3e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	6e-04
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-04
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	9e-04
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	9e-04
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	3e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	3e-04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	5e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	5e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	5e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	8e-04
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	5e-04
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	7e-04
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	7e-04
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	8e-04

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

 Score = 64.6 bits (157), Expect = 7e-12
 Identities = 23/171 (13%), Positives = 48/171 (28%), Gaps = 19/171 (11%)

Query: 2   AGDYVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFKH 61
                 G + + V     +   G P +++   ++    +  K      +L        + 
Sbjct: 306 GMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVEC 365

Query: 62  IQPEAY----KATALSYDKLEGEELKNLFLLIG---YAYVESIDELLRY-GVGLGLFQGI 113
           I P +Y     A     + L  +E ++               +        V +   +  
Sbjct: 366 ITPYSYKSLAMALQRCVEVLS-DEDRSALAFAVVMPPGVDIPVKLWSCVIPVDICSNEEE 424

Query: 114 SKLDEARDRVSTLVYKLKASCMLLDEGLP------MHDVIRDVAISIVSAE 158
              DE  DR+  L  +      LL           +  +I      +V A+
Sbjct: 425 QLDDEVADRLKRLSKR----GALLSGKRMPVLTFKIDHIIHMFLKHVVDAQ 471

>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 = 50.6 bits (120), Expect = 4e-07
 Identities = 45/313 (14%), Positives = 96/313 (30%), Gaps = 82/313 (26%)

Query: 11  LKCVARDVAKE-CVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFKHIQPEAYKA 69
           L C  +D+ +E     P  +  +A ++R   +  W             N+KH+  +    
Sbjct: 311 LDCRPQDLPREVLTTNPRRLSIIAESIRDG-LATWD------------NWKHVNCDKLTT 357

Query: 70  T-ALSYDKLEGEELKNLFLLIGYAYVESI---DELLRYGVGLGLFQGISKLDEARDRVST 125
               S + LE  E + +F  +      S+      +   + L L        +    V+ 
Sbjct: 358 IIESSLNVLEPAEYRKMFDRL------SVFPPSAHIPTIL-LSLIWFDVIKSDVMVVVNK 410

Query: 126 LVYKLKASCMLLDEGLP-----MHDVIRDVAISIVSAEKNVFTATGELFDGCMEWSDENA 180
           L         L+++        +  +  ++ + +                       EN 
Sbjct: 411 LHKYS-----LVEKQPKESTISIPSIYLELKVKL-----------------------ENE 442

Query: 181 VKLYTSIVLR-DIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKM------ 233
             L+ SIV   +I      D ++P       +S    H ++         F  +      
Sbjct: 443 YALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRF 502

Query: 234 IQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCK-LLDISVTGE---------LKKLEI 283
           ++ ++ + +        S L  L  L+     Y   + D     E         L K+E 
Sbjct: 503 LEQKIRHDST-AWNASGSILNTLQQLKF----YKPYICDNDPKYERLVNAILDFLPKIEE 557

Query: 284 LCLRG--SDIQQL 294
             +    +D+ ++
Sbjct: 558 NLICSKYTDLLRI 570

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

 Score = 39.8 bits (92), Expect = 9e-04
 Identities = 50/322 (15%), Positives = 87/322 (27%), Gaps = 110/322 (34%)

Query: 37  RSASIFKWKDALKQLRRPSSTNFKHIQPEAY----------K----ATALSYDKLEG--- 79
           R     K + AL +LR           P             K           K++    
Sbjct: 133 RLQPYLKLRQALLELR-----------PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD 181

Query: 80  ------------------EELKNLFLLIGYAYVESIDELLRYGVGLGLFQGISKLDEARD 121
                             E L+ L   I   +    D                ++   + 
Sbjct: 182 FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI---------KLRIHSIQA 232

Query: 122 RVSTLV-YKLKASCML-LDEGLPMHDV-----IRDVAIS----IVSAEKNVFTATG---- 166
            +  L+  K   +C+L L       +V          +S    + +  K V         
Sbjct: 233 ELRRLLKSKPYENCLLVLL------NVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATT 286

Query: 167 ---ELFDGCMEWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQ-LKLF--SVRADHQES 220
               L    M  + +    L    +  D +   LP  VL   P+ L +   S+R D    
Sbjct: 287 THISLDHHSMTLTPDEVKSLLLKYL--DCRPQDLPREVLTTNPRRLSIIAESIR-DG--- 340

Query: 221 SSLTIPNNF-------FEKMIQVRVINLT-------YMNLLPLPSSLGLLSNL--RTLSL 264
             L   +N+          +I+  +  L        +  L   P S    +++    LSL
Sbjct: 341 --LATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPS----AHIPTILLSL 394

Query: 265 CYCKLLDISVTGELKKLEILCL 286
            +  ++   V   + KL    L
Sbjct: 395 IWFDVIKSDVMVVVNKLHKYSL 416

>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 = 13/77 (16%), Positives = 30/77 (38%), Gaps = 2/77 (2%)

Query: 224 TIPNNFFE-KMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDI-SVTGELKKL 281
              +   +        + L  + L   P     LS+L+ +++    L+++     +   L
Sbjct: 70  ATADLLEDATQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGL 129

Query: 282 EILCLRGSDIQQLPVEL 298
           E L L  + ++ LP  +
Sbjct: 130 ETLTLARNPLRALPASI 146

>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 = 4e-06
 Identities = 17/77 (22%), Positives = 36/77 (46%), Gaps = 3/77 (3%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDI-SVTGELKKLE 282
             P+  F ++  ++ + +    L+ LP ++   + L TL+L    L  + +    L +L 
Sbjct: 95  QFPDQAF-RLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPLRALPASIASLNRLR 153

Query: 283 ILCLRG-SDIQQLPVEL 298
            L +R   ++ +LP  L
Sbjct: 154 ELSIRACPELTELPEPL 170

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

 Score = 45.3 bits (108), Expect = 1e-05
 Identities = 18/71 (25%), Positives = 35/71 (49%), Gaps = 2/71 (2%)

Query: 230 FEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVT-GELKKLEILCLRG 288
            + ++ ++ + L +  +  LP+S+  L NL++L +    L  +      L KLE L LRG
Sbjct: 179 HQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRG 238

Query: 289 -SDIQQLPVEL 298
            + ++  P   
Sbjct: 239 CTALRNYPPIF 249

>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 = 41.9 bits (99), Expect = 1e-04
 Identities = 17/78 (21%), Positives = 27/78 (34%), Gaps = 4/78 (5%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNLLP-LPSSLGLLSNLRTLSLCYCKLLDI--SVTGELKK 280
             P  F      ++ + L   + L  LP  +  L+ L  L L  C  L    S+  +L  
Sbjct: 244 NYPPIF-GGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPA 302

Query: 281 LEILCLRGSDIQQLPVEL 298
             I+ +      QL    
Sbjct: 303 NCIILVPPHLQAQLDQHR 320

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 45.8 bits (109), Expect = 7e-06
 Identities = 17/73 (23%), Positives = 31/73 (42%), Gaps = 1/73 (1%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISV-TGELKKLE 282
            I  + F KM ++  + ++   L+ L      +  L+ L L +  LL +     +  +LE
Sbjct: 262 KIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLE 321

Query: 283 ILCLRGSDIQQLP 295
            L L  + I  L 
Sbjct: 322 NLYLDHNSIVTLK 334

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 40.4 bits (95), Expect = 5e-04
 Identities = 20/120 (16%), Positives = 49/120 (40%), Gaps = 4/120 (3%)

Query: 183 LYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLT-IPNNFFEKMIQVRVINL 241
           L    V  D+  ++    V      + L + +    ++S++  +P    +   QV ++NL
Sbjct: 17  LQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNL 76

Query: 242 TYMNLLPLPS-SLGLLSNLRTLSLCYCKL--LDISVTGELKKLEILCLRGSDIQQLPVEL 298
             + +  + + +      ++ L + +  +  L   V   +  L +L L  +D+  LP  +
Sbjct: 77  NDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGI 136

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 45.2 bits (108), Expect = 1e-05
 Identities = 14/66 (21%), Positives = 29/66 (43%), Gaps = 1/66 (1%)

Query: 230 FEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGS 289
            E++  +  + +    +  +   +  L+NL  L+L   ++ DIS    L KL  L +  +
Sbjct: 40  QEELESITKLVVAGEKVASIQG-IEYLTNLEYLNLNGNQITDISPLSNLVKLTNLYIGTN 98

Query: 290 DIQQLP 295
            I  + 
Sbjct: 99  KITDIS 104

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 44.5 bits (106), Expect = 2e-05
 Identities = 14/67 (20%), Positives = 29/67 (43%)

Query: 229 FFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRG 288
               + ++  +NL   + L   S L  ++ L  L++   K+ D++    L  L  L L  
Sbjct: 127 PLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTPIANLTDLYSLSLNY 186

Query: 289 SDIQQLP 295
           + I+ + 
Sbjct: 187 NQIEDIS 193

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 42.9 bits (102), Expect = 7e-05
 Identities = 19/82 (23%), Positives = 37/82 (45%), Gaps = 7/82 (8%)

Query: 222 SLTIPNN------FFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVT 275
           SL I NN          + Q+  + +   N +   +++  L+ L+ L++   ++ DISV 
Sbjct: 225 SLKIGNNKITDLSPLANLSQLTWLEIGT-NQISDINAVKDLTKLKMLNVGSNQISDISVL 283

Query: 276 GELKKLEILCLRGSDIQQLPVE 297
             L +L  L L  + +    +E
Sbjct: 284 NNLSQLNSLFLNNNQLGNEDME 305

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 40.2 bits (95), Expect = 5e-04
 Identities = 17/69 (24%), Positives = 29/69 (42%), Gaps = 1/69 (1%)

Query: 230 FEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGS 289
              ++++  + +   N +   S+L  L+NLR L L    + DIS    L K+  L L  +
Sbjct: 84  LSNLVKLTNLYIGT-NKITDISALQNLTNLRELYLNEDNISDISPLANLTKMYSLNLGAN 142

Query: 290 DIQQLPVEL 298
                   L
Sbjct: 143 HNLSDLSPL 151

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 39.8 bits (94), Expect = 6e-04
 Identities = 18/66 (27%), Positives = 26/66 (39%), Gaps = 1/66 (1%)

Query: 230 FEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGS 289
            E +  +  +NL   N +   S L  L  L  L +   K+ DIS    L  L  L L   
Sbjct: 62  IEYLTNLEYLNLNG-NQITDISPLSNLVKLTNLYIGTNKITDISALQNLTNLRELYLNED 120

Query: 290 DIQQLP 295
           +I  + 
Sbjct: 121 NISDIS 126

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

 Score = 45.6 bits (108), Expect = 1e-05
 Identities = 23/110 (20%), Positives = 48/110 (43%), Gaps = 10/110 (9%)

Query: 197 LPDRVLPECPQLKLFSVR------ADHQESSSLTIPNNFFEKMIQVRVINLTYMNL--LP 248
           LPD  L + P+L+  ++       A   ++    + ++      ++++  + Y NL   P
Sbjct: 507 LPD-FLYDLPELQSLNIACNRGISAAQLKADWTRLADDED-TGPKIQIFYMGYNNLEEFP 564

Query: 249 LPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLPVEL 298
             +SL  +  L  L   + K+  +   G   KL  L L  + I+++P + 
Sbjct: 565 ASASLQKMVKLGLLDCVHNKVRHLEAFGTNVKLTDLKLDYNQIEEIPEDF 614

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

 Score = 41.8 bits (98), Expect = 2e-04
 Identities = 14/86 (16%), Positives = 25/86 (29%), Gaps = 11/86 (12%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNL--------LPLPSSLGLLSNLRTLSLCYCKLLDIS-- 273
             P   F     +  I L+   +         P   +      L T+ L + KL  +S  
Sbjct: 687 KFPTELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDD 746

Query: 274 -VTGELKKLEILCLRGSDIQQLPVEL 298
                L  L  + +  +     P + 
Sbjct: 747 FRATTLPYLSNMDVSYNCFSSFPTQP 772

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 45.1 bits (107), Expect = 2e-05
 Identities = 11/81 (13%), Positives = 29/81 (35%), Gaps = 3/81 (3%)

Query: 221 SSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTG---E 277
           S     +        ++ ++L++  ++ + S+   L  L  L   +  L  +S       
Sbjct: 360 SFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLS 419

Query: 278 LKKLEILCLRGSDIQQLPVEL 298
           L+ L  L +  +  +     +
Sbjct: 420 LRNLIYLDISHTHTRVAFNGI 440

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 43.5 bits (103), Expect = 6e-05
 Identities = 17/76 (22%), Positives = 31/76 (40%), Gaps = 4/76 (5%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNL--LPLPSSLGLLSNLRTLSLCYCKL--LDISVTGELK 279
              N  F  +  + V+ +   +     LP     L NL  L L  C+L  L  +    L 
Sbjct: 435 VAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLS 494

Query: 280 KLEILCLRGSDIQQLP 295
            L++L +  + ++ +P
Sbjct: 495 SLQVLNMASNQLKSVP 510

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A* Length = 567

 Score = 44.7 bits (105), Expect = 2e-05
 Identities = 17/66 (25%), Positives = 31/66 (46%)

Query: 230 FEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGS 289
            E+++ V  ++L++  L  LP +L  L  L  L      L ++     L +L+ L L  +
Sbjct: 459 LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLCNN 518

Query: 290 DIQQLP 295
            +QQ  
Sbjct: 519 RLQQSA 524

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 44.5 bits (105), Expect = 2e-05
 Identities = 17/73 (23%), Positives = 31/73 (42%), Gaps = 1/73 (1%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISV-TGELKKLE 282
            I  + F KM ++  + ++   L+ L      +  L+ L L +  LL +     +  +LE
Sbjct: 268 KIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLE 327

Query: 283 ILCLRGSDIQQLP 295
            L L  + I  L 
Sbjct: 328 NLYLDHNSIVTLK 340

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 40.7 bits (95), Expect = 5e-04
 Identities = 18/120 (15%), Positives = 48/120 (40%), Gaps = 4/120 (3%)

Query: 183 LYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLT-IPNNFFEKMIQVRVINL 241
           L    V  D+  ++    V      + L + +    ++S++  +P    +   QV ++NL
Sbjct: 23  LQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNL 82

Query: 242 TYMNLLPLPS-SLGLLSNLRTLSLCYCKLLDISVT--GELKKLEILCLRGSDIQQLPVEL 298
             + +  + + +      ++ L + +  +  +       +  L +L L  +D+  LP  +
Sbjct: 83  NDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGI 142

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 43.4 bits (103), Expect = 3e-05
 Identities = 12/68 (17%), Positives = 25/68 (36%), Gaps = 3/68 (4%)

Query: 228 NFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLR 287
                + +V  I+L+Y   +     L  L  L++L++ +  + D     +  KL  L   
Sbjct: 130 TKINTLPKVNSIDLSYNGAITDIMPLKTLPELKSLNIQFDGVHDYRGIEDFPKLNQLYAF 189

Query: 288 G---SDIQ 292
                  +
Sbjct: 190 SQTIGGKK 197

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 39.6 bits (93), Expect = 4e-04
 Identities = 13/68 (19%), Positives = 28/68 (41%), Gaps = 1/68 (1%)

Query: 230 FEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGS 289
             +M  +  I L  +N+  L + +    N++ L++      + +    L  LE L + G 
Sbjct: 40  EAQMNSLTYITLANINVTDL-TGIEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGK 98

Query: 290 DIQQLPVE 297
           D+    + 
Sbjct: 99  DVTSDKIP 106

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 43.8 bits (104), Expect = 3e-05
 Identities = 12/77 (15%), Positives = 27/77 (35%), Gaps = 2/77 (2%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNL--LPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKL 281
            + +       +V+ ++L    +  +           L  L+L Y  + D+       KL
Sbjct: 134 MLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKL 193

Query: 282 EILCLRGSDIQQLPVEL 298
           + L L  + +  +  E 
Sbjct: 194 KTLDLSSNKLAFMGPEF 210

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 41.5 bits (98), Expect = 2e-04
 Identities = 14/73 (19%), Positives = 28/73 (38%), Gaps = 1/73 (1%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNLRTLSLCYCKLLDISVTGELKKLE 282
               +  +    V+ ++L+   L  +  + L   + L  L+L    L +      L  L 
Sbjct: 24  QALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLR 83

Query: 283 ILCLRGSDIQQLP 295
            L L  + +Q+L 
Sbjct: 84  TLDLNNNYVQELL 96

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

 Score = 43.4 bits (103), Expect = 6e-05
 Identities = 15/66 (22%), Positives = 28/66 (42%), Gaps = 1/66 (1%)

Query: 230 FEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGS 289
            + + ++  I +   N +   + L  L+NL  L+L   ++ DI     L  L  L L  +
Sbjct: 86  LKNLTKLVDILMNN-NQIADITPLANLTNLTGLTLFNNQITDIDPLKNLTNLNRLELSSN 144

Query: 290 DIQQLP 295
            I  + 
Sbjct: 145 TISDIS 150

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

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 12/66 (18%), Positives = 25/66 (37%), Gaps = 1/66 (1%)

Query: 230 FEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGS 289
              + QV  +       +     +  L+NL  ++    +L DI+    L KL  + +  +
Sbjct: 42  QTDLDQVTTLQADR-LGIKSIDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNN 100

Query: 290 DIQQLP 295
            I  + 
Sbjct: 101 QIADIT 106

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

 Score = 40.3 bits (95), Expect = 5e-04
 Identities = 19/80 (23%), Positives = 32/80 (40%), Gaps = 7/80 (8%)

Query: 222 SLTIPNN------FFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVT 275
           SL   NN          +  +  ++L   N L    +L  L+NL  L L   ++ +++  
Sbjct: 203 SLIATNNQISDITPLGILTNLDELSLNG-NQLKDIGTLASLTNLTDLDLANNQISNLAPL 261

Query: 276 GELKKLEILCLRGSDIQQLP 295
             L KL  L L  + I  + 
Sbjct: 262 SGLTKLTELKLGANQISNIS 281

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

 Score = 40.3 bits (95), Expect = 5e-04
 Identities = 14/69 (20%), Positives = 29/69 (42%), Gaps = 1/69 (1%)

Query: 230 FEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGS 289
              + +++ +     N +   SSL  L+N+  LS  + ++ D++    L ++  L L   
Sbjct: 327 VSSLTKLQRLFFYN-NKVSDVSSLANLTNINWLSAGHNQISDLTPLANLTRITQLGLNDQ 385

Query: 290 DIQQLPVEL 298
                PV  
Sbjct: 386 AWTNAPVNY 394

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

 Score = 40.3 bits (95), Expect = 6e-04
 Identities = 15/66 (22%), Positives = 32/66 (48%), Gaps = 1/66 (1%)

Query: 230 FEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGS 289
              +  +  ++++  N +   S L  L+NL +L     ++ DI+  G L  L+ L L G+
Sbjct: 173 LANLTTLERLDISS-NKVSDISVLAKLTNLESLIATNNQISDITPLGILTNLDELSLNGN 231

Query: 290 DIQQLP 295
            ++ + 
Sbjct: 232 QLKDIG 237

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

 Score = 43.5 bits (103), Expect = 6e-05
 Identities = 20/106 (18%), Positives = 45/106 (42%), Gaps = 8/106 (7%)

Query: 197 LPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGL- 255
           L        P L   S++ + +    L +     E +  +R ++L++ ++          
Sbjct: 316 LCQISASNFPSLTHLSIKGNTK---RLELGTGCLENLENLRELDLSHDDIETSDCCNLQL 372

Query: 256 --LSNLRTLSLCYCKLLDISVT--GELKKLEILCLRGSDIQQLPVE 297
             LS+L++L+L Y + L +      E  +LE+L L  + ++    +
Sbjct: 373 RNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQ 418

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

 Score = 42.7 bits (101), Expect = 9e-05
 Identities = 22/106 (20%), Positives = 40/106 (37%), Gaps = 4/106 (3%)

Query: 185 TSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYM 244
                 D+    +   V     ++ + S+        +  I +N F     ++ ++LT  
Sbjct: 231 WLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFN--ISSNTFHCFSGLQELDLTAT 288

Query: 245 NLLPLPSSLGLLSNLRTLSLCYCKLLDISVT--GELKKLEILCLRG 288
           +L  LPS L  LS L+ L L   K  ++          L  L ++G
Sbjct: 289 HLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKG 334

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

 Score = 40.0 bits (94), Expect = 8e-04
 Identities = 15/78 (19%), Positives = 34/78 (43%), Gaps = 4/78 (5%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNL--LPLPSSLGLLSNLRTLSLCYCKL--LDISVTGELK 279
           ++    F++  Q+ +++L +  L      S    L  L+ L+L +  L      +   L 
Sbjct: 390 SLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLP 449

Query: 280 KLEILCLRGSDIQQLPVE 297
            L+ L L+G+   +  ++
Sbjct: 450 ALQHLNLQGNHFPKGNIQ 467

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

 Score = 42.9 bits (101), Expect = 9e-05
 Identities = 19/83 (22%), Positives = 38/83 (45%), Gaps = 6/83 (7%)

Query: 9   SELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFK----HIQP 64
           ++L   A  + KEC G P+ +  +   LR     +W+  LKQL+       +    +   
Sbjct: 304 ADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQNKQFKRIRKSSSYDYE 362

Query: 65  EAYKATALSYDKLEGEELKNLFL 87
              +A ++S + L  E++K+ + 
Sbjct: 363 ALDEAMSISVEMLR-EDIKDYYT 384

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

 Score = 42.4 bits (100), Expect = 1e-04
 Identities = 22/74 (29%), Positives = 37/74 (50%), Gaps = 2/74 (2%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNLLPL--PSSLGLLSNLRTLSLCYCKLLDISVTGELKKL 281
           +IP+  F ++  +R ++L  +  L      +   LSNLR L+L  C L +I     L KL
Sbjct: 150 SIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPNLTPLIKL 209

Query: 282 EILCLRGSDIQQLP 295
           + L L G+ +  + 
Sbjct: 210 DELDLSGNHLSAIR 223

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 41.9 bits (99), Expect = 1e-04
 Identities = 16/102 (15%), Positives = 35/102 (34%), Gaps = 5/102 (4%)

Query: 197 LPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLL 256
           LP  V  +  QL    +       S     +        ++ ++L++  ++ + S+   L
Sbjct: 43  LPHGVFDKLTQLT--KLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGL 100

Query: 257 SNLRTLSLCYCKLLDISVTG---ELKKLEILCLRGSDIQQLP 295
             L  L   +  L  +S       L+ L  L +  +  +   
Sbjct: 101 EQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAF 142

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 40.8 bits (96), Expect = 3e-04
 Identities = 17/76 (22%), Positives = 29/76 (38%), Gaps = 4/76 (5%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNLLP--LPSSLGLLSNLRTLSLCYCKLLDIS--VTGELK 279
              N  F  +  + V+ +   +     LP     L NL  L L  C+L  +S      L 
Sbjct: 140 VAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLS 199

Query: 280 KLEILCLRGSDIQQLP 295
            L++L +  ++   L 
Sbjct: 200 SLQVLNMSHNNFFSLD 215

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

 Score = 42.2 bits (100), Expect = 2e-04
 Identities = 18/82 (21%), Positives = 35/82 (42%), Gaps = 9/82 (10%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNL---LPLPSSLGLLSNLRTLSLCYCKL---LDISVTGE 277
           ++    F+    +  ++L+  +L   +   +SLG  S L+ L++    L     +S   +
Sbjct: 92  SVSG--FKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLK 149

Query: 278 LKKLEILCLRGSDIQ-QLPVEL 298
           L  LE+L L  + I     V  
Sbjct: 150 LNSLEVLDLSANSISGANVVGW 171

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

 Score = 40.3 bits (95), Expect = 6e-04
 Identities = 14/68 (20%), Positives = 27/68 (39%), Gaps = 6/68 (8%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNLL--PLPSSLGLLSNLRTLSLCYCKL---LDISVTGEL 278
            IP+        +  ++L   N     +P   G  S L +L+L        L +    ++
Sbjct: 284 EIPDFLSGACDTLTGLDL-SGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKM 342

Query: 279 KKLEILCL 286
           + L++L L
Sbjct: 343 RGLKVLDL 350

>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 = 41.6 bits (98), Expect = 2e-04
 Identities = 12/117 (10%), Positives = 29/117 (24%), Gaps = 7/117 (5%)

Query: 185 TSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIP-NNFFEKMIQVRVINLTY 243
            S   +           +   P+     +  D   S              ++   I    
Sbjct: 133 MSDEQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLS 192

Query: 244 MNLLPLPSSLGLLSNLRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLPVEL 298
            N+  +  ++  L+ LR   +     +   I    E +  E      +      ++ 
Sbjct: 193 NNITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKT----EDLKW 245

>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 = 39.6 bits (93), Expect = 9e-04
 Identities = 19/84 (22%), Positives = 32/84 (38%), Gaps = 4/84 (4%)

Query: 218 QESSSLTIPNNFFEKMIQVRVINLTYMNL--LPLPSSLGLLSNLRTLSLCYCKLLDISVT 275
           Q         +      ++++I + Y NL   P+ +SL  +  L  L   Y +L      
Sbjct: 290 QLKDDWQALADAP-VGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLPA 348

Query: 276 -GELKKLEILCLRGSDIQQLPVEL 298
            G   KL  L L  + I ++P   
Sbjct: 349 FGSEIKLASLNLAYNQITEIPANF 372

>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 = 39.6 bits (93), Expect = 9e-04
 Identities = 11/118 (9%), Positives = 42/118 (35%), Gaps = 17/118 (14%)

Query: 191 DIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLL-PL 249
            +  +      + E  + +          +      +  ++ +  +  + +     L  L
Sbjct: 212 YMGNSPFVAENICEAWENENSEY------AQQYKTEDLKWDNLKDLTDVEVYNCPNLTKL 265

Query: 250 PSSLGLLSNLRTLSLCYCKLLDI----------SVTGELKKLEILCLRGSDIQQLPVE 297
           P+ L  L  ++ +++   + +            +     +K++I+ +  ++++  PVE
Sbjct: 266 PTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVE 323

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 41.4 bits (97), Expect = 3e-04
 Identities = 12/77 (15%), Positives = 27/77 (35%), Gaps = 2/77 (2%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNL--LPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKL 281
            + +       +V+ ++L    +  +           L  L+L Y  + D+       KL
Sbjct: 134 MLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKL 193

Query: 282 EILCLRGSDIQQLPVEL 298
           + L L  + +  +  E 
Sbjct: 194 KTLDLSSNKLAFMGPEF 210

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 41.3 bits (97), Expect = 3e-04
 Identities = 17/75 (22%), Positives = 37/75 (49%), Gaps = 3/75 (4%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNLLPLPS-SLGLLSNLRTLSLCYCKLLDISVT--GELKK 280
           ++ +  FE +  ++V+NL Y  +  +   +   L NL+ L+L Y  L ++  +    L K
Sbjct: 280 SLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPK 339

Query: 281 LEILCLRGSDIQQLP 295
           +  + L+ + I  + 
Sbjct: 340 VAYIDLQKNHIAIIQ 354

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

 Score = 41.2 bits (97), Expect = 3e-04
 Identities = 12/78 (15%), Positives = 31/78 (39%), Gaps = 1/78 (1%)

Query: 221 SSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKK 280
            S+         +  +  ++++     P+P S      +R L+L    +  +  T   + 
Sbjct: 374 RSMQKTGEILLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLNLSSTGIRVVK-TCIPQT 432

Query: 281 LEILCLRGSDIQQLPVEL 298
           LE+L +  +++    + L
Sbjct: 433 LEVLDVSNNNLDSFSLFL 450

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

 Score = 40.5 bits (95), Expect = 5e-04
 Identities = 19/81 (23%), Positives = 35/81 (43%), Gaps = 10/81 (12%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNLL-----PLPSSLGLLSNLRTLSLCYCKLLDISVTGE- 277
            +P +F + +  +  ++L+  NL+        +  G   +L+TL L    L  +  TGE 
Sbjct: 324 LVPCSFSQHLKSLEFLDLSE-NLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEI 382

Query: 278 ---LKKLEILCLRGSDIQQLP 295
              LK L  L +  +    +P
Sbjct: 383 LLTLKNLTSLDISRNTFHPMP 403

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 40.4 bits (95), Expect = 5e-04
 Identities = 14/76 (18%), Positives = 30/76 (39%), Gaps = 4/76 (5%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNL--LPLPSSLGLLSNLRTLSLCYCKLLDISVT--GELK 279
            I ++ F  +  + V++L    +           L N+  + L Y K L ++      + 
Sbjct: 395 KIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVP 454

Query: 280 KLEILCLRGSDIQQLP 295
            L+ L LR   ++ + 
Sbjct: 455 SLQRLMLRRVALKNVD 470

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 40.4 bits (95), Expect = 5e-04
 Identities = 15/76 (19%), Positives = 29/76 (38%), Gaps = 5/76 (6%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNL--LPLPSSLGLLSNLRTLSLCYCKLLDI--SVTGELK 279
            +     +K+  ++V+NL +  L  L    +    +NL  L L    +  I  +   + K
Sbjct: 63  KLEPELCQKLPMLKVLNLQHNELSQLS-DKTFAFCTNLTELHLMSNSIQKIKNNPFVKQK 121

Query: 280 KLEILCLRGSDIQQLP 295
            L  L L  + +    
Sbjct: 122 NLITLDLSHNGLSSTK 137

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 40.0 bits (94), Expect = 8e-04
 Identities = 24/106 (22%), Positives = 41/106 (38%), Gaps = 13/106 (12%)

Query: 197 LPDRVLPECPQLKLFSVRADHQESSSLT-IPNNFFEKMIQVRVINLTYMNLL--PLPSSL 253
           L D+    C  L    +      S+S+  I NN F K   +  ++L++ N L      + 
Sbjct: 88  LSDKTFAFCTNLTELHLM-----SNSIQKIKNNPFVKQKNLITLDLSH-NGLSSTKLGTQ 141

Query: 254 GLLSNLRTLSLCYCKLLDIS----VTGELKKLEILCLRGSDIQQLP 295
             L NL+ L L   K+  +            L+ L L  + I++  
Sbjct: 142 VQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFS 187

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A Length = 605

 Score = 40.5 bits (94), Expect = 5e-04
 Identities = 19/67 (28%), Positives = 29/67 (43%), Gaps = 1/67 (1%)

Query: 229 FFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRG 288
             + +  V  + L    L  +   L  L NL  L L   K+ D+S   +LKKL+ L L  
Sbjct: 60  GIQYLPNVTKLFLNGNKLTDI-KPLTNLKNLGWLFLDENKIKDLSSLKDLKKLKSLSLEH 118

Query: 289 SDIQQLP 295
           + I  + 
Sbjct: 119 NGISDIN 125

>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 = 40.1 bits (94), Expect = 7e-04
 Identities = 17/74 (22%), Positives = 34/74 (45%), Gaps = 2/74 (2%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNLLPL--PSSLGLLSNLRTLSLCYCKLLDISVTGELKKL 281
           +IP+  F ++  +  ++L  +  L      +   L NL+ L+L  C + D+     L  L
Sbjct: 161 SIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVGL 220

Query: 282 EILCLRGSDIQQLP 295
           E L + G+   ++ 
Sbjct: 221 EELEMSGNHFPEIR 234

>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 = 40.0 bits (94), Expect = 7e-04
 Identities = 17/80 (21%), Positives = 33/80 (41%), Gaps = 5/80 (6%)

Query: 221 SSLTIPNNFFEKMIQVRVINLTYMNLL--PLPSSLGLLSNLRTLSLCYCKLLDISVTGEL 278
           + L +  N F   +     NL Y+N     + S   L  +L  L++   KL+++      
Sbjct: 280 TFLDVSENIFSG-LSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELP--ALP 336

Query: 279 KKLEILCLRGSDIQQLPVEL 298
            +LE L    + + ++P   
Sbjct: 337 PRLERLIASFNHLAEVPELP 356

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 39.7 bits (93), Expect = 8e-04
 Identities = 15/75 (20%), Positives = 31/75 (41%), Gaps = 3/75 (4%)

Query: 224 TIPNNFFEKMIQVRVINLTYMNLLPLPS-SLGLLSNLRTLSLCYCKLLDISVT--GELKK 280
            +P      ++ +R +NL+Y  +  +    L  L  L+ + L   +L  +       L  
Sbjct: 238 AVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNY 297

Query: 281 LEILCLRGSDIQQLP 295
           L +L + G+ +  L 
Sbjct: 298 LRVLNVSGNQLTTLE 312

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	298
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.84
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.67
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.54
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.51
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.49
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.48
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.47
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.44
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.43
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.42
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.4
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.4
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.4
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.39
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.39
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.39
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.38
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.38
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.37
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.36
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.35
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.35
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.35
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.35
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.34
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.34
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.32
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.32
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.32
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.32
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.32
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.32
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.31
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.31
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.31
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.3
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.3
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.29
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.29
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.29
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.28
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.27
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.27
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.26
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.26
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.26
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.25
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.25
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.25
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.25
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.24
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.24
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.24
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.23
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.23
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.23
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.23
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.22
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.22
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.22
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.21
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.21
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.21
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.2
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.19
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.19
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.18
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.18
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.18
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.18
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.18
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.17
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.17
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.17
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.16
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.16
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.16
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.15
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.15
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.14
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.14
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.14
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.14
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.14
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.13
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.13
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.13
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.12
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.12
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.12
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.12
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.11
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.08
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.08
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.08
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.07
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.06
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.06
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.06
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.04
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.04
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.03
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.03
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.01
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.99
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	98.99
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.99
1o6v_A	466	Internalin A; bacterial infection, extracellular r	98.98
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	98.98
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	98.97
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	98.96
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	98.96
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	98.95
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	98.95
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	98.94
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	98.94
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	98.92
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	98.9
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	98.89
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	98.84
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	98.84
1o6v_A	466	Internalin A; bacterial infection, extracellular r	98.84
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	98.84
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.84
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	98.83
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	98.82
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.82
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	98.77
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.7
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	98.49
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	98.41
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	98.34
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	98.29
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	98.27
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	98.19
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.17
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	98.05
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	97.95
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	97.88
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.88
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.87
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	97.83
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.8
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	97.77
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	97.64
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	97.56
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	97.35
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	97.27
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.17
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.17
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	97.15
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.13
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	96.88
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	96.84
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	96.76
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	96.67
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	95.55
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	95.1
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	94.48
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	93.67
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	93.65
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	92.22
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	91.75
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	86.79
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	81.7
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	81.26

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

Probab=99.84  E-value=2.3e-22  Score=187.98  Aligned_cols=135  Identities=14%  Similarity=0.097  Sum_probs=100.8

Q ss_pred             CcchHHHHHHHHHHcCCchhHHHHHHHHhcCCCHHHHHHHHHH-hcCCCCCCCCCchhhhhhHHhhhhcCCCCchhHHHH
Q 040933            8 GSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQ-LRRPSSTNFKHIQPEAYKATALSYDKLEGEELKNLF   86 (298)
Q Consensus         8 ~~~l~~i~~~i~~~c~GlPLal~~~g~~L~~k~~~~W~~~~~~-l~~~~~~~~~~~~~~~~~~l~~sY~~L~~~~lk~cf   86 (298)
                      ++++++++++|+++|+|+||||+++|+.|+.++. +|...+.. +....       ...+..++.+||++||++ +|.||
T Consensus       312 ~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~w-~~~~~l~~~l~~~~-------~~~i~~~l~~Sy~~L~~~-lk~~f  382 (549)
T 2a5y_B          312 GEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTF-EKMAQLNNKLESRG-------LVGVECITPYSYKSLAMA-LQRCV  382 (549)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSH-HHHHHHHHHHHHHC-------SSTTCCCSSSSSSSHHHH-HHHHH
T ss_pred             chhHHHHHHHHHHHhCCChHHHHHHHHHhccchH-HHHHHhHHHhhccc-------HHHHHHHHhcccccccHH-HHHHH
Confidence            4789999999999999999999999999987742 23222222 21111       234688999999999999 99999


Q ss_pred             H-----------HhcC-C--CCCCHHHHHHHHhhc--CCCCCc---ccHHHHHHHHHHHHHHHHhcCCcccC---C---c
Q 040933           87 L-----------LIGY-A--YVESIDELLRYGVGL--GLFQGI---SKLDEARDRVSTLVYKLKASCMLLDE---G---L  141 (298)
Q Consensus        87 l-----------~~a~-p--~~~~~~~li~~wia~--g~i~~~---~~~~~~~~~~~~~i~~L~~~~l~~~~---~---~  141 (298)
                      +           |||+ |  +.++    +++|+|+  ||+...   .+.+++.   . ++++|+++||++..   +   |
T Consensus       383 ~~Ls~~er~l~~~ls~fp~~~~i~----i~~w~a~~~G~i~~~~~~~~~~~~~---~-~l~~L~~rsLl~~~~~~~~~~~  454 (549)
T 2a5y_B          383 EVLSDEDRSALAFAVVMPPGVDIP----VKLWSCVIPVDICSNEEEQLDDEVA---D-RLKRLSKRGALLSGKRMPVLTF  454 (549)
T ss_dssp             HTSCHHHHHHTTGGGSSCTTCCEE----HHHHHHHSCC-------CCCTHHHH---H-HHHHTTTBSSCSEEECSSSCEE
T ss_pred             hccchhhhhHhhheeeeCCCCeee----eeeeeeeccceeccCCCCCCHHHHH---H-HHHHHHHcCCeeEecCCCceEE
Confidence            9           9999 8  5566    8999999  999743   2344433   3 68889999999853   1   9


Q ss_pred             cchHHHHHHHHHHHhhcC
Q 040933          142 PMHDVIRDVAISIVSAEK  159 (298)
Q Consensus       142 ~mhdlv~~l~~~~~~~~~  159 (298)
                      +|||+||++|+.++.+++
T Consensus       455 ~mHdlv~~~a~~~~~~~~  472 (549)
T 2a5y_B          455 KIDHIIHMFLKHVVDAQT  472 (549)
T ss_dssp             ECCHHHHHHHHTTSCTHH
T ss_pred             EeChHHHHHHHHHHHHHH
Confidence            999999999998877654

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

Probab=99.67  E-value=1.2e-16  Score=162.31  Aligned_cols=137  Identities=18%  Similarity=0.228  Sum_probs=112.1

Q ss_pred             CcchHHHHHHHHHHcCCchhHHHHHHHHhcCCCHHHHHHHHHHhcCCCCCCC----CCchhhhhhHHhhhhcCCCCchhH
Q 040933            8 GSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNF----KHIQPEAYKATALSYDKLEGEELK   83 (298)
Q Consensus         8 ~~~l~~i~~~i~~~c~GlPLal~~~g~~L~~k~~~~W~~~~~~l~~~~~~~~----~~~~~~~~~~l~~sY~~L~~~~lk   83 (298)
                      ++++++++++|+++|+|+||||+++|++|+.+. ..|+..++.+.......+    ......+..++.+||+.||++ .|
T Consensus       303 ~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~~-~~  380 (1249)
T 3sfz_A          303 KEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRED-IK  380 (1249)
T ss_dssp             STTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHHHHSCCCCCSSCTTCTTHHHHHHHHHHHHHTSCTT-TH
T ss_pred             hhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHHHhhhhhhhcccccccchHHHHHHHHHHHHhCCHH-HH
Confidence            456677899999999999999999999999765 479999998876654332    112356899999999999999 89


Q ss_pred             HHHHHhcC-C--CCCCHHHHHHHHhhcCCCCCcccHHHHHHHHHHHHHHHHhcCCcccC---C---ccchHHHHHHHHHH
Q 040933           84 NLFLLIGY-A--YVESIDELLRYGVGLGLFQGISKLDEARDRVSTLVYKLKASCMLLDE---G---LPMHDVIRDVAISI  154 (298)
Q Consensus        84 ~cfl~~a~-p--~~~~~~~li~~wia~g~i~~~~~~~~~~~~~~~~i~~L~~~~l~~~~---~---~~mhdlv~~l~~~~  154 (298)
                      .||+|||+ |  +.++++.++.+|.+++        ++    +.+++++|+++||++..   +   |+||+++|++++..
T Consensus       381 ~~~~~l~~f~~~~~i~~~~~~~~~~~~~--------~~----~~~~l~~L~~~sl~~~~~~~~~~~~~~h~l~~~~~~~~  448 (1249)
T 3sfz_A          381 DYYTDLSILQKDVKVPTKVLCVLWDLET--------EE----VEDILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEK  448 (1249)
T ss_dssp             HHHHHGGGSCTTCCEEHHHHHHHHTCCH--------HH----HHHHHHHHHHTTSCEEEESSSSEEEECCHHHHHHHHHH
T ss_pred             HHHHHhCccCCCCeeCHHHHHHHhCCCH--------HH----HHHHHHHHHhccceEEecCCCceEEEecHHHHHHHHhh
Confidence            99999999 7  7899999999997652        23    44558888889999853   2   99999999999988


Q ss_pred             Hhhc
Q 040933          155 VSAE  158 (298)
Q Consensus       155 ~~~~  158 (298)
                      +.++
T Consensus       449 ~~~~  452 (1249)
T 3sfz_A          449 NRSQ  452 (1249)
T ss_dssp             TGGG
T ss_pred             hhHH
Confidence            6654

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

Probab=99.54  E-value=1e-14  Score=141.43  Aligned_cols=105  Identities=13%  Similarity=0.115  Sum_probs=89.3

Q ss_pred             HcCCchhHHHHHHHHhcCC--CHHHHHHHHHHhcCCCCCCCCCchhhhhhHHhhhhcCCCCchh-HHHHHHhcC-C--CC
Q 040933           21 ECVGLPVSIVAVARALRSA--SIFKWKDALKQLRRPSSTNFKHIQPEAYKATALSYDKLEGEEL-KNLFLLIGY-A--YV   94 (298)
Q Consensus        21 ~c~GlPLal~~~g~~L~~k--~~~~W~~~~~~l~~~~~~~~~~~~~~~~~~l~~sY~~L~~~~l-k~cfl~~a~-p--~~   94 (298)
                      .|+|+||||+++|+.|+++  +.++|+..              ....+..+|..||+.||++ . |.||+|||+ |  +.
T Consensus       322 ICgGLPLALkLaGs~Lr~k~~s~eeW~~~--------------~~~~I~aaLelSYd~Lp~e-elK~cFL~LAIFPed~~  386 (1221)
T 1vt4_I          322 VLTTNPRRLSIIAESIRDGLATWDNWKHV--------------NCDKLTTIIESSLNVLEPA-EYRKMFDRLSVFPPSAH  386 (1221)
T ss_dssp             HCCCCHHHHHHHHHHHHHSCSSHHHHHHC--------------SCHHHHHHHHHHHHHSCTT-HHHHHHHHTTSSCTTSC
T ss_pred             HhCCCHHHHHHHHHHHhCCCCCHHHHhcC--------------ChhHHHHHHHHHHHhCCHH-HHHHHHHHHhCCCCCCC
Confidence            3999999999999999977  78889753              1357899999999999999 8 999999999 7  78


Q ss_pred             CCHHHHHHHHhhcCCCCCcccHHHHHHHHHHHHHHHHhcCCcccCC----ccchHHHHHHH
Q 040933           95 ESIDELLRYGVGLGLFQGISKLDEARDRVSTLVYKLKASCMLLDEG----LPMHDVIRDVA  151 (298)
Q Consensus        95 ~~~~~li~~wia~g~i~~~~~~~~~~~~~~~~i~~L~~~~l~~~~~----~~mhdlv~~l~  151 (298)
                      +..+.++.+|+++|.       ++    +..++++|+++||++..+    |+|||++++++
T Consensus       387 I~~elLa~LW~aeGe-------ed----Ae~~L~eLvdRSLLq~d~~~~rYrMHDLllELr  436 (1221)
T 1vt4_I          387 IPTILLSLIWFDVIK-------SD----VMVVVNKLHKYSLVEKQPKESTISIPSIYLELK  436 (1221)
T ss_dssp             EEHHHHHHHHCSSCS-------HH----HHHHHHHHHTSSSSSBCSSSSEEBCCCHHHHHH
T ss_pred             CCHHHHHHHhcCCCH-------HH----HHHHHHHHHhhCCEEEeCCCCEEEehHHHHHHh
Confidence            999999999998871       22    445688899999998652    99999999865

>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=99.51  E-value=1.1e-13  Score=114.79  Aligned_cols=113  Identities=23%  Similarity=0.313  Sum_probs=88.7

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~  258 (298)
                      .+.+++.|.+.+|.+..+++..+..+++|+.|.+.+    +.+..+|...|..+++|++|++++|.++.+|.. ++.+.+
T Consensus        38 ~~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~----N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~  113 (229)
T 3e6j_A           38 IPTNAQILYLHDNQITKLEPGVFDSLINLKELYLGS----NQLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVH  113 (229)
T ss_dssp             CCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS----SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             CCCCCCEEEcCCCccCccCHHHhhCccCCcEEECCC----CCCCCcChhhcccCCCcCEEECCCCcCCccChhHhCcchh
Confidence            346788888888888887666667788888888887    556777777778888888888888888887644 577888


Q ss_pred             CcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          259 LRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       259 L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      |++|++++|.++. |..++.+++|++|++++|++..+|.
T Consensus       114 L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~l~~~~~  152 (229)
T 3e6j_A          114 LKELFMCCNKLTELPRGIERLTHLTHLALDQNQLKSIPH  152 (229)
T ss_dssp             CCEEECCSSCCCSCCTTGGGCTTCSEEECCSSCCCCCCT
T ss_pred             hCeEeccCCcccccCcccccCCCCCEEECCCCcCCccCH
Confidence            8888888888878 7788888888888888888877774

>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=99.49  E-value=2e-13  Score=112.51  Aligned_cols=114  Identities=18%  Similarity=0.234  Sum_probs=95.8

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~  258 (298)
                      .+..++.|.+.+|.+..++...|..+++|+.|.+++    +.+..+++..|..+++|++|+|++|.++.+|.. +..+.+
T Consensus        30 l~~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~----N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~  105 (220)
T 2v9t_B           30 LPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSN----NQISELAPDAFQGLRSLNSLVLYGNKITELPKSLFEGLFS  105 (220)
T ss_dssp             CCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECCS----SCCCEECTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             cCcCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCC----CcCCCcCHHHhhCCcCCCEEECCCCcCCccCHhHccCCCC
Confidence            346789999999999988887778899999999987    566667555568999999999999999998765 578999


Q ss_pred             CcEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCCCC
Q 040933          259 LRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       259 L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      |++|++++|.++.  |..++.+++|++|++++|++..+|..
T Consensus       106 L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~  146 (220)
T 2v9t_B          106 LQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKG  146 (220)
T ss_dssp             CCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTT
T ss_pred             CCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECHH
Confidence            9999999999888  67788999999999999988887753

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

Probab=99.48  E-value=1.1e-13  Score=130.35  Aligned_cols=131  Identities=19%  Similarity=0.243  Sum_probs=104.8

Q ss_pred             chHHHHHHHHHHcCCchhHHHHHHHHhcCCCHHHHHHHHHHhcCCCCCCC----CCchhhhhhHHhhhhcCCCCchhHHH
Q 040933           10 ELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNF----KHIQPEAYKATALSYDKLEGEELKNL   85 (298)
Q Consensus        10 ~l~~i~~~i~~~c~GlPLal~~~g~~L~~k~~~~W~~~~~~l~~~~~~~~----~~~~~~~~~~l~~sY~~L~~~~lk~c   85 (298)
                      ...+.+.+|+++|+|+||||+.+|+.|+.+. ..|+..++.+.......+    ......+..++..||+.||++ .|.|
T Consensus       305 ~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~-~~~~  382 (591)
T 1z6t_A          305 DLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRED-IKDY  382 (591)
T ss_dssp             GSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHHHHHHHHSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCTT-THHH
T ss_pred             cccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHHHHHHHHHhHHHHhhhccccchHHHHHHHHHHHHhCCHH-HHHH
Confidence            4456889999999999999999999998663 379988888876543322    112357899999999999999 8999


Q ss_pred             HHHhcC-C--CCCCHHHHHHHHhhcCCCCCcccHHHHHHHHHHHHHHHHhcCCcccC---C---ccchHHHHHHHHHH
Q 040933           86 FLLIGY-A--YVESIDELLRYGVGLGLFQGISKLDEARDRVSTLVYKLKASCMLLDE---G---LPMHDVIRDVAISI  154 (298)
Q Consensus        86 fl~~a~-p--~~~~~~~li~~wia~g~i~~~~~~~~~~~~~~~~i~~L~~~~l~~~~---~---~~mhdlv~~l~~~~  154 (298)
                      |+++|+ |  +.++.+.++.+|.++        .++    +..+++.|+++||++..   +   |+||+++++++...
T Consensus       383 l~~la~f~~~~~i~~~~l~~l~~~~--------~~~----~~~~l~~L~~~~Ll~~~~~~~~~~~~~H~lv~~~~~~~  448 (591)
T 1z6t_A          383 YTDLSILQKDVKVPTKVLCILWDME--------TEE----VEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEK  448 (591)
T ss_dssp             HHHGGGCCTTCCEEHHHHHHHHTCC--------HHH----HHHHHHHHHHTTSSEEEEETTEEEEECCHHHHHHHHHH
T ss_pred             HHHccccCCCCccCHHHHHHHhccC--------HHH----HHHHHHHHHhCcCeEEecCCCccEEEEcHHHHHHHHhh
Confidence            999999 7  679999999999653        122    34568888889999732   1   99999999999877

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

Probab=99.47  E-value=5.1e-13  Score=108.89  Aligned_cols=112  Identities=24%  Similarity=0.343  Sum_probs=78.5

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~L  259 (298)
                      +.+++.+.+.+|.+..++...+..+++|+.|.+.+    +.+..+|...|..+++|++|++++|.++.+|.. ++.+.+|
T Consensus        27 ~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~----n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L  102 (208)
T 2o6s_A           27 PAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGG----NKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQL  102 (208)
T ss_dssp             CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCS----SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             CCCCcEEEcCCCccCcCChhhhcccccCcEEECCC----CccCccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccCC
Confidence            45677777777777777766566777777777776    455666666667777777777777777776543 5677777


Q ss_pred             cEeecCCCCCCC-Cc-ccCCCCCCCEEeecCCCCCCCCC
Q 040933          260 RTLSLCYCKLLD-IS-VTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       260 ~~L~l~~~~l~~-p~-~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      ++|++++|.+.. |. .++++++|++|++++|++..+|.
T Consensus       103 ~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~  141 (208)
T 2o6s_A          103 KELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPD  141 (208)
T ss_dssp             CEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCT
T ss_pred             CEEEcCCCcCcccCHhHhccCCcCCEEECCCCccceeCH
Confidence            777777777766 43 46677777777777777766664

>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=99.44  E-value=9.1e-13  Score=110.65  Aligned_cols=112  Identities=21%  Similarity=0.301  Sum_probs=69.2

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~L  259 (298)
                      ..+++.|.+.+|.+..++...+..+++|+.|.+.+    +.+..+|...|..+++|++|++++|.++.+|.. ++.+.+|
T Consensus        58 l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~----n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L  133 (251)
T 3m19_A           58 LTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLAN----NQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKL  133 (251)
T ss_dssp             CTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTT----SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             cccCCEEECCCCcCCccCHhHhccCCcCCEEECCC----CcccccChhHhcccCCCCEEEcCCCcCCCcChhHhccCCcc
Confidence            34566666666666666555556666666666665    445555555556666666666666666666543 4566666


Q ss_pred             cEeecCCCCCCC-Cc-ccCCCCCCCEEeecCCCCCCCCC
Q 040933          260 RTLSLCYCKLLD-IS-VTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       260 ~~L~l~~~~l~~-p~-~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      ++|++++|.++. |. .++.+++|++|++++|++..+|.
T Consensus       134 ~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~  172 (251)
T 3m19_A          134 KELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPH  172 (251)
T ss_dssp             CEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCT
T ss_pred             cEEECcCCcCCccCHHHcCcCcCCCEEECCCCcCCccCH
Confidence            666666666666 33 46666666666666666666554

>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=99.43  E-value=6.7e-13  Score=109.35  Aligned_cols=109  Identities=21%  Similarity=0.210  Sum_probs=63.8

Q ss_pred             cCccEEEEeCCCCccCC-CCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCc-cccCCCCC
Q 040933          182 KLYTSIVLRDIKTNVLP-DRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPS-SLGLLSNL  259 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~-~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~-~i~~L~~L  259 (298)
                      ..++.|.+.+|.+..++ ..++..+++|+.|.+.+    +.+..++...|..+++|++|++++|.++.+|. .++.+.+|
T Consensus        32 ~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~----N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L  107 (220)
T 2v70_A           32 QYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSN----NKITDIEEGAFEGASGVNEILLTSNRLENVQHKMFKGLESL  107 (220)
T ss_dssp             TTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCS----SCCCEECTTTTTTCTTCCEEECCSSCCCCCCGGGGTTCSSC
T ss_pred             CCCCEEEcCCCcCCccCchhhhccCCCCCEEECCC----CcCCEECHHHhCCCCCCCEEECCCCccCccCHhHhcCCcCC
Confidence            44556666666666553 23345566666666665    44555555445666666666666666666543 35566666


Q ss_pred             cEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCC
Q 040933          260 RTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       260 ~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~l  294 (298)
                      ++|++++|.++.  |..++.+++|++|++++|++..+
T Consensus       108 ~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~  144 (220)
T 2v70_A          108 KTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTV  144 (220)
T ss_dssp             CEEECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCB
T ss_pred             CEEECCCCcCCeECHhHcCCCccCCEEECCCCcCCEE
Confidence            666666666555  45566666666666666665555

>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=99.42  E-value=1e-12  Score=108.87  Aligned_cols=109  Identities=18%  Similarity=0.287  Sum_probs=100.3

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNL  259 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L  259 (298)
                      ...+++.|.+.+|.+..++...|..+++|+.|.+++    +.+..+|...|..+++|++|++++|.++.+|..++.+.+|
T Consensus        62 ~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~----N~l~~l~~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L  137 (229)
T 3e6j_A           62 SLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGT----NQLTVLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHL  137 (229)
T ss_dssp             TCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS----SCCCCCCTTTTTTCTTCCEEECCSSCCCSCCTTGGGCTTC
T ss_pred             CccCCcEEECCCCCCCCcChhhcccCCCcCEEECCC----CcCCccChhHhCcchhhCeEeccCCcccccCcccccCCCC
Confidence            457899999999999999988788999999999998    6788888888899999999999999999999999999999


Q ss_pred             cEeecCCCCCCC-C-cccCCCCCCCEEeecCCCCC
Q 040933          260 RTLSLCYCKLLD-I-SVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       260 ~~L~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~l~  292 (298)
                      ++|++++|.+.. | ..+..+++|++|++++|.+.
T Consensus       138 ~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~  172 (229)
T 3e6j_A          138 THLALDQNQLKSIPHGAFDRLSSLTHAYLFGNPWD  172 (229)
T ss_dssp             SEEECCSSCCCCCCTTTTTTCTTCCEEECTTSCBC
T ss_pred             CEEECCCCcCCccCHHHHhCCCCCCEEEeeCCCcc
Confidence            999999999998 5 56899999999999999765

>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=99.40  E-value=6.3e-13  Score=125.53  Aligned_cols=112  Identities=20%  Similarity=0.161  Sum_probs=94.4

Q ss_pred             hhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCc-cccCCC
Q 040933          179 NAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPS-SLGLLS  257 (298)
Q Consensus       179 ~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~-~i~~L~  257 (298)
                      ..+..++.|.+++|.++.+++..|..+++|++|++++    +.+..+|++.|..+++|++|+|++|+++.+|. .++.|.
T Consensus        49 ~lp~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~----N~i~~i~~~~f~~L~~L~~L~Ls~N~l~~l~~~~f~~L~  124 (635)
T 4g8a_A           49 NLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSR----CEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLS  124 (635)
T ss_dssp             SSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTT----CCCCEECTTTTTTCTTCCEEECTTCCCCEECGGGGTTCT
T ss_pred             CCCcCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCC----CcCCCcChhHhcCCCCCCEEEccCCcCCCCCHHHhcCCC
Confidence            3467889999999999999887788899999999987    67788888778889999999999999888874 578899


Q ss_pred             CCcEeecCCCCCCC-C-cccCCCCCCCEEeecCCCCCCC
Q 040933          258 NLRTLSLCYCKLLD-I-SVTGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       258 ~L~~L~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~l~~l  294 (298)
                      +|++|++++|.++. | ..++++++|++|++++|++..+
T Consensus       125 ~L~~L~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~  163 (635)
T 4g8a_A          125 SLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSF  163 (635)
T ss_dssp             TCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCC
T ss_pred             CCCEEECCCCcCCCCChhhhhcCcccCeeccccCccccC
Confidence            99999999998888 4 4688889999999988887654

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

Probab=99.40  E-value=2.4e-12  Score=109.31  Aligned_cols=111  Identities=24%  Similarity=0.365  Sum_probs=64.5

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCCc
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNLR  260 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L~  260 (298)
                      .+++.|.+.+|.+..++..+|..+++|++|.+.+    +.+..+|...|..+++|++|++++|.++.+| ..++.+++|+
T Consensus        61 ~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~----n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~  136 (270)
T 2o6q_A           61 TKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTD----NKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLT  136 (270)
T ss_dssp             TTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCS----SCCCCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCC
T ss_pred             CCCCEEECCCCccCeeChhhhcCCCCCCEEECCC----CcCCcCCHhHcccccCCCEEECCCCccCeeCHHHhCcCcCCC
Confidence            4455555555555555555445555555555554    3445555555556666666666666666554 3355666666


Q ss_pred             EeecCCCCCCC-Cc-ccCCCCCCCEEeecCCCCCCCCC
Q 040933          261 TLSLCYCKLLD-IS-VTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       261 ~L~l~~~~l~~-p~-~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      +|++++|.+.. |. .++.+++|++|++++|++..+|.
T Consensus       137 ~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~  174 (270)
T 2o6q_A          137 YLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVPE  174 (270)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCT
T ss_pred             EEECCCCcCCccCHhHccCCcccceeEecCCcCcEeCh
Confidence            66666666665 33 35666666666666666665554

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

Probab=99.40  E-value=2.5e-12  Score=109.10  Aligned_cols=112  Identities=21%  Similarity=0.363  Sum_probs=82.5

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~L  259 (298)
                      ..+++.|.+.+|.+..++...+..+++|+.|.+.+    +.+..++...|..+++|++|++++|.++.+|.. ++.+++|
T Consensus        84 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~----n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L  159 (270)
T 2o6q_A           84 LKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDR----NQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSL  159 (270)
T ss_dssp             CTTCCEEECCSSCCCCCCTTTTTTCSSCCEEECCS----SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             CCCCCEEECCCCcCCcCCHhHcccccCCCEEECCC----CccCeeCHHHhCcCcCCCEEECCCCcCCccCHhHccCCccc
Confidence            45677788888877777776667777888888776    556666666667777888888888877777644 6777778


Q ss_pred             cEeecCCCCCCC-C-cccCCCCCCCEEeecCCCCCCCCC
Q 040933          260 RTLSLCYCKLLD-I-SVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       260 ~~L~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      ++|++++|.+.. | ..+.++++|++|++++|++..+|.
T Consensus       160 ~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~  198 (270)
T 2o6q_A          160 KELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLKRVPE  198 (270)
T ss_dssp             CEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCCSCCCT
T ss_pred             ceeEecCCcCcEeChhHhccCCCcCEEECCCCcCCcCCH
Confidence            888888777776 3 457777778888887777777765

>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=99.39  E-value=1.7e-12  Score=102.16  Aligned_cols=113  Identities=20%  Similarity=0.217  Sum_probs=97.1

Q ss_pred             hhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC--ccccCC
Q 040933          179 NAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP--SSLGLL  256 (298)
Q Consensus       179 ~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP--~~i~~L  256 (298)
                      ....+++.|.+.+|.+..+  ..+..+++|+.|.+++    +.+...++..+..+++|++|++++|.++.+|  ..++.+
T Consensus        46 ~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~----N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~l~~l  119 (168)
T 2ell_A           46 AEFVNLEFLSLINVGLISV--SNLPKLPKLKKLELSE----NRIFGGLDMLAEKLPNLTHLNLSGNKLKDISTLEPLKKL  119 (168)
T ss_dssp             GGGGGCCEEEEESSCCCCC--SSCCCCSSCCEEEEES----CCCCSCCCHHHHHCTTCCEEECBSSSCCSSGGGGGGSSC
T ss_pred             HhCCCCCEEeCcCCCCCCh--hhhccCCCCCEEECcC----CcCchHHHHHHhhCCCCCEEeccCCccCcchhHHHHhcC
Confidence            4567899999999999888  3358899999999998    4555534445588999999999999999987  789999


Q ss_pred             CCCcEeecCCCCCCC-Cc----ccCCCCCCCEEeecCCCCCCCCCC
Q 040933          257 SNLRTLSLCYCKLLD-IS----VTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       257 ~~L~~L~l~~~~l~~-p~----~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      ++|++|++++|.+.. |.    .++.+++|++|++++|.+.++|.+
T Consensus       120 ~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~  165 (168)
T 2ell_A          120 ECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDREDQEAPDS  165 (168)
T ss_dssp             SCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEETTSCBCCSS
T ss_pred             CCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCCChhhcccc
Confidence            999999999999888 65    799999999999999999999864

>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=99.39  E-value=1.9e-12  Score=106.55  Aligned_cols=110  Identities=14%  Similarity=0.155  Sum_probs=100.2

Q ss_pred             hhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-CccccCCC
Q 040933          179 NAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLLS  257 (298)
Q Consensus       179 ~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~  257 (298)
                      ....+++.|.+.+|.+..++...|..+++|+.|.+++    +.+..++...|..+++|++|++++|.++.+ |..++.+.
T Consensus        54 ~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~----N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~  129 (220)
T 2v70_A           54 KKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTS----NRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLS  129 (220)
T ss_dssp             GGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS----SCCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCT
T ss_pred             ccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCC----CccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCc
Confidence            3467899999999999999987789999999999998    677888888889999999999999999997 67899999


Q ss_pred             CCcEeecCCCCCCC--CcccCCCCCCCEEeecCCCCC
Q 040933          258 NLRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       258 ~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~  292 (298)
                      +|++|++++|.++.  |..+..+++|++|++++|.+.
T Consensus       130 ~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~  166 (220)
T 2v70_A          130 SVRLLSLYDNQITTVAPGAFDTLHSLSTLNLLANPFN  166 (220)
T ss_dssp             TCSEEECTTSCCCCBCTTTTTTCTTCCEEECCSCCEE
T ss_pred             cCCEEECCCCcCCEECHHHhcCCCCCCEEEecCcCCc
Confidence            99999999999988  788999999999999999754

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

Probab=99.39  E-value=4.9e-12  Score=107.45  Aligned_cols=113  Identities=25%  Similarity=0.401  Sum_probs=71.8

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~  258 (298)
                      ...+++.|.+.+|.+..++...+..+++|++|.+.+    +.+..++...|..+++|++|++++|.++.+|.. ++.+++
T Consensus        83 ~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~----n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  158 (272)
T 3rfs_A           83 ELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVE----NQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTN  158 (272)
T ss_dssp             TCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTT----SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             CCCCCCEEECCCCccCccChhHhcCCcCCCEEECCC----CcCCccCHHHhccCCCCCEEECCCCccCccCHHHhccCcc
Confidence            345666667766666666665556666777777665    445556655556666777777777766665533 466666


Q ss_pred             CcEeecCCCCCCC-C-cccCCCCCCCEEeecCCCCCCCCC
Q 040933          259 LRTLSLCYCKLLD-I-SVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       259 L~~L~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      |++|++++|.++. | ..++.+++|++|++++|++..+|.
T Consensus       159 L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~  198 (272)
T 3rfs_A          159 LTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPD  198 (272)
T ss_dssp             CCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCT
T ss_pred             CCEEECCCCCcCccCHHHhcCCccCCEEECCCCcCCccCH
Confidence            7777777766666 3 335666677777776666666554

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

Probab=99.38  E-value=6.5e-12  Score=99.64  Aligned_cols=111  Identities=22%  Similarity=0.297  Sum_probs=97.6

Q ss_pred             hhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCC
Q 040933          179 NAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLS  257 (298)
Q Consensus       179 ~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~  257 (298)
                      ..+..++.+.+.+|.+..++...+..+++|++|.+.+    +.+..+|...|..+++|++|++++|.++.+|.. ++.+.
T Consensus        25 ~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~----n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~  100 (177)
T 2o6r_A           25 GIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQ----NQIQSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLT  100 (177)
T ss_dssp             TCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCS----SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCT
T ss_pred             CCCCCCcEEEeCCCcccEeCHHHhcCcccccEEECCC----CcceEeChhHccCCCccCEEECCCCCccccCHHHhhCCc
Confidence            3457899999999999999887778999999999998    677788888789999999999999999998755 68999


Q ss_pred             CCcEeecCCCCCCC-Ccc-cCCCCCCCEEeecCCCCCC
Q 040933          258 NLRTLSLCYCKLLD-ISV-TGELKKLEILCLRGSDIQQ  293 (298)
Q Consensus       258 ~L~~L~l~~~~l~~-p~~-i~~L~~L~~L~l~~~~l~~  293 (298)
                      +|++|++++|.++. |.. +..+++|++|++++|.+..
T Consensus       101 ~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~  138 (177)
T 2o6r_A          101 QLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDC  138 (177)
T ss_dssp             TCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCC
T ss_pred             ccCEEECcCCcceEeCHHHhcCCcccCEEEecCCCeec
Confidence            99999999999988 654 6889999999999997653

>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=99.38  E-value=3.8e-12  Score=106.85  Aligned_cols=113  Identities=21%  Similarity=0.273  Sum_probs=101.0

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~  258 (298)
                      .+..++.|.+.+|.+..++...+..+++|+.|.+++    +.+..++...|..+++|++|++++|.++.+| ..++.+.+
T Consensus        33 ~~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~----n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  108 (251)
T 3m19_A           33 IPADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDY----NQLQTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQ  108 (251)
T ss_dssp             CCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTT----SCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTT
T ss_pred             CCCCCCEEEccCCCcCccCHhHhcCcccCCEEECCC----CcCCccCHhHhccCCcCCEEECCCCcccccChhHhcccCC
Confidence            446899999999999999887789999999999998    6677788777799999999999999999986 45789999


Q ss_pred             CcEeecCCCCCCC-Cc-ccCCCCCCCEEeecCCCCCCCCC
Q 040933          259 LRTLSLCYCKLLD-IS-VTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       259 L~~L~l~~~~l~~-p~-~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      |++|++++|.++. |. .++.+++|++|++++|++..+|.
T Consensus       109 L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~  148 (251)
T 3m19_A          109 LDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPA  148 (251)
T ss_dssp             CCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCT
T ss_pred             CCEEEcCCCcCCCcChhHhccCCcccEEECcCCcCCccCH
Confidence            9999999999998 54 47899999999999999998886

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

Probab=99.37  E-value=3.2e-12  Score=101.36  Aligned_cols=106  Identities=14%  Similarity=0.184  Sum_probs=90.8

Q ss_pred             ccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCCCcEe
Q 040933          184 YTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSNLRTL  262 (298)
Q Consensus       184 ~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~L~~L  262 (298)
                      .+.+.+.++.+..+|..+   .++|+.|.+++    +.+..+++..|..+++|++|+|++|+++.+|.. ++.+.+|++|
T Consensus        14 ~~~l~~~~n~l~~iP~~~---~~~L~~L~Ls~----N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L   86 (174)
T 2r9u_A           14 QTLVNCQNIRLASVPAGI---PTDKQRLWLNN----NQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQL   86 (174)
T ss_dssp             SSEEECCSSCCSSCCSCC---CTTCSEEECCS----SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             CcEEEeCCCCCCccCCCc---CCCCcEEEeCC----CCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEE
Confidence            367888889999998863   38899999998    677788777779999999999999999999866 5899999999


Q ss_pred             ecCCCCCCC-Ccc-cCCCCCCCEEeecCCCCCCCCC
Q 040933          263 SLCYCKLLD-ISV-TGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       263 ~l~~~~l~~-p~~-i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      ++++|.++. |.. ++.+++|++|++++|.+...|.
T Consensus        87 ~L~~N~l~~l~~~~~~~l~~L~~L~L~~N~~~c~~~  122 (174)
T 2r9u_A           87 DLNDNHLKSIPRGAFDNLKSLTHIYLYNNPWDCECR  122 (174)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCSEEECCSSCBCTTBG
T ss_pred             ECCCCccceeCHHHhccccCCCEEEeCCCCcccccc
Confidence            999999998 654 8999999999999998876654

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

Probab=99.36  E-value=1.6e-12  Score=115.17  Aligned_cols=109  Identities=17%  Similarity=0.290  Sum_probs=50.1

Q ss_pred             CccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-CccccCCCCCcE
Q 040933          183 LYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLLSNLRT  261 (298)
Q Consensus       183 ~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~~L~~  261 (298)
                      +++.|.+.+|.+..++...|..+++|+.|++++    +.+..++...|..+++|++|+|++|.+..+ |..+..+.+|++
T Consensus        65 ~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~----N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~  140 (361)
T 2xot_A           65 NLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSS----NHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQK  140 (361)
T ss_dssp             TCCEEECCSSCCCEECTTTTTTCTTCCEEECCS----SCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCE
T ss_pred             ccCEEECCCCcCCccChhhccCCCCCCEEECCC----CcCCcCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCE
Confidence            344444444444444433334444444444444    334444444444445555555555544443 334445555555


Q ss_pred             eecCCCCCCC-Cccc----CCCCCCCEEeecCCCCCCCC
Q 040933          262 LSLCYCKLLD-ISVT----GELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       262 L~l~~~~l~~-p~~i----~~L~~L~~L~l~~~~l~~lP  295 (298)
                      |+|++|.++. |..+    +.+++|++|+|++|++..+|
T Consensus       141 L~L~~N~l~~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~  179 (361)
T 2xot_A          141 LYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNKLKKLP  179 (361)
T ss_dssp             EECCSSCCCSCCGGGTC----CTTCCEEECCSSCCCCCC
T ss_pred             EECCCCcCCeeCHHHhcCcccCCcCCEEECCCCCCCccC
Confidence            5555555444 3332    34455555555555555444

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

Probab=99.35  E-value=8.5e-12  Score=105.98  Aligned_cols=118  Identities=23%  Similarity=0.283  Sum_probs=101.5

Q ss_pred             CCCchhhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-
Q 040933          174 EWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-  252 (298)
Q Consensus       174 ~~~~~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-  252 (298)
                      .++.......++.+.+.+|.+..++.  +..+++|++|.+.+    +.+..++...|..+++|++|++++|.++.+|.. 
T Consensus        55 ~~~~l~~l~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~L~~----n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~  128 (272)
T 3rfs_A           55 SVQGIQYLPNVRYLALGGNKLHDISA--LKELTNLTYLILTG----NQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGV  128 (272)
T ss_dssp             CCTTGGGCTTCCEEECTTSCCCCCGG--GTTCTTCCEEECTT----SCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTT
T ss_pred             cccccccCCCCcEEECCCCCCCCchh--hcCCCCCCEEECCC----CccCccChhHhcCCcCCCEEECCCCcCCccCHHH
Confidence            34445567889999999999988763  48899999999998    577788888789999999999999999998654 


Q ss_pred             ccCCCCCcEeecCCCCCCC-C-cccCCCCCCCEEeecCCCCCCCCCC
Q 040933          253 LGLLSNLRTLSLCYCKLLD-I-SVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       253 i~~L~~L~~L~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      ++.+.+|++|++++|.++. | ..++.+++|++|++++|++..+|..
T Consensus       129 ~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~  175 (272)
T 3rfs_A          129 FDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEG  175 (272)
T ss_dssp             TTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTT
T ss_pred             hccCCCCCEEECCCCccCccCHHHhccCccCCEEECCCCCcCccCHH
Confidence            7899999999999999988 4 4578999999999999999988753

>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=99.35  E-value=6.7e-12  Score=107.71  Aligned_cols=113  Identities=19%  Similarity=0.266  Sum_probs=84.9

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~  258 (298)
                      ....++.|.+.+|.+..+|.. +..+++|+.|.+++    +.+..+|...|..+++|++|++++|.++.+|.. +..+.+
T Consensus        75 ~l~~L~~L~Ls~N~l~~l~~~-~~~l~~L~~L~l~~----N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~  149 (290)
T 1p9a_G           75 TLPVLGTLDLSHNQLQSLPLL-GQTLPALTVLDVSF----NRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPK  149 (290)
T ss_dssp             CCTTCCEEECCSSCCSSCCCC-TTTCTTCCEEECCS----SCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTT
T ss_pred             CCCcCCEEECCCCcCCcCchh-hccCCCCCEEECCC----CcCcccCHHHHcCCCCCCEEECCCCCCCccChhhcccccC
Confidence            345677888888888777764 46778888888877    566677766668888888888888888877644 567888


Q ss_pred             CcEeecCCCCCCC-Cc-ccCCCCCCCEEeecCCCCCCCCCC
Q 040933          259 LRTLSLCYCKLLD-IS-VTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       259 L~~L~l~~~~l~~-p~-~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      |++|++++|+++. |. .+.++++|++|++++|++..+|.+
T Consensus       150 L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~ip~~  190 (290)
T 1p9a_G          150 LEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYTIPKG  190 (290)
T ss_dssp             CCEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCCCCCCTT
T ss_pred             CCEEECCCCcCCccCHHHhcCcCCCCEEECCCCcCCccChh
Confidence            8888888888777 54 456788888888888888887764

>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=99.35  E-value=4.7e-12  Score=101.97  Aligned_cols=109  Identities=17%  Similarity=0.178  Sum_probs=94.3

Q ss_pred             hccCccEEEEeCCCCccCCCC-cCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDR-VLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLS  257 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~-~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~  257 (298)
                      .+..++.+.+.+|.+..++.. .+..+++|++|.+++    +.+..+++..|..+++|++|++++|.++.+| ..++.++
T Consensus        27 ~~~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~----N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~  102 (192)
T 1w8a_A           27 IPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKR----NQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLH  102 (192)
T ss_dssp             CCTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCS----SCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCT
T ss_pred             CCCCCCEEECCCCcCCccCCccccccCCCCCEEECCC----CCCCCcCHhHcCCcccCCEEECCCCcCCccCHHHhcCCC
Confidence            345899999999999988864 468899999999998    6677776556699999999999999999975 4588999


Q ss_pred             CCcEeecCCCCCCC--CcccCCCCCCCEEeecCCCCC
Q 040933          258 NLRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       258 ~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~  292 (298)
                      +|++|++++|.++.  |..++.+++|++|++++|.+.
T Consensus       103 ~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~  139 (192)
T 1w8a_A          103 QLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             TCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBC
T ss_pred             CCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCCCcc
Confidence            99999999999987  788999999999999999765

>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=99.35  E-value=4.3e-12  Score=104.49  Aligned_cols=108  Identities=19%  Similarity=0.223  Sum_probs=97.9

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-CccccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~~  258 (298)
                      ...+++.|.+.+|.+..+.+..|..+++|+.|.+++    +.+..+|...|..+++|++|++++|.++.+ |..++.+.+
T Consensus        54 ~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~----N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~  129 (220)
T 2v9t_B           54 PYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYG----NKITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHN  129 (220)
T ss_dssp             TCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCS----SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             CCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCC----CcCCccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCC
Confidence            346899999999999999777789999999999998    778899999889999999999999999997 577999999


Q ss_pred             CcEeecCCCCCCC--CcccCCCCCCCEEeecCCCC
Q 040933          259 LRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDI  291 (298)
Q Consensus       259 L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l  291 (298)
                      |++|++++|.++.  +..+..+++|++|++++|.+
T Consensus       130 L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~  164 (220)
T 2v9t_B          130 LNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQNPF  164 (220)
T ss_dssp             CCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCE
T ss_pred             CCEEECCCCcCCEECHHHHhCCCCCCEEEeCCCCc
Confidence            9999999999998  45699999999999999865

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

Probab=99.34  E-value=1e-11  Score=101.12  Aligned_cols=109  Identities=23%  Similarity=0.370  Sum_probs=97.2

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~  258 (298)
                      ...+++.|.+.+|.+..++...+..+++|++|.+.+    +.+..+|...|..+++|++|++++|.++.+|.. ++.+.+
T Consensus        50 ~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~----n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~  125 (208)
T 2o6s_A           50 ELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLST----NQLQSLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQ  125 (208)
T ss_dssp             TCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS----SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             ccccCcEEECCCCccCccChhhcCCCCCcCEEECCC----CcCCccCHhHhcCccCCCEEEcCCCcCcccCHhHhccCCc
Confidence            457899999999999999988778999999999998    667788888789999999999999999998755 789999


Q ss_pred             CcEeecCCCCCCC-Cc-ccCCCCCCCEEeecCCCCC
Q 040933          259 LRTLSLCYCKLLD-IS-VTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       259 L~~L~l~~~~l~~-p~-~i~~L~~L~~L~l~~~~l~  292 (298)
                      |++|++++|.++. |. .+..+++|++|++++|.+.
T Consensus       126 L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~  161 (208)
T 2o6s_A          126 LKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWD  161 (208)
T ss_dssp             CCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCBC
T ss_pred             CCEEECCCCccceeCHHHhccCCCccEEEecCCCee
Confidence            9999999999988 54 5889999999999999654

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

Probab=99.34  E-value=1.8e-12  Score=99.87  Aligned_cols=109  Identities=20%  Similarity=0.185  Sum_probs=90.7

Q ss_pred             ccCccEEEEeCCCCc--cCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCC-CCccccCCC
Q 040933          181 VKLYTSIVLRDIKTN--VLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLP-LPSSLGLLS  257 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~--~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~-lP~~i~~L~  257 (298)
                      +.+++.+.+.+|.+.  .++.. +..+++|+.|.+.+    +.+..+  ..|..+++|++|++++|.++. +|..++.++
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~~-~~~l~~L~~L~l~~----n~l~~~--~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~   88 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEGL-TDEFEELEFLSTIN----VGLTSI--ANLPKLNKLKKLELSDNRVSGGLEVLAEKCP   88 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCSC-CTTCTTCCEEECTT----SCCCCC--TTCCCCTTCCEEECCSSCCCSCTHHHHHHCT
T ss_pred             CccCeEEEccCCcCChhHHHHH-HhhcCCCcEEECcC----CCCCCc--hhhhcCCCCCEEECCCCcccchHHHHhhhCC
Confidence            467899999999887  66664 57889999999987    455555  335889999999999999988 777777899


Q ss_pred             CCcEeecCCCCCCC-C--cccCCCCCCCEEeecCCCCCCCCC
Q 040933          258 NLRTLSLCYCKLLD-I--SVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       258 ~L~~L~l~~~~l~~-p--~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      +|++|++++|.++. |  ..++.+++|++|++++|++..+|.
T Consensus        89 ~L~~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~  130 (149)
T 2je0_A           89 NLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLND  130 (149)
T ss_dssp             TCCEEECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTT
T ss_pred             CCCEEECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHH
Confidence            99999999999888 5  788999999999999998887764

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

Probab=99.32  E-value=4.4e-12  Score=112.26  Aligned_cols=115  Identities=18%  Similarity=0.204  Sum_probs=103.0

Q ss_pred             hhccCccEEEEeCCCCccCCCCcCC-CCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCc-cccCC
Q 040933          179 NAVKLYTSIVLRDIKTNVLPDRVLP-ECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPS-SLGLL  256 (298)
Q Consensus       179 ~~~~~~~~l~l~~~~~~~l~~~~~~-~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~-~i~~L  256 (298)
                      ..+..++.|.+.+|.+..++...+. .+++|+.|.+++    +.+..++...|..+++|++|+|++|.++.+|. .+..+
T Consensus        36 ~~~~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~----N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l  111 (361)
T 2xot_A           36 SLPSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSH----NHLNFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDL  111 (361)
T ss_dssp             SCCTTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCS----SCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTC
T ss_pred             cCCCCCCEEECCCCCCCccChhhhhhcccccCEEECCC----CcCCccChhhccCCCCCCEEECCCCcCCcCCHHHhCCC
Confidence            3456789999999999999888766 899999999998    67888887778999999999999999999764 68999


Q ss_pred             CCCcEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCCCC
Q 040933          257 SNLRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       257 ~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      .+|++|+|++|.+..  |..+..+++|++|+|++|++..+|..
T Consensus       112 ~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~  154 (361)
T 2xot_A          112 QALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVE  154 (361)
T ss_dssp             TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCGG
T ss_pred             cCCCEEECCCCcccEECHHHhCCcccCCEEECCCCcCCeeCHH
Confidence            999999999999988  77899999999999999999998853

>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=99.32  E-value=2.6e-12  Score=101.06  Aligned_cols=110  Identities=21%  Similarity=0.230  Sum_probs=95.7

Q ss_pred             hccCccEEEEeCCCCc--cCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCC-CCccccCC
Q 040933          180 AVKLYTSIVLRDIKTN--VLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLP-LPSSLGLL  256 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~--~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~-lP~~i~~L  256 (298)
                      .+..++.+.+.+|.+.  .+|.. +..+++|+.|.+.+    +.+..+  ..|..+++|++|++++|.+.. +|..++.+
T Consensus        22 ~~~~L~~L~l~~n~l~~~~i~~~-~~~l~~L~~L~l~~----n~l~~~--~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l   94 (168)
T 2ell_A           22 TPAAVRELVLDNCKSNDGKIEGL-TAEFVNLEFLSLIN----VGLISV--SNLPKLPKLKKLELSENRIFGGLDMLAEKL   94 (168)
T ss_dssp             CTTSCSEEECCSCBCBTTBCSSC-CGGGGGCCEEEEES----SCCCCC--SSCCCCSSCCEEEEESCCCCSCCCHHHHHC
T ss_pred             CcccCCEEECCCCCCChhhHHHH-HHhCCCCCEEeCcC----CCCCCh--hhhccCCCCCEEECcCCcCchHHHHHHhhC
Confidence            3478999999999998  77765 58899999999998    446666  335899999999999999998 78778889


Q ss_pred             CCCcEeecCCCCCCC-C--cccCCCCCCCEEeecCCCCCCCCC
Q 040933          257 SNLRTLSLCYCKLLD-I--SVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       257 ~~L~~L~l~~~~l~~-p--~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      ++|++|++++|.++. |  ..++.+++|++|++++|.+..+|.
T Consensus        95 ~~L~~L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~  137 (168)
T 2ell_A           95 PNLTHLNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLND  137 (168)
T ss_dssp             TTCCEEECBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTT
T ss_pred             CCCCEEeccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHH
Confidence            999999999999988 5  789999999999999999888775

>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=99.32  E-value=9e-12  Score=117.47  Aligned_cols=109  Identities=18%  Similarity=0.162  Sum_probs=80.9

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-CccccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~~  258 (298)
                      .+..++.+.+.+|.+..++...+..+++|++|.+++    +.+..+++..|..+++|++|++++|.++.+ |..++.+.+
T Consensus        30 ~~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~----n~l~~i~~~~~~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~  105 (606)
T 3vq2_A           30 IPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSR----CEIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTS  105 (606)
T ss_dssp             SCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTT----CCCCEECTTTTTTCTTCCEEECTTCCCCCCCTTSSTTCTT
T ss_pred             CCCCcCEEECCCCCcCEeChhhccCCccCcEEeCCC----CcccccCHHHhhchhhcCEeECCCCcccccChhhcCCccc
Confidence            446788888888888777776667788888888877    455666555567778888888888877776 667777777


Q ss_pred             CcEeecCCCCCCC--CcccCCCCCCCEEeecCCCCC
Q 040933          259 LRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       259 L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~  292 (298)
                      |++|++++|.+..  |..++++++|++|++++|++.
T Consensus       106 L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~  141 (606)
T 3vq2_A          106 LENLVAVETKLASLESFPIGQLITLKKLNVAHNFIH  141 (606)
T ss_dssp             CCEEECTTSCCCCSSSSCCTTCTTCCEEECCSSCCC
T ss_pred             CCEEEccCCccccccccccCCCCCCCEEeCCCCccc
Confidence            8888887777766  366777777777777777665

>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=99.32  E-value=2.8e-12  Score=112.08  Aligned_cols=113  Identities=19%  Similarity=0.295  Sum_probs=96.6

Q ss_pred             hhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCC-CCCCCccccC--
Q 040933          179 NAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMN-LLPLPSSLGL--  255 (298)
Q Consensus       179 ~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~-i~~lP~~i~~--  255 (298)
                      ....+++.|.+.+|.+..+|.. +..+++|++|++.+    +.+..+|..+ ..+++|++|++++|+ +..+|..++.  
T Consensus       101 ~~l~~L~~L~L~~n~l~~lp~~-~~~l~~L~~L~Ls~----n~l~~lp~~l-~~l~~L~~L~L~~n~~~~~~p~~~~~~~  174 (328)
T 4fcg_A          101 FRLSHLQHMTIDAAGLMELPDT-MQQFAGLETLTLAR----NPLRALPASI-ASLNRLRELSIRACPELTELPEPLASTD  174 (328)
T ss_dssp             GGGTTCSEEEEESSCCCCCCSC-GGGGTTCSEEEEES----CCCCCCCGGG-GGCTTCCEEEEEEETTCCCCCSCSEEEC
T ss_pred             hhCCCCCEEECCCCCccchhHH-HhccCCCCEEECCC----CccccCcHHH-hcCcCCCEEECCCCCCccccChhHhhcc
Confidence            3467899999999999988875 48889999999998    5566888875 899999999999974 5558887765  


Q ss_pred             -------CCCCcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCCCC
Q 040933          256 -------LSNLRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       256 -------L~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                             +.+|++|++++|.++. |..++++++|++|++++|++..+|..
T Consensus       175 ~~~~~~~l~~L~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~N~l~~l~~~  224 (328)
T 4fcg_A          175 ASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPA  224 (328)
T ss_dssp             -CCCEEESTTCCEEEEEEECCCCCCGGGGGCTTCCEEEEESSCCCCCCGG
T ss_pred             chhhhccCCCCCEEECcCCCcCcchHhhcCCCCCCEEEccCCCCCcCchh
Confidence                   9999999999999988 99999999999999999999888853

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

Probab=99.32  E-value=1.5e-11  Score=99.15  Aligned_cols=107  Identities=22%  Similarity=0.288  Sum_probs=87.4

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~  258 (298)
                      .+..++.|.+.+|.+..+|. .+..+++|+.|.+++    +.+..++...|..+++|++|++++|.++.+| ..++.+.+
T Consensus        29 ~~~~l~~L~L~~n~i~~ip~-~~~~l~~L~~L~Ls~----N~i~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~  103 (193)
T 2wfh_A           29 IPRDVTELYLDGNQFTLVPK-ELSNYKHLTLIDLSN----NRISTLSNQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKS  103 (193)
T ss_dssp             CCTTCCEEECCSSCCCSCCG-GGGGCTTCCEEECCS----SCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTT
T ss_pred             CCCCCCEEECCCCcCchhHH-HhhcccCCCEEECCC----CcCCEeCHhHccCCCCCCEEECCCCccCEeCHHHhCCCCC
Confidence            45678889999888888874 467888899998887    6677777777788899999999999888875 46888889


Q ss_pred             CcEeecCCCCCCC-Cc-ccCCCCCCCEEeecCCCC
Q 040933          259 LRTLSLCYCKLLD-IS-VTGELKKLEILCLRGSDI  291 (298)
Q Consensus       259 L~~L~l~~~~l~~-p~-~i~~L~~L~~L~l~~~~l  291 (298)
                      |++|++++|.++. |. .+..+++|++|++++|.+
T Consensus       104 L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~  138 (193)
T 2wfh_A          104 LRLLSLHGNDISVVPEGAFNDLSALSHLAIGANPL  138 (193)
T ss_dssp             CCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSCE
T ss_pred             CCEEECCCCCCCeeChhhhhcCccccEEEeCCCCe
Confidence            9999999988888 54 578888999999988764

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

Probab=99.32  E-value=5.8e-12  Score=101.56  Aligned_cols=105  Identities=23%  Similarity=0.338  Sum_probs=91.8

Q ss_pred             cEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCCcEee
Q 040933          185 TSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNLRTLS  263 (298)
Q Consensus       185 ~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L~~L~  263 (298)
                      +.+.+.++.+..+|..+   .++++.|.+.+    +.+..+|.. |..+++|++|++++|.++.+| ..+..+.+|++|+
T Consensus        13 ~~l~~~~~~l~~ip~~~---~~~l~~L~L~~----n~i~~ip~~-~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~   84 (193)
T 2wfh_A           13 TVVRCSNKGLKVLPKGI---PRDVTELYLDG----NQFTLVPKE-LSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLI   84 (193)
T ss_dssp             TEEECTTSCCSSCCSCC---CTTCCEEECCS----SCCCSCCGG-GGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CEEEcCCCCCCcCCCCC---CCCCCEEECCC----CcCchhHHH-hhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEE
Confidence            56788888999998753   46899999998    677788854 599999999999999999986 5699999999999


Q ss_pred             cCCCCCCC--CcccCCCCCCCEEeecCCCCCCCCCC
Q 040933          264 LCYCKLLD--ISVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       264 l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      +++|.++.  |..++.+++|++|++++|++..+|..
T Consensus        85 Ls~N~l~~i~~~~f~~l~~L~~L~L~~N~l~~~~~~  120 (193)
T 2wfh_A           85 LSYNRLRCIPPRTFDGLKSLRLLSLHGNDISVVPEG  120 (193)
T ss_dssp             CCSSCCCBCCTTTTTTCTTCCEEECCSSCCCBCCTT
T ss_pred             CCCCccCEeCHHHhCCCCCCCEEECCCCCCCeeChh
Confidence            99999988  56799999999999999999998864

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

Probab=99.31  E-value=2e-12  Score=124.55  Aligned_cols=109  Identities=17%  Similarity=0.279  Sum_probs=98.8

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNL  259 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L  259 (298)
                      ....++.|.+.+|.+..++..+ ..+++|++|.+++    +.+..+|..+ ..+++|++|+|++|.|+.+|..++.|.+|
T Consensus       222 ~l~~L~~L~Ls~n~l~~l~~~~-~~l~~L~~L~Ls~----N~l~~lp~~~-~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L  295 (727)
T 4b8c_D          222 DDQLWHALDLSNLQIFNISANI-FKYDFLTRLYLNG----NSLTELPAEI-KNLSNLRVLDLSHNRLTSLPAELGSCFQL  295 (727)
T ss_dssp             CCCCCCEEECTTSCCSCCCGGG-GGCCSCSCCBCTT----SCCSCCCGGG-GGGTTCCEEECTTSCCSSCCSSGGGGTTC
T ss_pred             cCCCCcEEECCCCCCCCCChhh-cCCCCCCEEEeeC----CcCcccChhh-hCCCCCCEEeCcCCcCCccChhhcCCCCC
Confidence            3467999999999999998775 4899999999998    5666899776 99999999999999999999999999999


Q ss_pred             cEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCC
Q 040933          260 RTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       260 ~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~l  294 (298)
                      ++|+|++|.++. |..|++|++|++|+|++|++...
T Consensus       296 ~~L~L~~N~l~~lp~~~~~l~~L~~L~L~~N~l~~~  331 (727)
T 4b8c_D          296 KYFYFFDNMVTTLPWEFGNLCNLQFLGVEGNPLEKQ  331 (727)
T ss_dssp             SEEECCSSCCCCCCSSTTSCTTCCCEECTTSCCCSH
T ss_pred             CEEECCCCCCCccChhhhcCCCccEEeCCCCccCCC
Confidence            999999999999 99999999999999999998754

>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=99.31  E-value=4.7e-12  Score=119.53  Aligned_cols=112  Identities=16%  Similarity=0.200  Sum_probs=102.2

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCc-cccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPS-SLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~-~i~~L~~  258 (298)
                      ...+++.|.+++|.+..+++.+|..+++|++|++++    +.+..+|...|..+++|++|++++|+++.+|. .++.+++
T Consensus        74 ~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~----N~l~~l~~~~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~~  149 (635)
T 4g8a_A           74 SFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTG----NPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKT  149 (635)
T ss_dssp             TCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTT----CCCCEECGGGGTTCTTCCEEECTTSCCCCSTTCCCTTCTT
T ss_pred             CCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccC----CcCCCCCHHHhcCCCCCCEEECCCCcCCCCChhhhhcCcc
Confidence            356899999999999999998889999999999998    67889999888999999999999999999875 5899999


Q ss_pred             CcEeecCCCCCCC---CcccCCCCCCCEEeecCCCCCCCC
Q 040933          259 LRTLSLCYCKLLD---ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       259 L~~L~l~~~~l~~---p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      |++|++++|.+..   |..++.+++|++|++++|++..++
T Consensus       150 L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~  189 (635)
T 4g8a_A          150 LKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIY  189 (635)
T ss_dssp             CCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEEC
T ss_pred             cCeeccccCccccCCCchhhccchhhhhhcccCccccccc
Confidence            9999999999865   778899999999999999988765

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

Probab=99.31  E-value=2.1e-11  Score=96.65  Aligned_cols=107  Identities=21%  Similarity=0.291  Sum_probs=92.5

Q ss_pred             ccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCCCcEe
Q 040933          184 YTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSNLRTL  262 (298)
Q Consensus       184 ~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~L~~L  262 (298)
                      .+.+.+.++.+..+|..   -.++|+.|.+.+    +.+..+|...|..+++|++|++++|.++.+|.. ++.+.+|++|
T Consensus         9 ~~~l~~~~~~l~~~p~~---~~~~l~~L~l~~----n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L   81 (177)
T 2o6r_A            9 GTEIRCNSKGLTSVPTG---IPSSATRLELES----NKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTIL   81 (177)
T ss_dssp             TTEEECCSSCCSSCCTT---CCTTCSEEECCS----SCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCEEEecCCCCccCCCC---CCCCCcEEEeCC----CcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEE
Confidence            45677888888888864   347999999998    567788888789999999999999999998755 6899999999


Q ss_pred             ecCCCCCCC-Cc-ccCCCCCCCEEeecCCCCCCCCCC
Q 040933          263 SLCYCKLLD-IS-VTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       263 ~l~~~~l~~-p~-~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      ++++|.++. |. .++.+++|++|++++|++..+|..
T Consensus        82 ~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~  118 (177)
T 2o6r_A           82 YLHENKLQSLPNGVFDKLTQLKELALDTNQLKSVPDG  118 (177)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTT
T ss_pred             ECCCCCccccCHHHhhCCcccCEEECcCCcceEeCHH
Confidence            999999998 54 578999999999999999998864

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=99.30  E-value=1.2e-11  Score=97.60  Aligned_cols=105  Identities=17%  Similarity=0.195  Sum_probs=88.9

Q ss_pred             ccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCCCcEe
Q 040933          184 YTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSNLRTL  262 (298)
Q Consensus       184 ~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~L~~L  262 (298)
                      .+.+.+.++.+..+|..+   .++++.|.+++    +.+..+++..|..+++|++|++++|+++.+|.. +..+.+|++|
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 GTTVDCSGKSLASVPTGI---PTTTQVLYLYD----NQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQL   83 (170)
T ss_dssp             TTEEECTTSCCSSCCSCC---CTTCSEEECCS----SCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCEEEeCCCCcCccCccC---CCCCcEEEcCC----CcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEE
Confidence            467888899999998753   48899999998    677788777679999999999999999998765 5899999999


Q ss_pred             ecCCCCCCC-Cc-ccCCCCCCCEEeecCCCCCCCC
Q 040933          263 SLCYCKLLD-IS-VTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       263 ~l~~~~l~~-p~-~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      ++++|.++. |. .++++++|++|++++|.+.-.+
T Consensus        84 ~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~c~c  118 (170)
T 3g39_A           84 SLNDNQLKSIPRGAFDNLKSLTHIWLLNNPWDCAC  118 (170)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSCBCTTB
T ss_pred             ECCCCccCEeCHHHhcCCCCCCEEEeCCCCCCCCc
Confidence            999999988 54 5899999999999999776443

>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=99.30  E-value=1.4e-11  Score=105.21  Aligned_cols=112  Identities=18%  Similarity=0.194  Sum_probs=60.4

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-CccccCCCCCc
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLLSNLR  260 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~~L~  260 (298)
                      .+++.|.+.+|.+..+....+..+++|++|.+.+   +..+..++...|..+++|++|++++|.+..+ |..++.+++|+
T Consensus        56 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~---n~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~  132 (285)
T 1ozn_A           56 RNLTILWLHSNVLARIDAAAFTGLALLEQLDLSD---NAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQ  132 (285)
T ss_dssp             TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS---CTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCC
T ss_pred             CCCCEEECCCCccceeCHhhcCCccCCCEEeCCC---CCCccccCHHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCC
Confidence            3455555555555444333345555555555554   2224444444445566666666666665554 34455566666


Q ss_pred             EeecCCCCCCC-C-cccCCCCCCCEEeecCCCCCCCCC
Q 040933          261 TLSLCYCKLLD-I-SVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       261 ~L~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      +|++++|.+.. | ..++.+++|++|++++|++..+|.
T Consensus       133 ~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~  170 (285)
T 1ozn_A          133 YLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPE  170 (285)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECT
T ss_pred             EEECCCCcccccCHhHhccCCCccEEECCCCcccccCH
Confidence            66666666555 3 335566666666666666555543

>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=99.29  E-value=1.3e-11  Score=106.00  Aligned_cols=110  Identities=21%  Similarity=0.251  Sum_probs=85.1

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L  259 (298)
                      ..+++.|.+.+|.+..++..  ..+++|++|.+++    +.+..+|..+ ..+++|++|++++|+++.+| ..++.+.+|
T Consensus        54 l~~L~~L~L~~n~l~~~~~~--~~l~~L~~L~Ls~----N~l~~l~~~~-~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L  126 (290)
T 1p9a_G           54 YTRLTQLNLDRAELTKLQVD--GTLPVLGTLDLSH----NQLQSLPLLG-QTLPALTVLDVSFNRLTSLPLGALRGLGEL  126 (290)
T ss_dssp             CTTCCEEECTTSCCCEEECC--SCCTTCCEEECCS----SCCSSCCCCT-TTCTTCCEEECCSSCCCCCCSSTTTTCTTC
T ss_pred             CCCCCEEECCCCccCcccCC--CCCCcCCEEECCC----CcCCcCchhh-ccCCCCCEEECCCCcCcccCHHHHcCCCCC
Confidence            35677777777777766654  6677788887776    5666777654 78888888888888888876 568888889


Q ss_pred             cEeecCCCCCCC-C-cccCCCCCCCEEeecCCCCCCCCCC
Q 040933          260 RTLSLCYCKLLD-I-SVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       260 ~~L~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      ++|++++|.++. | ..+..+++|+.|++++|++..+|.+
T Consensus       127 ~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~  166 (290)
T 1p9a_G          127 QELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAG  166 (290)
T ss_dssp             CEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTT
T ss_pred             CEEECCCCCCCccChhhcccccCCCEEECCCCcCCccCHH
Confidence            999998888888 4 4567888899999988888888864

>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=99.29  E-value=1.1e-11  Score=105.79  Aligned_cols=111  Identities=15%  Similarity=0.219  Sum_probs=68.9

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCc-cccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPS-SLGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~-~i~~L~~L  259 (298)
                      ..+++.|.+.+|.+..+++..+..+++|+.|.+.+    +.+..++...|..+++|++|++++|.++.+|. .+..+.+|
T Consensus       104 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~----n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L  179 (285)
T 1ozn_A          104 LGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQD----NALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSL  179 (285)
T ss_dssp             CTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCS----SCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTC
T ss_pred             CcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCC----CcccccCHhHhccCCCccEEECCCCcccccCHHHhcCcccc
Confidence            34566666666666666554455666666666665    44555555555666666666666666666553 36666666


Q ss_pred             cEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCC
Q 040933          260 RTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       260 ~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      ++|++++|.+..  |..++++++|++|++++|++..+|
T Consensus       180 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~  217 (285)
T 1ozn_A          180 DRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALP  217 (285)
T ss_dssp             CEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCC
T ss_pred             CEEECCCCcccccCHhHccCcccccEeeCCCCcCCcCC
Confidence            666666666655  556666666666666666666555

>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=99.29  E-value=6.9e-12  Score=117.39  Aligned_cols=108  Identities=18%  Similarity=0.180  Sum_probs=97.9

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcE
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRT  261 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~  261 (298)
                      ..++.|.+.+|.+..+|.  +..+++|+.|.+++    +.+..+|..+ +.+++|++|+|++|.++.+| .++.+++|++
T Consensus       441 ~~L~~L~Ls~n~l~~lp~--~~~l~~L~~L~Ls~----N~l~~lp~~~-~~l~~L~~L~Ls~N~l~~lp-~l~~l~~L~~  512 (567)
T 1dce_A          441 ADVRVLHLAHKDLTVLCH--LEQLLLVTHLDLSH----NRLRALPPAL-AALRCLEVLQASDNALENVD-GVANLPRLQE  512 (567)
T ss_dssp             TTCSEEECTTSCCSSCCC--GGGGTTCCEEECCS----SCCCCCCGGG-GGCTTCCEEECCSSCCCCCG-GGTTCSSCCE
T ss_pred             cCceEEEecCCCCCCCcC--ccccccCcEeecCc----ccccccchhh-hcCCCCCEEECCCCCCCCCc-ccCCCCCCcE
Confidence            358899999999999986  58999999999998    6677899875 99999999999999999999 9999999999


Q ss_pred             eecCCCCCCC---CcccCCCCCCCEEeecCCCCCCCCCC
Q 040933          262 LSLCYCKLLD---ISVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       262 L~l~~~~l~~---p~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      |++++|.++.   |..++.+++|++|++++|++..+|+.
T Consensus       513 L~Ls~N~l~~~~~p~~l~~l~~L~~L~L~~N~l~~~~~~  551 (567)
T 1dce_A          513 LLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGI  551 (567)
T ss_dssp             EECCSSCCCSSSTTGGGGGCTTCCEEECTTSGGGGSSSC
T ss_pred             EECCCCCCCCCCCcHHHhcCCCCCEEEecCCcCCCCccH
Confidence            9999999877   57899999999999999999887753

>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=99.28  E-value=1.3e-11  Score=107.71  Aligned_cols=111  Identities=23%  Similarity=0.260  Sum_probs=71.6

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCC-CCccccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLP-LPSSLGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~-lP~~i~~L~~L  259 (298)
                      ..+++.|.+.+|.+..+|.. +..+++|+.|.+.+    +.+..+|..+ ..+++|++|++++|++.. +|..++.+.+|
T Consensus       182 l~~L~~L~L~~n~l~~lp~~-l~~l~~L~~L~L~~----N~l~~l~~~l-~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L  255 (328)
T 4fcg_A          182 LVNLQSLRLEWTGIRSLPAS-IANLQNLKSLKIRN----SPLSALGPAI-HHLPKLEELDLRGCTALRNYPPIFGGRAPL  255 (328)
T ss_dssp             STTCCEEEEEEECCCCCCGG-GGGCTTCCEEEEES----SCCCCCCGGG-GGCTTCCEEECTTCTTCCBCCCCTTCCCCC
T ss_pred             CCCCCEEECcCCCcCcchHh-hcCCCCCCEEEccC----CCCCcCchhh-ccCCCCCEEECcCCcchhhhHHHhcCCCCC
Confidence            45566666666666666554 35666777777766    4455566653 667777777777765443 56667777777


Q ss_pred             cEeecCCCCCCC--CcccCCCCCCCEEeecCCC-CCCCCCC
Q 040933          260 RTLSLCYCKLLD--ISVTGELKKLEILCLRGSD-IQQLPVE  297 (298)
Q Consensus       260 ~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~-l~~lP~~  297 (298)
                      ++|++++|.+..  |..++++++|++|++++|+ +..+|..
T Consensus       256 ~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~iP~~  296 (328)
T 4fcg_A          256 KRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSL  296 (328)
T ss_dssp             CEEECTTCTTCCBCCTTGGGCTTCCEEECTTCTTCCCCCGG
T ss_pred             CEEECCCCCchhhcchhhhcCCCCCEEeCCCCCchhhccHH
Confidence            777777776444  6667777777777777764 5566653

>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=99.27  E-value=1.3e-11  Score=104.82  Aligned_cols=108  Identities=17%  Similarity=0.215  Sum_probs=49.8

Q ss_pred             CccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCc-cccCCCCCcE
Q 040933          183 LYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPS-SLGLLSNLRT  261 (298)
Q Consensus       183 ~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~-~i~~L~~L~~  261 (298)
                      +++.+.+.+|.+..++...+..+++|++|.+.+    +.+..++...|..+++|++|++++|.+..++. .++.+.+|++
T Consensus        53 ~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~----n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~  128 (276)
T 2z62_A           53 ELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTG----NPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKE  128 (276)
T ss_dssp             TCSEEECTTCCCCEECTTTTTTCTTCCEEECTT----CCCCEECTTTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCE
T ss_pred             CCcEEECCCCcCCccCHHHccCCcCCCEEECCC----CccCccChhhhcCCccccEEECCCCCccccCchhcccCCCCCE
Confidence            344444444444444433334444444444443    23333333333444455555555554444432 3445555555


Q ss_pred             eecCCCCCCC---CcccCCCCCCCEEeecCCCCCCC
Q 040933          262 LSLCYCKLLD---ISVTGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       262 L~l~~~~l~~---p~~i~~L~~L~~L~l~~~~l~~l  294 (298)
                      |++++|.+..   |..++++++|++|++++|++..+
T Consensus       129 L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~l~~~  164 (276)
T 2z62_A          129 LNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSI  164 (276)
T ss_dssp             EECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEE
T ss_pred             EECcCCccceecCchhhccCCCCCEEECCCCCCCcC
Confidence            5555555433   44455555555555555554443

>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=99.27  E-value=9.7e-12  Score=103.47  Aligned_cols=112  Identities=15%  Similarity=0.206  Sum_probs=63.8

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecC-CCCCCCC-ccccCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTY-MNLLPLP-SSLGLLS  257 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~-~~i~~lP-~~i~~L~  257 (298)
                      .+..++.+.+.+|.+..++...+..+++|++|.+.+   +..+..++...|..+++|++|++++ |.++.+| ..++.++
T Consensus        29 ~~~~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~---n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~  105 (239)
T 2xwt_C           29 LPPSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSI---DVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELP  105 (239)
T ss_dssp             CCTTCCEEEEESCCCSEECTTTTTTCTTCCEEEEEC---CSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCT
T ss_pred             CCCcccEEEEeCCcceEECHHHccCCCCCcEEeCCC---CCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCC
Confidence            444666666666666666665556666666666665   2225555555456666666666665 5665554 3455566


Q ss_pred             CCcEeecCCCCCCC-CcccCCCCCCC---EEeecCC-CCCCCC
Q 040933          258 NLRTLSLCYCKLLD-ISVTGELKKLE---ILCLRGS-DIQQLP  295 (298)
Q Consensus       258 ~L~~L~l~~~~l~~-p~~i~~L~~L~---~L~l~~~-~l~~lP  295 (298)
                      +|++|++++|.++. |. ++.+.+|+   +|++++| ++..+|
T Consensus       106 ~L~~L~l~~n~l~~lp~-~~~l~~L~~L~~L~l~~N~~l~~i~  147 (239)
T 2xwt_C          106 LLKFLGIFNTGLKMFPD-LTKVYSTDIFFILEITDNPYMTSIP  147 (239)
T ss_dssp             TCCEEEEEEECCCSCCC-CTTCCBCCSEEEEEEESCTTCCEEC
T ss_pred             CCCEEeCCCCCCccccc-cccccccccccEEECCCCcchhhcC
Confidence            66666666655555 43 44444444   5555555 444444

>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=99.26  E-value=1.8e-11  Score=98.54  Aligned_cols=104  Identities=15%  Similarity=0.177  Sum_probs=90.2

Q ss_pred             cEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChH-HHhCCCCccEEEecCCCCCCC-CccccCCCCCcEe
Q 040933          185 TSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNN-FFEKMIQVRVINLTYMNLLPL-PSSLGLLSNLRTL  262 (298)
Q Consensus       185 ~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~-~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~~L~~L  262 (298)
                      +.+.+.++.+..+|..+   ..+++.|.+.+    +.+..++.. .|..+++|++|++++|.++.+ |..++.+.+|++|
T Consensus        11 ~~l~~s~~~l~~ip~~~---~~~l~~L~l~~----n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L   83 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRDI---PLHTTELLLND----NELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQEL   83 (192)
T ss_dssp             TEEECTTSCCSSCCSCC---CTTCSEEECCS----CCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEE
T ss_pred             CEEEcCCCCcCcCccCC---CCCCCEEECCC----CcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEE
Confidence            67888899999999753   34899999998    567777754 569999999999999999996 7889999999999


Q ss_pred             ecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCC
Q 040933          263 SLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       263 ~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      ++++|.++.  |..++.+++|++|++++|++..++
T Consensus        84 ~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~  118 (192)
T 1w8a_A           84 QLGENKIKEISNKMFLGLHQLKTLNLYDNQISCVM  118 (192)
T ss_dssp             ECCSCCCCEECSSSSTTCTTCCEEECCSSCCCEEC
T ss_pred             ECCCCcCCccCHHHhcCCCCCCEEECCCCcCCeeC
Confidence            999999998  556999999999999999988663

>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=99.26  E-value=5.4e-12  Score=100.05  Aligned_cols=102  Identities=17%  Similarity=0.188  Sum_probs=66.2

Q ss_pred             CccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCc--cccCCCCCc
Q 040933          183 LYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPS--SLGLLSNLR  260 (298)
Q Consensus       183 ~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~--~i~~L~~L~  260 (298)
                      +++.+.+.+|.+..++.  +..+++|++|.+++    +.+..+|+.+|..+++|++|++++|.+..+|.  .++.+++|+
T Consensus        43 ~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~----N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~  116 (176)
T 1a9n_A           43 QFDAIDFSDNEIRKLDG--FPLLRRLKTLLVNN----NRICRIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLT  116 (176)
T ss_dssp             CCSEEECCSSCCCEECC--CCCCSSCCEEECCS----SCCCEECSCHHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCC
T ss_pred             CCCEEECCCCCCCcccc--cccCCCCCEEECCC----CcccccCcchhhcCCCCCEEECCCCcCCcchhhHhhhcCCCCC
Confidence            66667777666666632  36666677777665    45556665555666777777777776666665  566666777


Q ss_pred             EeecCCCCCCC-Ccc----cCCCCCCCEEeecCCC
Q 040933          261 TLSLCYCKLLD-ISV----TGELKKLEILCLRGSD  290 (298)
Q Consensus       261 ~L~l~~~~l~~-p~~----i~~L~~L~~L~l~~~~  290 (298)
                      +|++++|++.. |..    ++.+++|++||+++|.
T Consensus       117 ~L~l~~N~i~~~~~~~~~~~~~l~~L~~Ld~~~n~  151 (176)
T 1a9n_A          117 YLCILRNPVTNKKHYRLYVIYKVPQVRVLDFQKVK  151 (176)
T ss_dssp             EEECCSSGGGGSTTHHHHHHHHCTTCSEETTEECC
T ss_pred             EEEecCCCCCCcHhHHHHHHHHCCccceeCCCcCC
Confidence            77777776655 543    6666777777766654

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

Probab=99.26  E-value=2.4e-11  Score=108.47  Aligned_cols=112  Identities=15%  Similarity=0.196  Sum_probs=85.7

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~  258 (298)
                      ..++++.+.+.+|.+..++...+..+++|++|.+.+    +.+..+++..|..+++|++|++++|.++.+|.. ++.+++
T Consensus        67 ~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~----n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~  142 (390)
T 3o6n_A           67 SFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGF----NAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPK  142 (390)
T ss_dssp             HCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCS----SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             ccccCcEEECCCCcccccChhhccCCCCcCEEECCC----CCCCcCCHHHhcCCCCCCEEECCCCccCcCCHHHhcCCCC
Confidence            346788888888888777766667788888888877    556667666668888888888888888888766 477888


Q ss_pred             CcEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCC
Q 040933          259 LRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       259 L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      |++|++++|.+..  |..++.+++|++|++++|++..+|
T Consensus       143 L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~  181 (390)
T 3o6n_A          143 LTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVD  181 (390)
T ss_dssp             CCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCCSBCC
T ss_pred             CcEEECCCCccCccChhhccCCCCCCEEECCCCcCCccc
Confidence            8888888888776  556788888888888888776554

>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=99.25  E-value=8.8e-12  Score=103.74  Aligned_cols=112  Identities=10%  Similarity=0.061  Sum_probs=77.1

Q ss_pred             ccCccEEEEeCCC-CccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCC
Q 040933          181 VKLYTSIVLRDIK-TNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~-~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L  259 (298)
                      ..+++.+.+.+|. +..++...|..+++|++|.+.+   ++.+..+|...|..+++|++|++++|.++.+|. ++.+.+|
T Consensus        54 l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~---~n~l~~i~~~~f~~l~~L~~L~l~~n~l~~lp~-~~~l~~L  129 (239)
T 2xwt_C           54 LPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRN---TRNLTYIDPDALKELPLLKFLGIFNTGLKMFPD-LTKVYST  129 (239)
T ss_dssp             CTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEE---ETTCCEECTTSEECCTTCCEEEEEEECCCSCCC-CTTCCBC
T ss_pred             CCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCC---CCCeeEcCHHHhCCCCCCCEEeCCCCCCccccc-ccccccc
Confidence            4567777777775 7777765566777777777765   356666666666777777777777777777765 6666666


Q ss_pred             c---EeecCCC-CCCC-C-cccCCCCCCC-EEeecCCCCCCCCC
Q 040933          260 R---TLSLCYC-KLLD-I-SVTGELKKLE-ILCLRGSDIQQLPV  296 (298)
Q Consensus       260 ~---~L~l~~~-~l~~-p-~~i~~L~~L~-~L~l~~~~l~~lP~  296 (298)
                      +   +|++++| .++. | ..++.+++|+ +|++++|++..+|.
T Consensus       130 ~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~~i~~  173 (239)
T 2xwt_C          130 DIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQG  173 (239)
T ss_dssp             CSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCCEECT
T ss_pred             ccccEEECCCCcchhhcCcccccchhcceeEEEcCCCCCcccCH
Confidence            6   7777777 5666 3 3466777777 77777776666664

>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=99.25  E-value=1.9e-11  Score=103.84  Aligned_cols=109  Identities=19%  Similarity=0.159  Sum_probs=77.3

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L  259 (298)
                      +..++.+.+.+|.+..++...+..+++|++|.+.+    +.+..++...|..+++|++|++++|.++.+| ..++.+.+|
T Consensus        27 ~~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~----n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  102 (276)
T 2z62_A           27 PFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSR----CEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSL  102 (276)
T ss_dssp             CTTCCEEECTTCCCCEECTTTTTTCTTCSEEECTT----CCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTC
T ss_pred             CCCccEEECCCCcccccCHhHhccccCCcEEECCC----CcCCccCHHHccCCcCCCEEECCCCccCccChhhhcCCccc
Confidence            45677777777777777665567777777777776    4555666655677777777777777777654 567777777


Q ss_pred             cEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCC
Q 040933          260 RTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQ  293 (298)
Q Consensus       260 ~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~  293 (298)
                      ++|++++|.+..  +..++++++|++|++++|++..
T Consensus       103 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~  138 (276)
T 2z62_A          103 QKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQS  138 (276)
T ss_dssp             CEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCC
T ss_pred             cEEECCCCCccccCchhcccCCCCCEEECcCCccce
Confidence            777777777666  3357777777777777777665

>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=99.25  E-value=2.6e-11  Score=110.23  Aligned_cols=112  Identities=25%  Similarity=0.380  Sum_probs=90.6

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-CccccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~~  258 (298)
                      .++.++.|.+.+|.+..+++..+..+++|++|.+.+   +.....++...|..+++|++|++++|.+..+ |..++.+.+
T Consensus        28 l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~---n~~~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~  104 (455)
T 3v47_A           28 LPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQ---QTPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLAN  104 (455)
T ss_dssp             CCTTCCEEECCSSCCCEECTTTTSSCTTCCEEECCC---CSTTCEECTTTTTTCTTCCEEECTTCTTCEECTTTTTTCTT
T ss_pred             CCCccCEEEecCCccCcCChhHhccCccccEEECcC---CcccceECcccccccccCCEEeCCCCccCccChhhccCccc
Confidence            557899999999999888666678899999999988   4444467666678889999999999988875 778888888


Q ss_pred             CcEeecCCCCCCC--Ccc--cCCCCCCCEEeecCCCCCCC
Q 040933          259 LRTLSLCYCKLLD--ISV--TGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       259 L~~L~l~~~~l~~--p~~--i~~L~~L~~L~l~~~~l~~l  294 (298)
                      |++|++++|.+..  |..  ++++++|++|++++|++..+
T Consensus       105 L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~  144 (455)
T 3v47_A          105 LEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKI  144 (455)
T ss_dssp             CCEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSC
T ss_pred             CCEEeCCCCCCCccccCcccccCcccCCEEECCCCccCcc
Confidence            8888888888876  444  88888888888888887766

>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=99.25  E-value=2.2e-11  Score=114.82  Aligned_cols=111  Identities=15%  Similarity=0.194  Sum_probs=92.4

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~L  259 (298)
                      ...++.|.+.+|.+..+++..+..+++|++|.+.+    +.+..+|+..|..+++|++|++++|.++.+|.. ++.+++|
T Consensus        74 l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~----n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L  149 (597)
T 3oja_B           74 FRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGF----NAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKL  149 (597)
T ss_dssp             CCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCS----SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             CCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCC----CcCCCCCHHHHcCCCCCCEEEeeCCCCCCCCHHHhccCCCC
Confidence            46788899988888888876678888999999887    567777777778899999999999998888766 4888999


Q ss_pred             cEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCC
Q 040933          260 RTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       260 ~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      ++|++++|.+..  |..++.+++|++|++++|++..+|
T Consensus       150 ~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~  187 (597)
T 3oja_B          150 TTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVD  187 (597)
T ss_dssp             CEEECCSSCCCBCCTTTTTTCTTCCEEECTTSCCSBCC
T ss_pred             CEEEeeCCcCCCCChhhhhcCCcCcEEECcCCCCCCcC
Confidence            999999998877  557888999999999988877654

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

Probab=99.24  E-value=5.1e-11  Score=116.76  Aligned_cols=117  Identities=23%  Similarity=0.323  Sum_probs=99.0

Q ss_pred             CCCchhhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-Ccc
Q 040933          174 EWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSS  252 (298)
Q Consensus       174 ~~~~~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~  252 (298)
                      ..|.  .+..++.|.+++|.+..+.+..+..+++|++|++++   +.....+++..|..+++|++|+|++|.+..+ |..
T Consensus        18 ~vP~--lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~---n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~   92 (844)
T 3j0a_A           18 QVPQ--VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGS---QYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDA   92 (844)
T ss_dssp             CCCS--SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECT---TCCCCEECTTTTSSCTTCCEEECTTCCCCEECTTS
T ss_pred             CCCC--CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCC---CCCccccCHHHhcCCCCCCEEECCCCcCcccCHhH
Confidence            4554  678999999999999988777779999999999998   5567777666679999999999999999885 788


Q ss_pred             ccCCCCCcEeecCCCCCCC--Ccc--cCCCCCCCEEeecCCCCCCCC
Q 040933          253 LGLLSNLRTLSLCYCKLLD--ISV--TGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       253 i~~L~~L~~L~l~~~~l~~--p~~--i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      ++.+.+|++|++++|.+..  |..  ++++++|++|++++|++..++
T Consensus        93 ~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~  139 (844)
T 3j0a_A           93 FQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLY  139 (844)
T ss_dssp             SCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCC
T ss_pred             ccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCcccccc
Confidence            9999999999999999876  554  889999999999999877654

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

Probab=99.24  E-value=3.7e-11  Score=112.28  Aligned_cols=108  Identities=19%  Similarity=0.160  Sum_probs=58.8

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L  259 (298)
                      +..++.+.+.+|.+..++...|..+++|++|++++    +.+..+++..|..+++|++|++++|.++.+| ..++.+.+|
T Consensus        27 ~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~----n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  102 (570)
T 2z63_A           27 PFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSR----CEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSL  102 (570)
T ss_dssp             CSSCCEEECCSCCCCEECTTTTTTCSSCCEEECTT----CCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTC
T ss_pred             cccccEEEccCCccCccChhHhhCCCCceEEECCC----CcCCccCcccccCchhCCEEeCcCCcCCccCHhhhcCcccc
Confidence            44566666666666665554456666666666665    3344454444455555555555555555543 445555555


Q ss_pred             cEeecCCCCCCC-C-cccCCCCCCCEEeecCCCCC
Q 040933          260 RTLSLCYCKLLD-I-SVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       260 ~~L~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~l~  292 (298)
                      ++|++++|.+.. | ..++++++|++|++++|.+.
T Consensus       103 ~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~  137 (570)
T 2z63_A          103 QKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQ  137 (570)
T ss_dssp             CEEECTTSCCCCSTTCSCTTCTTCCEEECCSSCCC
T ss_pred             ccccccccccccCCCccccccccccEEecCCCccc
Confidence            555555555544 2 23555555555555555444

>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=99.24  E-value=2.3e-11  Score=107.17  Aligned_cols=111  Identities=22%  Similarity=0.272  Sum_probs=73.9

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~L  259 (298)
                      ..+++.+.+.+|.+..++...+..+++|++|.+.+    +.+..++...|..+++|++|++++|.++.+|.. ++.+++|
T Consensus        51 ~~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~----n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L  126 (353)
T 2z80_A           51 TEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTS----NGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSL  126 (353)
T ss_dssp             CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTT----SCCCEECTTTTTTCTTCCEEECCSSCCSSCCHHHHTTCTTC
T ss_pred             cccCcEEECCCCcCcccCHHHhccCCCCCEEECCC----CccCccCHhhcCCCCCCCEEECCCCcCCcCCHhHhCCCccC
Confidence            35677777777777777665557777777777766    455555554456777777777777777776654 6667777


Q ss_pred             cEeecCCCCCCC-Cc--ccCCCCCCCEEeecCC-CCCCCC
Q 040933          260 RTLSLCYCKLLD-IS--VTGELKKLEILCLRGS-DIQQLP  295 (298)
Q Consensus       260 ~~L~l~~~~l~~-p~--~i~~L~~L~~L~l~~~-~l~~lP  295 (298)
                      ++|++++|.+.. |.  .++++++|++|++++| .+..+|
T Consensus       127 ~~L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~  166 (353)
T 2z80_A          127 TFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQ  166 (353)
T ss_dssp             SEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEEC
T ss_pred             CEEECCCCCCcccCchhhhccCCCCcEEECCCCccccccC
Confidence            777777777666 44  5666777777777766 355443

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

Probab=99.23  E-value=1.2e-11  Score=119.02  Aligned_cols=97  Identities=23%  Similarity=0.271  Sum_probs=84.1

Q ss_pred             CCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCC-Cccc
Q 040933          197 LPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLD-ISVT  275 (298)
Q Consensus       197 l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~-p~~i  275 (298)
                      +++..+..+++|+.|.+++    +.+..+|..+| .+++|++|+|++|.++.+|..++.|.+|++|+|++|.++. |..+
T Consensus       215 ~~~~~~~~l~~L~~L~Ls~----n~l~~l~~~~~-~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~  289 (727)
T 4b8c_D          215 MPKDSKYDDQLWHALDLSN----LQIFNISANIF-KYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAEL  289 (727)
T ss_dssp             -------CCCCCCEEECTT----SCCSCCCGGGG-GCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSCCSSCCSSG
T ss_pred             cChhhhccCCCCcEEECCC----CCCCCCChhhc-CCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCcCCccChhh
Confidence            3344468889999999998    56778998884 8999999999999999999999999999999999999999 9999


Q ss_pred             CCCCCCCEEeecCCCCCCCCCCC
Q 040933          276 GELKKLEILCLRGSDIQQLPVEL  298 (298)
Q Consensus       276 ~~L~~L~~L~l~~~~l~~lP~~i  298 (298)
                      ++|.+|++|+|++|.|..+|.++
T Consensus       290 ~~l~~L~~L~L~~N~l~~lp~~~  312 (727)
T 4b8c_D          290 GSCFQLKYFYFFDNMVTTLPWEF  312 (727)
T ss_dssp             GGGTTCSEEECCSSCCCCCCSST
T ss_pred             cCCCCCCEEECCCCCCCccChhh
Confidence            99999999999999999999754

>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=99.23  E-value=1.9e-11  Score=96.88  Aligned_cols=109  Identities=16%  Similarity=0.181  Sum_probs=93.3

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCC-CCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccc-cCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPEC-PQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSL-GLLS  257 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~-~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i-~~L~  257 (298)
                      .+.+++.+.+.+|.+..++..  ..+ ++|+.|.+++    +.+..++  .|..+++|++|++++|.++.+|+.+ +.++
T Consensus        17 ~~~~L~~L~l~~n~l~~i~~~--~~~~~~L~~L~Ls~----N~l~~~~--~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~   88 (176)
T 1a9n_A           17 NAVRDRELDLRGYKIPVIENL--GATLDQFDAIDFSD----NEIRKLD--GFPLLRRLKTLLVNNNRICRIGEGLDQALP   88 (176)
T ss_dssp             CTTSCEEEECTTSCCCSCCCG--GGGTTCCSEEECCS----SCCCEEC--CCCCCSSCCEEECCSSCCCEECSCHHHHCT
T ss_pred             CcCCceEEEeeCCCCchhHHh--hhcCCCCCEEECCC----CCCCccc--ccccCCCCCEEECCCCcccccCcchhhcCC
Confidence            346789999999999988653  444 4999999998    5666663  2589999999999999999998665 8999


Q ss_pred             CCcEeecCCCCCCC-Cc--ccCCCCCCCEEeecCCCCCCCCC
Q 040933          258 NLRTLSLCYCKLLD-IS--VTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       258 ~L~~L~l~~~~l~~-p~--~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      +|++|++++|.+.. |.  .++.+++|++|++++|.+..+|.
T Consensus        89 ~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~i~~~~~  130 (176)
T 1a9n_A           89 DLTELILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKH  130 (176)
T ss_dssp             TCCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTT
T ss_pred             CCCEEECCCCcCCcchhhHhhhcCCCCCEEEecCCCCCCcHh
Confidence            99999999999988 76  89999999999999999887775

>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=99.23  E-value=6.1e-11  Score=95.70  Aligned_cols=105  Identities=16%  Similarity=0.158  Sum_probs=48.2

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCC-CCCCCccccCCCCCc
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMN-LLPLPSSLGLLSNLR  260 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~-i~~lP~~i~~L~~L~  260 (298)
                      .+++.+.+.+|.+.......+..+++|+.|.+++    +.+.......|..+++|++|++++|. +..+| .++.+++|+
T Consensus        88 ~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~Ls~----n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~  162 (197)
T 4ezg_A           88 SNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISH----SAHDDSILTKINTLPKVNSIDLSYNGAITDIM-PLKTLPELK  162 (197)
T ss_dssp             TTCCEEEEECTTCBGGGSCCCTTCTTCCEEECCS----SBCBGGGHHHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCC
T ss_pred             CCCCEEEeECCccCcccChhhcCCCCCCEEEecC----CccCcHhHHHHhhCCCCCEEEccCCCCccccH-hhcCCCCCC
Confidence            4445555555544432111234455555555554    22222111223555555555555554 44454 455555555


Q ss_pred             EeecCCCCCCCCcccCCCCCCCEEeecCCCC
Q 040933          261 TLSLCYCKLLDISVTGELKKLEILCLRGSDI  291 (298)
Q Consensus       261 ~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~l  291 (298)
                      +|++++|.+.....+..+++|++|++++|++
T Consensus       163 ~L~l~~n~i~~~~~l~~l~~L~~L~l~~N~i  193 (197)
T 4ezg_A          163 SLNIQFDGVHDYRGIEDFPKLNQLYAFSQTI  193 (197)
T ss_dssp             EEECTTBCCCCCTTGGGCSSCCEEEECBC--
T ss_pred             EEECCCCCCcChHHhccCCCCCEEEeeCccc
Confidence            5555555555522455555555555555544

>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=99.23  E-value=1.5e-10  Score=93.32  Aligned_cols=115  Identities=10%  Similarity=0.186  Sum_probs=96.6

Q ss_pred             CCCchhhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccc-cChHHHhCCCCccEEEecCCCCCC-CCc
Q 040933          174 EWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLT-IPNNFFEKMIQVRVINLTYMNLLP-LPS  251 (298)
Q Consensus       174 ~~~~~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~-lp~~~~~~l~~Lr~L~l~~~~i~~-lP~  251 (298)
                      ..+......+++.+.+.+|.+..++.  +..+++|++|.+.+    +.+.. .|.. |..+++|++|++++|.++. .|.
T Consensus        58 ~l~~l~~l~~L~~L~l~~n~~~~~~~--l~~l~~L~~L~l~~----n~l~~~~~~~-l~~l~~L~~L~Ls~n~i~~~~~~  130 (197)
T 4ezg_A           58 DLTGIEYAHNIKDLTINNIHATNYNP--ISGLSNLERLRIMG----KDVTSDKIPN-LSGLTSLTLLDISHSAHDDSILT  130 (197)
T ss_dssp             CCTTGGGCTTCSEEEEESCCCSCCGG--GTTCTTCCEEEEEC----TTCBGGGSCC-CTTCTTCCEEECCSSBCBGGGHH
T ss_pred             ChHHHhcCCCCCEEEccCCCCCcchh--hhcCCCCCEEEeEC----CccCcccChh-hcCCCCCCEEEecCCccCcHhHH
Confidence            34455667899999999998877764  48899999999998    44443 4544 4899999999999999987 678


Q ss_pred             cccCCCCCcEeecCCCC-CCCCcccCCCCCCCEEeecCCCCCCCC
Q 040933          252 SLGLLSNLRTLSLCYCK-LLDISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       252 ~i~~L~~L~~L~l~~~~-l~~p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      .++.+++|++|++++|. +...+.++.+++|++|++++|++..+|
T Consensus       131 ~l~~l~~L~~L~L~~n~~i~~~~~l~~l~~L~~L~l~~n~i~~~~  175 (197)
T 4ezg_A          131 KINTLPKVNSIDLSYNGAITDIMPLKTLPELKSLNIQFDGVHDYR  175 (197)
T ss_dssp             HHTTCSSCCEEECCSCTBCCCCGGGGGCSSCCEEECTTBCCCCCT
T ss_pred             HHhhCCCCCEEEccCCCCccccHhhcCCCCCCEEECCCCCCcChH
Confidence            89999999999999998 887447999999999999999988876

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

Probab=99.22  E-value=3.7e-11  Score=109.09  Aligned_cols=112  Identities=22%  Similarity=0.295  Sum_probs=65.9

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCc
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLR  260 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~  260 (298)
                      ..+++.|.+.+|.+..++...+..+++|+.|.+.+   ++.+..++...|..+++|++|++++|+++.+| .+..+.+|+
T Consensus       135 l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~---~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~  210 (440)
T 3zyj_A          135 LSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGE---LKRLSYISEGAFEGLSNLRYLNLAMCNLREIP-NLTPLIKLD  210 (440)
T ss_dssp             CSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCC---CTTCCEECTTTTTTCSSCCEEECTTSCCSSCC-CCTTCSSCC
T ss_pred             cccCceeeCCCCcccccCHHHhhhCcccCEeCCCC---CCCcceeCcchhhcccccCeecCCCCcCcccc-ccCCCcccC
Confidence            35666777777777666665556666666666665   45555556555566666666666666655555 344455555


Q ss_pred             EeecCCCCCC------------------------C--CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          261 TLSLCYCKLL------------------------D--ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       261 ~L~l~~~~l~------------------------~--p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      +|++++|.++                        .  |..+..+++|++|+|++|++..+|.
T Consensus       211 ~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~  272 (440)
T 3zyj_A          211 ELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHNNLTLLPH  272 (440)
T ss_dssp             EEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTSSTTCTTCCEEECTTSCCCCCCT
T ss_pred             EEECCCCccCccChhhhccCccCCEEECCCCceeEEChhhhcCCCCCCEEECCCCCCCccCh
Confidence            5555555444                        4  3345555666666666666665554

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

Probab=99.22  E-value=2e-11  Score=109.01  Aligned_cols=113  Identities=14%  Similarity=0.177  Sum_probs=100.4

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~  258 (298)
                      ...+++.+.+.++.+..+|..++..+++|++|.+.+    +.+..++...|..+++|++|++++|.+..+| ..++.+++
T Consensus        43 ~l~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~----n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  118 (390)
T 3o6n_A           43 TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLND----LQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPL  118 (390)
T ss_dssp             GGCCCSEEEEESCEESEECTHHHHHCCCCSEEECTT----SCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             ccCCceEEEecCCchhhCChhHhcccccCcEEECCC----CcccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCC
Confidence            457899999999999999987778899999999998    5677788766799999999999999999975 56899999


Q ss_pred             CcEeecCCCCCCC-Ccc-cCCCCCCCEEeecCCCCCCCCC
Q 040933          259 LRTLSLCYCKLLD-ISV-TGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       259 L~~L~l~~~~l~~-p~~-i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      |++|++++|.+.. |.. ++++++|++|++++|++..+|.
T Consensus       119 L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~  158 (390)
T 3o6n_A          119 LTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIED  158 (390)
T ss_dssp             CCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCT
T ss_pred             CCEEECCCCccCcCCHHHhcCCCCCcEEECCCCccCccCh
Confidence            9999999999999 765 5899999999999999887764

>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=99.22  E-value=3.1e-11  Score=113.74  Aligned_cols=113  Identities=14%  Similarity=0.130  Sum_probs=98.0

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~  258 (298)
                      ...+++.+.+.+|.+..+++..|..+++|++|.+++    +.+..+++..|..+++|++|++++|.+..+| ..++.+.+
T Consensus        54 ~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~----n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  129 (606)
T 3vq2_A           54 NFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTG----NPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLIT  129 (606)
T ss_dssp             TCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTT----CCCCCCCTTSSTTCTTCCEEECTTSCCCCSSSSCCTTCTT
T ss_pred             CCccCcEEeCCCCcccccCHHHhhchhhcCEeECCC----CcccccChhhcCCcccCCEEEccCCccccccccccCCCCC
Confidence            457899999999999998877778999999999998    5566775555699999999999999999876 78999999


Q ss_pred             CcEeecCCCCCCC---CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          259 LRTLSLCYCKLLD---ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       259 L~~L~l~~~~l~~---p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      |++|++++|.+..   |..++++++|++|++++|++..+|.
T Consensus       130 L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls~n~l~~~~~  170 (606)
T 3vq2_A          130 LKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITV  170 (606)
T ss_dssp             CCEEECCSSCCCCCCCCGGGGTCTTCCEEECCSSCCCEECT
T ss_pred             CCEEeCCCCcccceechHhHhhcCCCCEEEccCCcceecCh
Confidence            9999999999773   8899999999999999998887653

>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=99.21  E-value=4e-11  Score=114.57  Aligned_cols=112  Identities=19%  Similarity=0.182  Sum_probs=81.8

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCc-cccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPS-SLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~-~i~~L~~  258 (298)
                      .+..++++.+.+|.+..++...+..+++|++|.+++    +.+..+++..|..+++|++|++++|.++.+|. .++.+.+
T Consensus        23 ~~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~----n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~   98 (680)
T 1ziw_A           23 LPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGF----NTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTN   98 (680)
T ss_dssp             SCTTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCS----SCCCCCCTTHHHHCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             cCCCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCC----CccCccCHHHHhcccCcCEEECCCCccCccChhhhccCCC
Confidence            346788888888888877776667778888888876    44555555556777788888888877777765 4777777


Q ss_pred             CcEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCC
Q 040933          259 LRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       259 L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      |++|++++|.+..  |..++++++|++|++++|++...|
T Consensus        99 L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~  137 (680)
T 1ziw_A           99 LTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTK  137 (680)
T ss_dssp             CSEEECCSSCCCCCCSCTTTTCTTCCEEECCSSCCSCCC
T ss_pred             CCEEECCCCccCccChhHccccCCCCEEECCCCcccccC
Confidence            8888887777766  456777777777777777666544

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

Probab=99.21  E-value=2.7e-11  Score=113.21  Aligned_cols=112  Identities=16%  Similarity=0.200  Sum_probs=98.1

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCc-cccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPS-SLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~-~i~~L~~  258 (298)
                      ...+++.+.+.+|.+..+++..|..+++|++|.+.+    +.+..+++..|..+++|++|++++|.++.+|. .++.+.+
T Consensus        50 ~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~----n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~  125 (570)
T 2z63_A           50 SFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTG----NPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKT  125 (570)
T ss_dssp             TCSSCCEEECTTCCCCEECTTTTTTCTTCCEEECTT----CCCCEECTTTTTTCTTCCEEECTTSCCCCSTTCSCTTCTT
T ss_pred             CCCCceEEECCCCcCCccCcccccCchhCCEEeCcC----CcCCccCHhhhcCccccccccccccccccCCCcccccccc
Confidence            456899999999999998887788999999999998    56777777677999999999999999999875 6999999


Q ss_pred             CcEeecCCCCCCC---CcccCCCCCCCEEeecCCCCCCCC
Q 040933          259 LRTLSLCYCKLLD---ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       259 L~~L~l~~~~l~~---p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      |++|++++|.+..   |..++++++|++|++++|++..+|
T Consensus       126 L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~~n~l~~~~  165 (570)
T 2z63_A          126 LKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIY  165 (570)
T ss_dssp             CCEEECCSSCCCCCCCCGGGGGCTTCCEEECTTSCCCEEC
T ss_pred             ccEEecCCCccceecChhhhcccCCCCEEeCcCCccceec
Confidence            9999999999774   888999999999999999887664

>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=99.21  E-value=5.2e-11  Score=108.25  Aligned_cols=107  Identities=20%  Similarity=0.241  Sum_probs=56.3

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-CccccCCCCCc
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLLSNLR  260 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~~L~  260 (298)
                      .+++.+.+.+|.+..+++..+..+++|+.|.+++    +.+..++...|..+++|++|++++|.++.+ |..++.+++|+
T Consensus       299 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~----N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~  374 (455)
T 3v47_A          299 TDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQ----NFLGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLK  374 (455)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECCS----SCCCEECGGGGTTCTTCCEEECCSSCCCEECTTTTTTCTTCC
T ss_pred             CCCCEEECCCCcccccChhHhcCcccCCEEECCC----CccCCcChhHhcCcccCCEEECCCCcccccChhhcccccccc
Confidence            3455555555555554444345555555555554    334444444445555555555555555553 44555555555


Q ss_pred             EeecCCCCCCC-Cc-ccCCCCCCCEEeecCCCCC
Q 040933          261 TLSLCYCKLLD-IS-VTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       261 ~L~l~~~~l~~-p~-~i~~L~~L~~L~l~~~~l~  292 (298)
                      +|++++|.++. |. .++.+++|++|++++|++.
T Consensus       375 ~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~  408 (455)
T 3v47_A          375 ELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWD  408 (455)
T ss_dssp             EEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBC
T ss_pred             EEECCCCccccCCHhHhccCCcccEEEccCCCcc
Confidence            55555555555 32 3455555555555555443

>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=99.20  E-value=7e-11  Score=109.98  Aligned_cols=111  Identities=23%  Similarity=0.269  Sum_probs=83.2

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~L  259 (298)
                      +..++.+.+.+|.+..+++..+..+++|++|.+++    +.+..+++..|..+++|++|++++|.++.+|+. ++.+.+|
T Consensus        25 ~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~----n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L  100 (549)
T 2z81_A           25 TAAMKSLDLSFNKITYIGHGDLRACANLQVLILKS----SRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSL  100 (549)
T ss_dssp             CTTCCEEECCSSCCCEECSSTTSSCTTCCEEECTT----SCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTC
T ss_pred             CCCccEEECcCCccCccChhhhhcCCcccEEECCC----CCcCccChhhccccccCCEEECCCCccCccCHHHhccCCCC
Confidence            46788888888888777665567788888888887    456666655567888888888888888777654 7888888


Q ss_pred             cEeecCCCCCCC---CcccCCCCCCCEEeecCCC-CCCCC
Q 040933          260 RTLSLCYCKLLD---ISVTGELKKLEILCLRGSD-IQQLP  295 (298)
Q Consensus       260 ~~L~l~~~~l~~---p~~i~~L~~L~~L~l~~~~-l~~lP  295 (298)
                      ++|++++|.+..   |..++++++|++|++++|+ +..+|
T Consensus       101 ~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~  140 (549)
T 2z81_A          101 KYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIR  140 (549)
T ss_dssp             CEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEEC
T ss_pred             cEEECCCCcccccchhhhhhccCCccEEECCCCccccccC
Confidence            888888887763   5677788888888888775 55555

>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=99.19  E-value=4.9e-11  Score=108.62  Aligned_cols=113  Identities=20%  Similarity=0.273  Sum_probs=67.0

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC----------
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP----------  250 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP----------  250 (298)
                      ..+++.|.+.+|.+..++...+..+++|+.|.+.+   ++.+..++...|..+++|++|++++|+++.+|          
T Consensus       146 l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~---~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~  222 (452)
T 3zyi_A          146 LSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGE---LKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVGLEE  222 (452)
T ss_dssp             CTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCC---CTTCCEECTTTTTTCTTCCEEECTTSCCSSCCCCTTCTTCCE
T ss_pred             cCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCC---CCCccccChhhccCCCCCCEEECCCCcccccccccccccccE
Confidence            35667777777777666665556666666666665   45555555555566666666666655555544          


Q ss_pred             -------------ccccCCCCCcEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          251 -------------SSLGLLSNLRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       251 -------------~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                                   ..++.+.+|++|++++|.+..  |..+..+++|++|++++|++..+|.
T Consensus       223 L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~  283 (452)
T 3zyi_A          223 LEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNLSSLPH  283 (452)
T ss_dssp             EECTTSCCSEECGGGGTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCCCT
T ss_pred             EECcCCcCcccCcccccCccCCCEEEeCCCcCceECHHHhcCCCCCCEEECCCCcCCccCh
Confidence                         344455555555555555444  4455566666666666666666654

>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=99.19  E-value=5.8e-11  Score=108.77  Aligned_cols=109  Identities=17%  Similarity=0.208  Sum_probs=63.3

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~L  259 (298)
                      +..++.|.+.+|.+..++...|..+++|++|.+.+    +.+..+++..|..+++|++|++++|.++.+|.. ++.+.+|
T Consensus        31 ~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~----n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  106 (477)
T 2id5_A           31 PTETRLLDLGKNRIKTLNQDEFASFPHLEELELNE----NIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNL  106 (477)
T ss_dssp             CTTCSEEECCSSCCCEECTTTTTTCTTCCEEECTT----SCCCEECTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTC
T ss_pred             CCCCcEEECCCCccceECHhHccCCCCCCEEECCC----CccCEeChhhhhCCccCCEEECCCCcCCccCcccccCCCCC
Confidence            45666677777766666555556666666666665    344444333446666666666666666665533 4556666


Q ss_pred             cEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCC
Q 040933          260 RTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQ  293 (298)
Q Consensus       260 ~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~  293 (298)
                      ++|++++|.+..  |..++++++|++|++++|.+..
T Consensus       107 ~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~  142 (477)
T 2id5_A          107 TKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVY  142 (477)
T ss_dssp             CEEECTTSCCCEECTTTTTTCTTCCEEEECCTTCCE
T ss_pred             CEEECCCCccccCChhHccccccCCEEECCCCccce
Confidence            666666665554  4445555555555555554443

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

Probab=99.18  E-value=1.8e-11  Score=106.13  Aligned_cols=111  Identities=21%  Similarity=0.310  Sum_probs=72.6

Q ss_pred             cCccEEEEeCCCCcc---CCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCC-CCCccccCCC
Q 040933          182 KLYTSIVLRDIKTNV---LPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLL-PLPSSLGLLS  257 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~---l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~-~lP~~i~~L~  257 (298)
                      ..++.+.+.++.+..   +|.. +..+++|++|.+.+.  +.....+|..+ ..+++|++|++++|.+. .+|..++.+.
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~-l~~l~~L~~L~L~~~--n~l~~~~p~~l-~~l~~L~~L~Ls~n~l~~~~p~~~~~l~  125 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSS-LANLPYLNFLYIGGI--NNLVGPIPPAI-AKLTQLHYLYITHTNVSGAIPDFLSQIK  125 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGG-GGGCTTCSEEEEEEE--TTEESCCCGGG-GGCTTCSEEEEEEECCEEECCGGGGGCT
T ss_pred             ceEEEEECCCCCccCCcccChh-HhCCCCCCeeeCCCC--CcccccCChhH-hcCCCCCEEECcCCeeCCcCCHHHhCCC
Confidence            467777777777763   4443 466777777777630  22333455554 67777777777777776 4676777777


Q ss_pred             CCcEeecCCCCCCC--CcccCCCCCCCEEeecCCCCC-CCCC
Q 040933          258 NLRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQ-QLPV  296 (298)
Q Consensus       258 ~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~-~lP~  296 (298)
                      +|++|++++|.+..  |..++++++|++|++++|++. .+|.
T Consensus       126 ~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~  167 (313)
T 1ogq_A          126 TLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPD  167 (313)
T ss_dssp             TCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCG
T ss_pred             CCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCH
Confidence            77777777777663  666777777777777777665 4553

>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=99.18  E-value=7.8e-11  Score=111.02  Aligned_cols=112  Identities=13%  Similarity=0.118  Sum_probs=94.7

Q ss_pred             hhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-CccccCCC
Q 040933          179 NAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLLS  257 (298)
Q Consensus       179 ~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~  257 (298)
                      ..+..++.+.+.+|.+..+++..+..+++|++|.+++    +.+..+++..|..+++|++|++++|.+..+ |..++.+.
T Consensus        30 ~l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~----n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~  105 (606)
T 3t6q_A           30 TLPNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTR----CQIYWIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPK  105 (606)
T ss_dssp             TSCTTCCEEECTTCCCSEECTTTSTTCTTCSEEECTT----CCCCEECTTTTTTCTTCCEEECTTCCCSEECTTTTSSCT
T ss_pred             CCCCcCcEEEccCCccCcCChhHhccCccceEEECCC----CccceeChhhccCccccCeeeCCCCcccccChhhhcccc
Confidence            3456899999999999988777778999999999988    556666555568999999999999988875 77889999


Q ss_pred             CCcEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCC
Q 040933          258 NLRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       258 ~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~l  294 (298)
                      +|++|++++|.+..  |..++++++|++|++++|++..+
T Consensus       106 ~L~~L~L~~n~i~~l~~~~~~~l~~L~~L~L~~n~l~~~  144 (606)
T 3t6q_A          106 ALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHISSI  144 (606)
T ss_dssp             TCCEEECTTSCCSCGGGSCCTTCTTCCEEECCSSCCCCC
T ss_pred             cccEeeccccCcccCCcchhccCCcccEEECCCCccccc
Confidence            99999999999888  67888999999999999988776

>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=99.18  E-value=6.5e-11  Score=107.81  Aligned_cols=104  Identities=17%  Similarity=0.139  Sum_probs=57.4

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~L  259 (298)
                      +..++.|.+.+|.+..++...|..+++|+.|.+++    +.+..++...|..+++|++|+|++|.++.+|.. ++.+.+|
T Consensus        74 ~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~----n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  149 (452)
T 3zyi_A           74 PSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGR----NSIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKL  149 (452)
T ss_dssp             CTTCSEEECCSSCCCEECTTTTTTCTTCCEEECCS----SCCCEECTTTTTTCTTCCEEECCSSCCSBCCTTTSSSCTTC
T ss_pred             CCCccEEECcCCcCceECHHHcCCCCCCCEEECCC----CccCCcChhhccCcccCCEEECCCCcCCccChhhhcccCCC
Confidence            35566666666666666555556666666666665    344455544455666666666666666655433 5556666


Q ss_pred             cEeecCCCCCCC-C-cccCCCCCCCEEeecC
Q 040933          260 RTLSLCYCKLLD-I-SVTGELKKLEILCLRG  288 (298)
Q Consensus       260 ~~L~l~~~~l~~-p-~~i~~L~~L~~L~l~~  288 (298)
                      ++|++++|.+.. | ..+.++++|++|++++
T Consensus       150 ~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~  180 (452)
T 3zyi_A          150 RELWLRNNPIESIPSYAFNRVPSLMRLDLGE  180 (452)
T ss_dssp             CEEECCSCCCCEECTTTTTTCTTCCEEECCC
T ss_pred             CEEECCCCCcceeCHhHHhcCCcccEEeCCC
Confidence            666666655554 2 2333333333333333

>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=99.18  E-value=1.9e-10  Score=98.69  Aligned_cols=106  Identities=25%  Similarity=0.282  Sum_probs=65.5

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNL  259 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L  259 (298)
                      ...+++.|.+.+|.+..++.  +..+++|+.|.+.+    +.+..++.  +..+++|++|++++|.++.+ ..++.+++|
T Consensus        88 ~l~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~L~~----n~i~~~~~--l~~l~~L~~L~l~~n~l~~~-~~l~~l~~L  158 (291)
T 1h6t_A           88 NLKNLGWLFLDENKVKDLSS--LKDLKKLKSLSLEH----NGISDING--LVHLPQLESLYLGNNKITDI-TVLSRLTKL  158 (291)
T ss_dssp             TCTTCCEEECCSSCCCCGGG--GTTCTTCCEEECTT----SCCCCCGG--GGGCTTCCEEECCSSCCCCC-GGGGGCTTC
T ss_pred             cCCCCCEEECCCCcCCCChh--hccCCCCCEEECCC----CcCCCChh--hcCCCCCCEEEccCCcCCcc-hhhccCCCC
Confidence            34455556666555555544  25566666666665    34444432  36666677777777766666 366677777


Q ss_pred             cEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCC
Q 040933          260 RTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       260 ~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      ++|++++|.+.. +. ++.+++|++|++++|++..+|
T Consensus       159 ~~L~L~~N~l~~~~~-l~~l~~L~~L~L~~N~i~~l~  194 (291)
T 1h6t_A          159 DTLSLEDNQISDIVP-LAGLTKLQNLYLSKNHISDLR  194 (291)
T ss_dssp             SEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCBCG
T ss_pred             CEEEccCCccccchh-hcCCCccCEEECCCCcCCCCh
Confidence            777777777666 33 677777777777777666554

>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=99.18  E-value=4.6e-11  Score=105.21  Aligned_cols=111  Identities=16%  Similarity=0.178  Sum_probs=95.5

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCc--cccCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPS--SLGLLS  257 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~--~i~~L~  257 (298)
                      ...+++.+.+.+|.+..+++..+..+++|++|.+++    +.+..+|...|..+++|++|++++|.++.+|.  .++.++
T Consensus        74 ~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~----n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~  149 (353)
T 2z80_A           74 RCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSY----NYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLT  149 (353)
T ss_dssp             TCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCS----SCCSSCCHHHHTTCTTCSEEECTTCCCSSSCSSCSCTTCT
T ss_pred             cCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCC----CcCCcCCHhHhCCCccCCEEECCCCCCcccCchhhhccCC
Confidence            457899999999999988776678899999999987    67778888877999999999999999999886  688999


Q ss_pred             CCcEeecCCCC-CCC--CcccCCCCCCCEEeecCCCCCCC
Q 040933          258 NLRTLSLCYCK-LLD--ISVTGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       258 ~L~~L~l~~~~-l~~--p~~i~~L~~L~~L~l~~~~l~~l  294 (298)
                      +|++|++++|. +..  |..++++++|++|++++|++..+
T Consensus       150 ~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~  189 (353)
T 2z80_A          150 KLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSY  189 (353)
T ss_dssp             TCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEE
T ss_pred             CCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCcc
Confidence            99999999985 666  56788999999999999887755

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

Probab=99.17  E-value=1e-10  Score=106.16  Aligned_cols=105  Identities=15%  Similarity=0.160  Sum_probs=69.4

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCc-cccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPS-SLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~-~i~~L~~  258 (298)
                      .+..++.+.+.+|.+..++...|..+++|+.|.+++    +.+..++...|..+++|++|++++|.++.+|. .+..+.+
T Consensus        62 ~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~----n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  137 (440)
T 3zyj_A           62 ISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSR----NHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSK  137 (440)
T ss_dssp             CCTTCSEEECCSCCCCEECTTTTSSCSSCCEEECCS----SCCCEECGGGGTTCSSCCEEECCSSCCSSCCTTTSCSCSS
T ss_pred             CCCCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCC----CcCCccChhhccCCccCCEEECCCCcCCeeCHhHhhcccc
Confidence            346677778887777777766667777777777776    45666666666777777777777777777654 4667777


Q ss_pred             CcEeecCCCCCCC-C-cccCCCCCCCEEeecC
Q 040933          259 LRTLSLCYCKLLD-I-SVTGELKKLEILCLRG  288 (298)
Q Consensus       259 L~~L~l~~~~l~~-p-~~i~~L~~L~~L~l~~  288 (298)
                      |++|++++|.+.. | ..+.++++|++|++++
T Consensus       138 L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~  169 (440)
T 3zyj_A          138 LKELWLRNNPIESIPSYAFNRIPSLRRLDLGE  169 (440)
T ss_dssp             CCEEECCSCCCCEECTTTTTTCTTCCEEECCC
T ss_pred             CceeeCCCCcccccCHHHhhhCcccCEeCCCC
Confidence            7777777776655 3 2344444444444444

>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=99.17  E-value=2.2e-10  Score=99.02  Aligned_cols=104  Identities=16%  Similarity=0.241  Sum_probs=56.3

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcE
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRT  261 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~  261 (298)
                      .+++.|.+.+|.+..++.  +..+++|+.|.+++    +.+..++.  +..+++|++|++++|.++.+|. ++.+.+|++
T Consensus        85 ~~L~~L~L~~n~l~~~~~--~~~l~~L~~L~l~~----n~l~~~~~--l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~  155 (308)
T 1h6u_A           85 TKITELELSGNPLKNVSA--IAGLQSIKTLDLTS----TQITDVTP--LAGLSNLQVLYLDLNQITNISP-LAGLTNLQY  155 (308)
T ss_dssp             CSCCEEECCSCCCSCCGG--GTTCTTCCEEECTT----SCCCCCGG--GTTCTTCCEEECCSSCCCCCGG-GGGCTTCCE
T ss_pred             CCCCEEEccCCcCCCchh--hcCCCCCCEEECCC----CCCCCchh--hcCCCCCCEEECCCCccCcCcc-ccCCCCccE
Confidence            444555555555444432  24455555555554    33344433  3555566666666665555543 556666666


Q ss_pred             eecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCC
Q 040933          262 LSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       262 L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      |++++|.+.. +. ++.+++|++|++++|++..+|
T Consensus       156 L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~~  189 (308)
T 1h6u_A          156 LSIGNAQVSDLTP-LANLSKLTTLKADDNKISDIS  189 (308)
T ss_dssp             EECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCG
T ss_pred             EEccCCcCCCChh-hcCCCCCCEEECCCCccCcCh
Confidence            6666666555 33 566666666666666655544

>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=99.17  E-value=1.5e-10  Score=100.85  Aligned_cols=110  Identities=16%  Similarity=0.273  Sum_probs=85.4

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~  258 (298)
                      ...+++.+.+.+|.+..+|...   .++|+.|.+.+    +.+..++...|..+++|++|++++|.++.++ ..++.+++
T Consensus       169 ~l~~L~~L~l~~n~l~~l~~~~---~~~L~~L~l~~----n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~  241 (330)
T 1xku_A          169 GMKKLSYIRIADTNITTIPQGL---PPSLTELHLDG----NKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPH  241 (330)
T ss_dssp             GCTTCCEEECCSSCCCSCCSSC---CTTCSEEECTT----SCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTT
T ss_pred             CCCCcCEEECCCCccccCCccc---cccCCEEECCC----CcCCccCHHHhcCCCCCCEEECCCCcCceeChhhccCCCC
Confidence            3467778888888887777642   27788888877    4566665555688888888888888888764 46888888


Q ss_pred             CcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          259 LRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       259 L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      |++|++++|.+.. |..++.+++|++|++++|++..+|.
T Consensus       242 L~~L~L~~N~l~~lp~~l~~l~~L~~L~l~~N~i~~~~~  280 (330)
T 1xku_A          242 LRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIGS  280 (330)
T ss_dssp             CCEEECCSSCCSSCCTTTTTCSSCCEEECCSSCCCCCCT
T ss_pred             CCEEECCCCcCccCChhhccCCCcCEEECCCCcCCccCh
Confidence            8888888888888 8888888888888888888888775

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

Probab=99.16  E-value=1.1e-10  Score=110.80  Aligned_cols=112  Identities=17%  Similarity=0.167  Sum_probs=85.4

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCC-------CCcEEecccccccccccccChHHH-hCCCCccEEEecCCCCCCCCccc
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECP-------QLKLFSVRADHQESSSLTIPNNFF-EKMIQVRVINLTYMNLLPLPSSL  253 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~-------~L~~L~l~~~~~~~~~~~lp~~~~-~~l~~Lr~L~l~~~~i~~lP~~i  253 (298)
                      ..++.+.+.+|.+..+|...+....       +|+.|.+++    +.+..+|..++ ..+++|+.|++++|.++.+|..+
T Consensus       457 ~~L~~L~Ls~N~l~~i~~~~~~~~~~~~~~l~~L~~L~Ls~----N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~~ip~~~  532 (636)
T 4eco_A          457 SPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRF----NKLTKLSDDFRATTLPYLVGIDLSYNSFSKFPTQP  532 (636)
T ss_dssp             CCCSEEECCSSCCSBCCSSSSEETTEECTTGGGCCEEECCS----SCCCBCCGGGSTTTCTTCCEEECCSSCCSSCCCGG
T ss_pred             CCCCEEECCCCCCCCcCHHHhccccccccccCCccEEECcC----CcCCccChhhhhccCCCcCEEECCCCCCCCcChhh
Confidence            4566666666666666655433322       777888776    45667887764 48889999999999988899889


Q ss_pred             cCCCCCcEeecC------CCCCCC--CcccCCCCCCCEEeecCCCCCCCCCC
Q 040933          254 GLLSNLRTLSLC------YCKLLD--ISVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       254 ~~L~~L~~L~l~------~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      +.+++|++|+++      +|.+..  |..++++++|++|++++|++..+|..
T Consensus       533 ~~l~~L~~L~Ls~N~~ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~ip~~  584 (636)
T 4eco_A          533 LNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSNDIRKVNEK  584 (636)
T ss_dssp             GGCSSCCEEECCSCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSCCCBCCSC
T ss_pred             hcCCCCCEEECCCCcccccCcccccChHHHhcCCCCCEEECCCCcCCccCHh
Confidence            999999999994      455444  88899999999999999988888875

>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=99.16  E-value=8.6e-11  Score=107.62  Aligned_cols=111  Identities=16%  Similarity=0.228  Sum_probs=71.4

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-CccccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~~L  259 (298)
                      ..+++.|.+.+|.+..+.+..|..+++|++|.+.+    +.+..+|...|..+++|++|++++|.+..+ |..++.+.+|
T Consensus        55 l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~----n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L  130 (477)
T 2id5_A           55 FPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRS----NRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNL  130 (477)
T ss_dssp             CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCS----SCCCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTC
T ss_pred             CCCCCEEECCCCccCEeChhhhhCCccCCEEECCC----CcCCccCcccccCCCCCCEEECCCCccccCChhHccccccC
Confidence            35666777777766666555556667777777665    455566666556667777777777666653 4556666666


Q ss_pred             cEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCC
Q 040933          260 RTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       260 ~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      ++|++++|.+..  |..++.+++|++|++++|++..+|
T Consensus       131 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~  168 (477)
T 2id5_A          131 KSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIP  168 (477)
T ss_dssp             CEEEECCTTCCEECTTSSTTCTTCCEEEEESCCCSSCC
T ss_pred             CEEECCCCccceeChhhccCCCCCCEEECCCCcCcccC
Confidence            666666666655  456666666666666666665554

>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=99.16  E-value=5.7e-11  Score=102.43  Aligned_cols=110  Identities=16%  Similarity=0.258  Sum_probs=81.9

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccc--cChHHHhCCCCccEEEecCCCCCCC-CccccCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLT--IPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLL  256 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~--lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L  256 (298)
                      ...+++.+.+.+|.+.......+..+++|+.|.+.+    +.+..  +|.. |..+++|++|++++|.++.+ |..++.+
T Consensus       124 ~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~----n~l~~~~~~~~-~~~l~~L~~L~Ls~n~l~~~~~~~~~~l  198 (306)
T 2z66_A          124 SLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAG----NSFQENFLPDI-FTELRNLTFLDLSQCQLEQLSPTAFNSL  198 (306)
T ss_dssp             TCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTT----CEEGGGEECSC-CTTCTTCCEEECTTSCCCEECTTTTTTC
T ss_pred             hccCCCEEECCCCcCCccchhhcccCcCCCEEECCC----CccccccchhH-HhhCcCCCEEECCCCCcCCcCHHHhcCC
Confidence            345677788877777766665567778888888877    33332  4444 47888888888888888875 6678888


Q ss_pred             CCCcEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCC
Q 040933          257 SNLRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       257 ~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~l  294 (298)
                      ++|++|++++|.+..  +..+..+++|++|++++|++...
T Consensus       199 ~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~  238 (306)
T 2z66_A          199 SSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTS  238 (306)
T ss_dssp             TTCCEEECTTSCCSBCCSGGGTTCTTCCEEECTTSCCCBC
T ss_pred             CCCCEEECCCCccCccChhhccCcccCCEeECCCCCCccc
Confidence            888888888888777  44678888888888888877654

>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=99.15  E-value=1.3e-10  Score=108.67  Aligned_cols=108  Identities=15%  Similarity=0.173  Sum_probs=95.5

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNL  259 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L  259 (298)
                      .+..++.+.+.+|.+..+++..+..+++|++|.+++    +.+..+++..|..+++|++|++++|.++.+|..  .+.+|
T Consensus        50 ~~~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~----N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L  123 (562)
T 3a79_B           50 LPPRTKALSLSQNSISELRMPDISFLSELRVLRLSH----NRIRSLDFHVFLFNQDLEYLDVSHNRLQNISCC--PMASL  123 (562)
T ss_dssp             SCTTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCS----CCCCEECTTTTTTCTTCCEEECTTSCCCEECSC--CCTTC
T ss_pred             CCCCcCEEECCCCCccccChhhhccCCCccEEECCC----CCCCcCCHHHhCCCCCCCEEECCCCcCCccCcc--ccccC
Confidence            347899999999999999877779999999999998    567777666679999999999999999999977  89999


Q ss_pred             cEeecCCCCCCC---CcccCCCCCCCEEeecCCCCCC
Q 040933          260 RTLSLCYCKLLD---ISVTGELKKLEILCLRGSDIQQ  293 (298)
Q Consensus       260 ~~L~l~~~~l~~---p~~i~~L~~L~~L~l~~~~l~~  293 (298)
                      ++|++++|.+..   |..++++++|++|++++|++..
T Consensus       124 ~~L~Ls~N~l~~l~~p~~~~~l~~L~~L~L~~n~l~~  160 (562)
T 3a79_B          124 RHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQ  160 (562)
T ss_dssp             SEEECCSSCCSBCCCCGGGGGCTTCCEEEEECSBCCT
T ss_pred             CEEECCCCCccccCchHhhcccCcccEEecCCCcccc
Confidence            999999999877   4789999999999999997764

>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=99.15  E-value=5.3e-11  Score=112.21  Aligned_cols=113  Identities=14%  Similarity=0.179  Sum_probs=99.8

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCc-cccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPS-SLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~-~i~~L~~  258 (298)
                      ....++.+.+.++.+..+|..++..+++|++|.+.+    +.+..+++..|..+++|++|++++|.+..+|+ .++.+++
T Consensus        49 ~l~~l~~l~l~~~~l~~lp~~~~~~l~~L~~L~L~~----n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  124 (597)
T 3oja_B           49 TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLND----LQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPL  124 (597)
T ss_dssp             GGCCCSEEEESSCEESEECTHHHHHCCCCSEEECTT----SCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             cCCCceEEEeeCCCCCCcCHHHHccCCCCcEEECCC----CCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCC
Confidence            346789999999999999988778899999999998    56777777667999999999999999999864 5799999


Q ss_pred             CcEeecCCCCCCC-Ccc-cCCCCCCCEEeecCCCCCCCCC
Q 040933          259 LRTLSLCYCKLLD-ISV-TGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       259 L~~L~l~~~~l~~-p~~-i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      |++|++++|.+.. |.. ++++++|++|++++|++..+|.
T Consensus       125 L~~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~  164 (597)
T 3oja_B          125 LTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIED  164 (597)
T ss_dssp             CCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCT
T ss_pred             CCEEEeeCCCCCCCCHHHhccCCCCCEEEeeCCcCCCCCh
Confidence            9999999999999 665 6899999999999999887764

>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=99.14  E-value=7.5e-11  Score=109.16  Aligned_cols=106  Identities=13%  Similarity=0.181  Sum_probs=91.9

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCc
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLR  260 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~  260 (298)
                      +.+++++.+++|.+..+++..+..+++|++|.+++    +.+..+++..|..+++|++|++++|.++.+|..  .+.+|+
T Consensus        20 ~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~----n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L~   93 (520)
T 2z7x_B           20 SQKTTILNISQNYISELWTSDILSLSKLRILIISH----NRIQYLDISVFKFNQELEYLDLSHNKLVKISCH--PTVNLK   93 (520)
T ss_dssp             CTTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCS----SCCCEEEGGGGTTCTTCCEEECCSSCCCEEECC--CCCCCS
T ss_pred             cccccEEECCCCcccccChhhccccccccEEecCC----CccCCcChHHhhcccCCCEEecCCCceeecCcc--ccCCcc
Confidence            37899999999999988866678899999999998    566677555669999999999999999999876  899999


Q ss_pred             EeecCCCCCCC---CcccCCCCCCCEEeecCCCCC
Q 040933          261 TLSLCYCKLLD---ISVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       261 ~L~l~~~~l~~---p~~i~~L~~L~~L~l~~~~l~  292 (298)
                      +|++++|.+..   |..++++++|++|++++|++.
T Consensus        94 ~L~L~~N~l~~~~~p~~~~~l~~L~~L~L~~n~l~  128 (520)
T 2z7x_B           94 HLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLE  128 (520)
T ss_dssp             EEECCSSCCSSCCCCGGGGGCTTCCEEEEEESSCC
T ss_pred             EEeccCCccccccchhhhccCCcceEEEecCcccc
Confidence            99999999775   688999999999999998765

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

Probab=99.14  E-value=2.1e-10  Score=112.10  Aligned_cols=114  Identities=15%  Similarity=0.208  Sum_probs=92.9

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCC-------CCCcEEecccccccccccccChHHH-hCCCCccEEEecCCCCCCCCcc
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPEC-------PQLKLFSVRADHQESSSLTIPNNFF-EKMIQVRVINLTYMNLLPLPSS  252 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~-------~~L~~L~l~~~~~~~~~~~lp~~~~-~~l~~Lr~L~l~~~~i~~lP~~  252 (298)
                      ...++.|.+.+|.+..+|..++...       ++|+.|.+++    +.+..+|..++ ..+++|+.|++++|.++.+|..
T Consensus       696 l~~L~~L~Ls~N~L~~ip~~~~~~~~~~l~nl~~L~~L~Ls~----N~L~~lp~~l~~~~l~~L~~L~Ls~N~L~~lp~~  771 (876)
T 4ecn_A          696 GSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRF----NKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQ  771 (876)
T ss_dssp             TCCCSEEECCSCCCSCCCTTSSSCTTSCCTTGGGCCEEECCS----SCCCCCCGGGSTTTCTTCCEEECCSSCCSSCCCG
T ss_pred             CCCCCEEECCCCcCCccChHHhccccccccccCCccEEECCC----CCCccchHHhhhccCCCcCEEEeCCCCCCccchh
Confidence            3567888888888887777654433       3888999887    56668888763 4899999999999999999999


Q ss_pred             ccCCCCCcEeecCC------CCCCC--CcccCCCCCCCEEeecCCCCCCCCCCC
Q 040933          253 LGLLSNLRTLSLCY------CKLLD--ISVTGELKKLEILCLRGSDIQQLPVEL  298 (298)
Q Consensus       253 i~~L~~L~~L~l~~------~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP~~i  298 (298)
                      ++.+++|+.|++++      |.+..  |..++++++|+.|++++|++..+|..+
T Consensus       772 l~~L~~L~~L~Ls~N~~ls~N~l~~~ip~~l~~L~~L~~L~Ls~N~L~~Ip~~l  825 (876)
T 4ecn_A          772 PLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSNDIRKVDEKL  825 (876)
T ss_dssp             GGGCTTCCEEECCCCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSCCCBCCSCC
T ss_pred             hhcCCCCCEEECCCCCCcccccccccChHHHhcCCCCCEEECCCCCCCccCHhh
Confidence            99999999999976      66554  889999999999999999998898753

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

Probab=99.14  E-value=4e-11  Score=104.11  Aligned_cols=111  Identities=15%  Similarity=0.125  Sum_probs=71.6

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccC-hHHHhCCCCccEEEecCCCCCCCCccccCCCCCc
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIP-NNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLR  260 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp-~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~  260 (298)
                      ..++.+.+.+|.+..+++..+..+++|+.|.+++    +.+..++ ..++..+++|++|++++|.++.+|. ...+.+|+
T Consensus       120 ~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~----N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~-~~~l~~L~  194 (317)
T 3o53_A          120 QGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKL----NEIDTVNFAELAASSDTLEHLNLQYNFIYDVKG-QVVFAKLK  194 (317)
T ss_dssp             SSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTT----SCCCEEEGGGGGGGTTTCCEEECTTSCCCEEEC-CCCCTTCC
T ss_pred             CCCCEEECCCCCCCCccchhhhccCCCCEEECCC----CCCCcccHHHHhhccCcCCEEECCCCcCccccc-ccccccCC
Confidence            4567777777777766655456667777777776    3444433 3333466777777777777766653 33466777


Q ss_pred             EeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCCCC
Q 040933          261 TLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       261 ~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      +|++++|.++. |..++.+++|++|++++|++..+|..
T Consensus       195 ~L~Ls~N~l~~l~~~~~~l~~L~~L~L~~N~l~~l~~~  232 (317)
T 3o53_A          195 TLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIEKA  232 (317)
T ss_dssp             EEECCSSCCCEECGGGGGGTTCSEEECTTSCCCEECTT
T ss_pred             EEECCCCcCCcchhhhcccCcccEEECcCCcccchhhH
Confidence            77777777766 66677777777777777766666643

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

Probab=99.14  E-value=1.7e-10  Score=97.54  Aligned_cols=111  Identities=24%  Similarity=0.217  Sum_probs=82.7

Q ss_pred             CCCchhhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccc
Q 040933          174 EWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSL  253 (298)
Q Consensus       174 ~~~~~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i  253 (298)
                      ..+.......++.|.+.+|.+..++.  +..+++|+.|.+++    +.+..+|..  .. ++|++|++++|.++.+| .+
T Consensus        55 ~l~~l~~l~~L~~L~L~~N~i~~~~~--l~~l~~L~~L~L~~----N~l~~l~~~--~~-~~L~~L~L~~N~l~~~~-~l  124 (263)
T 1xeu_A           55 SLAGMQFFTNLKELHLSHNQISDLSP--LKDLTKLEELSVNR----NRLKNLNGI--PS-ACLSRLFLDNNELRDTD-SL  124 (263)
T ss_dssp             CCTTGGGCTTCCEEECCSSCCCCCGG--GTTCSSCCEEECCS----SCCSCCTTC--CC-SSCCEEECCSSCCSBSG-GG
T ss_pred             cchHHhhCCCCCEEECCCCccCCChh--hccCCCCCEEECCC----CccCCcCcc--cc-CcccEEEccCCccCCCh-hh
Confidence            33444456678888888888877776  47788888888887    556666652  23 77888888888888775 58


Q ss_pred             cCCCCCcEeecCCCCCCCCcccCCCCCCCEEeecCCCCCCC
Q 040933          254 GLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       254 ~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~l~~l  294 (298)
                      +.+.+|++|++++|.++..+.++.+++|++|++++|++..+
T Consensus       125 ~~l~~L~~L~Ls~N~i~~~~~l~~l~~L~~L~L~~N~i~~~  165 (263)
T 1xeu_A          125 IHLKNLEILSIRNNKLKSIVMLGFLSKLEVLDLHGNEITNT  165 (263)
T ss_dssp             TTCTTCCEEECTTSCCCBCGGGGGCTTCCEEECTTSCCCBC
T ss_pred             cCcccccEEECCCCcCCCChHHccCCCCCEEECCCCcCcch
Confidence            88888888888888887733688888888888888877655

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

Probab=99.14  E-value=5.3e-11  Score=91.52  Aligned_cols=104  Identities=19%  Similarity=0.190  Sum_probs=88.3

Q ss_pred             hhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC--ccccCC
Q 040933          179 NAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP--SSLGLL  256 (298)
Q Consensus       179 ~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP--~~i~~L  256 (298)
                      ....+++.+.+.+|.+..+  ..+..+++|++|.+++    +.+....+..+..+++|++|++++|.++.+|  ..++.+
T Consensus        39 ~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~----n~i~~~~~~~~~~l~~L~~L~ls~N~i~~~~~~~~~~~l  112 (149)
T 2je0_A           39 DEFEELEFLSTINVGLTSI--ANLPKLNKLKKLELSD----NRVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEPLKKL  112 (149)
T ss_dssp             TTCTTCCEEECTTSCCCCC--TTCCCCTTCCEEECCS----SCCCSCTHHHHHHCTTCCEEECTTSCCCSHHHHGGGGGC
T ss_pred             hhcCCCcEEECcCCCCCCc--hhhhcCCCCCEEECCC----CcccchHHHHhhhCCCCCEEECCCCcCCChHHHHHHhhC
Confidence            3457899999999999888  3358899999999998    5566534445588999999999999999975  889999


Q ss_pred             CCCcEeecCCCCCCC-Cc----ccCCCCCCCEEeecC
Q 040933          257 SNLRTLSLCYCKLLD-IS----VTGELKKLEILCLRG  288 (298)
Q Consensus       257 ~~L~~L~l~~~~l~~-p~----~i~~L~~L~~L~l~~  288 (298)
                      ++|++|++++|.++. |.    .++.+++|++|++++
T Consensus       113 ~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~d  149 (149)
T 2je0_A          113 ENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDGYD  149 (149)
T ss_dssp             TTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETTBC
T ss_pred             CCCCEEeCcCCcccchHHHHHHHHHHCCCcccccCCC
Confidence            999999999999888 54    689999999999863

>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=99.13  E-value=1.3e-10  Score=100.10  Aligned_cols=111  Identities=18%  Similarity=0.169  Sum_probs=85.8

Q ss_pred             hhccCccEEEEeCCCCccCCCCcCCCCCCCcEEeccccccccccccc---ChHHHhCCCCccEEEecCCCCCCCCccccC
Q 040933          179 NAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTI---PNNFFEKMIQVRVINLTYMNLLPLPSSLGL  255 (298)
Q Consensus       179 ~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l---p~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~  255 (298)
                      ..+.+++++.+.+|.+..++..++..+++|+.|.+.+    +.+..+   +..+ ..+++|++|++++|.+..+|..+..
T Consensus        25 ~~~~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~----n~l~~~~~~~~~~-~~~~~L~~L~Ls~n~i~~l~~~~~~   99 (306)
T 2z66_A           25 GIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSS----NGLSFKGCCSQSD-FGTTSLKYLDLSFNGVITMSSNFLG   99 (306)
T ss_dssp             CCCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCS----SCCCEEEEEEHHH-HSCSCCCEEECCSCSEEEEEEEEET
T ss_pred             CCCCCCCEEECCCCccCccCHhHhhccccCCEEECCC----CccCcccCccccc-ccccccCEEECCCCccccChhhcCC
Confidence            3457899999999999999988778999999999988    444433   4444 6788888888888888888777888


Q ss_pred             CCCCcEeecCCCCCCC-C--cccCCCCCCCEEeecCCCCCCC
Q 040933          256 LSNLRTLSLCYCKLLD-I--SVTGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       256 L~~L~~L~l~~~~l~~-p--~~i~~L~~L~~L~l~~~~l~~l  294 (298)
                      +++|++|++++|.+.. +  ..+.++++|++|++++|.+...
T Consensus       100 l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~  141 (306)
T 2z66_A          100 LEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVA  141 (306)
T ss_dssp             CTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEEC
T ss_pred             CCCCCEEECCCCcccccccchhhhhccCCCEEECCCCcCCcc
Confidence            8888888888887666 3  4677777788888777765543

>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=99.13  E-value=3.7e-10  Score=96.87  Aligned_cols=105  Identities=20%  Similarity=0.285  Sum_probs=51.5

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCc
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLR  260 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~  260 (298)
                      ..+++.|.+.+|.+..++.  +..+++|+.|.+.+    +.+..++.  +..+++|++|++++|.+..+| .++.+++|+
T Consensus        67 l~~L~~L~L~~n~l~~~~~--l~~l~~L~~L~l~~----n~l~~~~~--l~~l~~L~~L~L~~n~i~~~~-~l~~l~~L~  137 (291)
T 1h6t_A           67 LPNVTKLFLNGNKLTDIKP--LANLKNLGWLFLDE----NKVKDLSS--LKDLKKLKSLSLEHNGISDIN-GLVHLPQLE  137 (291)
T ss_dssp             CTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCS----SCCCCGGG--GTTCTTCCEEECTTSCCCCCG-GGGGCTTCC
T ss_pred             CCCCCEEEccCCccCCCcc--cccCCCCCEEECCC----CcCCCChh--hccCCCCCEEECCCCcCCCCh-hhcCCCCCC
Confidence            3445555555555544443  24555555555554    23333333  345555555555555555443 445555555


Q ss_pred             EeecCCCCCCCCcccCCCCCCCEEeecCCCCCCC
Q 040933          261 TLSLCYCKLLDISVTGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       261 ~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~l~~l  294 (298)
                      +|++++|.++....++.+++|++|++++|++..+
T Consensus       138 ~L~l~~n~l~~~~~l~~l~~L~~L~L~~N~l~~~  171 (291)
T 1h6t_A          138 SLYLGNNKITDITVLSRLTKLDTLSLEDNQISDI  171 (291)
T ss_dssp             EEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCC
T ss_pred             EEEccCCcCCcchhhccCCCCCEEEccCCccccc
Confidence            5555555544433445555555555555544443

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

Probab=99.13  E-value=6.5e-11  Score=102.40  Aligned_cols=113  Identities=15%  Similarity=0.151  Sum_probs=62.4

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccc------------------------cccccccChH---HHhCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQ------------------------ESSSLTIPNN---FFEKM  233 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~------------------------~~~~~~lp~~---~~~~l  233 (298)
                      ..+++.+.+.+|.+..++...+..+++|++|+++++.-                        .+.+..++..   ++..+
T Consensus       144 ~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l  223 (310)
T 4glp_A          144 KPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGMETPTGVCAALAAAG  223 (310)
T ss_dssp             CSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHHHHHHHHHHHT
T ss_pred             ccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCCchHHHHHHHHhcC
Confidence            45777888888887777766566777777777776210                        0111111111   23445


Q ss_pred             CCccEEEecCCCCCCC-CccccCC---CCCcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCC
Q 040933          234 IQVRVINLTYMNLLPL-PSSLGLL---SNLRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       234 ~~Lr~L~l~~~~i~~l-P~~i~~L---~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      ++|++|++++|.+... |..++.+   ++|++|++++|.++. |..+.  ++|++|++++|++..+|
T Consensus       224 ~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~--~~L~~L~Ls~N~l~~~~  288 (310)
T 4glp_A          224 VQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFAGLEQVPKGLP--AKLRVLDLSSNRLNRAP  288 (310)
T ss_dssp             CCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSSCCCSCCSCCC--SCCSCEECCSCCCCSCC
T ss_pred             CCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCCCCCchhhhhc--CCCCEEECCCCcCCCCc
Confidence            5555555555555553 5555544   355555555555555 54443  45555555555555543

>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=99.12  E-value=4.6e-10  Score=97.05  Aligned_cols=107  Identities=18%  Similarity=0.232  Sum_probs=63.8

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNL  259 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L  259 (298)
                      ...+++.|.+.+|.+..++.  +..+++|+.|.+.+    +.+..++.  +..+++|++|++++|.++.+|. ++.+.+|
T Consensus       105 ~l~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~l~~----n~l~~~~~--l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L  175 (308)
T 1h6u_A          105 GLQSIKTLDLTSTQITDVTP--LAGLSNLQVLYLDL----NQITNISP--LAGLTNLQYLSIGNAQVSDLTP-LANLSKL  175 (308)
T ss_dssp             TCTTCCEEECTTSCCCCCGG--GTTCTTCCEEECCS----SCCCCCGG--GGGCTTCCEEECCSSCCCCCGG-GTTCTTC
T ss_pred             CCCCCCEEECCCCCCCCchh--hcCCCCCCEEECCC----CccCcCcc--ccCCCCccEEEccCCcCCCChh-hcCCCCC
Confidence            34556666666666665554  35666666666665    34444444  4566666666666666666654 6666666


Q ss_pred             cEeecCCCCCCCCcccCCCCCCCEEeecCCCCCCCC
Q 040933          260 RTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       260 ~~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      ++|++++|.++....+..+++|++|++++|++..+|
T Consensus       176 ~~L~l~~n~l~~~~~l~~l~~L~~L~L~~N~l~~~~  211 (308)
T 1h6u_A          176 TTLKADDNKISDISPLASLPNLIEVHLKNNQISDVS  211 (308)
T ss_dssp             CEEECCSSCCCCCGGGGGCTTCCEEECTTSCCCBCG
T ss_pred             CEEECCCCccCcChhhcCCCCCCEEEccCCccCccc
Confidence            666666666665222566666666666666655443

>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=99.12  E-value=3.5e-10  Score=98.55  Aligned_cols=111  Identities=16%  Similarity=0.200  Sum_probs=66.8

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc---------
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS---------  252 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~---------  252 (298)
                      ..++.+.+.+|.+..++...+..+++|++|.+.+    +.+..+++..|..+++|++|++++|.++.+|..         
T Consensus        52 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~----n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~~~L~~L~  127 (330)
T 1xku_A           52 PDTALLDLQNNKITEIKDGDFKNLKNLHTLILIN----NKISKISPGAFAPLVKLERLYLSKNQLKELPEKMPKTLQELR  127 (330)
T ss_dssp             TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS----SCCCCBCTTTTTTCTTCCEEECCSSCCSBCCSSCCTTCCEEE
T ss_pred             CCCeEEECCCCcCCEeChhhhccCCCCCEEECCC----CcCCeeCHHHhcCCCCCCEEECCCCcCCccChhhcccccEEE
Confidence            4566666666666666655456666666666665    344444333346666666666666665555433         


Q ss_pred             -------------ccCCCCCcEeecCCCCCCC----CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          253 -------------LGLLSNLRTLSLCYCKLLD----ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       253 -------------i~~L~~L~~L~l~~~~l~~----p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                                   ++.+.+|++|++++|.+..    |..++++++|++|++++|++..+|.
T Consensus       128 l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~  188 (330)
T 1xku_A          128 VHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQ  188 (330)
T ss_dssp             CCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCS
T ss_pred             CCCCcccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCccccCCc
Confidence                         4555666666666666542    4556667777777777776666664

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

Probab=99.12  E-value=3.4e-10  Score=98.78  Aligned_cols=106  Identities=14%  Similarity=0.194  Sum_probs=85.2

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCc
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLR  260 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~  260 (298)
                      +..++.+.+.+|.+..+++..+..+++|++|.+.+    +.+..+++..|..+++|++|++++|.++.+|..+.  .+|+
T Consensus        53 ~~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~----n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~--~~L~  126 (332)
T 2ft3_A           53 SPDTTLLDLQNNDISELRKDDFKGLQHLYALVLVN----NKISKIHEKAFSPLRKLQKLYISKNHLVEIPPNLP--SSLV  126 (332)
T ss_dssp             CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS----SCCCEECGGGSTTCTTCCEEECCSSCCCSCCSSCC--TTCC
T ss_pred             CCCCeEEECCCCcCCccCHhHhhCCCCCcEEECCC----CccCccCHhHhhCcCCCCEEECCCCcCCccCcccc--ccCC
Confidence            46788999999998888776678889999999987    55666655556889999999999998888887766  6788


Q ss_pred             EeecCCCCCCC-C-cccCCCCCCCEEeecCCCCC
Q 040933          261 TLSLCYCKLLD-I-SVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       261 ~L~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~l~  292 (298)
                      +|++++|.+.. | ..++++++|++|++++|.+.
T Consensus       127 ~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~  160 (332)
T 2ft3_A          127 ELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLE  160 (332)
T ss_dssp             EEECCSSCCCCCCSGGGSSCSSCCEEECCSCCCB
T ss_pred             EEECCCCccCccCHhHhCCCccCCEEECCCCccc
Confidence            88888888777 4 45778888888888887664

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

Probab=99.12  E-value=5.2e-11  Score=109.56  Aligned_cols=112  Identities=14%  Similarity=0.100  Sum_probs=76.3

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcE
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRT  261 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~  261 (298)
                      ..++.|.+.+|.+..+++..+..+++|+.|++++   +......|..++..+++|++|++++|.++.+|. ...+++|++
T Consensus       120 ~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~---N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~~~~~-~~~l~~L~~  195 (487)
T 3oja_A          120 QGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKL---NEIDTVNFAELAASSDTLEHLNLQYNFIYDVKG-QVVFAKLKT  195 (487)
T ss_dssp             SSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTT---SCCCEEEGGGGGGGTTTCCEEECTTSCCCEEEC-CCCCTTCCE
T ss_pred             CCCCEEECCCCCCCCCCchhhcCCCCCCEEECCC---CCCCCcChHHHhhhCCcccEEecCCCccccccc-cccCCCCCE
Confidence            4677777777777776555456677778887777   332233444443467777777777777777653 345777777


Q ss_pred             eecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCCCC
Q 040933          262 LSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       262 L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      |++++|.++. |+.++.+++|+.|++++|++..+|..
T Consensus       196 L~Ls~N~l~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~  232 (487)
T 3oja_A          196 LDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIEKA  232 (487)
T ss_dssp             EECCSSCCCEECGGGGGGTTCSEEECTTSCCCEECTT
T ss_pred             EECCCCCCCCCCHhHcCCCCccEEEecCCcCcccchh
Confidence            7777777777 66677777777777777777766653

>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=99.11  E-value=1.9e-10  Score=109.90  Aligned_cols=111  Identities=19%  Similarity=0.204  Sum_probs=70.9

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L  259 (298)
                      ..+++.+.+.+|.+..+++..+..+++|++|.+.+    +.+..+|...|..+++|++|++++|.+..+| ..++.+.+|
T Consensus        48 l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~----n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  123 (680)
T 1ziw_A           48 YSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQH----NELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNL  123 (680)
T ss_dssp             GTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCS----SCCCCCCTTTTTTCTTCSEEECCSSCCCCCCSCTTTTCTTC
T ss_pred             CCcCcEEECCCCccCccCHHHHhcccCcCEEECCC----CccCccChhhhccCCCCCEEECCCCccCccChhHccccCCC
Confidence            35666677766666666555555666677776665    4555666655566667777777776666654 456666677


Q ss_pred             cEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCC
Q 040933          260 RTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       260 ~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      ++|++++|.+..  |..++++++|++|++++|++..+|
T Consensus       124 ~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~  161 (680)
T 1ziw_A          124 ITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALK  161 (680)
T ss_dssp             CEEECCSSCCSCCCCCSSSCCTTCCEEECCSSCCCCBC
T ss_pred             CEEECCCCcccccCchhhcccccCCEEEccCCcccccC
Confidence            777777666555  455666666666666666655543

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

Probab=99.08  E-value=3.6e-10  Score=97.84  Aligned_cols=113  Identities=13%  Similarity=0.094  Sum_probs=73.7

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccc--cChHH-HhCCCCccEEEecCCCCCCCC----cccc
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLT--IPNNF-FEKMIQVRVINLTYMNLLPLP----SSLG  254 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~--lp~~~-~~~l~~Lr~L~l~~~~i~~lP----~~i~  254 (298)
                      .+++.+.+.+|.+..++...+..+++|+.|++++   +.....  +|..+ |..+++|++|++++|.++.+|    ..+.
T Consensus       149 ~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~---N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~  225 (312)
T 1wwl_A          149 PGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSD---NPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAA  225 (312)
T ss_dssp             TTCCEEEEESCSCCCCCTTTCCCCSSCCEEECCS---CTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHH
T ss_pred             CCCcEEEeeCCCCccchHHHhccCCCCCEEECCC---CCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHh
Confidence            6788888888888887766667888888888887   332221  12221 256677777777777776433    1224


Q ss_pred             CCCCCcEeecCCCCCCC-C--cccCCCCCCCEEeecCCCCCCCCCC
Q 040933          255 LLSNLRTLSLCYCKLLD-I--SVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       255 ~L~~L~~L~l~~~~l~~-p--~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      .+++|++|++++|.+.. +  ..+..+++|++|++++|++..+|..
T Consensus       226 ~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~Ls~N~l~~ip~~  271 (312)
T 1wwl_A          226 ARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSFTGLKQVPKG  271 (312)
T ss_dssp             TTCCCSEEECTTSCCCSSCCCSCCCCCTTCCEEECTTSCCSSCCSS
T ss_pred             cCCCCCEEECCCCcCCcccchhhhhhcCCCCEEECCCCccChhhhh
Confidence            56677777777777666 3  3455567777777777777777654

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

Probab=99.08  E-value=6.9e-10  Score=93.72  Aligned_cols=108  Identities=16%  Similarity=0.203  Sum_probs=86.3

Q ss_pred             hhhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCC
Q 040933          178 ENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLS  257 (298)
Q Consensus       178 ~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~  257 (298)
                      .....+++.+.+.+|.+..++..  .. ++|+.|.+.+    +.+..++.  +..+++|++|++++|+++.+| .++.+.
T Consensus        81 l~~l~~L~~L~L~~N~l~~l~~~--~~-~~L~~L~L~~----N~l~~~~~--l~~l~~L~~L~Ls~N~i~~~~-~l~~l~  150 (263)
T 1xeu_A           81 LKDLTKLEELSVNRNRLKNLNGI--PS-ACLSRLFLDN----NELRDTDS--LIHLKNLEILSIRNNKLKSIV-MLGFLS  150 (263)
T ss_dssp             GTTCSSCCEEECCSSCCSCCTTC--CC-SSCCEEECCS----SCCSBSGG--GTTCTTCCEEECTTSCCCBCG-GGGGCT
T ss_pred             hccCCCCCEEECCCCccCCcCcc--cc-CcccEEEccC----CccCCChh--hcCcccccEEECCCCcCCCCh-HHccCC
Confidence            44567788889999888888765  33 8888998887    55666653  588889999999999888886 788888


Q ss_pred             CCcEeecCCCCCCCCcccCCCCCCCEEeecCCCCCCCC
Q 040933          258 NLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       258 ~L~~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      +|++|++++|.+.....+..+++|++|++++|.+...|
T Consensus       151 ~L~~L~L~~N~i~~~~~l~~l~~L~~L~l~~N~~~~~~  188 (263)
T 1xeu_A          151 KLEVLDLHGNEITNTGGLTRLKKVNWIDLTGQKCVNEP  188 (263)
T ss_dssp             TCCEEECTTSCCCBCTTSTTCCCCCEEEEEEEEEECCC
T ss_pred             CCCEEECCCCcCcchHHhccCCCCCEEeCCCCcccCCc
Confidence            89999999988877667888888999999888766555

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

Probab=99.08  E-value=9.4e-11  Score=101.62  Aligned_cols=109  Identities=13%  Similarity=0.193  Sum_probs=65.5

Q ss_pred             hccCccEEEEeC-CCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCC-CCCccccCCC
Q 040933          180 AVKLYTSIVLRD-IKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLL-PLPSSLGLLS  257 (298)
Q Consensus       180 ~~~~~~~l~l~~-~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~-~lP~~i~~L~  257 (298)
                      ....++.+.+.+ |.+....+..+..+++|++|.+.+   +.....+|..+ ..+++|++|++++|.+. .+|..++.++
T Consensus        74 ~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~---n~l~~~~p~~~-~~l~~L~~L~Ls~N~l~~~~p~~~~~l~  149 (313)
T 1ogq_A           74 NLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITH---TNVSGAIPDFL-SQIKTLVTLDFSYNALSGTLPPSISSLP  149 (313)
T ss_dssp             GCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEE---ECCEEECCGGG-GGCTTCCEEECCSSEEESCCCGGGGGCT
T ss_pred             CCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcC---CeeCCcCCHHH-hCCCCCCEEeCCCCccCCcCChHHhcCC
Confidence            345666677763 555432222246666777777666   22222455443 66667777777776666 3566666666


Q ss_pred             CCcEeecCCCCCCC--CcccCCCC-CCCEEeecCCCCC
Q 040933          258 NLRTLSLCYCKLLD--ISVTGELK-KLEILCLRGSDIQ  292 (298)
Q Consensus       258 ~L~~L~l~~~~l~~--p~~i~~L~-~L~~L~l~~~~l~  292 (298)
                      +|++|++++|.+..  |..++++. +|++|++++|++.
T Consensus       150 ~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~  187 (313)
T 1ogq_A          150 NLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLT  187 (313)
T ss_dssp             TCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEE
T ss_pred             CCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeee
Confidence            77777777766653  66666666 6666666666554

>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=99.07  E-value=1e-09  Score=103.36  Aligned_cols=108  Identities=24%  Similarity=0.268  Sum_probs=67.0

Q ss_pred             hhhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCC
Q 040933          178 ENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLS  257 (298)
Q Consensus       178 ~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~  257 (298)
                      ......++.|.+.+|.+..++.  +..+++|+.|.+++    +.+..++.  +..+++|+.|+|++|.+..+ ..++.+.
T Consensus        83 l~~l~~L~~L~Ls~N~l~~l~~--l~~l~~L~~L~Ls~----N~l~~l~~--l~~l~~L~~L~Ls~N~l~~l-~~l~~l~  153 (605)
T 1m9s_A           83 LTNLKNLGWLFLDENKIKDLSS--LKDLKKLKSLSLEH----NGISDING--LVHLPQLESLYLGNNKITDI-TVLSRLT  153 (605)
T ss_dssp             GGGCTTCCEEECCSSCCCCCTT--STTCTTCCEEECTT----SCCCCCGG--GGGCTTCSEEECCSSCCCCC-GGGGSCT
T ss_pred             hccCCCCCEEECcCCCCCCChh--hccCCCCCEEEecC----CCCCCCcc--ccCCCccCEEECCCCccCCc-hhhcccC
Confidence            3445567777777777766653  36677777777766    34444433  46666666666666666666 3566666


Q ss_pred             CCcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCC
Q 040933          258 NLRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       258 ~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      +|+.|+|++|.+.. ++ ++.+++|+.|+|++|++..+|
T Consensus       154 ~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N~i~~l~  191 (605)
T 1m9s_A          154 KLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNHISDLR  191 (605)
T ss_dssp             TCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCBCG
T ss_pred             CCCEEECcCCcCCCchh-hccCCCCCEEECcCCCCCCCh
Confidence            66666666666666 33 666666666666666555543

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

Probab=99.06  E-value=5.8e-10  Score=88.21  Aligned_cols=94  Identities=16%  Similarity=0.148  Sum_probs=83.7

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~  258 (298)
                      .+..++.|.+.+|.+..+++..+..+++|+.|++++    +.+..+|...|..+++|++|++++|.++.+|.. ++.+.+
T Consensus        31 ~~~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~----N~l~~i~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~  106 (174)
T 2r9u_A           31 IPTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNS----NKLTAIPTGVFDKLTQLTQLDLNDNHLKSIPRGAFDNLKS  106 (174)
T ss_dssp             CCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS----SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             cCCCCcEEEeCCCCccccCHHHhcCCcCCCEEECCC----CCCCccChhHhCCcchhhEEECCCCccceeCHHHhccccC
Confidence            357899999999999999887789999999999998    678889998889999999999999999999865 999999


Q ss_pred             CcEeecCCCCCCC-CcccCC
Q 040933          259 LRTLSLCYCKLLD-ISVTGE  277 (298)
Q Consensus       259 L~~L~l~~~~l~~-p~~i~~  277 (298)
                      |++|++++|++.. +..+..
T Consensus       107 L~~L~L~~N~~~c~~~~~~~  126 (174)
T 2r9u_A          107 LTHIYLYNNPWDCECRDIMY  126 (174)
T ss_dssp             CSEEECCSSCBCTTBGGGHH
T ss_pred             CCEEEeCCCCcccccccHHH
Confidence            9999999999887 654433

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

Probab=99.06  E-value=1.8e-10  Score=100.53  Aligned_cols=65  Identities=23%  Similarity=0.266  Sum_probs=30.9

Q ss_pred             hCCCCccEEEecCCCCCCCC-ccccCCCCCcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCC
Q 040933          231 EKMIQVRVINLTYMNLLPLP-SSLGLLSNLRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       231 ~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      ..+++|++|++++|.+..+| ..++.+++|++|++++|.+.. |..++.+++|++|++++|++..+|
T Consensus       214 ~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~L~~L~l~~N~l~~~~  280 (332)
T 2ft3_A          214 LRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNKLSRVPAGLPDLKLLQVVYLHTNNITKVG  280 (332)
T ss_dssp             TTCTTCSCCBCCSSCCCCCCTTGGGGCTTCCEEECCSSCCCBCCTTGGGCTTCCEEECCSSCCCBCC
T ss_pred             cCCCCCCEEECCCCcCCcCChhHhhCCCCCCEEECCCCcCeecChhhhcCccCCEEECCCCCCCccC
Confidence            44444445555444444433 234444445555555444444 444444445555555444444443

>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=99.06  E-value=4.9e-10  Score=103.67  Aligned_cols=101  Identities=13%  Similarity=0.077  Sum_probs=90.0

Q ss_pred             cEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-CccccCCCCCcEee
Q 040933          185 TSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLLSNLRTLS  263 (298)
Q Consensus       185 ~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~~L~~L~  263 (298)
                      +.+.++++.+..+|..+.   ++++.|.+++    +.+..+++..|..+++|++|++++|.++.+ |..++.+++|++|+
T Consensus         3 ~~l~ls~n~l~~ip~~~~---~~L~~L~Ls~----n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~   75 (520)
T 2z7x_B            3 FLVDRSKNGLIHVPKDLS---QKTTILNISQ----NYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLD   75 (520)
T ss_dssp             CEEECTTSCCSSCCCSCC---TTCSEEECCS----SCCCCCCHHHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEE
T ss_pred             ceEecCCCCccccccccc---ccccEEECCC----CcccccChhhccccccccEEecCCCccCCcChHHhhcccCCCEEe
Confidence            578889999999997632   8999999998    667788877779999999999999999997 78999999999999


Q ss_pred             cCCCCCCC-CcccCCCCCCCEEeecCCCCCCC
Q 040933          264 LCYCKLLD-ISVTGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       264 l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~l  294 (298)
                      +++|.++. |..  .+++|++|++++|++..+
T Consensus        76 Ls~N~l~~lp~~--~l~~L~~L~L~~N~l~~~  105 (520)
T 2z7x_B           76 LSHNKLVKISCH--PTVNLKHLDLSFNAFDAL  105 (520)
T ss_dssp             CCSSCCCEEECC--CCCCCSEEECCSSCCSSC
T ss_pred             cCCCceeecCcc--ccCCccEEeccCCccccc
Confidence            99999999 766  899999999999998864

>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=99.05  E-value=1.9e-09  Score=94.41  Aligned_cols=110  Identities=15%  Similarity=0.196  Sum_probs=68.8

Q ss_pred             CchhhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccC
Q 040933          176 SDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGL  255 (298)
Q Consensus       176 ~~~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~  255 (298)
                      +......+++.+.+.+|.+..++.  +..+++|++|.+.+    +.+..++.  |..+++|++|++++|.+..+|. +..
T Consensus        60 ~~~~~~~~L~~L~l~~n~i~~~~~--~~~l~~L~~L~L~~----n~i~~~~~--~~~l~~L~~L~l~~n~i~~~~~-~~~  130 (347)
T 4fmz_A           60 QGIEYLTNLEYLNLNGNQITDISP--LSNLVKLTNLYIGT----NKITDISA--LQNLTNLRELYLNEDNISDISP-LAN  130 (347)
T ss_dssp             TTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCS----SCCCCCGG--GTTCTTCSEEECTTSCCCCCGG-GTT
T ss_pred             hhhhhcCCccEEEccCCccccchh--hhcCCcCCEEEccC----CcccCchH--HcCCCcCCEEECcCCcccCchh-hcc
Confidence            333445677777777777776665  36777777777776    34445543  4677777777777777766664 666


Q ss_pred             CCCCcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCC
Q 040933          256 LSNLRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       256 L~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~l  294 (298)
                      +++|++|++++|.... +..++.+++|++|++++|.+..+
T Consensus       131 l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~~~~~  170 (347)
T 4fmz_A          131 LTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDV  170 (347)
T ss_dssp             CTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSSCCCCC
T ss_pred             CCceeEEECCCCCCcccccchhhCCCCcEEEecCCCcCCc
Confidence            6666666666665333 44455666666666655554443

>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=99.05  E-value=4.3e-10  Score=104.67  Aligned_cols=113  Identities=14%  Similarity=0.200  Sum_probs=98.8

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCC--CCccccCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLP--LPSSLGLLS  257 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~--lP~~i~~L~  257 (298)
                      ...+++.+.+.+|.+..+++..+..+++|++|++++    +.+..+++..|..+++|++|++++|.++.  .|..++.++
T Consensus        48 ~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~----n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~  123 (549)
T 2z81_A           48 ACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSD----NHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLT  123 (549)
T ss_dssp             SCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTT----SCCCSCCHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTCT
T ss_pred             cCCcccEEECCCCCcCccChhhccccccCCEEECCC----CccCccCHHHhccCCCCcEEECCCCcccccchhhhhhccC
Confidence            457899999999999999877789999999999998    67788888877999999999999999985  477899999


Q ss_pred             CCcEeecCCCC-CCC-C-cccCCCCCCCEEeecCCCCCC-CCC
Q 040933          258 NLRTLSLCYCK-LLD-I-SVTGELKKLEILCLRGSDIQQ-LPV  296 (298)
Q Consensus       258 ~L~~L~l~~~~-l~~-p-~~i~~L~~L~~L~l~~~~l~~-lP~  296 (298)
                      +|++|++++|. +.. | ..++++++|++|++++|++.. .|.
T Consensus       124 ~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~  166 (549)
T 2z81_A          124 NLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQ  166 (549)
T ss_dssp             TCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTT
T ss_pred             CccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChh
Confidence            99999999998 555 5 689999999999999998775 443

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

Probab=99.04  E-value=2.3e-10  Score=111.79  Aligned_cols=61  Identities=26%  Similarity=0.328  Sum_probs=31.9

Q ss_pred             CccEEEecCCCCCCCCc--cccCCCCCcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          235 QVRVINLTYMNLLPLPS--SLGLLSNLRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       235 ~Lr~L~l~~~~i~~lP~--~i~~L~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      +|++|++++|.+..+|.  .++.+++|++|++++|.+.. | .++++++|++|++++|++..+|.
T Consensus       549 ~L~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N~l~~lp-~~~~L~~L~~L~Ls~N~l~~lp~  612 (876)
T 4ecn_A          549 KIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHNKVRHLE-AFGTNVKLTDLKLDYNQIEEIPE  612 (876)
T ss_dssp             TCCEEECCSSCCCBCCCHHHHTTCTTCCEEECTTSCCCBCC-CCCTTSEESEEECCSSCCSCCCT
T ss_pred             CccEEEeeCCcCCccCChhhhhcCCCCCEEECCCCCcccch-hhcCCCcceEEECcCCccccchH
Confidence            44444444444444554  45555555555555555444 4 55555555555555555555553

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

Probab=99.04  E-value=7.1e-10  Score=105.30  Aligned_cols=89  Identities=17%  Similarity=0.136  Sum_probs=55.6

Q ss_pred             CCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCC--------CCCcEeecCCCCCCC-Ccc
Q 040933          204 ECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLL--------SNLRTLSLCYCKLLD-ISV  274 (298)
Q Consensus       204 ~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L--------~~L~~L~l~~~~l~~-p~~  274 (298)
                      .+++|+.|.+++    +.+..+|..+|..+++|++|++++|.++.+|..+...        ++|++|++++|.++. |..
T Consensus       431 ~~~~L~~L~Ls~----N~l~~lp~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~  506 (636)
T 4eco_A          431 KGINVSSINLSN----NQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNKLTKLSDD  506 (636)
T ss_dssp             CCCCEEEEECCS----SCCCSCCTHHHHTTCCCSEEECCSSCCSBCCSSSSEETTEECTTGGGCCEEECCSSCCCBCCGG
T ss_pred             cCCCCCEEECcC----CccCcCCHHHHccCCCCCEEECCCCCCCCcCHHHhccccccccccCCccEEECcCCcCCccChh
Confidence            344566666665    4455677776666777777777777666666544332        266666666666666 666


Q ss_pred             cC--CCCCCCEEeecCCCCCCCCC
Q 040933          275 TG--ELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       275 i~--~L~~L~~L~l~~~~l~~lP~  296 (298)
                      ++  .+++|++|++++|++..+|.
T Consensus       507 ~~~~~l~~L~~L~Ls~N~l~~ip~  530 (636)
T 4eco_A          507 FRATTLPYLVGIDLSYNSFSKFPT  530 (636)
T ss_dssp             GSTTTCTTCCEEECCSSCCSSCCC
T ss_pred             hhhccCCCcCEEECCCCCCCCcCh
Confidence            65  66666666666666666664

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=99.04  E-value=9.4e-10  Score=96.51  Aligned_cols=103  Identities=15%  Similarity=0.143  Sum_probs=85.1

Q ss_pred             EEEEeCC-CCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCCcEee
Q 040933          186 SIVLRDI-KTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNLRTLS  263 (298)
Q Consensus       186 ~l~l~~~-~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L~~L~  263 (298)
                      .+...++ .+..+|.  +..+++|+.|++++   .+.+..+|...|..+++|++|+|++|.|+.+| ..++.|.+|++|+
T Consensus        12 ~v~~~~~n~l~~ip~--l~~~~~L~~L~l~~---~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~   86 (347)
T 2ifg_A           12 GLRCTRDGALDSLHH--LPGAENLTELYIEN---QQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLN   86 (347)
T ss_dssp             CEECCSSCCCTTTTT--SCSCSCCSEEECCS---CSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEE
T ss_pred             EEEcCCCCCCCccCC--CCCCCCeeEEEccC---CCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEe
Confidence            3566666 7888888  58889999999985   47888888887899999999999999999875 5679999999999


Q ss_pred             cCCCCCCC-CcccCCCCCCCEEeecCCCCCC
Q 040933          264 LCYCKLLD-ISVTGELKKLEILCLRGSDIQQ  293 (298)
Q Consensus       264 l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~  293 (298)
                      |++|.++. |..+....+|+.|++.+|.+..
T Consensus        87 l~~N~l~~~~~~~~~~~~L~~l~l~~N~~~c  117 (347)
T 2ifg_A           87 LSFNALESLSWKTVQGLSLQELVLSGNPLHC  117 (347)
T ss_dssp             CCSSCCSCCCSTTTCSCCCCEEECCSSCCCC
T ss_pred             CCCCccceeCHHHcccCCceEEEeeCCCccC
Confidence            99999998 7665554459999999987763

>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=99.03  E-value=5.6e-10  Score=105.19  Aligned_cols=112  Identities=12%  Similarity=0.097  Sum_probs=88.0

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-CccccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~~  258 (298)
                      ...+++.|.+.+|.+..+.+..|..+++|++|.+++    +.+..+++..|..+++|++|++++|.++.+ |..++.+.+
T Consensus        55 ~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~----n~l~~~~~~~~~~l~~L~~L~L~~n~i~~l~~~~~~~l~~  130 (606)
T 3t6q_A           55 RLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTA----NPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKT  130 (606)
T ss_dssp             TCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTT----CCCSEECTTTTSSCTTCCEEECTTSCCSCGGGSCCTTCTT
T ss_pred             cCccceEEECCCCccceeChhhccCccccCeeeCCC----CcccccChhhhcccccccEeeccccCcccCCcchhccCCc
Confidence            346788899998888888776678888999999887    455555555568888899999998888886 677888888


Q ss_pred             CcEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCC
Q 040933          259 LRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       259 L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      |++|++++|.+..  ++.+..+++|++|++++|++..++
T Consensus       131 L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~  169 (606)
T 3t6q_A          131 LESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNAIHYLS  169 (606)
T ss_dssp             CCEEECCSSCCCCCCCCTTCCCTTCCEEECCSSCCCEEC
T ss_pred             ccEEECCCCcccccCcccccCCcccCEEEcccCcccccC
Confidence            8888888888776  355556888888888888776553

>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=99.03  E-value=6.9e-10  Score=103.78  Aligned_cols=103  Identities=17%  Similarity=0.190  Sum_probs=92.2

Q ss_pred             ccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-CccccCCCCCcEe
Q 040933          184 YTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLLSNLRTL  262 (298)
Q Consensus       184 ~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~~L~~L  262 (298)
                      .+.+.+.++.+..+|..+   .++++.|++++    +.+..+++..|..+++|++|++++|.++.+ |..++.+++|++|
T Consensus        33 ~~~l~ls~~~L~~ip~~~---~~~L~~L~Ls~----N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L  105 (562)
T 3a79_B           33 ESMVDYSNRNLTHVPKDL---PPRTKALSLSQ----NSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYL  105 (562)
T ss_dssp             CCEEECTTSCCCSCCTTS---CTTCCEEECCS----SCCCCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEE
T ss_pred             CcEEEcCCCCCccCCCCC---CCCcCEEECCC----CCccccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEE
Confidence            488999999999999753   38999999998    677888877779999999999999999996 6789999999999


Q ss_pred             ecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCC
Q 040933          263 SLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       263 ~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      ++++|.++. |..  .+++|++|++++|++..+|
T Consensus       106 ~Ls~N~l~~lp~~--~l~~L~~L~Ls~N~l~~l~  137 (562)
T 3a79_B          106 DVSHNRLQNISCC--PMASLRHLDLSFNDFDVLP  137 (562)
T ss_dssp             ECTTSCCCEECSC--CCTTCSEEECCSSCCSBCC
T ss_pred             ECCCCcCCccCcc--ccccCCEEECCCCCccccC
Confidence            999999999 776  8999999999999998775

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

Probab=99.01  E-value=6.7e-10  Score=96.11  Aligned_cols=84  Identities=20%  Similarity=0.229  Sum_probs=38.0

Q ss_pred             CCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCC---CCccc--cCCCCCcEeecCCCCCCC-C----ccc
Q 040933          206 PQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLP---LPSSL--GLLSNLRTLSLCYCKLLD-I----SVT  275 (298)
Q Consensus       206 ~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~---lP~~i--~~L~~L~~L~l~~~~l~~-p----~~i  275 (298)
                      ++|++|.+.+    +.+..++...|..+++|++|++++|.+..   +|..+  +.+.+|++|++++|.++. |    ..+
T Consensus       149 ~~L~~L~L~~----N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~  224 (312)
T 1wwl_A          149 PGLKVLSIAQ----AHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALA  224 (312)
T ss_dssp             TTCCEEEEES----CSCCCCCTTTCCCCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHH
T ss_pred             CCCcEEEeeC----CCCccchHHHhccCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHH
Confidence            4444444444    33333443333445555555555554332   22233  445555555555555443 1    112


Q ss_pred             CCCCCCCEEeecCCCCCC
Q 040933          276 GELKKLEILCLRGSDIQQ  293 (298)
Q Consensus       276 ~~L~~L~~L~l~~~~l~~  293 (298)
                      .++++|++|++++|++..
T Consensus       225 ~~l~~L~~L~Ls~N~l~~  242 (312)
T 1wwl_A          225 AARVQLQGLDLSHNSLRD  242 (312)
T ss_dssp             HTTCCCSEEECTTSCCCS
T ss_pred             hcCCCCCEEECCCCcCCc
Confidence            344555555555555544

>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=98.99  E-value=1.6e-09  Score=85.26  Aligned_cols=88  Identities=18%  Similarity=0.207  Sum_probs=80.2

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCc-cccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPS-SLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~-~i~~L~~  258 (298)
                      .+..++.|.+.+|.+..+++..|..+++|+.|++++    +.+..+|...|..+++|++|++++|.++.+|. .++.+.+
T Consensus        28 ~~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~----N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~  103 (170)
T 3g39_A           28 IPTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDN----NQLTVLPAGVFDKLTQLTQLSLNDNQLKSIPRGAFDNLKS  103 (170)
T ss_dssp             CCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCS----SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             CCCCCcEEEcCCCcCCccChhhhcCcccCCEEECCC----CCcCccChhhccCCCCCCEEECCCCccCEeCHHHhcCCCC
Confidence            357899999999999999887789999999999998    67889999888999999999999999999876 4899999


Q ss_pred             CcEeecCCCCCCC
Q 040933          259 LRTLSLCYCKLLD  271 (298)
Q Consensus       259 L~~L~l~~~~l~~  271 (298)
                      |++|++++|++..
T Consensus       104 L~~L~L~~N~~~c  116 (170)
T 3g39_A          104 LTHIWLLNNPWDC  116 (170)
T ss_dssp             CCEEECCSSCBCT
T ss_pred             CCEEEeCCCCCCC
Confidence            9999999999776

>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=98.99  E-value=1.5e-09  Score=102.20  Aligned_cols=112  Identities=20%  Similarity=0.272  Sum_probs=96.0

Q ss_pred             CchhhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccC
Q 040933          176 SDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGL  255 (298)
Q Consensus       176 ~~~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~  255 (298)
                      +.......++.|.+.+|.+..++.  +..+++|+.|.+++    +.+..++  .+..+++|+.|+|++|.+..+++ ++.
T Consensus       103 ~~l~~l~~L~~L~Ls~N~l~~l~~--l~~l~~L~~L~Ls~----N~l~~l~--~l~~l~~L~~L~Ls~N~l~~~~~-l~~  173 (605)
T 1m9s_A          103 SSLKDLKKLKSLSLEHNGISDING--LVHLPQLESLYLGN----NKITDIT--VLSRLTKLDTLSLEDNQISDIVP-LAG  173 (605)
T ss_dssp             TTSTTCTTCCEEECTTSCCCCCGG--GGGCTTCSEEECCS----SCCCCCG--GGGSCTTCSEEECCSSCCCCCGG-GTT
T ss_pred             hhhccCCCCCEEEecCCCCCCCcc--ccCCCccCEEECCC----CccCCch--hhcccCCCCEEECcCCcCCCchh-hcc
Confidence            344456789999999999998865  48899999999998    5666663  36999999999999999999876 999


Q ss_pred             CCCCcEeecCCCCCCCCcccCCCCCCCEEeecCCCCCCCCC
Q 040933          256 LSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       256 L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      +.+|+.|+|++|.+...+.++.+++|+.|+|++|++...|.
T Consensus       174 l~~L~~L~Ls~N~i~~l~~l~~l~~L~~L~L~~N~l~~~p~  214 (605)
T 1m9s_A          174 LTKLQNLYLSKNHISDLRALAGLKNLDVLELFSQECLNKPI  214 (605)
T ss_dssp             CTTCCEEECCSSCCCBCGGGTTCTTCSEEECCSEEEECCCC
T ss_pred             CCCCCEEECcCCCCCCChHHccCCCCCEEEccCCcCcCCcc
Confidence            99999999999999885579999999999999998776653

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.99  E-value=8.7e-10  Score=103.16  Aligned_cols=84  Identities=20%  Similarity=0.251  Sum_probs=76.4

Q ss_pred             CCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCC-CcccCCCCCCCEEe
Q 040933          207 QLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLD-ISVTGELKKLEILC  285 (298)
Q Consensus       207 ~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~  285 (298)
                      .|+.|.+++    +.+..+|.  |..+++|++|++++|.++.+|..++.+++|++|+|++|.++. | .++++++|++|+
T Consensus       442 ~L~~L~Ls~----n~l~~lp~--~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp-~l~~l~~L~~L~  514 (567)
T 1dce_A          442 DVRVLHLAH----KDLTVLCH--LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELL  514 (567)
T ss_dssp             TCSEEECTT----SCCSSCCC--GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEE
T ss_pred             CceEEEecC----CCCCCCcC--ccccccCcEeecCcccccccchhhhcCCCCCEEECCCCCCCCCc-ccCCCCCCcEEE
Confidence            477888887    67778887  699999999999999999999999999999999999999999 7 999999999999


Q ss_pred             ecCCCCCCC--CCC
Q 040933          286 LRGSDIQQL--PVE  297 (298)
Q Consensus       286 l~~~~l~~l--P~~  297 (298)
                      +++|++..+  |..
T Consensus       515 Ls~N~l~~~~~p~~  528 (567)
T 1dce_A          515 LCNNRLQQSAAIQP  528 (567)
T ss_dssp             CCSSCCCSSSTTGG
T ss_pred             CCCCCCCCCCCcHH
Confidence            999999988  643

>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=98.98  E-value=8.7e-10  Score=100.73  Aligned_cols=106  Identities=16%  Similarity=0.203  Sum_probs=65.8

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCc
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLR  260 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~  260 (298)
                      ...++.+.+.++.+..++..  ..+++|++|++++    +.+..+|+  |..+++|++|++++|.+..+|. ++.+++|+
T Consensus        45 l~~l~~L~l~~~~i~~l~~~--~~l~~L~~L~Ls~----n~l~~~~~--~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~  115 (466)
T 1o6v_A           45 LDQVTTLQADRLGIKSIDGV--EYLNNLTQINFSN----NQLTDITP--LKNLTKLVDILMNNNQIADITP-LANLTNLT  115 (466)
T ss_dssp             HHTCCEEECCSSCCCCCTTG--GGCTTCCEEECCS----SCCCCCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCC
T ss_pred             hccccEEecCCCCCccCcch--hhhcCCCEEECCC----CccCCchh--hhccccCCEEECCCCccccChh-hcCCCCCC
Confidence            35566666666666666542  5566666666665    34555554  4666666777776666666654 66666667


Q ss_pred             EeecCCCCCCCCcccCCCCCCCEEeecCCCCCCCC
Q 040933          261 TLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       261 ~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      +|++++|.+...+.++++++|++|++++|++..+|
T Consensus       116 ~L~L~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~  150 (466)
T 1o6v_A          116 GLTLFNNQITDIDPLKNLTNLNRLELSSNTISDIS  150 (466)
T ss_dssp             EEECCSSCCCCCGGGTTCTTCSEEEEEEEEECCCG
T ss_pred             EEECCCCCCCCChHHcCCCCCCEEECCCCccCCCh
Confidence            77766666666222666666666666666555443

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

Probab=98.98  E-value=7.7e-10  Score=95.60  Aligned_cols=82  Identities=21%  Similarity=0.258  Sum_probs=66.7

Q ss_pred             CCCCCcEEeccccccccccccc-ChHHHhCC---CCccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCC-CcccCCC
Q 040933          204 ECPQLKLFSVRADHQESSSLTI-PNNFFEKM---IQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLD-ISVTGEL  278 (298)
Q Consensus       204 ~~~~L~~L~l~~~~~~~~~~~l-p~~~~~~l---~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~-p~~i~~L  278 (298)
                      .+++|+.|++++    +.+..+ |..+ ..+   ++|++|++++|.++.+|..+.  .+|++|++++|+++. |. +..+
T Consensus       222 ~l~~L~~L~Ls~----N~l~~~~p~~~-~~~~~~~~L~~L~Ls~N~l~~lp~~~~--~~L~~L~Ls~N~l~~~~~-~~~l  293 (310)
T 4glp_A          222 AGVQPHSLDLSH----NSLRATVNPSA-PRCMWSSALNSLNLSFAGLEQVPKGLP--AKLRVLDLSSNRLNRAPQ-PDEL  293 (310)
T ss_dssp             HTCCCSSEECTT----SCCCCCCCSCC-SSCCCCTTCCCEECCSSCCCSCCSCCC--SCCSCEECCSCCCCSCCC-TTSC
T ss_pred             cCCCCCEEECCC----CCCCccchhhH-HhccCcCcCCEEECCCCCCCchhhhhc--CCCCEEECCCCcCCCCch-hhhC
Confidence            456777777776    444444 6554 444   799999999999999998886  799999999999998 65 7899


Q ss_pred             CCCCEEeecCCCCCC
Q 040933          279 KKLEILCLRGSDIQQ  293 (298)
Q Consensus       279 ~~L~~L~l~~~~l~~  293 (298)
                      ++|+.|++++|++..
T Consensus       294 ~~L~~L~L~~N~l~~  308 (310)
T 4glp_A          294 PEVDNLTLDGNPFLV  308 (310)
T ss_dssp             CCCSCEECSSTTTSC
T ss_pred             CCccEEECcCCCCCC
Confidence            999999999998763

>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=98.97  E-value=2.5e-09  Score=93.68  Aligned_cols=107  Identities=17%  Similarity=0.260  Sum_probs=93.6

Q ss_pred             hhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCC
Q 040933          179 NAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSN  258 (298)
Q Consensus       179 ~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~  258 (298)
                      ...++++.+.+.++.+..++.  +..+++|++|.+.+    +.+..++.  |..+++|++|++++|.++.+| .++.+++
T Consensus        41 ~~l~~L~~L~l~~~~i~~~~~--~~~~~~L~~L~l~~----n~i~~~~~--~~~l~~L~~L~L~~n~i~~~~-~~~~l~~  111 (347)
T 4fmz_A           41 EELESITKLVVAGEKVASIQG--IEYLTNLEYLNLNG----NQITDISP--LSNLVKLTNLYIGTNKITDIS-ALQNLTN  111 (347)
T ss_dssp             HHHTTCSEEECCSSCCCCCTT--GGGCTTCCEEECCS----SCCCCCGG--GTTCTTCCEEECCSSCCCCCG-GGTTCTT
T ss_pred             hhcccccEEEEeCCccccchh--hhhcCCccEEEccC----Cccccchh--hhcCCcCCEEEccCCcccCch-HHcCCCc
Confidence            456789999999999998876  48899999999998    56777777  699999999999999999987 6999999


Q ss_pred             CcEeecCCCCCCC-CcccCCCCCCCEEeecCC-CCCCCC
Q 040933          259 LRTLSLCYCKLLD-ISVTGELKKLEILCLRGS-DIQQLP  295 (298)
Q Consensus       259 L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~-~l~~lP  295 (298)
                      |++|++++|.+.. |. ++.+++|++|++++| .+..+|
T Consensus       112 L~~L~l~~n~i~~~~~-~~~l~~L~~L~l~~n~~~~~~~  149 (347)
T 4fmz_A          112 LRELYLNEDNISDISP-LANLTKMYSLNLGANHNLSDLS  149 (347)
T ss_dssp             CSEEECTTSCCCCCGG-GTTCTTCCEEECTTCTTCCCCG
T ss_pred             CCEEECcCCcccCchh-hccCCceeEEECCCCCCccccc
Confidence            9999999999998 54 999999999999999 454443

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

Probab=98.96  E-value=2.7e-09  Score=97.33  Aligned_cols=104  Identities=14%  Similarity=0.126  Sum_probs=66.2

Q ss_pred             hhhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCC
Q 040933          178 ENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLS  257 (298)
Q Consensus       178 ~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~  257 (298)
                      .....+++.+.+.+|.+..++   +..+++|+.|.+++    +.+..++   +..+++|++|++++|.++.+|  ++.++
T Consensus        60 l~~l~~L~~L~Ls~n~l~~~~---~~~l~~L~~L~Ls~----N~l~~~~---~~~l~~L~~L~L~~N~l~~l~--~~~l~  127 (457)
T 3bz5_A           60 IEKLTGLTKLICTSNNITTLD---LSQNTNLTYLACDS----NKLTNLD---VTPLTKLTYLNCDTNKLTKLD--VSQNP  127 (457)
T ss_dssp             GGGCTTCSEEECCSSCCSCCC---CTTCTTCSEEECCS----SCCSCCC---CTTCTTCCEEECCSSCCSCCC--CTTCT
T ss_pred             hcccCCCCEEEccCCcCCeEc---cccCCCCCEEECcC----CCCceee---cCCCCcCCEEECCCCcCCeec--CCCCC
Confidence            344556667777777666664   36666777777766    3444444   466777777777777776665  66777


Q ss_pred             CCcEeecCCCCCCCCcccCCCCCCCEEeecCC-CCCCC
Q 040933          258 NLRTLSLCYCKLLDISVTGELKKLEILCLRGS-DIQQL  294 (298)
Q Consensus       258 ~L~~L~l~~~~l~~p~~i~~L~~L~~L~l~~~-~l~~l  294 (298)
                      +|++|++++|.++.. .++++++|++|++++| .+..+
T Consensus       128 ~L~~L~l~~N~l~~l-~l~~l~~L~~L~l~~n~~~~~~  164 (457)
T 3bz5_A          128 LLTYLNCARNTLTEI-DVSHNTQLTELDCHLNKKITKL  164 (457)
T ss_dssp             TCCEEECTTSCCSCC-CCTTCTTCCEEECTTCSCCCCC
T ss_pred             cCCEEECCCCcccee-ccccCCcCCEEECCCCCccccc
Confidence            777777777776662 1666777777777776 34433

>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=98.96  E-value=1e-09  Score=106.52  Aligned_cols=109  Identities=18%  Similarity=0.166  Sum_probs=58.4

Q ss_pred             CccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCC-CCCccccCCCCCcE
Q 040933          183 LYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLL-PLPSSLGLLSNLRT  261 (298)
Q Consensus       183 ~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~-~lP~~i~~L~~L~~  261 (298)
                      +++.+.+.+|.+....+..+..+++|++|.+.+   +.....+|..+ ..+++|++|++++|.+. .+|..++.+++|++
T Consensus       443 ~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~---N~l~~~~p~~l-~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~  518 (768)
T 3rgz_A          443 KLRDLKLWLNMLEGEIPQELMYVKTLETLILDF---NDLTGEIPSGL-SNCTNLNWISLSNNRLTGEIPKWIGRLENLAI  518 (768)
T ss_dssp             TCCEEECCSSCCCSCCCGGGGGCTTCCEEECCS---SCCCSCCCGGG-GGCTTCCEEECCSSCCCSCCCGGGGGCTTCCE
T ss_pred             CCCEEECCCCcccCcCCHHHcCCCCceEEEecC---CcccCcCCHHH-hcCCCCCEEEccCCccCCcCChHHhcCCCCCE
Confidence            444444444444422222234455555555555   22222344433 56666666666666655 35666666666666


Q ss_pred             eecCCCCCCC--CcccCCCCCCCEEeecCCCCC-CCC
Q 040933          262 LSLCYCKLLD--ISVTGELKKLEILCLRGSDIQ-QLP  295 (298)
Q Consensus       262 L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~-~lP  295 (298)
                      |++++|.+..  |..++.+++|++|++++|++. .+|
T Consensus       519 L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~g~ip  555 (768)
T 3rgz_A          519 LKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIP  555 (768)
T ss_dssp             EECCSSCCEEECCGGGGGCTTCCEEECCSSEEESBCC
T ss_pred             EECCCCcccCcCCHHHcCCCCCCEEECCCCccCCcCC
Confidence            6666666553  566666666666666666543 454

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

Probab=98.95  E-value=6.7e-10  Score=96.35  Aligned_cols=107  Identities=13%  Similarity=0.103  Sum_probs=91.9

Q ss_pred             hccCccEEEEeCCCCccCCCCcC-CCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVL-PECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~-~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~  258 (298)
                      ...+++.+.+.+|.+..++...+ ..+++|+.|.+++    +.+..++..  ..+++|++|++++|.++.+|..++.+++
T Consensus       142 ~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~----N~l~~~~~~--~~l~~L~~L~Ls~N~l~~l~~~~~~l~~  215 (317)
T 3o53_A          142 CRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQY----NFIYDVKGQ--VVFAKLKTLDLSSNKLAFMGPEFQSAAG  215 (317)
T ss_dssp             GGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTT----SCCCEEECC--CCCTTCCEEECCSSCCCEECGGGGGGTT
T ss_pred             ccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCC----CcCcccccc--cccccCCEEECCCCcCCcchhhhcccCc
Confidence            35789999999999987754433 4679999999998    566666553  4589999999999999999988999999


Q ss_pred             CcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCC
Q 040933          259 LRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       259 L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~  292 (298)
                      |++|++++|.++. |..++.+++|+.|++++|.+.
T Consensus       216 L~~L~L~~N~l~~l~~~~~~l~~L~~L~l~~N~~~  250 (317)
T 3o53_A          216 VTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFH  250 (317)
T ss_dssp             CSEEECTTSCCCEECTTCCCCTTCCEEECTTCCCB
T ss_pred             ccEEECcCCcccchhhHhhcCCCCCEEEccCCCcc
Confidence            9999999999999 999999999999999999875

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

Probab=98.95  E-value=3e-09  Score=104.19  Aligned_cols=110  Identities=21%  Similarity=0.180  Sum_probs=93.1

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-CccccCCCCCc
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLLSNLR  260 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~~L~  260 (298)
                      ..++.+.+.+|.+..+++..+..+++|+.|.+.+    +.+..+++..|..+++|++|++++|.+..+ |..++.+++|+
T Consensus       266 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~----n~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~  341 (844)
T 3j0a_A          266 SSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAY----NKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVA  341 (844)
T ss_dssp             SCCCEEECTTCCCCEECSCCSSSCCCCCEEEEES----CCCCEECTTTTTTCSSCCEEEEESCCCSCCCSCSCSSCTTCC
T ss_pred             CCccEEECCCCcccccChhhhhcCCCCCEEECCC----CcCCCCChHHhcCCCCCCEEECCCCCCCccCHHHhcCCCCCC
Confidence            5788999999998888777778899999999987    566666666678999999999999999886 67899999999


Q ss_pred             EeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCC
Q 040933          261 TLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       261 ~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      +|++++|.+..  +..++.+++|++|++++|.+..+|
T Consensus       342 ~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~i~  378 (844)
T 3j0a_A          342 YIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNALTTIH  378 (844)
T ss_dssp             EEECCSCCCCCCCSSCSCSCCCCCEEEEETCCSCCCS
T ss_pred             EEECCCCCCCccChhhhcCCCCCCEEECCCCCCCccc
Confidence            99999999887  556888999999999998877655

>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=98.94  E-value=1.5e-09  Score=105.23  Aligned_cols=111  Identities=21%  Similarity=0.221  Sum_probs=72.2

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCC-CCccccCCCCCc
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLP-LPSSLGLLSNLR  260 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~-lP~~i~~L~~L~  260 (298)
                      ..++.+.+.+|.+....+..+..+++|+.|.+.+   +.....+|..+ ..+++|++|++++|.+.. +|..++.+++|+
T Consensus       418 ~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~---n~l~~~~p~~~-~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~  493 (768)
T 3rgz_A          418 SELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWL---NMLEGEIPQEL-MYVKTLETLILDFNDLTGEIPSGLSNCTNLN  493 (768)
T ss_dssp             TTCCEEECCSSEEESCCCGGGGGCTTCCEEECCS---SCCCSCCCGGG-GGCTTCCEEECCSSCCCSCCCGGGGGCTTCC
T ss_pred             CCCCEEECcCCcccCcccHHHhcCCCCCEEECCC---CcccCcCCHHH-cCCCCceEEEecCCcccCcCCHHHhcCCCCC
Confidence            4555666666655533333345666666666666   33333555544 677777777777777764 677777777777


Q ss_pred             EeecCCCCCCC--CcccCCCCCCCEEeecCCCCC-CCCC
Q 040933          261 TLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQ-QLPV  296 (298)
Q Consensus       261 ~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~-~lP~  296 (298)
                      +|++++|++..  |..++.+++|++|++++|++. .+|.
T Consensus       494 ~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~  532 (768)
T 3rgz_A          494 WISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPA  532 (768)
T ss_dssp             EEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECCG
T ss_pred             EEEccCCccCCcCChHHhcCCCCCEEECCCCcccCcCCH
Confidence            77777777664  777777777777777777665 4553

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

Probab=98.94  E-value=8.6e-09  Score=96.27  Aligned_cols=35  Identities=23%  Similarity=0.279  Sum_probs=15.3

Q ss_pred             CCccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCC
Q 040933          234 IQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLD  271 (298)
Q Consensus       234 ~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~  271 (298)
                      ++|++|++++|.++.+|. ++  .+|++|++++|.++.
T Consensus       160 ~~L~~L~Ls~N~L~~lp~-l~--~~L~~L~Ls~N~L~~  194 (571)
T 3cvr_A          160 TSLEVLSVRNNQLTFLPE-LP--ESLEALDVSTNLLES  194 (571)
T ss_dssp             TTCCEEECCSSCCSCCCC-CC--TTCCEEECCSSCCSS
T ss_pred             CCcCEEECCCCCCCCcch-hh--CCCCEEECcCCCCCc
Confidence            344444444444444443 33  344444444444444

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

Probab=98.92  E-value=6.7e-09  Score=97.00  Aligned_cols=97  Identities=14%  Similarity=0.157  Sum_probs=60.5

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCC-
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNL-  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L-  259 (298)
                      ..+++.|.+.+|.+..+|.    .+++|+.|.+++    +.+..+|. + .  ++|++|++++|.|+.+|. ++.  +| 
T Consensus       139 l~~L~~L~Ls~N~l~~lp~----~l~~L~~L~Ls~----N~L~~lp~-l-~--~~L~~L~Ls~N~L~~lp~-~~~--~L~  203 (571)
T 3cvr_A          139 PALLEYINADNNQLTMLPE----LPTSLEVLSVRN----NQLTFLPE-L-P--ESLEALDVSTNLLESLPA-VPV--RNH  203 (571)
T ss_dssp             CTTCCEEECCSSCCSCCCC----CCTTCCEEECCS----SCCSCCCC-C-C--TTCCEEECCSSCCSSCCC-CC------
T ss_pred             CccccEEeCCCCccCcCCC----cCCCcCEEECCC----CCCCCcch-h-h--CCCCEEECcCCCCCchhh-HHH--hhh
Confidence            3455555555555555543    345666666665    44555665 2 3  677777777777777766 544  56 


Q ss_pred             ------cEeecCCCCCCC-CcccCCCCCCCEEeecCCCCC
Q 040933          260 ------RTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       260 ------~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~  292 (298)
                            ++|++++|.++. |..++++++|++|++++|++.
T Consensus       204 ~~~~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~L~~N~l~  243 (571)
T 3cvr_A          204 HSEETEIFFRCRENRITHIPENILSLDPTCTIILEDNPLS  243 (571)
T ss_dssp             ----CCEEEECCSSCCCCCCGGGGGSCTTEEEECCSSSCC
T ss_pred             cccccceEEecCCCcceecCHHHhcCCCCCEEEeeCCcCC
Confidence                  777777777777 776777777777777777654

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

Probab=98.90  E-value=1.1e-09  Score=100.83  Aligned_cols=107  Identities=13%  Similarity=0.103  Sum_probs=92.3

Q ss_pred             hccCccEEEEeCCCCccCCCCcC-CCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVL-PECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSN  258 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~-~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~  258 (298)
                      ....++.|.+++|.+..+++..+ ..+++|++|.+++    +.+..+|..  ..+++|++|++++|.++.+|+.++.+++
T Consensus       142 ~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~----N~l~~~~~~--~~l~~L~~L~Ls~N~l~~~~~~~~~l~~  215 (487)
T 3oja_A          142 CRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQY----NFIYDVKGQ--VVFAKLKTLDLSSNKLAFMGPEFQSAAG  215 (487)
T ss_dssp             GGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTT----SCCCEEECC--CCCTTCCEEECCSSCCCEECGGGGGGTT
T ss_pred             CCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCC----Ccccccccc--ccCCCCCEEECCCCCCCCCCHhHcCCCC
Confidence            35789999999999987544433 3689999999998    556666552  4699999999999999999989999999


Q ss_pred             CcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCC
Q 040933          259 LRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       259 L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~  292 (298)
                      |++|++++|.+.. |..++.+++|+.|++++|.+.
T Consensus       216 L~~L~Ls~N~l~~lp~~l~~l~~L~~L~l~~N~l~  250 (487)
T 3oja_A          216 VTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFH  250 (487)
T ss_dssp             CSEEECTTSCCCEECTTCCCCTTCCEEECTTCCBC
T ss_pred             ccEEEecCCcCcccchhhccCCCCCEEEcCCCCCc
Confidence            9999999999999 999999999999999999765

>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=98.89  E-value=3.2e-09  Score=93.33  Aligned_cols=114  Identities=18%  Similarity=0.137  Sum_probs=87.7

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCC-CccEEEecCCCCCCCCccccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMI-QVRVINLTYMNLLPLPSSLGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~-~Lr~L~l~~~~i~~lP~~i~~L~~L  259 (298)
                      ..+++.+.+.+|.+..++...+....++..+.+.+   +..+..++...|..+. .+++|++++|+|+.+|..+....+|
T Consensus       103 l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~---~~~i~~l~~~~f~~~~~~l~~L~L~~N~i~~i~~~~f~~~~L  179 (350)
T 4ay9_X          103 LPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQD---NINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQL  179 (350)
T ss_dssp             CTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEES---CTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTSSTTEEE
T ss_pred             ccccccccccccccccCCchhhcccchhhhhhhcc---ccccccccccchhhcchhhhhhccccccccCCChhhccccch
Confidence            45788888888888887776555666677777766   5667777776666654 5888999999998888887777888


Q ss_pred             cEeecCCCC-CCC-Cc-ccCCCCCCCEEeecCCCCCCCCCC
Q 040933          260 RTLSLCYCK-LLD-IS-VTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       260 ~~L~l~~~~-l~~-p~-~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      +.|+++++. ++. |. .++.+++|++|++++|+|+.+|.+
T Consensus       180 ~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~l~~lp~~  220 (350)
T 4ay9_X          180 DELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSY  220 (350)
T ss_dssp             EEEECTTCTTCCCCCTTTTTTEECCSEEECTTSCCCCCCSS
T ss_pred             hHHhhccCCcccCCCHHHhccCcccchhhcCCCCcCccChh
Confidence            899888654 777 54 578889999999999988888864

>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=98.84  E-value=1e-08  Score=90.04  Aligned_cols=106  Identities=13%  Similarity=0.093  Sum_probs=75.3

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccE-EEecCCCCCCC-CccccCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRV-INLTYMNLLPL-PSSLGLLS  257 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~-L~l~~~~i~~l-P~~i~~L~  257 (298)
                      .+.+++.|.+.+|.++.++..+|.++++|++|++++   +.....+|...|..++++.. +.+.+|++..+ |..+..++
T Consensus        28 l~~~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~---N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~~l~~~~f~~l~  104 (350)
T 4ay9_X           28 LPRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQ---NDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLP  104 (350)
T ss_dssp             CCTTCSEEEEESCCCSEECTTSSTTCTTCCEEEEEC---CTTCCEECTTSBCSCTTCCEEEEEEETTCCEECTTSBCCCT
T ss_pred             cCCCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcC---CCCCCccChhHhhcchhhhhhhcccCCcccccCchhhhhcc
Confidence            457899999999999999988889999999999998   44445677766777776654 55666777776 45567788


Q ss_pred             CCcEeecCCCCCCC-C-cccCCCCCCCEEeecC
Q 040933          258 NLRTLSLCYCKLLD-I-SVTGELKKLEILCLRG  288 (298)
Q Consensus       258 ~L~~L~l~~~~l~~-p-~~i~~L~~L~~L~l~~  288 (298)
                      +|++|++++|.+.. | ..+....++..|++.+
T Consensus       105 ~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~  137 (350)
T 4ay9_X          105 NLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQD  137 (350)
T ss_dssp             TCCEEEEEEECCSSCCCCTTCCBSSCEEEEEES
T ss_pred             ccccccccccccccCCchhhcccchhhhhhhcc
Confidence            88888888777766 3 2233333444444443

>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=98.84  E-value=1.8e-08  Score=95.07  Aligned_cols=113  Identities=19%  Similarity=0.213  Sum_probs=90.3

Q ss_pred             EEecCCccccCCCCCchhhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEe
Q 040933          162 FTATGELFDGCMEWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINL  241 (298)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l  241 (298)
                      ....+..+.   ..|. ..+.+++.|.+.+|.+..+|.    .+++|++|++++    +.+..+|.    .+++|++|++
T Consensus        45 L~ls~n~L~---~lp~-~l~~~L~~L~L~~N~l~~lp~----~l~~L~~L~Ls~----N~l~~lp~----~l~~L~~L~L  108 (622)
T 3g06_A           45 LNVGESGLT---TLPD-CLPAHITTLVIPDNNLTSLPA----LPPELRTLEVSG----NQLTSLPV----LPPGLLELSI  108 (622)
T ss_dssp             EECCSSCCS---CCCS-CCCTTCSEEEECSCCCSCCCC----CCTTCCEEEECS----CCCSCCCC----CCTTCCEEEE
T ss_pred             EEecCCCcC---ccCh-hhCCCCcEEEecCCCCCCCCC----cCCCCCEEEcCC----CcCCcCCC----CCCCCCEEEC
Confidence            444444444   3343 234789999999999998886    478999999998    56777886    6789999999


Q ss_pred             cCCCCCCCCccccCCCCCcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          242 TYMNLLPLPSSLGLLSNLRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       242 ~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      ++|.++.+|.   .+.+|++|++++|.++. |..   +++|++|++++|++..+|.
T Consensus       109 s~N~l~~l~~---~l~~L~~L~L~~N~l~~lp~~---l~~L~~L~Ls~N~l~~l~~  158 (622)
T 3g06_A          109 FSNPLTHLPA---LPSGLCKLWIFGNQLTSLPVL---PPGLQELSVSDNQLASLPA  158 (622)
T ss_dssp             CSCCCCCCCC---CCTTCCEEECCSSCCSCCCCC---CTTCCEEECCSSCCSCCCC
T ss_pred             cCCcCCCCCC---CCCCcCEEECCCCCCCcCCCC---CCCCCEEECcCCcCCCcCC
Confidence            9999999987   66889999999999888 764   4889999999998888775

>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=98.84  E-value=2e-08  Score=91.66  Aligned_cols=60  Identities=18%  Similarity=0.306  Sum_probs=25.1

Q ss_pred             hCCCCccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCCCcccCCCCCCCEEeecCCCC
Q 040933          231 EKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDI  291 (298)
Q Consensus       231 ~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~l  291 (298)
                      ..+++|++|++++|.+..+++ ++.+++|++|++++|.+...+.++++++|+.|++++|++
T Consensus       306 ~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l  365 (466)
T 1o6v_A          306 SNLKNLTYLTLYFNNISDISP-VSSLTKLQRLFFYNNKVSDVSSLANLTNINWLSAGHNQI  365 (466)
T ss_dssp             GGCTTCSEEECCSSCCSCCGG-GGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCC
T ss_pred             cCCCCCCEEECcCCcCCCchh-hccCccCCEeECCCCccCCchhhccCCCCCEEeCCCCcc
Confidence            344444444444444444332 334444444444444433322344444444444444433

>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=98.84  E-value=4e-08  Score=92.79  Aligned_cols=103  Identities=18%  Similarity=0.177  Sum_probs=82.6

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNL  259 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L  259 (298)
                      .+.+++.|.+.+|.+..+|.    .+++|+.|.+++    +.+..+|.    .+++|+.|++++|+++.+|..   +++|
T Consensus        79 ~l~~L~~L~Ls~N~l~~lp~----~l~~L~~L~Ls~----N~l~~l~~----~l~~L~~L~L~~N~l~~lp~~---l~~L  143 (622)
T 3g06_A           79 LPPELRTLEVSGNQLTSLPV----LPPGLLELSIFS----NPLTHLPA----LPSGLCKLWIFGNQLTSLPVL---PPGL  143 (622)
T ss_dssp             CCTTCCEEEECSCCCSCCCC----CCTTCCEEEECS----CCCCCCCC----CCTTCCEEECCSSCCSCCCCC---CTTC
T ss_pred             cCCCCCEEEcCCCcCCcCCC----CCCCCCEEECcC----CcCCCCCC----CCCCcCEEECCCCCCCcCCCC---CCCC
Confidence            56789999999999998886    579999999988    66777776    568899999999999999865   4789


Q ss_pred             cEeecCCCCCCC-CcccCCC-----------------CCCCEEeecCCCCCCCCCC
Q 040933          260 RTLSLCYCKLLD-ISVTGEL-----------------KKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       260 ~~L~l~~~~l~~-p~~i~~L-----------------~~L~~L~l~~~~l~~lP~~  297 (298)
                      ++|++++|.++. |..+.+|                 ++|+.|++++|++..+|..
T Consensus       144 ~~L~Ls~N~l~~l~~~~~~L~~L~L~~N~l~~l~~~~~~L~~L~Ls~N~l~~l~~~  199 (622)
T 3g06_A          144 QELSVSDNQLASLPALPSELCKLWAYNNQLTSLPMLPSGLQELSVSDNQLASLPTL  199 (622)
T ss_dssp             CEEECCSSCCSCCCCCCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSCCCCC
T ss_pred             CEEECcCCcCCCcCCccCCCCEEECCCCCCCCCcccCCCCcEEECCCCCCCCCCCc
Confidence            999999998877 5433332                 6777788887777777753

>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=98.84  E-value=5.6e-09  Score=91.51  Aligned_cols=83  Identities=14%  Similarity=0.092  Sum_probs=72.2

Q ss_pred             EEecccccccccccccChHHHhCCCCccEEEecC-CCCCCCC-ccccCCCCCcEeecCCCCCCC--CcccCCCCCCCEEe
Q 040933          210 LFSVRADHQESSSLTIPNNFFEKMIQVRVINLTY-MNLLPLP-SSLGLLSNLRTLSLCYCKLLD--ISVTGELKKLEILC  285 (298)
Q Consensus       210 ~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~-~~i~~lP-~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~  285 (298)
                      .+...+   .+.+..+|.  +..+.+|++|+|++ |.++.+| ..++.|.+|++|+|++|.++.  |..|++|++|++|+
T Consensus        12 ~v~~~~---~n~l~~ip~--l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~   86 (347)
T 2ifg_A           12 GLRCTR---DGALDSLHH--LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLN   86 (347)
T ss_dssp             CEECCS---SCCCTTTTT--SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEE
T ss_pred             EEEcCC---CCCCCccCC--CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEe
Confidence            345554   337888998  59999999999996 9999987 679999999999999999998  56789999999999


Q ss_pred             ecCCCCCCCCCC
Q 040933          286 LRGSDIQQLPVE  297 (298)
Q Consensus       286 l~~~~l~~lP~~  297 (298)
                      |++|+|..+|..
T Consensus        87 l~~N~l~~~~~~   98 (347)
T 2ifg_A           87 LSFNALESLSWK   98 (347)
T ss_dssp             CCSSCCSCCCST
T ss_pred             CCCCccceeCHH
Confidence            999999999865

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

Probab=98.83  E-value=4.7e-08  Score=89.07  Aligned_cols=105  Identities=12%  Similarity=0.051  Sum_probs=75.1

Q ss_pred             hhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCC
Q 040933          179 NAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSN  258 (298)
Q Consensus       179 ~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~  258 (298)
                      ....+++.+.+.+|.+..++   +..+++|+.|.+.+    +.+..+|   +..+++|++|++++|.++.+|  ++.+.+
T Consensus        82 ~~l~~L~~L~Ls~N~l~~~~---~~~l~~L~~L~L~~----N~l~~l~---~~~l~~L~~L~l~~N~l~~l~--l~~l~~  149 (457)
T 3bz5_A           82 SQNTNLTYLACDSNKLTNLD---VTPLTKLTYLNCDT----NKLTKLD---VSQNPLLTYLNCARNTLTEID--VSHNTQ  149 (457)
T ss_dssp             TTCTTCSEEECCSSCCSCCC---CTTCTTCCEEECCS----SCCSCCC---CTTCTTCCEEECTTSCCSCCC--CTTCTT
T ss_pred             ccCCCCCEEECcCCCCceee---cCCCCcCCEEECCC----CcCCeec---CCCCCcCCEEECCCCccceec--cccCCc
Confidence            34567778888888777764   37777888888876    4555555   477788888888888877774  777788


Q ss_pred             CcEeecCCCCCCCCcccCCCCCCCEEeecCCCCCCCC
Q 040933          259 LRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       259 L~~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      |++|++++|.....-.++.+++|++|++++|++..+|
T Consensus       150 L~~L~l~~n~~~~~~~~~~l~~L~~L~ls~n~l~~l~  186 (457)
T 3bz5_A          150 LTELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELD  186 (457)
T ss_dssp             CCEEECTTCSCCCCCCCTTCTTCCEEECCSSCCCCCC
T ss_pred             CCEEECCCCCcccccccccCCcCCEEECCCCccceec
Confidence            8888888875333114677788888888888777665

>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=98.82  E-value=2.3e-08  Score=91.07  Aligned_cols=101  Identities=17%  Similarity=0.255  Sum_probs=57.8

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcE
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRT  261 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~  261 (298)
                      .+++.+.+.+|.+..++..    .++|++|.+.+    +.+..+|.  |..+++|++|++++|.++.+|..+   .+|++
T Consensus       111 ~~L~~L~l~~n~l~~l~~~----~~~L~~L~L~~----n~l~~lp~--~~~l~~L~~L~l~~N~l~~lp~~~---~~L~~  177 (454)
T 1jl5_A          111 QSLKSLLVDNNNLKALSDL----PPLLEYLGVSN----NQLEKLPE--LQNSSFLKIIDVDNNSLKKLPDLP---PSLEF  177 (454)
T ss_dssp             TTCCEEECCSSCCSCCCSC----CTTCCEEECCS----SCCSSCCC--CTTCTTCCEEECCSSCCSCCCCCC---TTCCE
T ss_pred             CCCcEEECCCCccCcccCC----CCCCCEEECcC----CCCCCCcc--cCCCCCCCEEECCCCcCcccCCCc---ccccE
Confidence            3455555555555444322    14566666665    34445553  466666666666666666666433   35666


Q ss_pred             eecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          262 LSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       262 L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      |++++|.++. | .++++++|++|++++|++..+|.
T Consensus       178 L~L~~n~l~~l~-~~~~l~~L~~L~l~~N~l~~l~~  212 (454)
T 1jl5_A          178 IAAGNNQLEELP-ELQNLPFLTAIYADNNSLKKLPD  212 (454)
T ss_dssp             EECCSSCCSSCC-CCTTCTTCCEEECCSSCCSSCCC
T ss_pred             EECcCCcCCcCc-cccCCCCCCEEECCCCcCCcCCC
Confidence            6666666666 4 46666666666666666555543

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=98.82  E-value=7.7e-11  Score=95.17  Aligned_cols=104  Identities=21%  Similarity=0.246  Sum_probs=82.5

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNL  259 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L  259 (298)
                      ....++.+.+.+|.+..++  .+..+++|+.|.+.+    +.+..+|..+ ..+++|++|++++|.++.+| .++.+++|
T Consensus        46 ~l~~L~~L~ls~n~l~~l~--~~~~l~~L~~L~l~~----n~l~~l~~~~-~~~~~L~~L~L~~N~l~~l~-~~~~l~~L  117 (198)
T 1ds9_A           46 TLKACKHLALSTNNIEKIS--SLSGMENLRILSLGR----NLIKKIENLD-AVADTLEELWISYNQIASLS-GIEKLVNL  117 (198)
T ss_dssp             HTTTCSEEECSEEEESCCC--CHHHHTTCCEEEEEE----EEECSCSSHH-HHHHHCSEEEEEEEECCCHH-HHHHHHHS
T ss_pred             cCCCCCEEECCCCCCcccc--ccccCCCCCEEECCC----CCcccccchh-hcCCcCCEEECcCCcCCcCC-ccccCCCC
Confidence            4567888888888888877  347788888888887    5566777644 67788888888888888877 68888888


Q ss_pred             cEeecCCCCCCC-C--cccCCCCCCCEEeecCCCC
Q 040933          260 RTLSLCYCKLLD-I--SVTGELKKLEILCLRGSDI  291 (298)
Q Consensus       260 ~~L~l~~~~l~~-p--~~i~~L~~L~~L~l~~~~l  291 (298)
                      ++|++++|.+.. |  ..++.+++|++|++++|.+
T Consensus       118 ~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l~~N~l  152 (198)
T 1ds9_A          118 RVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPL  152 (198)
T ss_dssp             SEEEESEEECCCHHHHHHHTTTTTCSEEEECSCHH
T ss_pred             CEEECCCCcCCchhHHHHHhcCCCCCEEEecCCcc
Confidence            888888888887 4  3688888888888888865

>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=98.77  E-value=7.6e-08  Score=87.60  Aligned_cols=62  Identities=16%  Similarity=0.110  Sum_probs=31.3

Q ss_pred             hCCCCccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          231 EKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       231 ~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      ..+++|++|++++|.++.+|...   .+|++|++++|.+.. | .++.+++|++|++++|++..+|.
T Consensus       192 ~~l~~L~~L~l~~N~l~~l~~~~---~~L~~L~l~~n~l~~lp-~~~~l~~L~~L~l~~N~l~~l~~  254 (454)
T 1jl5_A          192 QNLPFLTAIYADNNSLKKLPDLP---LSLESIVAGNNILEELP-ELQNLPFLTTIYADNNLLKTLPD  254 (454)
T ss_dssp             TTCTTCCEEECCSSCCSSCCCCC---TTCCEEECCSSCCSSCC-CCTTCTTCCEEECCSSCCSSCCS
T ss_pred             cCCCCCCEEECCCCcCCcCCCCc---CcccEEECcCCcCCccc-ccCCCCCCCEEECCCCcCCcccc
Confidence            44444444444444444443221   244455555555444 4 35566666666666666555553

>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=98.70  E-value=5.6e-11  Score=95.99  Aligned_cols=104  Identities=13%  Similarity=0.196  Sum_probs=84.8

Q ss_pred             ccEEEEeCC--CCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcE
Q 040933          184 YTSIVLRDI--KTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRT  261 (298)
Q Consensus       184 ~~~l~l~~~--~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~  261 (298)
                      ++...+...  .++.++. .+..+++|++|.+++    +.+..+| . +..+++|++|++++|.++.+|..++.+++|++
T Consensus        25 l~~~~l~~~~~~l~~l~~-~~~~l~~L~~L~ls~----n~l~~l~-~-~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~   97 (198)
T 1ds9_A           25 AEKVELHGMIPPIEKMDA-TLSTLKACKHLALST----NNIEKIS-S-LSGMENLRILSLGRNLIKKIENLDAVADTLEE   97 (198)
T ss_dssp             CSEEECCBCCTTCCCCHH-HHHHTTTCSEEECSE----EEESCCC-C-HHHHTTCCEEEEEEEEECSCSSHHHHHHHCSE
T ss_pred             hheeEeccccCcHhhhhH-HHhcCCCCCEEECCC----CCCcccc-c-cccCCCCCEEECCCCCcccccchhhcCCcCCE
Confidence            444444432  4444544 347789999999998    5667788 3 58999999999999999999988888899999


Q ss_pred             eecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCC
Q 040933          262 LSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       262 L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      |++++|.++. | .++.+++|++|++++|++..+|
T Consensus        98 L~L~~N~l~~l~-~~~~l~~L~~L~l~~N~i~~~~  131 (198)
T 1ds9_A           98 LWISYNQIASLS-GIEKLVNLRVLYMSNNKITNWG  131 (198)
T ss_dssp             EEEEEEECCCHH-HHHHHHHSSEEEESEEECCCHH
T ss_pred             EECcCCcCCcCC-ccccCCCCCEEECCCCcCCchh
Confidence            9999999999 6 7899999999999999887654

>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=98.49  E-value=5.2e-08  Score=84.73  Aligned_cols=105  Identities=22%  Similarity=0.287  Sum_probs=71.5

Q ss_pred             hccCccEEEEeCCCCcc--CCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCC-CCCC--CCcccc
Q 040933          180 AVKLYTSIVLRDIKTNV--LPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYM-NLLP--LPSSLG  254 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~--l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~-~i~~--lP~~i~  254 (298)
                      ...+++.+.+.+|.+..  ++. .+..+++|+.|.+.+   +......+.. +..+++|++|++++| .++.  +|..++
T Consensus        91 ~~~~L~~L~L~~~~l~~~~~~~-~~~~~~~L~~L~L~~---~~l~~~~~~~-l~~~~~L~~L~L~~~~~l~~~~l~~~~~  165 (336)
T 2ast_B           91 SPFRVQHMDLSNSVIEVSTLHG-ILSQCSKLQNLSLEG---LRLSDPIVNT-LAKNSNLVRLNLSGCSGFSEFALQTLLS  165 (336)
T ss_dssp             CCBCCCEEECTTCEECHHHHHH-HHTTBCCCSEEECTT---CBCCHHHHHH-HTTCTTCSEEECTTCBSCCHHHHHHHHH
T ss_pred             cCCCCCEEEccCCCcCHHHHHH-HHhhCCCCCEEeCcC---cccCHHHHHH-HhcCCCCCEEECCCCCCCCHHHHHHHHh
Confidence            34677778877776543  222 246677888888877   3322233443 367888888888888 6663  666677


Q ss_pred             CCCCCcEeecCCC-CCCC---CcccCCCC-CCCEEeecCC
Q 040933          255 LLSNLRTLSLCYC-KLLD---ISVTGELK-KLEILCLRGS  289 (298)
Q Consensus       255 ~L~~L~~L~l~~~-~l~~---p~~i~~L~-~L~~L~l~~~  289 (298)
                      .+++|++|++++| .++.   +..++.++ +|++|++++|
T Consensus       166 ~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~  205 (336)
T 2ast_B          166 SCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGY  205 (336)
T ss_dssp             HCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSC
T ss_pred             cCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCC
Confidence            7888888888888 6764   55677777 8888888887

>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=98.41  E-value=3.5e-08  Score=87.71  Aligned_cols=112  Identities=17%  Similarity=0.108  Sum_probs=77.6

Q ss_pred             ccCccEEEEeCCCCccCCCC----cCCCCCCCcEEecccccccccccccChHH------HhCCCCccEEEecCCCCCC--
Q 040933          181 VKLYTSIVLRDIKTNVLPDR----VLPECPQLKLFSVRADHQESSSLTIPNNF------FEKMIQVRVINLTYMNLLP--  248 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~----~~~~~~~L~~L~l~~~~~~~~~~~lp~~~------~~~l~~Lr~L~l~~~~i~~--  248 (298)
                      ...++.|.+.+|.+......    .+..+++|++|.++++..+.....+|..+      |..+++|++|++++|.+..  
T Consensus        31 ~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~  110 (386)
T 2ca6_A           31 DDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTA  110 (386)
T ss_dssp             CSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTTT
T ss_pred             CCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCCHHH
Confidence            45688888888877543111    24678889999888732112222344433      3678899999999998876  


Q ss_pred             ---CCccccCCCCCcEeecCCCCCCC--CcccC----CC---------CCCCEEeecCCCCC
Q 040933          249 ---LPSSLGLLSNLRTLSLCYCKLLD--ISVTG----EL---------KKLEILCLRGSDIQ  292 (298)
Q Consensus       249 ---lP~~i~~L~~L~~L~l~~~~l~~--p~~i~----~L---------~~L~~L~l~~~~l~  292 (298)
                         +|..+..+++|++|++++|.+..  +..++    .+         ++|++|++++|++.
T Consensus       111 ~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~  172 (386)
T 2ca6_A          111 QEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLE  172 (386)
T ss_dssp             HHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCT
T ss_pred             HHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCC
Confidence               67788888899999999988764  33333    33         78888888888775

>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=98.34  E-value=3.3e-08  Score=85.96  Aligned_cols=108  Identities=13%  Similarity=0.166  Sum_probs=82.1

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccc--cChHHHhCCCCccEEEecCC-CCCC--CCccccC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLT--IPNNFFEKMIQVRVINLTYM-NLLP--LPSSLGL  255 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~--lp~~~~~~l~~Lr~L~l~~~-~i~~--lP~~i~~  255 (298)
                      ..+++.+.+.+|.+.......+..+++|++|.+.+   +..+..  ++. .+..+++|++|++++| .++.  +|..++.
T Consensus       117 ~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~---~~~l~~~~l~~-~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~  192 (336)
T 2ast_B          117 CSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSG---CSGFSEFALQT-LLSSCSRLDELNLSWCFDFTEKHVQVAVAH  192 (336)
T ss_dssp             BCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTT---CBSCCHHHHHH-HHHHCTTCCEEECCCCTTCCHHHHHHHHHH
T ss_pred             CCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECCC---CCCCCHHHHHH-HHhcCCCCCEEcCCCCCCcChHHHHHHHHh
Confidence            46888999998877533222346689999999988   434442  443 3488999999999999 8875  6777888


Q ss_pred             CC-CCcEeecCCC--CCCC---CcccCCCCCCCEEeecCCC-CC
Q 040933          256 LS-NLRTLSLCYC--KLLD---ISVTGELKKLEILCLRGSD-IQ  292 (298)
Q Consensus       256 L~-~L~~L~l~~~--~l~~---p~~i~~L~~L~~L~l~~~~-l~  292 (298)
                      ++ +|++|++++|  .+..   |..++++++|++|++++|. +.
T Consensus       193 l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~  236 (336)
T 2ast_B          193 VSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLK  236 (336)
T ss_dssp             SCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCC
T ss_pred             cccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCCCcCC
Confidence            99 9999999999  4542   6777889999999999996 54

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=98.29  E-value=1.2e-07  Score=83.68  Aligned_cols=107  Identities=14%  Similarity=0.165  Sum_probs=61.1

Q ss_pred             CccEEEEeCCCCccCCCCcCCC-----CCCCcEEecccccccccccccChHH----HhCC-CCccEEEecCCCCCCCCc-
Q 040933          183 LYTSIVLRDIKTNVLPDRVLPE-----CPQLKLFSVRADHQESSSLTIPNNF----FEKM-IQVRVINLTYMNLLPLPS-  251 (298)
Q Consensus       183 ~~~~l~l~~~~~~~l~~~~~~~-----~~~L~~L~l~~~~~~~~~~~lp~~~----~~~l-~~Lr~L~l~~~~i~~lP~-  251 (298)
                      +++.|.+.+|.+.......+..     +++|+.|.+++    +.+...+...    +..+ ++|++|++++|.++..+. 
T Consensus        52 ~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~----n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~  127 (362)
T 3goz_A           52 SVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSG----NFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSS  127 (362)
T ss_dssp             TCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCS----SCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHH
T ss_pred             ceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcC----CcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHH
Confidence            5677777777665543322222     26677777776    3344333321    2333 677777777777766542 


Q ss_pred             cc----cC-CCCCcEeecCCCCCCC------CcccCCCC-CCCEEeecCCCCCC
Q 040933          252 SL----GL-LSNLRTLSLCYCKLLD------ISVTGELK-KLEILCLRGSDIQQ  293 (298)
Q Consensus       252 ~i----~~-L~~L~~L~l~~~~l~~------p~~i~~L~-~L~~L~l~~~~l~~  293 (298)
                      .+    .. ..+|++|++++|.+..      +..+..++ +|++|++++|++..
T Consensus       128 ~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~  181 (362)
T 3goz_A          128 EFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGNNLAS  181 (362)
T ss_dssp             HHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGG
T ss_pred             HHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEeeecCCCCch
Confidence            22    22 2467777777777663      23344454 77777777776654

>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=98.27  E-value=8.4e-08  Score=85.27  Aligned_cols=108  Identities=18%  Similarity=0.170  Sum_probs=78.1

Q ss_pred             cCccEEEEeCCCCc--cCCC--CcCCCCCCCcEEecccccccccccc-----cChHHHhCCCCccEEEecCCCC-----C
Q 040933          182 KLYTSIVLRDIKTN--VLPD--RVLPECPQLKLFSVRADHQESSSLT-----IPNNFFEKMIQVRVINLTYMNL-----L  247 (298)
Q Consensus       182 ~~~~~l~l~~~~~~--~l~~--~~~~~~~~L~~L~l~~~~~~~~~~~-----lp~~~~~~l~~Lr~L~l~~~~i-----~  247 (298)
                      ..++.|.+.+|.+.  .++.  ..+..+++|++|.+.+    +.+..     +.+..+..+++|++|++++|.+     .
T Consensus       159 ~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~----n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~  234 (386)
T 2ca6_A          159 PPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQ----NGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSS  234 (386)
T ss_dssp             CCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCS----SCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHH
T ss_pred             CCCcEEECCCCCCCcHHHHHHHHHHHhCCCcCEEECcC----CCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHH
Confidence            68888888888875  2221  1234677889998887    33331     2221347888999999999988     4


Q ss_pred             CCCccccCCCCCcEeecCCCCCCC------Cccc--CCCCCCCEEeecCCCCCC
Q 040933          248 PLPSSLGLLSNLRTLSLCYCKLLD------ISVT--GELKKLEILCLRGSDIQQ  293 (298)
Q Consensus       248 ~lP~~i~~L~~L~~L~l~~~~l~~------p~~i--~~L~~L~~L~l~~~~l~~  293 (298)
                      .+|..+..+++|++|++++|.+..      |..+  +++++|++|++++|.+..
T Consensus       235 ~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~  288 (386)
T 2ca6_A          235 ALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIEL  288 (386)
T ss_dssp             HHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBH
T ss_pred             HHHHHHccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCCcCCH
Confidence            478888888999999999998775      2344  458899999999988765

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=98.19  E-value=2.1e-07  Score=81.98  Aligned_cols=108  Identities=18%  Similarity=0.165  Sum_probs=82.4

Q ss_pred             ccCccEEEEeCCCCccCCC----CcCCCCC-CCcEEecccccccccccccChHHHhCC-----CCccEEEecCCCCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPD----RVLPECP-QLKLFSVRADHQESSSLTIPNNFFEKM-----IQVRVINLTYMNLLPLP  250 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~----~~~~~~~-~L~~L~l~~~~~~~~~~~lp~~~~~~l-----~~Lr~L~l~~~~i~~lP  250 (298)
                      +..++.|.+.+|.+...+.    ..+..++ +|+.|.+++    +.+.......|..+     ++|++|++++|.++..+
T Consensus        21 ~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~----N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~   96 (362)
T 3goz_A           21 PHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSG----NSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKS   96 (362)
T ss_dssp             CTTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCS----SCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSC
T ss_pred             CCCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcC----CCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHH
Confidence            4569999999999988775    3456777 899999998    45555544434443     99999999999998754


Q ss_pred             -cc----ccCC-CCCcEeecCCCCCCC-C-cc----cCCC-CCCCEEeecCCCCC
Q 040933          251 -SS----LGLL-SNLRTLSLCYCKLLD-I-SV----TGEL-KKLEILCLRGSDIQ  292 (298)
Q Consensus       251 -~~----i~~L-~~L~~L~l~~~~l~~-p-~~----i~~L-~~L~~L~l~~~~l~  292 (298)
                       ..    +..+ .+|++|++++|.+.. + ..    +..+ .+|++|++++|++.
T Consensus        97 ~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~  151 (362)
T 3goz_A           97 SDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLG  151 (362)
T ss_dssp             HHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGG
T ss_pred             HHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCC
Confidence             33    4444 799999999999877 3 33    3443 69999999999876

>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=98.17  E-value=3.4e-06  Score=73.19  Aligned_cols=100  Identities=13%  Similarity=0.114  Sum_probs=86.2

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCcc-EEEecCCCCCCCC-ccccCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVR-VINLTYMNLLPLP-SSLGLLSN  258 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr-~L~l~~~~i~~lP-~~i~~L~~  258 (298)
                      ...++.+.+.+|.+..++..+|.++++|+.+.+..    + +..+++..|..+.+|+ .+++.. +++.++ ..+..+.+
T Consensus       225 ~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~----n-i~~I~~~aF~~~~~L~~~l~l~~-~l~~I~~~aF~~c~~  298 (329)
T 3sb4_A          225 MPNLVSLDISKTNATTIPDFTFAQKKYLLKIKLPH----N-LKTIGQRVFSNCGRLAGTLELPA-SVTAIEFGAFMGCDN  298 (329)
T ss_dssp             CTTCCEEECTTBCCCEECTTTTTTCTTCCEEECCT----T-CCEECTTTTTTCTTCCEEEEECT-TCCEECTTTTTTCTT
T ss_pred             cCCCeEEECCCCCcceecHhhhhCCCCCCEEECCc----c-cceehHHHhhCChhccEEEEEcc-cceEEchhhhhCCcc
Confidence            46788999998889999999999999999999887    2 7889999899999999 999988 777764 67889999


Q ss_pred             CcEeecCCCCCCC--CcccCCCCCCCEEee
Q 040933          259 LRTLSLCYCKLLD--ISVTGELKKLEILCL  286 (298)
Q Consensus       259 L~~L~l~~~~l~~--p~~i~~L~~L~~L~l  286 (298)
                      |+.++++++.+..  +..|.++++|+.+..
T Consensus       299 L~~l~l~~n~i~~I~~~aF~~~~~L~~ly~  328 (329)
T 3sb4_A          299 LRYVLATGDKITTLGDELFGNGVPSKLIYK  328 (329)
T ss_dssp             EEEEEECSSCCCEECTTTTCTTCCCCEEEC
T ss_pred             CCEEEeCCCccCccchhhhcCCcchhhhcc
Confidence            9999999988888  567888999998864

>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=98.05  E-value=6.2e-07  Score=81.31  Aligned_cols=34  Identities=32%  Similarity=0.461  Sum_probs=16.6

Q ss_pred             CCcEeecCCCCCCC------CcccCCCCCCCEEeecCCCC
Q 040933          258 NLRTLSLCYCKLLD------ISVTGELKKLEILCLRGSDI  291 (298)
Q Consensus       258 ~L~~L~l~~~~l~~------p~~i~~L~~L~~L~l~~~~l  291 (298)
                      +|++|++++|.+..      +..+..+++|++|++++|.+
T Consensus       143 ~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i  182 (461)
T 1z7x_W          143 RLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNNDI  182 (461)
T ss_dssp             CCCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEECCSSBC
T ss_pred             cceEEECCCCCCCHHHHHHHHHHHhhCCCCCEEECcCCCc
Confidence            45555555554443      22333445555555555543

>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=97.95  E-value=9.2e-07  Score=80.16  Aligned_cols=109  Identities=19%  Similarity=0.190  Sum_probs=81.3

Q ss_pred             hccCccEEEEeCCCCcc-----CCCCcCCCCCCCcEEecccccccccccc-cChHHHhCCC----CccEEEecCCCCC--
Q 040933          180 AVKLYTSIVLRDIKTNV-----LPDRVLPECPQLKLFSVRADHQESSSLT-IPNNFFEKMI----QVRVINLTYMNLL--  247 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~-----l~~~~~~~~~~L~~L~l~~~~~~~~~~~-lp~~~~~~l~----~Lr~L~l~~~~i~--  247 (298)
                      ..++++.+.+.+|.+..     ++. .+..+++|++|.+++    +.+.. .+..++..++    +|++|++++|.++  
T Consensus        26 ~~~~L~~L~L~~~~l~~~~~~~l~~-~l~~~~~L~~L~Ls~----n~l~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~  100 (461)
T 1z7x_W           26 LLQQCQVVRLDDCGLTEARCKDISS-ALRVNPALAELNLRS----NELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGA  100 (461)
T ss_dssp             HHTTCSEEEEESSCCCHHHHHHHHH-HHHTCTTCCEEECTT----CCCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGG
T ss_pred             hcCCccEEEccCCCCCHHHHHHHHH-HHHhCCCcCEEeCCC----CcCChHHHHHHHHHHhhCCCceeEEEccCCCCCHH
Confidence            45689999999998763     232 246678999999988    33333 3444555666    6999999999988  


Q ss_pred             ---CCCccccCCCCCcEeecCCCCCCC--CcccC-----CCCCCCEEeecCCCCCC
Q 040933          248 ---PLPSSLGLLSNLRTLSLCYCKLLD--ISVTG-----ELKKLEILCLRGSDIQQ  293 (298)
Q Consensus       248 ---~lP~~i~~L~~L~~L~l~~~~l~~--p~~i~-----~L~~L~~L~l~~~~l~~  293 (298)
                         .+|..+..+++|++|++++|.+..  +..+.     ..++|++|++++|++..
T Consensus       101 ~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~  156 (461)
T 1z7x_W          101 GCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSA  156 (461)
T ss_dssp             GHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBG
T ss_pred             HHHHHHHHHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCCCCH
Confidence               368888999999999999999875  43332     35689999999998764

>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=97.88  E-value=1.7e-05  Score=68.75  Aligned_cols=87  Identities=21%  Similarity=0.206  Sum_probs=76.8

Q ss_pred             CCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCCc-EeecCCCCCCC--CcccCCCCC
Q 040933          205 CPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNLR-TLSLCYCKLLD--ISVTGELKK  280 (298)
Q Consensus       205 ~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L~-~L~l~~~~l~~--p~~i~~L~~  280 (298)
                      +++|+++.+.+    +.+..+|+..|..+.+|+.+++..+ ++.++ ..+..+.+|+ .+.+.+ .++.  +..|..+.+
T Consensus       225 ~~~L~~l~L~~----n~i~~I~~~aF~~~~~L~~l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~-~l~~I~~~aF~~c~~  298 (329)
T 3sb4_A          225 MPNLVSLDISK----TNATTIPDFTFAQKKYLLKIKLPHN-LKTIGQRVFSNCGRLAGTLELPA-SVTAIEFGAFMGCDN  298 (329)
T ss_dssp             CTTCCEEECTT----BCCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEEECT-TCCEECTTTTTTCTT
T ss_pred             cCCCeEEECCC----CCcceecHhhhhCCCCCCEEECCcc-cceehHHHhhCChhccEEEEEcc-cceEEchhhhhCCcc
Confidence            78999999987    6688999999999999999999997 77775 5688999999 999998 7777  688999999


Q ss_pred             CCEEeecCCCCCCCCCC
Q 040933          281 LEILCLRGSDIQQLPVE  297 (298)
Q Consensus       281 L~~L~l~~~~l~~lP~~  297 (298)
                      |+.++++++++..++..
T Consensus       299 L~~l~l~~n~i~~I~~~  315 (329)
T 3sb4_A          299 LRYVLATGDKITTLGDE  315 (329)
T ss_dssp             EEEEEECSSCCCEECTT
T ss_pred             CCEEEeCCCccCccchh
Confidence            99999999988887753

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=97.88  E-value=5e-06  Score=65.12  Aligned_cols=84  Identities=15%  Similarity=0.225  Sum_probs=58.6

Q ss_pred             CCCcEEecccccccccccccChHHHhCCCCccEEEecCC-CCCCC-CccccCC----CCCcEeecCCCC-CCC--CcccC
Q 040933          206 PQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYM-NLLPL-PSSLGLL----SNLRTLSLCYCK-LLD--ISVTG  276 (298)
Q Consensus       206 ~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~-~i~~l-P~~i~~L----~~L~~L~l~~~~-l~~--p~~i~  276 (298)
                      .+|+.|++++   +. +....-..+..+++|+.|+|++| .|+.- -..++.+    .+|++|++++|. ++.  ...+.
T Consensus        61 ~~L~~LDLs~---~~-Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L~  136 (176)
T 3e4g_A           61 YKIQAIDATD---SC-IMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALH  136 (176)
T ss_dssp             CCEEEEEEES---CC-CCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGG
T ss_pred             ceEeEEeCcC---CC-ccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHHHh
Confidence            4678888887   33 33322222478889999999998 56641 1345554    368999999987 777  66778


Q ss_pred             CCCCCCEEeecCC-CCCC
Q 040933          277 ELKKLEILCLRGS-DIQQ  293 (298)
Q Consensus       277 ~L~~L~~L~l~~~-~l~~  293 (298)
                      ++++|++|++++| +++.
T Consensus       137 ~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          137 HFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             GCTTCCEEEEESCTTCCC
T ss_pred             cCCCCCEEECCCCCCCCc
Confidence            8899999999998 4653

>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=97.87  E-value=1e-05  Score=67.99  Aligned_cols=77  Identities=19%  Similarity=0.229  Sum_probs=43.3

Q ss_pred             CCCCCcEEecccccccccccccCh--HHHhCCCCccEEEecCCCCCCCCccccCCC--CCcEeecCCCCCCC--C-----
Q 040933          204 ECPQLKLFSVRADHQESSSLTIPN--NFFEKMIQVRVINLTYMNLLPLPSSLGLLS--NLRTLSLCYCKLLD--I-----  272 (298)
Q Consensus       204 ~~~~L~~L~l~~~~~~~~~~~lp~--~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~--~L~~L~l~~~~l~~--p-----  272 (298)
                      .+++|++|.+++    +.+..++.  ..+..+++|++|+|++|.|..+ ..+..+.  +|+.|+|++|++..  |     
T Consensus       168 ~l~~L~~L~Ls~----N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~-~~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y  242 (267)
T 3rw6_A          168 NIPELLSLNLSN----NRLYRLDDMSSIVQKAPNLKILNLSGNELKSE-RELDKIKGLKLEELWLDGNSLCDTFRDQSTY  242 (267)
T ss_dssp             HCTTCCEEECTT----SCCCCCGGGTTHHHHSTTCCEEECTTSCCCSG-GGGGGGTTSCCSEEECTTSTTGGGCSSHHHH
T ss_pred             hCCCCCEEECCC----CCCCCCccchhHHhhCCCCCEEECCCCccCCc-hhhhhcccCCcceEEccCCcCccccCcchhH
Confidence            355666666666    33333321  2235666777777777766665 2344444  66677777766553  2     


Q ss_pred             --cccCCCCCCCEEe
Q 040933          273 --SVTGELKKLEILC  285 (298)
Q Consensus       273 --~~i~~L~~L~~L~  285 (298)
                        ..+..+++|+.||
T Consensus       243 ~~~il~~~P~L~~LD  257 (267)
T 3rw6_A          243 ISAIRERFPKLLRLD  257 (267)
T ss_dssp             HHHHHHHCTTCCEES
T ss_pred             HHHHHHHCcccCeEC
Confidence              1255666666665

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=97.83  E-value=2.6e-06  Score=75.33  Aligned_cols=106  Identities=16%  Similarity=0.101  Sum_probs=76.2

Q ss_pred             cCccEEEEeCCCCccCCCCcC-----CCCCCCcEEecccccccccccc-----cChHHHhCCCCccEEEecCCCCCC---
Q 040933          182 KLYTSIVLRDIKTNVLPDRVL-----PECPQLKLFSVRADHQESSSLT-----IPNNFFEKMIQVRVINLTYMNLLP---  248 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~-----~~~~~L~~L~l~~~~~~~~~~~-----lp~~~~~~l~~Lr~L~l~~~~i~~---  248 (298)
                      .+++.|.+.+|.+.......+     ...++|++|.+++    +.+..     ++.. +...++|++|+|++|.+..   
T Consensus       126 ~~L~~L~Ls~n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~----n~l~~~~~~~l~~~-L~~~~~L~~L~Ls~N~l~~~g~  200 (372)
T 3un9_A          126 LRARKLGLQLNSLGPEACKDLRDLLLHDQCQITTLRLSN----NPLTAAGVAVLMEG-LAGNTSVTHLSLLHTGLGDEGL  200 (372)
T ss_dssp             HTEEEEECCSSCCCHHHHHHHHHHHHSTTCCCCEEECCS----SCCHHHHHHHHHHH-HHTCSSCCEEECTTSSCHHHHH
T ss_pred             HhccHhhcCCCCCCHHHHHHHHHHHHhcCCccceeeCCC----CCCChHHHHHHHHH-HhcCCCcCEEeCCCCCCCcHHH
Confidence            468889999888753221111     2457899999988    33432     3332 3678899999999998864   


Q ss_pred             --CCccccCCCCCcEeecCCCCCCC--C----cccCCCCCCCEEeecCCCCC
Q 040933          249 --LPSSLGLLSNLRTLSLCYCKLLD--I----SVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       249 --lP~~i~~L~~L~~L~l~~~~l~~--p----~~i~~L~~L~~L~l~~~~l~  292 (298)
                        ++..+....+|++|++++|.++.  .    ..+...++|++|++++|.|.
T Consensus       201 ~~L~~~L~~~~~L~~L~Ls~N~i~~~g~~~l~~~L~~~~~L~~L~Ls~N~i~  252 (372)
T 3un9_A          201 ELLAAQLDRNRQLQELNVAYNGAGDTAALALARAAREHPSLELLHLYFNELS  252 (372)
T ss_dssp             HHHHHHGGGCSCCCEEECCSSCCCHHHHHHHHHHHHHCSSCCEEECTTSSCC
T ss_pred             HHHHHHHhcCCCcCeEECCCCCCCHHHHHHHHHHHHhCCCCCEEeccCCCCC
Confidence              45667777889999999999875  2    34556688999999999775

>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=97.80  E-value=2e-05  Score=66.20  Aligned_cols=62  Identities=29%  Similarity=0.320  Sum_probs=52.9

Q ss_pred             hCCCCccEEEecCCCCCCCC---ccccCCCCCcEeecCCCCCCCCcccCCCC--CCCEEeecCCCCC
Q 040933          231 EKMIQVRVINLTYMNLLPLP---SSLGLLSNLRTLSLCYCKLLDISVTGELK--KLEILCLRGSDIQ  292 (298)
Q Consensus       231 ~~l~~Lr~L~l~~~~i~~lP---~~i~~L~~L~~L~l~~~~l~~p~~i~~L~--~L~~L~l~~~~l~  292 (298)
                      ..+++|+.|+|++|.+..++   ..++.+++|++|+|++|.+.....+..+.  +|++|++++|.+.
T Consensus       167 ~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~~~l~~l~~l~L~~L~L~~Npl~  233 (267)
T 3rw6_A          167 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLC  233 (267)
T ss_dssp             HHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSGGGGGGGTTSCCSEEECTTSTTG
T ss_pred             hhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCchhhhhcccCCcceEEccCCcCc
Confidence            67899999999999998854   56778999999999999998854555555  9999999999875

>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=97.77  E-value=4.7e-06  Score=77.97  Aligned_cols=112  Identities=19%  Similarity=0.165  Sum_probs=73.6

Q ss_pred             ccCccEEEEe----CCCCccCCCC-----cCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCC--C
Q 040933          181 VKLYTSIVLR----DIKTNVLPDR-----VLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLP--L  249 (298)
Q Consensus       181 ~~~~~~l~l~----~~~~~~l~~~-----~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~--l  249 (298)
                      .++++.+.+.    .+.+...|..     .+..+++|+.|.+..+. +......+..+...+++|++|++++|+++.  +
T Consensus       402 ~~~L~~L~l~~~~~~n~l~~~p~~~~~~~~~~~~~~L~~L~L~~~~-~~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~  480 (592)
T 3ogk_B          402 LKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQ-GGLTDLGLSYIGQYSPNVRWMLLGYVGESDEGL  480 (592)
T ss_dssp             CCSCCEEEEEECSCCSCCSSCCCHHHHHHHHHHCTTCCEEEEECCG-GGCCHHHHHHHHHSCTTCCEEEECSCCSSHHHH
T ss_pred             CCCCcEEEEeecCCCccccCchHHHHHHHHHHhCCCCCEEEEecCC-CCccHHHHHHHHHhCccceEeeccCCCCCHHHH
Confidence            3456666664    3344432211     12447788888875411 111222233344568899999999998875  5


Q ss_pred             CccccCCCCCcEeecCCCCCCC---CcccCCCCCCCEEeecCCCCCC
Q 040933          250 PSSLGLLSNLRTLSLCYCKLLD---ISVTGELKKLEILCLRGSDIQQ  293 (298)
Q Consensus       250 P~~i~~L~~L~~L~l~~~~l~~---p~~i~~L~~L~~L~l~~~~l~~  293 (298)
                      |..+..+++|++|++++|.++.   +..+..+++|++|++++|++..
T Consensus       481 ~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~ls~n~it~  527 (592)
T 3ogk_B          481 MEFSRGCPNLQKLEMRGCCFSERAIAAAVTKLPSLRYLWVQGYRASM  527 (592)
T ss_dssp             HHHHTCCTTCCEEEEESCCCBHHHHHHHHHHCSSCCEEEEESCBCCT
T ss_pred             HHHHhcCcccCeeeccCCCCcHHHHHHHHHhcCccCeeECcCCcCCH
Confidence            6667888999999999999765   3445678999999999998653

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=97.64  E-value=3.2e-06  Score=74.83  Aligned_cols=107  Identities=15%  Similarity=0.083  Sum_probs=78.0

Q ss_pred             cCccEEEEeCCCCccCCC-CcCCCCCCCcEEecccccccccccccChHHH-----hCCCCccEEEecCCCCCC-----CC
Q 040933          182 KLYTSIVLRDIKTNVLPD-RVLPECPQLKLFSVRADHQESSSLTIPNNFF-----EKMIQVRVINLTYMNLLP-----LP  250 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~-~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~-----~~l~~Lr~L~l~~~~i~~-----lP  250 (298)
                      ..++.+.+.+|.+..... .+...+++|+.|++++    +.+.......+     ...++|+.|+|++|.++.     ++
T Consensus       101 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~----n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~  176 (372)
T 3un9_A          101 HALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQL----NSLGPEACKDLRDLLLHDQCQITTLRLSNNPLTAAGVAVLM  176 (372)
T ss_dssp             SCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCS----SCCCHHHHHHHHHHHHSTTCCCCEEECCSSCCHHHHHHHHH
T ss_pred             CCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCC----CCCCHHHHHHHHHHHHhcCCccceeeCCCCCCChHHHHHHH
Confidence            578899999988753211 1123456899999998    34433222222     346889999999999865     55


Q ss_pred             ccccCCCCCcEeecCCCCCCC------CcccCCCCCCCEEeecCCCCC
Q 040933          251 SSLGLLSNLRTLSLCYCKLLD------ISVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       251 ~~i~~L~~L~~L~l~~~~l~~------p~~i~~L~~L~~L~l~~~~l~  292 (298)
                      ..+...++|++|+|++|.+..      +..+...++|++|++++|+|.
T Consensus       177 ~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~i~  224 (372)
T 3un9_A          177 EGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNGAG  224 (372)
T ss_dssp             HHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSCCC
T ss_pred             HHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCCCC
Confidence            566788999999999999875      345677889999999999876

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=97.56  E-value=0.00025  Score=63.23  Aligned_cols=111  Identities=14%  Similarity=0.128  Sum_probs=80.0

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccc-cccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCC
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQ-ESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNL  259 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~-~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L  259 (298)
                      ..++.+.+. +.+..++..+|..+++|+.+.+.+... ......++...|..+.+|+.+++.. +++.++ ..+..+.+|
T Consensus       248 ~~L~~i~lp-~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~~-~i~~I~~~aF~~c~~L  325 (401)
T 4fdw_A          248 SGITTVKLP-NGVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIPE-SIRILGQGLLGGNRKV  325 (401)
T ss_dssp             CCCSEEEEE-TTCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCCT-TCCEECTTTTTTCCSC
T ss_pred             CCccEEEeC-CCccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeCC-ceEEEhhhhhcCCCCc
Confidence            356777773 457778888888899999998876210 1122357888888899999998884 476664 567778889


Q ss_pred             cEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          260 RTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       260 ~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      +.+.+..+ ++.  ...|..+ +|+.+++.++.+..++.
T Consensus       326 ~~l~lp~~-l~~I~~~aF~~~-~L~~l~l~~n~~~~l~~  362 (401)
T 4fdw_A          326 TQLTIPAN-VTQINFSAFNNT-GIKEVKVEGTTPPQVFE  362 (401)
T ss_dssp             CEEEECTT-CCEECTTSSSSS-CCCEEEECCSSCCBCCC
T ss_pred             cEEEECcc-ccEEcHHhCCCC-CCCEEEEcCCCCccccc
Confidence            99988554 655  5677777 89999998887666553

>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=97.35  E-value=6.5e-05  Score=70.12  Aligned_cols=85  Identities=13%  Similarity=0.229  Sum_probs=55.9

Q ss_pred             CCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-Cccc-cCCCCCcEeecCCCCCCC--C-cccCC
Q 040933          203 PECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSL-GLLSNLRTLSLCYCKLLD--I-SVTGE  277 (298)
Q Consensus       203 ~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i-~~L~~L~~L~l~~~~l~~--p-~~i~~  277 (298)
                      ..+++|+.|.+.+    ......+..+...+++|++|++++|.++.. +..+ ..+++|++|++++|.++.  + ..+..
T Consensus       429 ~~~~~L~~L~L~~----~l~~~~~~~l~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~L~~L~L~~n~~~~~~~~~~~~~  504 (594)
T 2p1m_B          429 EHCKDLRRLSLSG----LLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMHHVLSGCDSLRKLEIRDCPFGDKALLANASK  504 (594)
T ss_dssp             HHCTTCCEEECCS----SCCHHHHHHHHHHCTTCCEEEEESCCSSHHHHHHHHHHCTTCCEEEEESCSCCHHHHHHTGGG
T ss_pred             hhCCCccEEeecC----cccHHHHHHHHHhchhccEeeccCCCCcHHHHHHHHhcCCCcCEEECcCCCCcHHHHHHHHHh
Confidence            3456777777744    111122223323478888999988887542 2233 568889999999999855  3 34556


Q ss_pred             CCCCCEEeecCCCC
Q 040933          278 LKKLEILCLRGSDI  291 (298)
Q Consensus       278 L~~L~~L~l~~~~l  291 (298)
                      +++|++|++++|++
T Consensus       505 l~~L~~L~l~~~~~  518 (594)
T 2p1m_B          505 LETMRSLWMSSCSV  518 (594)
T ss_dssp             GGGSSEEEEESSCC
T ss_pred             CCCCCEEeeeCCCC
Confidence            88999999999865

>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=97.27  E-value=9.3e-05  Score=69.09  Aligned_cols=57  Identities=11%  Similarity=0.109  Sum_probs=30.2

Q ss_pred             ccCccEEEEeCCCCccCCCC----cCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEec
Q 040933          181 VKLYTSIVLRDIKTNVLPDR----VLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLT  242 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~----~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~  242 (298)
                      ...++.|.+..+.+..+...    ++..+++|++|.+.+    +....+|. .+..+++|+.|+++
T Consensus       191 ~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~----~~~~~l~~-~~~~~~~L~~L~l~  251 (592)
T 3ogk_B          191 NTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGD----FEILELVG-FFKAAANLEEFCGG  251 (592)
T ss_dssp             CCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSS----CBGGGGHH-HHHHCTTCCEEEEC
T ss_pred             CCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccC----ccHHHHHH-HHhhhhHHHhhccc
Confidence            35677777776666522211    123466777777766    23333443 23555555555555

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=97.17  E-value=0.00026  Score=55.30  Aligned_cols=86  Identities=9%  Similarity=-0.046  Sum_probs=62.8

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCC----CCccEEEecCC-CCCC--CCcccc
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKM----IQVRVINLTYM-NLLP--LPSSLG  254 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l----~~Lr~L~l~~~-~i~~--lP~~i~  254 (298)
                      -.++.+.++++.+....-..+..+++|+.|.+.+   +..++.-.-..+..+    ++|++|++++| +|+.  + ..+.
T Consensus        61 ~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~---C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl-~~L~  136 (176)
T 3e4g_A           61 YKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCK---CHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGI-IALH  136 (176)
T ss_dssp             CCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEES---CTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHH-HHGG
T ss_pred             ceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCC---CCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHH-HHHh
Confidence            4689999999887543222347899999999998   554443222223443    47999999999 5876  3 3577


Q ss_pred             CCCCCcEeecCCCC-CCC
Q 040933          255 LLSNLRTLSLCYCK-LLD  271 (298)
Q Consensus       255 ~L~~L~~L~l~~~~-l~~  271 (298)
                      .+++|++|++++|+ ++.
T Consensus       137 ~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          137 HFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             GCTTCCEEEEESCTTCCC
T ss_pred             cCCCCCEEECCCCCCCCc
Confidence            89999999999998 765

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.17  E-value=0.00015  Score=57.28  Aligned_cols=105  Identities=14%  Similarity=0.072  Sum_probs=75.7

Q ss_pred             ccCccEEEEeCC-CCcc-----CCCCcCCCCCCCcEEecccccccccccc-----cChHHHhCCCCccEEEecCCCCCC-
Q 040933          181 VKLYTSIVLRDI-KTNV-----LPDRVLPECPQLKLFSVRADHQESSSLT-----IPNNFFEKMIQVRVINLTYMNLLP-  248 (298)
Q Consensus       181 ~~~~~~l~l~~~-~~~~-----l~~~~~~~~~~L~~L~l~~~~~~~~~~~-----lp~~~~~~l~~Lr~L~l~~~~i~~-  248 (298)
                      ...++.|.+.+| .+..     +.. .+...++|++|.+++    +.+..     +... +...+.|++|+|++|.|.. 
T Consensus        35 ~~~L~~L~L~~n~~i~~~g~~~l~~-~L~~~~~L~~L~Ls~----n~i~~~g~~~l~~~-L~~n~~L~~L~L~~N~i~~~  108 (185)
T 1io0_A           35 DPDLEEVNLNNIMNIPVPTLKACAE-ALKTNTYVKKFSIVG----TRSNDPVAFALAEM-LKVNNTLKSLNVESNFISGS  108 (185)
T ss_dssp             CTTCCEEECTTCTTCCHHHHHHHHH-HHTTCCSCCEEECTT----SCCCHHHHHHHHHH-HHHCSSCCEEECCSSCCCHH
T ss_pred             CCCCCEEEecCCCCCCHHHHHHHHH-HHHhCCCcCEEECcC----CCCChHHHHHHHHH-HHhCCCcCEEECcCCcCCHH
Confidence            467899999988 7742     222 135568899999988    33322     2222 3667889999999999875 


Q ss_pred             ----CCccccCCCCCcEeec--CCCCCCC--C----cccCCCCCCCEEeecCCCC
Q 040933          249 ----LPSSLGLLSNLRTLSL--CYCKLLD--I----SVTGELKKLEILCLRGSDI  291 (298)
Q Consensus       249 ----lP~~i~~L~~L~~L~l--~~~~l~~--p----~~i~~L~~L~~L~l~~~~l  291 (298)
                          +...+....+|++|++  ++|.+..  .    ..+...++|++|++++|.+
T Consensus       109 g~~~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i  163 (185)
T 1io0_A          109 GILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQ  163 (185)
T ss_dssp             HHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSH
T ss_pred             HHHHHHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCC
Confidence                5667777888999999  7888876  2    3445558899999998865

>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=97.15  E-value=5.2e-05  Score=70.81  Aligned_cols=105  Identities=10%  Similarity=0.036  Sum_probs=58.3

Q ss_pred             cCccEEEEeCCCCccCCCCcC-CCCCCCcEEecccccccccccc-cChHHHhCCCCccEEEecCCCCCC-----CCcccc
Q 040933          182 KLYTSIVLRDIKTNVLPDRVL-PECPQLKLFSVRADHQESSSLT-IPNNFFEKMIQVRVINLTYMNLLP-----LPSSLG  254 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~-~~~~~L~~L~l~~~~~~~~~~~-lp~~~~~~l~~Lr~L~l~~~~i~~-----lP~~i~  254 (298)
                      ..++.+.+.++.+.......+ ..+++|++|.+.+   +..+.. ....++..+++|++|++++|.++.     ++....
T Consensus       105 ~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~---~~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~  181 (594)
T 2p1m_B          105 TWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSS---CEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPD  181 (594)
T ss_dssp             TTCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEES---CEEEEHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCT
T ss_pred             CCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCC---cCCCCHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhh
Confidence            467777777766543211111 2467777777776   323322 122333567778888877776544     222233


Q ss_pred             CCCCCcEeecCCCC--CCC---CcccCCCCCCCEEeecCC
Q 040933          255 LLSNLRTLSLCYCK--LLD---ISVTGELKKLEILCLRGS  289 (298)
Q Consensus       255 ~L~~L~~L~l~~~~--l~~---p~~i~~L~~L~~L~l~~~  289 (298)
                      .+++|++|++++|.  +..   +.-+.++++|++|++++|
T Consensus       182 ~~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~  221 (594)
T 2p1m_B          182 TYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRA  221 (594)
T ss_dssp             TCCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTT
T ss_pred             cCCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCC
Confidence            55677777777775  221   112234577777777766

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.13  E-value=3.4e-05  Score=61.11  Aligned_cols=87  Identities=10%  Similarity=0.064  Sum_probs=60.8

Q ss_pred             CCCCCCCcEEecccccccccccc-----cChHHHhCCCCccEEEecCCCCCC-----CCccccCCCCCcEeecCCCCCCC
Q 040933          202 LPECPQLKLFSVRADHQESSSLT-----IPNNFFEKMIQVRVINLTYMNLLP-----LPSSLGLLSNLRTLSLCYCKLLD  271 (298)
Q Consensus       202 ~~~~~~L~~L~l~~~~~~~~~~~-----lp~~~~~~l~~Lr~L~l~~~~i~~-----lP~~i~~L~~L~~L~l~~~~l~~  271 (298)
                      +...+.|+.|.+.+   +..+..     +... +...++|++|+|++|.+..     +...+....+|++|+|++|.+..
T Consensus        32 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           32 QNNDPDLEEVNLNN---IMNIPVPTLKACAEA-LKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISG  107 (185)
T ss_dssp             HTTCTTCCEEECTT---CTTCCHHHHHHHHHH-HTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCH
T ss_pred             HhcCCCCCEEEecC---CCCCCHHHHHHHHHH-HHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCH
Confidence            35678888888887   313322     2222 3667889999999998764     34455566788999999988876


Q ss_pred             ------CcccCCCCCCCEEee--cCCCCC
Q 040933          272 ------ISVTGELKKLEILCL--RGSDIQ  292 (298)
Q Consensus       272 ------p~~i~~L~~L~~L~l--~~~~l~  292 (298)
                            ...+...++|++|++  ++|.+.
T Consensus       108 ~g~~~l~~~L~~n~~L~~L~L~~~~N~i~  136 (185)
T 1io0_A          108 SGILALVEALQSNTSLIELRIDNQSQPLG  136 (185)
T ss_dssp             HHHHHHHHGGGGCSSCCEEECCCCSSCCC
T ss_pred             HHHHHHHHHHHhCCCceEEEecCCCCCCC
Confidence                  245667778999999  667664

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=96.88  E-value=0.0011  Score=58.25  Aligned_cols=112  Identities=10%  Similarity=0.097  Sum_probs=61.2

Q ss_pred             ccCccEEEEeCCCCccCCCC--cCCCCCCCcEEeccccc----ccccccccChHHH-hCCCCccEEEecCCCCCC-CCcc
Q 040933          181 VKLYTSIVLRDIKTNVLPDR--VLPECPQLKLFSVRADH----QESSSLTIPNNFF-EKMIQVRVINLTYMNLLP-LPSS  252 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~--~~~~~~~L~~L~l~~~~----~~~~~~~lp~~~~-~~l~~Lr~L~l~~~~i~~-lP~~  252 (298)
                      ..++++|.+..+.+..-.-.  ....+++|+.|.+....    +......+...+- ..+++|++|++.+|.+.. .+..
T Consensus       192 ~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~  271 (362)
T 2ra8_A          192 RPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEM  271 (362)
T ss_dssp             CTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEESCTTHHHHHHH
T ss_pred             CCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCCCCCchHHHHH
Confidence            45677777766554311000  01256777777764210    0011111111110 246788888888877653 1111


Q ss_pred             c---cCCCCCcEeecCCCCCCC--C----cccCCCCCCCEEeecCCCCC
Q 040933          253 L---GLLSNLRTLSLCYCKLLD--I----SVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       253 i---~~L~~L~~L~l~~~~l~~--p----~~i~~L~~L~~L~l~~~~l~  292 (298)
                      +   +.+++|++|+|+.|.+..  +    ..+.++++|+.|++++|.+.
T Consensus       272 la~a~~~~~L~~LdLs~n~L~d~G~~~L~~~L~~l~~L~~L~L~~n~i~  320 (362)
T 2ra8_A          272 FLESDILPQLETMDISAGVLTDEGARLLLDHVDKIKHLKFINMKYNYLS  320 (362)
T ss_dssp             HHHCSSGGGCSEEECCSSCCBHHHHHHHHTTHHHHTTCSEEECCSBBCC
T ss_pred             HHhCccCCCCCEEECCCCCCChHHHHHHHhhcccCCcceEEECCCCcCC
Confidence            2   346778888888887765  2    23356688888888877654

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=96.84  E-value=0.00014  Score=63.91  Aligned_cols=107  Identities=11%  Similarity=0.185  Sum_probs=68.2

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHH-hCCCCccEEEecCC--C------CCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFF-EKMIQVRVINLTYM--N------LLPLP  250 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~-~~l~~Lr~L~l~~~--~------i~~lP  250 (298)
                      ..+.++.|.+.++.-..++.   ...++|+.|.+..   +.........+. ..+++|+.|+|+.+  .      +..+.
T Consensus       170 ~~P~L~~L~L~g~~~l~l~~---~~~~~L~~L~L~~---~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~  243 (362)
T 2ra8_A          170 AMPLLNNLKIKGTNNLSIGK---KPRPNLKSLEIIS---GGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFR  243 (362)
T ss_dssp             TCTTCCEEEEECCBTCBCCS---CBCTTCSEEEEEC---SBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTG
T ss_pred             cCCCCcEEEEeCCCCceecc---ccCCCCcEEEEec---CCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHH
Confidence            34689999998874334444   2378999999876   221111111221 36899999998632  1      22222


Q ss_pred             ccc--cCCCCCcEeecCCCCCCC--Cccc---CCCCCCCEEeecCCCCC
Q 040933          251 SSL--GLLSNLRTLSLCYCKLLD--ISVT---GELKKLEILCLRGSDIQ  292 (298)
Q Consensus       251 ~~i--~~L~~L~~L~l~~~~l~~--p~~i---~~L~~L~~L~l~~~~l~  292 (298)
                      ..+  +.+++|++|++++|.+..  +..+   +.+++|++|+|+.|.+.
T Consensus       244 ~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~L~  292 (362)
T 2ra8_A          244 PLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLT  292 (362)
T ss_dssp             GGSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSCCB
T ss_pred             HHHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCCCC
Confidence            222  357899999999998764  2222   36789999999988765

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=96.76  E-value=0.0031  Score=56.09  Aligned_cols=98  Identities=11%  Similarity=0.139  Sum_probs=59.9

Q ss_pred             CccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcEe
Q 040933          183 LYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTL  262 (298)
Q Consensus       183 ~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L  262 (298)
                      +++.+.+..+ +..+....|.++ +|+.+.+..     .+..++...|..+.+|+.++++.++++.+|.......+|+.+
T Consensus       136 ~L~~i~l~~~-i~~I~~~aF~~~-~L~~i~lp~-----~l~~I~~~aF~~c~~L~~l~l~~n~l~~I~~~aF~~~~L~~l  208 (401)
T 4fdw_A          136 QIAKVVLNEG-LKSIGDMAFFNS-TVQEIVFPS-----TLEQLKEDIFYYCYNLKKADLSKTKITKLPASTFVYAGIEEV  208 (401)
T ss_dssp             CCSEEECCTT-CCEECTTTTTTC-CCCEEECCT-----TCCEECSSTTTTCTTCCEEECTTSCCSEECTTTTTTCCCSEE
T ss_pred             CccEEEeCCC-ccEECHHhcCCC-CceEEEeCC-----CccEehHHHhhCcccCCeeecCCCcceEechhhEeecccCEE
Confidence            3555554433 555665555553 566666543     455666666777788888888777777766554445667777


Q ss_pred             ecCCCCCCC--CcccCCCCCCCEEeecC
Q 040933          263 SLCYCKLLD--ISVTGELKKLEILCLRG  288 (298)
Q Consensus       263 ~l~~~~l~~--p~~i~~L~~L~~L~l~~  288 (298)
                      .+..+ +..  ...+..+.+|+.+++..
T Consensus       209 ~lp~~-l~~I~~~aF~~~~~L~~l~l~~  235 (401)
T 4fdw_A          209 LLPVT-LKEIGSQAFLKTSQLKTIEIPE  235 (401)
T ss_dssp             ECCTT-CCEECTTTTTTCTTCCCEECCT
T ss_pred             EeCCc-hheehhhHhhCCCCCCEEecCC
Confidence            76633 444  44566666666666654

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=96.67  E-value=0.0033  Score=46.53  Aligned_cols=48  Identities=27%  Similarity=0.255  Sum_probs=32.5

Q ss_pred             cccc--ccChHHHhCCCCccEEEecCCCCCCCCcc-ccCCCCCcEeecCCCCCC
Q 040933          220 SSSL--TIPNNFFEKMIQVRVINLTYMNLLPLPSS-LGLLSNLRTLSLCYCKLL  270 (298)
Q Consensus       220 ~~~~--~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~-i~~L~~L~~L~l~~~~l~  270 (298)
                      ..+.  .+|..   -..+|+.|+|++|+|+.+|.. +..+.+|++|+|++|++.
T Consensus        18 ~~L~~~~vP~~---lp~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~~   68 (130)
T 3rfe_A           18 RGLTWASLPTA---FPVDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPWR   68 (130)
T ss_dssp             SCCCTTTSCSC---CCTTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCCB
T ss_pred             CCCccccCCCC---CCcCCCEEECCCCcCCccChhhhhhccccCEEEecCCCee
Confidence            4444  66653   234578888888888887643 566778888888877643

>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=95.55  E-value=0.038  Score=48.26  Aligned_cols=98  Identities=14%  Similarity=0.151  Sum_probs=66.3

Q ss_pred             CccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCCcE
Q 040933          183 LYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNLRT  261 (298)
Q Consensus       183 ~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L~~  261 (298)
                      .++.+.+..+ +..+....|..+.+|+.+.+..     .+..++...|..+.+|+.+.+..+.++.++ ..+.++.+|+.
T Consensus       241 ~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~-----~i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~~aF~~c~~L~~  314 (379)
T 4h09_A          241 ALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYA-----KVKTVPYLLCSGCSNLTKVVMDNSAIETLEPRVFMDCVKLSS  314 (379)
T ss_dssp             SCCEEEECTT-CCEECTTTTTTCTTCCEEEECC-----CCSEECTTTTTTCTTCCEEEECCTTCCEECTTTTTTCTTCCE
T ss_pred             cceEEEcCCC-ccEeCccccceeehhccccccc-----cceeccccccccccccccccccccccceehhhhhcCCCCCCE
Confidence            3444554432 4555555666677777776643     456677777888888988888888887764 45778888888


Q ss_pred             eecCCCCCCC--CcccCCCCCCCEEeec
Q 040933          262 LSLCYCKLLD--ISVTGELKKLEILCLR  287 (298)
Q Consensus       262 L~l~~~~l~~--p~~i~~L~~L~~L~l~  287 (298)
                      +.+..+ ++.  ...|.+..+|+.+.+.
T Consensus       315 i~lp~~-l~~I~~~aF~~C~~L~~i~ip  341 (379)
T 4h09_A          315 VTLPTA-LKTIQVYAFKNCKALSTISYP  341 (379)
T ss_dssp             EECCTT-CCEECTTTTTTCTTCCCCCCC
T ss_pred             EEcCcc-ccEEHHHHhhCCCCCCEEEEC
Confidence            888643 554  4566677777777653

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=95.10  E-value=0.041  Score=40.50  Aligned_cols=55  Identities=9%  Similarity=0.057  Sum_probs=42.7

Q ss_pred             EEEEeCCCCc--cCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCC
Q 040933          186 SIVLRDIKTN--VLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLL  247 (298)
Q Consensus       186 ~l~l~~~~~~--~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~  247 (298)
                      .+...++.+.  .+|..   -.++|+.|++++    +.+..+|...|..+++|++|+|++|.+.
T Consensus        12 ~v~Cs~~~L~~~~vP~~---lp~~l~~L~Ls~----N~l~~l~~~~f~~l~~L~~L~L~~NP~~   68 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTA---FPVDTTELVLTG----NNLTALPPGLLDALPALRTAHLGANPWR   68 (130)
T ss_dssp             EEECCSSCCCTTTSCSC---CCTTCSEEECTT----SCCSSCCTTTGGGCTTCCEEECCSSCCB
T ss_pred             EEEeCCCCCccccCCCC---CCcCCCEEECCC----CcCCccChhhhhhccccCEEEecCCCee
Confidence            5566666776  77753   234688999987    7788899988899999999999998764

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=94.48  E-value=0.099  Score=45.99  Aligned_cols=87  Identities=15%  Similarity=0.244  Sum_probs=55.6

Q ss_pred             cCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCCcEeecCCCCCCC--C
Q 040933          196 VLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNLRTLSLCYCKLLD--I  272 (298)
Q Consensus       196 ~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L~~L~l~~~~l~~--p  272 (298)
                      .+....|..++.|+.+.+.     ..+..++...|..+.+|+.+++..+ ++.+. ..+..+.+|+.+.+..+ ++.  .
T Consensus       278 ~I~~~aF~~c~~L~~i~l~-----~~i~~I~~~aF~~c~~L~~i~lp~~-v~~I~~~aF~~C~~L~~i~ip~s-v~~I~~  350 (394)
T 4gt6_A          278 SIGTGAFMNCPALQDIEFS-----SRITELPESVFAGCISLKSIDIPEG-ITQILDDAFAGCEQLERIAIPSS-VTKIPE  350 (394)
T ss_dssp             EECTTTTTTCTTCCEEECC-----TTCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEECTT-CCBCCG
T ss_pred             eecCcccccccccccccCC-----CcccccCceeecCCCCcCEEEeCCc-ccEehHhHhhCCCCCCEEEECcc-cCEEhH
Confidence            3444445566666666553     2455677777777778888777653 55543 45667777888877543 544  4


Q ss_pred             cccCCCCCCCEEeecCC
Q 040933          273 SVTGELKKLEILCLRGS  289 (298)
Q Consensus       273 ~~i~~L~~L~~L~l~~~  289 (298)
                      ..|.++.+|+.+++.++
T Consensus       351 ~aF~~C~~L~~i~~~~~  367 (394)
T 4gt6_A          351 SAFSNCTALNNIEYSGS  367 (394)
T ss_dssp             GGGTTCTTCCEEEESSC
T ss_pred             hHhhCCCCCCEEEECCc
Confidence            56777778888877654

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=93.67  E-value=0.1  Score=45.90  Aligned_cols=85  Identities=18%  Similarity=0.227  Sum_probs=60.0

Q ss_pred             CCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCCcEeecCCCCCCC--Ccc
Q 040933          198 PDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNLRTLSLCYCKLLD--ISV  274 (298)
Q Consensus       198 ~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L~~L~l~~~~l~~--p~~  274 (298)
                      +...|..+.+|+.+.+..     .+..+++..|..+.+|+.+++..+ ++.++ ..+.++.+|+.+.+..+ ++.  ...
T Consensus       289 ~~~~F~~~~~L~~i~l~~-----~i~~I~~~aF~~c~~L~~i~lp~~-v~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~a  361 (394)
T 4fs7_A          289 PEKTFYGCSSLTEVKLLD-----SVKFIGEEAFESCTSLVSIDLPYL-VEEIGKRSFRGCTSLSNINFPLS-LRKIGANA  361 (394)
T ss_dssp             CTTTTTTCTTCCEEEECT-----TCCEECTTTTTTCTTCCEECCCTT-CCEECTTTTTTCTTCCEECCCTT-CCEECTTT
T ss_pred             cccccccccccccccccc-----ccceechhhhcCCCCCCEEEeCCc-ccEEhHHhccCCCCCCEEEECcc-ccEehHHH
Confidence            344456666777766643     356677777888888888888643 66653 45777888888888765 655  567


Q ss_pred             cCCCCCCCEEeecCC
Q 040933          275 TGELKKLEILCLRGS  289 (298)
Q Consensus       275 i~~L~~L~~L~l~~~  289 (298)
                      +..+.+|+.+++..+
T Consensus       362 F~~C~~L~~i~lp~~  376 (394)
T 4fs7_A          362 FQGCINLKKVELPKR  376 (394)
T ss_dssp             BTTCTTCCEEEEEGG
T ss_pred             hhCCCCCCEEEECCC
Confidence            888888988888654

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=93.65  E-value=0.094  Score=46.14  Aligned_cols=99  Identities=16%  Similarity=0.211  Sum_probs=69.3

Q ss_pred             CccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCCcE
Q 040933          183 LYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNLRT  261 (298)
Q Consensus       183 ~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L~~  261 (298)
                      .++.+.+. +.+..++...|.++.+|+.+.+..     .+..+.+..|..+.+|+.+.+..+ ++.++ ..+.++.+|+.
T Consensus       289 ~L~~i~l~-~~i~~I~~~aF~~c~~L~~i~lp~-----~v~~I~~~aF~~C~~L~~i~ip~s-v~~I~~~aF~~C~~L~~  361 (394)
T 4gt6_A          289 ALQDIEFS-SRITELPESVFAGCISLKSIDIPE-----GITQILDDAFAGCEQLERIAIPSS-VTKIPESAFSNCTALNN  361 (394)
T ss_dssp             TCCEEECC-TTCCEECTTTTTTCTTCCEEECCT-----TCCEECTTTTTTCTTCCEEEECTT-CCBCCGGGGTTCTTCCE
T ss_pred             ccccccCC-CcccccCceeecCCCCcCEEEeCC-----cccEehHhHhhCCCCCCEEEECcc-cCEEhHhHhhCCCCCCE
Confidence            34555543 456778888899999999999865     477888888999999999999654 77775 56889999999


Q ss_pred             eecCCCCCCCCcccCCCCCCCEEeecCC
Q 040933          262 LSLCYCKLLDISVTGELKKLEILCLRGS  289 (298)
Q Consensus       262 L~l~~~~l~~p~~i~~L~~L~~L~l~~~  289 (298)
                      +.+.++... ...+....+|+.+.+..+
T Consensus       362 i~~~~~~~~-~~~~~~~~~L~~i~i~~~  388 (394)
T 4gt6_A          362 IEYSGSRSQ-WNAISTDSGLQNLPVAPG  388 (394)
T ss_dssp             EEESSCHHH-HHTCBCCCCC--------
T ss_pred             EEECCceee-hhhhhccCCCCEEEeCCC
Confidence            999886421 234556677888877655

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=92.22  E-value=0.14  Score=45.01  Aligned_cols=94  Identities=16%  Similarity=0.145  Sum_probs=69.3

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCCc
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNLR  260 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L~  260 (298)
                      ..++.+.+.. .+..+....|..+.+|+++.+..     .+..++...|..+.+|+.+.+..+ ++.++ ..+..+.+|+
T Consensus       297 ~~L~~i~l~~-~i~~I~~~aF~~c~~L~~i~lp~-----~v~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~C~~L~  369 (394)
T 4fs7_A          297 SSLTEVKLLD-SVKFIGEEAFESCTSLVSIDLPY-----LVEEIGKRSFRGCTSLSNINFPLS-LRKIGANAFQGCINLK  369 (394)
T ss_dssp             TTCCEEEECT-TCCEECTTTTTTCTTCCEECCCT-----TCCEECTTTTTTCTTCCEECCCTT-CCEECTTTBTTCTTCC
T ss_pred             cccccccccc-ccceechhhhcCCCCCCEEEeCC-----cccEEhHHhccCCCCCCEEEECcc-ccEehHHHhhCCCCCC
Confidence            3566666654 47778888889999999998854     477888888999999999999766 66664 5688899999


Q ss_pred             EeecCCCCCCC-CcccCCCCCCCE
Q 040933          261 TLSLCYCKLLD-ISVTGELKKLEI  283 (298)
Q Consensus       261 ~L~l~~~~l~~-p~~i~~L~~L~~  283 (298)
                      .+.+..+ ++. ...+.+..+|+.
T Consensus       370 ~i~lp~~-~~~~~~~F~~c~~L~~  392 (394)
T 4fs7_A          370 KVELPKR-LEQYRYDFEDTTKFKW  392 (394)
T ss_dssp             EEEEEGG-GGGGGGGBCTTCEEEE
T ss_pred             EEEECCC-CEEhhheecCCCCCcE
Confidence            9988653 332 344555555554

>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=91.75  E-value=0.58  Score=40.62  Aligned_cols=89  Identities=15%  Similarity=0.119  Sum_probs=67.1

Q ss_pred             CccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCCcEeecCCCCCCC-
Q 040933          194 TNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNLRTLSLCYCKLLD-  271 (298)
Q Consensus       194 ~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L~~L~l~~~~l~~-  271 (298)
                      +..+....+..+..|+.+.+..     .+..+....|..+..|+.+.+..+ +..++ ..+..+.+|+.+.+.++.++. 
T Consensus       228 ~~~i~~~~f~~~~~L~~i~lp~-----~v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~L~~i~l~~~~i~~I  301 (379)
T 4h09_A          228 VTTLGDGAFYGMKALDEIAIPK-----NVTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSNLTKVVMDNSAIETL  301 (379)
T ss_dssp             CCEECTTTTTTCSSCCEEEECT-----TCCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTTCCEEEECCTTCCEE
T ss_pred             eeEEccccccCCccceEEEcCC-----CccEeCccccceeehhcccccccc-ceecccccccccccccccccccccccee
Confidence            4455555667778888887754     366777777888899999988654 55554 457788999999999888877 


Q ss_pred             -CcccCCCCCCCEEeecC
Q 040933          272 -ISVTGELKKLEILCLRG  288 (298)
Q Consensus       272 -p~~i~~L~~L~~L~l~~  288 (298)
                       ...+.++.+|+.+.+..
T Consensus       302 ~~~aF~~c~~L~~i~lp~  319 (379)
T 4h09_A          302 EPRVFMDCVKLSSVTLPT  319 (379)
T ss_dssp             CTTTTTTCTTCCEEECCT
T ss_pred             hhhhhcCCCCCCEEEcCc
Confidence             56788889999998753

>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=86.79  E-value=0.22  Score=39.34  Aligned_cols=102  Identities=13%  Similarity=0.104  Sum_probs=54.0

Q ss_pred             cCccEEEEeCC-CCcc-----CCCCcCCCCCCCcEEecccccccccccc-----cChHHHhCCCCccEEEecCCCCCC--
Q 040933          182 KLYTSIVLRDI-KTNV-----LPDRVLPECPQLKLFSVRADHQESSSLT-----IPNNFFEKMIQVRVINLTYMNLLP--  248 (298)
Q Consensus       182 ~~~~~l~l~~~-~~~~-----l~~~~~~~~~~L~~L~l~~~~~~~~~~~-----lp~~~~~~l~~Lr~L~l~~~~i~~--  248 (298)
                      ..++.|.+.++ .+..     +-. .+..-..|+.|.+.+    +.+..     +.. .+..-+.|+.|+|+.|.|..  
T Consensus        41 ~~L~~L~L~~nn~igd~ga~~la~-aL~~N~~L~~L~L~~----n~igd~ga~alA~-aL~~N~tL~~L~L~~N~Ig~~G  114 (197)
T 1pgv_A           41 TDLKEVNINNMKRVSKERIRSLIE-AACNSKHIEKFSLAN----TAISDSEARGLIE-LIETSPSLRVLNVESNFLTPEL  114 (197)
T ss_dssp             SSCCEEECTTCCSSCHHHHHHHHH-HHTTCSCCCEEECTT----SCCBHHHHTTHHH-HHHHCSSCCEEECCSSBCCHHH
T ss_pred             CCccEEECCCCCCCCHHHHHHHHH-HHhhCCCcCEEEccC----CCCChHHHHHHHH-HHhcCCccCeEecCCCcCCHHH
Confidence            45777777664 4431     111 123345677777776    22221     222 23455677888888877753  


Q ss_pred             ---CCccccCCCCCcEeecCCCCC---CC--C----cccCCCCCCCEEeecCC
Q 040933          249 ---LPSSLGLLSNLRTLSLCYCKL---LD--I----SVTGELKKLEILCLRGS  289 (298)
Q Consensus       249 ---lP~~i~~L~~L~~L~l~~~~l---~~--p----~~i~~L~~L~~L~l~~~  289 (298)
                         +-+.+..=..|+.|+|+++..   ..  -    ..+..-+.|..|+++.+
T Consensus       115 a~ala~aL~~N~tL~~L~L~n~~~~~ig~~g~~~ia~aL~~N~tL~~L~l~~~  167 (197)
T 1pgv_A          115 LARLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFA  167 (197)
T ss_dssp             HHHHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             HHHHHHHHhhCCceeEEECCCCcCcCcCHHHHHHHHHHHHhCCCcCeEeccCC
Confidence               223333344577777775532   21  1    22333456777777654

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=81.70  E-value=0.64  Score=36.67  Aligned_cols=83  Identities=11%  Similarity=0.022  Sum_probs=59.3

Q ss_pred             CCCCCCcEEecccccccccccc-----cChHHHhCCCCccEEEecCCCCCC-----CCccccCCCCCcEeecCCCCCCC-
Q 040933          203 PECPQLKLFSVRADHQESSSLT-----IPNNFFEKMIQVRVINLTYMNLLP-----LPSSLGLLSNLRTLSLCYCKLLD-  271 (298)
Q Consensus       203 ~~~~~L~~L~l~~~~~~~~~~~-----lp~~~~~~l~~Lr~L~l~~~~i~~-----lP~~i~~L~~L~~L~l~~~~l~~-  271 (298)
                      ..-+.|+.|.+.+   ++.+..     +... +..-..|+.|+|++|.|..     +-..+..=..|+.|+|++|.|.. 
T Consensus        38 ~~n~~L~~L~L~~---nn~igd~ga~~la~a-L~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~  113 (197)
T 1pgv_A           38 EDDTDLKEVNINN---MKRVSKERIRSLIEA-ACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPE  113 (197)
T ss_dssp             TTCSSCCEEECTT---CCSSCHHHHHHHHHH-HTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHH
T ss_pred             hcCCCccEEECCC---CCCCCHHHHHHHHHH-HhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHH
Confidence            5567899999876   223321     2222 3667889999999999864     34445455679999999999886 


Q ss_pred             -C----cccCCCCCCCEEeecCC
Q 040933          272 -I----SVTGELKKLEILCLRGS  289 (298)
Q Consensus       272 -p----~~i~~L~~L~~L~l~~~  289 (298)
                       -    ..+..-..|+.|+|++|
T Consensus       114 Ga~ala~aL~~N~tL~~L~L~n~  136 (197)
T 1pgv_A          114 LLARLLRSTLVTQSIVEFKADNQ  136 (197)
T ss_dssp             HHHHHHHHTTTTCCCSEEECCCC
T ss_pred             HHHHHHHHHhhCCceeEEECCCC
Confidence             2    34556678999999865

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=81.26  E-value=5.4  Score=33.63  Aligned_cols=115  Identities=12%  Similarity=0.085  Sum_probs=60.9

Q ss_pred             HHHHHHHHHcCCchhHHHHHHHHhcC-CCHHHHH-HHHHHhcCCCCCCCCCchhhhh-hHHhhhhcCCCCchhHHHHHHh
Q 040933           13 CVARDVAKECVGLPVSIVAVARALRS-ASIFKWK-DALKQLRRPSSTNFKHIQPEAY-KATALSYDKLEGEELKNLFLLI   89 (298)
Q Consensus        13 ~i~~~i~~~c~GlPLal~~~g~~L~~-k~~~~W~-~~~~~l~~~~~~~~~~~~~~~~-~~l~~sY~~L~~~~lk~cfl~~   89 (298)
                      +...++++.|+|.|+++..++..+.. .+...+- ...+..           ...+. .+-.+.+ . ++. .+..+..+
T Consensus       226 ~~~~~i~~~tgG~P~~l~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~l~~l~~-~-~~~-~~~~l~~l  291 (350)
T 2qen_A          226 NEIEEAVELLDGIPGWLVVFGVEYLRNGDFGRAMKRTLEVA-----------KGLIMGELEELRR-R-SPR-YVDILRAI  291 (350)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCHHHHHHHHHHHH-----------HHHHHHHHHHHHH-H-CHH-HHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHhccccHhHHHHHHHHHH-----------HHHHHHHHHHHHh-C-Chh-HHHHHHHH
Confidence            46678999999999999999876532 2322221 111110           00011 1111222 2 555 68888888


Q ss_pred             cC-CCCCCHHHHHHHHhhcCCCCCcccHHHHHHHHHHHHHHHHhcCCcccCC--ccc-hHHHHHH
Q 040933           90 GY-AYVESIDELLRYGVGLGLFQGISKLDEARDRVSTLVYKLKASCMLLDEG--LPM-HDVIRDV  150 (298)
Q Consensus        90 a~-p~~~~~~~li~~wia~g~i~~~~~~~~~~~~~~~~i~~L~~~~l~~~~~--~~m-hdlv~~l  150 (298)
                      |. +  .+...+.....+.. - + .+..+    ...+++.|.+.+++...+  |++ |.++++.
T Consensus       292 a~g~--~~~~~l~~~~~~~~-~-~-~~~~~----~~~~l~~L~~~gli~~~~~~y~~~~p~~~~~  347 (350)
T 2qen_A          292 ALGY--NRWSLIRDYLAVKG-T-K-IPEPR----LYALLENLKKMNWIVEEDNTYKIADPVVATV  347 (350)
T ss_dssp             HTTC--CSHHHHHHHHHHTT-C-C-CCHHH----HHHHHHHHHHTTSEEEETTEEEESSHHHHHH
T ss_pred             HhCC--CCHHHHHHHHHHHh-C-C-CCHHH----HHHHHHHHHhCCCEEecCCEEEEecHHHHHH
Confidence            87 4  34455544432211 0 1 11222    334577788899997533  555 4455543

---

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	298
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	2e-05
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	3e-05
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	0.001
d1m9la_	198	c.10.3.1 (A:) Outer arm dynein light chain 1 {Gree	1e-04
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	1e-04
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	3e-04
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	0.001
d1a9na_	162	c.10.2.4 (A:) Splicesomal U2A' protein {Human (Hom	0.002
d2omxa2	199	c.10.2.1 (A:37-235) Internalin B {Listeria monocyt	0.004

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 43.5 bits (101), Expect = 2e-05
 Identities = 15/107 (14%), Positives = 36/107 (33%), Gaps = 1/107 (0%)

Query: 189 LRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLP 248
           L  +    L    +     L   +   + + + +     +    +  +  + L + N+  
Sbjct: 262 LTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISD 321

Query: 249 LPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLP 295
           +   +  L+ L+ L     K+ D+S    L  +  L    + I  L 
Sbjct: 322 ISP-VSSLTKLQRLFFANNKVSDVSSLANLTNINWLSAGHNQISDLT 367

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 42.7 bits (99), Expect = 3e-05
 Identities = 12/59 (20%), Positives = 27/59 (45%), Gaps = 1/59 (1%)

Query: 230 FEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRG 288
              + +++ +     N +   SSL  L+N+  LS  + ++ D++    L ++  L L  
Sbjct: 325 VSSLTKLQRLFFAN-NKVSDVSSLANLTNINWLSAGHNQISDLTPLANLTRITQLGLND 382

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 37.3 bits (85), Expect = 0.001
 Identities = 18/99 (18%), Positives = 38/99 (38%), Gaps = 11/99 (11%)

Query: 188 VLRDIKTN-VLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNL 246
           + +D   N +  D  L E  +  L       + + + T+       + QV  +    + +
Sbjct: 6   ITQDTPINQIFTDTALAEKMKTVL------GKTNVTDTVS---QTDLDQVTTLQADRLGI 56

Query: 247 LPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILC 285
             +   +  L+NL  ++    +L DI+    L KL  + 
Sbjct: 57  KSI-DGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDIL 94

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]} Length = 198

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]

 Score = 39.7 bits (91), Expect = 1e-04
 Identities = 16/75 (21%), Positives = 30/75 (40%), Gaps = 9/75 (12%)

Query: 220 SSSLTIPNNF--FEKMIQVRVINLTYMNL---LP----LPSSLGLLSNLRTLSLCYCKLL 270
           + + TI +    FE+   V       + L   +P    + ++L  L   + L+L    + 
Sbjct: 2   AKATTIKDAIRIFEERKSVVATEAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIE 61

Query: 271 DISVTGELKKLEILC 285
            IS    ++ L IL 
Sbjct: 62  KISSLSGMENLRILS 76

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 40.2 bits (93), Expect = 1e-04
 Identities = 11/73 (15%), Positives = 21/73 (28%), Gaps = 8/73 (10%)

Query: 14  VARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFKHIQPEAYKATALS 73
           V     +   G P +++   ++    +  K      +L        + I       T  S
Sbjct: 210 VLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECI-------TPYS 262

Query: 74  YDKLEGEELKNLF 86
           Y  L    L+   
Sbjct: 263 YKSL-AMALQRCV 274

>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 = 39.7 bits (91), Expect = 3e-04
 Identities = 11/64 (17%), Positives = 24/64 (37%), Gaps = 2/64 (3%)

Query: 227 NNFFEKMIQVRVINLTYMNLL-PLPSSLGLLSNLRTLSLCYCKLL-DISVTGELKKLEIL 284
                    +  ++L    +   LP  L  L  L +L++ +  L  +I   G L++ ++ 
Sbjct: 237 LGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVS 296

Query: 285 CLRG 288
               
Sbjct: 297 AYAN 300

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]} Length = 227

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

 Score = 37.7 bits (86), Expect = 0.001
 Identities = 12/49 (24%), Positives = 18/49 (36%)

Query: 239 INLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLR 287
                 N +   S L  L NL  + L   ++ D+S       L I+ L 
Sbjct: 177 TLKADDNKISDISPLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLT 225

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]} Length = 162

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.1 bits (82), Expect = 0.002
 Identities = 6/57 (10%), Positives = 22/57 (38%)

Query: 230 FEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCL 286
           +   ++ R ++L    +  + +    L     +     ++  +     L++L+ L +
Sbjct: 14  YTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLV 70

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]} Length = 199

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]

 Score = 35.4 bits (80), Expect = 0.004
 Identities = 15/60 (25%), Positives = 22/60 (36%)

Query: 225 IPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEIL 284
           I +      +          N +     L  L+ L  L +   K+ DISV  +L  LE L
Sbjct: 140 ISDISALSGLTSLQQLNFSSNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESL 199

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	298
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.44
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.41
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.33
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.25
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.25
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.22
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.21
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.19
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.15
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.09
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.07
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.05
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.04
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.02
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.02
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.01
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.01
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	98.99
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	98.89
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	98.85
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	98.79
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.78
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.78
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	98.78
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	98.75
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	98.67
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	98.65
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.56
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.54
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	98.5
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.26
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	97.87
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	97.78
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.71
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.67
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	97.22
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	96.64
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	96.3
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.21
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	95.96
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	91.95
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	91.9
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	88.5

>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=99.44  E-value=1.8e-13  Score=100.51  Aligned_cols=103  Identities=17%  Similarity=0.190  Sum_probs=91.1

Q ss_pred             cEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcEeec
Q 040933          185 TSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSL  264 (298)
Q Consensus       185 ~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l  264 (298)
                      |.+++++|++..++..  ..+++|+.|++++    +.+..+|+.+ ..+++|++|++++|.|+.+| .++.+++|++|++
T Consensus         1 R~L~Ls~n~l~~l~~l--~~l~~L~~L~ls~----N~l~~lp~~~-~~l~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~l   72 (124)
T d1dcea3           1 RVLHLAHKDLTVLCHL--EQLLLVTHLDLSH----NRLRALPPAL-AALRCLEVLQASDNALENVD-GVANLPRLQELLL   72 (124)
T ss_dssp             SEEECTTSCCSSCCCG--GGGTTCCEEECCS----SCCCCCCGGG-GGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEEC
T ss_pred             CEEEcCCCCCCCCccc--ccCCCCCEEECCC----CccCcchhhh-hhhhcccccccccccccccC-ccccccccCeEEC
Confidence            5688999999988763  8899999999998    7788998865 89999999999999999997 6999999999999


Q ss_pred             CCCCCCC-C--cccCCCCCCCEEeecCCCCCCCC
Q 040933          265 CYCKLLD-I--SVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       265 ~~~~l~~-p--~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      ++|++.. |  ..++.+++|++|++++|++...|
T Consensus        73 ~~N~i~~~~~~~~l~~~~~L~~L~l~~N~i~~~~  106 (124)
T d1dcea3          73 CNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEE  106 (124)
T ss_dssp             CSSCCCSSSTTGGGGGCTTCCEEECTTSGGGGSS
T ss_pred             CCCccCCCCCchhhcCCCCCCEEECCCCcCCcCc
Confidence            9999987 4  56889999999999999876554

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=99.41  E-value=2.3e-14  Score=120.23  Aligned_cols=76  Identities=14%  Similarity=0.114  Sum_probs=65.3

Q ss_pred             CCCCcchHHHHHHHHHHcCCchhHHHHHHHHhcCCCHHHHHHHHHHhcCCCCCCCCCchhhhhhHHhhhhcCCCCchhHH
Q 040933            5 YVEGSELKCVARDVAKECVGLPVSIVAVARALRSASIFKWKDALKQLRRPSSTNFKHIQPEAYKATALSYDKLEGEELKN   84 (298)
Q Consensus         5 ~~~~~~l~~i~~~i~~~c~GlPLal~~~g~~L~~k~~~~W~~~~~~l~~~~~~~~~~~~~~~~~~l~~sY~~L~~~~lk~   84 (298)
                      ...++..++++++||++|+|+||||+++|+.|+.++.+.|.+..+.+.....       ..+..++.+||++||++ +|.
T Consensus       201 ~~~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~~~~-------~~v~~il~~sY~~L~~~-lk~  272 (277)
T d2a5yb3         201 MPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGL-------VGVECITPYSYKSLAMA-LQR  272 (277)
T ss_dssp             CC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHCS-------STTCCCSSSSSSSHHHH-HHH
T ss_pred             ccCchhhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHHHhcCcH-------HHHHHHHHHHHhcccHH-HHH
Confidence            3445667899999999999999999999999999999999999998875443       34589999999999999 999


Q ss_pred             HHHH
Q 040933           85 LFLL   88 (298)
Q Consensus        85 cfl~   88 (298)
                      ||-+
T Consensus       273 c~~~  276 (277)
T d2a5yb3         273 CVEV  276 (277)
T ss_dssp             HHHT
T ss_pred             HHHh
Confidence            9975

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.33  E-value=1.8e-12  Score=102.54  Aligned_cols=115  Identities=18%  Similarity=0.170  Sum_probs=98.4

Q ss_pred             CCCchhhccCccEEEEeCCCCcc-CCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-c
Q 040933          174 EWSDENAVKLYTSIVLRDIKTNV-LPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-S  251 (298)
Q Consensus       174 ~~~~~~~~~~~~~l~l~~~~~~~-l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~  251 (298)
                      ..|. ..+..+++|.+++|.+.. ++...|..+++|+.|.+.+    +.+..++...|..+++|++|++++|+++.+| .
T Consensus        22 ~iP~-~lp~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~----N~i~~~~~~~~~~~~~L~~L~Ls~N~l~~l~~~   96 (192)
T d1w8aa_          22 EIPR-DIPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKR----NQLTGIEPNAFEGASHIQELQLGENKIKEISNK   96 (192)
T ss_dssp             SCCS-CCCTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCS----SCCCCBCTTTTTTCTTCCEEECCSCCCCEECSS
T ss_pred             ccCC-CCCCCCCEEEeCCCCCcccccccccCCCceEeeeeccc----cccccccccccccccccceeeeccccccccCHH
Confidence            4443 345789999999999975 6666778899999999987    6777778778899999999999999999986 4


Q ss_pred             cccCCCCCcEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCC
Q 040933          252 SLGLLSNLRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQ  293 (298)
Q Consensus       252 ~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~  293 (298)
                      .+..+.+|++|+|++|.|+.  |..+..+++|++|++++|.+..
T Consensus        97 ~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N~~~~  140 (192)
T d1w8aa_          97 MFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFNC  140 (192)
T ss_dssp             SSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBCC
T ss_pred             HHhCCCcccccccCCccccccCHHHhcCCccccccccccccccc
Confidence            58899999999999999999  5678899999999999997654

>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=99.25  E-value=1.2e-11  Score=90.49  Aligned_cols=82  Identities=21%  Similarity=0.296  Sum_probs=73.7

Q ss_pred             cEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCCCcccCCCCCCCEEeecC
Q 040933          209 KLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRG  288 (298)
Q Consensus       209 ~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~l~~  288 (298)
                      |+|++++    +.+..++.  +..+++|++|++++|.++.+|+.++.+++|++|++++|.++..+.++++++|++|++++
T Consensus         1 R~L~Ls~----n~l~~l~~--l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~l~~~~~l~~L~~L~l~~   74 (124)
T d1dcea3           1 RVLHLAH----KDLTVLCH--LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLCN   74 (124)
T ss_dssp             SEEECTT----SCCSSCCC--GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEECCS
T ss_pred             CEEEcCC----CCCCCCcc--cccCCCCCEEECCCCccCcchhhhhhhhcccccccccccccccCccccccccCeEECCC
Confidence            5788887    67777775  58999999999999999999999999999999999999999955699999999999999


Q ss_pred             CCCCCCCC
Q 040933          289 SDIQQLPV  296 (298)
Q Consensus       289 ~~l~~lP~  296 (298)
                      |++..+|.
T Consensus        75 N~i~~~~~   82 (124)
T d1dcea3          75 NRLQQSAA   82 (124)
T ss_dssp             SCCCSSST
T ss_pred             CccCCCCC
Confidence            99998874

>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=99.25  E-value=3.8e-12  Score=97.80  Aligned_cols=107  Identities=16%  Similarity=0.209  Sum_probs=81.3

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccc-cCCCCCc
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSL-GLLSNLR  260 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i-~~L~~L~  260 (298)
                      .++|.|.+++|++..++. .+..+++|+.|++++    +.+..++.  |..+++|++|++++|+++.+|..+ ..+++|+
T Consensus        18 ~~lr~L~L~~n~I~~i~~-~~~~l~~L~~L~Ls~----N~i~~l~~--~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~   90 (162)
T d1a9na_          18 VRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSD----NEIRKLDG--FPLLRRLKTLLVNNNRICRIGEGLDQALPDLT   90 (162)
T ss_dssp             TSCEEEECTTSCCCSCCC-GGGGTTCCSEEECCS----SCCCEECC--CCCCSSCCEEECCSSCCCEECSCHHHHCTTCC
T ss_pred             CcCcEEECCCCCCCccCc-cccccccCCEEECCC----CCCCccCC--cccCcchhhhhcccccccCCCccccccccccc
Confidence            467888888888888864 346678888888887    56666654  578888888888888888876554 5688888


Q ss_pred             EeecCCCCCCC-C--cccCCCCCCCEEeecCCCCCCCC
Q 040933          261 TLSLCYCKLLD-I--SVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       261 ~L~l~~~~l~~-p--~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      .|++++|++.. +  ..+..+++|++|++++|.+..+|
T Consensus        91 ~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~i~~~~  128 (162)
T d1a9na_          91 ELILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKK  128 (162)
T ss_dssp             EEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGST
T ss_pred             cceeccccccccccccccccccccchhhcCCCcccccc
Confidence            88888888877 4  35777888888888888776665

>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=99.22  E-value=5.5e-11  Score=98.62  Aligned_cols=112  Identities=20%  Similarity=0.263  Sum_probs=58.4

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCc-cccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPS-SLGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~-~i~~L~~L  259 (298)
                      ...++.|.+.+|.+...+.. +..+++|+.|.+.+    +....++...+..+.++++|++++|.+..+|. .+..+.+|
T Consensus        76 l~~L~~L~Ls~N~l~~~~~~-~~~l~~L~~L~l~~----~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l  150 (266)
T d1p9ag_          76 LPVLGTLDLSHNQLQSLPLL-GQTLPALTVLDVSF----NRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKL  150 (266)
T ss_dssp             CTTCCEEECCSSCCSSCCCC-TTTCTTCCEEECCS----SCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTC
T ss_pred             cccccccccccccccccccc-cccccccccccccc----cccceeeccccccccccccccccccccceeccccccccccc
Confidence            34566666666665554443 35555666666554    33333444444555555555555555555432 23345555


Q ss_pred             cEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCCCC
Q 040933          260 RTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       260 ~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      ++|++++|+++.  +..++.+++|++|+|++|+|+.+|.+
T Consensus       151 ~~l~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~L~~lp~~  190 (266)
T d1p9ag_         151 EKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYTIPKG  190 (266)
T ss_dssp             CEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCCCCCCTT
T ss_pred             hhcccccccccccCccccccccccceeecccCCCcccChh
Confidence            555555555555  33455555555555555555555543

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.21  E-value=2.7e-11  Score=95.52  Aligned_cols=106  Identities=14%  Similarity=0.144  Sum_probs=91.0

Q ss_pred             cEEEEeCCCCccCCCCcCCCCCCCcEEeccccccccccc-ccChHHHhCCCCccEEEecCCCCCCC-CccccCCCCCcEe
Q 040933          185 TSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSL-TIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLLSNLRTL  262 (298)
Q Consensus       185 ~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~-~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~~L~~L  262 (298)
                      +.+..+++.+..+|..+   .++++.|++++    +.+. .++...|..+++|+.|++++|.+..+ +..+..+.+|++|
T Consensus        11 ~~v~Cs~~~L~~iP~~l---p~~l~~L~Ls~----N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L   83 (192)
T d1w8aa_          11 TTVDCTGRGLKEIPRDI---PLHTTELLLND----NELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQEL   83 (192)
T ss_dssp             TEEECTTSCCSSCCSCC---CTTCSEEECCS----CCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEE
T ss_pred             CEEEEeCCCcCccCCCC---CCCCCEEEeCC----CCCcccccccccCCCceEeeeecccccccccccccccccccccee
Confidence            45777788899998753   36899999998    5554 57777789999999999999999886 5778889999999


Q ss_pred             ecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCCCC
Q 040933          263 SLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLPVE  297 (298)
Q Consensus       263 ~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP~~  297 (298)
                      ++++|+++.  |..|.++++|++|+|++|+|+.+|.+
T Consensus        84 ~Ls~N~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~  120 (192)
T d1w8aa_          84 QLGENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPG  120 (192)
T ss_dssp             ECCSCCCCEECSSSSTTCTTCCEEECCSSCCCEECTT
T ss_pred             eeccccccccCHHHHhCCCcccccccCCccccccCHH
Confidence            999999999  56789999999999999999998864

>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=99.19  E-value=2.5e-11  Score=100.72  Aligned_cols=111  Identities=18%  Similarity=0.210  Sum_probs=83.1

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNL  259 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L  259 (298)
                      .++.++.|.+.+|.+..++...|..+++|+.|.+.+    +.+..+|.  +..+++|++|++++|+++..|..+..+.+|
T Consensus        29 lp~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~----N~l~~l~~--~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L  102 (266)
T d1p9ag_          29 LPKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDR----AELTKLQV--DGTLPVLGTLDLSHNQLQSLPLLGQTLPAL  102 (266)
T ss_dssp             CCTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTT----SCCCEEEC--CSCCTTCCEEECCSSCCSSCCCCTTTCTTC
T ss_pred             cCcCCCEEECcCCcCCCcCHHHhhcccccccccccc----cccccccc--cccccccccccccccccccccccccccccc
Confidence            456788899999988888877778888999998887    46666665  467888888888888888887778888888


Q ss_pred             cEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          260 RTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       260 ~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      ++|+++++.+..  +..+..+.+|++|++++|.+..+|.
T Consensus       103 ~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~  141 (266)
T d1p9ag_         103 TVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPP  141 (266)
T ss_dssp             CEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCT
T ss_pred             ccccccccccceeeccccccccccccccccccccceecc
Confidence            888888777655  4445555666666666665555553

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.15  E-value=1.2e-10  Score=88.64  Aligned_cols=102  Identities=15%  Similarity=0.131  Sum_probs=78.8

Q ss_pred             EEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-CccccCCCCCcEeec
Q 040933          186 SIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLLSNLRTLSL  264 (298)
Q Consensus       186 ~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~~L~~L~l  264 (298)
                      .+....+.....+.. +..+++|+.|.+.+   ++.+..++...|..+++|+.|++++|+|+.+ |..+..+++|++|+|
T Consensus        12 ~l~c~~~~~~~~p~~-l~~l~~l~~L~l~~---n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~L   87 (156)
T d2ifga3          12 GLRCTRDGALDSLHH-LPGAENLTELYIEN---QQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNL   87 (156)
T ss_dssp             CEECCSSCCCTTTTT-SCSCSCCSEEECCS---CSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEEC
T ss_pred             eEEecCCCCccCccc-ccCccccCeeecCC---CccccccCchhhccccccCcceeeccccCCcccccccccccccceec
Confidence            355566666666655 36778888888876   5668888887788888899999988888887 455788888999999


Q ss_pred             CCCCCCC-CcccCCCCCCCEEeecCCCC
Q 040933          265 CYCKLLD-ISVTGELKKLEILCLRGSDI  291 (298)
Q Consensus       265 ~~~~l~~-p~~i~~L~~L~~L~l~~~~l  291 (298)
                      ++|+++. |..+....+|++|+|++|.+
T Consensus        88 s~N~l~~l~~~~~~~~~l~~L~L~~Np~  115 (156)
T d2ifga3          88 SFNALESLSWKTVQGLSLQELVLSGNPL  115 (156)
T ss_dssp             CSSCCSCCCSTTTCSCCCCEEECCSSCC
T ss_pred             cCCCCcccChhhhccccccccccCCCcc
Confidence            9888888 76666666788888888865

>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=99.09  E-value=5.4e-10  Score=88.40  Aligned_cols=106  Identities=13%  Similarity=0.243  Sum_probs=75.2

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCc
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLR  260 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~  260 (298)
                      ..+++.+.+..|.+..++.  +..+++|+.|.+.+    +....++.  +..+++|++|++++|.+..+| .+..+.+|+
T Consensus        83 l~~L~~L~l~~n~~~~~~~--l~~l~~L~~L~l~~----~~~~~~~~--~~~l~~L~~L~l~~n~l~~~~-~l~~~~~L~  153 (199)
T d2omxa2          83 LTKLVDILMNNNQIADITP--LANLTNLTGLTLFN----NQITDIDP--LKNLTNLNRLELSSNTISDIS-ALSGLTSLQ  153 (199)
T ss_dssp             CTTCCEEECCSSCCCCCGG--GTTCTTCSEEECCS----SCCCCCGG--GTTCTTCSEEECCSSCCCCCG-GGTTCTTCS
T ss_pred             Ccccccccccccccccccc--cccccccccccccc----cccccccc--cchhhhhHHhhhhhhhhcccc-ccccccccc
Confidence            3455555555555555443  25555666665554    22222222  477888889999888888776 688888999


Q ss_pred             EeecCCCCCCCCcccCCCCCCCEEeecCCCCCCCC
Q 040933          261 TLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       261 ~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      +|++.+|+++..+.++++++|++|++++|+++.+|
T Consensus       154 ~L~l~~n~l~~l~~l~~l~~L~~L~ls~N~i~~i~  188 (199)
T d2omxa2         154 QLNFSSNQVTDLKPLANLTTLERLDISSNKVSDIS  188 (199)
T ss_dssp             EEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCG
T ss_pred             ccccccccccCCccccCCCCCCEEECCCCCCCCCc
Confidence            99999998888556889999999999999988876

>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=99.07  E-value=6.8e-11  Score=90.60  Aligned_cols=103  Identities=17%  Similarity=0.215  Sum_probs=90.1

Q ss_pred             hhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCc--cccCC
Q 040933          179 NAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPS--SLGLL  256 (298)
Q Consensus       179 ~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~--~i~~L  256 (298)
                      ....+++.|.+++|.+..++.  +..+++|++|.+++    +.+..+|+.+|..+++|+.|++++|+++.++.  .+..+
T Consensus        38 ~~l~~L~~L~Ls~N~i~~l~~--~~~l~~L~~L~ls~----N~i~~l~~~~~~~l~~L~~L~L~~N~i~~~~~l~~l~~l  111 (162)
T d1a9na_          38 ATLDQFDAIDFSDNEIRKLDG--FPLLRRLKTLLVNN----NRICRIGEGLDQALPDLTELILTNNSLVELGDLDPLASL  111 (162)
T ss_dssp             GGTTCCSEEECCSSCCCEECC--CCCCSSCCEEECCS----SCCCEECSCHHHHCTTCCEEECCSCCCCCGGGGGGGGGC
T ss_pred             cccccCCEEECCCCCCCccCC--cccCcchhhhhccc----ccccCCCccccccccccccceeccccccccccccccccc
Confidence            345789999999999999975  48899999999998    67888998888899999999999999998863  68889


Q ss_pred             CCCcEeecCCCCCCC-Cc----ccCCCCCCCEEeec
Q 040933          257 SNLRTLSLCYCKLLD-IS----VTGELKKLEILCLR  287 (298)
Q Consensus       257 ~~L~~L~l~~~~l~~-p~----~i~~L~~L~~L~l~  287 (298)
                      ++|++|++++|++.. |.    .++.+++|++||-+
T Consensus       112 ~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~LD~~  147 (162)
T d1a9na_         112 KSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDFQ  147 (162)
T ss_dssp             TTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETTE
T ss_pred             cccchhhcCCCccccccchHHHHHHHCCCcCeeCCC
Confidence            999999999999877 63    58899999999843

>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=99.05  E-value=4e-10  Score=94.14  Aligned_cols=107  Identities=19%  Similarity=0.241  Sum_probs=75.6

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-CccccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~~L  259 (298)
                      ..+++.+.+..|.+..++..+|..+++|+.|.+.+    +.+..+++..|..+++|+++++++|++..+ |..++.+.+|
T Consensus       128 ~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~----N~l~~l~~~~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L  203 (284)
T d1ozna_         128 LAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHG----NRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRL  203 (284)
T ss_dssp             CTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS----SCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTC
T ss_pred             hcccchhhhccccccccChhHhccccchhhccccc----CcccccchhhhccccccchhhhhhccccccChhHhhhhhhc
Confidence            45567777777777777766666777777777776    456666666667777777777777777664 6667777777


Q ss_pred             cEeecCCCCCCC--CcccCCCCCCCEEeecCCCC
Q 040933          260 RTLSLCYCKLLD--ISVTGELKKLEILCLRGSDI  291 (298)
Q Consensus       260 ~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l  291 (298)
                      ++|++++|.+..  |..++.+.+|++|++++|.+
T Consensus       204 ~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~~N~l  237 (284)
T d1ozna_         204 MTLYLFANNLSALPTEALAPLRALQYLRLNDNPW  237 (284)
T ss_dssp             CEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCE
T ss_pred             ccccccccccccccccccccccccCEEEecCCCC
Confidence            777777777666  45677777777777777643

>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=99.04  E-value=6.5e-10  Score=93.65  Aligned_cols=107  Identities=15%  Similarity=0.122  Sum_probs=60.3

Q ss_pred             cCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcE
Q 040933          182 KLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRT  261 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~  261 (298)
                      .+++.+.+.+|.....+...+..++.+++|.+.+    +.+..++...|..+++|++|+|++|+++.+|..+..+++|++
T Consensus       171 ~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~----n~l~~~~~~~~~~l~~L~~L~L~~N~L~~lp~~l~~l~~L~~  246 (305)
T d1xkua_         171 PSLTELHLDGNKITKVDAASLKGLNNLAKLGLSF----NSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQV  246 (305)
T ss_dssp             TTCSEEECTTSCCCEECTGGGTTCTTCCEEECCS----SCCCEECTTTGGGSTTCCEEECCSSCCSSCCTTTTTCSSCCE
T ss_pred             CccCEEECCCCcCCCCChhHhhcccccccccccc----ccccccccccccccccceeeecccccccccccccccccCCCE
Confidence            3455555555555444444445555555655554    445555555556666666666666666666666666666666


Q ss_pred             eecCCCCCCC-Cc-------ccCCCCCCCEEeecCCCCC
Q 040933          262 LSLCYCKLLD-IS-------VTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       262 L~l~~~~l~~-p~-------~i~~L~~L~~L~l~~~~l~  292 (298)
                      |++++|+|+. +.       ....+.+|+.|++++|.++
T Consensus       247 L~Ls~N~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~~~  285 (305)
T d1xkua_         247 VYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQ  285 (305)
T ss_dssp             EECCSSCCCCCCTTSSSCSSCCTTSCCCSEEECCSSSSC
T ss_pred             EECCCCccCccChhhccCcchhcccCCCCEEECCCCcCc
Confidence            6666666555 22       1234455666666666544

>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=99.02  E-value=3e-10  Score=94.87  Aligned_cols=112  Identities=15%  Similarity=0.215  Sum_probs=100.5

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCC-ccccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLP-SSLGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP-~~i~~L~~L  259 (298)
                      ..+++.+.+..|.+..++...+....+|+++.+.+    +.+..+|+..|..+++|+.|++++|+++.+| ..+..+++|
T Consensus       104 l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~----N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~~f~~l~~L  179 (284)
T d1ozna_         104 LGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQD----NALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSL  179 (284)
T ss_dssp             CTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCS----SCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTC
T ss_pred             cccCCEEecCCcccccccccccchhcccchhhhcc----ccccccChhHhccccchhhcccccCcccccchhhhcccccc
Confidence            46799999999999888877778889999999998    6788898888899999999999999999875 567899999


Q ss_pred             cEeecCCCCCCC--CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          260 RTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       260 ~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      +++++++|.+..  |..+..+++|++|++++|++..+|.
T Consensus       180 ~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i~~~~~  218 (284)
T d1ozna_         180 DRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPT  218 (284)
T ss_dssp             CEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCH
T ss_pred             chhhhhhccccccChhHhhhhhhcccccccccccccccc
Confidence            999999999887  8899999999999999999988874

>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=99.02  E-value=1.2e-09  Score=87.09  Aligned_cols=106  Identities=25%  Similarity=0.272  Sum_probs=64.1

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCc
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLR  260 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~  260 (298)
                      ..+++.+.+.+|.+..++.  +..+++|+.|.+.+    +....++.  +..++.++.++++++.++..+ .++.+++|+
T Consensus        89 l~~L~~L~l~~n~i~~l~~--l~~l~~L~~L~l~~----~~~~~~~~--l~~l~~l~~l~~~~n~l~~~~-~~~~l~~L~  159 (210)
T d1h6ta2          89 LKNLGWLFLDENKVKDLSS--LKDLKKLKSLSLEH----NGISDING--LVHLPQLESLYLGNNKITDIT-VLSRLTKLD  159 (210)
T ss_dssp             CTTCCEEECCSSCCCCGGG--GTTCTTCCEEECTT----SCCCCCGG--GGGCTTCCEEECCSSCCCCCG-GGGGCTTCS
T ss_pred             Ccccccccccccccccccc--cccccccccccccc----cccccccc--ccccccccccccccccccccc-ccccccccc
Confidence            3455555555555555443  25555555555554    22222222  345555555555555555443 466677888


Q ss_pred             EeecCCCCCCCCcccCCCCCCCEEeecCCCCCCCC
Q 040933          261 TLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       261 ~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      ++++++|++.....++++++|+.|++++|+++.+|
T Consensus       160 ~l~l~~n~l~~i~~l~~l~~L~~L~Ls~N~i~~l~  194 (210)
T d1h6ta2         160 TLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDLR  194 (210)
T ss_dssp             EEECCSSCCCCCGGGTTCTTCCEEECCSSCCCBCG
T ss_pred             ccccccccccccccccCCCCCCEEECCCCCCCCCh
Confidence            88888888777445778888888888888777766

>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=99.01  E-value=4.7e-10  Score=94.56  Aligned_cols=109  Identities=17%  Similarity=0.260  Sum_probs=93.8

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCC-CccccCCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L~~L  259 (298)
                      ..+++.+.+.++.+..++..   .+++|+.|.+.+    +.....+...|..++.+++|++++|.+..+ |..+..+++|
T Consensus       149 l~~L~~l~l~~n~l~~l~~~---~~~~L~~L~l~~----n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~~~~~l~~L  221 (305)
T d1xkua_         149 MKKLSYIRIADTNITTIPQG---LPPSLTELHLDG----NKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHL  221 (305)
T ss_dssp             CTTCCEEECCSSCCCSCCSS---CCTTCSEEECTT----SCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTC
T ss_pred             ccccCccccccCCccccCcc---cCCccCEEECCC----CcCCCCChhHhhccccccccccccccccccccccccccccc
Confidence            45788899999999888764   468999999988    344444555569999999999999999986 5678899999


Q ss_pred             cEeecCCCCCCC-CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          260 RTLSLCYCKLLD-ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       260 ~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      ++|+|++|.++. |.+++++++|++|++++|+|+.+|.
T Consensus       222 ~~L~L~~N~L~~lp~~l~~l~~L~~L~Ls~N~i~~i~~  259 (305)
T d1xkua_         222 RELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIGS  259 (305)
T ss_dssp             CEEECCSSCCSSCCTTTTTCSSCCEEECCSSCCCCCCT
T ss_pred             eeeecccccccccccccccccCCCEEECCCCccCccCh
Confidence            999999999999 9999999999999999999999875

>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=99.01  E-value=2.2e-09  Score=84.81  Aligned_cols=113  Identities=17%  Similarity=0.193  Sum_probs=90.9

Q ss_pred             CCCchhhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccc
Q 040933          174 EWSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSL  253 (298)
Q Consensus       174 ~~~~~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i  253 (298)
                      .+.+....++++.+.+.+|.+..+++  +..+++|+.|.+.+    +....++.  +..+++|+.|+++++.+..++ .+
T Consensus        54 ~l~~l~~l~nL~~L~Ls~N~l~~~~~--l~~l~~L~~L~l~~----n~~~~~~~--l~~l~~L~~L~l~~~~~~~~~-~~  124 (199)
T d2omxa2          54 SIDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDILMNN----NQIADITP--LANLTNLTGLTLFNNQITDID-PL  124 (199)
T ss_dssp             CCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCS----SCCCCCGG--GTTCTTCSEEECCSSCCCCCG-GG
T ss_pred             CccccccCCCcCcCccccccccCccc--ccCCcccccccccc----cccccccc--ccccccccccccccccccccc-cc
Confidence            34445566789999999998888776  38888999999887    45555654  588899999999988877765 57


Q ss_pred             cCCCCCcEeecCCCCCCCCcccCCCCCCCEEeecCCCCCCCC
Q 040933          254 GLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       254 ~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      ..+++|++|++++|.+..++.+..+++|+.|++.+|++..+|
T Consensus       125 ~~l~~L~~L~l~~n~l~~~~~l~~~~~L~~L~l~~n~l~~l~  166 (199)
T d2omxa2         125 KNLTNLNRLELSSNTISDISALSGLTSLQQLNFSSNQVTDLK  166 (199)
T ss_dssp             TTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCCCCG
T ss_pred             chhhhhHHhhhhhhhhcccccccccccccccccccccccCCc
Confidence            888999999999998877557888999999999998887765

>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=98.99  E-value=2.4e-09  Score=85.29  Aligned_cols=112  Identities=18%  Similarity=0.225  Sum_probs=93.1

Q ss_pred             CCchhhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCcccc
Q 040933          175 WSDENAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLG  254 (298)
Q Consensus       175 ~~~~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~  254 (298)
                      ........+++.+.+.+|.+..+++.  ..+++|+.|.+.+    +.+..+|.  +..+++|+.|+++++.+..++ .+.
T Consensus        61 l~~l~~l~~L~~L~L~~n~i~~l~~~--~~l~~L~~L~l~~----n~i~~l~~--l~~l~~L~~L~l~~~~~~~~~-~l~  131 (210)
T d1h6ta2          61 VQGIQYLPNVTKLFLNGNKLTDIKPL--ANLKNLGWLFLDE----NKVKDLSS--LKDLKKLKSLSLEHNGISDIN-GLV  131 (210)
T ss_dssp             CTTGGGCTTCCEEECCSSCCCCCGGG--TTCTTCCEEECCS----SCCCCGGG--GTTCTTCCEEECTTSCCCCCG-GGG
T ss_pred             chhHhhCCCCCEEeCCCccccCcccc--ccCcccccccccc----cccccccc--ccccccccccccccccccccc-ccc
Confidence            34445567899999999999888764  7889999999987    56677764  588999999999999888776 688


Q ss_pred             CCCCCcEeecCCCCCCCCcccCCCCCCCEEeecCCCCCCCC
Q 040933          255 LLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       255 ~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      .+.+|+++++++|.++.+..++++++|+++++++|++..+|
T Consensus       132 ~l~~l~~l~~~~n~l~~~~~~~~l~~L~~l~l~~n~l~~i~  172 (210)
T d1h6ta2         132 HLPQLESLYLGNNKITDITVLSRLTKLDTLSLEDNQISDIV  172 (210)
T ss_dssp             GCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCCG
T ss_pred             ccccccccccccccccccccccccccccccccccccccccc
Confidence            88999999999999888667888999999999999888775

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=98.89  E-value=6.9e-10  Score=93.91  Aligned_cols=110  Identities=21%  Similarity=0.304  Sum_probs=90.7

Q ss_pred             cCccEEEEeCCCCcc---CCCCcCCCCCCCcEEeccccccccc-ccccChHHHhCCCCccEEEecCCCCCCC-CccccCC
Q 040933          182 KLYTSIVLRDIKTNV---LPDRVLPECPQLKLFSVRADHQESS-SLTIPNNFFEKMIQVRVINLTYMNLLPL-PSSLGLL  256 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~---l~~~~~~~~~~L~~L~l~~~~~~~~-~~~lp~~~~~~l~~Lr~L~l~~~~i~~l-P~~i~~L  256 (298)
                      ..++.|++.++.+..   +|.. +..+++|++|++++   ++. ...+|+.+ .++++|++|++++|++..+ |..+..+
T Consensus        50 ~~v~~L~L~~~~l~g~~~lp~~-l~~L~~L~~L~Ls~---~N~l~g~iP~~i-~~L~~L~~L~Ls~N~l~~~~~~~~~~~  124 (313)
T d1ogqa_          50 YRVNNLDLSGLNLPKPYPIPSS-LANLPYLNFLYIGG---INNLVGPIPPAI-AKLTQLHYLYITHTNVSGAIPDFLSQI  124 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGG-GGGCTTCSEEEEEE---ETTEESCCCGGG-GGCTTCSEEEEEEECCEEECCGGGGGC
T ss_pred             EEEEEEECCCCCCCCCCCCChH-HhcCcccccccccc---cccccccccccc-ccccccchhhhccccccccccccccch
Confidence            368889999988863   5655 48899999999986   344 44788886 8999999999999999885 5678899


Q ss_pred             CCCcEeecCCCCCCC--CcccCCCCCCCEEeecCCCCC-CCCC
Q 040933          257 SNLRTLSLCYCKLLD--ISVTGELKKLEILCLRGSDIQ-QLPV  296 (298)
Q Consensus       257 ~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~l~-~lP~  296 (298)
                      .+|+++++++|.+..  |..++++++|+++++++|.+. .+|.
T Consensus       125 ~~L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~  167 (313)
T d1ogqa_         125 KTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPD  167 (313)
T ss_dssp             TTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCG
T ss_pred             hhhcccccccccccccCchhhccCcccceeecccccccccccc
Confidence            999999999998554  889999999999999999765 5664

>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=98.85  E-value=7.9e-09  Score=89.24  Aligned_cols=112  Identities=17%  Similarity=0.239  Sum_probs=81.5

Q ss_pred             hhccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccc------------------cccccccChHHHhCCCCccEEE
Q 040933          179 NAVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQ------------------ESSSLTIPNNFFEKMIQVRVIN  240 (298)
Q Consensus       179 ~~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~------------------~~~~~~lp~~~~~~l~~Lr~L~  240 (298)
                      ....+++.+.+.+|.+..+++.  ..+++|++|.+.+..-                  .+.+..++.  +..++.+++|+
T Consensus       238 ~~l~~L~~L~l~~n~l~~~~~~--~~~~~L~~L~l~~~~l~~~~~~~~~~~l~~l~~~~n~l~~~~~--~~~~~~l~~L~  313 (384)
T d2omza2         238 ASLTNLTDLDLANNQISNLAPL--SGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISP--ISNLKNLTYLT  313 (384)
T ss_dssp             GGCTTCSEEECCSSCCCCCGGG--TTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCSCCGG--GGGCTTCSEEE
T ss_pred             hcccccchhccccCccCCCCcc--cccccCCEeeccCcccCCCCccccccccccccccccccccccc--cchhcccCeEE
Confidence            4456777888887777766653  6677777777765200                  011222222  46778888999


Q ss_pred             ecCCCCCCCCccccCCCCCcEeecCCCCCCCCcccCCCCCCCEEeecCCCCCCCC
Q 040933          241 LTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       241 l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      +++|+++.++ .+..+++|++|++++|+++.++.++++++|++|++++|++..+|
T Consensus       314 ls~n~l~~l~-~l~~l~~L~~L~L~~n~l~~l~~l~~l~~L~~L~l~~N~l~~l~  367 (384)
T d2omza2         314 LYFNNISDIS-PVSSLTKLQRLFFANNKVSDVSSLANLTNINWLSAGHNQISDLT  367 (384)
T ss_dssp             CCSSCCSCCG-GGGGCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCBCG
T ss_pred             CCCCCCCCCc-ccccCCCCCEEECCCCCCCCChhHcCCCCCCEEECCCCcCCCCh
Confidence            9999888886 48888999999999998888557888999999999988888765

>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=98.79  E-value=9.9e-09  Score=88.60  Aligned_cols=80  Identities=15%  Similarity=0.202  Sum_probs=67.9

Q ss_pred             CCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCCCcccCCCCCCC
Q 040933          203 PECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLE  282 (298)
Q Consensus       203 ~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~  282 (298)
                      ..+++++.|.+++    +.+..++.  +..+++|++|++++|+++.+| .++.+++|++|++++|+++....++++++|+
T Consensus       304 ~~~~~l~~L~ls~----n~l~~l~~--l~~l~~L~~L~L~~n~l~~l~-~l~~l~~L~~L~l~~N~l~~l~~l~~l~~L~  376 (384)
T d2omza2         304 SNLKNLTYLTLYF----NNISDISP--VSSLTKLQRLFFANNKVSDVS-SLANLTNINWLSAGHNQISDLTPLANLTRIT  376 (384)
T ss_dssp             GGCTTCSEEECCS----SCCSCCGG--GGGCTTCCEEECCSSCCCCCG-GGGGCTTCCEEECCSSCCCBCGGGTTCTTCS
T ss_pred             chhcccCeEECCC----CCCCCCcc--cccCCCCCEEECCCCCCCCCh-hHcCCCCCCEEECCCCcCCCChhhccCCCCC
Confidence            5567778888877    45666654  589999999999999999987 6999999999999999999832489999999


Q ss_pred             EEeecCC
Q 040933          283 ILCLRGS  289 (298)
Q Consensus       283 ~L~l~~~  289 (298)
                      .|+|++|
T Consensus       377 ~L~L~~N  383 (384)
T d2omza2         377 QLGLNDQ  383 (384)
T ss_dssp             EEECCCE
T ss_pred             EeeCCCC
Confidence            9999876

>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=98.78  E-value=1.7e-11  Score=97.23  Aligned_cols=105  Identities=21%  Similarity=0.243  Sum_probs=84.1

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNL  259 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L  259 (298)
                      ...++++|.+++|.+..++.  +..+++|+.|++++    +.+..+|... ..+++|++|++++|.++.++ .+..+++|
T Consensus        46 ~L~~L~~L~Ls~n~I~~i~~--l~~l~~L~~L~Ls~----N~i~~i~~~~-~~~~~L~~L~l~~N~i~~l~-~~~~l~~L  117 (198)
T d1m9la_          46 TLKACKHLALSTNNIEKISS--LSGMENLRILSLGR----NLIKKIENLD-AVADTLEELWISYNQIASLS-GIEKLVNL  117 (198)
T ss_dssp             HTTTCCEEECSEEEESCCCC--HHHHTTCCEEECCE----EEECSCSSHH-HHHHHCCEEECSEEECCCHH-HHHHHHHS
T ss_pred             cccccceeECcccCCCCccc--ccCCccccChhhcc----cccccccccc-cccccccccccccccccccc-cccccccc
Confidence            45678899999998888864  37888999999987    5677777543 55678899999999888875 57888889


Q ss_pred             cEeecCCCCCCC-C--cccCCCCCCCEEeecCCCCC
Q 040933          260 RTLSLCYCKLLD-I--SVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       260 ~~L~l~~~~l~~-p--~~i~~L~~L~~L~l~~~~l~  292 (298)
                      ++|++++|.++. +  ..++.+++|++|++++|.+.
T Consensus       118 ~~L~L~~N~i~~~~~~~~l~~l~~L~~L~L~~N~l~  153 (198)
T d1m9la_         118 RVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLY  153 (198)
T ss_dssp             SEEEESEEECCCHHHHHHHTTTTTCSEEEECSSHHH
T ss_pred             cccccccchhccccccccccCCCccceeecCCCccc
Confidence            999999998887 4  46788999999999888543

>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=98.78  E-value=7.4e-09  Score=78.39  Aligned_cols=86  Identities=17%  Similarity=0.113  Sum_probs=76.5

Q ss_pred             ccCccEEEEeCC-CCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCC
Q 040933          181 VKLYTSIVLRDI-KTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNL  259 (298)
Q Consensus       181 ~~~~~~l~l~~~-~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L  259 (298)
                      ..+++.|.+.++ .++.++...|..+++|+.|.+++    +.+..+++..|..+++|++|+|++|+++.+|..+....+|
T Consensus        30 l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~----N~l~~i~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~~~l  105 (156)
T d2ifga3          30 AENLTELYIENQQHLQHLELRDLRGLGELRNLTIVK----SGLRFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGLSL  105 (156)
T ss_dssp             CSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCS----SCCCEECTTGGGSCSCCCEEECCSSCCSCCCSTTTCSCCC
T ss_pred             ccccCeeecCCCccccccCchhhccccccCcceeec----cccCCcccccccccccccceeccCCCCcccChhhhccccc
Confidence            467889999766 58999888889999999999998    7889998888899999999999999999999887777789


Q ss_pred             cEeecCCCCCC
Q 040933          260 RTLSLCYCKLL  270 (298)
Q Consensus       260 ~~L~l~~~~l~  270 (298)
                      ++|++++|++.
T Consensus       106 ~~L~L~~Np~~  116 (156)
T d2ifga3         106 QELVLSGNPLH  116 (156)
T ss_dssp             CEEECCSSCCC
T ss_pred             cccccCCCccc
Confidence            99999999864

>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=98.78  E-value=2.5e-08  Score=80.03  Aligned_cols=64  Identities=23%  Similarity=0.279  Sum_probs=41.2

Q ss_pred             hCCCCccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCCCcccCCCCCCCEEeecCCCCCCCC
Q 040933          231 EKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       231 ~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      ..+++|+.|++++|.+...+ .++.+++|+.|++++|+++..+.++++++|++|++++|+++.+|
T Consensus       148 ~~~~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~Ls~n~l~~l~~l~~l~~L~~L~Ls~N~lt~i~  211 (227)
T d1h6ua2         148 AGLTNLQYLSIGNAQVSDLT-PLANLSKLTTLKADDNKISDISPLASLPNLIEVHLKNNQISDVS  211 (227)
T ss_dssp             GGCTTCCEEECCSSCCCCCG-GGTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECTTSCCCBCG
T ss_pred             ccccccccccccccccccch-hhcccccceecccCCCccCCChhhcCCCCCCEEECcCCcCCCCc
Confidence            55666677777666665554 36666677777777766666334666677777777776666554

>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=98.75  E-value=1.8e-08  Score=80.94  Aligned_cols=99  Identities=14%  Similarity=0.180  Sum_probs=78.5

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCc
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLR  260 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~  260 (298)
                      ....+.+.+..+.+.....  +..+++|+.|.+.+    +.+...+.  |..+++|+.|++++|+++.+| .++.+++|+
T Consensus       128 ~~~~~~l~~~~~~~~~~~~--~~~~~~L~~L~l~~----n~~~~~~~--l~~l~~L~~L~Ls~n~l~~l~-~l~~l~~L~  198 (227)
T d1h6ua2         128 LSNLQVLYLDLNQITNISP--LAGLTNLQYLSIGN----AQVSDLTP--LANLSKLTTLKADDNKISDIS-PLASLPNLI  198 (227)
T ss_dssp             CTTCCEEECCSSCCCCCGG--GGGCTTCCEEECCS----SCCCCCGG--GTTCTTCCEEECCSSCCCCCG-GGGGCTTCC
T ss_pred             ccchhhhhchhhhhchhhh--hccccccccccccc----cccccchh--hcccccceecccCCCccCCCh-hhcCCCCCC
Confidence            4456666666666655444  37788899999887    44444443  589999999999999999987 589999999


Q ss_pred             EeecCCCCCCCCcccCCCCCCCEEeecC
Q 040933          261 TLSLCYCKLLDISVTGELKKLEILCLRG  288 (298)
Q Consensus       261 ~L~l~~~~l~~p~~i~~L~~L~~L~l~~  288 (298)
                      +|++++|+++..+.++++++|+.|++++
T Consensus       199 ~L~Ls~N~lt~i~~l~~l~~L~~L~lsn  226 (227)
T d1h6ua2         199 EVHLKNNQISDVSPLANTSNLFIVTLTN  226 (227)
T ss_dssp             EEECTTSCCCBCGGGTTCTTCCEEEEEE
T ss_pred             EEECcCCcCCCCcccccCCCCCEEEeeC
Confidence            9999999999833589999999999974

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=98.67  E-value=4.9e-09  Score=88.49  Aligned_cols=103  Identities=13%  Similarity=0.130  Sum_probs=74.4

Q ss_pred             EEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCC-CCCccccCCCCCcEeec
Q 040933          186 SIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLL-PLPSSLGLLSNLRTLSL  264 (298)
Q Consensus       186 ~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~-~lP~~i~~L~~L~~L~l  264 (298)
                      .+.+..+......+..+..+++++.+.+.+   +. ....++. +..+++|++|++++|+++ .+|.+++++++|++|+|
T Consensus       201 ~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~---~~-l~~~~~~-~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~L  275 (313)
T d1ogqa_         201 FVDLSRNMLEGDASVLFGSDKNTQKIHLAK---NS-LAFDLGK-VGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNV  275 (313)
T ss_dssp             EEECCSSEEEECCGGGCCTTSCCSEEECCS---SE-ECCBGGG-CCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEEC
T ss_pred             cccccccccccccccccccccccccccccc---cc-ccccccc-cccccccccccCccCeecccCChHHhCCCCCCEEEC
Confidence            344444433333333346677888888877   33 3333333 478899999999999988 68999999999999999


Q ss_pred             CCCCCCC-CcccCCCCCCCEEeecCCC-CCC
Q 040933          265 CYCKLLD-ISVTGELKKLEILCLRGSD-IQQ  293 (298)
Q Consensus       265 ~~~~l~~-p~~i~~L~~L~~L~l~~~~-l~~  293 (298)
                      ++|+++. .+.+++|++|+.+++++|+ +..
T Consensus       276 s~N~l~g~iP~~~~L~~L~~l~l~~N~~l~g  306 (313)
T d1ogqa_         276 SFNNLCGEIPQGGNLQRFDVSAYANNKCLCG  306 (313)
T ss_dssp             CSSEEEEECCCSTTGGGSCGGGTCSSSEEES
T ss_pred             cCCcccccCCCcccCCCCCHHHhCCCccccC
Confidence            9999885 4467889999999999985 543

>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=98.65  E-value=6.8e-08  Score=78.06  Aligned_cols=112  Identities=15%  Similarity=0.196  Sum_probs=76.2

Q ss_pred             ccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCC-CCCCC-CccccCCCC
Q 040933          181 VKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYM-NLLPL-PSSLGLLSN  258 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~-~i~~l-P~~i~~L~~  258 (298)
                      +..++.|.+.+|.+..++...|.++++|++|++.+   +.....++...|..++.++.+.+..+ ++... |..+..+++
T Consensus        28 ~~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~---n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~  104 (242)
T d1xwdc1          28 PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQ---NDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPN  104 (242)
T ss_dssp             CSCCSEEEEESCCCCEECTTTTTTCTTCCEEEEES---CTTCCEECSSSEESCTTCCEEEEECCTTCCEECTTSEECCTT
T ss_pred             CCCCCEEECcCCcCCccChhHhhccchhhhhhhcc---ccccceeecccccccccccccccccccccccccccccccccc
Confidence            45788888888888888877778888888888887   44444566666678888888877654 56554 455778888


Q ss_pred             CcEeecCCCCCCCCcc---cCCCCCCCEEeecCCCCCCCC
Q 040933          259 LRTLSLCYCKLLDISV---TGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       259 L~~L~l~~~~l~~p~~---i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      |++|++++|.+..+..   +..+..|..+...++++..+|
T Consensus       105 L~~l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~  144 (242)
T d1xwdc1         105 LQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIE  144 (242)
T ss_dssp             CCEEEEESCCCCSCCCCTTTCBSSCEEEEEESCTTCCEEC
T ss_pred             ccccccchhhhccccccccccccccccccccccccccccc
Confidence            8888888888766222   333444444444444555554

>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=98.56  E-value=6e-10  Score=88.10  Aligned_cols=88  Identities=16%  Similarity=0.235  Sum_probs=76.0

Q ss_pred             CCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcEeecCCCCCCCCcccCCCCCC
Q 040933          202 LPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLSLCYCKLLDISVTGELKKL  281 (298)
Q Consensus       202 ~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L  281 (298)
                      +..+++|+.|.+++    +.+..++.  +..+++|++|++++|.++.+|.....+.+|++|++++|.++..+.+..+++|
T Consensus        44 l~~L~~L~~L~Ls~----n~I~~i~~--l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N~i~~l~~~~~l~~L  117 (198)
T d1m9la_          44 LSTLKACKHLALST----NNIEKISS--LSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLSGIEKLVNL  117 (198)
T ss_dssp             HHHTTTCCEEECSE----EEESCCCC--HHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEECCCHHHHHHHHHS
T ss_pred             HhcccccceeECcc----cCCCCccc--ccCCccccChhhcccccccccccccccccccccccccccccccccccccccc
Confidence            46789999999998    66777864  5899999999999999999987667777899999999999985568899999


Q ss_pred             CEEeecCCCCCCCC
Q 040933          282 EILCLRGSDIQQLP  295 (298)
Q Consensus       282 ~~L~l~~~~l~~lP  295 (298)
                      ++|++++|++..+|
T Consensus       118 ~~L~L~~N~i~~~~  131 (198)
T d1m9la_         118 RVLYMSNNKITNWG  131 (198)
T ss_dssp             SEEEESEEECCCHH
T ss_pred             cccccccchhcccc
Confidence            99999999887654

>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=98.54  E-value=2.9e-07  Score=77.96  Aligned_cols=95  Identities=18%  Similarity=0.221  Sum_probs=42.2

Q ss_pred             ccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCCcEee
Q 040933          184 YTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNLRTLS  263 (298)
Q Consensus       184 ~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L~~L~  263 (298)
                      +++|.++++.+..+|+.    .++|++|.+++    +.+..+|..    +.+|+.|++++|+++.++. +  ...|++|+
T Consensus        40 l~~LdLs~~~L~~lp~~----~~~L~~L~Ls~----N~l~~lp~~----~~~L~~L~l~~n~l~~l~~-l--p~~L~~L~  104 (353)
T d1jl5a_          40 AHELELNNLGLSSLPEL----PPHLESLVASC----NSLTELPEL----PQSLKSLLVDNNNLKALSD-L--PPLLEYLG  104 (353)
T ss_dssp             CSEEECTTSCCSCCCSC----CTTCSEEECCS----SCCSSCCCC----CTTCCEEECCSSCCSCCCS-C--CTTCCEEE
T ss_pred             CCEEEeCCCCCCCCCCC----CCCCCEEECCC----CCCcccccc----hhhhhhhhhhhcccchhhh-h--cccccccc
Confidence            44444444444444431    23455555544    344444431    2344455555554444431 1  12345555


Q ss_pred             cCCCCCCC-CcccCCCCCCCEEeecCCCCCCC
Q 040933          264 LCYCKLLD-ISVTGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       264 l~~~~l~~-p~~i~~L~~L~~L~l~~~~l~~l  294 (298)
                      +++|.+.. | .++++++|++|+++++.+...
T Consensus       105 L~~n~l~~lp-~~~~l~~L~~L~l~~~~~~~~  135 (353)
T d1jl5a_         105 VSNNQLEKLP-ELQNSSFLKIIDVDNNSLKKL  135 (353)
T ss_dssp             CCSSCCSSCC-CCTTCTTCCEEECCSSCCSCC
T ss_pred             cccccccccc-chhhhccceeecccccccccc
Confidence            55555444 3 234455555555554444433

>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=98.50  E-value=3.9e-07  Score=73.40  Aligned_cols=105  Identities=15%  Similarity=0.221  Sum_probs=75.9

Q ss_pred             cEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCC-C-CccccCCCCCcEe
Q 040933          185 TSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLP-L-PSSLGLLSNLRTL  262 (298)
Q Consensus       185 ~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~-l-P~~i~~L~~L~~L  262 (298)
                      +.+...+..+..+|..+   .+++++|++++    +.+..+|...|..+++|++|++++|.+.. + +..+..+.+++++
T Consensus        11 ~~i~c~~~~l~~iP~~l---~~~l~~L~Ls~----n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l   83 (242)
T d1xwdc1          11 RVFLCQESKVTEIPSDL---PRNAIELRFVL----TKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEI   83 (242)
T ss_dssp             SEEEEESCSCSSCCSCS---CSCCSEEEEES----CCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEE
T ss_pred             CEEEEeCCCCCCcCCCC---CCCCCEEECcC----CcCCccChhHhhccchhhhhhhccccccceeeccccccccccccc
Confidence            35566666777777653   24788888887    56777887777888888888888887765 3 3457778888888


Q ss_pred             ecCCC-CCCC--CcccCCCCCCCEEeecCCCCCCCCC
Q 040933          263 SLCYC-KLLD--ISVTGELKKLEILCLRGSDIQQLPV  296 (298)
Q Consensus       263 ~l~~~-~l~~--p~~i~~L~~L~~L~l~~~~l~~lP~  296 (298)
                      .+..+ .+..  +..+.++++|++|++++|++...|.
T Consensus        84 ~~~~~n~l~~~~~~~~~~l~~L~~l~l~~~~l~~~~~  120 (242)
T d1xwdc1          84 RIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPD  120 (242)
T ss_dssp             EEECCTTCCEECTTSEECCTTCCEEEEESCCCCSCCC
T ss_pred             cccccccccccccccccccccccccccchhhhccccc
Confidence            77654 4655  5667888888888888887776653

>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=98.26  E-value=3.8e-05  Score=64.33  Aligned_cols=103  Identities=17%  Similarity=0.143  Sum_probs=78.5

Q ss_pred             hccCccEEEEeCCCCccCCCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCCCCCCCCccccCCCCC
Q 040933          180 AVKLYTSIVLRDIKTNVLPDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYMNLLPLPSSLGLLSNL  259 (298)
Q Consensus       180 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~~i~~lP~~i~~L~~L  259 (298)
                      .+.+++.|.+.+|++..+|..    +.+|+.|.+.+    +.+..++.    -.+.|++|++++|.+..+| .++.+.+|
T Consensus        56 ~~~~L~~L~Ls~N~l~~lp~~----~~~L~~L~l~~----n~l~~l~~----lp~~L~~L~L~~n~l~~lp-~~~~l~~L  122 (353)
T d1jl5a_          56 LPPHLESLVASCNSLTELPEL----PQSLKSLLVDN----NNLKALSD----LPPLLEYLGVSNNQLEKLP-ELQNSSFL  122 (353)
T ss_dssp             CCTTCSEEECCSSCCSSCCCC----CTTCCEEECCS----SCCSCCCS----CCTTCCEEECCSSCCSSCC-CCTTCTTC
T ss_pred             CCCCCCEEECCCCCCcccccc----hhhhhhhhhhh----cccchhhh----hcccccccccccccccccc-chhhhccc
Confidence            356899999999999999854    56899999988    45555543    2246999999999999998 47889999


Q ss_pred             cEeecCCCCCCC-Cc-------------------ccCCCCCCCEEeecCCCCCCCC
Q 040933          260 RTLSLCYCKLLD-IS-------------------VTGELKKLEILCLRGSDIQQLP  295 (298)
Q Consensus       260 ~~L~l~~~~l~~-p~-------------------~i~~L~~L~~L~l~~~~l~~lP  295 (298)
                      ++|+++++.+.. |.                   .++.+..++.|++.++....+|
T Consensus       123 ~~L~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~l~~l~~l~~L~l~~n~~~~~~  178 (353)
T d1jl5a_         123 KIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKLP  178 (353)
T ss_dssp             CEEECCSSCCSCCCCCCTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCSSCC
T ss_pred             eeeccccccccccccccccccchhhccccccccccccccccceecccccccccccc
Confidence            999999988665 43                   3455666777777777555544

>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=97.87  E-value=6.6e-06  Score=67.88  Aligned_cols=107  Identities=14%  Similarity=0.111  Sum_probs=72.8

Q ss_pred             ccCccEEEEeCC-CCcc--CCCCcCCCCCCCcEEeccccccccccc-ccChHHHhCCCCccEEEecCC-CCCC-CCcccc
Q 040933          181 VKLYTSIVLRDI-KTNV--LPDRVLPECPQLKLFSVRADHQESSSL-TIPNNFFEKMIQVRVINLTYM-NLLP-LPSSLG  254 (298)
Q Consensus       181 ~~~~~~l~l~~~-~~~~--l~~~~~~~~~~L~~L~l~~~~~~~~~~-~lp~~~~~~l~~Lr~L~l~~~-~i~~-lP~~i~  254 (298)
                      .++++.+++.++ .+..  +...+....++|+.|.+.+..  ..+. .-...++..+++|+.|++++| .++. .+..++
T Consensus       120 ~~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~--~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l~  197 (284)
T d2astb2         120 CSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYR--KNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFF  197 (284)
T ss_dssp             CTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCG--GGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGG
T ss_pred             HHhccccccccccccccccchhhhcccccccchhhhcccc--cccccccccccccccccccccccccccCCCchhhhhhc
Confidence            357888888764 2221  111111235678888887621  1111 111233467899999999987 5664 567888


Q ss_pred             CCCCCcEeecCCCC-CCC--CcccCCCCCCCEEeecCC
Q 040933          255 LLSNLRTLSLCYCK-LLD--ISVTGELKKLEILCLRGS  289 (298)
Q Consensus       255 ~L~~L~~L~l~~~~-l~~--p~~i~~L~~L~~L~l~~~  289 (298)
                      ++++|++|++++|. ++.  +..++++++|++|++++|
T Consensus       198 ~~~~L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         198 QLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             GCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS
T ss_pred             ccCcCCEEECCCCCCCChHHHHHHhcCCCCCEEeeeCC
Confidence            99999999999986 765  677889999999999887

>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=97.78  E-value=3.6e-06  Score=69.55  Aligned_cols=105  Identities=21%  Similarity=0.250  Sum_probs=66.8

Q ss_pred             ccCccEEEEeCCCCccC-CCCcCCCCCCCcEEecccccccccccccChHHHhCCCCccEEEecCC-CCCC--CCccccCC
Q 040933          181 VKLYTSIVLRDIKTNVL-PDRVLPECPQLKLFSVRADHQESSSLTIPNNFFEKMIQVRVINLTYM-NLLP--LPSSLGLL  256 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l-~~~~~~~~~~L~~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~l~~~-~i~~--lP~~i~~L  256 (298)
                      ..+++++.+.++.+..- ...++..+++|+.|.+.+   +......+.. +..+++|++|+++++ .++.  +..-...+
T Consensus        45 ~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~---~~l~~~~~~~-l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~  120 (284)
T d2astb2          45 PFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEG---LRLSDPIVNT-LAKNSNLVRLNLSGCSGFSEFALQTLLSSC  120 (284)
T ss_dssp             CBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTT---CBCCHHHHHH-HTTCTTCSEEECTTCBSCCHHHHHHHHHHC
T ss_pred             CCCCCEEECCCCccCHHHHHHHHHhCCCcccccccc---cCCCcHHHHH-HhcCCCCcCccccccccccccccchhhHHH
Confidence            45678888877655321 112346788888888887   3222223333 367888888888886 5653  33334567


Q ss_pred             CCCcEeecCCCC-CCC---CcccCCC-CCCCEEeecCC
Q 040933          257 SNLRTLSLCYCK-LLD---ISVTGEL-KKLEILCLRGS  289 (298)
Q Consensus       257 ~~L~~L~l~~~~-l~~---p~~i~~L-~~L~~L~l~~~  289 (298)
                      ++|++|++++|. +..   +..+.+. ++|+.|++++|
T Consensus       121 ~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~  158 (284)
T d2astb2         121 SRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGY  158 (284)
T ss_dssp             TTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSC
T ss_pred             Hhccccccccccccccccchhhhcccccccchhhhccc
Confidence            888888888886 544   2334443 57888888876

>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=97.71  E-value=7.6e-06  Score=61.63  Aligned_cols=40  Identities=20%  Similarity=0.032  Sum_probs=18.1

Q ss_pred             hCCCCccEEEecCCCCCCCCc-cccCCCCCcEeecCCCCCC
Q 040933          231 EKMIQVRVINLTYMNLLPLPS-SLGLLSNLRTLSLCYCKLL  270 (298)
Q Consensus       231 ~~l~~Lr~L~l~~~~i~~lP~-~i~~L~~L~~L~l~~~~l~  270 (298)
                      ..+++|+.|++++|.|+.+++ ......+|+.|++++|++.
T Consensus        88 ~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~  128 (162)
T d1koha1          88 QKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLS  128 (162)
T ss_dssp             HHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTS
T ss_pred             hhCCcccccccccCccccchhhhhhhccccceeecCCCCcC
Confidence            445555555555555555432 1112223455555555543

>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=97.67  E-value=4.3e-06  Score=63.03  Aligned_cols=67  Identities=25%  Similarity=0.207  Sum_probs=54.1

Q ss_pred             hHHHhCCCCccEEEecCCCCCCCC---ccccCCCCCcEeecCCCCCCC-Cc-ccCCCCCCCEEeecCCCCCC
Q 040933          227 NNFFEKMIQVRVINLTYMNLLPLP---SSLGLLSNLRTLSLCYCKLLD-IS-VTGELKKLEILCLRGSDIQQ  293 (298)
Q Consensus       227 ~~~~~~l~~Lr~L~l~~~~i~~lP---~~i~~L~~L~~L~l~~~~l~~-p~-~i~~L~~L~~L~l~~~~l~~  293 (298)
                      ..++..+++|++|++++|+|+.++   ..+..+++|++|++++|.++. +. ...+..+|+.|++++|.+..
T Consensus        58 ~~~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~  129 (162)
T d1koha1          58 RIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSD  129 (162)
T ss_dssp             HHHHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSS
T ss_pred             HHHHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCc
Confidence            445578999999999999999864   456789999999999999998 32 23344579999999998764

>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=97.22  E-value=2.6e-05  Score=67.72  Aligned_cols=105  Identities=18%  Similarity=0.120  Sum_probs=71.9

Q ss_pred             CccEEEEeCCCCccCC-CCcCCCCCCCcEEeccccccccccc-----ccChHHHhCCCCccEEEecCCCCCC-----CCc
Q 040933          183 LYTSIVLRDIKTNVLP-DRVLPECPQLKLFSVRADHQESSSL-----TIPNNFFEKMIQVRVINLTYMNLLP-----LPS  251 (298)
Q Consensus       183 ~~~~l~l~~~~~~~l~-~~~~~~~~~L~~L~l~~~~~~~~~~-----~lp~~~~~~l~~Lr~L~l~~~~i~~-----lP~  251 (298)
                      +++.|.++++++.... ..++..++++++|.+.+   + .+.     .++. .+..+++|+.|+|++|.|+.     +..
T Consensus         3 ~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~---~-~i~~~~~~~l~~-~L~~~~~L~~LdLs~N~i~~~~~~~l~~   77 (460)
T d1z7xw1           3 DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDD---C-GLTEARCKDISS-ALRVNPALAELNLRSNELGDVGVHCVLQ   77 (460)
T ss_dssp             EEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEES---S-CCCHHHHHHHHH-HHHTCTTCCEEECTTCCCHHHHHHHHHH
T ss_pred             CCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCC---C-CCCHHHHHHHHH-HHhcCCCCCEEECcCCcCChHHHHHHHH
Confidence            4677888888885421 11235578889999987   3 232     2222 24788999999999998753     222


Q ss_pred             cccC-CCCCcEeecCCCCCCC------CcccCCCCCCCEEeecCCCCC
Q 040933          252 SLGL-LSNLRTLSLCYCKLLD------ISVTGELKKLEILCLRGSDIQ  292 (298)
Q Consensus       252 ~i~~-L~~L~~L~l~~~~l~~------p~~i~~L~~L~~L~l~~~~l~  292 (298)
                      .+.. ..+|++|++++|.++.      +..+..+++|++|++++|.+.
T Consensus        78 ~l~~~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~i~  125 (460)
T d1z7xw1          78 GLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLG  125 (460)
T ss_dssp             TTCSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCH
T ss_pred             HHhcCCCCCCEEECCCCCccccccccccchhhccccccccccccccch
Confidence            2222 2469999999998865      245778899999999988764

>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=96.64  E-value=9e-05  Score=64.15  Aligned_cols=83  Identities=17%  Similarity=0.193  Sum_probs=60.8

Q ss_pred             CCCcEEecccccccccccccC-hHHHhCCCCccEEEecCCCCCC-----CCccccCCCCCcEeecCCCCCCC--C----c
Q 040933          206 PQLKLFSVRADHQESSSLTIP-NNFFEKMIQVRVINLTYMNLLP-----LPSSLGLLSNLRTLSLCYCKLLD--I----S  273 (298)
Q Consensus       206 ~~L~~L~l~~~~~~~~~~~lp-~~~~~~l~~Lr~L~l~~~~i~~-----lP~~i~~L~~L~~L~l~~~~l~~--p----~  273 (298)
                      .+|++|++++    +.+.... ..++..++++++|+|++|.++.     ++..+..+++|++|+|++|.++.  .    .
T Consensus         2 ~~l~~ld~~~----~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~   77 (460)
T d1z7xw1           2 LDIQSLDIQC----EELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQ   77 (460)
T ss_dssp             EEEEEEEEES----CCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHH
T ss_pred             CCCCEEEeeC----CcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHH
Confidence            3678899887    4443321 3345788999999999998873     45567789999999999999864  1    2


Q ss_pred             ccC-CCCCCCEEeecCCCCC
Q 040933          274 VTG-ELKKLEILCLRGSDIQ  292 (298)
Q Consensus       274 ~i~-~L~~L~~L~l~~~~l~  292 (298)
                      .+. ...+|++|++++|++.
T Consensus        78 ~l~~~~~~L~~L~L~~n~it   97 (460)
T d1z7xw1          78 GLQTPSCKIQKLSLQNCCLT   97 (460)
T ss_dssp             TTCSTTCCCCEEECTTSCCB
T ss_pred             HHhcCCCCCCEEECCCCCcc
Confidence            222 2357999999999875

>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=96.30  E-value=0.00081  Score=56.23  Aligned_cols=108  Identities=17%  Similarity=0.207  Sum_probs=74.6

Q ss_pred             ccCccEEEEeCCCCccC-----CCCcCCCCCCCcEEecccccccccccc-----cChHHHhCCCCccEEEecCCCCCC--
Q 040933          181 VKLYTSIVLRDIKTNVL-----PDRVLPECPQLKLFSVRADHQESSSLT-----IPNNFFEKMIQVRVINLTYMNLLP--  248 (298)
Q Consensus       181 ~~~~~~l~l~~~~~~~l-----~~~~~~~~~~L~~L~l~~~~~~~~~~~-----lp~~~~~~l~~Lr~L~l~~~~i~~--  248 (298)
                      ...++.+.+..|.+..-     ....+..+++|+.|.+.+   + .+..     +.. .+..+++|++|++++|.+..  
T Consensus       185 ~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~---N-~i~~~g~~~L~~-~l~~~~~L~~L~Ls~n~i~~~g  259 (344)
T d2ca6a1         185 HRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQD---N-TFTHLGSSALAI-ALKSWPNLRELGLNDCLLSARG  259 (344)
T ss_dssp             CTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCS---S-CCHHHHHHHHHH-HGGGCTTCCEEECTTCCCCHHH
T ss_pred             hhhhcccccccccccccccccchhhhhcchhhhccccccc---c-cccccccccccc-cccccccchhhhhhcCccCchh
Confidence            45788999998887531     111246788999999987   2 3321     222 24788999999999998875  


Q ss_pred             ---CCccccC--CCCCcEeecCCCCCCC--C----ccc-CCCCCCCEEeecCCCCCC
Q 040933          249 ---LPSSLGL--LSNLRTLSLCYCKLLD--I----SVT-GELKKLEILCLRGSDIQQ  293 (298)
Q Consensus       249 ---lP~~i~~--L~~L~~L~l~~~~l~~--p----~~i-~~L~~L~~L~l~~~~l~~  293 (298)
                         +-..+..  -..|+.|++++|.+..  .    ..+ .++++|++|++++|++..
T Consensus       260 ~~~l~~~l~~~~~~~L~~L~ls~N~i~~~~~~~l~~~l~~~~~~L~~L~l~~N~~~~  316 (344)
T d2ca6a1         260 AAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFSE  316 (344)
T ss_dssp             HHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBSCT
T ss_pred             hHHHHHHhhhccCCCCCEEECCCCcCChHHHHHHHHHHHccCCCCCEEECCCCcCCC
Confidence               2223333  2469999999999865  2    233 257889999999998754

>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=96.21  E-value=0.0018  Score=48.20  Aligned_cols=102  Identities=13%  Similarity=0.103  Sum_probs=51.6

Q ss_pred             cCccEEEEeCC-CCcc-----CCCCcCCCCCCCcEEeccccccccccc-----ccChHHHhCCCCccEEEecCCCCCC--
Q 040933          182 KLYTSIVLRDI-KTNV-----LPDRVLPECPQLKLFSVRADHQESSSL-----TIPNNFFEKMIQVRVINLTYMNLLP--  248 (298)
Q Consensus       182 ~~~~~l~l~~~-~~~~-----l~~~~~~~~~~L~~L~l~~~~~~~~~~-----~lp~~~~~~l~~Lr~L~l~~~~i~~--  248 (298)
                      +.++.|++.++ .+..     +-. .+...++|++|.+.++    .+.     .+.. .+...+.|+.|++++|.+..  
T Consensus        15 ~~L~~L~L~~~~~i~~~~~~~l~~-~L~~n~~L~~L~Ls~n----~l~~~~~~~la~-~L~~n~~L~~L~L~~n~i~~~g   88 (167)
T d1pgva_          15 TDLKEVNINNMKRVSKERIRSLIE-AACNSKHIEKFSLANT----AISDSEARGLIE-LIETSPSLRVLNVESNFLTPEL   88 (167)
T ss_dssp             SSCCEEECTTCCSSCHHHHHHHHH-HHTTCSCCCEEECTTS----CCBHHHHTTHHH-HHHHCSSCCEEECCSSBCCHHH
T ss_pred             CCCcEEEeCCCCCCCHHHHHHHHH-HHhhCCccceeecccc----ccchhHHHHHhh-hhhhcccccceeeehhhcchHH
Confidence            55677777643 2321     111 1244566777776662    221     1111 22455667777777776653  


Q ss_pred             ---CCccccCCCCCcEeecCCCCCCC---------CcccCCCCCCCEEeecCC
Q 040933          249 ---LPSSLGLLSNLRTLSLCYCKLLD---------ISVTGELKKLEILCLRGS  289 (298)
Q Consensus       249 ---lP~~i~~L~~L~~L~l~~~~l~~---------p~~i~~L~~L~~L~l~~~  289 (298)
                         +-..+..-+.|+.|+++++.+..         ...+..-++|+.|+++.+
T Consensus        89 ~~~l~~aL~~n~sL~~L~l~~n~~~~~g~~~~~~l~~~L~~n~sL~~l~l~~~  141 (167)
T d1pgva_          89 LARLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFA  141 (167)
T ss_dssp             HHHHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             HHHHHHHHHhCCcCCEEECCCCcCCCccHHHHHHHHHHHHhCCCccEeeCcCC
Confidence               22334445557777776664332         122333456666666554

>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=95.96  E-value=0.0017  Score=54.13  Aligned_cols=107  Identities=18%  Similarity=0.146  Sum_probs=72.0

Q ss_pred             cCccEEEEeCCCCccCCCC----cCCCCCCCcEEecccccccccccc-----cChHHHhCCCCccEEEecCCCCCC----
Q 040933          182 KLYTSIVLRDIKTNVLPDR----VLPECPQLKLFSVRADHQESSSLT-----IPNNFFEKMIQVRVINLTYMNLLP----  248 (298)
Q Consensus       182 ~~~~~l~l~~~~~~~l~~~----~~~~~~~L~~L~l~~~~~~~~~~~-----lp~~~~~~l~~Lr~L~l~~~~i~~----  248 (298)
                      ..++.+.+..+.+..-.-.    .+..++.++.|.+..    +.+..     +....+..+++|+.|++++|.+..    
T Consensus       158 ~~L~~l~l~~n~i~~~~~~~l~~~l~~~~~L~~L~L~~----n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~  233 (344)
T d2ca6a1         158 PPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQ----NGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSS  233 (344)
T ss_dssp             CCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCS----SCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHH
T ss_pred             cccceeecccccccccccccccchhhhhhhhccccccc----ccccccccccchhhhhcchhhhcccccccccccccccc
Confidence            4567777777665421100    124567899999887    23321     112224678899999999998753    


Q ss_pred             -CCccccCCCCCcEeecCCCCCCC--Cccc----C--CCCCCCEEeecCCCCC
Q 040933          249 -LPSSLGLLSNLRTLSLCYCKLLD--ISVT----G--ELKKLEILCLRGSDIQ  292 (298)
Q Consensus       249 -lP~~i~~L~~L~~L~l~~~~l~~--p~~i----~--~L~~L~~L~l~~~~l~  292 (298)
                       +...+...++|++|++++|.+..  ...+    .  ...+|++|++++|+|.
T Consensus       234 ~L~~~l~~~~~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~  286 (344)
T d2ca6a1         234 ALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIE  286 (344)
T ss_dssp             HHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCB
T ss_pred             cccccccccccchhhhhhcCccCchhhHHHHHHhhhccCCCCCEEECCCCcCC
Confidence             45567788999999999999876  3322    2  3467999999999764

>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=91.95  E-value=0.056  Score=39.50  Aligned_cols=103  Identities=14%  Similarity=0.084  Sum_probs=60.1

Q ss_pred             ccCccEEEEeC-CCCcc-----CCCCcCCCCCCCcEEeccccccccccc-----ccChHHHhCCCCccEEEecCCCCCC-
Q 040933          181 VKLYTSIVLRD-IKTNV-----LPDRVLPECPQLKLFSVRADHQESSSL-----TIPNNFFEKMIQVRVINLTYMNLLP-  248 (298)
Q Consensus       181 ~~~~~~l~l~~-~~~~~-----l~~~~~~~~~~L~~L~l~~~~~~~~~~-----~lp~~~~~~l~~Lr~L~l~~~~i~~-  248 (298)
                      .+.++.+++.+ +.+..     +.. .+...++|+.|.+++   + .+.     .+. ..+...+.++.++++++.+.. 
T Consensus        16 ~~~L~~L~L~~~~~i~~~~~~~l~~-al~~n~~L~~L~Ls~---n-~l~~~~~~~L~-~~l~~~~~l~~l~l~~~~~~~~   89 (166)
T d1io0a_          16 DPDLEEVNLNNIMNIPVPTLKACAE-ALKTNTYVKKFSIVG---T-RSNDPVAFALA-EMLKVNNTLKSLNVESNFISGS   89 (166)
T ss_dssp             CTTCCEEECTTCTTCCHHHHHHHHH-HHTTCCSCCEEECTT---S-CCCHHHHHHHH-HHHHHCSSCCEEECCSSCCCHH
T ss_pred             CCCCcEEEcCCCCCCCHHHHHHHHH-HHhcCCccCeeeccC---C-cccHHHHHHHH-HHHhhcccchhhhhccccccch
Confidence            35677787765 23321     111 134567788888887   2 221     121 223667788888888887643 


Q ss_pred             ----CCccccCCCCCcEeecC--CCCCCC------CcccCCCCCCCEEeecCC
Q 040933          249 ----LPSSLGLLSNLRTLSLC--YCKLLD------ISVTGELKKLEILCLRGS  289 (298)
Q Consensus       249 ----lP~~i~~L~~L~~L~l~--~~~l~~------p~~i~~L~~L~~L~l~~~  289 (298)
                          +-..+...++|+.+++.  ++.+..      ...+.+.++|++|+++.+
T Consensus        90 g~~~l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~l~~~  142 (166)
T d1io0a_          90 GILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFT  142 (166)
T ss_dssp             HHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCS
T ss_pred             hHHHHHHHHHhCccccEEeeccCCCcCcHHHHHHHHHHHHhCCCcCEEeCcCC
Confidence                33556666777765554  444543      134556778888888665

>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=91.90  E-value=0.043  Score=40.28  Aligned_cols=88  Identities=11%  Similarity=0.015  Sum_probs=61.5

Q ss_pred             CCCCCCcEEecccccccccccc-----cChHHHhCCCCccEEEecCCCCCC-----CCccccCCCCCcEeecCCCCCCC-
Q 040933          203 PECPQLKLFSVRADHQESSSLT-----IPNNFFEKMIQVRVINLTYMNLLP-----LPSSLGLLSNLRTLSLCYCKLLD-  271 (298)
Q Consensus       203 ~~~~~L~~L~l~~~~~~~~~~~-----lp~~~~~~l~~Lr~L~l~~~~i~~-----lP~~i~~L~~L~~L~l~~~~l~~-  271 (298)
                      ...++|+.|.+++   ...+..     +.. .+...++|+.|++++|.+..     +...+...+.|+.|++++|.+.. 
T Consensus        12 ~n~~~L~~L~L~~---~~~i~~~~~~~l~~-~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~   87 (167)
T d1pgva_          12 EDDTDLKEVNINN---MKRVSKERIRSLIE-AACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPE   87 (167)
T ss_dssp             TTCSSCCEEECTT---CCSSCHHHHHHHHH-HHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHH
T ss_pred             hCCCCCcEEEeCC---CCCCCHHHHHHHHH-HHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchH
Confidence            4467899999976   222221     222 23677889999999998763     33455566789999999998876 


Q ss_pred             -C----cccCCCCCCCEEeecCCCCCCC
Q 040933          272 -I----SVTGELKKLEILCLRGSDIQQL  294 (298)
Q Consensus       272 -p----~~i~~L~~L~~L~l~~~~l~~l  294 (298)
                       .    ..+..-++|++|++++|++..+
T Consensus        88 g~~~l~~aL~~n~sL~~L~l~~n~~~~~  115 (167)
T d1pgva_          88 LLARLLRSTLVTQSIVEFKADNQRQSVL  115 (167)
T ss_dssp             HHHHHHHHTTTTCCCSEEECCCCSSCCC
T ss_pred             HHHHHHHHHHhCCcCCEEECCCCcCCCc
Confidence             2    3566778899999988765543

>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=88.50  E-value=0.064  Score=39.16  Aligned_cols=83  Identities=11%  Similarity=0.064  Sum_probs=59.3

Q ss_pred             CCCCCCcEEeccccccccccc-----ccChHHHhCCCCccEEEecCCCCCC-----CCccccCCCCCcEeecCCCCCCC-
Q 040933          203 PECPQLKLFSVRADHQESSSL-----TIPNNFFEKMIQVRVINLTYMNLLP-----LPSSLGLLSNLRTLSLCYCKLLD-  271 (298)
Q Consensus       203 ~~~~~L~~L~l~~~~~~~~~~-----~lp~~~~~~l~~Lr~L~l~~~~i~~-----lP~~i~~L~~L~~L~l~~~~l~~-  271 (298)
                      .+.+.|+.|.+.+   ...+.     .+... +...++|+.|++++|.+..     +-..+.....++.+++++|.+.. 
T Consensus        14 ~~~~~L~~L~L~~---~~~i~~~~~~~l~~a-l~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~   89 (166)
T d1io0a_          14 NNDPDLEEVNLNN---IMNIPVPTLKACAEA-LKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGS   89 (166)
T ss_dssp             TTCTTCCEEECTT---CTTCCHHHHHHHHHH-HTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHH
T ss_pred             hcCCCCcEEEcCC---CCCCCHHHHHHHHHH-HhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccch
Confidence            4568899999876   22221     12222 3678999999999998764     33455667889999999999876 


Q ss_pred             -----CcccCCCCCCCEEeecCC
Q 040933          272 -----ISVTGELKKLEILCLRGS  289 (298)
Q Consensus       272 -----p~~i~~L~~L~~L~l~~~  289 (298)
                           ...+...++|+.++|..+
T Consensus        90 g~~~l~~~l~~~~~L~~l~L~l~  112 (166)
T d1io0a_          90 GILALVEALQSNTSLIELRIDNQ  112 (166)
T ss_dssp             HHHHHHHGGGGCSSCCEEECCCC
T ss_pred             hHHHHHHHHHhCccccEEeeccC
Confidence                 256778889998777543