Citrus Sinensis ID: 040303

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550--
Protein Sequence
MYGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIATREQNVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCPEFLLTAHDLTKEVRTRFKIYS
Secondary Structure (PSIPRED)
cEEEEEccccccccHHHHHHHHHHHHHHHHHHccccEEccccccEEEEcHHHHHHHHHHHHHcccEEEEEEcccccccccccccccccEEEEEEccccccccccccccccccEEcccccccccccccHHHHHccccccEEEccccccccccHHHcccccccEEEcccccccccccccccccccEEEcccccccccHHHHcccccccEEccccccccccccccHHcccccccEEEccccccEEEEHHHHccccccHHHHcccccccEEEEEcccccccccccccccccEEEEEccccccccccccccccEEEEcccccccccccccccccccccEEEEcccccccccEEcccccccccccccEEEEcccccccccccccccccccccccccHHHccccccccccccccccccccEEEcccccccccccccccccccccccccEEEEEcccccccccccccccccccccEEEEEccccccEEcccccccccccccccccEEEEEcccccccccccccccccccccEEEEEccccccccccccccccccccEEcc
Secondary Structure Prediction (SSPRO)
ccEEEcccccccccHHHHHHHHHHHHHHHHHHccccccccccccEEEHHHHHHHHHHHHHHccccccEEEEccccccccccHcHHHHEEEEEEccccHHHHccccccccccEEEEEEccccccccccHHHHHHccccEEEEccccccccccHHHHHHHHHHEEEccccccccccHHHHHcccEEEEcccccHHHccHHHHHHHcccEEEccccccccEccHHHHHHHHcccEEEEcccccEEEcccccccccccHHHHHHHccccEEEEEEcccccccccccHccccEEEEEccHHHHcccccccHHHHHHHccccccHHHcHccHcccccccHcccEEEEcccccccccccHHHHcccccEEEEccccccEEEccccccccHHHHHHEEEcHHccHcHccccccccccccccEEEEccccccEEEccccccccccccccEEEEEEccHHHHccccHHHHHHcHcccEEEEcccHHHHHHHccccccccccccccccEEEEcccHHHcHccccccccccccccEEEEEcccccEEEEcccHHEEEEEccccc
Coil and Loop (DISEMBL)
MYGMGLGLFQGINRMEEARARVYTLVYKLKASCMllehgsknehwfsMHDVVRDVAIAIATREQNVLTMRYELVNSREWLDEGALKFYTSIVLhdskmnvllpevlecpqlqLLSLWTEKsslitlpdnffrKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRgsyieqlpveigqltrlrsldlrdcdrlqvippnvlsnlsHLEELYIRSFNKWEVEVEAAgvknasleelkrlpnlttlelcipdvntlpkglffeKLERYRICIGrwcwedtsptcsrtfrlllgtdncisfksghIVQLQRIEDLclsglpdqdIIELVNNKLGSYSSQLKHLWvegcqapspkeskrckestsemrsneiiledhvnvpntfflkgglpnletlelYNVNVERIWKsqlpamscgiqtLTRLIVYGCGELRCLFSSSIVNSFIRLqhleidecpileEIIVIDqqerknvvfpqlqflkmvdlekltsfctgdvhiefptletlevircpeflLTAHDLTKEVRTRFKIYS
Flexible Loop (DISEMBL)
MYGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIATREQNVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQvippnvlsnlshLEELYIRSFNKWEVEVEAAgvknasleelkrlpnlttlelcipdvntlpkglffEKLERYRICIGrwcwedtsptCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWvegcqapspkeskrcKESTSEMrsneiiledhvnvPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCPEFlltahdltkevrtrfkiys
Low Complexity Region (SEG)
MYGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIATREQNVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHlsllpsslglltnlrtlclYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTrlrsldlrdcdrlQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCPEFLLTAHDLTKEVRTRFKIYS
Disordered region (IsUnstruct)
****GLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIATREQNVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGC**********************IILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCPEFLLTAHDLTKEVRTRFKI**
Disordered Region (DISOPRED)
MYGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIATREQNVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVI*Q*****VVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCPEFL***************IYS
Disordered Region (DISEMBL)
MYGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIATREQNVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGC******************RSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCPEFLLTAHDLTKEVRTRFKIYS
Disordered Region (DISPRO)
MYGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIATREQNVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCPEFLLTAHDLTKEVRTRFK***
Transmembrane Helix (TMHMM)
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Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
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Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MYGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIATREQNVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCPEFLLTAHDLTKEVRTRFKIYS
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	552	2.2.26 [Sep-21-2011]
O81825	919	Probable disease resistan	yes	no	0.884	0.531	0.271	1e-17
Q9T048	985	Disease resistance protei	no	no	0.889	0.498	0.277	4e-17
Q42484	909	Disease resistance protei	no	no	0.461	0.280	0.305	6e-16
Q15404	277	Ras suppressor protein 1	yes	no	0.282	0.563	0.306	2e-09
Q5E9C0	277	Ras suppressor protein 1	yes	no	0.282	0.563	0.300	4e-09
Q5F4C4	529	Leucine-rich repeat prote	yes	no	0.398	0.415	0.290	5e-09
Q80X72	579	Leucine-rich repeat-conta	no	no	0.284	0.271	0.310	8e-09
Q96RT1	1412	Protein LAP2 OS=Homo sapi	no	no	0.192	0.075	0.357	1e-08
Q7KRY7	1851	Protein lap4 OS=Drosophil	no	no	0.422	0.125	0.286	1e-08
Q5ZLN0	603	Leucine-rich repeat-conta	no	no	0.351	0.321	0.306	2e-08

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

 Score = 91.7 bits (226), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 148/546 (27%), Positives = 241/546 (44%), Gaps = 58/546 (10%)

Query: 1   MYGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIA 60
           MY +  GL  G +  E+      TLV +LK SC LLE G   +    MHDVVRD AI   
Sbjct: 386 MYWVAEGLLDGQHHYEDMMNEGVTLVERLKDSC-LLEDGDSCDT-VKMHDVVRDFAIWFM 443

Query: 61  TREQNVLTMRYELVNSREWLDEGALKFYTSI---VLHDSKMNVLLPEVLECPQLQLLSLW 117
           + +         ++  R  ++    KF +S+    L  +K+  L   V+E  +  L+ L 
Sbjct: 444 SSQGE--GFHSLVMAGRGLIEFPQDKFVSSVQRVSLMANKLERLPNNVIEGVE-TLVLLL 500

Query: 118 TEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLY-CSELQDIAVI 176
              S +  +P+ F +    +R+LDL+ + +  LP S   L +LR+L L  C +L+++  +
Sbjct: 501 QGNSHVKEVPNGFLQAFPNLRILDLSGVRIRTLPDSFSNLHSLRSLVLRNCKKLRNLPSL 560

Query: 177 GELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR 236
             L  L+ L L  S I +LP  +  L+ LR + + +  +LQ IP   +  LS LE L + 
Sbjct: 561 ESLVKLQFLDLHESAIRELPRGLEALSSLRYICVSNTYQLQSIPAGTILQLSSLEVLDMA 620

Query: 237 -SFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGR 295
            S   W ++ E      A+L+E+  LP+L  L + + DV  L     F+ L + R+   +
Sbjct: 621 GSAYSWGIKGEERE-GQATLDEVTCLPHLQFLAIKLLDV--LSFSYEFDSLTK-RLTKFQ 676

Query: 296 WCWE---DTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLS---GLPDQDIIELV 349
           + +      SP  +    L +   N  +   G +  LQ +  L L+   GL    + E +
Sbjct: 677 FLFSPIRSVSPPGTGEGCLAISDVNVSNASIGWL--LQHVTSLDLNYCEGL--NGMFENL 732

Query: 350 NNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGL 409
             K  S    +K L +     PS   +  C+       + E +  D+VN+ +   L G L
Sbjct: 733 VTKSKSSFVAMKALSIH--YFPSLSLASGCESQLDLFPNLEELSLDNVNLESIGELNGFL 790

Query: 410 P-NLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIV-NSFIRLQ 467
              L+ L+L  V+                         GC +L+ LFS  I+  +   LQ
Sbjct: 791 GMRLQKLKLLQVS-------------------------GCRQLKRLFSDQILAGTLPNLQ 825

Query: 468 HLEIDECPILEEIIVIDQQER---KNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLET 524
            +++  C  LEE+              + P+L  +K+  L +L S C   V +E  +LE 
Sbjct: 826 EIKVVSCLRLEELFNFSSVPVDFCAESLLPKLTVIKLKYLPQLRSLCNDRVVLE--SLEH 883

Query: 525 LEVIRC 530
           LEV  C
Sbjct: 884 LEVESC 889

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 = 90.1 bits (222), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 153/551 (27%), Positives = 245/551 (44%), Gaps = 60/551 (10%)

Query: 2   YGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIAT 61
           Y M  G  + +   E++     T V  LK  C LLE G + +    MHDVVRD AI I +
Sbjct: 418 YWMAEGFMEELGSQEDSMNEGITTVESLKDYC-LLEDGDRRDT-VKMHDVVRDFAIWIMS 475

Query: 62  REQNVLTMRYELVNSREWL-DEGALKFYTS---IVLHDSKMNVLLPEVLE--CPQLQLLS 115
             Q+     + LV S   L D    K   S   + L ++K+  L P+++E  C +  +L 
Sbjct: 476 SSQDD---SHSLVMSGTGLQDIRQDKLAPSLRRVSLMNNKLESL-PDLVEEFCVKTSVL- 530

Query: 116 LWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLY-CSELQDI 173
           L      L  +P  F +    +R+L+L+   +   PS SL  L +L +L L  C +L  +
Sbjct: 531 LLQGNFLLKEVPIGFLQAFPTLRILNLSGTRIKSFPSCSLLRLFSLHSLFLRDCFKLVKL 590

Query: 174 AVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEEL 233
             +  L  LE+L L G++I + P  + +L R R LDL     L+ IP  V+S LS LE L
Sbjct: 591 PSLETLAKLELLDLCGTHILEFPRGLEELKRFRHLDLSRTLHLESIPARVVSRLSSLETL 650

Query: 234 YIRSFN-KWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTL--PKGLFFEKLERYR 290
            + S + +W V+ E      A++EE+  L  L  L + +     L   +  + ++L++++
Sbjct: 651 DMTSSHYRWSVQGETQK-GQATVEEIGCLQRLQVLSIRLHSSPFLLNKRNTWIKRLKKFQ 709

Query: 291 ICIG-RWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELV 349
           + +G R+       T     RL +   N      G +  L     L L+       IE +
Sbjct: 710 LVVGSRYILR----TRHDKRRLTISHLNVSQVSIGWL--LAYTTSLALNHCQG---IEAM 760

Query: 350 NNKLGSYS---SQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLK 406
             KL S +     LK L +E     +    +    +TS+  S+ + L             
Sbjct: 761 MKKLVSDNKGFKNLKSLTIENVIINTNSWVEMVSTNTSKQSSDILDL------------- 807

Query: 407 GGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRL 466
             LPNLE L L  V++E   + Q   +   ++TL  + +  C +LR L       +   L
Sbjct: 808 --LPNLEELHLRRVDLETFSELQ-THLGLKLETLKIIEITMCRKLRTLLDKRNFLTIPNL 864

Query: 467 QHLEIDECPILE---EIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCT-GDVHIEFPTL 522
           + +EI  C  L+   E ++  Q        P L+ LK+ +L  L S C  G+V   +  L
Sbjct: 865 EEIEISYCDSLQNLHEALLYHQP-----FVPNLRVLKLRNLPNLVSICNWGEV---WECL 916

Query: 523 ETLEVIRCPEF 533
           E +EVI C + 
Sbjct: 917 EQVEVIHCNQL 927

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 = 86.3 bits (212), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 91/298 (30%), Positives = 138/298 (46%), Gaps = 43/298 (14%)

Query: 2   YGMGLGLF---QGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIA 58
           Y +G G      G+N + +     Y L+  LKA+C LLE G +      MH+VVR  A+ 
Sbjct: 428 YWVGEGFLTSSHGVNTIYKG----YFLIGDLKAAC-LLETGDEKTQ-VKMHNVVRSFALW 481

Query: 59  IATREQNV--LTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSL 116
           +A+ +     L +    +   E       +    I L D+++  L PE L CP+L  L L
Sbjct: 482 MASEQGTYKELILVEPSMGHTEAPKAENWRQALVISLLDNRIQTL-PEKLICPKLTTLML 540

Query: 117 WTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVI 176
             + SSL  +P  FF  +  +RVLDL++  ++ +P S+  L  L  L +           
Sbjct: 541 -QQNSSLKKIPTGFFMHMPVLRVLDLSFTSITEIPLSIKYLVELYHLSM----------- 588

Query: 177 GELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYI- 235
                       G+ I  LP E+G L +L+ LDL+    LQ IP + +  LS LE L + 
Sbjct: 589 -----------SGTKISVLPQELGNLRKLKHLDLQRTQFLQTIPRDAICWLSKLEVLNLY 637

Query: 236 RSFNKWEV----EVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERY 289
            S+  WE+    E EA  +  A LE L+   NLTTL + +  + TL     F  L ++
Sbjct: 638 YSYAGWELQSFGEDEAEELGFADLEYLE---NLTTLGITVLSLETLKTLFEFGALHKH 692

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|Q15404|RSU1_HUMAN Ras suppressor protein 1 OS=Homo sapiens GN=RSU1 PE=1 SV=3

 Score = 64.7 bits (156), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 56/183 (30%), Positives = 94/183 (51%), Gaps = 27/183 (14%)

Query: 84  ALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEK---------------------SS 122
            L   T +VL  +K+ ++ P + E   L++L+ +  +                     + 
Sbjct: 38  TLSHITQLVLSHNKLTMVPPNIAELKNLEVLNFFNNQIEELPTQISSLQKLKHLNLGMNR 97

Query: 123 LITLPDNFFRKLTQVRVLDLTYMHLS--LLPSSLGLLTNLRTLCLYCSELQDIAV-IGEL 179
           L TLP  F   L  + VLDLTY +LS   LP +   LT LR L L  ++ + +   IG+L
Sbjct: 98  LNTLPRGF-GSLPALEVLDLTYNNLSENSLPGNFFYLTTLRALYLSDNDFEILPPDIGKL 156

Query: 180 KNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLS-NLSHLEELYIRSF 238
             L+IL LR + +  LP EIG+LT+L+ L ++  +RL V+PP + + +L+  ++++    
Sbjct: 157 TKLQILSLRDNDLISLPKEIGELTQLKELHIQ-GNRLTVLPPELGNLDLTGQKQVFKAEN 215

Query: 239 NKW 241
           N W
Sbjct: 216 NPW 218

Potentially plays a role in the Ras signal transduction pathway. Capable of suppressing v-Ras transformation in vitro.

Homo sapiens (taxid: 9606)

>sp|Q5E9C0|RSU1_BOVIN Ras suppressor protein 1 OS=Bos taurus GN=RSU1 PE=2 SV=1

 Score = 63.5 bits (153), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 55/183 (30%), Positives = 93/183 (50%), Gaps = 27/183 (14%)

Query: 84  ALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEK---------------------SS 122
            L   T +VL  +K+  + P + E   L++L+ +  +                     + 
Sbjct: 38  TLSHITQLVLSHNKLTTVPPNIAELKNLEVLNFFNNQIEELPTQISSLQKLKHLNLGMNR 97

Query: 123 LITLPDNFFRKLTQVRVLDLTYMHLS--LLPSSLGLLTNLRTLCLYCSELQDIAV-IGEL 179
           L TLP  F   L  + VLDLTY +L+   LP +   LT LR L L  ++ + +   IG+L
Sbjct: 98  LNTLPRGF-GSLPALEVLDLTYNNLNENSLPGNFFYLTTLRALYLSDNDFEILPPDIGKL 156

Query: 180 KNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLS-NLSHLEELYIRSF 238
             L+IL LR + +  LP EIG+LT+L+ L ++  +RL V+PP + + +L+  ++++    
Sbjct: 157 TKLQILSLRDNDLISLPKEIGELTQLKELHIQ-GNRLTVLPPELGNLDLTGQKQIFKAEN 215

Query: 239 NKW 241
           N W
Sbjct: 216 NPW 218

Potentially plays a role in the Ras signal transduction pathway. Capable of suppressing v-Ras transformation in vitro.

Bos taurus (taxid: 9913)

>sp|Q5F4C4|SHOC2_CHICK Leucine-rich repeat protein SHOC-2 OS=Gallus gallus GN=SHOC2 PE=2 SV=1

 Score = 63.2 bits (152), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 77/265 (29%), Positives = 130/265 (49%), Gaps = 45/265 (16%)

Query: 62  REQNVLTMRYELVNSREWLDEGALKFYTSIV---LHDSKMNVLLPEVLECPQLQLLSLWT 118
           RE+N  +MR +L      +   A+K  T +    L+ +K+  L  EV  C  + L++L  
Sbjct: 98  REEN--SMRLDLAKRSIHMLPSAVKELTQLTELYLYSNKLQSLPAEV-GC-LVNLVTLAL 153

Query: 119 EKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSEL----QDI- 173
            ++SL +LPD+    L ++R+LDL +  L  +PS +  LT+L TL L  + +    +DI 
Sbjct: 154 SENSLTSLPDSL-DNLKKLRMLDLRHNKLREIPSVVYRLTSLATLYLRFNRITTVEKDIK 212

Query: 174 -------------------AVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCD 214
                              A IGEL NL  L +  + +E LP EIG  T++ +LDL+  +
Sbjct: 213 TLSKLTMLSIRENKIKQLPAEIGELCNLITLDVAHNQLEHLPEEIGSCTQITNLDLQHNE 272

Query: 215 RLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDV 274
            L +  P  + NLS L  L +R +N+    +  +  K + L+EL    N         ++
Sbjct: 273 LLDL--PETIGNLSSLSRLGLR-YNRLSA-IPKSLAKCSELDELNLENN---------NI 319

Query: 275 NTLPKGLFFEKLERYRICIGRWCWE 299
           +TLP+GL    ++   + + R C++
Sbjct: 320 STLPEGLLSSLVKLTSLTLARNCFQ 344

Regulatory subunit of protein phosphatase 1 (PP1c) that acts as a M-Ras/MRAS effector and participates in MAPK pathway activation. Upon M-Ras/MRAS activation, targets PP1c to specifically dephosphorylate the 'Ser-259' inhibitory site of RAF1 kinase and stimulate RAF1 activity at specialized signaling complexes.

Gallus gallus (taxid: 9031)

>sp|Q80X72|LRC15_MOUSE Leucine-rich repeat-containing protein 15 OS=Mus musculus GN=Lrrc15 PE=2 SV=1

 Score = 62.4 bits (150), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 51/164 (31%), Positives = 83/164 (50%), Gaps = 7/164 (4%)

Query: 85  LKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTY 144
           L     + L  + +  L P V   P   L  LW   + + +LPDN F  L Q++VL L++
Sbjct: 268 LPHLNKLTLFGNSLKELSPGVF-GPMPNLRELWLYNNHITSLPDNAFSHLNQLQVLILSH 326

Query: 145 MHLSLL-PSSLGLLTNLRTLCLYCSELQDI--AVIGELKNLEILCLRGSYIEQLPVEI-G 200
             LS + P +   LTNLR L L+ + LQD+   V   L NL  + L+ + + QLP  I  
Sbjct: 327 NQLSYISPGAFNGLTNLRELSLHTNALQDLDGNVFRSLANLRNVSLQNNRLRQLPGSIFA 386

Query: 201 QLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVE 244
            +  L ++ L++ + L+ +P  +  +L +L EL +   N W  +
Sbjct: 387 NVNGLMTIQLQN-NNLENLPLGIFDHLGNLCELRLYD-NPWRCD 428

Mus musculus (taxid: 10090)

>sp|Q96RT1|LAP2_HUMAN Protein LAP2 OS=Homo sapiens GN=ERBB2IP PE=1 SV=2

 Score = 62.0 bits (149), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 39/109 (35%), Positives = 65/109 (59%), Gaps = 3/109 (2%)

Query: 113 LLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD 172
           + +L  +++ L+ LPD+    L  V  LD ++  +  LPSS+G LTNLRT     + LQ 
Sbjct: 278 ITTLKIDENQLMYLPDSIG-GLISVEELDCSFNEVEALPSSIGQLTNLRTFAADHNYLQQ 336

Query: 173 IAV-IGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIP 220
           +   IG  KN+ +L L  + +E LP E+G + +L+ ++L D +RL+ +P
Sbjct: 337 LPPEIGSWKNITVLFLHSNKLETLPEEMGDMQKLKVINLSD-NRLKNLP 384

Acts as an adapter for the receptor ERBB2, in epithelia. By binding the unphosphorylated 'Tyr-1248' of receptor ERBB2, it may contribute to stabilize this unphosphorylated state.

Homo sapiens (taxid: 9606)

>sp|Q7KRY7|LAP4_DROME Protein lap4 OS=Drosophila melanogaster GN=scrib PE=1 SV=1

 Score = 62.0 bits (149), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 75/262 (28%), Positives = 118/262 (45%), Gaps = 29/262 (11%)

Query: 93  LHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS 152
           L D+++  L P++     L  + L   ++ +  +PD+  + L  ++V D +   +  LPS
Sbjct: 67  LSDNEIGRLPPDIQNFENL--VELDVSRNDIPDIPDDI-KHLQSLQVADFSSNPIPKLPS 123

Query: 153 SLGLLTNLRTLCLYCSELQDI-AVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLR 211
               L NL  L L    L  + A  G L  LE L LR + ++ LP  I QLT+L+ LDL 
Sbjct: 124 GFSQLKNLTVLGLNDMSLTTLPADFGSLTQLESLELRENLLKHLPETISQLTKLKRLDLG 183

Query: 212 DCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVK-----NASLEELKRLPN--- 263
           D + ++ +PP  L  L  L EL++       +  E   +      + S   L+ LPN   
Sbjct: 184 D-NEIEDLPP-YLGYLPGLHELWLDHNQLQRLPPELGLLTKLTYLDVSENRLEELPNEIS 241

Query: 264 ----LTTLELCIPDVNTLPKGLFFEKLERYRIC------IGRWCWEDTSPTCSRTFRLLL 313
               LT L+L    +  LP G+   KL R  I       + R    DT   C     L+L
Sbjct: 242 GLVSLTDLDLAQNLLEALPDGI--AKLSRLTILKLDQNRLQR--LNDTLGNCENMQELIL 297

Query: 314 GTDNCISFKSGHIVQLQRIEDL 335
            T+N +S     I Q+ ++ +L
Sbjct: 298 -TENFLSELPASIGQMTKLNNL 318

Required for polarization of the embryonic, imaginal disk and follicular epithelia. Specifically restricts apical membrane determinants to the apical cell surface; acts to exclude crb from the basolateral domain and define adherens junction position. Regulates cellular growth and differentiation; acts as a tumor suppressor. Essential for odor guided behavior.

Drosophila melanogaster (taxid: 7227)

>sp|Q5ZLN0|LRC40_CHICK Leucine-rich repeat-containing protein 40 OS=Gallus gallus GN=LRRC40 PE=2 SV=1

 Score = 61.6 bits (148), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 65/212 (30%), Positives = 110/212 (51%), Gaps = 18/212 (8%)

Query: 83  GALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDL 142
           G L+    + +  +K+  +  E+L+   L+   L  + + L  LPD F  +L  +  LDL
Sbjct: 125 GQLENLQKLDVSHNKLKSIPEELLQLSHLK--GLLLQHNELSHLPDGFG-QLVSLEELDL 181

Query: 143 TYMHLSLLPSSLGLLTNLRTLCLYCSELQDI-AVIGELKNLEILCLRGSYIEQLPVEIGQ 201
           +  HL+ +P S  LL NL  L L C++L+D+ A I  +K+L  L    +Y+E +P E+  
Sbjct: 182 SNNHLTDIPKSFALLINLVRLNLACNQLKDLPADISAMKSLRQLDCTKNYLESVPSELAS 241

Query: 202 LTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRL 261
           +  L  L LR  ++L+ +P   L +   L+EL+       E ++E   + NA  E LK L
Sbjct: 242 MASLEQLYLRK-NKLRSLPE--LPSCKLLKELH-----AGENQIE---ILNA--ENLKHL 288

Query: 262 PNLTTLELCIPDVNTLPKGL-FFEKLERYRIC 292
            +L+ LEL    + ++P  +   +KLER  + 
Sbjct: 289 NSLSVLELRDNKIKSVPDEITLLQKLERLDLA 320

Gallus gallus (taxid: 9031)

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	552
224111296	1315	cc-nbs-lrr resistance protein [Populus t	0.855	0.358	0.406	2e-76
147777048	1460	hypothetical protein VITISV_009359 [Viti	0.860	0.325	0.397	3e-73
255563252	1603	Disease resistance protein RPS5, putativ	0.864	0.297	0.398	1e-72
224143316	1337	cc-nbs-lrr resistance protein [Populus t	0.855	0.353	0.418	4e-72
224111284	1340	cc-nbs-lrr resistance protein [Populus t	0.855	0.352	0.415	7e-72
359488025	1781	PREDICTED: uncharacterized protein LOC10	0.858	0.266	0.380	3e-71
359488288	1340	PREDICTED: LOW QUALITY PROTEIN: probable	0.829	0.341	0.391	6e-71
359488108	1436	PREDICTED: disease resistance protein At	0.858	0.330	0.384	3e-70
147865073	1694	hypothetical protein VITISV_021876 [Viti	0.851	0.277	0.382	1e-69
359488095	1347	PREDICTED: probable disease resistance p	0.858	0.351	0.386	1e-69

>gi|224111296|ref|XP_002332952.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222834264|gb|EEE72741.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  293 bits (750), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 211/519 (40%), Positives = 297/519 (57%), Gaps = 47/519 (9%)

Query: 2   YGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIAT 61
           YG+GL LF+G + +EE R  + TLV +LKASC+LLE G K+     MHDVV   AI++A 
Sbjct: 416 YGIGLDLFKGCSTLEETRNSLLTLVDELKASCLLLE-GDKDGS-VKMHDVVHSFAISVAL 473

Query: 62  REQNVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKS 121
           R+ +VLT+  E    +EW     L+ YT+I L   K+  L P +LECP L    L  +  
Sbjct: 474 RDHHVLTVADEF---KEWPANDVLQQYTAISLPFRKIPDL-PAILECPNLNSFLLLNKDP 529

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKN 181
           SL  +PD+FFR++ ++++LDLT ++LS LPSSL  L NL+TLCL    L+DI++IGEL  
Sbjct: 530 SL-QIPDSFFREMKELKILDLTEVNLSPLPSSLQFLENLQTLCLDHCVLEDISIIGELNK 588

Query: 182 LEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYI-RSFNK 240
           L++L L  S I +LP EIG++TRL+ LDL +C+RL+VI PN LS+L+ LE+LY+  SF K
Sbjct: 589 LKVLSLMSSNIVRLPREIGKVTRLQLLDLSNCERLEVISPNALSSLTRLEDLYMGNSFVK 648

Query: 241 WEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLF--FEKLERYRICIGR-WC 297
           WE E  ++   NA L ELK L NL+TL + I D + +PK LF  F+ LER+RI IG  W 
Sbjct: 649 WETEGSSSQRNNACLSELKHLSNLSTLHMQITDADNMPKDLFSSFQNLERFRIFIGDGWD 708

Query: 298 WEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYS 357
           W     T SRT +L L T   I  + G    L+  E+L L  L    +  ++N+  G   
Sbjct: 709 WSVKDAT-SRTLKLKLNT--VIQLEEGVNTLLKITEELHLQEL--NGVKSILNDLDGEGF 763

Query: 358 SQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLEL 417
            QL+HL V+ C                     + I+      P T FL     NL++L L
Sbjct: 764 PQLRHLHVQNCPGV------------------QYIINSIRMGPRTAFL-----NLDSLFL 800

Query: 418 YNV-NVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPI 476
            N+ N+E+I   QL A S G   L  L V  C  L+ LFS S+    +RL+ + I +C I
Sbjct: 801 ENLDNLEKICHGQLMAESLG--NLRILKVESCHRLKNLFSVSMARRLVRLEEITIIDCKI 858

Query: 477 LEEIIVIDQQERKN-----VVFPQLQFLKMVDLEKLTSF 510
           +EE++  + +         + F QL+ L +  L + TSF
Sbjct: 859 MEEVVAEESENDAADGEPIIEFTQLRRLTLQCLPQFTSF 897

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  282 bits (722), Expect = 3e-73,   Method: Compositional matrix adjust.
 Identities = 206/518 (39%), Positives = 283/518 (54%), Gaps = 43/518 (8%)

Query: 2   YGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIAT 61
           YG+GL LFQG N +EEA+ R+ TLV KLK+S  LLE G  +     MHD+VR  A  IA+
Sbjct: 420 YGVGLRLFQGTNTLEEAKNRIDTLVDKLKSSNFLLETG--HNAVVRMHDLVRSTARKIAS 477

Query: 62  REQNVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKS 121
            + +V T +   V   EW     L+  T + L D  ++ L PE L CP+L+L   + + S
Sbjct: 478 EQLHVFTHQKTTVRVEEWPRTDELQKVTWVSLGDCDIHEL-PEGLLCPELELFQCYQKTS 536

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKN 181
           S + +P  FF  + Q+ VLD + M L  LP SL  L NLRTLCL   +L DI +I +LK 
Sbjct: 537 SAVKIPHTFFEGMKQLEVLDFSNMQLPSLPLSLQCLANLRTLCLDGCKLGDIVIIAKLKK 596

Query: 182 LEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYI-RSFNK 240
           LEIL L  S IEQLP EI QLT LR  DL+D  +L+VIPP+V+S+L  LE+L +  SF +
Sbjct: 597 LEILSLIDSDIEQLPREIAQLTHLRLFDLKDSSKLKVIPPDVISSLFRLEDLCMENSFTQ 656

Query: 241 WEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGR-WCWE 299
           WE E    G  NA L ELK L +LT+L++ IPD   LPK + FE L RYRI +G  W W+
Sbjct: 657 WEGE----GKSNACLAELKHLSHLTSLDIQIPDAKLLPKDIVFENLVRYRIFVGNVWSWK 712

Query: 300 DTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQ 359
           +     S T + L   D  +    G    L+R EDL L  L     +    N+ G    +
Sbjct: 713 EIFKANS-TLK-LNKFDTSLHLVDGISKLLKRTEDLHLRELCGGTNVLSKLNREGFL--K 768

Query: 360 LKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYN 419
           LKHL VE     SP+                  ++  VN  +     G  P +ETL L  
Sbjct: 769 LKHLNVES----SPE------------------IQYIVNSMDLTSSHGAFPVMETLSLNQ 806

Query: 420 -VNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILE 478
            +N++ +   Q PA S G   L ++ V  C  L+CLFS S+     RL+ +++  C  + 
Sbjct: 807 LINLQEVCHGQFPAGSFG--CLRKVEVEDCDGLKCLFSLSVARGLSRLEEIKVTRCKSMV 864

Query: 479 EIIVIDQQERK----NV-VFPQLQFLKMVDLEKLTSFC 511
           EI+   ++E K    NV +FP+L+ L + DL KL++FC
Sbjct: 865 EIVSQGRKEIKEDAVNVPLFPELRSLTLEDLPKLSNFC 902

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255563252|ref|XP_002522629.1| Disease resistance protein RPS5, putative [Ricinus communis] gi|223538105|gb|EEF39716.1| Disease resistance protein RPS5, putative [Ricinus communis]

 Score =  280 bits (716), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 207/519 (39%), Positives = 292/519 (56%), Gaps = 42/519 (8%)

Query: 1   MYGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIA 60
           MY  GLGLF+GI+ + +AR RV+ L+  LKA+C+LL+   K      +HDVVRDVAI+IA
Sbjct: 421 MYSTGLGLFKGIDTLGDARNRVHKLISDLKAACLLLDSDIKGR--VKIHDVVRDVAISIA 478

Query: 61  TREQNVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEK 120
           +R Q++ T+R   +  +EW ++   K  T I L  + ++ L PEVLECP+L+L  L+T+ 
Sbjct: 479 SRMQHLFTVRNGAL-LKEWPNKDVCKSCTRISLPYNDIHGL-PEVLECPELELFLLFTQD 536

Query: 121 SSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELK 180
            SL  +PD  F     +RVL+ T MH S LP SLG L NL TLCL    L+D+A+IGEL 
Sbjct: 537 ISL-KVPDLCFELTKNLRVLNFTGMHFSSLPPSLGFLKNLFTLCLDWCALRDVAIIGELT 595

Query: 181 NLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR-SFN 239
            L IL  + S I +LP EI QLT+L+ LDL  C +L+VIP  ++S L+ LEELY+  SF+
Sbjct: 596 GLTILSFKHSDIVELPREIRQLTKLKFLDLSHCLKLKVIPAKIISELTQLEELYMNNSFD 655

Query: 240 KWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWE 299
            W+V+      +NASL EL+ LP LTTLE+C+ D   LPK LFF KLER+RI IG   W 
Sbjct: 656 LWDVQ-GINNQRNASLAELECLPYLTTLEICVLDAKILPKDLFFRKLERFRIFIGD-VWS 713

Query: 300 DTSP-TCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSS 358
            T     SRT +L L T + I  + G  + L+  EDL L+ +  + I  ++ +      +
Sbjct: 714 GTGDYGTSRTLKLKLNTSS-IHLEHGLSILLEVTEDLYLAEV--KGIKSVLYDLDSQGFT 770

Query: 359 QLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELY 418
           QLKHL V+                       EI    ++  PN        P LE+L L 
Sbjct: 771 QLKHLDVQN--------------------DPEI---QYIIDPNRRSPCNAFPILESLYLD 807

Query: 419 N-VNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPIL 477
           N +++E+I   +L   S     L  L V  C  L+ LFS S++   ++LQ +++ +C  L
Sbjct: 808 NLMSLEKICCGKLTTGS--FSKLRSLTVVKCDRLKNLFSFSMMRCLLQLQQMKVVDCANL 865

Query: 478 EEIIVIDQQERKN----VVFPQLQFLKMVDLEKLTSFCT 512
           EEI+    ++  N    V   QL  L +  L    SFC+
Sbjct: 866 EEIVACGSEDTDNDYEAVKLTQLCSLTLKRLPMFKSFCS 904

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224143316|ref|XP_002336027.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222838884|gb|EEE77235.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  279 bits (713), Expect = 4e-72,   Method: Compositional matrix adjust.
 Identities = 217/518 (41%), Positives = 298/518 (57%), Gaps = 46/518 (8%)

Query: 2   YGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIAT 61
           Y +GL LF+G +  EEAR R++TLV +LKASC+LLE    N+    MHDVVR  AI++A 
Sbjct: 416 YAIGLDLFKGRSTSEEARNRLHTLVDELKASCLLLE--GDNDGSVKMHDVVRSFAISVAL 473

Query: 62  REQNVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKS 121
           R+ +VL +  E    +EW     L+ YT+I L   K+  L P +LECP L    L +   
Sbjct: 474 RDHHVLIVADEF---KEWPTNDVLQQYTAISLPFRKIPDL-PAILECPNLNSFLLLSTDP 529

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKN 181
           SL  +P+NFFR++ +++VLDLT ++LS LPSSL  L NL+TLCL    L+DI+++GELK 
Sbjct: 530 SL-QIPENFFREMKELKVLDLTGVNLSPLPSSLQFLENLQTLCLDFCVLEDISIVGELKK 588

Query: 182 LEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYI-RSFNK 240
           L++L L GS I  LP EIG+LTRL  LDL +C+RL+VI PNVLS+L+ LEELY+  SF K
Sbjct: 589 LKVLSLMGSDIVCLPREIGKLTRLLLLDLSNCERLEVISPNVLSSLTRLEELYMGNSFLK 648

Query: 241 WEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLF--FEKLERYRICIGR-WC 297
           WE E  ++   +A L ELK L NL TL++ I D + +PK LF  F+KLER+RI IG  W 
Sbjct: 649 WEAEGPSSERNSACLSELKLLANLITLDMQITDADHMPKDLFLCFQKLERFRIFIGDGWD 708

Query: 298 WEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYS 357
           W     T SRT +L L T   I  +      L+  E+L L  L    +  ++N+      
Sbjct: 709 WSVKYAT-SRTLKLKLNT--VIQLEERVNTLLKITEELHLQEL--NGVKSILNDLDEEGF 763

Query: 358 SQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLEL 417
            QLK L V+ C           +   + MR            P T FL     NL++L L
Sbjct: 764 CQLKDLHVQNCPG--------VQYIINSMRMG----------PRTAFL-----NLDSLFL 800

Query: 418 YNV-NVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPI 476
            N+ N+E+I   QL A S G   L  L V  C  L+ LFS SI    +RL+ + I +C I
Sbjct: 801 ENLDNLEKICHGQLMAESLG--NLRILKVESCHRLKNLFSVSIARRVVRLEEITIIDCKI 858

Query: 477 LEEIIV----IDQQERKNVVFPQLQFLKMVDLEKLTSF 510
           +EE++      D  + + + F QL+ L +  L + TSF
Sbjct: 859 MEEVVAEESENDTADGEPIEFTQLRRLTLQCLPQFTSF 896

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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 =  278 bits (710), Expect = 7e-72,   Method: Compositional matrix adjust.
 Identities = 215/518 (41%), Positives = 298/518 (57%), Gaps = 46/518 (8%)

Query: 2   YGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIAT 61
           Y +GL LF+G + +EEAR R+ TLV +LKASC+LLE G K+     MHDVV+  A ++A+
Sbjct: 416 YAIGLDLFKGRSTLEEARNRLRTLVDELKASCLLLE-GDKDGR-VKMHDVVQSFAFSVAS 473

Query: 62  REQNVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKS 121
           R+ +VL +  E    +EW     L+ YT+I L   K+  L P +LECP L    L  +  
Sbjct: 474 RDHHVLIVADEF---KEWPTSDVLQQYTAISLPYRKIPDL-PAILECPNLNSFILLNKDP 529

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKN 181
           SL  +PDNFFR++ +++VLDLT ++LS LPSSL  L NL+TLCL    L+DI+++GELK 
Sbjct: 530 SL-QIPDNFFREMKELKVLDLTRVNLSPLPSSLQFLENLQTLCLDGCVLEDISIVGELKK 588

Query: 182 LEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYI-RSFNK 240
           L++L L  S I  LP EIG+LTRL  LDL +C+RL+VI PNVLS+L+ LEELY+  SF K
Sbjct: 589 LKVLSLISSDIVCLPREIGKLTRLLLLDLSNCERLEVISPNVLSSLTRLEELYMGNSFVK 648

Query: 241 WEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL--FFEKLERYRICIGR-WC 297
           WE E  ++   NA L ELKRL NL TL + I D + + K L   F+KLER+RI IG  W 
Sbjct: 649 WETEGSSSQRNNACLSELKRLSNLITLHMQITDADNMLKDLSFLFQKLERFRIFIGDGWD 708

Query: 298 WEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYS 357
           W     T SRT +L L T   I  +      L+  E+L L  L  + +  ++N+  G   
Sbjct: 709 WSVKYAT-SRTLKLKLNT--VIQLEEWVNTLLKSTEELHLQEL--KGVKSILNDLDGEDF 763

Query: 358 SQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLEL 417
            +LKHL V+ C                     + I+      P T FL     NL++L L
Sbjct: 764 PRLKHLHVQNCPGV------------------QYIINSIRMGPRTAFL-----NLDSLFL 800

Query: 418 YNV-NVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPI 476
            N+ N+E+I   QL A S G   L  L V  C  L+ LFS S+    +RL+ + I +C I
Sbjct: 801 ENLDNLEKICHGQLMAESLG--KLRILKVESCHRLKNLFSVSMARRLVRLEEITIIDCKI 858

Query: 477 LEEIIV----IDQQERKNVVFPQLQFLKMVDLEKLTSF 510
           +EE++      D  + + + F QL+ L +  L + TSF
Sbjct: 859 MEEVVAEESENDTADGEPIEFAQLRRLTLQCLPQFTSF 896

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488025|ref|XP_003633688.1| PREDICTED: uncharacterized protein LOC100852821 [Vitis vinifera]

 Score =  275 bits (704), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 198/520 (38%), Positives = 289/520 (55%), Gaps = 46/520 (8%)

Query: 2   YGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIAT 61
           YG+GL LFQG N +EEA+ R+ TLV  LK+S +LLE G  +     MHD+VR  A  IA+
Sbjct: 420 YGVGLRLFQGTNTLEEAKNRIDTLVGNLKSSNLLLETG--HNAVVRMHDLVRSTARKIAS 477

Query: 62  REQNVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLW-TEK 120
            + +V T++   V    W     L+  T + LHD  ++ L PE L CP+L+L   +    
Sbjct: 478 DQHHVFTLQNTTVRVEGWPRIDELQKVTWVSLHDCDIHEL-PEGLVCPKLELFGCYDVNT 536

Query: 121 SSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELK 180
           +S + +P+ FF ++ Q++VLDL+ M L  LP SL  LTNLRTLCL   ++ DI +I +LK
Sbjct: 537 NSAVQIPNKFFEEMKQLKVLDLSRMQLPSLPLSLHCLTNLRTLCLDGCKVGDIVIIAKLK 596

Query: 181 NLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEEL-YIRSFN 239
            LEIL L+ S +EQLP EI QLT LR LDL    +L+VIP +V+S+LS LE L    SF 
Sbjct: 597 KLEILSLKDSDMEQLPREIAQLTHLRLLDLSGSSKLKVIPSDVISSLSQLENLCMANSFT 656

Query: 240 KWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGR-WCW 298
           +WE E ++    NA L ELK L +LT+L++ I D   LPK + F+ L RYRI +G  W W
Sbjct: 657 QWEGEAKS----NACLAELKHLSHLTSLDIQIRDAKLLPKDIVFDNLVRYRIFVGDVWRW 712

Query: 299 EDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGL-PDQDIIELVNNKLGSYS 357
            +   T ++T + L   D  +    G I  L+R EDL L  L    +++  ++   G   
Sbjct: 713 RENFET-NKTLK-LNKFDTSLHLVHGIIKLLKRTEDLHLRELCGGTNVLSKLD---GEGF 767

Query: 358 SQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLEL 417
            +LKHL VE     SP+                  ++  VN  +     G  P +ETL L
Sbjct: 768 LKLKHLNVES----SPE------------------IQYIVNSMDLTPSHGAFPVMETLSL 805

Query: 418 YN-VNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPI 476
              +N++ + + Q PA S G   L ++ V  C  L+CLFS S+     RL+ +++  C  
Sbjct: 806 NQLINLQEVCRGQFPAGSFGY--LRKVEVKDCNGLKCLFSLSVARGLSRLEEIKVTRCES 863

Query: 477 LEEIIVIDQQERKNV-----VFPQLQFLKMVDLEKLTSFC 511
           + E++   ++E K       +FP+L+ L + DL KL++FC
Sbjct: 864 MVEMVSQGRKEIKEAAVNVPLFPELRSLTLEDLPKLSNFC 903

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 =  275 bits (702), Expect = 6e-71,   Method: Compositional matrix adjust.
 Identities = 205/524 (39%), Positives = 280/524 (53%), Gaps = 66/524 (12%)

Query: 2   YGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIAT 61
           YGMGL LFQG N +EEA+ R+ TLV  LKAS +LLE  ++    F MHDVV++VAI IA+
Sbjct: 423 YGMGLRLFQGTNTLEEAKNRIETLVDNLKASNLLLE--TRYNAVFRMHDVVQNVAIEIAS 480

Query: 62  REQNVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKS 121
           +E +V T +   V   EW +   L+ +T I L             +C  ++ L      +
Sbjct: 481 KEHHVFTFQTG-VRMEEWPNMDELQKFTMIYL-------------DCCDIRELPEGLNHN 526

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKN 181
           S + +P+ FF  + Q++VLD T MHL  LPSSL  L NLRTLCL   +L DI +I ELK 
Sbjct: 527 SSLKIPNTFFEGMKQLKVLDFTNMHLPSLPSSLHCLANLRTLCLDACKLGDITIIAELKK 586

Query: 182 LEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYI-RSFNK 240
           LEIL L  S IEQLP E+ QLT LR LDL+   +L+VIPP+V+S+LS LE+L +  S+ +
Sbjct: 587 LEILSLMDSDIEQLPRELSQLTHLRLLDLKGSSKLKVIPPDVISSLSQLEDLCMENSYTQ 646

Query: 241 WEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGR-WCWE 299
           WEVE    G  NA L ELK L  LTTL++ IPD    PK + F+ L +YRI +G  W WE
Sbjct: 647 WEVE----GKSNAYLAELKHLSYLTTLDIQIPDAKLFPKDVVFDNLMKYRIFVGDVWSWE 702

Query: 300 DTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQ 359
           +   T ++T + L   D  +    G    L+  EDL L  L          N L     Q
Sbjct: 703 ENCET-NKTLK-LNEFDTSLHLVEGISKLLRXTEDLHLHDLRG------TTNILSKLDRQ 754

Query: 360 ----LKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETL 415
               LKHL VE     SP       E  S M S ++    H             P +ETL
Sbjct: 755 CFLKLKHLNVES----SP-------EIRSIMNSMDLTPSHH-----------AFPVMETL 792

Query: 416 ELYN-VNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDEC 474
            L   +N++ +   Q P+ S G   L ++ V  C  L+ LFS S+     RL+ + +  C
Sbjct: 793 FLRQLINLQEVCHGQFPSGSFGF--LRKVEVEDCDSLKFLFSLSMARGLSRLKEITMTRC 850

Query: 475 PILEEII------VIDQQERKNV-VFPQLQFLKMVDLEKLTSFC 511
             + EI+      + D  +  NV +FP+L++L + DL KL +FC
Sbjct: 851 KSMGEIVPQGRKEIKDGDDAVNVPLFPELRYLTLQDLPKLINFC 894

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488108|ref|XP_003633701.1| PREDICTED: disease resistance protein At4g27190-like [Vitis vinifera]

 Score =  272 bits (696), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 200/520 (38%), Positives = 286/520 (55%), Gaps = 46/520 (8%)

Query: 2   YGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIAT 61
           YG+GL LFQG N +EEA+ R+  LV  LK+S  LLE G  +  +  MHD+VR  A  IA+
Sbjct: 425 YGVGLRLFQGTNTLEEAKNRIDALVDNLKSSNFLLETG--HNAFVRMHDLVRSTARKIAS 482

Query: 62  REQNVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLW-TEK 120
            + +V T++   V    W     L+  T + LHD  +  L PE L CP+L+L   +    
Sbjct: 483 DQHHVFTLQNTTVRVEGWPRIDELQKVTWVSLHDCDIREL-PEGLACPKLELFGCYDVNT 541

Query: 121 SSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELK 180
           +S + +P+NFF ++ Q++VLDL+ M L  LP S    TNLRTLCL    L +I +I ELK
Sbjct: 542 NSAVQIPNNFFEEMKQLKVLDLSRMQLPSLPLSCHCRTNLRTLCLDGCNLGEIVIIAELK 601

Query: 181 NLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYI-RSFN 239
            LEIL L  S IE+LP EI QLT LR  DL+   +L+VIPP+V+S+LS LE+L +  SF 
Sbjct: 602 KLEILSLTYSDIEKLPREIAQLTHLRLFDLKGSYKLKVIPPDVISSLSQLEDLCMENSFT 661

Query: 240 KWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGR-WCW 298
           +WE E    G  NA L ELK L +LT+L++ IPD   LPK + F+ L RYRI +G  W W
Sbjct: 662 QWEGE----GKSNACLAELKHLSHLTSLDIQIPDAKLLPKDIVFDTLVRYRIFVGDVWSW 717

Query: 299 EDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGL-PDQDIIELVNNKLGSYS 357
              S   ++T + L   D  +    G I  L+R EDL L  L    +++  ++   G   
Sbjct: 718 GGIS-EANKTLQ-LNKFDTSLHLVDGIIKLLKRTEDLHLRELCGGTNVLSKLD---GEGF 772

Query: 358 SQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLEL 417
            +LKHL VE     SP+                  ++  VN  +     G  P +ETL L
Sbjct: 773 LKLKHLNVES----SPE------------------IQYIVNSMDLTPSHGAFPVMETLSL 810

Query: 418 YN-VNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPI 476
              +N++ + + Q PA S G   L ++ V  C  L+ LFS S+     RL+  ++  C  
Sbjct: 811 NQLINLQEVCRGQFPAGSFG--CLRKVEVEDCDGLKFLFSLSVARGLSRLEETKVTRCKS 868

Query: 477 LEEIIVIDQQERK----NV-VFPQLQFLKMVDLEKLTSFC 511
           + E++   ++E K    NV +FP+L+ L + DL KL++FC
Sbjct: 869 MVEMVSQGRKEIKEDAVNVPLFPELRSLTLEDLPKLSNFC 908

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 =  271 bits (692), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 202/528 (38%), Positives = 289/528 (54%), Gaps = 58/528 (10%)

Query: 2   YGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIAT 61
           YGMGL LFQG N +EEA+ R+ TLV  LK+S +LLE G  +     MHDVVR VA+ I++
Sbjct: 420 YGMGLRLFQGTNTLEEAKNRIDTLVDNLKSSNLLLETG--HNAVVRMHDVVRSVALDISS 477

Query: 62  REQNVLTMRYELVNSREW--LDEGALKFYTSIVLHDSKMNVL-LPEVLECPQLQLLSLWT 118
           ++ +V T++       +W  +DE        I ++  + ++  LPE L CP+L+L     
Sbjct: 478 KDHHVFTLQQTTGRVEKWPRIDE----LQKVIWVNQDECDIHELPEGLVCPKLKLFICCL 533

Query: 119 EKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGE 178
           + +S + +P+ FF  + Q++VLD T MHL  LPSSL  L NL+TL LY  +L DI +I E
Sbjct: 534 KTNSAVKIPNTFFEGMKQLQVLDFTQMHLPSLPSSLQCLANLQTLLLYGCKLGDIGIITE 593

Query: 179 LKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYI-RS 237
           LK LEIL L  S IEQLP EI QLT LR LDL D   ++VIP  V+S+LS LE+L +  S
Sbjct: 594 LKKLEILSLIDSDIEQLPREIAQLTHLRLLDLSDSSTIKVIPSGVISSLSQLEDLCMENS 653

Query: 238 FNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGR-W 296
           F +WE E    G  NA L ELK L +LT+L++ IPD   LPK + FE L RYRI +G  W
Sbjct: 654 FTQWEGE----GKSNACLAELKHLSHLTSLDIQIPDAKLLPKDVVFENLVRYRIFVGDVW 709

Query: 297 CWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGL-PDQDIIELVNNKLGS 355
            WE+   T +RT + L   D  +    G    L+  EDL L  L    +++  ++   G 
Sbjct: 710 IWEENYKT-NRTLK-LKKFDTSLHLVDGISKLLKITEDLHLRELCGGTNVLSKLD---GE 764

Query: 356 YSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETL 415
              +LKHL VE     SP+                  ++  VN  +     G  P +ETL
Sbjct: 765 GFFKLKHLNVES----SPE------------------IQYIVNSLDLTSPHGAFPVMETL 802

Query: 416 ELYN-VNVERIWKSQLPAMSCGIQT---LTRLIVYGCGELRCLFSSSIVNSFIRLQHLEI 471
            L   +N++ +   Q P  S   Q+   L ++ V  C  L+ LFS S+     +L+ +++
Sbjct: 803 SLNQLINLQEVCHGQFPVESSRKQSFGCLRKVEVEDCDGLKFLFSLSVARGLSQLEEIKV 862

Query: 472 DECPILEEIIVIDQQERKNV--------VFPQLQFLKMVDLEKLTSFC 511
             C  + E++    QERK +        +FP+L+ L + DL KL++FC
Sbjct: 863 TRCKSMVEMV---SQERKEIREDADNVPLFPELRHLTLEDLPKLSNFC 907

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 =  270 bits (691), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 200/518 (38%), Positives = 280/518 (54%), Gaps = 44/518 (8%)

Query: 2   YGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIAT 61
           YG+GL LFQG N +EEA+ R+ TLV  LK+S  LLE  + +  +  MHD+VR  A  IA+
Sbjct: 420 YGVGLRLFQGTNTLEEAKNRIDTLVDNLKSSNFLLE--TDHNAYVRMHDLVRSTARKIAS 477

Query: 62  REQNVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKS 121
            +++V T +   V   EW     L+  T + LHD  ++ L PE L CP+L+    + +  
Sbjct: 478 EQRHVFTHQKTTVRVEEWSRIDELQ-VTWVKLHDCDIHEL-PEGLVCPKLEFFECFLKTH 535

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKN 181
           S + +P+ FF  + Q++VLD + M L  LP S+  L NLRTLCL   +L DI +I ELK 
Sbjct: 536 SAVKIPNTFFEGMKQLKVLDFSRMQLPSLPLSIQCLANLRTLCLDGCKLGDIVIIAELKK 595

Query: 182 LEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYI-RSFNK 240
           LEIL L  S +EQLP EI QLT LR LDL D   ++VIP  V+S+L  LE+L +  SF +
Sbjct: 596 LEILSLMSSDMEQLPREIAQLTHLRLLDLSDSSTIKVIPSGVISSLFRLEDLCMENSFTQ 655

Query: 241 WEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGR-WCWE 299
           WE E    G  NA L ELK L +LT L++ IPD   LPK + FE L RYRI +G  W WE
Sbjct: 656 WEGE----GKSNACLAELKHLSHLTFLDIQIPDAKLLPKDIVFENLVRYRILVGDVWSWE 711

Query: 300 DTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQ 359
           +     S T + L   D  +    G    L+R EDL L  L     +    N+ G    +
Sbjct: 712 EIFEANS-TLK-LNKFDTSLHLVDGISKLLKRTEDLHLRELCGGTNVLSKLNREGFL--K 767

Query: 360 LKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYN 419
           LKHL VE     SP+                  ++  VN  +     G  P +ETL L  
Sbjct: 768 LKHLNVES----SPE------------------IQYIVNSMDLTSSHGAFPVMETLSLNQ 805

Query: 420 -VNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILE 478
            +N++ +   Q PA S G   L ++ V  C  L+ LFS S+     RL+  ++  C  + 
Sbjct: 806 LINLQEVCHGQFPAGSLG--CLRKVEVEDCDGLKFLFSLSVARGLSRLEETKVTRCKSMV 863

Query: 479 EIIVIDQQERK----NV-VFPQLQFLKMVDLEKLTSFC 511
           E++   ++E K    NV +FP+L++L + DL KL++FC
Sbjct: 864 EMVSQGRKEIKEDAVNVPLFPELRYLTLEDLPKLSNFC 901

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	552
TAIR|locus:2136447	985	AT4G27190 [Arabidopsis thalian	0.516	0.289	0.259	1.4e-15
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.800	0.480	0.264	2.9e-12
TAIR|locus:2005517	909	RPS2 "RESISTANT TO P. SYRINGAE	0.344	0.209	0.246	4.5e-10
TAIR|locus:2132741	892	AT4G10780 [Arabidopsis thalian	0.237	0.146	0.304	3.1e-07
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.219	0.135	0.313	3e-06
UNIPROTKB|E1BU15	582	SHOC2 "Leucine-rich repeat pro	0.710	0.673	0.233	0.00018
UNIPROTKB|Q5F4C4	529	SHOC2 "Leucine-rich repeat pro	0.655	0.684	0.240	0.00071
TAIR|locus:2117149	1201	AT4G19050 [Arabidopsis thalian	0.190	0.087	0.259	0.00073
TAIR|locus:2171589	948	AT5G47260 [Arabidopsis thalian	0.237	0.138	0.264	0.00079
UNIPROTKB|F1NRN7	529	SHOC2 "Leucine-rich repeat pro	0.655	0.684	0.240	0.00092

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

 Score = 170 (64.9 bits), Expect = 1.4e-15, Sum P(2) = 1.4e-15
 Identities = 79/304 (25%), Positives = 134/304 (44%)

Query:     2 YGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIAT 61
             Y M  G  + +   E++     T V  LK  C LLE G + +    MHDVVRD AI I +
Sbjct:   418 YWMAEGFMEELGSQEDSMNEGITTVESLKDYC-LLEDGDRRDT-VKMHDVVRDFAIWIMS 475

Query:    62 REQNVLTMRYELVNSREWL-DEGALKFYTS---IVLHDSKMNVLLPEVLE--CPQLQLLS 115
               Q+     + LV S   L D    K   S   + L ++K+  L P+++E  C +  +L 
Sbjct:   476 SSQDD---SHSLVMSGTGLQDIRQDKLAPSLRRVSLMNNKLESL-PDLVEEFCVKTSVLL 531

Query:   116 LWTEKSSLITLPDNFFRKLTQVRVLDL--TYMHXXXXXXXXXXXXXXXXXXXYCSELQDI 173
             L      L  +P  F +    +R+L+L  T +                     C +L  +
Sbjct:   532 L-QGNFLLKEVPIGFLQAFPTLRILNLSGTRIKSFPSCSLLRLFSLHSLFLRDCFKLVKL 590

Query:   174 AVIGELKNLEILCLRGSYIEQLPVEIGQLTXXXXXXXXXXXXXQVIPPNVLSNLSHLEEL 233
               +  L  LE+L L G++I + P  + +L              + IP  V+S LS LE L
Sbjct:   591 PSLETLAKLELLDLCGTHILEFPRGLEELKRFRHLDLSRTLHLESIPARVVSRLSSLETL 650

Query:   234 YIRSFN-KWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTL--PKGLFFEKLERYR 290
              + S + +W V+ E    + A++EE+  L  L  L + +     L   +  + ++L++++
Sbjct:   651 DMTSSHYRWSVQGETQKGQ-ATVEEIGCLQRLQVLSIRLHSSPFLLNKRNTWIKRLKKFQ 709

Query:   291 ICIG 294
             + +G
Sbjct:   710 LVVG 713

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:2131689 AT4G27220 [Arabidopsis thaliana (taxid:3702)]

 Score = 199 (75.1 bits), Expect = 2.9e-12, P = 2.9e-12
 Identities = 126/477 (26%), Positives = 204/477 (42%)

Query:     1 MYGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIA 60
             MY +  GL  G +  E+      TLV +LK SC LLE G   +    MHDVVRD AI   
Sbjct:   386 MYWVAEGLLDGQHHYEDMMNEGVTLVERLKDSC-LLEDGDSCDT-VKMHDVVRDFAIWFM 443

Query:    61 TREQNVLTMRYELVNSREWLDEGAL-KFYTSIV---LHDSKMNVLLPEVLECPQLQLLSL 116
             + +       + LV +   L E    KF +S+    L  +K+  L   V+E  +  +L L
Sbjct:   444 SSQGEGF---HSLVMAGRGLIEFPQDKFVSSVQRVSLMANKLERLPNNVIEGVETLVLLL 500

Query:   117 WTEKSSLITLPDNFFRKLTQVRVLDLTYMHXXXX-XXXXXXXXXXXXXXXYCSELQDIAV 175
                 S +  +P+ F +    +R+LDL+ +                      C +L+++  
Sbjct:   501 -QGNSHVKEVPNGFLQAFPNLRILDLSGVRIRTLPDSFSNLHSLRSLVLRNCKKLRNLPS 559

Query:   176 IGELKNLEILCLRGSYIEQLPVEIGQLTXXXXXXXXXXXXXQVIPPNVLSNLSHLEELYI 235
             +  L  L+ L L  S I +LP  +  L+             Q IP   +  LS LE L +
Sbjct:   560 LESLVKLQFLDLHESAIRELPRGLEALSSLRYICVSNTYQLQSIPAGTILQLSSLEVLDM 619

Query:   236 R-SFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIG 294
               S   W ++ E    + A+L+E+  LP+L  L + + DV  L     F+ L + R+   
Sbjct:   620 AGSAYSWGIKGEEREGQ-ATLDEVTCLPHLQFLAIKLLDV--LSFSYEFDSLTK-RLTKF 675

Query:   295 RWCWE---DTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDL--CLSGLPDQDIIELV 349
             ++ +      SP  +    L +   N  +   G ++Q     DL  C  GL       LV
Sbjct:   676 QFLFSPIRSVSPPGTGEGCLAISDVNVSNASIGWLLQHVTSLDLNYC-EGLNGM-FENLV 733

Query:   350 NNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSN-EIILEDHVNVPNTFFLKGG 408
                  S+ + +K L +     PS   +  C ES  ++  N E +  D+VN+ +   L G 
Sbjct:   734 TKSKSSFVA-MKALSIH--YFPSLSLASGC-ESQLDLFPNLEELSLDNVNLESIGELNGF 789

Query:   409 LP-NLETLELYNVN----VERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIV 460
             L   L+ L+L  V+    ++R++  Q+ A +  +  L  + V  C  L  LF+ S V
Sbjct:   790 LGMRLQKLKLLQVSGCRQLKRLFSDQILAGT--LPNLQEIKVVSCLRLEELFNFSSV 844

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 = 127 (49.8 bits), Expect = 4.5e-10, Sum P(2) = 4.5e-10
 Identities = 53/215 (24%), Positives = 100/215 (46%)

Query:   329 LQRIEDLCLSGLPDQDIIELVNN-KLGSYSSQLKHLWVEGCQA------PSPKESKRCKE 381
             L+ +E+L   G+    +  L    + G+    ++HL VE C        PS     R   
Sbjct:   661 LEYLENLTTLGITVLSLETLKTLFEFGALHKHIQHLHVEECNELLYFNLPSLTNHGRNLR 720

Query:   382 STSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNV-NVERIWKSQLPAMSCGIQTL 440
               S    +++   +++  P  F     LP+LE L L+++ N+ R+W + + +  C ++ +
Sbjct:   721 RLSIKSCHDL---EYLVTPADFE-NDWLPSLEVLTLHSLHNLTRVWGNSV-SQDC-LRNI 774

Query:   441 TRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNV----VFPQL 496
               + +  C +L+   + S V    +L+ +E+ +C  +EE+I   + E  +V    +FP L
Sbjct:   775 RCINISHCNKLK---NVSWVQKLPKLEVIELFDCREIEELI--SEHESPSVEDPTLFPSL 829

Query:   497 QFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCP 531
             + L+  DL +L S         F  +ETL +  CP
Sbjct:   830 KTLRTRDLPELNSILPS--RFSFQKVETLVITNCP 862

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:2132741 AT4G10780 [Arabidopsis thaliana (taxid:3702)]

 Score = 110 (43.8 bits), Expect = 3.1e-07, Sum P(2) = 3.1e-07
 Identities = 45/148 (30%), Positives = 71/148 (47%)

Query:     7 GLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIAT----- 61
             G   G    E A  + Y ++  L  +C+L E G KN+    MHDVVR++A+   +     
Sbjct:   434 GFIDGNIGKERAVNQGYEILGTLVRACLLSEEG-KNKLEVKMHDVVREMALWTLSDLGKN 492

Query:    62 REQNVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVL---ECPQLQLLSLWT 118
             +E+ ++     L    +  D GA++         S MN  + E+    ECP+L  L L  
Sbjct:   493 KERCIVQAGSGLRKVPKVEDWGAVRRL-------SLMNNGIEEISGSPECPELTTLFL-Q 544

Query:   119 EKSSLITLPDNFFRKLTQVRVLDLTYMH 146
             E  SL+ +   FFR + ++ VLDL+  H
Sbjct:   545 ENKSLVHISGEFFRHMRKLVVLDLSENH 572

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2034770 SUMM2 "AT1G12280" [Arabidopsis thaliana (taxid:3702)]

 Score = 109 (43.4 bits), Expect = 3.0e-06, Sum P(3) = 3.0e-06
 Identities = 42/134 (31%), Positives = 72/134 (53%)

Query:    16 EEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIATR--EQNVLTMRYEL 73
             E A ++ Y ++  L  +C+LLE     E    MHDVVR++A+ IA+   E     +    
Sbjct:   445 ERALSQGYEIIGILVRACLLLEEAINKEQ-VKMHDVVREMALWIASDLGEHKERCIVQVG 503

Query:    74 VNSREWLDEGALKFYTSI---VLHDSKMNVLLPEVLECPQLQLLSLWTEKS-SLITLPDN 129
             V  RE      +K ++S+    L ++++ +L     EC  L+L +L+ +K+ SL+ + D 
Sbjct:   504 VGLRE---VPKVKNWSSVRRMSLMENEIEILSGSP-EC--LELTTLFLQKNDSLLHISDE 557

Query:   130 FFRKLTQVRVLDLT 143
             FFR +  + VLDL+
Sbjct:   558 FFRCIPMLVVLDLS 571

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

GO:0043531 "ADP binding" evidence=IEA

UNIPROTKB|E1BU15 SHOC2 "Leucine-rich repeat protein SHOC-2" [Gallus gallus (taxid:9031)]

 Score = 125 (49.1 bits), Expect = 0.00018, P = 0.00018
 Identities = 104/445 (23%), Positives = 178/445 (40%)

Query:    60 ATREQNVLTMRYELVNSREWL--DEGALKFYTSIVLHDSKMNVLLPEVLE-CPQLQLLSL 116
             A +E   LT  Y   N  + L  + G L    ++ L ++ +  L P+ L+   +L++L L
Sbjct:   118 AVKELTQLTELYLYSNKLQSLPAEVGCLVNLVTLALSENSLTSL-PDSLDNLKKLRMLDL 176

Query:   117 WTEKSSLITLPDNFFRKLTQVRVLDLTYMHXXXXXXXXXXXXXXXXXXXYCSELQDI-AV 175
                K  L  +P   +R LT +  L L +                       ++++ + A 
Sbjct:   177 RHNK--LREIPSVVYR-LTSLATLYLRFNRITTVEKDIKNLSKLTMLSIRENKIKQLPAE 233

Query:   176 IGELKNLEILCLRGSYIEQLPVEIGQLTXXXXXXXXXXXXXQVIPPNVLSNLSHLEELYI 235
             IGEL NL  L +  + +E LP EIG  T              +  P  + NLS L  L +
Sbjct:   234 IGELCNLITLDVAHNQLEHLPEEIGSCTQITNLDLQHNELLDL--PETIGNLSSLSRLGL 291

Query:   236 RSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGR 295
             R +N+    +  +  K + L+EL  L N         +++TLP+GL    ++   + + R
Sbjct:   292 R-YNRLSA-IPKSLAKCSELDELN-LEN--------NNISTLPEGLLSSLVKLTSLTLAR 340

Query:   296 WCWEDT---SPTCSRTFRLLLGTDNCIS------FKSGHIVQLQRIEDLCLSGLP-D--- 342
              C++      P+   T   L    N I+      F    ++    ++D  L+ LP D   
Sbjct:   341 NCFQSYPVGGPSQFSTIYSLNMEHNRINKIPFGIFSRAKVLSKLNMKDNQLTSLPLDFGT 400

Query:   343 -QDIIEL--VNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRS-NEIILEDHV- 397
                ++EL    N+L      +  L        S    K+       +R   E+ LE++  
Sbjct:   401 WTSMVELNLATNQLTKIPEDVSGLVSLEVLILSNNLLKKLPHGIGNLRKLRELDLEENKL 460

Query:   398 -NVPNTF-FLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLF 455
              ++PN   +LK    +L+ L L N        +QL  +  GI  LT L   G GE     
Sbjct:   461 ESLPNEIAYLK----DLQKLVLTN--------NQLTTLPRGIGHLTNLTHLGLGENLLTH 508

Query:   456 SSSIVNSFIRLQHLEIDECPILEEI 480
                 + +   L+ L +++ P L  +
Sbjct:   509 LPEEIGTLENLEELYLNDNPNLHSL 533

GO:0000164 "protein phosphatase type 1 complex" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0019903 "protein phosphatase binding" evidence=IEA

GO:0046579 "positive regulation of Ras protein signal transduction" evidence=IEA

UNIPROTKB|Q5F4C4 SHOC2 "Leucine-rich repeat protein SHOC-2" [Gallus gallus (taxid:9031)]

 Score = 119 (46.9 bits), Expect = 0.00071, P = 0.00071
 Identities = 100/415 (24%), Positives = 167/415 (40%)

Query:    60 ATREQNVLTMRYELVNSREWL--DEGALKFYTSIVLHDSKMNVLLPEVLE-CPQLQLLSL 116
             A +E   LT  Y   N  + L  + G L    ++ L ++ +  L P+ L+   +L++L L
Sbjct:   118 AVKELTQLTELYLYSNKLQSLPAEVGCLVNLVTLALSENSLTSL-PDSLDNLKKLRMLDL 176

Query:   117 WTEKSSLITLPDNFFRKLTQVRVLDLTYMHXXXXXXXXXXXXXXXXXXXYCSELQDI-AV 175
                K  L  +P   +R LT +  L L +                       ++++ + A 
Sbjct:   177 RHNK--LREIPSVVYR-LTSLATLYLRFNRITTVEKDIKTLSKLTMLSIRENKIKQLPAE 233

Query:   176 IGELKNLEILCLRGSYIEQLPVEIGQLTXXXXXXXXXXXXXQVIPPNVLSNLSHLEELYI 235
             IGEL NL  L +  + +E LP EIG  T              +  P  + NLS L  L +
Sbjct:   234 IGELCNLITLDVAHNQLEHLPEEIGSCTQITNLDLQHNELLDL--PETIGNLSSLSRLGL 291

Query:   236 RSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGR 295
             R +N+    +  +  K + L+EL  L N         +++TLP+GL    ++   + + R
Sbjct:   292 R-YNRLSA-IPKSLAKCSELDELN-LEN--------NNISTLPEGLLSSLVKLTSLTLAR 340

Query:   296 WCWEDT---SPTCSRTFRLLLGTDNCIS------FKSGHIVQLQRIEDLCLSGLP-D--- 342
              C++      P+   T   L    N I+      F    ++    ++D  L+ LP D   
Sbjct:   341 NCFQSYPVGGPSQFSTIYSLNMEHNRINKIPFGIFSRAKVLSKLNMKDNQLTSLPLDFGT 400

Query:   343 -QDIIEL--VNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRS-NEIILEDHV- 397
                ++EL    N+L      +  L        S    K+       +R   E+ LE++  
Sbjct:   401 WTSMVELNLATNQLTKIPEDVSGLVSLEVLILSNNLLKKLPHGIGNLRKLRELDLEENKL 460

Query:   398 -NVPNTF-FLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGE 450
              ++PN   +LK    +L+ L L N        +QL  +  GI  LT L   G GE
Sbjct:   461 ESLPNEIAYLK----DLQKLVLTN--------NQLTTLPRGIGHLTNLTHLGLGE 503

GO:0046579 "positive regulation of Ras protein signal transduction" evidence=ISS

GO:0019903 "protein phosphatase binding" evidence=ISS

GO:0000164 "protein phosphatase type 1 complex" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

TAIR|locus:2117149 AT4G19050 [Arabidopsis thaliana (taxid:3702)]

 Score = 94 (38.1 bits), Expect = 0.00073, Sum P(3) = 0.00073
 Identities = 28/108 (25%), Positives = 54/108 (50%)

Query:    85 LKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTY 144
             LK    +V+ D  +   + ++     L +L + +  SSL+ +PD+FF+ +TQ++ L+L+ 
Sbjct:   467 LKKLRVLVIRDCDLIDNIDKLSGLQGLHVLEV-SGASSLVNIPDDFFKNMTQLQSLNLSG 525

Query:   145 MHXXXXXXXXXXXXXXX-XXXXYCSELQDIA-VIGELKNLEILCLRGS 190
             +                     +CSELQD+   I E + LE++ + G+
Sbjct:   526 LAIKSSPSTIEKLSMLRCFILRHCSELQDLPNFIVETRKLEVIDIHGA 573

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2171589 AT5G47260 [Arabidopsis thaliana (taxid:3702)]

 Score = 83 (34.3 bits), Expect = 0.00079, Sum P(3) = 0.00079
 Identities = 40/151 (26%), Positives = 64/151 (42%)

Query:   397 VNVPNTFFLKGGLPNLET------LELYNVNVERI---WKSQLPA-MSCGIQTLTRLIVY 446
             +++  T  + GG+ +L        L++   N+  I   W+  +   +    Q +  + ++
Sbjct:   670 LHLTETTIVDGGILSLNAIFSLCELDILGCNILEITIDWRCTIQREIIPQFQNIRTMTIH 729

Query:   447 GCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERK--NVV---FPQLQFLKM 501
              C  LR L    +      L  L + ECP +EE+I  D+   K  N     F  L  L +
Sbjct:   730 RCEYLRDLTWLLLAPC---LGELSVSECPQMEEVISKDKAMAKLGNTSEQPFQNLTKLVL 786

Query:   502 VDLEKLTSFCTGDVHIEFPTLETLEVIRCPE 532
               L KL S       + FP LE L + RCPE
Sbjct:   787 DGLPKLESIYW--TPLPFPVLEYLVIRRCPE 815

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

GO:0045036 "protein targeting to chloroplast" evidence=RCA

UNIPROTKB|F1NRN7 SHOC2 "Leucine-rich repeat protein SHOC-2" [Gallus gallus (taxid:9031)]

 Score = 118 (46.6 bits), Expect = 0.00092, P = 0.00092
 Identities = 100/415 (24%), Positives = 167/415 (40%)

Query:    60 ATREQNVLTMRYELVNSREWL--DEGALKFYTSIVLHDSKMNVLLPEVLE-CPQLQLLSL 116
             A +E   LT  Y   N  + L  + G L    ++ L ++ +  L P+ L+   +L++L L
Sbjct:   118 AVKELTQLTELYLYSNKLQSLPAEVGCLVNLVTLALSENSLTSL-PDSLDNLKKLRMLDL 176

Query:   117 WTEKSSLITLPDNFFRKLTQVRVLDLTYMHXXXXXXXXXXXXXXXXXXXYCSELQDI-AV 175
                K  L  +P   +R LT +  L L +                       ++++ + A 
Sbjct:   177 RHNK--LREIPSVVYR-LTSLATLYLRFNRITTVEKDIKNLSKLTMLSIRENKIKQLPAE 233

Query:   176 IGELKNLEILCLRGSYIEQLPVEIGQLTXXXXXXXXXXXXXQVIPPNVLSNLSHLEELYI 235
             IGEL NL  L +  + +E LP EIG  T              +  P  + NLS L  L +
Sbjct:   234 IGELCNLITLDVAHNQLEHLPEEIGSCTQITNLDLQHNELLDL--PETIGNLSSLSRLGL 291

Query:   236 RSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGR 295
             R +N+    +  +  K + L+EL  L N         +++TLP+GL    ++   + + R
Sbjct:   292 R-YNRLSA-IPKSLAKCSELDELN-LEN--------NNISTLPEGLLSSLVKLTSLTLAR 340

Query:   296 WCWEDT---SPTCSRTFRLLLGTDNCIS------FKSGHIVQLQRIEDLCLSGLP-D--- 342
              C++      P+   T   L    N I+      F    ++    ++D  L+ LP D   
Sbjct:   341 NCFQSYPVGGPSQFSTIYSLNMEHNRINKIPFGIFSRAKVLSKLNMKDNQLTSLPLDFGT 400

Query:   343 -QDIIEL--VNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRS-NEIILEDHV- 397
                ++EL    N+L      +  L        S    K+       +R   E+ LE++  
Sbjct:   401 WTSMVELNLATNQLTKIPEDVSGLVSLEVLILSNNLLKKLPHGIGNLRKLRELDLEENKL 460

Query:   398 -NVPNTF-FLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGE 450
              ++PN   +LK    +L+ L L N        +QL  +  GI  LT L   G GE
Sbjct:   461 ESLPNEIAYLK----DLQKLVLTN--------NQLTTLPRGIGHLTNLTHLGLGE 503


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.322   0.138   0.415    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      552       520   0.00089  119 3  11 22  0.36    34
                                                     35  0.45    37


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  10
  No. of states in DFA:  624 (66 KB)
  Total size of DFA:  316 KB (2160 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  41.03u 0.09s 41.12t   Elapsed:  00:00:02
  Total cpu time:  41.04u 0.09s 41.13t   Elapsed:  00:00:02
  Start:  Fri May 10 13:04:09 2013   End:  Fri May 10 13:04:11 2013

GO:0000164 "protein phosphatase type 1 complex" evidence=IEA

GO:0046579 "positive regulation of Ras protein signal transduction" 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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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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	552
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	1e-04
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	0.001
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	0.001
PLN03210	1153	PLN03210, PLN03210, Resistant to P	0.001
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	0.003
pfam12799	43	pfam12799, LRR_4, Leucine Rich repeats (2 copies)	0.003

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

 Score = 39.4 bits (93), Expect = 1e-04
 Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 2/58 (3%)

Query: 181 NLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRS 237
           NL+ L L  + +  +P      L  L+ LDL     L  I P   S L  L  L +  
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGN-NLTSISPEAFSGLPSLRSLDLSG 57

Length = 60

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

 Score = 37.1 bits (87), Expect = 0.001
 Identities = 21/66 (31%), Positives = 31/66 (46%), Gaps = 11/66 (16%)

Query: 204 RLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPN 263
            L+SLDL +  RL VIP      L +L+ L +   N          + + S E    LP+
Sbjct: 1   NLKSLDLSNN-RLTVIPDGAFKGLPNLKVLDLSGNN----------LTSISPEAFSGLPS 49

Query: 264 LTTLEL 269
           L +L+L
Sbjct: 50  LRSLDL 55

Length = 60

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

 Score = 41.4 bits (97), Expect = 0.001
 Identities = 36/105 (34%), Positives = 60/105 (57%), Gaps = 5/105 (4%)

Query: 135 TQVRVLDLTYMHLS-LLPSSLGLLTNLRTLCLYCSEL--QDIAVIGELKNLEILCLRGSY 191
           + ++VLDL    L   +P+SL  LT+L  L L  ++L  Q    +G++K+L+ + L  + 
Sbjct: 164 SSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNN 223

Query: 192 IE-QLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYI 235
           +  ++P EIG LT L  LDL   +    IP + L NL +L+ L++
Sbjct: 224 LSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSS-LGNLKNLQYLFL 267

Length = 968

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

 Score = 41.4 bits (97), Expect = 0.001
 Identities = 36/113 (31%), Positives = 57/113 (50%), Gaps = 9/113 (7%)

Query: 122 SLITLPDNF--FRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCL-YCSELQDIAVIGE 178
           SL+ LP +     KL  + + +    +L  LP+ + L  +L +L L  CS L+    I  
Sbjct: 790 SLVELPSSIQNLHKLEHLEIENCI--NLETLPTGINL-ESLESLDLSGCSRLRTFPDIS- 845

Query: 179 LKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLE 231
             N+  L L  + IE++P  I + + L  LD+  C+ LQ +  N+ S L HLE
Sbjct: 846 -TNISDLNLSRTGIEEVPWWIEKFSNLSFLDMNGCNNLQRVSLNI-SKLKHLE 896

syringae 6; Provisional. Length = 1153

>gnl|CDD|227223 COG4886, COG4886, Leucine-rich repeat (LRR) protein [Function unknown]

 Score = 40.0 bits (93), Expect = 0.003
 Identities = 39/169 (23%), Positives = 61/169 (36%), Gaps = 24/169 (14%)

Query: 83  GALKFYTSIVLHDSKMNVLLPEVLECPQLQ---------------------LLSLWTEKS 121
             L    ++ L  + ++ L   +     L                      L  L    +
Sbjct: 160 RNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALEELDLSNN 219

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKN 181
           S+I L       L  +  L+L+   L  LP S+G L+NL TL L  +++  I+ +G L N
Sbjct: 220 SIIELLS-SLSNLKNLSGLELSNNKLEDLPESIGNLSNLETLDLSNNQISSISSLGSLTN 278

Query: 182 LEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHL 230
           L  L L G+ +      I  L  L  L L     L +    +  N   L
Sbjct: 279 LRELDLSGNSLSNALPLIALLLLLLELLLN--LLLTLKALELKLNSILL 325

Length = 394

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

 Score = 35.2 bits (82), Expect = 0.003
 Identities = 16/40 (40%), Positives = 22/40 (55%)

Query: 158 TNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPV 197
           TNL TL L  +++ D+  +  L NLE L L G+ I  L  
Sbjct: 1   TNLETLDLSNNQITDLPPLSNLPNLETLDLSGNKITDLSP 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	552
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.97
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.96
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.96
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.91
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.89
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.87
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.84
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.83
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.81
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.78
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.78
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.7
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.65
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.57
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.53
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.51
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.51
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.49
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.46
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.22
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.14
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.13
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.09
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.03
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.02
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.01
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.0
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.94
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.8
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.77
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.75
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.7
KOG4341	483	consensus F-box protein containing LRR [General fu	98.69
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.65
PLN03150	623	hypothetical protein; Provisional	98.55
KOG4341	483	consensus F-box protein containing LRR [General fu	98.49
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.46
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.44
PLN03150	623	hypothetical protein; Provisional	98.43
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.32
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	98.23
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.17
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.16
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.15
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.15
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.14
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	98.08
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.02
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.0
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.79
PRK15386	426	type III secretion protein GogB; Provisional	97.73
PRK15386	426	type III secretion protein GogB; Provisional	97.71
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.66
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.59
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.56
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.48
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.4
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.28
KOG2982	418	consensus Uncharacterized conserved protein [Funct	96.96
KOG1947	482	consensus Leucine rich repeat proteins, some prote	96.86
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.84
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	96.84
KOG1947	482	consensus Leucine rich repeat proteins, some prote	96.77
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.53
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.41
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	96.11
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	96.05
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.04
KOG3864	221	consensus Uncharacterized conserved protein [Funct	95.16
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	94.62
KOG3864	221	consensus Uncharacterized conserved protein [Funct	94.6
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	94.17
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.0
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	93.69
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	93.34
smart00370	26	LRR Leucine-rich repeats, outliers.	90.72
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	90.72
KOG0473	326	consensus Leucine-rich repeat protein [Function un	90.45
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	87.05
smart00370	26	LRR Leucine-rich repeats, outliers.	87.05
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	84.37

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=2.8e-33  Score=298.25  Aligned_cols=207  Identities=30%  Similarity=0.402  Sum_probs=163.2

Q ss_pred             cccccccccCcchHHHHHHHHHHHHHHHHhhccccccccc-ccCeEeccHHHHHHHHHHhh-----cccceeEEeecccc
Q 040303            2 YGMGLGLFQGINRMEEARARVYTLVYKLKASCMLLEHGSK-NEHWFSMHDVVRDVAIAIAT-----REQNVLTMRYELVN   75 (552)
Q Consensus         2 ~WiaeG~i~~~~~~e~~~~~~~~~~~~L~~~~~~~~~~~~-~~~~~~mHdl~~dla~~i~~-----~e~~~~~~~~~~~~   75 (552)
                      +|||||||++....+.+++.|++|+.+|+++++++..... ...+|+|||+|||||.++|+     +|..+....   .+
T Consensus       436 yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~~~kmHDvvRe~al~ias~~~~~~e~~iv~~~---~~  512 (889)
T KOG4658|consen  436 YWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEGRKETVKMHDVVREMALWIASDFGKQEENQIVSDG---VG  512 (889)
T ss_pred             HHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccccceeEEEeeHHHHHHHHHHhccccccccceEEECC---cC
Confidence            7999999998666677999999999999999999987532 34579999999999999998     565333221   22


Q ss_pred             cccccCccccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecc-ccccccchh
Q 040303           76 SREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYM-HLSLLPSSL  154 (552)
Q Consensus        76 ~~~~~~~~~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~-~~~~lp~~i  154 (552)
                      ..+.+....+..+|++++.++.+.. ++....+++|++|.+.++......++..+|..++.||+||+++| .+.++|++|
T Consensus       513 ~~~~~~~~~~~~~rr~s~~~~~~~~-~~~~~~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I  591 (889)
T KOG4658|consen  513 LSEIPQVKSWNSVRRMSLMNNKIEH-IAGSSENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSI  591 (889)
T ss_pred             ccccccccchhheeEEEEeccchhh-ccCCCCCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHH
Confidence            3445666678889999999999887 77777888999999999864233788888999999999999987 678999999


Q ss_pred             cCCCCCcEEEccCCCCCC-hhhhcCCCCccEEEecCC-cCcccchhhccCCCCCEEeccC
Q 040303          155 GLLTNLRTLCLYCSELQD-IAVIGELKNLEILCLRGS-YIEQLPVEIGQLTRLRSLDLRD  212 (552)
Q Consensus       155 ~~l~~L~~L~l~~~~~~~-~~~i~~L~~L~~L~l~~~-~l~~lp~~i~~l~~L~~L~l~~  212 (552)
                      ++|.|||||+++++.+.. |..+++|..|++|++..+ .+..+|..+..|.+||+|.+..
T Consensus       592 ~~Li~LryL~L~~t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~  651 (889)
T KOG4658|consen  592 GELVHLRYLDLSDTGISHLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLPR  651 (889)
T ss_pred             hhhhhhhcccccCCCccccchHHHHHHhhheeccccccccccccchhhhcccccEEEeec
Confidence            999999999999888776 777777777777777766 3344444444567777776644

>PLN03210 Resistant to P

Probab=99.97  E-value=7.1e-30  Score=286.90  Aligned_cols=397  Identities=21%  Similarity=0.280  Sum_probs=242.6

Q ss_pred             HHHHHHHhhcccccccccccCeEeccHHHHHHHHHHhhccc-------ceeEEee---------cccccc----------
Q 040303           24 TLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIATREQ-------NVLTMRY---------ELVNSR----------   77 (552)
Q Consensus        24 ~~~~~L~~~~~~~~~~~~~~~~~~mHdl~~dla~~i~~~e~-------~~~~~~~---------~~~~~~----------   77 (552)
                      ..++.|+++||++...    ++++|||++|+||+++++++.       +.+...+         +.....          
T Consensus       470 ~~l~~L~~ksLi~~~~----~~~~MHdLl~~~~r~i~~~~~~~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~~~  545 (1153)
T PLN03210        470 IGLKNLVDKSLIHVRE----DIVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKVLGITLDIDEID  545 (1153)
T ss_pred             hChHHHHhcCCEEEcC----CeEEhhhHHHHHHHHHHHhhcCCCCcceeEeCHHHHHHHHHhCcccceeeEEEeccCccc
Confidence            3488899999998764    679999999999999997653       1110000         000000          


Q ss_pred             c--c--cCccccCcccEEEeecCCC------cccCCCcc-CC-CCceEEEeecCCCCCcccChhHhhCCCCccEEEeecc
Q 040303           78 E--W--LDEGALKFYTSIVLHDSKM------NVLLPEVL-EC-PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYM  145 (552)
Q Consensus        78 ~--~--~~~~~~~~lr~L~l~~~~~------~~~~~~~~-~~-~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~  145 (552)
                      .  +  .....+++++.|.+..+..      ...+|..+ .+ ++||.|.+.++...  .+|..+  .+.+|+.|++.++
T Consensus       546 ~~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l~--~lP~~f--~~~~L~~L~L~~s  621 (1153)
T PLN03210        546 ELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLR--CMPSNF--RPENLVKLQMQGS  621 (1153)
T ss_pred             eeeecHHHHhcCccccEEEEecccccccccceeecCcchhhcCcccEEEEecCCCCC--CCCCcC--CccCCcEEECcCc
Confidence            0  0  0112345556666544321      11133322 22 35777777765443  667654  5678888888888


Q ss_pred             ccccccchhcCCCCCcEEEccCCC-CCChhhhcCCCCccEEEecCC-cCcccchhhccCCCCCEEeccCCCCCCccCccc
Q 040303          146 HLSLLPSSLGLLTNLRTLCLYCSE-LQDIAVIGELKNLEILCLRGS-YIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNV  223 (552)
Q Consensus       146 ~~~~lp~~i~~l~~L~~L~l~~~~-~~~~~~i~~L~~L~~L~l~~~-~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~  223 (552)
                      .+..+|.++..+++|++|+++++. +..++.++.+++|++|++++| .+..+|..++++++|++|++++|..++.+|.. 
T Consensus       622 ~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~-  700 (1153)
T PLN03210        622 KLEKLWDGVHSLTGLRNIDLRGSKNLKEIPDLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTG-  700 (1153)
T ss_pred             cccccccccccCCCCCEEECCCCCCcCcCCccccCCcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCccCCc-
Confidence            888888888888888888888876 555556888888888888887 67788888888888888888888888888875 


Q ss_pred             ccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecccccCCCCC
Q 040303          224 LSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSP  303 (552)
Q Consensus       224 l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~  303 (552)
                      + ++++|+.|+++++....          ..+   ....+|+.|++.++.+..+|..+.+++|..|.+.......     
T Consensus       701 i-~l~sL~~L~Lsgc~~L~----------~~p---~~~~nL~~L~L~~n~i~~lP~~~~l~~L~~L~l~~~~~~~-----  761 (1153)
T PLN03210        701 I-NLKSLYRLNLSGCSRLK----------SFP---DISTNISWLDLDETAIEEFPSNLRLENLDELILCEMKSEK-----  761 (1153)
T ss_pred             C-CCCCCCEEeCCCCCCcc----------ccc---cccCCcCeeecCCCccccccccccccccccccccccchhh-----
Confidence            3 78888888887554311          011   1245788888888888888887777777777664321000     


Q ss_pred             CcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC--CCCCcchhhhhh
Q 040303          304 TCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ--APSPKESKRCKE  381 (552)
Q Consensus       304 ~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~--~~lp~~~~~~~~  381 (552)
                             +  . .............+++|+.|++.++..  +.+++..  .+.+++|+.|+|++|.  ..+|..      
T Consensus       762 -------l--~-~~~~~l~~~~~~~~~sL~~L~Ls~n~~--l~~lP~s--i~~L~~L~~L~Ls~C~~L~~LP~~------  821 (1153)
T PLN03210        762 -------L--W-ERVQPLTPLMTMLSPSLTRLFLSDIPS--LVELPSS--IQNLHKLEHLEIENCINLETLPTG------  821 (1153)
T ss_pred             -------c--c-ccccccchhhhhccccchheeCCCCCC--ccccChh--hhCCCCCCEEECCCCCCcCeeCCC------
Confidence                   0  0 000001111111236777777777765  4455433  3467777888877775  222221      


Q ss_pred             cccccccceeeeccCCCCCccccccccCCCcccccccce-eeeEeccCCCCccccccCcceEEEEecCCCccccccchhH
Q 040303          382 STSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNV-NVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIV  460 (552)
Q Consensus       382 Li~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~-~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~  460 (552)
                                               ..+++|+.|++++| .+..++.        ..++|+.|++.+ +.++.+|.  .+
T Consensus       822 -------------------------~~L~sL~~L~Ls~c~~L~~~p~--------~~~nL~~L~Ls~-n~i~~iP~--si  865 (1153)
T PLN03210        822 -------------------------INLESLESLDLSGCSRLRTFPD--------ISTNISDLNLSR-TGIEEVPW--WI  865 (1153)
T ss_pred             -------------------------CCccccCEEECCCCCccccccc--------cccccCEeECCC-CCCccChH--HH
Confidence                                     13556666666666 4433211        224566666655 35555554  35


Q ss_pred             hhhcccceEEEecCCchhhhhccccccccccccCCccEEEeccccccccc
Q 040303          461 NSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSF  510 (552)
Q Consensus       461 ~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~  510 (552)
                      ..+++|+.|++.+|++++.++.      ....+++|+.+++.+|++|+.+
T Consensus       866 ~~l~~L~~L~L~~C~~L~~l~~------~~~~L~~L~~L~l~~C~~L~~~  909 (1153)
T PLN03210        866 EKFSNLSFLDMNGCNNLQRVSL------NISKLKHLETVDFSDCGALTEA  909 (1153)
T ss_pred             hcCCCCCEEECCCCCCcCccCc------ccccccCCCeeecCCCcccccc
Confidence            5666666666666666665532      1223566666666666666544

syringae 6; Provisional

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

Probab=99.96  E-value=1.6e-28  Score=275.99  Aligned_cols=421  Identities=19%  Similarity=0.170  Sum_probs=199.8

Q ss_pred             cCcccEEEeecCCCcccCCCc-c-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccc-cccchhcCCCCCc
Q 040303           85 LKFYTSIVLHDSKMNVLLPEV-L-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLS-LLPSSLGLLTNLR  161 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~~~~~-~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~-~lp~~i~~l~~L~  161 (552)
                      .++++.|++++|.+.+.+|.. + .+++||.|++++|.... .+|.   +.+++|++|++++|.+. .+|..++++++|+
T Consensus        92 l~~L~~L~Ls~n~~~~~ip~~~~~~l~~L~~L~Ls~n~l~~-~~p~---~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~  167 (968)
T PLN00113         92 LPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNFTG-SIPR---GSIPNLETLDLSNNMLSGEIPNDIGSFSSLK  167 (968)
T ss_pred             CCCCCEEECCCCccCCcCChHHhccCCCCCEEECcCCcccc-ccCc---cccCCCCEEECcCCcccccCChHHhcCCCCC
Confidence            445556666655554334432 2 55566666665554432 3332   23455555555555553 4556666666666


Q ss_pred             EEEccCCCCCC--hhhhcCCCCccEEEecCCcCc-ccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcccc
Q 040303          162 TLCLYCSELQD--IAVIGELKNLEILCLRGSYIE-QLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSF  238 (552)
Q Consensus       162 ~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~-~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~  238 (552)
                      +|++++|.+..  |..++++++|++|++++|.+. .+|..++++++|++|++++|...+.+|.. ++++++|++|+++++
T Consensus       168 ~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~L~~n  246 (968)
T PLN00113        168 VLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYE-IGGLTSLNHLDLVYN  246 (968)
T ss_pred             EEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChh-HhcCCCCCEEECcCc
Confidence            66666666543  556666666666666666544 45666666666666666666544455554 566666666666533


Q ss_pred             ccchhhhhhhcccccChhhhcCCCCCcEEEccCCCC-CcCCCcc-cccCCceEEEEecccccCC--CCCCcccceeeecC
Q 040303          239 NKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDV-NTLPKGL-FFEKLERYRICIGRWCWED--TSPTCSRTFRLLLG  314 (552)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~-~~~p~~~-~l~~L~~L~l~~~~~~~~~--~~~~~~~~~~l~l~  314 (552)
                      ..          ....+..++.+++|+.|++++|.+ +.+|..+ .+++|+.|.++.+......  ..........+.+.
T Consensus       247 ~l----------~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l~  316 (968)
T PLN00113        247 NL----------TGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLF  316 (968)
T ss_pred             ee----------ccccChhHhCCCCCCEEECcCCeeeccCchhHhhccCcCEEECcCCeeccCCChhHcCCCCCcEEECC
Confidence            22          112344555556666666665553 2344443 4555555555544321110  00111122222222


Q ss_pred             cccccccchhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC--CCCCcchhhhhhc----------
Q 040303          315 TDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ--APSPKESKRCKES----------  382 (552)
Q Consensus       315 ~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~--~~lp~~~~~~~~L----------  382 (552)
                      .+............+++|+.|++.++..  ....+.  ..+.+++|+.|++++|.  +.+|..+..++++          
T Consensus       317 ~n~~~~~~~~~~~~l~~L~~L~L~~n~l--~~~~p~--~l~~~~~L~~L~Ls~n~l~~~~p~~~~~~~~L~~L~l~~n~l  392 (968)
T PLN00113        317 SNNFTGKIPVALTSLPRLQVLQLWSNKF--SGEIPK--NLGKHNNLTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNSL  392 (968)
T ss_pred             CCccCCcCChhHhcCCCCCEEECcCCCC--cCcCCh--HHhCCCCCcEEECCCCeeEeeCChhHhCcCCCCEEECcCCEe
Confidence            2211111222233445555555554432  111111  11234455555555444  2233222111111          


Q ss_pred             -------ccccc-cceeeeccCCCCCccccccc------------------------cCCCcccccccceeeeEeccCCC
Q 040303          383 -------TSEMR-SNEIILEDHVNVPNTFFLKG------------------------GLPNLETLELYNVNVERIWKSQL  430 (552)
Q Consensus       383 -------i~~c~-l~~l~~~~~~~~~~~~~~~~------------------------~~~~L~~L~l~~~~l~~~~~~~~  430 (552)
                             +..|. ++.+...........+....                        .+++|+.|++.+|.+........
T Consensus       393 ~~~~p~~~~~~~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~~~~~~p~~~  472 (968)
T PLN00113        393 EGEIPKSLGACRSLRRVRLQDNSFSGELPSEFTKLPLVYFLDISNNNLQGRINSRKWDMPSLQMLSLARNKFFGGLPDSF  472 (968)
T ss_pred             cccCCHHHhCCCCCCEEECcCCEeeeECChhHhcCCCCCEEECcCCcccCccChhhccCCCCcEEECcCceeeeecCccc
Confidence                   01111 12221111100001111122                        33444444444443221111100


Q ss_pred             CccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEEeccccccccc
Q 040303          431 PAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSF  510 (552)
Q Consensus       431 ~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~  510 (552)
                           ..++|+.|++++|.-...+|.  .+..+++|+.|++.+|.-...+  ++    ....+++|+.|+|.+|.-...+
T Consensus       473 -----~~~~L~~L~ls~n~l~~~~~~--~~~~l~~L~~L~Ls~N~l~~~~--p~----~~~~l~~L~~L~Ls~N~l~~~~  539 (968)
T PLN00113        473 -----GSKRLENLDLSRNQFSGAVPR--KLGSLSELMQLKLSENKLSGEI--PD----ELSSCKKLVSLDLSHNQLSGQI  539 (968)
T ss_pred             -----ccccceEEECcCCccCCccCh--hhhhhhccCEEECcCCcceeeC--Ch----HHcCccCCCEEECCCCcccccC
Confidence                 234566666665533333333  3566777777777776433232  11    2334788888888888544444


Q ss_pred             cCCcccccCCCccEEEeecCCCcchhhcc
Q 040303          511 CTGDVHIEFPTLETLEVIRCPEFLLTAHD  539 (552)
Q Consensus       511 ~~~~~~~~~~~L~~L~i~~C~~L~~l~~~  539 (552)
                      |. .+ ..+++|+.|++++|.-...+|..
T Consensus       540 p~-~~-~~l~~L~~L~Ls~N~l~~~~p~~  566 (968)
T PLN00113        540 PA-SF-SEMPVLSQLDLSQNQLSGEIPKN  566 (968)
T ss_pred             Ch-hH-hCcccCCEEECCCCcccccCChh
Confidence            43 23 26789999999988776666643

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

Probab=99.96  E-value=6e-28  Score=271.32  Aligned_cols=425  Identities=18%  Similarity=0.162  Sum_probs=276.6

Q ss_pred             ccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccc-cccchhcCCCCCcE
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLS-LLPSSLGLLTNLRT  162 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~-~lp~~i~~l~~L~~  162 (552)
                      ..+++|+|++++|.+.+.+|. ..+++|++|++++|.... .+|..+ +++++|++|++++|.+. .+|..++++++|++
T Consensus       116 ~l~~L~~L~Ls~n~l~~~~p~-~~l~~L~~L~Ls~n~~~~-~~p~~~-~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~  192 (968)
T PLN00113        116 TSSSLRYLNLSNNNFTGSIPR-GSIPNLETLDLSNNMLSG-EIPNDI-GSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEF  192 (968)
T ss_pred             cCCCCCEEECcCCccccccCc-cccCCCCEEECcCCcccc-cCChHH-hcCCCCCEEECccCcccccCChhhhhCcCCCe
Confidence            467899999999988764553 468899999999987653 567665 89999999999999875 68889999999999


Q ss_pred             EEccCCCCCC--hhhhcCCCCccEEEecCCcCc-ccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccc
Q 040303          163 LCLYCSELQD--IAVIGELKNLEILCLRGSYIE-QLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFN  239 (552)
Q Consensus       163 L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~-~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  239 (552)
                      |++++|.+..  |..++++.+|++|++++|.+. .+|..++++++|++|++++|...+.+|.. ++++++|+.|++.++.
T Consensus       193 L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~L~~n~  271 (968)
T PLN00113        193 LTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSS-LGNLKNLQYLFLYQNK  271 (968)
T ss_pred             eeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCceeccccChh-HhCCCCCCEEECcCCe
Confidence            9999998764  788999999999999999776 78888999999999999998755667766 7899999999987443


Q ss_pred             cchhhhhhhcccccChhhhcCCCCCcEEEccCCCCC-cCCCcc-cccCCceEEEEecccccCC--CCCCcccceeeecCc
Q 040303          240 KWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVN-TLPKGL-FFEKLERYRICIGRWCWED--TSPTCSRTFRLLLGT  315 (552)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~-~~p~~~-~l~~L~~L~l~~~~~~~~~--~~~~~~~~~~l~l~~  315 (552)
                      .          ....+..+..+++|+.|++++|.+. .+|..+ .+++|+.|.+..+.+....  ......+...+.+..
T Consensus       272 l----------~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~  341 (968)
T PLN00113        272 L----------SGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWS  341 (968)
T ss_pred             e----------eccCchhHhhccCcCEEECcCCeeccCCChhHcCCCCCcEEECCCCccCCcCChhHhcCCCCCEEECcC
Confidence            2          1123445666667777777666633 445444 5566666666554422110  011111222222222


Q ss_pred             ccccccchhHHHHhchheeeeecCCCCCc----------------------ceeeeccccCcccccccEEEeecCC--CC
Q 040303          316 DNCISFKSGHIVQLQRIEDLCLSGLPDQD----------------------IIELVNNKLGSYSSQLKHLWVEGCQ--AP  371 (552)
Q Consensus       316 ~~~~~~~~~~~~~l~~L~~L~l~~~~~~~----------------------~~~~~~~~~~~~~~~L~~L~l~~c~--~~  371 (552)
                      +............+++|+.|++.++.-..                      ....+.  ....+++|+.|++.+|.  +.
T Consensus       342 n~l~~~~p~~l~~~~~L~~L~Ls~n~l~~~~p~~~~~~~~L~~L~l~~n~l~~~~p~--~~~~~~~L~~L~L~~n~l~~~  419 (968)
T PLN00113        342 NKFSGEIPKNLGKHNNLTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNSLEGEIPK--SLGACRSLRRVRLQDNSFSGE  419 (968)
T ss_pred             CCCcCcCChHHhCCCCCcEEECCCCeeEeeCChhHhCcCCCCEEECcCCEecccCCH--HHhCCCCCCEEECcCCEeeeE
Confidence            21111111222334555555554433200                      001111  12346677777777776  34


Q ss_pred             CCcchhhhhhc----ccccc--------------cceeeeccCCCCCccccccccCCCcccccccceeeeEeccCCCCcc
Q 040303          372 SPKESKRCKES----TSEMR--------------SNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAM  433 (552)
Q Consensus       372 lp~~~~~~~~L----i~~c~--------------l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~  433 (552)
                      +|..+..++.|    ++.+.              ++.+...........+ .....++|+.|++++|.+.........  
T Consensus       420 ~p~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~~~~~~p-~~~~~~~L~~L~ls~n~l~~~~~~~~~--  496 (968)
T PLN00113        420 LPSEFTKLPLVYFLDISNNNLQGRINSRKWDMPSLQMLSLARNKFFGGLP-DSFGSKRLENLDLSRNQFSGAVPRKLG--  496 (968)
T ss_pred             CChhHhcCCCCCEEECcCCcccCccChhhccCCCCcEEECcCceeeeecC-cccccccceEEECcCCccCCccChhhh--
Confidence            55554444443    22221              2222222111111111 112357899999999976543322222  


Q ss_pred             ccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEEeccccccccccCC
Q 040303          434 SCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTG  513 (552)
Q Consensus       434 ~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~  513 (552)
                        .+++|+.|++++|.-...+|.  .+..+++|++|++++|.--..+  +.    ....+++|+.|++.+|.-...+|..
T Consensus       497 --~l~~L~~L~Ls~N~l~~~~p~--~~~~l~~L~~L~Ls~N~l~~~~--p~----~~~~l~~L~~L~Ls~N~l~~~~p~~  566 (968)
T PLN00113        497 --SLSELMQLKLSENKLSGEIPD--ELSSCKKLVSLDLSHNQLSGQI--PA----SFSEMPVLSQLDLSQNQLSGEIPKN  566 (968)
T ss_pred             --hhhccCEEECcCCcceeeCCh--HHcCccCCCEEECCCCcccccC--Ch----hHhCcccCCEEECCCCcccccCChh
Confidence              789999999999855556665  4788999999999998744333  22    2345899999999999766667654


Q ss_pred             cccccCCCccEEEeecCCCcchhhcc
Q 040303          514 DVHIEFPTLETLEVIRCPEFLLTAHD  539 (552)
Q Consensus       514 ~~~~~~~~L~~L~i~~C~~L~~l~~~  539 (552)
                      .  ..+++|+.|++++|+-...+|..
T Consensus       567 l--~~l~~L~~l~ls~N~l~~~~p~~  590 (968)
T PLN00113        567 L--GNVESLVQVNISHNHLHGSLPST  590 (968)
T ss_pred             H--hcCcccCEEeccCCcceeeCCCc
Confidence            2  26899999999999977777743

>PLN03210 Resistant to P

Probab=99.91  E-value=3.6e-23  Score=232.94  Aligned_cols=342  Identities=23%  Similarity=0.331  Sum_probs=216.8

Q ss_pred             CCCCceEEEeecCCCC-----CcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC-hhhhcCCC
Q 040303          107 ECPQLQLLSLWTEKSS-----LITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD-IAVIGELK  180 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~~~-----~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~-~~~i~~L~  180 (552)
                      .+++|+.|.++.+...     ...+|.++..-...||+|++.++.++.+|..+ ...+|++|++.++.+.. +..+..++
T Consensus       556 ~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l~~lP~~f-~~~~L~~L~L~~s~l~~L~~~~~~l~  634 (1153)
T PLN03210        556 GMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLRCMPSNF-RPENLVKLQMQGSKLEKLWDGVHSLT  634 (1153)
T ss_pred             cCccccEEEEecccccccccceeecCcchhhcCcccEEEEecCCCCCCCCCcC-CccCCcEEECcCccccccccccccCC
Confidence            6777777777543211     11345554222345777777777777777666 46777777777777666 56667777


Q ss_pred             CccEEEecCC-cCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhc
Q 040303          181 NLEILCLRGS-YIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELK  259 (552)
Q Consensus       181 ~L~~L~l~~~-~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~  259 (552)
                      +|++|+++++ .+..+| .++.+++|++|++.+|..+..+|.. ++++++|+.|++.++....          ..+..+ 
T Consensus       635 ~Lk~L~Ls~~~~l~~ip-~ls~l~~Le~L~L~~c~~L~~lp~s-i~~L~~L~~L~L~~c~~L~----------~Lp~~i-  701 (1153)
T PLN03210        635 GLRNIDLRGSKNLKEIP-DLSMATNLETLKLSDCSSLVELPSS-IQYLNKLEDLDMSRCENLE----------ILPTGI-  701 (1153)
T ss_pred             CCCEEECCCCCCcCcCC-ccccCCcccEEEecCCCCccccchh-hhccCCCCEEeCCCCCCcC----------ccCCcC-
Confidence            7777777766 455665 4666777777777777767777766 6777777777776443211          111111 


Q ss_pred             CCCCCcEEEccCCC-CCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeeec
Q 040303          260 RLPNLTTLELCIPD-VNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLS  338 (552)
Q Consensus       260 ~l~~L~~L~l~~~~-~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~  338 (552)
                      ++++|+.|++++|. +..+|..  ..+|+.|.+..+..                      ..+|...  .+++|++|.+.
T Consensus       702 ~l~sL~~L~Lsgc~~L~~~p~~--~~nL~~L~L~~n~i----------------------~~lP~~~--~l~~L~~L~l~  755 (1153)
T PLN03210        702 NLKSLYRLNLSGCSRLKSFPDI--STNISWLDLDETAI----------------------EEFPSNL--RLENLDELILC  755 (1153)
T ss_pred             CCCCCCEEeCCCCCCccccccc--cCCcCeeecCCCcc----------------------ccccccc--ccccccccccc
Confidence            56677777777664 3444432  24555555533221                      0111111  24566666666


Q ss_pred             CCCCCcceeeec---cccCcccccccEEEeecCC--CCCCcchhhhhhcccccccceeeeccCCCCCccccccccCCCcc
Q 040303          339 GLPDQDIIELVN---NKLGSYSSQLKHLWVEGCQ--APSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLE  413 (552)
Q Consensus       339 ~~~~~~~~~~~~---~~~~~~~~~L~~L~l~~c~--~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~  413 (552)
                      ++....+.....   ......+++|+.|++++|+  ..+|.                              ..+++++|+
T Consensus       756 ~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~------------------------------si~~L~~L~  805 (1153)
T PLN03210        756 EMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPS------------------------------SIQNLHKLE  805 (1153)
T ss_pred             ccchhhccccccccchhhhhccccchheeCCCCCCccccCh------------------------------hhhCCCCCC
Confidence            544311111000   0011234677888887775  22232                              336788999


Q ss_pred             cccccce-eeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccc
Q 040303          414 TLELYNV-NVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVV  492 (552)
Q Consensus       414 ~L~l~~~-~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~  492 (552)
                      .|+|.+| .+..++...      .+++|+.|++++|..+..+|.     ..++|++|++.++ .++.++  .    .+..
T Consensus       806 ~L~Ls~C~~L~~LP~~~------~L~sL~~L~Ls~c~~L~~~p~-----~~~nL~~L~Ls~n-~i~~iP--~----si~~  867 (1153)
T PLN03210        806 HLEIENCINLETLPTGI------NLESLESLDLSGCSRLRTFPD-----ISTNISDLNLSRT-GIEEVP--W----WIEK  867 (1153)
T ss_pred             EEECCCCCCcCeeCCCC------CccccCEEECCCCCccccccc-----cccccCEeECCCC-CCccCh--H----HHhc
Confidence            9999998 777765432      578999999999999888865     2478999998875 466653  2    3445


Q ss_pred             cCCccEEEeccccccccccCCcccccCCCccEEEeecCCCcchhhc
Q 040303          493 FPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCPEFLLTAH  538 (552)
Q Consensus       493 l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~  538 (552)
                      +++|+.|++.+|++++.++...  ..+++|+.+.+.+|++|+.++.
T Consensus       868 l~~L~~L~L~~C~~L~~l~~~~--~~L~~L~~L~l~~C~~L~~~~l  911 (1153)
T PLN03210        868 FSNLSFLDMNGCNNLQRVSLNI--SKLKHLETVDFSDCGALTEASW  911 (1153)
T ss_pred             CCCCCEEECCCCCCcCccCccc--ccccCCCeeecCCCcccccccC
Confidence            9999999999999999997753  3689999999999999987764

syringae 6; Provisional

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

Probab=99.89  E-value=1.6e-25  Score=217.48  Aligned_cols=318  Identities=20%  Similarity=0.271  Sum_probs=221.4

Q ss_pred             ccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEE
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTL  163 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L  163 (552)
                      ...++.||++.+|++.........++.||++++..|...-..+|.++| +++-|.+|||+.|.+.+.|..+..-+++-+|
T Consensus        53 ~lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~LKnsGiP~diF-~l~dLt~lDLShNqL~EvP~~LE~AKn~iVL  131 (1255)
T KOG0444|consen   53 RLQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNNLKNSGIPTDIF-RLKDLTILDLSHNQLREVPTNLEYAKNSIVL  131 (1255)
T ss_pred             HHhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhccccccCCCCchhc-ccccceeeecchhhhhhcchhhhhhcCcEEE
Confidence            467789999999998875556678999999999988776668999985 8999999999999999999999999999999


Q ss_pred             EccCCCCCC-h-hhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccc
Q 040303          164 CLYCSELQD-I-AVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKW  241 (552)
Q Consensus       164 ~l~~~~~~~-~-~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  241 (552)
                      +|++|+|.. | +-+.+|.-|-.||+++|++..+|+.+.+|.+|++|.+++|. +..+.-..+..|++|++|++++... 
T Consensus       132 NLS~N~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~Ls~NP-L~hfQLrQLPsmtsL~vLhms~TqR-  209 (1255)
T KOG0444|consen  132 NLSYNNIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSMLQTLKLSNNP-LNHFQLRQLPSMTSLSVLHMSNTQR-  209 (1255)
T ss_pred             EcccCccccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhhhhhhhcCCCh-hhHHHHhcCccchhhhhhhcccccc-
Confidence            999999988 6 56779999999999999999999999999999999999987 4444433366778888888874433 


Q ss_pred             hhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcc-cccCCceEEEEecccccCCCCCCcccceeeecCcccccc
Q 040303          242 EVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL-FFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCIS  320 (552)
Q Consensus       242 ~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~  320 (552)
                              +....+..+..+.||+.++++.|.+..+|.-+ .+.+|++|+++++..            ..+.+.      
T Consensus       210 --------Tl~N~Ptsld~l~NL~dvDlS~N~Lp~vPecly~l~~LrrLNLS~N~i------------teL~~~------  263 (1255)
T KOG0444|consen  210 --------TLDNIPTSLDDLHNLRDVDLSENNLPIVPECLYKLRNLRRLNLSGNKI------------TELNMT------  263 (1255)
T ss_pred             --------hhhcCCCchhhhhhhhhccccccCCCcchHHHhhhhhhheeccCcCce------------eeeecc------
Confidence                    23346778889999999999999998888875 777777777654431            111111      


Q ss_pred             cchhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC---CCCCcchhhhhhcccccccceeeeccCC
Q 040303          321 FKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ---APSPKESKRCKESTSEMRSNEIILEDHV  397 (552)
Q Consensus       321 ~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~---~~lp~~~~~~~~Li~~c~l~~l~~~~~~  397 (552)
                           .....+|++|.++...-+.+++..     -.+++|++|...++.   ..+|+.+                     
T Consensus       264 -----~~~W~~lEtLNlSrNQLt~LP~av-----cKL~kL~kLy~n~NkL~FeGiPSGI---------------------  312 (1255)
T KOG0444|consen  264 -----EGEWENLETLNLSRNQLTVLPDAV-----CKLTKLTKLYANNNKLTFEGIPSGI---------------------  312 (1255)
T ss_pred             -----HHHHhhhhhhccccchhccchHHH-----hhhHHHHHHHhccCcccccCCccch---------------------
Confidence                 012245555555554432222222     234555655555554   2333333                     


Q ss_pred             CCCccccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCch
Q 040303          398 NVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPIL  477 (552)
Q Consensus       398 ~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l  477 (552)
                               |.+-+|+.+...++.++-++.+..     .++.|+.|.+. |+.|-.+|.  .++-++-|+.|++...++|
T Consensus       313 ---------GKL~~Levf~aanN~LElVPEglc-----RC~kL~kL~L~-~NrLiTLPe--aIHlL~~l~vLDlreNpnL  375 (1255)
T KOG0444|consen  313 ---------GKLIQLEVFHAANNKLELVPEGLC-----RCVKLQKLKLD-HNRLITLPE--AIHLLPDLKVLDLRENPNL  375 (1255)
T ss_pred             ---------hhhhhhHHHHhhccccccCchhhh-----hhHHHHHhccc-ccceeechh--hhhhcCCcceeeccCCcCc
Confidence                     445555555555555544443332     44555555553 355555554  3555555666666555555


Q ss_pred             h
Q 040303          478 E  478 (552)
Q Consensus       478 ~  478 (552)
                      .
T Consensus       376 V  376 (1255)
T KOG0444|consen  376 V  376 (1255)
T ss_pred             c
Confidence            3

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

Probab=99.87  E-value=1.4e-24  Score=210.91  Aligned_cols=177  Identities=22%  Similarity=0.310  Sum_probs=131.6

Q ss_pred             ccCcccEEEeecCCCc-ccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCc
Q 040303           84 ALKFYTSIVLHDSKMN-VLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR  161 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~-~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~  161 (552)
                      .++-+|-+++++|.++ +.+|... .+..++.|.+......  .+|+++ +.+.+|..|.+..|++..+...++.|+.||
T Consensus         5 VLpFVrGvDfsgNDFsg~~FP~~v~qMt~~~WLkLnrt~L~--~vPeEL-~~lqkLEHLs~~HN~L~~vhGELs~Lp~LR   81 (1255)
T KOG0444|consen    5 VLPFVRGVDFSGNDFSGDRFPHDVEQMTQMTWLKLNRTKLE--QVPEEL-SRLQKLEHLSMAHNQLISVHGELSDLPRLR   81 (1255)
T ss_pred             ccceeecccccCCcCCCCcCchhHHHhhheeEEEechhhhh--hChHHH-HHHhhhhhhhhhhhhhHhhhhhhccchhhH
Confidence            4566788888888877 3456554 7888888888765544  678776 778888888888888777777778888888


Q ss_pred             EEEccCCCCCC---hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcccc
Q 040303          162 TLCLYCSELQD---IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSF  238 (552)
Q Consensus       162 ~L~l~~~~~~~---~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~  238 (552)
                      .+.++.|+++.   |..|-+|.-|.+||+++|++++.|.++..-+++-.|+++.|. ++.+|...+-+++.|-.|+++++
T Consensus        82 sv~~R~N~LKnsGiP~diF~l~dLt~lDLShNqL~EvP~~LE~AKn~iVLNLS~N~-IetIPn~lfinLtDLLfLDLS~N  160 (1255)
T KOG0444|consen   82 SVIVRDNNLKNSGIPTDIFRLKDLTILDLSHNQLREVPTNLEYAKNSIVLNLSYNN-IETIPNSLFINLTDLLFLDLSNN  160 (1255)
T ss_pred             HHhhhccccccCCCCchhcccccceeeecchhhhhhcchhhhhhcCcEEEEcccCc-cccCCchHHHhhHhHhhhccccc
Confidence            88888887654   777888888888888888888888888888888888888766 77777766667777777777644


Q ss_pred             ccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCC
Q 040303          239 NKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVN  275 (552)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  275 (552)
                      ..           +..+..+..+.+|++|.+++|.+.
T Consensus       161 rL-----------e~LPPQ~RRL~~LqtL~Ls~NPL~  186 (1255)
T KOG0444|consen  161 RL-----------EMLPPQIRRLSMLQTLKLSNNPLN  186 (1255)
T ss_pred             hh-----------hhcCHHHHHHhhhhhhhcCCChhh
Confidence            32           225566777777777777777643

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

Probab=99.84  E-value=2e-21  Score=187.90  Aligned_cols=148  Identities=22%  Similarity=0.263  Sum_probs=70.9

Q ss_pred             cCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccccc-chhcCCCCCcE
Q 040303           85 LKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLP-SSLGLLTNLRT  162 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp-~~i~~l~~L~~  162 (552)
                      +...+.|++++|.+...-...+ ++++|+.+.+.+|...  .+|... ....+|..|+|.+|.|.++. +.++-++.||.
T Consensus        77 p~~t~~LdlsnNkl~~id~~~f~nl~nLq~v~l~~N~Lt--~IP~f~-~~sghl~~L~L~~N~I~sv~se~L~~l~alrs  153 (873)
T KOG4194|consen   77 PSQTQTLDLSNNKLSHIDFEFFYNLPNLQEVNLNKNELT--RIPRFG-HESGHLEKLDLRHNLISSVTSEELSALPALRS  153 (873)
T ss_pred             ccceeeeeccccccccCcHHHHhcCCcceeeeeccchhh--hccccc-ccccceeEEeeeccccccccHHHHHhHhhhhh
Confidence            3445566776666655222222 6666666666655443  444422 22334555555555444332 23444455555


Q ss_pred             EEccCCCCCC-h-hhhcCCCCccEEEecCCcCcccch-hhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcc
Q 040303          163 LCLYCSELQD-I-AVIGELKNLEILCLRGSYIEQLPV-EIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       163 L~l~~~~~~~-~-~~i~~L~~L~~L~l~~~~l~~lp~-~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                      |||+.|.+.. + +++..=.++++|++++|.|+.+-. .+..+.+|-.|.++.|+ +..+|...+++|++|+.|++.
T Consensus       154 lDLSrN~is~i~~~sfp~~~ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsrNr-ittLp~r~Fk~L~~L~~LdLn  229 (873)
T KOG4194|consen  154 LDLSRNLISEIPKPSFPAKVNIKKLNLASNRITTLETGHFDSLNSLLTLKLSRNR-ITTLPQRSFKRLPKLESLDLN  229 (873)
T ss_pred             hhhhhchhhcccCCCCCCCCCceEEeeccccccccccccccccchheeeecccCc-ccccCHHHhhhcchhhhhhcc
Confidence            5555555444 2 334444445555555554444322 24444455555555444 444444434445555555443

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

Probab=99.83  E-value=1.5e-20  Score=181.80  Aligned_cols=361  Identities=19%  Similarity=0.191  Sum_probs=260.9

Q ss_pred             cCcccEEEeecCCCcccCC---CccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCc
Q 040303           85 LKFYTSIVLHDSKMNVLLP---EVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR  161 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~~~---~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~  161 (552)
                      .-..+-|+.+++.+...-.   ..+-.+..++|++++|...  ++....|.++++|+.+.+.+|.++.+|...+...||+
T Consensus        51 ~c~~~lldcs~~~lea~~~~~l~g~lp~~t~~LdlsnNkl~--~id~~~f~nl~nLq~v~l~~N~Lt~IP~f~~~sghl~  128 (873)
T KOG4194|consen   51 PCNTRLLDCSDRELEAIDKSRLKGFLPSQTQTLDLSNNKLS--HIDFEFFYNLPNLQEVNLNKNELTRIPRFGHESGHLE  128 (873)
T ss_pred             CCCceeeecCccccccccccccCCcCccceeeeeccccccc--cCcHHHHhcCCcceeeeeccchhhhccccccccccee
Confidence            3445677777777654111   1123457788999999876  6777778999999999999999999999988899999


Q ss_pred             EEEccCCCCCC--hhhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcccc
Q 040303          162 TLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSF  238 (552)
Q Consensus       162 ~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~  238 (552)
                      .|+|.+|.|..  -+.+.-++.|++||++.|.|+.+|.. +.+=.++++|++++|. ++.+..+.+..+.+|.+|.++.+
T Consensus       129 ~L~L~~N~I~sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L~La~N~-It~l~~~~F~~lnsL~tlkLsrN  207 (873)
T KOG4194|consen  129 KLDLRHNLISSVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKLNLASNR-ITTLETGHFDSLNSLLTLKLSRN  207 (873)
T ss_pred             EEeeeccccccccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEEeecccc-ccccccccccccchheeeecccC
Confidence            99999999887  57889999999999999999887753 5555789999999987 78877766888999999999866


Q ss_pred             ccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCc-c-cccCCceEEEEeccccc--CCCCCCcccceeeecC
Q 040303          239 NKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKG-L-FFEKLERYRICIGRWCW--EDTSPTCSRTFRLLLG  314 (552)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~-~-~l~~L~~L~l~~~~~~~--~~~~~~~~~~~~l~l~  314 (552)
                      ..-+          .....+++|++|+.|++..|.+....-. + ++++|+.|.+..++.+.  ...++...+.-.+.+.
T Consensus       208 ritt----------Lp~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~l~L~  277 (873)
T KOG4194|consen  208 RITT----------LPQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEHLNLE  277 (873)
T ss_pred             cccc----------cCHHHhhhcchhhhhhccccceeeehhhhhcCchhhhhhhhhhcCcccccCcceeeecccceeecc
Confidence            5422          2456688899999999998887655332 2 77778878776666322  1234455666666666


Q ss_pred             cccccccchhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC-CCCCcch----hhhhhc-cccccc
Q 040303          315 TDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ-APSPKES----KRCKES-TSEMRS  388 (552)
Q Consensus       315 ~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~-~~lp~~~----~~~~~L-i~~c~l  388 (552)
                      .++-.....++...++.|+.|+++.....++.. ..|   ...++|+.|+++++. ..++...    ..+..| +++.++
T Consensus       278 ~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~-d~W---sftqkL~~LdLs~N~i~~l~~~sf~~L~~Le~LnLs~Nsi  353 (873)
T KOG4194|consen  278 TNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHI-DSW---SFTQKLKELDLSSNRITRLDEGSFRVLSQLEELNLSHNSI  353 (873)
T ss_pred             cchhhhhhcccccccchhhhhccchhhhheeec-chh---hhcccceeEeccccccccCChhHHHHHHHhhhhcccccch
Confidence            665556667777789999999998766533321 111   247899999999988 4555432    222222 223223


Q ss_pred             ceeeeccCCCCCccccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccce
Q 040303          389 NEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQH  468 (552)
Q Consensus       389 ~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~  468 (552)
                      ..+-.          +....+.+|++|++.++.+.-..+....+.. ++++|+.|.+.+ ++++.+|.. -+..+++|++
T Consensus       354 ~~l~e----------~af~~lssL~~LdLr~N~ls~~IEDaa~~f~-gl~~LrkL~l~g-Nqlk~I~kr-Afsgl~~LE~  420 (873)
T KOG4194|consen  354 DHLAE----------GAFVGLSSLHKLDLRSNELSWCIEDAAVAFN-GLPSLRKLRLTG-NQLKSIPKR-AFSGLEALEH  420 (873)
T ss_pred             HHHHh----------hHHHHhhhhhhhcCcCCeEEEEEecchhhhc-cchhhhheeecC-ceeeecchh-hhccCcccce
Confidence            33321          1224678999999999976543333322223 699999999988 799999874 4778899999


Q ss_pred             EEEecCC
Q 040303          469 LEIDECP  475 (552)
Q Consensus       469 L~i~~c~  475 (552)
                      |++.+..
T Consensus       421 LdL~~Na  427 (873)
T KOG4194|consen  421 LDLGDNA  427 (873)
T ss_pred             ecCCCCc
Confidence            9999876

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

Probab=99.81  E-value=9e-23  Score=188.72  Aligned_cols=419  Identities=21%  Similarity=0.199  Sum_probs=239.0

Q ss_pred             ccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEE
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTL  163 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L  163 (552)
                      ....+.++.+++|......|+..++.++..|+++++...  .+|+.+ .++..|+.|+.+++.+..+|++++.+..|..+
T Consensus        66 nL~~l~vl~~~~n~l~~lp~aig~l~~l~~l~vs~n~ls--~lp~~i-~s~~~l~~l~~s~n~~~el~~~i~~~~~l~dl  142 (565)
T KOG0472|consen   66 NLACLTVLNVHDNKLSQLPAAIGELEALKSLNVSHNKLS--ELPEQI-GSLISLVKLDCSSNELKELPDSIGRLLDLEDL  142 (565)
T ss_pred             cccceeEEEeccchhhhCCHHHHHHHHHHHhhcccchHh--hccHHH-hhhhhhhhhhccccceeecCchHHHHhhhhhh
Confidence            344566777777777763334446777777777777655  677776 67777788888887777777778777777777


Q ss_pred             EccCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccch
Q 040303          164 CLYCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWE  242 (552)
Q Consensus       164 ~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  242 (552)
                      +..+|.+.. |+++.++.+|..|++.+++++.+|+..-+++.|++|+...|- ++.+|++ ++.+.+|+.|++..+....
T Consensus       143 ~~~~N~i~slp~~~~~~~~l~~l~~~~n~l~~l~~~~i~m~~L~~ld~~~N~-L~tlP~~-lg~l~~L~~LyL~~Nki~~  220 (565)
T KOG0472|consen  143 DATNNQISSLPEDMVNLSKLSKLDLEGNKLKALPENHIAMKRLKHLDCNSNL-LETLPPE-LGGLESLELLYLRRNKIRF  220 (565)
T ss_pred             hccccccccCchHHHHHHHHHHhhccccchhhCCHHHHHHHHHHhcccchhh-hhcCChh-hcchhhhHHHHhhhccccc
Confidence            777777766 777777777777777777777766665557777777666544 6666666 5666666666554221111


Q ss_pred             hh-----------hhhhcccccChhh-hcCCCCCcEEEccCCCCCcCCCcc-cccCCceEEEEecccccCCCCCCcccce
Q 040303          243 VE-----------VEAAGVKNASLEE-LKRLPNLTTLELCIPDVNTLPKGL-FFEKLERYRICIGRWCWEDTSPTCSRTF  309 (552)
Q Consensus       243 ~~-----------~~~~~~~~~~~~~-l~~l~~L~~L~l~~~~~~~~p~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~  309 (552)
                      ..           ....+.....+.+ ..+++.|..|++..|+++++|..+ .+++|.+|+++.+..+......++....
T Consensus       221 lPef~gcs~L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRdNklke~Pde~clLrsL~rLDlSNN~is~Lp~sLgnlhL~  300 (565)
T KOG0472|consen  221 LPEFPGCSLLKELHVGENQIEMLPAEHLKHLNSLLVLDLRDNKLKEVPDEICLLRSLERLDLSNNDISSLPYSLGNLHLK  300 (565)
T ss_pred             CCCCCccHHHHHHHhcccHHHhhHHHHhcccccceeeeccccccccCchHHHHhhhhhhhcccCCccccCCcccccceee
Confidence            00           0000011112222 346677777777777777777776 5666777777665533222222222222


Q ss_pred             eeecCccccccc-----chhHHHHhc------------------------------------hheeeeecCCCCCcceee
Q 040303          310 RLLLGTDNCISF-----KSGHIVQLQ------------------------------------RIEDLCLSGLPDQDIIEL  348 (552)
Q Consensus       310 ~l~l~~~~~~~~-----~~~~~~~l~------------------------------------~L~~L~l~~~~~~~~~~~  348 (552)
                      .+.+.++--...     ..+.-..++                                    +.+.|++++..   +..+
T Consensus       301 ~L~leGNPlrTiRr~ii~~gT~~vLKyLrs~~~~dglS~se~~~e~~~t~~~~~~~~~~~~i~tkiL~~s~~q---lt~V  377 (565)
T KOG0472|consen  301 FLALEGNPLRTIRREIISKGTQEVLKYLRSKIKDDGLSQSEGGTETAMTLPSESFPDIYAIITTKILDVSDKQ---LTLV  377 (565)
T ss_pred             ehhhcCCchHHHHHHHHcccHHHHHHHHHHhhccCCCCCCcccccccCCCCCCcccchhhhhhhhhhcccccc---cccC
Confidence            222222200000     011111122                                    22222222221   1122


Q ss_pred             eccccC-cccccccEEEeecCC-CCCCcchhhhhhcccccccceeeeccCCCCCccccccccCCCcccccccceeeeEec
Q 040303          349 VNNKLG-SYSSQLKHLWVEGCQ-APSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIW  426 (552)
Q Consensus       349 ~~~~~~-~~~~~L~~L~l~~c~-~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~  426 (552)
                      |..... +.-.-....+++.+. ..+|..+..++.++..     +.. ..+........+..+++|..|+++++-+.+++
T Consensus       378 PdEVfea~~~~~Vt~VnfskNqL~elPk~L~~lkelvT~-----l~l-snn~isfv~~~l~~l~kLt~L~L~NN~Ln~LP  451 (565)
T KOG0472|consen  378 PDEVFEAAKSEIVTSVNFSKNQLCELPKRLVELKELVTD-----LVL-SNNKISFVPLELSQLQKLTFLDLSNNLLNDLP  451 (565)
T ss_pred             CHHHHHHhhhcceEEEecccchHhhhhhhhHHHHHHHHH-----HHh-hcCccccchHHHHhhhcceeeecccchhhhcc
Confidence            111100 001113344444443 3344443333333111     100 00101112223567899999999999777777


Q ss_pred             cCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEEeccccc
Q 040303          427 KSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEK  506 (552)
Q Consensus       427 ~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~  506 (552)
                      .+..     .+-.|++|+|+. +.++.+|.  ++..+..|+.+-.++ .++..+.. +    ++..+.+|..|++.+. .
T Consensus       452 ~e~~-----~lv~Lq~LnlS~-NrFr~lP~--~~y~lq~lEtllas~-nqi~~vd~-~----~l~nm~nL~tLDL~nN-d  516 (565)
T KOG0472|consen  452 EEMG-----SLVRLQTLNLSF-NRFRMLPE--CLYELQTLETLLASN-NQIGSVDP-S----GLKNMRNLTTLDLQNN-D  516 (565)
T ss_pred             hhhh-----hhhhhheecccc-cccccchH--HHhhHHHHHHHHhcc-ccccccCh-H----HhhhhhhcceeccCCC-c
Confidence            6554     667799999988 48888876  455566666655554 45666532 2    3556899999999975 7


Q ss_pred             cccccCCcccccCCCccEEEeecCCCc
Q 040303          507 LTSFCTGDVHIEFPTLETLEVIRCPEF  533 (552)
Q Consensus       507 L~~~~~~~~~~~~~~L~~L~i~~C~~L  533 (552)
                      ++.+|...  .++.+|++|.+.|-|-=
T Consensus       517 lq~IPp~L--gnmtnL~hLeL~gNpfr  541 (565)
T KOG0472|consen  517 LQQIPPIL--GNMTNLRHLELDGNPFR  541 (565)
T ss_pred             hhhCChhh--ccccceeEEEecCCccC
Confidence            88887643  48999999999997653

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

Probab=99.78  E-value=5.4e-22  Score=183.60  Aligned_cols=193  Identities=23%  Similarity=0.305  Sum_probs=112.0

Q ss_pred             CcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEc
Q 040303           86 KFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCL  165 (552)
Q Consensus        86 ~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l  165 (552)
                      .+++.++++.+++....+++..+..+..|+..+|...  .+|.++ .++.+|..|++.++.++++|+..-.++.|+.||.
T Consensus       114 ~~l~~l~~s~n~~~el~~~i~~~~~l~dl~~~~N~i~--slp~~~-~~~~~l~~l~~~~n~l~~l~~~~i~m~~L~~ld~  190 (565)
T KOG0472|consen  114 ISLVKLDCSSNELKELPDSIGRLLDLEDLDATNNQIS--SLPEDM-VNLSKLSKLDLEGNKLKALPENHIAMKRLKHLDC  190 (565)
T ss_pred             hhhhhhhccccceeecCchHHHHhhhhhhhccccccc--cCchHH-HHHHHHHHhhccccchhhCCHHHHHHHHHHhccc
Confidence            3344455555554442223334444444444444433  455554 3455555555555555555554444555555555


Q ss_pred             cCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhh
Q 040303          166 YCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVE  244 (552)
Q Consensus       166 ~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  244 (552)
                      ..|.+.. |+.++.+.+|..|++..+++..+| +|..+..|..|+++.|. ++-+|.+..+++++|.+||+.++.     
T Consensus       191 ~~N~L~tlP~~lg~l~~L~~LyL~~Nki~~lP-ef~gcs~L~Elh~g~N~-i~~lpae~~~~L~~l~vLDLRdNk-----  263 (565)
T KOG0472|consen  191 NSNLLETLPPELGGLESLELLYLRRNKIRFLP-EFPGCSLLKELHVGENQ-IEMLPAEHLKHLNSLLVLDLRDNK-----  263 (565)
T ss_pred             chhhhhcCChhhcchhhhHHHHhhhcccccCC-CCCccHHHHHHHhcccH-HHhhHHHHhcccccceeeeccccc-----
Confidence            5555554 555555555555555555555555 55555555555555544 555666655567777777776433     


Q ss_pred             hhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcc-cccCCceEEEEecc
Q 040303          245 VEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL-FFEKLERYRICIGR  295 (552)
Q Consensus       245 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~-~l~~L~~L~l~~~~  295 (552)
                            ..+.+.++..+.+|.+|++++|++..+|..+ .+ .|+.|.+.+++
T Consensus       264 ------lke~Pde~clLrsL~rLDlSNN~is~Lp~sLgnl-hL~~L~leGNP  308 (565)
T KOG0472|consen  264 ------LKEVPDEICLLRSLERLDLSNNDISSLPYSLGNL-HLKFLALEGNP  308 (565)
T ss_pred             ------cccCchHHHHhhhhhhhcccCCccccCCcccccc-eeeehhhcCCc
Confidence                  2346777888888888999988888888776 44 77777666544

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

Probab=99.78  E-value=7e-21  Score=193.66  Aligned_cols=382  Identities=21%  Similarity=0.176  Sum_probs=199.8

Q ss_pred             ceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC-hhhhcCCCCccEEEecC
Q 040303          111 LQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD-IAVIGELKNLEILCLRG  189 (552)
Q Consensus       111 Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~-~~~i~~L~~L~~L~l~~  189 (552)
                      |++|++++|...  ..|..+ ..+.+|+.|.++.|.+.+.|.+++++.+|++|+|.++.+.. |.++..+++|++|++++
T Consensus        47 L~~l~lsnn~~~--~fp~~i-t~l~~L~~ln~s~n~i~~vp~s~~~~~~l~~lnL~~n~l~~lP~~~~~lknl~~LdlS~  123 (1081)
T KOG0618|consen   47 LKSLDLSNNQIS--SFPIQI-TLLSHLRQLNLSRNYIRSVPSSCSNMRNLQYLNLKNNRLQSLPASISELKNLQYLDLSF  123 (1081)
T ss_pred             eEEeeccccccc--cCCchh-hhHHHHhhcccchhhHhhCchhhhhhhcchhheeccchhhcCchhHHhhhcccccccch
Confidence            555555555433  444444 45555555555555555555555555556666555555544 55555555556666555


Q ss_pred             CcCcccchhhccCCCCCEEecc-------------------CCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcc
Q 040303          190 SYIEQLPVEIGQLTRLRSLDLR-------------------DCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGV  250 (552)
Q Consensus       190 ~~l~~lp~~i~~l~~L~~L~l~-------------------~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~  250 (552)
                      +.+..+|.-+..++.+..+.++                   .+.....++.+ +..+++  .|++..+..          
T Consensus       124 N~f~~~Pl~i~~lt~~~~~~~s~N~~~~~lg~~~ik~~~l~~n~l~~~~~~~-i~~l~~--~ldLr~N~~----------  190 (1081)
T KOG0618|consen  124 NHFGPIPLVIEVLTAEEELAASNNEKIQRLGQTSIKKLDLRLNVLGGSFLID-IYNLTH--QLDLRYNEM----------  190 (1081)
T ss_pred             hccCCCchhHHhhhHHHHHhhhcchhhhhhccccchhhhhhhhhcccchhcc-hhhhhe--eeecccchh----------
Confidence            5555555544444444444444                   33333344443 344443  355543322          


Q ss_pred             cccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcccccccchhHHHHhc
Q 040303          251 KNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQ  330 (552)
Q Consensus       251 ~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~  330 (552)
                         ....+..+.+|+.+....|.+..+.  +.-++|+.|..+.+........+-......+.+..+....+|.|+ ..+.
T Consensus       191 ---~~~dls~~~~l~~l~c~rn~ls~l~--~~g~~l~~L~a~~n~l~~~~~~p~p~nl~~~dis~n~l~~lp~wi-~~~~  264 (1081)
T KOG0618|consen  191 ---EVLDLSNLANLEVLHCERNQLSELE--ISGPSLTALYADHNPLTTLDVHPVPLNLQYLDISHNNLSNLPEWI-GACA  264 (1081)
T ss_pred             ---hhhhhhhccchhhhhhhhcccceEE--ecCcchheeeeccCcceeeccccccccceeeecchhhhhcchHHH-Hhcc
Confidence               1233444455555544444433221  122344444443333221111222233333444444444445333 2345


Q ss_pred             hheeeeecCCCCC--------------------cceeeeccccCcccccccEEEeecCC-CCCCcchhh-----hhhc--
Q 040303          331 RIEDLCLSGLPDQ--------------------DIIELVNNKLGSYSSQLKHLWVEGCQ-APSPKESKR-----CKES--  382 (552)
Q Consensus       331 ~L~~L~l~~~~~~--------------------~~~~~~~~~~~~~~~~L~~L~l~~c~-~~lp~~~~~-----~~~L--  382 (552)
                      +|+.+.+....-+                    +++.+++  ....+.+|++|++..+. ..+|..+..     +..+  
T Consensus       265 nle~l~~n~N~l~~lp~ri~~~~~L~~l~~~~nel~yip~--~le~~~sL~tLdL~~N~L~~lp~~~l~v~~~~l~~ln~  342 (1081)
T KOG0618|consen  265 NLEALNANHNRLVALPLRISRITSLVSLSAAYNELEYIPP--FLEGLKSLRTLDLQSNNLPSLPDNFLAVLNASLNTLNV  342 (1081)
T ss_pred             cceEecccchhHHhhHHHHhhhhhHHHHHhhhhhhhhCCC--cccccceeeeeeehhccccccchHHHhhhhHHHHHHhh
Confidence            5555544432221                    1222332  22457889999998877 555553311     1111  


Q ss_pred             -------------ccccccceeeeccCCCCCccccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCC
Q 040303          383 -------------TSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCG  449 (552)
Q Consensus       383 -------------i~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~  449 (552)
                                   -..|.+..+...+.......+..+.++++||.|+++++.+.+++.....    .++.|++|++++ +
T Consensus       343 s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~fpas~~~----kle~LeeL~LSG-N  417 (1081)
T KOG0618|consen  343 SSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNSFPASKLR----KLEELEELNLSG-N  417 (1081)
T ss_pred             hhccccccccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeecccccccCCHHHHh----chHHhHHHhccc-c
Confidence                         0011133333334444455566667788888888888877776665544    677888888887 6


Q ss_pred             CccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEEeccccccccccCCcccccCCCccEEEeec
Q 040303          450 ELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIR  529 (552)
Q Consensus       450 ~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~  529 (552)
                      +|+.+|.  .+..+..|+.|...+. +|..++       ....++.|+.++++ |.+|......... ..|.|++|+++|
T Consensus       418 kL~~Lp~--tva~~~~L~tL~ahsN-~l~~fP-------e~~~l~qL~~lDlS-~N~L~~~~l~~~~-p~p~LkyLdlSG  485 (1081)
T KOG0618|consen  418 KLTTLPD--TVANLGRLHTLRAHSN-QLLSFP-------ELAQLPQLKVLDLS-CNNLSEVTLPEAL-PSPNLKYLDLSG  485 (1081)
T ss_pred             hhhhhhH--HHHhhhhhHHHhhcCC-ceeech-------hhhhcCcceEEecc-cchhhhhhhhhhC-CCcccceeeccC
Confidence            7888875  4667777777766553 344442       23448889999988 4566665322111 237999999998


Q ss_pred             CCCc
Q 040303          530 CPEF  533 (552)
Q Consensus       530 C~~L  533 (552)
                      -+++
T Consensus       486 N~~l  489 (1081)
T KOG0618|consen  486 NTRL  489 (1081)
T ss_pred             Cccc
Confidence            8764

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

Probab=99.70  E-value=5.8e-19  Score=179.85  Aligned_cols=392  Identities=19%  Similarity=0.212  Sum_probs=219.1

Q ss_pred             EEeecCCCcccCCCc-cCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCC
Q 040303           91 IVLHDSKMNVLLPEV-LECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSE  169 (552)
Q Consensus        91 L~l~~~~~~~~~~~~-~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~  169 (552)
                      ++++...+.- +|.. .....+..|++..|-..  ..|-++..+.-+|+.||++++.+..+|..|..+.+|+.|+++.|.
T Consensus         3 vd~s~~~l~~-ip~~i~~~~~~~~ln~~~N~~l--~~pl~~~~~~v~L~~l~lsnn~~~~fp~~it~l~~L~~ln~s~n~   79 (1081)
T KOG0618|consen    3 VDASDEQLEL-IPEQILNNEALQILNLRRNSLL--SRPLEFVEKRVKLKSLDLSNNQISSFPIQITLLSHLRQLNLSRNY   79 (1081)
T ss_pred             cccccccCcc-cchhhccHHHHHhhhccccccc--cCchHHhhheeeeEEeeccccccccCCchhhhHHHHhhcccchhh
Confidence            3444444444 4432 23334777777766443  555565566667999999999999999999999999999999999


Q ss_pred             CCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhh
Q 040303          170 LQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAA  248 (552)
Q Consensus       170 ~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~  248 (552)
                      +.. |.++.++.+|++|.|.++.+..+|.++..+++|++|+++.|. ...+|.. +..++.++.+..+++..        
T Consensus        80 i~~vp~s~~~~~~l~~lnL~~n~l~~lP~~~~~lknl~~LdlS~N~-f~~~Pl~-i~~lt~~~~~~~s~N~~--------  149 (1081)
T KOG0618|consen   80 IRSVPSSCSNMRNLQYLNLKNNRLQSLPASISELKNLQYLDLSFNH-FGPIPLV-IEVLTAEEELAASNNEK--------  149 (1081)
T ss_pred             HhhCchhhhhhhcchhheeccchhhcCchhHHhhhcccccccchhc-cCCCchh-HHhhhHHHHHhhhcchh--------
Confidence            887 999999999999999999999999999999999999999987 7788876 67777777777664421        


Q ss_pred             cccccChhhhcCCCCCcEEEccCCC-CCcCCCcc-cccCCceEEEEecccccCCCCCCcccceeeecCcccccccchhHH
Q 040303          249 GVKNASLEELKRLPNLTTLELCIPD-VNTLPKGL-FFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHI  326 (552)
Q Consensus       249 ~~~~~~~~~l~~l~~L~~L~l~~~~-~~~~p~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~  326 (552)
                            ...++... ++++++..+. ...++.++ .++.  .+.+.++... ........+.-.+....+.-..    ..
T Consensus       150 ------~~~lg~~~-ik~~~l~~n~l~~~~~~~i~~l~~--~ldLr~N~~~-~~dls~~~~l~~l~c~rn~ls~----l~  215 (1081)
T KOG0618|consen  150 ------IQRLGQTS-IKKLDLRLNVLGGSFLIDIYNLTH--QLDLRYNEME-VLDLSNLANLEVLHCERNQLSE----LE  215 (1081)
T ss_pred             ------hhhhcccc-chhhhhhhhhcccchhcchhhhhe--eeecccchhh-hhhhhhccchhhhhhhhcccce----EE
Confidence                  11222222 3444444333 22222222 1222  2333322211 0000000000000000000000    00


Q ss_pred             HHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC-CCCCcchhhhhhcccccccceeeeccCCCCCccccc
Q 040303          327 VQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ-APSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFL  405 (552)
Q Consensus       327 ~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~-~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~  405 (552)
                      ..-++|+.|+...++-+  ...    ......+|++++|+.+. ..+|.|.+.|.++      +.+.. ..+....++..
T Consensus       216 ~~g~~l~~L~a~~n~l~--~~~----~~p~p~nl~~~dis~n~l~~lp~wi~~~~nl------e~l~~-n~N~l~~lp~r  282 (1081)
T KOG0618|consen  216 ISGPSLTALYADHNPLT--TLD----VHPVPLNLQYLDISHNNLSNLPEWIGACANL------EALNA-NHNRLVALPLR  282 (1081)
T ss_pred             ecCcchheeeeccCcce--eec----cccccccceeeecchhhhhcchHHHHhcccc------eEecc-cchhHHhhHHH
Confidence            01256777777777652  111    11245678888888877 5677777666665      11110 00111111122


Q ss_pred             cccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccch------------------------hHh
Q 040303          406 KGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSS------------------------IVN  461 (552)
Q Consensus       406 ~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~------------------------~~~  461 (552)
                      .....+|+.|.+..|+++.++....     .+.+|++|++.. +++.++|+..                        .-.
T Consensus       283 i~~~~~L~~l~~~~nel~yip~~le-----~~~sL~tLdL~~-N~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~  356 (1081)
T KOG0618|consen  283 ISRITSLVSLSAAYNELEYIPPFLE-----GLKSLRTLDLQS-NNLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEEN  356 (1081)
T ss_pred             HhhhhhHHHHHhhhhhhhhCCCccc-----ccceeeeeeehh-ccccccchHHHhhhhHHHHHHhhhhccccccccccch
Confidence            2234455555555555544433322     345555555544 3444444311                        112


Q ss_pred             hhcccceEEEecCCchhhhhccccccccccccCCccEEEeccccccccccCCcccccCCCccEEEeecCCCcchhh
Q 040303          462 SFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCPEFLLTA  537 (552)
Q Consensus       462 ~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~  537 (552)
                      ..+.|+.|++.+.. +++-     .-..+..++.||.|++.+. .|.++|...+. +++.|++|.++| .+|+.+|
T Consensus       357 ~~~~Lq~LylanN~-Ltd~-----c~p~l~~~~hLKVLhLsyN-rL~~fpas~~~-kle~LeeL~LSG-NkL~~Lp  423 (1081)
T KOG0618|consen  357 NHAALQELYLANNH-LTDS-----CFPVLVNFKHLKVLHLSYN-RLNSFPASKLR-KLEELEELNLSG-NKLTTLP  423 (1081)
T ss_pred             hhHHHHHHHHhcCc-cccc-----chhhhccccceeeeeeccc-ccccCCHHHHh-chHHhHHHhccc-chhhhhh
Confidence            23344444444322 1111     0013445677777777764 66777665443 677777777777 4666666

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

Probab=99.65  E-value=1.9e-18  Score=141.86  Aligned_cols=164  Identities=28%  Similarity=0.428  Sum_probs=143.8

Q ss_pred             CCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC-hhhhcCCC
Q 040303          102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD-IAVIGELK  180 (552)
Q Consensus       102 ~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~-~~~i~~L~  180 (552)
                      ++..+.+.++..|.+++|...  .+|+.+ ..+++|++|++.+|.++++|.+|+.+++||.|++.-|++.. |..|+.++
T Consensus        26 ~~gLf~~s~ITrLtLSHNKl~--~vppni-a~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~~lprgfgs~p  102 (264)
T KOG0617|consen   26 LPGLFNMSNITRLTLSHNKLT--VVPPNI-AELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLNILPRGFGSFP  102 (264)
T ss_pred             cccccchhhhhhhhcccCcee--ecCCcH-HHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhhcCccccCCCc
Confidence            677778888888999988776  688887 88999999999999999999999999999999999998776 99999999


Q ss_pred             CccEEEecCCcCc--ccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhh
Q 040303          181 NLEILCLRGSYIE--QLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEEL  258 (552)
Q Consensus       181 ~L~~L~l~~~~l~--~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l  258 (552)
                      .|++||+.++++.  .+|..+..++.||.|++++|. .+-+|++ ++++++||.|.+..+...           ..+.++
T Consensus       103 ~levldltynnl~e~~lpgnff~m~tlralyl~dnd-fe~lp~d-vg~lt~lqil~lrdndll-----------~lpkei  169 (264)
T KOG0617|consen  103 ALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGDND-FEILPPD-VGKLTNLQILSLRDNDLL-----------SLPKEI  169 (264)
T ss_pred             hhhhhhccccccccccCCcchhHHHHHHHHHhcCCC-cccCChh-hhhhcceeEEeeccCchh-----------hCcHHH
Confidence            9999999999776  789888899999999999977 7889998 799999999998744332           267889


Q ss_pred             cCCCCCcEEEccCCCCCcCCCcc
Q 040303          259 KRLPNLTTLELCIPDVNTLPKGL  281 (552)
Q Consensus       259 ~~l~~L~~L~l~~~~~~~~p~~~  281 (552)
                      +.+..|++|.|.+|.+..+|..+
T Consensus       170 g~lt~lrelhiqgnrl~vlppel  192 (264)
T KOG0617|consen  170 GDLTRLRELHIQGNRLTVLPPEL  192 (264)
T ss_pred             HHHHHHHHHhcccceeeecChhh
Confidence            99999999999999998888765

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.57  E-value=4.5e-14  Score=148.64  Aligned_cols=113  Identities=24%  Similarity=0.371  Sum_probs=55.3

Q ss_pred             EEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCC
Q 040303           90 SIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSE  169 (552)
Q Consensus        90 ~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~  169 (552)
                      .|+++.+.+.. +|... .++|+.|.+.+|...  .+|.    .+++|++|++++|.++.+|..   ..+|++|++++|.
T Consensus       205 ~LdLs~~~Lts-LP~~l-~~~L~~L~L~~N~Lt--~LP~----lp~~Lk~LdLs~N~LtsLP~l---p~sL~~L~Ls~N~  273 (788)
T PRK15387        205 VLNVGESGLTT-LPDCL-PAHITTLVIPDNNLT--SLPA----LPPELRTLEVSGNQLTSLPVL---PPGLLELSIFSNP  273 (788)
T ss_pred             EEEcCCCCCCc-CCcch-hcCCCEEEccCCcCC--CCCC----CCCCCcEEEecCCccCcccCc---ccccceeeccCCc
Confidence            45555555544 44322 134555555555433  3442    234555555555555555532   2455555555555


Q ss_pred             CCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccC
Q 040303          170 LQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIP  220 (552)
Q Consensus       170 ~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~  220 (552)
                      +.. |..   ..+|+.|++++|+++.+|..   +++|++|++++|. +..+|
T Consensus       274 L~~Lp~l---p~~L~~L~Ls~N~Lt~LP~~---p~~L~~LdLS~N~-L~~Lp  318 (788)
T PRK15387        274 LTHLPAL---PSGLCKLWIFGNQLTSLPVL---PPGLQELSVSDNQ-LASLP  318 (788)
T ss_pred             hhhhhhc---hhhcCEEECcCCcccccccc---ccccceeECCCCc-cccCC
Confidence            544 221   23455555555555555532   2455555555554 44444

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

Probab=99.53  E-value=1.3e-16  Score=131.23  Aligned_cols=155  Identities=28%  Similarity=0.447  Sum_probs=136.0

Q ss_pred             cCccccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCC
Q 040303           80 LDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTN  159 (552)
Q Consensus        80 ~~~~~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~  159 (552)
                      +..-...++.+|.+++|.+...-|....+.+|++|++++|...  ++|.++ ++++.||.|+++.|++..+|.++|.++-
T Consensus        27 ~gLf~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnqie--~lp~~i-ssl~klr~lnvgmnrl~~lprgfgs~p~  103 (264)
T KOG0617|consen   27 PGLFNMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQIE--ELPTSI-SSLPKLRILNVGMNRLNILPRGFGSFPA  103 (264)
T ss_pred             ccccchhhhhhhhcccCceeecCCcHHHhhhhhhhhcccchhh--hcChhh-hhchhhhheecchhhhhcCccccCCCch
Confidence            3334567889999999999884455569999999999998766  899998 8999999999999999999999999999


Q ss_pred             CcEEEccCCCCCC---hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcc
Q 040303          160 LRTLCLYCSELQD---IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       160 L~~L~l~~~~~~~---~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                      |++||+.+|.+.+   |..|--+.-|+.|.++.+.+..+|.+++++++||.|.+.+|. +-++|.+ ++.++.|++|++.
T Consensus       104 levldltynnl~e~~lpgnff~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdnd-ll~lpke-ig~lt~lrelhiq  181 (264)
T KOG0617|consen  104 LEVLDLTYNNLNENSLPGNFFYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDND-LLSLPKE-IGDLTRLRELHIQ  181 (264)
T ss_pred             hhhhhccccccccccCCcchhHHHHHHHHHhcCCCcccCChhhhhhcceeEEeeccCc-hhhCcHH-HHHHHHHHHHhcc
Confidence            9999999999765   777777788888999999999999999999999999999987 7789988 8999999999987


Q ss_pred             ccc
Q 040303          237 SFN  239 (552)
Q Consensus       237 ~~~  239 (552)
                      ++.
T Consensus       182 gnr  184 (264)
T KOG0617|consen  182 GNR  184 (264)
T ss_pred             cce
Confidence            554

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.51  E-value=7.5e-14  Score=147.86  Aligned_cols=114  Identities=26%  Similarity=0.317  Sum_probs=65.0

Q ss_pred             CceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC-hhhhcCCCCccEEEec
Q 040303          110 QLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD-IAVIGELKNLEILCLR  188 (552)
Q Consensus       110 ~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~-~~~i~~L~~L~~L~l~  188 (552)
                      +...|.+.++...  .+|..+   .++|+.|++++|.++.+|..+.  .+|++|++++|.++. |..+.  .+|+.|+++
T Consensus       179 ~~~~L~L~~~~Lt--sLP~~I---p~~L~~L~Ls~N~LtsLP~~l~--~nL~~L~Ls~N~LtsLP~~l~--~~L~~L~Ls  249 (754)
T PRK15370        179 NKTELRLKILGLT--TIPACI---PEQITTLILDNNELKSLPENLQ--GNIKTLYANSNQLTSIPATLP--DTIQEMELS  249 (754)
T ss_pred             CceEEEeCCCCcC--cCCccc---ccCCcEEEecCCCCCcCChhhc--cCCCEEECCCCccccCChhhh--ccccEEECc
Confidence            3455666554433  455443   2456666666666666665543  466666666666655 44332  356666666


Q ss_pred             CCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcccc
Q 040303          189 GSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSF  238 (552)
Q Consensus       189 ~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~  238 (552)
                      +|.+..+|..+.  .+|+.|++++|. +..+|.. +.  ++|+.|+++++
T Consensus       250 ~N~L~~LP~~l~--s~L~~L~Ls~N~-L~~LP~~-l~--~sL~~L~Ls~N  293 (754)
T PRK15370        250 INRITELPERLP--SALQSLDLFHNK-ISCLPEN-LP--EELRYLSVYDN  293 (754)
T ss_pred             CCccCcCChhHh--CCCCEEECcCCc-cCccccc-cC--CCCcEEECCCC
Confidence            666666665543  356666666554 5556554 22  46666666543

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.51  E-value=7.7e-14  Score=147.75  Aligned_cols=135  Identities=19%  Similarity=0.272  Sum_probs=90.4

Q ss_pred             CCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCC
Q 040303          135 TQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDC  213 (552)
Q Consensus       135 ~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~  213 (552)
                      .+...|+++++.++.+|..+.  .+|+.|++++|.++. |..+.  .+|++|++++|+++.+|..+.  .+|+.|++++|
T Consensus       178 ~~~~~L~L~~~~LtsLP~~Ip--~~L~~L~Ls~N~LtsLP~~l~--~nL~~L~Ls~N~LtsLP~~l~--~~L~~L~Ls~N  251 (754)
T PRK15370        178 NNKTELRLKILGLTTIPACIP--EQITTLILDNNELKSLPENLQ--GNIKTLYANSNQLTSIPATLP--DTIQEMELSIN  251 (754)
T ss_pred             cCceEEEeCCCCcCcCCcccc--cCCcEEEecCCCCCcCChhhc--cCCCEEECCCCccccCChhhh--ccccEEECcCC
Confidence            456788888888888887653  578888888888777 65554  478888888888888887654  46888888887


Q ss_pred             CCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEe
Q 040303          214 DRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICI  293 (552)
Q Consensus       214 ~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~  293 (552)
                      . +..+|.. +.  ++|+.|+++++...           ..+..+.  ++|+.|++++|.+..+|..+. ..|+.|.+..
T Consensus       252 ~-L~~LP~~-l~--s~L~~L~Ls~N~L~-----------~LP~~l~--~sL~~L~Ls~N~Lt~LP~~lp-~sL~~L~Ls~  313 (754)
T PRK15370        252 R-ITELPER-LP--SALQSLDLFHNKIS-----------CLPENLP--EELRYLSVYDNSIRTLPAHLP-SGITHLNVQS  313 (754)
T ss_pred             c-cCcCChh-Hh--CCCCEEECcCCccC-----------ccccccC--CCCcEEECCCCccccCcccch-hhHHHHHhcC
Confidence            6 6677765 33  47888888744321           1122222  478888888887777765431 3445554443

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.49  E-value=2.2e-14  Score=154.15  Aligned_cols=229  Identities=21%  Similarity=0.288  Sum_probs=141.8

Q ss_pred             ccCcccEEEeecCC--CcccCCC-cc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCC
Q 040303           84 ALKFYTSIVLHDSK--MNVLLPE-VL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTN  159 (552)
Q Consensus        84 ~~~~lr~L~l~~~~--~~~~~~~-~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~  159 (552)
                      ..+++++|-+..+.  +.. ++. ++ .++.||+|++++|.. +..+|.++ +++-+||||+++++.+..+|.++++|+.
T Consensus       543 ~~~~L~tLll~~n~~~l~~-is~~ff~~m~~LrVLDLs~~~~-l~~LP~~I-~~Li~LryL~L~~t~I~~LP~~l~~Lk~  619 (889)
T KOG4658|consen  543 ENPKLRTLLLQRNSDWLLE-ISGEFFRSLPLLRVLDLSGNSS-LSKLPSSI-GELVHLRYLDLSDTGISHLPSGLGNLKK  619 (889)
T ss_pred             CCCccceEEEeecchhhhh-cCHHHHhhCcceEEEECCCCCc-cCcCChHH-hhhhhhhcccccCCCccccchHHHHHHh
Confidence            34479999999886  444 443 34 899999999998654 34899998 9999999999999999999999999999


Q ss_pred             CcEEEccCCC-CCC-hhhhcCCCCccEEEecCCcCcc---cchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEE
Q 040303          160 LRTLCLYCSE-LQD-IAVIGELKNLEILCLRGSYIEQ---LPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELY  234 (552)
Q Consensus       160 L~~L~l~~~~-~~~-~~~i~~L~~L~~L~l~~~~l~~---lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~  234 (552)
                      |.|||+..+. +.. +..+..|.+|++|.+.+.....   .-..+.++.+|+.+...... . .+-.. +..+..|.++.
T Consensus       620 L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~~~~~~~~l~el~~Le~L~~ls~~~~s-~-~~~e~-l~~~~~L~~~~  696 (889)
T KOG4658|consen  620 LIYLNLEVTGRLESIPGILLELQSLRVLRLPRSALSNDKLLLKELENLEHLENLSITISS-V-LLLED-LLGMTRLRSLL  696 (889)
T ss_pred             hheeccccccccccccchhhhcccccEEEeeccccccchhhHHhhhcccchhhheeecch-h-HhHhh-hhhhHHHHHHh
Confidence            9999999988 444 4555669999999998765321   12234444445544443222 1 11111 23333333332


Q ss_pred             ccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecC
Q 040303          235 IRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLG  314 (552)
Q Consensus       235 l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~  314 (552)
                      ..-+..       ..........+..+.+|+.|.|..+.+.++....    .                            
T Consensus       697 ~~l~~~-------~~~~~~~~~~~~~l~~L~~L~i~~~~~~e~~~~~----~----------------------------  737 (889)
T KOG4658|consen  697 QSLSIE-------GCSKRTLISSLGSLGNLEELSILDCGISEIVIEW----E----------------------------  737 (889)
T ss_pred             Hhhhhc-------ccccceeecccccccCcceEEEEcCCCchhhccc----c----------------------------
Confidence            210000       0011224445566666666666655543222100    0                            


Q ss_pred             cccccccchhHHH-HhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC
Q 040303          315 TDNCISFKSGHIV-QLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ  369 (552)
Q Consensus       315 ~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~  369 (552)
                             ...... .++++..+.+..|...+...|.     ...|+|+.|.+..|.
T Consensus       738 -------~~~~~~~~f~~l~~~~~~~~~~~r~l~~~-----~f~~~L~~l~l~~~~  781 (889)
T KOG4658|consen  738 -------ESLIVLLCFPNLSKVSILNCHMLRDLTWL-----LFAPHLTSLSLVSCR  781 (889)
T ss_pred             -------cccchhhhHHHHHHHHhhccccccccchh-----hccCcccEEEEeccc
Confidence                   000000 2567777777777763333332     246899999999987

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.46  E-value=1.9e-12  Score=136.47  Aligned_cols=132  Identities=23%  Similarity=0.311  Sum_probs=102.4

Q ss_pred             ccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEE
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTL  163 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L  163 (552)
                      ...+++.|++.+|.+.. +|..  .++|++|++++|...  .+|.    ..++|+.|++++|.+..+|...   ..|+.|
T Consensus       220 l~~~L~~L~L~~N~Lt~-LP~l--p~~Lk~LdLs~N~Lt--sLP~----lp~sL~~L~Ls~N~L~~Lp~lp---~~L~~L  287 (788)
T PRK15387        220 LPAHITTLVIPDNNLTS-LPAL--PPELRTLEVSGNQLT--SLPV----LPPGLLELSIFSNPLTHLPALP---SGLCKL  287 (788)
T ss_pred             hhcCCCEEEccCCcCCC-CCCC--CCCCcEEEecCCccC--cccC----cccccceeeccCCchhhhhhch---hhcCEE
Confidence            45689999999999887 7753  589999999998765  6664    2468999999999998887643   678899


Q ss_pred             EccCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcccc
Q 040303          164 CLYCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSF  238 (552)
Q Consensus       164 ~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~  238 (552)
                      ++++|.++. |..   +++|++|++++|+++.+|...   .+|+.|++.+|. +..+|.  +.  .+|+.|+++++
T Consensus       288 ~Ls~N~Lt~LP~~---p~~L~~LdLS~N~L~~Lp~lp---~~L~~L~Ls~N~-L~~LP~--lp--~~Lq~LdLS~N  352 (788)
T PRK15387        288 WIFGNQLTSLPVL---PPGLQELSVSDNQLASLPALP---SELCKLWAYNNQ-LTSLPT--LP--SGLQELSVSDN  352 (788)
T ss_pred             ECcCCcccccccc---ccccceeECCCCccccCCCCc---ccccccccccCc-cccccc--cc--cccceEecCCC
Confidence            999999887 542   478999999999999888633   457788888876 666764  21  46777777644

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

Probab=99.22  E-value=1.9e-12  Score=120.74  Aligned_cols=255  Identities=18%  Similarity=0.172  Sum_probs=131.5

Q ss_pred             cCcccEEEeecCCCcccCC-Ccc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeec-cccccccch-hcCCCCC
Q 040303           85 LKFYTSIVLHDSKMNVLLP-EVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTY-MHLSLLPSS-LGLLTNL  160 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~~~-~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~-~~~~~lp~~-i~~l~~L  160 (552)
                      +.....+.+..|.+.. +| ..+ .+++||.|++++|.++  .|.++.|..++.|-.|-+.+ |+|+++|+. +++|..|
T Consensus        66 P~~tveirLdqN~I~~-iP~~aF~~l~~LRrLdLS~N~Is--~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~sl  142 (498)
T KOG4237|consen   66 PPETVEIRLDQNQISS-IPPGAFKTLHRLRRLDLSKNNIS--FIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSL  142 (498)
T ss_pred             CCcceEEEeccCCccc-CChhhccchhhhceecccccchh--hcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHH
Confidence            4444555555555555 33 222 5555666665555544  44444555555554444433 455555543 4555555


Q ss_pred             cEEEccCCCCCC--hhhhcCCCCccEEEecCCcCcccch-hhccCCCCCEEeccCCCCCCc------------cCccccc
Q 040303          161 RTLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQLPV-EIGQLTRLRSLDLRDCDRLQV------------IPPNVLS  225 (552)
Q Consensus       161 ~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~-~i~~l~~L~~L~l~~~~~~~~------------~~~~~l~  225 (552)
                      +-|.+.-+.+.-  ...+..|++|..|.+..+.+..++. .+..+..++++++..+..+..            .|.. .+
T Consensus       143 qrLllNan~i~Cir~~al~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~ie-ts  221 (498)
T KOG4237|consen  143 QRLLLNANHINCIRQDALRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPIE-TS  221 (498)
T ss_pred             HHHhcChhhhcchhHHHHHHhhhcchhcccchhhhhhccccccchhccchHhhhcCccccccccchhhhHHhhchhh-cc
Confidence            555555555443  3455555555555555555555554 344555555555444321110            0000 11


Q ss_pred             CCCCCcEEEccccc-----------cchhh-----hhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcc--cccCCc
Q 040303          226 NLSHLEELYIRSFN-----------KWEVE-----VEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL--FFEKLE  287 (552)
Q Consensus       226 ~l~~L~~L~l~~~~-----------~~~~~-----~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~--~l~~L~  287 (552)
                      ......-..+....           .++..     .............++.+++|++|++++|++..+....  +...++
T Consensus       222 garc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~i~~~aFe~~a~l~  301 (498)
T KOG4237|consen  222 GARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITRIEDGAFEGAAELQ  301 (498)
T ss_pred             cceecchHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccchhhhhhhcchhhhh
Confidence            11111000000000           00000     0000011122344889999999999999988887653  677777


Q ss_pred             eEEEEecccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeec
Q 040303          288 RYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEG  367 (552)
Q Consensus       288 ~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~  367 (552)
                      +|.+..+.                      -.....+++..+..|+.|++++..-   +.+. +..+...-.|.+|++-.
T Consensus       302 eL~L~~N~----------------------l~~v~~~~f~~ls~L~tL~L~~N~i---t~~~-~~aF~~~~~l~~l~l~~  355 (498)
T KOG4237|consen  302 ELYLTRNK----------------------LEFVSSGMFQGLSGLKTLSLYDNQI---TTVA-PGAFQTLFSLSTLNLLS  355 (498)
T ss_pred             hhhcCcch----------------------HHHHHHHhhhccccceeeeecCCee---EEEe-cccccccceeeeeehcc
Confidence            77764432                      1222455666778899999888664   3332 23445667888998887


Q ss_pred             CC
Q 040303          368 CQ  369 (552)
Q Consensus       368 c~  369 (552)
                      ++
T Consensus       356 Np  357 (498)
T KOG4237|consen  356 NP  357 (498)
T ss_pred             Cc
Confidence            76

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

Probab=99.14  E-value=5.2e-12  Score=123.94  Aligned_cols=11  Identities=27%  Similarity=0.335  Sum_probs=5.8

Q ss_pred             cCcceEEEEec
Q 040303          437 IQTLTRLIVYG  447 (552)
Q Consensus       437 l~~L~~L~i~~  447 (552)
                      +++|+++++.+
T Consensus       277 ~~~L~~l~l~~  287 (319)
T cd00116         277 KESLLELDLRG  287 (319)
T ss_pred             CCCccEEECCC
Confidence            34555555555

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).

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

Probab=99.13  E-value=2.2e-11  Score=113.76  Aligned_cols=107  Identities=22%  Similarity=0.332  Sum_probs=88.4

Q ss_pred             cccCcccEEEeecCCCcccCCCcc-CCCCceEEEeec-CCCCCcccChhHhhCCCCccEEEeeccccccc-cchhcCCCC
Q 040303           83 GALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWT-EKSSLITLPDNFFRKLTQVRVLDLTYMHLSLL-PSSLGLLTN  159 (552)
Q Consensus        83 ~~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~-~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~l-p~~i~~l~~  159 (552)
                      ...+++|+|++++|.++..-|..+ .++.+.+|.+.+ |.+.  ++|.+.|.++..|+-|.+.-+.+..+ ...+..+++
T Consensus        88 ~~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   88 KTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKIT--DLPKGAFGGLSSLQRLLLNANHINCIRQDALRDLPS  165 (498)
T ss_pred             cchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchh--hhhhhHhhhHHHHHHHhcChhhhcchhHHHHHHhhh
Confidence            457889999999999998666666 888888888887 5444  89999999999999999999988754 456889999


Q ss_pred             CcEEEccCCCCCC-h-hhhcCCCCccEEEecCCc
Q 040303          160 LRTLCLYCSELQD-I-AVIGELKNLEILCLRGSY  191 (552)
Q Consensus       160 L~~L~l~~~~~~~-~-~~i~~L~~L~~L~l~~~~  191 (552)
                      |+.|.+..|.++. + ..+..+.+++++.+..+.
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            9999999998877 4 377888888888766553

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

Probab=99.09  E-value=3.4e-11  Score=118.11  Aligned_cols=84  Identities=26%  Similarity=0.258  Sum_probs=45.9

Q ss_pred             hhCCCCccEEEeeccccc-----cccchhcCCCCCcEEEccCCCCCC--------hhhhcCCCCccEEEecCCcCc-ccc
Q 040303          131 FRKLTQVRVLDLTYMHLS-----LLPSSLGLLTNLRTLCLYCSELQD--------IAVIGELKNLEILCLRGSYIE-QLP  196 (552)
Q Consensus       131 ~~~l~~Lr~L~l~~~~~~-----~lp~~i~~l~~L~~L~l~~~~~~~--------~~~i~~L~~L~~L~l~~~~l~-~lp  196 (552)
                      +..+..|++|+++++.++     .++..+...+.|++++++++.+..        +..+.++.+|+.|++++|.+. ..+
T Consensus        19 ~~~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~   98 (319)
T cd00116          19 LPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGC   98 (319)
T ss_pred             HHHHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHH
Confidence            355555666666666652     344555566666666666655441        234555666666666666544 233


Q ss_pred             hhhccCCC---CCEEeccCCC
Q 040303          197 VEIGQLTR---LRSLDLRDCD  214 (552)
Q Consensus       197 ~~i~~l~~---L~~L~l~~~~  214 (552)
                      ..+..+.+   |++|++++|.
T Consensus        99 ~~~~~l~~~~~L~~L~ls~~~  119 (319)
T cd00116          99 GVLESLLRSSSLQELKLNNNG  119 (319)
T ss_pred             HHHHHHhccCcccEEEeeCCc
Confidence            33333333   6666666554

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).

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

Probab=99.03  E-value=2.5e-10  Score=98.72  Aligned_cols=129  Identities=25%  Similarity=0.305  Sum_probs=38.5

Q ss_pred             CCCCccEEEeeccccccccchhc-CCCCCcEEEccCCCCCChhhhcCCCCccEEEecCCcCcccchhhc-cCCCCCEEec
Q 040303          133 KLTQVRVLDLTYMHLSLLPSSLG-LLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIG-QLTRLRSLDL  210 (552)
Q Consensus       133 ~l~~Lr~L~l~~~~~~~lp~~i~-~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~-~l~~L~~L~l  210 (552)
                      +...+|.|+|+++.++.+. .++ .+.+|+.|++++|.++..+.+..+++|++|++++|.++.++.++. .+++|++|++
T Consensus        17 n~~~~~~L~L~~n~I~~Ie-~L~~~l~~L~~L~Ls~N~I~~l~~l~~L~~L~~L~L~~N~I~~i~~~l~~~lp~L~~L~L   95 (175)
T PF14580_consen   17 NPVKLRELNLRGNQISTIE-NLGATLDKLEVLDLSNNQITKLEGLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELYL   95 (175)
T ss_dssp             --------------------S--TT-TT--EEE-TTS--S--TT----TT--EEE--SS---S-CHHHHHH-TT--EEE-
T ss_pred             ccccccccccccccccccc-chhhhhcCCCEEECCCCCCccccCccChhhhhhcccCCCCCCccccchHHhCCcCCEEEC
Confidence            4445666677666666552 344 466677777777766666666666777777777776666654443 4667777777


Q ss_pred             cCCCCCCccCc-ccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEcc
Q 040303          211 RDCDRLQVIPP-NVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELC  270 (552)
Q Consensus       211 ~~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  270 (552)
                      ++|. +..+.. ..+..+++|+.|++.++....       ........+..+|+|+.||-.
T Consensus        96 ~~N~-I~~l~~l~~L~~l~~L~~L~L~~NPv~~-------~~~YR~~vi~~lP~Lk~LD~~  148 (175)
T PF14580_consen   96 SNNK-ISDLNELEPLSSLPKLRVLSLEGNPVCE-------KKNYRLFVIYKLPSLKVLDGQ  148 (175)
T ss_dssp             TTS----SCCCCGGGGG-TT--EEE-TT-GGGG-------STTHHHHHHHH-TT-SEETTE
T ss_pred             cCCc-CCChHHhHHHHcCCCcceeeccCCcccc-------hhhHHHHHHHHcChhheeCCE
Confidence            6655 332221 114556666666665443311       111123345556666666543

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

Probab=99.02  E-value=1.4e-11  Score=120.13  Aligned_cols=178  Identities=26%  Similarity=0.336  Sum_probs=137.6

Q ss_pred             cccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEc
Q 040303           87 FYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCL  165 (552)
Q Consensus        87 ~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l  165 (552)
                      .....+++.|++.. +|.-+ .+..|..+.++.|.+.  .+|..+ .++..|.+|+++.|.+..+|..++.|+ |+.|-+
T Consensus        76 dt~~aDlsrNR~~e-lp~~~~~f~~Le~liLy~n~~r--~ip~~i-~~L~~lt~l~ls~NqlS~lp~~lC~lp-Lkvli~  150 (722)
T KOG0532|consen   76 DTVFADLSRNRFSE-LPEEACAFVSLESLILYHNCIR--TIPEAI-CNLEALTFLDLSSNQLSHLPDGLCDLP-LKVLIV  150 (722)
T ss_pred             chhhhhcccccccc-CchHHHHHHHHHHHHHHhccce--ecchhh-hhhhHHHHhhhccchhhcCChhhhcCc-ceeEEE
Confidence            34456777777776 66444 6677888888877665  677776 788888888888888888888887664 888888


Q ss_pred             cCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhh
Q 040303          166 YCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVE  244 (552)
Q Consensus       166 ~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  244 (552)
                      ++|+++. |..|+.+..|..||.+.|.+..+|..++.+.+|+.|++..|. +..+|.+ +..| .|..||++++..    
T Consensus       151 sNNkl~~lp~~ig~~~tl~~ld~s~nei~slpsql~~l~slr~l~vrRn~-l~~lp~E-l~~L-pLi~lDfScNki----  223 (722)
T KOG0532|consen  151 SNNKLTSLPEEIGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVRRNH-LEDLPEE-LCSL-PLIRLDFSCNKI----  223 (722)
T ss_pred             ecCccccCCcccccchhHHHhhhhhhhhhhchHHhhhHHHHHHHHHhhhh-hhhCCHH-HhCC-ceeeeecccCce----
Confidence            8888877 888888888888888888888888888888888888888876 7778877 5654 477888875443    


Q ss_pred             hhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccc
Q 040303          245 VEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFF  283 (552)
Q Consensus       245 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l  283 (552)
                             ...+..+.+|..|++|-+.+|.+..-|..++.
T Consensus       224 -------s~iPv~fr~m~~Lq~l~LenNPLqSPPAqIC~  255 (722)
T KOG0532|consen  224 -------SYLPVDFRKMRHLQVLQLENNPLQSPPAQICE  255 (722)
T ss_pred             -------eecchhhhhhhhheeeeeccCCCCCChHHHHh
Confidence                   22667788888888888888888887777633

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

Probab=99.01  E-value=4.8e-10  Score=97.00  Aligned_cols=119  Identities=23%  Similarity=0.340  Sum_probs=31.5

Q ss_pred             cccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchh-cCCCCCcEEE
Q 040303           87 FYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSL-GLLTNLRTLC  164 (552)
Q Consensus        87 ~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i-~~l~~L~~L~  164 (552)
                      ++|.|++.++.+.. +.... .+.+|++|++++|...  .++.  +..+++|++|++++|.++++++.+ ..+++|++|+
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~~L~   94 (175)
T PF14580_consen   20 KLRELNLRGNQIST-IENLGATLDKLEVLDLSNNQIT--KLEG--LPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELY   94 (175)
T ss_dssp             -----------------S--TT-TT--EEE-TTS--S----TT------TT--EEE--SS---S-CHHHHHH-TT--EEE
T ss_pred             cccccccccccccc-ccchhhhhcCCCEEECCCCCCc--cccC--ccChhhhhhcccCCCCCCccccchHHhCCcCCEEE
Confidence            45566666666554 43333 3455555555555443  2322  244555555555555555554333 2355555555


Q ss_pred             ccCCCCCC---hhhhcCCCCccEEEecCCcCcccch----hhccCCCCCEEec
Q 040303          165 LYCSELQD---IAVIGELKNLEILCLRGSYIEQLPV----EIGQLTRLRSLDL  210 (552)
Q Consensus       165 l~~~~~~~---~~~i~~L~~L~~L~l~~~~l~~lp~----~i~~l~~L~~L~l  210 (552)
                      +++|.+.+   ...+..+++|++|++.+|.++.-+.    -+..+++|+.||-
T Consensus        95 L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~  147 (175)
T PF14580_consen   95 LSNNKISDLNELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDG  147 (175)
T ss_dssp             -TTS---SCCCCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEETT
T ss_pred             CcCCcCCChHHhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeCC
Confidence            55555443   3444455555555555554443322    1344444444443

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

Probab=99.00  E-value=1.4e-11  Score=120.27  Aligned_cols=145  Identities=27%  Similarity=0.410  Sum_probs=95.6

Q ss_pred             cccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEc
Q 040303           87 FYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCL  165 (552)
Q Consensus        87 ~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l  165 (552)
                      .+..+.++.|.+.. +|... .+..|..|+++.|...  .+|..+ +. --|++|.+++|+++.+|..|+.+.+|..|+.
T Consensus        99 ~Le~liLy~n~~r~-ip~~i~~L~~lt~l~ls~NqlS--~lp~~l-C~-lpLkvli~sNNkl~~lp~~ig~~~tl~~ld~  173 (722)
T KOG0532|consen   99 SLESLILYHNCIRT-IPEAICNLEALTFLDLSSNQLS--HLPDGL-CD-LPLKVLIVSNNKLTSLPEEIGLLPTLAHLDV  173 (722)
T ss_pred             HHHHHHHHhcccee-cchhhhhhhHHHHhhhccchhh--cCChhh-hc-CcceeEEEecCccccCCcccccchhHHHhhh
Confidence            34555566666555 44333 6666777777766554  566655 23 3367777777777777777777777777777


Q ss_pred             cCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccc
Q 040303          166 YCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFN  239 (552)
Q Consensus       166 ~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  239 (552)
                      +.|.+.. |+.++.+.+|+.|.++.+.+..+|..++ .-.|..||++.|+ +..+|.. +.+|+.||+|-+.++.
T Consensus       174 s~nei~slpsql~~l~slr~l~vrRn~l~~lp~El~-~LpLi~lDfScNk-is~iPv~-fr~m~~Lq~l~LenNP  245 (722)
T KOG0532|consen  174 SKNEIQSLPSQLGYLTSLRDLNVRRNHLEDLPEELC-SLPLIRLDFSCNK-ISYLPVD-FRKMRHLQVLQLENNP  245 (722)
T ss_pred             hhhhhhhchHHhhhHHHHHHHHHhhhhhhhCCHHHh-CCceeeeecccCc-eeecchh-hhhhhhheeeeeccCC
Confidence            7777666 6777777777777777777777777766 3456777776654 6677776 6777777777776444

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

Probab=98.94  E-value=1.6e-10  Score=104.22  Aligned_cols=184  Identities=20%  Similarity=0.242  Sum_probs=138.5

Q ss_pred             ccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCc--ccChhH-------------------hhCCCCccEEE
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLI--TLPDNF-------------------FRKLTQVRVLD  141 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~--~~~~~~-------------------~~~l~~Lr~L~  141 (552)
                      ..+++..+.++.+.-.. +.... .-|-|.++.+.+......  -+|...                   ....+.|..||
T Consensus       212 ~f~~l~~~~~s~~~~~~-i~~~~~~kptl~t~~v~~s~~~~~~~l~pe~~~~D~~~~E~~t~~G~~~~~~dTWq~LtelD  290 (490)
T KOG1259|consen  212 AFRNLKTLKFSALSTEN-IVDIELLKPTLQTICVHNTTIQDVPSLLPETILADPSGSEPSTSNGSALVSADTWQELTELD  290 (490)
T ss_pred             Hhhhhheeeeeccchhh-eeceeecCchhheeeeecccccccccccchhhhcCccCCCCCccCCceEEecchHhhhhhcc
Confidence            46677777777765444 33333 446677777665432110  111110                   12246789999


Q ss_pred             eeccccccccchhcCCCCCcEEEccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCc
Q 040303          142 LTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP  221 (552)
Q Consensus       142 l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~  221 (552)
                      +++|.++.+-+++.-++.+|+|++++|++.....+..|++|+.||+++|.+.++-.+-.++-+.+.|.+.+|. ++.+..
T Consensus       291 LS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~La~N~-iE~LSG  369 (490)
T KOG1259|consen  291 LSGNLITQIDESVKLAPKLRRLILSQNRIRTVQNLAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLKLAQNK-IETLSG  369 (490)
T ss_pred             ccccchhhhhhhhhhccceeEEeccccceeeehhhhhcccceEeecccchhHhhhhhHhhhcCEeeeehhhhh-Hhhhhh
Confidence            9999999998999999999999999999988777999999999999999888886666788899999999976 777765


Q ss_pred             ccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCc
Q 040303          222 NVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKG  280 (552)
Q Consensus       222 ~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~  280 (552)
                        ++++-+|..|++.++..-.         ......+++++.|+.+.+.+|.+..++..
T Consensus       370 --L~KLYSLvnLDl~~N~Ie~---------ldeV~~IG~LPCLE~l~L~~NPl~~~vdY  417 (490)
T KOG1259|consen  370 --LRKLYSLVNLDLSSNQIEE---------LDEVNHIGNLPCLETLRLTGNPLAGSVDY  417 (490)
T ss_pred             --hHhhhhheeccccccchhh---------HHHhcccccccHHHHHhhcCCCccccchH
Confidence              7999999999998555422         12456789999999999999998877754

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

Probab=98.80  E-value=5.4e-09  Score=105.66  Aligned_cols=188  Identities=28%  Similarity=0.368  Sum_probs=136.7

Q ss_pred             EEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCC-CccEEEeeccccccccchhcCCCCCcEEEccCCC
Q 040303           91 IVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLT-QVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSE  169 (552)
Q Consensus        91 L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~-~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~  169 (552)
                      +....+.+..........+.+..|.+.++...  +++... ..+. +|+.|+++++.+..+|..++.+++|+.|+++.|.
T Consensus        98 l~~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~--~i~~~~-~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N~  174 (394)
T COG4886          98 LDLNLNRLRSNISELLELTNLTSLDLDNNNIT--DIPPLI-GLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFND  174 (394)
T ss_pred             eeccccccccCchhhhcccceeEEecCCcccc--cCcccc-ccchhhcccccccccchhhhhhhhhccccccccccCCch
Confidence            45555554222333445677888888877655  666654 4553 8888888888888888888888889999888888


Q ss_pred             CCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhh
Q 040303          170 LQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAA  248 (552)
Q Consensus       170 ~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~  248 (552)
                      +.+ +...+.+.+|+.|+++++++..+|..+..+..|+.|.+..+. ....+.. ++++.++..+.+.++..        
T Consensus       175 l~~l~~~~~~~~~L~~L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~-~~~~~~~-~~~~~~l~~l~l~~n~~--------  244 (394)
T COG4886         175 LSDLPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALEELDLSNNS-IIELLSS-LSNLKNLSGLELSNNKL--------  244 (394)
T ss_pred             hhhhhhhhhhhhhhhheeccCCccccCchhhhhhhhhhhhhhcCCc-ceecchh-hhhcccccccccCCcee--------
Confidence            887 666668888888888888888888877777778888888875 3344443 67777777777553332        


Q ss_pred             cccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEec
Q 040303          249 GVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIG  294 (552)
Q Consensus       249 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~  294 (552)
                         ......++.+++++.|++++|.+..++....+.+++.|.+.+.
T Consensus       245 ---~~~~~~~~~l~~l~~L~~s~n~i~~i~~~~~~~~l~~L~~s~n  287 (394)
T COG4886         245 ---EDLPESIGNLSNLETLDLSNNQISSISSLGSLTNLRELDLSGN  287 (394)
T ss_pred             ---eeccchhccccccceeccccccccccccccccCccCEEeccCc
Confidence               1124667888889999999999888887447778888877554

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

Probab=98.77  E-value=9e-10  Score=99.43  Aligned_cols=125  Identities=24%  Similarity=0.259  Sum_probs=70.6

Q ss_pred             CCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCChhh-hcCCCCccEEE
Q 040303          108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAV-IGELKNLEILC  186 (552)
Q Consensus       108 ~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~~-i~~L~~L~~L~  186 (552)
                      .+.|.++++++|.+.  .+.+++ .-.+.+|+|++++|.+..+- .+..|.+|+.||+++|.+..... =.+|-|.++|.
T Consensus       283 Wq~LtelDLS~N~I~--~iDESv-KL~Pkir~L~lS~N~i~~v~-nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~  358 (490)
T KOG1259|consen  283 WQELTELDLSGNLIT--QIDESV-KLAPKLRRLILSQNRIRTVQ-NLAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLK  358 (490)
T ss_pred             Hhhhhhccccccchh--hhhhhh-hhccceeEEeccccceeeeh-hhhhcccceEeecccchhHhhhhhHhhhcCEeeee
Confidence            345666666665443  445544 44556666666666655442 25566666666666666555322 23556666666


Q ss_pred             ecCCcCcccchhhccCCCCCEEeccCCCCCCccCc-ccccCCCCCcEEEcccc
Q 040303          187 LRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP-NVLSNLSHLEELYIRSF  238 (552)
Q Consensus       187 l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~-~~l~~l~~L~~L~l~~~  238 (552)
                      +++|.+..+ ++++++.+|..|++++|+ ++.+.. ..||+++.|+++.+.++
T Consensus       359 La~N~iE~L-SGL~KLYSLvnLDl~~N~-Ie~ldeV~~IG~LPCLE~l~L~~N  409 (490)
T KOG1259|consen  359 LAQNKIETL-SGLRKLYSLVNLDLSSNQ-IEELDEVNHIGNLPCLETLRLTGN  409 (490)
T ss_pred             hhhhhHhhh-hhhHhhhhheeccccccc-hhhHHHhcccccccHHHHHhhcCC
Confidence            666666655 466666666666666654 333211 11566666666666543

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

Probab=98.75  E-value=3e-09  Score=101.10  Aligned_cols=206  Identities=21%  Similarity=0.199  Sum_probs=139.9

Q ss_pred             ccCcccEEEeecCCCcccCC--Cc-cCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccch--hcCCC
Q 040303           84 ALKFYTSIVLHDSKMNVLLP--EV-LECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS--LGLLT  158 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~--~~-~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~--i~~l~  158 (552)
                      ..+++|.+++.++.+.. .+  .. ..++++|.|++++|-+.-...-..+...+++|+.|+++.|.+....++  -..+.
T Consensus       119 n~kkL~~IsLdn~~V~~-~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~  197 (505)
T KOG3207|consen  119 NLKKLREISLDNYRVED-AGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLS  197 (505)
T ss_pred             hHHhhhheeecCccccc-cchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhh
Confidence            46788888998887765 33  12 279999999999875543233345567899999999999977543222  23678


Q ss_pred             CCcEEEccCCCCCC---hhhhcCCCCccEEEecCC-cCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEE
Q 040303          159 NLRTLCLYCSELQD---IAVIGELKNLEILCLRGS-YIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELY  234 (552)
Q Consensus       159 ~L~~L~l~~~~~~~---~~~i~~L~~L~~L~l~~~-~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~  234 (552)
                      ||+.|.++.|++..   ..-.-.+++|+.|++.+| .+..-.....-+..|+.|++++|..+..-....++.++.|..|+
T Consensus       198 ~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Ln  277 (505)
T KOG3207|consen  198 HLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQLN  277 (505)
T ss_pred             hhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHhhccccCCcccccccccccccccchhhhh
Confidence            99999999999875   345567899999999998 33322223344678999999998755433222268889999888


Q ss_pred             ccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcc---cccCCceEEEEec
Q 040303          235 IRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL---FFEKLERYRICIG  294 (552)
Q Consensus       235 l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~---~l~~L~~L~l~~~  294 (552)
                      +..+..-...    ............+++|+.|++..|.+...++--   .+++|+.|.+..+
T Consensus       278 ls~tgi~si~----~~d~~s~~kt~~f~kL~~L~i~~N~I~~w~sl~~l~~l~nlk~l~~~~n  336 (505)
T KOG3207|consen  278 LSSTGIASIA----EPDVESLDKTHTFPKLEYLNISENNIRDWRSLNHLRTLENLKHLRITLN  336 (505)
T ss_pred             ccccCcchhc----CCCccchhhhcccccceeeecccCccccccccchhhccchhhhhhcccc
Confidence            8744331111    122223444677889999999999887666542   5667777765443

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

Probab=98.70  E-value=1.6e-08  Score=102.13  Aligned_cols=177  Identities=31%  Similarity=0.399  Sum_probs=145.3

Q ss_pred             cCcccEEEeecCCCcccCCCcc-CCC-CceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcE
Q 040303           85 LKFYTSIVLHDSKMNVLLPEVL-ECP-QLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRT  162 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~~~~~~-~~~-~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~  162 (552)
                      ...+..+++.++.+.. ++... ... +|+.|++.++...  .+|..+ ..++.|+.|++++|.+.++|...+.+..|+.
T Consensus       115 ~~~l~~L~l~~n~i~~-i~~~~~~~~~nL~~L~l~~N~i~--~l~~~~-~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~  190 (394)
T COG4886         115 LTNLTSLDLDNNNITD-IPPLIGLLKSNLKELDLSDNKIE--SLPSPL-RNLPNLKNLDLSFNDLSDLPKLLSNLSNLNN  190 (394)
T ss_pred             ccceeEEecCCccccc-Cccccccchhhcccccccccchh--hhhhhh-hccccccccccCCchhhhhhhhhhhhhhhhh
Confidence            3568899999999988 66655 453 9999999998765  665454 8999999999999999999998889999999


Q ss_pred             EEccCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccc
Q 040303          163 LCLYCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKW  241 (552)
Q Consensus       163 L~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  241 (552)
                      |+++++.+.. |..+..+.+|++|.++++.+...+..+.++.++..|.+.++. +..++.. ++.+.+++.|+++++...
T Consensus       191 L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~n~-~~~~~~~-~~~l~~l~~L~~s~n~i~  268 (394)
T COG4886         191 LDLSGNKISDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNK-LEDLPES-IGNLSNLETLDLSNNQIS  268 (394)
T ss_pred             eeccCCccccCchhhhhhhhhhhhhhcCCcceecchhhhhcccccccccCCce-eeeccch-hccccccceecccccccc
Confidence            9999999998 777778888999999999777888889999999999987766 4444444 789999999999855441


Q ss_pred             hhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCC
Q 040303          242 EVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPK  279 (552)
Q Consensus       242 ~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~  279 (552)
                                  ....++.+.+++.|+++++.....+.
T Consensus       269 ------------~i~~~~~~~~l~~L~~s~n~~~~~~~  294 (394)
T COG4886         269 ------------SISSLGSLTNLRELDLSGNSLSNALP  294 (394)
T ss_pred             ------------ccccccccCccCEEeccCccccccch
Confidence                        23338899999999999988655443

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

Probab=98.69  E-value=3.3e-10  Score=106.85  Aligned_cols=164  Identities=23%  Similarity=0.323  Sum_probs=103.7

Q ss_pred             HhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCCCCCCcchhhhhhcccccccceeeeccCCCCCccccccc
Q 040303          328 QLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKG  407 (552)
Q Consensus       328 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~~  407 (552)
                      .+..|+.|...++..  +.+.+-+......++|+.|.+..|..        ..    +              ..+..-..
T Consensus       292 ~c~~lq~l~~s~~t~--~~d~~l~aLg~~~~~L~~l~l~~c~~--------fs----d--------------~~ft~l~r  343 (483)
T KOG4341|consen  292 GCHALQVLCYSSCTD--ITDEVLWALGQHCHNLQVLELSGCQQ--------FS----D--------------RGFTMLGR  343 (483)
T ss_pred             hhhHhhhhcccCCCC--CchHHHHHHhcCCCceEEEeccccch--------hh----h--------------hhhhhhhc
Confidence            456788888888777  55555555556778999999988871        00    0              00111113


Q ss_pred             cCCCcccccccce-eeeEeccCCCCccccccCcceEEEEecCCCcccccc---chhHhhhcccceEEEecCCchhhhhcc
Q 040303          408 GLPNLETLELYNV-NVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFS---SSIVNSFIRLQHLEIDECPILEEIIVI  483 (552)
Q Consensus       408 ~~~~L~~L~l~~~-~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~---~~~~~~l~~L~~L~i~~c~~l~~~~~~  483 (552)
                      +.+.|+.|++..+ .+..-   .+.....+.|.|+.|.+++|...++...   ...-.++..|+.+++++||.+++-.. 
T Consensus       344 n~~~Le~l~~e~~~~~~d~---tL~sls~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~L-  419 (483)
T KOG4341|consen  344 NCPHLERLDLEECGLITDG---TLASLSRNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDATL-  419 (483)
T ss_pred             CChhhhhhcccccceehhh---hHhhhccCCchhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHHHH-
Confidence            5677888888877 33221   1111122778888888888876665410   11234567788899999988766421 


Q ss_pred             ccccccccccCCccEEEeccccccccccCCcccccCCCccEEEe
Q 040303          484 DQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEV  527 (552)
Q Consensus       484 ~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i  527 (552)
                          ..+...++||.+++.+|..+..-+...+..++|+++....
T Consensus       420 ----e~l~~c~~Leri~l~~~q~vtk~~i~~~~~~lp~i~v~a~  459 (483)
T KOG4341|consen  420 ----EHLSICRNLERIELIDCQDVTKEAISRFATHLPNIKVHAY  459 (483)
T ss_pred             ----HHHhhCcccceeeeechhhhhhhhhHHHHhhCccceehhh
Confidence                1344578899999999988888777666656666655443

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

Probab=98.65  E-value=7e-09  Score=98.63  Aligned_cols=157  Identities=20%  Similarity=0.186  Sum_probs=85.5

Q ss_pred             CCCCceEEEeecCCCCCcccCh-hHhhCCCCccEEEeeccccc---cccchhcCCCCCcEEEccCCCCCCh---hhhcCC
Q 040303          107 ECPQLQLLSLWTEKSSLITLPD-NFFRKLTQVRVLDLTYMHLS---LLPSSLGLLTNLRTLCLYCSELQDI---AVIGEL  179 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~~~~~~~~~-~~~~~l~~Lr~L~l~~~~~~---~lp~~i~~l~~L~~L~l~~~~~~~~---~~i~~L  179 (552)
                      ++++||...+.++...  ..+. +....++++|.|||++|=+.   .+-.-...|++|+.|+++.|.+..|   ..-.-+
T Consensus       119 n~kkL~~IsLdn~~V~--~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l  196 (505)
T KOG3207|consen  119 NLKKLREISLDNYRVE--DAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLL  196 (505)
T ss_pred             hHHhhhheeecCcccc--ccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhh
Confidence            5667777777665443  2221 23356777777777777332   3334456677777777777776542   122356


Q ss_pred             CCccEEEecCCcCc--ccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhh
Q 040303          180 KNLEILCLRGSYIE--QLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEE  257 (552)
Q Consensus       180 ~~L~~L~l~~~~l~--~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~  257 (552)
                      .+|+.|.+++|.++  .+-.-+..+++|..|++..|..+...... ..-+..|++|+++++....         ......
T Consensus       197 ~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~-~~i~~~L~~LdLs~N~li~---------~~~~~~  266 (505)
T KOG3207|consen  197 SHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATS-TKILQTLQELDLSNNNLID---------FDQGYK  266 (505)
T ss_pred             hhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecch-hhhhhHHhhccccCCcccc---------cccccc
Confidence            67777777777665  22222344667777777766322211111 2345566666666443311         112334


Q ss_pred             hcCCCCCcEEEccCCCCC
Q 040303          258 LKRLPNLTTLELCIPDVN  275 (552)
Q Consensus       258 l~~l~~L~~L~l~~~~~~  275 (552)
                      .+.++.|+.|+++.+.+.
T Consensus       267 ~~~l~~L~~Lnls~tgi~  284 (505)
T KOG3207|consen  267 VGTLPGLNQLNLSSTGIA  284 (505)
T ss_pred             cccccchhhhhccccCcc
Confidence            555666666666655543

>PLN03150 hypothetical protein; Provisional

Probab=98.55  E-value=2.7e-07  Score=97.94  Aligned_cols=102  Identities=25%  Similarity=0.384  Sum_probs=83.5

Q ss_pred             CccEEEeeccccc-cccchhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEecCCcCc-ccchhhccCCCCCEEecc
Q 040303          136 QVRVLDLTYMHLS-LLPSSLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCLRGSYIE-QLPVEIGQLTRLRSLDLR  211 (552)
Q Consensus       136 ~Lr~L~l~~~~~~-~lp~~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~-~lp~~i~~l~~L~~L~l~  211 (552)
                      .++.|+|+++.+. .+|..++++++|++|++++|.+..  |..++++.+|++|++++|.+. .+|..++++++|++|+++
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls  498 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLN  498 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECc
Confidence            4778899988876 688889999999999999998865  778999999999999999887 788889999999999999


Q ss_pred             CCCCCCccCcccccC-CCCCcEEEcccc
Q 040303          212 DCDRLQVIPPNVLSN-LSHLEELYIRSF  238 (552)
Q Consensus       212 ~~~~~~~~~~~~l~~-l~~L~~L~l~~~  238 (552)
                      +|...+.+|.. ++. ..++..+++.++
T Consensus       499 ~N~l~g~iP~~-l~~~~~~~~~l~~~~N  525 (623)
T PLN03150        499 GNSLSGRVPAA-LGGRLLHRASFNFTDN  525 (623)
T ss_pred             CCcccccCChH-HhhccccCceEEecCC
Confidence            98866778876 454 356677777644

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

Probab=98.49  E-value=5.3e-09  Score=98.90  Aligned_cols=143  Identities=18%  Similarity=0.212  Sum_probs=95.1

Q ss_pred             HHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCCCCCCcchhhhhhcccccccceeeeccCCCCCcccccc
Q 040303          327 VQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLK  406 (552)
Q Consensus       327 ~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~  406 (552)
                      ....+|+.|.+..|..  +.+.-.......++.|+.+++..|.-..                          ...+....
T Consensus       317 ~~~~~L~~l~l~~c~~--fsd~~ft~l~rn~~~Le~l~~e~~~~~~--------------------------d~tL~sls  368 (483)
T KOG4341|consen  317 QHCHNLQVLELSGCQQ--FSDRGFTMLGRNCPHLERLDLEECGLIT--------------------------DGTLASLS  368 (483)
T ss_pred             cCCCceEEEeccccch--hhhhhhhhhhcCChhhhhhcccccceeh--------------------------hhhHhhhc
Confidence            3457899999999887  6555444455678999999998886000                          00111223


Q ss_pred             ccCCCcccccccce-eeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhcccc
Q 040303          407 GGLPNLETLELYNV-NVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQ  485 (552)
Q Consensus       407 ~~~~~L~~L~l~~~-~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~  485 (552)
                      .+.|.|+.|.++.| .+++............+..|+.+.+.+|+.+++-.. ..+..+++|+.+++.+|..+++-.    
T Consensus       369 ~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~L-e~l~~c~~Leri~l~~~q~vtk~~----  443 (483)
T KOG4341|consen  369 RNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDATL-EHLSICRNLERIELIDCQDVTKEA----  443 (483)
T ss_pred             cCCchhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHHHH-HHHhhCcccceeeeechhhhhhhh----
Confidence            57899999999988 444421111111112678899999999999887533 347788999999999999886642    


Q ss_pred             ccccccccCCccEEEec
Q 040303          486 QERKNVVFPQLQFLKMV  502 (552)
Q Consensus       486 ~~~~~~~l~~L~~L~l~  502 (552)
                      +.....++|+++.....
T Consensus       444 i~~~~~~lp~i~v~a~~  460 (483)
T KOG4341|consen  444 ISRFATHLPNIKVHAYF  460 (483)
T ss_pred             hHHHHhhCccceehhhc
Confidence            22345567877766544

>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=98.46  E-value=1.7e-07  Score=66.39  Aligned_cols=54  Identities=33%  Similarity=0.408  Sum_probs=23.1

Q ss_pred             ccEEEeeccccccccc-hhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEecCC
Q 040303          137 VRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCLRGS  190 (552)
Q Consensus       137 Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~  190 (552)
                      |++|++++|.+..+|. .+.++++|++|++++|.++.  +..+.++++|++|++++|
T Consensus         3 L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen    3 LESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             ESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSS
T ss_pred             CcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCC
Confidence            4444444444444432 23344444444444444433  233444444444444444

...

>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=98.44  E-value=1.8e-07  Score=66.34  Aligned_cols=60  Identities=33%  Similarity=0.516  Sum_probs=51.1

Q ss_pred             CCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEEccCCCC
Q 040303          109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSEL  170 (552)
Q Consensus       109 ~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~~~~~  170 (552)
                      ++|++|++.+|...  .+|.+.|.++++|++|++++|.+..+|. .+.++++|++|++++|.+
T Consensus         1 p~L~~L~l~~n~l~--~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    1 PNLESLDLSNNKLT--EIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTES--EECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCC--ccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            57888888888655  7888888999999999999999988765 679999999999998864

...

>PLN03150 hypothetical protein; Provisional

Probab=98.43  E-value=5.4e-07  Score=95.64  Aligned_cols=104  Identities=22%  Similarity=0.256  Sum_probs=85.2

Q ss_pred             CCcEEEccCCCCCC--hhhhcCCCCccEEEecCCcCc-ccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEc
Q 040303          159 NLRTLCLYCSELQD--IAVIGELKNLEILCLRGSYIE-QLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYI  235 (552)
Q Consensus       159 ~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~-~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l  235 (552)
                      .++.|+|+++.+..  |..++++.+|++|++++|.+. .+|..++.+++|+.|++++|...+.+|.. ++++++|+.|++
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~-l~~L~~L~~L~L  497 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPES-LGQLTSLRILNL  497 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchH-HhcCCCCCEEEC
Confidence            47899999999875  789999999999999999887 89999999999999999999866678876 899999999999


Q ss_pred             cccccchhhhhhhcccccChhhhcCC-CCCcEEEccCCC
Q 040303          236 RSFNKWEVEVEAAGVKNASLEELKRL-PNLTTLELCIPD  273 (552)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~l~~l-~~L~~L~l~~~~  273 (552)
                      +++..          ....+..++.+ .++..+++.+|.
T Consensus       498 s~N~l----------~g~iP~~l~~~~~~~~~l~~~~N~  526 (623)
T PLN03150        498 NGNSL----------SGRVPAALGGRLLHRASFNFTDNA  526 (623)
T ss_pred             cCCcc----------cccCChHHhhccccCceEEecCCc
Confidence            85543          22244555543 466788888776

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

Probab=98.32  E-value=5e-09  Score=105.52  Aligned_cols=127  Identities=24%  Similarity=0.273  Sum_probs=99.7

Q ss_pred             CccEEEeeccccccccchhcCCCCCcEEEccCCCCCChhhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEeccCCC
Q 040303          136 QVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCD  214 (552)
Q Consensus       136 ~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~  214 (552)
                      .|.+-+.++|.+..+-.++.-+++|+.|||+.|.+.+...+..+++|++|||++|.++.+|.- ...+. |+.|.+++|.
T Consensus       165 ~L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk~~~v~~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~-L~~L~lrnN~  243 (1096)
T KOG1859|consen  165 KLATASFSYNRLVLMDESLQLLPALESLNLSHNKFTKVDNLRRLPKLKHLDLSYNCLRHVPQLSMVGCK-LQLLNLRNNA  243 (1096)
T ss_pred             hHhhhhcchhhHHhHHHHHHHHHHhhhhccchhhhhhhHHHHhcccccccccccchhccccccchhhhh-heeeeecccH
Confidence            466677778888777788888999999999999998877899999999999999988888752 33344 9999999877


Q ss_pred             CCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCC
Q 040303          215 RLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVN  275 (552)
Q Consensus       215 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  275 (552)
                       ++.+-.  +.+|++|+.||++.+...         ....+..++.|..|+.|.+.+|.+-
T Consensus       244 -l~tL~g--ie~LksL~~LDlsyNll~---------~hseL~pLwsLs~L~~L~LeGNPl~  292 (1096)
T KOG1859|consen  244 -LTTLRG--IENLKSLYGLDLSYNLLS---------EHSELEPLWSLSSLIVLWLEGNPLC  292 (1096)
T ss_pred             -HHhhhh--HHhhhhhhccchhHhhhh---------cchhhhHHHHHHHHHHHhhcCCccc
Confidence             666665  789999999999844331         2235667778888899999888653

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

Probab=98.23  E-value=3.2e-07  Score=96.97  Aligned_cols=129  Identities=20%  Similarity=0.178  Sum_probs=87.2

Q ss_pred             ccCcccEEEeecCCCc-ccCCCc--cCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCC
Q 040303           84 ALKFYTSIVLHDSKMN-VLLPEV--LECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNL  160 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~-~~~~~~--~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L  160 (552)
                      ...++++|++.+...- ..++..  ..+|.||+|.+.+-.+...+ -..++.++++|+.||+++++++.+ .++++|++|
T Consensus       120 sr~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~d-F~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknL  197 (699)
T KOG3665|consen  120 SRQNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDD-FSQLCASFPNLRSLDISGTNISNL-SGISRLKNL  197 (699)
T ss_pred             HHHhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchh-HHHHhhccCccceeecCCCCccCc-HHHhccccH
Confidence            3556888888775432 223322  26888888888875443212 123457788899999998888877 778888888


Q ss_pred             cEEEccCCCCCC---hhhhcCCCCccEEEecCCcCcccchh-------hccCCCCCEEeccCCC
Q 040303          161 RTLCLYCSELQD---IAVIGELKNLEILCLRGSYIEQLPVE-------IGQLTRLRSLDLRDCD  214 (552)
Q Consensus       161 ~~L~l~~~~~~~---~~~i~~L~~L~~L~l~~~~l~~lp~~-------i~~l~~L~~L~l~~~~  214 (552)
                      +.|.+++-.+..   ...+-+|++|++||++..+...-+.-       -..|++||.||.+++.
T Consensus       198 q~L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTd  261 (699)
T KOG3665|consen  198 QVLSMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTD  261 (699)
T ss_pred             HHHhccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcc
Confidence            888888777654   56788888888888888743322211       1237788888777654

>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=98.17  E-value=2.8e-06  Score=55.04  Aligned_cols=37  Identities=35%  Similarity=0.470  Sum_probs=19.1

Q ss_pred             CccEEEeeccccccccchhcCCCCCcEEEccCCCCCC
Q 040303          136 QVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD  172 (552)
Q Consensus       136 ~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~  172 (552)
                      +|++|++++|.++++|..+++|++|++|++++|.+++
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            4555555555555555555555555555555555443

...

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

Probab=98.16  E-value=5.3e-08  Score=90.22  Aligned_cols=42  Identities=19%  Similarity=0.028  Sum_probs=22.0

Q ss_pred             HhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC
Q 040303          328 QLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ  369 (552)
Q Consensus       328 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~  369 (552)
                      .+++|+.|++.+...+.--.+.-......+|+|+.|++.+|.
T Consensus       211 ~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dcl  252 (382)
T KOG1909|consen  211 HCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDCL  252 (382)
T ss_pred             hCCcceeeecccchhhhHHHHHHHHHhcccchheeecccccc
Confidence            456777777766543111111111122356777777777776

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

Probab=98.15  E-value=2.6e-07  Score=83.77  Aligned_cols=179  Identities=22%  Similarity=0.271  Sum_probs=110.1

Q ss_pred             CccEEEeeccccc--cccchhcCCCCCcEEEccCCCCCCh--hhhcCCCCccEEEecCC-cCcccc--hhhccCCCCCEE
Q 040303          136 QVRVLDLTYMHLS--LLPSSLGLLTNLRTLCLYCSELQDI--AVIGELKNLEILCLRGS-YIEQLP--VEIGQLTRLRSL  208 (552)
Q Consensus       136 ~Lr~L~l~~~~~~--~lp~~i~~l~~L~~L~l~~~~~~~~--~~i~~L~~L~~L~l~~~-~l~~lp--~~i~~l~~L~~L  208 (552)
                      .|++|||++..++  .+...++.+.+|+-|.+.+..+.+|  ..|.+=.+|+.|++++| .+++..  --+.+++.|+.|
T Consensus       186 Rlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~L  265 (419)
T KOG2120|consen  186 RLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDEL  265 (419)
T ss_pred             hhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhhc
Confidence            5888888888775  4555677888888888888888873  67788888888888888 666332  236678888888


Q ss_pred             eccCCCCCCccCcccccC-CCCCcEEEccccccchhhhhhhcccccChhh-hcCCCCCcEEEccCCC-CCcCCCcccccC
Q 040303          209 DLRDCDRLQVIPPNVLSN-LSHLEELYIRSFNKWEVEVEAAGVKNASLEE-LKRLPNLTTLELCIPD-VNTLPKGLFFEK  285 (552)
Q Consensus       209 ~l~~~~~~~~~~~~~l~~-l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~-l~~l~~L~~L~l~~~~-~~~~p~~~~l~~  285 (552)
                      ++++|......-...+.. -++|..|+++++..-        .....+.. ...+++|.+|+++.+- +.          
T Consensus       266 NlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrn--------l~~sh~~tL~~rcp~l~~LDLSD~v~l~----------  327 (419)
T KOG2120|consen  266 NLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRN--------LQKSHLSTLVRRCPNLVHLDLSDSVMLK----------  327 (419)
T ss_pred             CchHhhccchhhhHHHhhhchhhhhhhhhhhHhh--------hhhhHHHHHHHhCCceeeeccccccccC----------
Confidence            888886443322111111 245666666533220        00111122 2456666666666332 10          


Q ss_pred             CceEEEEecccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEe
Q 040303          286 LERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWV  365 (552)
Q Consensus       286 L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l  365 (552)
                                                    +.|    ......++.|++|.++.|.+..-..+.   .+...|.|.+|++
T Consensus       328 ------------------------------~~~----~~~~~kf~~L~~lSlsRCY~i~p~~~~---~l~s~psl~yLdv  370 (419)
T KOG2120|consen  328 ------------------------------NDC----FQEFFKFNYLQHLSLSRCYDIIPETLL---ELNSKPSLVYLDV  370 (419)
T ss_pred             ------------------------------chH----HHHHHhcchheeeehhhhcCCChHHee---eeccCcceEEEEe
Confidence                                          011    123345788999999888772222222   3467899999999


Q ss_pred             ecCC
Q 040303          366 EGCQ  369 (552)
Q Consensus       366 ~~c~  369 (552)
                      .+|-
T Consensus       371 ~g~v  374 (419)
T KOG2120|consen  371 FGCV  374 (419)
T ss_pred             cccc
Confidence            9885

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

Probab=98.15  E-value=1.9e-07  Score=94.52  Aligned_cols=104  Identities=28%  Similarity=0.413  Sum_probs=60.2

Q ss_pred             CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCChhhhcCCCCccEEE
Q 040303          107 ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILC  186 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~  186 (552)
                      .+.+|..|++.+|.+.  .+... +..+.+|++|++++|.|..+ ..+..+..|+.|++++|.+.....+..+.+|+.++
T Consensus        93 ~~~~l~~l~l~~n~i~--~i~~~-l~~~~~L~~L~ls~N~I~~i-~~l~~l~~L~~L~l~~N~i~~~~~~~~l~~L~~l~  168 (414)
T KOG0531|consen   93 KLKSLEALDLYDNKIE--KIENL-LSSLVNLQVLDLSFNKITKL-EGLSTLTLLKELNLSGNLISDISGLESLKSLKLLD  168 (414)
T ss_pred             cccceeeeeccccchh--hcccc-hhhhhcchheeccccccccc-cchhhccchhhheeccCcchhccCCccchhhhccc
Confidence            5556666666655443  22221 24566666666666666655 33555666666666666666655555566666666


Q ss_pred             ecCCcCcccchh-hccCCCCCEEeccCCC
Q 040303          187 LRGSYIEQLPVE-IGQLTRLRSLDLRDCD  214 (552)
Q Consensus       187 l~~~~l~~lp~~-i~~l~~L~~L~l~~~~  214 (552)
                      ++++.+..+... ...+.+++.+.+.++.
T Consensus       169 l~~n~i~~ie~~~~~~~~~l~~l~l~~n~  197 (414)
T KOG0531|consen  169 LSYNRIVDIENDELSELISLEELDLGGNS  197 (414)
T ss_pred             CCcchhhhhhhhhhhhccchHHHhccCCc
Confidence            666666655432 3555666666665544

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

Probab=98.14  E-value=4e-08  Score=88.95  Aligned_cols=63  Identities=21%  Similarity=0.153  Sum_probs=33.9

Q ss_pred             cCCCcccccccce-eeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCC
Q 040303          408 GLPNLETLELYNV-NVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECP  475 (552)
Q Consensus       408 ~~~~L~~L~l~~~-~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~  475 (552)
                      ..|+|..|+++++ .++.-..   .+.. .|+.|++|.++.|..+.--.- --+...|+|.+|++.+|-
T Consensus       311 rcp~l~~LDLSD~v~l~~~~~---~~~~-kf~~L~~lSlsRCY~i~p~~~-~~l~s~psl~yLdv~g~v  374 (419)
T KOG2120|consen  311 RCPNLVHLDLSDSVMLKNDCF---QEFF-KFNYLQHLSLSRCYDIIPETL-LELNSKPSLVYLDVFGCV  374 (419)
T ss_pred             hCCceeeeccccccccCchHH---HHHH-hcchheeeehhhhcCCChHHe-eeeccCcceEEEEecccc
Confidence            3566667777766 5543111   1111 567777777777765421100 014556677777777764

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

Probab=98.08  E-value=1.9e-06  Score=91.24  Aligned_cols=135  Identities=24%  Similarity=0.298  Sum_probs=76.0

Q ss_pred             CCccEEEeecccc--ccccchhc-CCCCCcEEEccCCCCCC---hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEE
Q 040303          135 TQVRVLDLTYMHL--SLLPSSLG-LLTNLRTLCLYCSELQD---IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSL  208 (552)
Q Consensus       135 ~~Lr~L~l~~~~~--~~lp~~i~-~l~~L~~L~l~~~~~~~---~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L  208 (552)
                      .+|++||++|...  ..-|..++ .|+.|+.|.+.+-.+..   .....+++||..|||++++++.+ .++++|++|+.|
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknLq~L  200 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNL-SGISRLKNLQVL  200 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCc-HHHhccccHHHH
Confidence            4677777777532  23344443 36777777777765433   24455677777777777777777 677777777777


Q ss_pred             eccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCC
Q 040303          209 DLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDV  274 (552)
Q Consensus       209 ~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  274 (552)
                      .+.+-.......-..+.+|++|++||++........    .....-.+--..||+||.||.+++++
T Consensus       201 ~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~----~ii~qYlec~~~LpeLrfLDcSgTdi  262 (699)
T KOG3665|consen  201 SMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDT----KIIEQYLECGMVLPELRFLDCSGTDI  262 (699)
T ss_pred             hccCCCCCchhhHHHHhcccCCCeeeccccccccch----HHHHHHHHhcccCccccEEecCCcch
Confidence            766533111111111567777777777622111000    00111122234567778888777653

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

Probab=98.02  E-value=7.7e-07  Score=90.17  Aligned_cols=126  Identities=26%  Similarity=0.323  Sum_probs=95.2

Q ss_pred             CCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCChhhhcCCCCccEEEe
Q 040303          108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCL  187 (552)
Q Consensus       108 ~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~l  187 (552)
                      +..+..+.+..+...  .+-.. +..++.|.+|++.++.+..+...+..+.+|++|++++|.|.....+..+..|+.|++
T Consensus        71 l~~l~~l~l~~n~i~--~~~~~-l~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~I~~i~~l~~l~~L~~L~l  147 (414)
T KOG0531|consen   71 LTSLKELNLRQNLIA--KILNH-LSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNKITKLEGLSTLTLLKELNL  147 (414)
T ss_pred             hHhHHhhccchhhhh--hhhcc-cccccceeeeeccccchhhcccchhhhhcchheeccccccccccchhhccchhhhee
Confidence            344444555444332  21112 367899999999999998886668889999999999999999888888999999999


Q ss_pred             cCCcCcccchhhccCCCCCEEeccCCCCCCccCc-ccccCCCCCcEEEccccc
Q 040303          188 RGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP-NVLSNLSHLEELYIRSFN  239 (552)
Q Consensus       188 ~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~-~~l~~l~~L~~L~l~~~~  239 (552)
                      .+|.+..+ .++..+.+|+.+++++|. +..+.. . +..+.+|+.+.+.++.
T Consensus       148 ~~N~i~~~-~~~~~l~~L~~l~l~~n~-i~~ie~~~-~~~~~~l~~l~l~~n~  197 (414)
T KOG0531|consen  148 SGNLISDI-SGLESLKSLKLLDLSYNR-IVDIENDE-LSELISLEELDLGGNS  197 (414)
T ss_pred             ccCcchhc-cCCccchhhhcccCCcch-hhhhhhhh-hhhccchHHHhccCCc
Confidence            99998887 466778999999999987 555554 1 2677788888776443

>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=98.00  E-value=1.2e-05  Score=52.13  Aligned_cols=37  Identities=32%  Similarity=0.411  Sum_probs=19.7

Q ss_pred             CCcEEEccCCCCCC-hhhhcCCCCccEEEecCCcCccc
Q 040303          159 NLRTLCLYCSELQD-IAVIGELKNLEILCLRGSYIEQL  195 (552)
Q Consensus       159 ~L~~L~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~l  195 (552)
                      +|++|++++|.+++ |+.+++|++|++|++++|+++.+
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~i   39 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNNPISDI   39 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCSBE
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCCCCCCC
Confidence            45566666665555 33355566666666655555544

...

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

Probab=97.79  E-value=6e-07  Score=90.94  Aligned_cols=125  Identities=22%  Similarity=0.230  Sum_probs=93.1

Q ss_pred             ccCcccEEEeecCCCcccCCCc-cCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccch-hcCCCCCc
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEV-LECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS-LGLLTNLR  161 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~-~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~-i~~l~~L~  161 (552)
                      .+.++.+.+++.|.+.. +... .-++.++.|++++|.+.  ++.  .+..+.+|+.|||++|.+..+|.- ...+ +|+
T Consensus       162 ~Wn~L~~a~fsyN~L~~-mD~SLqll~ale~LnLshNk~~--~v~--~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc-~L~  235 (1096)
T KOG1859|consen  162 VWNKLATASFSYNRLVL-MDESLQLLPALESLNLSHNKFT--KVD--NLRRLPKLKHLDLSYNCLRHVPQLSMVGC-KLQ  235 (1096)
T ss_pred             hhhhHhhhhcchhhHHh-HHHHHHHHHHhhhhccchhhhh--hhH--HHHhcccccccccccchhccccccchhhh-hhe
Confidence            45667777888887765 3333 36788999999988765  333  347888999999999988777653 2233 499


Q ss_pred             EEEccCCCCCChhhhcCCCCccEEEecCCcCcccc--hhhccCCCCCEEeccCCC
Q 040303          162 TLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLP--VEIGQLTRLRSLDLRDCD  214 (552)
Q Consensus       162 ~L~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp--~~i~~l~~L~~L~l~~~~  214 (552)
                      .|++++|.++....|.+|.+|+.||+++|-+...-  .-++.|..|+.|.+.+|.
T Consensus       236 ~L~lrnN~l~tL~gie~LksL~~LDlsyNll~~hseL~pLwsLs~L~~L~LeGNP  290 (1096)
T KOG1859|consen  236 LLNLRNNALTTLRGIENLKSLYGLDLSYNLLSEHSELEPLWSLSSLIVLWLEGNP  290 (1096)
T ss_pred             eeeecccHHHhhhhHHhhhhhhccchhHhhhhcchhhhHHHHHHHHHHHhhcCCc
Confidence            99999998888888999999999999998554321  347778888999888874

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.73  E-value=4e-05  Score=74.92  Aligned_cols=60  Identities=20%  Similarity=0.324  Sum_probs=35.4

Q ss_pred             CCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhh
Q 040303          409 LPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEI  480 (552)
Q Consensus       409 ~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~  480 (552)
                      +++++.|+|++|.+++++  ..      .++|++|.|.+|.+++.+|.  .+  .++|++|.+.+|.++..+
T Consensus        51 ~~~l~~L~Is~c~L~sLP--~L------P~sLtsL~Lsnc~nLtsLP~--~L--P~nLe~L~Ls~Cs~L~sL  110 (426)
T PRK15386         51 ARASGRLYIKDCDIESLP--VL------PNELTEITIENCNNLTTLPG--SI--PEGLEKLTVCHCPEISGL  110 (426)
T ss_pred             hcCCCEEEeCCCCCcccC--CC------CCCCcEEEccCCCCcccCCc--hh--hhhhhheEccCccccccc
Confidence            456666777766665544  12      24577777777777666653  12  246677777766655544

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.71  E-value=0.00014  Score=71.28  Aligned_cols=34  Identities=18%  Similarity=0.311  Sum_probs=24.7

Q ss_pred             HhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC
Q 040303          328 QLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ  369 (552)
Q Consensus       328 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~  369 (552)
                      .+.+++.|++.+|.   +..++     .-.++|++|.+++|.
T Consensus        50 ~~~~l~~L~Is~c~---L~sLP-----~LP~sLtsL~Lsnc~   83 (426)
T PRK15386         50 EARASGRLYIKDCD---IESLP-----VLPNELTEITIENCN   83 (426)
T ss_pred             HhcCCCEEEeCCCC---CcccC-----CCCCCCcEEEccCCC
Confidence            35788999999883   45544     123579999999887

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.66  E-value=1.2e-05  Score=73.30  Aligned_cols=82  Identities=33%  Similarity=0.439  Sum_probs=52.2

Q ss_pred             hCCCCccEEEeecccccc---ccchhcCCCCCcEEEccCCCCCC-hhhh-cCCCCccEEEecCCcCc--ccchhhccCCC
Q 040303          132 RKLTQVRVLDLTYMHLSL---LPSSLGLLTNLRTLCLYCSELQD-IAVI-GELKNLEILCLRGSYIE--QLPVEIGQLTR  204 (552)
Q Consensus       132 ~~l~~Lr~L~l~~~~~~~---lp~~i~~l~~L~~L~l~~~~~~~-~~~i-~~L~~L~~L~l~~~~l~--~lp~~i~~l~~  204 (552)
                      ....+++.|||.+|.+.+   +-..+.++++|++|+++.|.+.. +.+. ..+.+|++|-+.|+.+.  ..-..+..++.
T Consensus        68 ~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~  147 (418)
T KOG2982|consen   68 SSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLPK  147 (418)
T ss_pred             HHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcchh
Confidence            456678888888886653   44445678888888888777665 3444 35667777777776433  44444555666


Q ss_pred             CCEEeccCC
Q 040303          205 LRSLDLRDC  213 (552)
Q Consensus       205 L~~L~l~~~  213 (552)
                      ++.|+++.|
T Consensus       148 vtelHmS~N  156 (418)
T KOG2982|consen  148 VTELHMSDN  156 (418)
T ss_pred             hhhhhhccc
Confidence            666666554

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

Probab=97.59  E-value=7e-06  Score=65.99  Aligned_cols=80  Identities=21%  Similarity=0.234  Sum_probs=36.6

Q ss_pred             CCCccEEEeeccccccccchhcCC-CCCcEEEccCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEecc
Q 040303          134 LTQVRVLDLTYMHLSLLPSSLGLL-TNLRTLCLYCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLR  211 (552)
Q Consensus       134 l~~Lr~L~l~~~~~~~lp~~i~~l-~~L~~L~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~  211 (552)
                      ..+|...++++|.++++|+.+... +-+++|++.+|.+.+ |..+..++.|+.|+++.|.+...|.-+..|.+|-.|+..
T Consensus        52 ~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~N~l~~~p~vi~~L~~l~~Lds~  131 (177)
T KOG4579|consen   52 GYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLRFNPLNAEPRVIAPLIKLDMLDSP  131 (177)
T ss_pred             CceEEEEecccchhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcccccCccccchHHHHHHHhHHHhcCC
Confidence            334444444444444444443322 244444444444444 444444444444444444444444444444444444444


Q ss_pred             CC
Q 040303          212 DC  213 (552)
Q Consensus       212 ~~  213 (552)
                      ++
T Consensus       132 ~n  133 (177)
T KOG4579|consen  132 EN  133 (177)
T ss_pred             CC
Confidence            43

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

Probab=97.56  E-value=0.00013  Score=63.05  Aligned_cols=84  Identities=26%  Similarity=0.384  Sum_probs=47.1

Q ss_pred             hhCCCCccEEEeeccccccccchhcC-CCCCcEEEccCCCCCC---hhhhcCCCCccEEEecCCcCcccch----hhccC
Q 040303          131 FRKLTQVRVLDLTYMHLSLLPSSLGL-LTNLRTLCLYCSELQD---IAVIGELKNLEILCLRGSYIEQLPV----EIGQL  202 (552)
Q Consensus       131 ~~~l~~Lr~L~l~~~~~~~lp~~i~~-l~~L~~L~l~~~~~~~---~~~i~~L~~L~~L~l~~~~l~~lp~----~i~~l  202 (552)
                      |..++.|..|.+.+|+|..+-+.+.. +++|..|.+.+|.+..   ...+..++.|++|.+-++.++.-+.    -+.++
T Consensus        60 lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Ltll~Npv~~k~~YR~yvl~kl  139 (233)
T KOG1644|consen   60 LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYLTLLGNPVEHKKNYRLYVLYKL  139 (233)
T ss_pred             CCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCccceeeecCCchhcccCceeEEEEec
Confidence            34555666666666666555444433 3446666666665544   3444555666666666665553322    25666


Q ss_pred             CCCCEEeccCCC
Q 040303          203 TRLRSLDLRDCD  214 (552)
Q Consensus       203 ~~L~~L~l~~~~  214 (552)
                      ++|+.||+....
T Consensus       140 p~l~~LDF~kVt  151 (233)
T KOG1644|consen  140 PSLRTLDFQKVT  151 (233)
T ss_pred             CcceEeehhhhh
Confidence            777777766543

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

Probab=97.48  E-value=1.4e-05  Score=64.36  Aligned_cols=109  Identities=21%  Similarity=0.268  Sum_probs=87.1

Q ss_pred             cccEEEeecCCCcccCCC----ccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcE
Q 040303           87 FYTSIVLHDSKMNVLLPE----VLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRT  162 (552)
Q Consensus        87 ~lr~L~l~~~~~~~~~~~----~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~  162 (552)
                      .+.-++++.+.+-. ++.    ......|...++++|.+.  ++|+.+-.+++.+..|++.+|.+.++|..+..++.||.
T Consensus        28 E~h~ldLssc~lm~-i~davy~l~~~~el~~i~ls~N~fk--~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~  104 (177)
T KOG4579|consen   28 ELHFLDLSSCQLMY-IADAVYMLSKGYELTKISLSDNGFK--KFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRS  104 (177)
T ss_pred             HhhhcccccchhhH-HHHHHHHHhCCceEEEEecccchhh--hCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhh
Confidence            34556677676554 332    225667788888888765  78888877788899999999999999999999999999


Q ss_pred             EEccCCCCCC-hhhhcCCCCccEEEecCCcCcccchh
Q 040303          163 LCLYCSELQD-IAVIGELKNLEILCLRGSYIEQLPVE  198 (552)
Q Consensus       163 L~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~  198 (552)
                      |+++.|.+.. |.-|..|.+|-.|+..++....+|-.
T Consensus       105 lNl~~N~l~~~p~vi~~L~~l~~Lds~~na~~eid~d  141 (177)
T KOG4579|consen  105 LNLRFNPLNAEPRVIAPLIKLDMLDSPENARAEIDVD  141 (177)
T ss_pred             cccccCccccchHHHHHHHhHHHhcCCCCccccCcHH
Confidence            9999999776 88888899999999988877777755

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

Probab=97.40  E-value=0.00028  Score=60.97  Aligned_cols=99  Identities=27%  Similarity=0.256  Sum_probs=50.6

Q ss_pred             CccEEEeeccccccccchhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEecCCcCcccc--hhhccCCCCCEEecc
Q 040303          136 QVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQLP--VEIGQLTRLRSLDLR  211 (552)
Q Consensus       136 ~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp--~~i~~l~~L~~L~l~  211 (552)
                      ..-.+|++.|.+..++ .+-.+..|.+|.+.+|+|..  |.--.-+++|++|.+.+|.+..+-  ..+..+++|++|.+-
T Consensus        43 ~~d~iDLtdNdl~~l~-~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Ltll  121 (233)
T KOG1644|consen   43 QFDAIDLTDNDLRKLD-NLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYLTLL  121 (233)
T ss_pred             ccceecccccchhhcc-cCCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCccceeeec
Confidence            4456666666554432 23455666666666666655  322334455666666666555432  124445566666655


Q ss_pred             CCCCCCccC---cccccCCCCCcEEEcc
Q 040303          212 DCDRLQVIP---PNVLSNLSHLEELYIR  236 (552)
Q Consensus       212 ~~~~~~~~~---~~~l~~l~~L~~L~l~  236 (552)
                      +|. ...-.   .-++.++++|++||+.
T Consensus       122 ~Np-v~~k~~YR~yvl~klp~l~~LDF~  148 (233)
T KOG1644|consen  122 GNP-VEHKKNYRLYVLYKLPSLRTLDFQ  148 (233)
T ss_pred             CCc-hhcccCceeEEEEecCcceEeehh
Confidence            543 11111   1124555666666654

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

Probab=97.28  E-value=0.00021  Score=66.91  Aligned_cols=131  Identities=15%  Similarity=0.166  Sum_probs=70.3

Q ss_pred             CCCCceEEEeecCCCCC--cccChhHhhCCCCccEEEeeccccc-----cccchhcCCCCCcEEEccCCCCCC------h
Q 040303          107 ECPQLQLLSLWTEKSSL--ITLPDNFFRKLTQVRVLDLTYMHLS-----LLPSSLGLLTNLRTLCLYCSELQD------I  173 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~~~~--~~~~~~~~~~l~~Lr~L~l~~~~~~-----~lp~~i~~l~~L~~L~l~~~~~~~------~  173 (552)
                      .-++||+++...|...-  .......|+..+.|..+.++.|.|.     -+..++..++||++||++.|.++.      -
T Consensus       155 ~~~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~La  234 (382)
T KOG1909|consen  155 SKPKLRVFICGRNRLENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALA  234 (382)
T ss_pred             CCcceEEEEeeccccccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHH
Confidence            44567777766664421  1112233455666777777666553     234456667777777777766543      1


Q ss_pred             hhhcCCCCccEEEecCCcCcc-----cchhh-ccCCCCCEEeccCCCCCCc----cCcccccCCCCCcEEEcccc
Q 040303          174 AVIGELKNLEILCLRGSYIEQ-----LPVEI-GQLTRLRSLDLRDCDRLQV----IPPNVLSNLSHLEELYIRSF  238 (552)
Q Consensus       174 ~~i~~L~~L~~L~l~~~~l~~-----lp~~i-~~l~~L~~L~l~~~~~~~~----~~~~~l~~l~~L~~L~l~~~  238 (552)
                      ..++.+++|+.|++++|.++.     +-..+ ...++|+.|.+.+|..-..    +... +...+.|+.|+++.+
T Consensus       235 kaL~s~~~L~El~l~dcll~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~da~~~la~~-~~ek~dL~kLnLngN  308 (382)
T KOG1909|consen  235 KALSSWPHLRELNLGDCLLENEGAIAFVDALKESAPSLEVLELAGNEITRDAALALAAC-MAEKPDLEKLNLNGN  308 (382)
T ss_pred             HHhcccchheeecccccccccccHHHHHHHHhccCCCCceeccCcchhHHHHHHHHHHH-HhcchhhHHhcCCcc
Confidence            445566677777777765541     11111 1246677777666642111    1111 344666777776643

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.96  E-value=0.00026  Score=64.78  Aligned_cols=20  Identities=25%  Similarity=0.448  Sum_probs=12.8

Q ss_pred             ChhhhcCCCCCcEEEccCCC
Q 040303          254 SLEELKRLPNLTTLELCIPD  273 (552)
Q Consensus       254 ~~~~l~~l~~L~~L~l~~~~  273 (552)
                      ...++.+++.|+.|++..++
T Consensus       241 svD~Ln~f~~l~dlRv~~~P  260 (418)
T KOG2982|consen  241 SVDALNGFPQLVDLRVSENP  260 (418)
T ss_pred             HHHHHcCCchhheeeccCCc
Confidence            45566666777777666554

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

Probab=96.86  E-value=0.00015  Score=75.59  Aligned_cols=39  Identities=18%  Similarity=0.211  Sum_probs=16.2

Q ss_pred             ccEEEeccccccccccCCcccccCCCccEEEeecCCCcc
Q 040303          496 LQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCPEFL  534 (552)
Q Consensus       496 L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~  534 (552)
                      ++.|.+..|...+.-........+..++.+.+.+|+.+.
T Consensus       403 l~~L~l~~~~~~t~~~l~~~~~~~~~~~~l~~~~~~~~~  441 (482)
T KOG1947|consen  403 LRVLNLSDCRLVTDKGLRCLADSCSNLKDLDLSGCRVIT  441 (482)
T ss_pred             cceEecccCccccccchHHHhhhhhccccCCccCccccc
Confidence            555555555444332211111113444555555555443

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

Probab=96.84  E-value=0.00064  Score=61.38  Aligned_cols=81  Identities=22%  Similarity=0.304  Sum_probs=40.9

Q ss_pred             CCCCcEEEccCCCCCChhhhcCCCCccEEEecCC--cCc-ccchhhccCCCCCEEeccCCCC--CCccCcccccCCCCCc
Q 040303          157 LTNLRTLCLYCSELQDIAVIGELKNLEILCLRGS--YIE-QLPVEIGQLTRLRSLDLRDCDR--LQVIPPNVLSNLSHLE  231 (552)
Q Consensus       157 l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~l~~~--~l~-~lp~~i~~l~~L~~L~l~~~~~--~~~~~~~~l~~l~~L~  231 (552)
                      +..|++|++.++.++....+..|++|++|.++.|  .+. .++.-+.++++|++|++++|+.  ++.+++  +..+.+|.
T Consensus        42 ~~~le~ls~~n~gltt~~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~p--l~~l~nL~  119 (260)
T KOG2739|consen   42 FVELELLSVINVGLTTLTNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRP--LKELENLK  119 (260)
T ss_pred             ccchhhhhhhccceeecccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccch--hhhhcchh
Confidence            3444555555555444444555556666666555  332 3433444456666666666541  223333  45555666


Q ss_pred             EEEccccc
Q 040303          232 ELYIRSFN  239 (552)
Q Consensus       232 ~L~l~~~~  239 (552)
                      .|+++++.
T Consensus       120 ~Ldl~n~~  127 (260)
T KOG2739|consen  120 SLDLFNCS  127 (260)
T ss_pred             hhhcccCC
Confidence            66665443

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

Probab=96.84  E-value=0.00039  Score=62.85  Aligned_cols=88  Identities=20%  Similarity=0.202  Sum_probs=52.3

Q ss_pred             CCCCccEEEeeccccc-----cccchhcCCCCCcEEEccCCC---CCC--h-------hhhcCCCCccEEEecCCcCc-c
Q 040303          133 KLTQVRVLDLTYMHLS-----LLPSSLGLLTNLRTLCLYCSE---LQD--I-------AVIGELKNLEILCLRGSYIE-Q  194 (552)
Q Consensus       133 ~l~~Lr~L~l~~~~~~-----~lp~~i~~l~~L~~L~l~~~~---~~~--~-------~~i~~L~~L~~L~l~~~~l~-~  194 (552)
                      .+..+..++|++|.|.     .+...|.+-.+|+..+++.-.   .++  +       +.+-++++|++.+++.|-+. .
T Consensus        28 ~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~~  107 (388)
T COG5238          28 MMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGSE  107 (388)
T ss_pred             hhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCcc
Confidence            3566677777777653     244555666677777665432   111  2       34556777777777777443 3


Q ss_pred             cchh----hccCCCCCEEeccCCCCCCccCc
Q 040303          195 LPVE----IGQLTRLRSLDLRDCDRLQVIPP  221 (552)
Q Consensus       195 lp~~----i~~l~~L~~L~l~~~~~~~~~~~  221 (552)
                      .|..    |.+-+.|.||.+++|. ++.+..
T Consensus       108 ~~e~L~d~is~~t~l~HL~l~NnG-lGp~aG  137 (388)
T COG5238         108 FPEELGDLISSSTDLVHLKLNNNG-LGPIAG  137 (388)
T ss_pred             cchHHHHHHhcCCCceeEEeecCC-CCccch
Confidence            4432    5566778888887765 554443

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

Probab=96.77  E-value=0.00021  Score=74.37  Aligned_cols=39  Identities=26%  Similarity=0.362  Sum_probs=25.1

Q ss_pred             HhchheeeeecCCCCCcceeeeccccCcccccccEEEeecC
Q 040303          328 QLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGC  368 (552)
Q Consensus       328 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c  368 (552)
                      .++.|+.|.+.++..  +.+..-......+++|+.|++++|
T Consensus       186 ~~~~L~~l~l~~~~~--~~~~~~~~~~~~~~~L~~L~l~~~  224 (482)
T KOG1947|consen  186 SCPLLKRLSLSGCSK--ITDDSLDALALKCPNLEELDLSGC  224 (482)
T ss_pred             hCchhhHhhhccccc--CChhhHHHHHhhCchhheecccCc
Confidence            357888888888776  333111112346788999998874

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.53  E-value=0.00011  Score=66.55  Aligned_cols=100  Identities=26%  Similarity=0.246  Sum_probs=53.9

Q ss_pred             CCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCChhhhcCCCCccEEEecCCcCcccch--hhccCCCCCEEecc
Q 040303          134 LTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPV--EIGQLTRLRSLDLR  211 (552)
Q Consensus       134 l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~--~i~~l~~L~~L~l~  211 (552)
                      +.+.+.|+.-||.+.++ ..+.+++.|++|.|+-|.|+....+..+.+|+.|.++.|.|..+-+  -+.++++||.|-+.
T Consensus        18 l~~vkKLNcwg~~L~DI-sic~kMp~lEVLsLSvNkIssL~pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LWL~   96 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDI-SICEKMPLLEVLSLSVNKISSLAPLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTLWLD   96 (388)
T ss_pred             HHHhhhhcccCCCccHH-HHHHhcccceeEEeeccccccchhHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhHhhc
Confidence            34455666666665543 2344566666666666666666566666666666666665554422  24455666666555


Q ss_pred             CCCCCCccCc----ccccCCCCCcEEE
Q 040303          212 DCDRLQVIPP----NVLSNLSHLEELY  234 (552)
Q Consensus       212 ~~~~~~~~~~----~~l~~l~~L~~L~  234 (552)
                      .|...+.-+.    .++.-|++|++||
T Consensus        97 ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   97 ENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             cCCcccccchhHHHHHHHHcccchhcc
Confidence            5543333322    1134455555554

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.41  E-value=0.00021  Score=64.80  Aligned_cols=98  Identities=21%  Similarity=0.271  Sum_probs=64.9

Q ss_pred             CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC---hhhhcCCCCcc
Q 040303          107 ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD---IAVIGELKNLE  183 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~---~~~i~~L~~L~  183 (552)
                      .+.+.+.|++.||...  +  .++..+|+.|.||.|+-|.|+.+ ..+..|++|+.|.|+.|.|.+   ..-+.++++|+
T Consensus        17 dl~~vkKLNcwg~~L~--D--Isic~kMp~lEVLsLSvNkIssL-~pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr   91 (388)
T KOG2123|consen   17 DLENVKKLNCWGCGLD--D--ISICEKMPLLEVLSLSVNKISSL-APLQRCTRLKELYLRKNCIESLDELEYLKNLPSLR   91 (388)
T ss_pred             HHHHhhhhcccCCCcc--H--HHHHHhcccceeEEeeccccccc-hhHHHHHHHHHHHHHhcccccHHHHHHHhcCchhh
Confidence            3556677777777644  2  23456788888888888887776 446778888888888887766   45667788888


Q ss_pred             EEEecCCcCc-ccch-----hhccCCCCCEEe
Q 040303          184 ILCLRGSYIE-QLPV-----EIGQLTRLRSLD  209 (552)
Q Consensus       184 ~L~l~~~~l~-~lp~-----~i~~l~~L~~L~  209 (552)
                      +|-|..|... .-+.     -+.-|++|+.||
T Consensus        92 ~LWL~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   92 TLWLDENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             hHhhccCCcccccchhHHHHHHHHcccchhcc
Confidence            8877766221 2111     244566777765

>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=96.11  E-value=0.0031  Score=33.82  Aligned_cols=22  Identities=36%  Similarity=0.495  Sum_probs=15.8

Q ss_pred             CccEEEeeccccccccchhcCC
Q 040303          136 QVRVLDLTYMHLSLLPSSLGLL  157 (552)
Q Consensus       136 ~Lr~L~l~~~~~~~lp~~i~~l  157 (552)
                      +|++||+++|.++.+|+++++|
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~l   22 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSNL   22 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT-
T ss_pred             CccEEECCCCcCEeCChhhcCC
Confidence            4778888888887787776543

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 ....

>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=96.05  E-value=0.0032  Score=33.74  Aligned_cols=21  Identities=33%  Similarity=0.572  Sum_probs=13.7

Q ss_pred             CccEEEecCCcCcccchhhcc
Q 040303          181 NLEILCLRGSYIEQLPVEIGQ  201 (552)
Q Consensus       181 ~L~~L~l~~~~l~~lp~~i~~  201 (552)
                      +|++||+++|+++.+|.++++
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            466777777766677666544

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 ....

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

Probab=96.04  E-value=0.003  Score=57.15  Aligned_cols=81  Identities=28%  Similarity=0.286  Sum_probs=46.4

Q ss_pred             CCCCccEEEeecc--ccc-cccchhcCCCCCcEEEccCCCCCC---hhhhcCCCCccEEEecCCcCcccch----hhccC
Q 040303          133 KLTQVRVLDLTYM--HLS-LLPSSLGLLTNLRTLCLYCSELQD---IAVIGELKNLEILCLRGSYIEQLPV----EIGQL  202 (552)
Q Consensus       133 ~l~~Lr~L~l~~~--~~~-~lp~~i~~l~~L~~L~l~~~~~~~---~~~i~~L~~L~~L~l~~~~l~~lp~----~i~~l  202 (552)
                      .+++|+.|.++.|  ++. .++.....+++|++|++++|+++.   ...+.++++|..|++..|..+.+-.    -+.-+
T Consensus        63 ~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~pl~~l~nL~~Ldl~n~~~~~l~dyre~vf~ll  142 (260)
T KOG2739|consen   63 KLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRPLKELENLKSLDLFNCSVTNLDDYREKVFLLL  142 (260)
T ss_pred             CcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccchhhhhcchhhhhcccCCccccccHHHHHHHHh
Confidence            4556666777666  222 344444455777777777777654   3445566677777777775554321    13335


Q ss_pred             CCCCEEeccCC
Q 040303          203 TRLRSLDLRDC  213 (552)
Q Consensus       203 ~~L~~L~l~~~  213 (552)
                      ++|.+|+-..+
T Consensus       143 ~~L~~LD~~dv  153 (260)
T KOG2739|consen  143 PSLKYLDGCDV  153 (260)
T ss_pred             hhhcccccccc
Confidence            66666654443

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.16  E-value=0.0013  Score=57.12  Aligned_cols=67  Identities=16%  Similarity=0.243  Sum_probs=28.1

Q ss_pred             ccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEEecccccc
Q 040303          436 GIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKL  507 (552)
Q Consensus       436 ~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L  507 (552)
                      .++.++.|.+.+|..+.+.--+..-+-.++|+.|+|++|+++++-     ....+..|++|+.|.|.+.|.+
T Consensus       123 ~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~-----GL~~L~~lknLr~L~l~~l~~v  189 (221)
T KOG3864|consen  123 DLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDG-----GLACLLKLKNLRRLHLYDLPYV  189 (221)
T ss_pred             ccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechh-----HHHHHHHhhhhHHHHhcCchhh
Confidence            344444455555544444311111122345555555555555432     0012333455555555555433

>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=94.62  E-value=0.025  Score=28.06  Aligned_cols=16  Identities=38%  Similarity=0.546  Sum_probs=7.0

Q ss_pred             CccEEEecCCcCcccc
Q 040303          181 NLEILCLRGSYIEQLP  196 (552)
Q Consensus       181 ~L~~L~l~~~~l~~lp  196 (552)
                      +|++|++++|+++++|
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            4556666666555554

...

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.60  E-value=0.0088  Score=52.04  Aligned_cols=90  Identities=11%  Similarity=0.151  Sum_probs=61.0

Q ss_pred             cceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEEeccccccccccCCccccc
Q 040303          439 TLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIE  518 (552)
Q Consensus       439 ~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~  518 (552)
                      .++.++-++|. +...-- .-+..++.++.|.+.+|..+..... +.+   .+.+|+|+.|+|++|+.+++-.-..+. .
T Consensus       102 ~IeaVDAsds~-I~~eGl-e~L~~l~~i~~l~l~~ck~~dD~~L-~~l---~~~~~~L~~L~lsgC~rIT~~GL~~L~-~  174 (221)
T KOG3864|consen  102 KIEAVDASDSS-IMYEGL-EHLRDLRSIKSLSLANCKYFDDWCL-ERL---GGLAPSLQDLDLSGCPRITDGGLACLL-K  174 (221)
T ss_pred             eEEEEecCCch-HHHHHH-HHHhccchhhhheeccccchhhHHH-HHh---cccccchheeeccCCCeechhHHHHHH-H
Confidence            35556655542 222110 1245678889999999998876532 221   125899999999999999887544443 7


Q ss_pred             CCCccEEEeecCCCcch
Q 040303          519 FPTLETLEVIRCPEFLL  535 (552)
Q Consensus       519 ~~~L~~L~i~~C~~L~~  535 (552)
                      +++|+.|.+.+-|....
T Consensus       175 lknLr~L~l~~l~~v~~  191 (221)
T KOG3864|consen  175 LKNLRRLHLYDLPYVAN  191 (221)
T ss_pred             hhhhHHHHhcCchhhhc
Confidence            89999999999877643

>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=94.17  E-value=0.033  Score=27.60  Aligned_cols=16  Identities=44%  Similarity=0.696  Sum_probs=7.3

Q ss_pred             CccEEEeecccccccc
Q 040303          136 QVRVLDLTYMHLSLLP  151 (552)
Q Consensus       136 ~Lr~L~l~~~~~~~lp  151 (552)
                      +|++|++++|+++.+|
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            4666666666665554

...

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

Probab=94.00  E-value=0.25  Score=40.68  Aligned_cols=115  Identities=14%  Similarity=0.303  Sum_probs=40.6

Q ss_pred             CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEEccCCCCCC--hhhhcCCCCcc
Q 040303          107 ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSELQD--IAVIGELKNLE  183 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~  183 (552)
                      .+.+|+.+.+...   ...++...|..+..|+.+.+..+ +..++. .+.++..|+++.+.. .+..  ...+..+.+|+
T Consensus        10 ~~~~l~~i~~~~~---~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l~   84 (129)
T PF13306_consen   10 NCSNLESITFPNT---IKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTNLK   84 (129)
T ss_dssp             T-TT--EEEETST-----EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TTEC
T ss_pred             CCCCCCEEEECCC---eeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-ccccccccccccccccc
Confidence            4445555555421   11455555556656666666553 443333 244454566666543 2222  23444555566


Q ss_pred             EEEecCCcCcccchh-hccCCCCCEEeccCCCCCCccCcccccCCCCC
Q 040303          184 ILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHL  230 (552)
Q Consensus       184 ~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L  230 (552)
                      .+++..+ +..++.. +.+. +|+.+.+..  .+..++...+.++++|
T Consensus        85 ~i~~~~~-~~~i~~~~f~~~-~l~~i~~~~--~~~~i~~~~F~~~~~l  128 (129)
T PF13306_consen   85 NIDIPSN-ITEIGSSSFSNC-NLKEINIPS--NITKIEENAFKNCTKL  128 (129)
T ss_dssp             EEEETTT--BEEHTTTTTT--T--EEE-TT--B-SS----GGG-----
T ss_pred             ccccCcc-ccEEchhhhcCC-CceEEEECC--CccEECCccccccccC
Confidence            6655443 3333332 3333 555555443  1334444334444333

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

Probab=93.69  E-value=0.27  Score=40.47  Aligned_cols=106  Identities=16%  Similarity=0.285  Sum_probs=56.9

Q ss_pred             ccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEecCCcCcccchh-hc
Q 040303          125 TLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQLPVE-IG  200 (552)
Q Consensus       125 ~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~~-i~  200 (552)
                      .++...|.+..+|+.+.+.. .+..++. .+.++.+|+.+.+..+ +..  -..+.++.+|+.+.+.. .+..++.. +.
T Consensus         2 ~i~~~~F~~~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~   78 (129)
T PF13306_consen    2 SIGNNAFYNCSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFS   78 (129)
T ss_dssp             EE-TTTTTT-TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTT
T ss_pred             EECHHHHhCCCCCCEEEECC-CeeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-ccccccccccc
Confidence            35566678888888888875 4555544 4667778888888764 554  35567777788888865 45555443 44


Q ss_pred             cCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcc
Q 040303          201 QLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       201 ~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                      .+++|+.+.+..+  +..++...+.+. +|+.+.+.
T Consensus        79 ~~~~l~~i~~~~~--~~~i~~~~f~~~-~l~~i~~~  111 (129)
T PF13306_consen   79 NCTNLKNIDIPSN--ITEIGSSSFSNC-NLKEINIP  111 (129)
T ss_dssp             T-TTECEEEETTT---BEEHTTTTTT--T--EEE-T
T ss_pred             ccccccccccCcc--ccEEchhhhcCC-CceEEEEC
Confidence            5778888877552  455655556666 77777664

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

Probab=93.34  E-value=0.096  Score=47.90  Aligned_cols=136  Identities=20%  Similarity=0.219  Sum_probs=87.6

Q ss_pred             CCCccCCCCceEEEeecCCCCCcccCh---hHhhCCCCccEEEeecccccccc--------------chhcCCCCCcEEE
Q 040303          102 LPEVLECPQLQLLSLWTEKSSLITLPD---NFFRKLTQVRVLDLTYMHLSLLP--------------SSLGLLTNLRTLC  164 (552)
Q Consensus       102 ~~~~~~~~~Lr~L~l~~~~~~~~~~~~---~~~~~l~~Lr~L~l~~~~~~~lp--------------~~i~~l~~L~~L~  164 (552)
                      ++...+||+|+..+++.|.+.. ..|+   +++++-..|..|.+++|.+..+.              +...+-+.|++..
T Consensus        85 l~aLlkcp~l~~v~LSDNAfg~-~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vi  163 (388)
T COG5238          85 LKALLKCPRLQKVDLSDNAFGS-EFPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVI  163 (388)
T ss_pred             HHHHhcCCcceeeeccccccCc-ccchHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEE
Confidence            3445589999999999988765 3333   45677888999999999765322              1234567788888


Q ss_pred             ccCCCCCC-h-----hhhcCCCCccEEEecCCcCcc------cchhhccCCCCCEEeccCCCCCCcc---CcccccCCCC
Q 040303          165 LYCSELQD-I-----AVIGELKNLEILCLRGSYIEQ------LPVEIGQLTRLRSLDLRDCDRLQVI---PPNVLSNLSH  229 (552)
Q Consensus       165 l~~~~~~~-~-----~~i~~L~~L~~L~l~~~~l~~------lp~~i~~l~~L~~L~l~~~~~~~~~---~~~~l~~l~~  229 (552)
                      ...|++.. +     ..+..-.+|+++.+..|.|.-      +-.++..+.+|+.|++.+|.....-   -...+...+.
T Consensus       164 cgrNRlengs~~~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W~~  243 (388)
T COG5238         164 CGRNRLENGSKELSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEWNL  243 (388)
T ss_pred             eccchhccCcHHHHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHhcccch
Confidence            88888654 3     234445688999998886651      1123456678888888887522111   1111345566


Q ss_pred             CcEEEcccc
Q 040303          230 LEELYIRSF  238 (552)
Q Consensus       230 L~~L~l~~~  238 (552)
                      |+.|.+..|
T Consensus       244 lrEL~lnDC  252 (388)
T COG5238         244 LRELRLNDC  252 (388)
T ss_pred             hhhccccch
Confidence            777776544

>smart00370 LRR Leucine-rich repeats, outliers

Probab=90.72  E-value=0.22  Score=27.73  Aligned_cols=21  Identities=33%  Similarity=0.390  Sum_probs=13.6

Q ss_pred             CCCccEEEecCCcCcccchhh
Q 040303          179 LKNLEILCLRGSYIEQLPVEI  199 (552)
Q Consensus       179 L~~L~~L~l~~~~l~~lp~~i  199 (552)
                      |.+|++|++++|.++.+|.++
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00370        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            356677777777777776653

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

Probab=90.72  E-value=0.22  Score=27.73  Aligned_cols=21  Identities=33%  Similarity=0.390  Sum_probs=13.6

Q ss_pred             CCCccEEEecCCcCcccchhh
Q 040303          179 LKNLEILCLRGSYIEQLPVEI  199 (552)
Q Consensus       179 L~~L~~L~l~~~~l~~lp~~i  199 (552)
                      |.+|++|++++|.++.+|.++
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00369        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            356677777777777776653

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

Probab=90.45  E-value=0.0092  Score=52.98  Aligned_cols=82  Identities=17%  Similarity=0.120  Sum_probs=49.2

Q ss_pred             hCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEec
Q 040303          132 RKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDL  210 (552)
Q Consensus       132 ~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l  210 (552)
                      ..++...+||++.+++..+-..++.++.|.-|+++.+.+.. |.+++.+..+..++...|..+..|.+.++++++++++.
T Consensus        39 ~~~kr~tvld~~s~r~vn~~~n~s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~n~~~~~p~s~~k~~~~k~~e~  118 (326)
T KOG0473|consen   39 ASFKRVTVLDLSSNRLVNLGKNFSILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHKNNHSQQPKSQKKEPHPKKNEQ  118 (326)
T ss_pred             hccceeeeehhhhhHHHhhccchHHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhccchhhCCccccccCCcchhhh
Confidence            44555666666666555555555556666666666555554 56666666666666655555666666666666666665


Q ss_pred             cCC
Q 040303          211 RDC  213 (552)
Q Consensus       211 ~~~  213 (552)
                      ..+
T Consensus       119 k~~  121 (326)
T KOG0473|consen  119 KKT  121 (326)
T ss_pred             ccC
Confidence            554

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

Probab=87.05  E-value=0.5  Score=26.25  Aligned_cols=20  Identities=40%  Similarity=0.542  Sum_probs=12.6

Q ss_pred             CCccEEEeeccccccccchh
Q 040303          135 TQVRVLDLTYMHLSLLPSSL  154 (552)
Q Consensus       135 ~~Lr~L~l~~~~~~~lp~~i  154 (552)
                      .+|++|++++|.+..+|...
T Consensus         2 ~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00369        2 PNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCEEECCCCcCCcCCHHH
Confidence            45666777666666666543

>smart00370 LRR Leucine-rich repeats, outliers

Probab=87.05  E-value=0.5  Score=26.25  Aligned_cols=20  Identities=40%  Similarity=0.542  Sum_probs=12.6

Q ss_pred             CCccEEEeeccccccccchh
Q 040303          135 TQVRVLDLTYMHLSLLPSSL  154 (552)
Q Consensus       135 ~~Lr~L~l~~~~~~~lp~~i  154 (552)
                      .+|++|++++|.+..+|...
T Consensus         2 ~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00370        2 PNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCEEECCCCcCCcCCHHH
Confidence            45666777666666666543

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

Probab=84.37  E-value=0.55  Score=26.15  Aligned_cols=18  Identities=22%  Similarity=0.471  Sum_probs=13.2

Q ss_pred             CCCccEEEeecCCCcchh
Q 040303          519 FPTLETLEVIRCPEFLLT  536 (552)
Q Consensus       519 ~~~L~~L~i~~C~~L~~l  536 (552)
                      +|+|+.|.+++|++++..
T Consensus         1 c~~L~~L~l~~C~~itD~   18 (26)
T smart00367        1 CPNLRELDLSGCTNITDE   18 (26)
T ss_pred             CCCCCEeCCCCCCCcCHH
Confidence            467888888888877643

---

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	552
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	5e-24
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	8e-22
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-21
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-21
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-14
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-14
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	4e-11
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-22
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	5e-22
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-21
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	6e-14
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	9e-19
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-14
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	4e-14
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-10
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	4e-10
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-05
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	1e-17
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	3e-14
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	5e-05
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	2e-17
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	4e-12
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	2e-11
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	5e-17
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	6e-14
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-04
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-16
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-14
1o6v_A	466	Internalin A; bacterial infection, extracellular r	7e-14
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-13
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-12
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-09
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-16
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	4e-11
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	9e-11
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	5e-10
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	4e-16
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	9e-16
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-15
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-12
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-07
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	9e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	1e-15
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	1e-14
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-04
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-15
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	9e-14
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	6e-08
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-15
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	4e-15
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	6e-11
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	2e-15
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	3e-12
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	4e-07
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	6e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	3e-15
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-12
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-10
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-15
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-14
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	4e-14
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	8e-14
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	8e-13
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	4e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	5e-15
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-13
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-13
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-13
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-12
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-11
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	7e-11
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	8e-11
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	5e-15
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-11
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-07
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	7e-15
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	3e-11
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	5e-08
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-14
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-14
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-13
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-11
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-10
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-14
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	8e-14
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-13
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	5e-13
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-12
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	4e-09
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-07
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-06
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	4e-14
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	5e-11
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	8e-14
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	8e-13
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-12
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	7e-10
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-06
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	8e-14
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-13
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	1e-13
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	7e-12
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	8e-10
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-13
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	6e-13
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	8e-13
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-11
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	9e-05
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-13
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-13
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	7e-13
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	8e-11
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-09
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	7e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-07
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	8e-06
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-13
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	5e-13
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	6e-12
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-09
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	9e-13
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-12
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-12
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	3e-12
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	3e-10
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-05
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	7e-05
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-12
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	3e-12
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	1e-12
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-12
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	1e-07
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	1e-12
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	1e-11
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-12
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	6e-11
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	3e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-12
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	7e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-07
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	4e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	5e-08
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	7e-05
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	8e-12
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-10
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-09
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	1e-11
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	7e-10
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	4e-04
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-11
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-10
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	7e-10
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-11
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	6e-09
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	5e-07
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	6e-07
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	4e-11
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	2e-08
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	5e-11
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-10
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-09
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	7e-07
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-10
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	6e-10
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	7e-10
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	9e-06
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	2e-10
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	8e-04
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	3e-10
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	1e-08
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	1e-08
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	4e-10
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	9e-10
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	5e-10
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	2e-07
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	5e-04
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	6e-10
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	8e-06
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	7e-10
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	2e-08
3e6j_A	229	Variable lymphocyte receptor diversity region; var	4e-09
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	5e-09
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	7e-09
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	7e-09
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	5e-07
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	4e-05
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	6e-09
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	3e-05
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	1e-08
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	3e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-08
3m19_A	251	Variable lymphocyte receptor A diversity region; a	3e-08
3m19_A	251	Variable lymphocyte receptor A diversity region; a	4e-07
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	6e-08
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	9e-06
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	4e-07
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	7e-05
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	2e-04
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	8e-07
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	7e-05
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	9e-07
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	3e-05
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	2e-06
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	3e-06
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	1e-04
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	3e-06
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	3e-05
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	5e-06
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	2e-04
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	5e-06
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	5e-05
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	7e-06
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	8e-05
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	1e-04

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

 Score =  101 bits (255), Expect = 5e-24
 Identities = 46/195 (23%), Positives = 78/195 (40%), Gaps = 31/195 (15%)

Query: 102 LPEVL-ECPQLQLLSLWTEKSSLITLPDNF--------FRKLTQVRVLDLTYMHLSLLPS 152
           LP  +    +L+ LS+      L  LP+           + L  ++ L L +  +  LP+
Sbjct: 142 LPASIASLNRLRELSIR-ACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPA 200

Query: 153 SLGLLTNLRTLCLYCSELQDI-AVIGELKNLEILCLRG-SYIEQLPVEIGQLTRLRSLDL 210
           S+  L NL++L +  S L  +   I  L  LE L LRG + +   P   G    L+ L L
Sbjct: 201 SIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLIL 260

Query: 211 RDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASL----EELKRLPNLTT 266
           +DC  L  +P + +  L+ LE+L +R                 +L      + +LP    
Sbjct: 261 KDCSNLLTLPLD-IHRLTQLEKLDLRG--------------CVNLSRLPSLIAQLPANCI 305

Query: 267 LELCIPDVNTLPKGL 281
           + +       L +  
Sbjct: 306 ILVPPHLQAQLDQHR 320

>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 = 95.4 bits (238), Expect = 8e-22
 Identities = 47/189 (24%), Positives = 82/189 (43%), Gaps = 27/189 (14%)

Query: 93  LHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYM-HLSLLP 151
           +  + +  L   + +   L+ L+L   ++ L  LP +    L ++R L +     L+ LP
Sbjct: 111 IDAAGLMELPDTMQQFAGLETLTL--ARNPLRALPASI-ASLNRLRELSIRACPELTELP 167

Query: 152 SSLG---------LLTNLRTLCLYCSELQDI-AVIGELKNLEILCLRGSYIEQLPVEIGQ 201
             L           L NL++L L  + ++ + A I  L+NL+ L +R S +  L   I  
Sbjct: 168 EPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHH 227

Query: 202 LTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASL-EELKR 260
           L +L  LDLR C  L+  PP      + L+ L ++  +              +L  ++ R
Sbjct: 228 LPKLEELDLRGCTALRNYPPI-FGGRAPLKRLILKDCS-----------NLLTLPLDIHR 275

Query: 261 LPNLTTLEL 269
           L  L  L+L
Sbjct: 276 LTQLEKLDL 284

>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 = 95.0 bits (237), Expect = 1e-21
 Identities = 35/189 (18%), Positives = 63/189 (33%), Gaps = 24/189 (12%)

Query: 93  LHDSKMNVLLPEVLECPQLQLLSL-WTEKSSLITLPDNFFR-KLTQVRVLDLTYMHLSLL 150
            H +                   +      +L    D            L+L  + L   
Sbjct: 37  RHYNADRNRWHSAWRQANSNNPQIETRTGRALKATADLLEDATQPGRVALELRSVPLPQF 96

Query: 151 PSSLGLLTNLRTLCLYCSELQDI-AVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLD 209
           P     L++L+ + +  + L ++   + +   LE L L  + +  LP  I  L RLR L 
Sbjct: 97  PDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELS 156

Query: 210 LRDCDRLQVIPPNV--------LSNLSHLEELYIRSFNKWEVEVEAAGVKNASL-EELKR 260
           +R C  L  +P  +           L +L+ L +  +               SL   +  
Sbjct: 157 IRACPELTELPEPLASTDASGEHQGLVNLQSLRL-EWTGIR-----------SLPASIAN 204

Query: 261 LPNLTTLEL 269
           L NL +L++
Sbjct: 205 LQNLKSLKI 213

>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 = 93.9 bits (234), Expect = 3e-21
 Identities = 38/140 (27%), Positives = 63/140 (45%), Gaps = 7/140 (5%)

Query: 101 LLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNL 160
              E      LQ L L  E + + +LP +    L  ++ L +    LS L  ++  L  L
Sbjct: 175 ASGEHQGLVNLQSLRL--EWTGIRSLPASIA-NLQNLKSLKIRNSPLSALGPAIHHLPKL 231

Query: 161 RTLCL-YCSELQDI-AVIGELKNLEILCLRG-SYIEQLPVEIGQLTRLRSLDLRDCDRLQ 217
             L L  C+ L++   + G    L+ L L+  S +  LP++I +LT+L  LDLR C  L 
Sbjct: 232 EELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLS 291

Query: 218 VIPPNVLSNLSHLEELYIRS 237
            +P   ++ L     + +  
Sbjct: 292 RLPSL-IAQLPANCIILVPP 310

>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 = 73.8 bits (182), Expect = 2e-14
 Identities = 56/344 (16%), Positives = 98/344 (28%), Gaps = 83/344 (24%)

Query: 121 SSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDI-AVIGEL 179
           ++L    D     L+Q +       +            N +        L+    ++ + 
Sbjct: 23  TALRPYHDV----LSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKATADLLEDA 78

Query: 180 K--NLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRS 237
                  L LR   + Q P +  +L+ L+ + +     L  +P   +   + LE L + +
Sbjct: 79  TQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAA-GLMELPDT-MQQFAGLETLTL-A 135

Query: 238 FNKWEVEVEAAGVKNASL-EELKRLPNLTTLEL-CIPDVNTLPKGLFFEKLERYRICIGR 295
            N              +L   +  L  L  L +   P++  LP+             +  
Sbjct: 136 RNPLR-----------ALPASIASLNRLRELSIRACPELTELPEP------------LAS 172

Query: 296 WCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSG-----LPDQDIIELVN 350
                          L L     I      I  LQ ++ L +       L    I  L  
Sbjct: 173 TDASGEHQGLVNLQSLRLE-WTGIRSLPASIANLQNLKSLKIRNSPLSALGP-AIHHLPK 230

Query: 351 NKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLP 410
                    L+ L + GC                      +      N P  F   GG  
Sbjct: 231 ---------LEELDLRGC--------------------TAL-----RNYPPIF---GGRA 253

Query: 411 NLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCL 454
            L+ L L + +   +    LP     +  L +L + GC  L  L
Sbjct: 254 PLKRLILKDCS--NL--LTLPLDIHRLTQLEKLDLRGCVNLSRL 293

>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 = 73.1 bits (180), Expect = 3e-14
 Identities = 34/139 (24%), Positives = 50/139 (35%), Gaps = 8/139 (5%)

Query: 93  LHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYM-HLSLLP 151
           L  + +  L   +     L+ L +    S L  L       L ++  LDL     L   P
Sbjct: 190 LEWTGIRSLPASIANLQNLKSLKI--RNSPLSALGPAI-HHLPKLEELDLRGCTALRNYP 246

Query: 152 SSLGLLTNLRTLCLY-CSELQDI-AVIGELKNLEILCLRG-SYIEQLPVEIGQLTRLRSL 208
              G    L+ L L  CS L  +   I  L  LE L LRG   + +LP  I QL     +
Sbjct: 247 PIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCII 306

Query: 209 DLRDCDRLQVIPPNVLSNL 227
            +    + Q +  +     
Sbjct: 307 LVPPHLQAQ-LDQHRPVAR 324

>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 = 63.4 bits (155), Expect = 4e-11
 Identities = 56/346 (16%), Positives = 94/346 (27%), Gaps = 87/346 (25%)

Query: 146 HLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTR- 204
            L      L                          N +I    G  ++     +   T+ 
Sbjct: 24  ALRPYHDVLSQWQRHYNADRNRWHS--AWRQANSNNPQIETRTGRALKATADLLEDATQP 81

Query: 205 -LRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASL-EELKRLP 262
              +L+LR    L   P      LSHL+ + I                   L + +++  
Sbjct: 82  GRVALELRSV-PLPQFPDQ-AFRLSHLQHMTI-DAAGLM-----------ELPDTMQQFA 127

Query: 263 NLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFK 322
            L TL L    +  LP                                            
Sbjct: 128 GLETLTLARNPLRALPAS------------------------------------------ 145

Query: 323 SGHIVQLQRIEDLCLSG------LPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPS-PKE 375
              I  L R+ +L +        LP+  +     +        L+ L +E     S P  
Sbjct: 146 ---IASLNRLRELSIRACPELTELPE-PLASTDASGEHQGLVNLQSLRLEWTGIRSLPAS 201

Query: 376 SKRCKESTS-EMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMS 434
               +   S ++R++ +       +         LP LE L+L       +     P + 
Sbjct: 202 IANLQNLKSLKIRNSPLS-----ALGPAI---HHLPKLEELDLRGCT--AL--RNYPPIF 249

Query: 435 CGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEI 480
            G   L RLI+  C  L  L    I     +L+ L++  C  L  +
Sbjct: 250 GGRAPLKRLILKDCSNLLTL-PLDIHR-LTQLEKLDLRGCVNLSRL 293

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

 Score = 89.2 bits (221), Expect = 9e-19
 Identities = 57/475 (12%), Positives = 136/475 (28%), Gaps = 87/475 (18%)

Query: 65  NVLTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLI 124
           +  T+   L    E   + + +    I +H  KM +   + L    L   ++      + 
Sbjct: 357 HSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQDAI-NRNPEMK 415

Query: 125 TLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEI 184
            +  +    L   ++ +LT   ++ +  ++  LT L+ +    S          +   + 
Sbjct: 416 PIKKDSRISLKDTQIGNLTN-RITFISKAIQRLTKLQIIYFANSPFTYD--NIAVDWEDA 472

Query: 185 LCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVE 244
                   E   +    L  L  ++L +C  +  +P   L +L  L+ L I + N+    
Sbjct: 473 NSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPD-FLYDLPELQSLNI-ACNRGISA 530

Query: 245 VEAAGVKNASLEELKRLPNLTTLELCIPDVN---TLPKGLFFEKLERYRICIGRWCWEDT 301
            +         ++    P +    +     N     P     +K+ +  +          
Sbjct: 531 AQLKADWTRLADDEDTGPKIQIFYM---GYNNLEEFPASASLQKMVKLGL---------- 577

Query: 302 SPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSG-----LPDQDIIELVNNKLGSY 356
                    L     N +           ++ DL L       +P+            ++
Sbjct: 578 ---------LDCV-HNKVRHLE-AFGTNVKLTDLKLDYNQIEEIPED---------FCAF 617

Query: 357 SSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLE 416
           + Q++ L     +                       L+    +PN F     +  + +++
Sbjct: 618 TDQVEGLGFSHNK-----------------------LKY---IPNIFNA-KSVYVMGSVD 650

Query: 417 LYNVNVERIWKSQLPAMS-CGIQTLTRLIVYGCGELRCLFSSSIVNSF---IRLQHLEID 472
                +    ++   +M        + + +                 F     +  + + 
Sbjct: 651 FSYNKIGSEGRNISCSMDDYKGINASTVTLSY-----NEIQKFPTELFATGSPISTIILS 705

Query: 473 ECPILEEIIVIDQQERKNVVFPQLQFLKMVDLE--KLTSFCTGDVHIEFPTLETL 525
              +    I  +  + K+  +     L  +DL   KLTS          P L  +
Sbjct: 706 NNLM--TSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNM 758

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

 Score = 75.3 bits (185), Expect = 2e-14
 Identities = 24/185 (12%), Positives = 60/185 (32%), Gaps = 35/185 (18%)

Query: 103 PEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS--------SL 154
            +  +      ++L    + +   P   F   + +  + L+   ++ +P         + 
Sbjct: 667 MDDYKGINASTVTL--SYNEIQKFPTELFATGSPISTIILSNNLMTSIPENSLKPKDGNY 724

Query: 155 GLLTNLRTLCLYCSELQDI---AVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLR 211
                L T+ L  ++L  +        L  L  + +  +     P +    ++L++  +R
Sbjct: 725 KNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSSQLKAFGIR 784

Query: 212 DCD-----RLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEEL--KRLPNL 264
                   R+    P  ++    L +L I   N               + ++  K  P L
Sbjct: 785 HQRDAEGNRILRQWPTGITTCPSLIQLQI-GSND--------------IRKVDEKLTPQL 829

Query: 265 TTLEL 269
             L++
Sbjct: 830 YILDI 834

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

 Score = 74.5 bits (183), Expect = 4e-14
 Identities = 48/394 (12%), Positives = 109/394 (27%), Gaps = 75/394 (19%)

Query: 93  LHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTY-------- 144
            +  +             L  + L+    ++  LPD  +  L +++ L++          
Sbjct: 475 DYAKQYENEELSWSNLKDLTDVELY-NCPNMTQLPDFLY-DLPELQSLNIACNRGISAAQ 532

Query: 145 --MHLSLLPSSLGLLTNLRTLCLYCSELQDI---AVIGELKNLEILCLRGSYIEQLPVEI 199
                + L         ++   +  + L++    A + ++  L +L    + +  L    
Sbjct: 533 LKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHNKVRHLE-AF 591

Query: 200 GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELK 259
           G   +L  L L    +++ IP +  +    +E L   S NK +           ++   K
Sbjct: 592 GTNVKLTDLKLDYN-QIEEIPEDFCAFTDQVEGLGF-SHNKLKY--------IPNIFNAK 641

Query: 260 RLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCI 319
            +  + +++     + +  + +                             + L   N I
Sbjct: 642 SVYVMGSVDFSYNKIGSEGRNIS---------------CSMDDYKGINASTVTLS-YNEI 685

Query: 320 S-FKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKR 378
             F +        I  + LS           NN + S               P     K 
Sbjct: 686 QKFPTELFATGSPISTIILS-----------NNLMTSIPENSLK--------PKDGNYKN 726

Query: 379 CKESTS-EMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGI 437
               T+ ++R N++      ++ + F     LP L  +++          S  P      
Sbjct: 727 TYLLTTIDLRFNKL-----TSLSDDFRA-TTLPYLSNMDVSYNCF-----SSFPTQPLNS 775

Query: 438 QTLTRLIVYGCGEL-RCLFSSSIVNSFIRLQHLE 470
             L    +    +                   L 
Sbjct: 776 SQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLI 809

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

 Score = 62.2 bits (151), Expect = 3e-10
 Identities = 22/160 (13%), Positives = 54/160 (33%), Gaps = 17/160 (10%)

Query: 93  LHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNF-FRKLTQVRVLDLTYMHLSLLP 151
           + ++ +            L  + L    + L +L D+F    L  +  +D++Y   S  P
Sbjct: 712 IPENSLKPKDGNYKNTYLLTTIDL--RFNKLTSLSDDFRATTLPYLSNMDVSYNCFSSFP 769

Query: 152 SSLGLLTNLRTLCLYCSELQDIA----------VIGELKNLEILCLRGSYIEQLPVEIGQ 201
           +     + L+         +D             I    +L  L +  + I ++  ++  
Sbjct: 770 TQPLNSSQLKAF--GIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSNDIRKVDEKL-- 825

Query: 202 LTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKW 241
             +L  LD+ D   + +   +V   +     + +    + 
Sbjct: 826 TPQLYILDIADNPNISIDVTSVCPYIEAGMYVLLYDKTQD 865

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

 Score = 61.8 bits (150), Expect = 4e-10
 Identities = 27/208 (12%), Positives = 60/208 (28%), Gaps = 38/208 (18%)

Query: 89  TSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL 147
           T + L        +P+ + +  +L++LS  T   ++             +       + +
Sbjct: 326 TGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRIRM 385

Query: 148 SLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSY-------IEQLPVEIG 200
                 L     L    L    +     +  +K    + L+ +        I  +   I 
Sbjct: 386 HYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNRITFISKAIQ 445

Query: 201 QLTRLRSLDLRDC------------------DRLQVIPPNVLSNLSHLEELYIRSFNKWE 242
           +LT+L+ +   +                    +         SNL  L ++ + +     
Sbjct: 446 RLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMT 505

Query: 243 VEVEAAGVKNASL-EELKRLPNLTTLEL 269
                       L + L  LP L +L +
Sbjct: 506 -----------QLPDFLYDLPELQSLNI 522

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

 Score = 46.8 bits (111), Expect = 2e-05
 Identities = 44/330 (13%), Positives = 82/330 (24%), Gaps = 73/330 (22%)

Query: 148 SLLPSSLGLLTNLRTLCLYCSELQDIAV-IGELKNLEILCLRGSYIE-QLPVEIGQLTRL 205
           S   ++     N               V +     +  L L G   + ++P  IGQLT L
Sbjct: 290 SGTINNTIHSLNWNFNKELDMWGDQPGVDLDNNGRVTGLSLAGFGAKGRVPDAIGQLTEL 349

Query: 206 RSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLT 265
           + L         V            +    R               +     L     L 
Sbjct: 350 KVLSFGTH-SETVSGRLFGDEELTPDMSEERKHRI---------RMHYKKMFLDYDQRLN 399

Query: 266 TLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGH 325
             +L    +N  P+    +K  R                 S     +    N I+F S  
Sbjct: 400 LSDLLQDAINRNPEMKPIKKDSR----------------ISLKDTQIGNLTNRITFISKA 443

Query: 326 IVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSE 385
           I +L +++ +  +           N+                              ++  
Sbjct: 444 IQRLTKLQIIYFA-----------NSPFTY----------------DNIAVDWEDANSDY 476

Query: 386 MRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIV 445
            +  E           ++     L +L  +ELYN        +QLP     +  L  L +
Sbjct: 477 AKQYENE-------ELSW---SNLKDLTDVELYNCPN----MTQLPDFLYDLPELQSLNI 522

Query: 446 YG----CGELRCLFSSSIVNSFIRLQHLEI 471
                          + + +       ++I
Sbjct: 523 ACNRGISAAQLKADWTRLADDEDTGPKIQI 552

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

 Score = 44.9 bits (106), Expect = 7e-05
 Identities = 38/348 (10%), Positives = 79/348 (22%), Gaps = 102/348 (29%)

Query: 112 QLLSLWTEKSSL---ITLPDNFFRKLTQVRVLDLTYMHLS-LLPSSLGLLTNLRTLCLYC 167
                W     L      P        +V  L L        +P ++G LT L+ L    
Sbjct: 297 IHSLNWNFNKELDMWGDQPGVDLDNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGT 356

Query: 168 SELQDIA---------------------------VIGELKNLEILCLRGSYIEQLPVEIG 200
                                              +   + L +  L    I + P E+ 
Sbjct: 357 HSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNP-EMK 415

Query: 201 QLTRLRSLDLRDCD------RLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNAS 254
            + +   + L+D        R+  I    +  L+ L+ +Y  + +               
Sbjct: 416 PIKKDSRISLKDTQIGNLTNRITFISKA-IQRLTKLQIIYF-ANSP-------------- 459

Query: 255 LEELKRLPNLTTLELCIPDVNTLPKGL--FFEKLERYRICIGRWCWEDTSPTCSRTFRLL 312
                        E    D     +     +  L+                       + 
Sbjct: 460 ---FTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTD-------------------VE 497

Query: 313 LGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPS 372
           L     ++     +  L  ++ L ++            N+  S +               
Sbjct: 498 LYNCPNMTQLPDFLYDLPELQSLNIA-----------CNRGISAAQLKADW------TRL 540

Query: 373 PKESKRCKESTS-EMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYN 419
             +     +     M  N +        P +  L   +  L  L+  +
Sbjct: 541 ADDEDTGPKIQIFYMGYNNL-----EEFPASASL-QKMVKLGLLDCVH 582

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

 Score = 84.0 bits (208), Expect = 1e-17
 Identities = 44/178 (24%), Positives = 73/178 (41%), Gaps = 18/178 (10%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYC 167
              +LL+L   ++ +  +  N F+ L  + +L L+  H+  +   +   L NL TL L+ 
Sbjct: 64  TNTRLLNL--HENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFD 121

Query: 168 SELQDIA--VIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVL 224
           + L  I       L  L+ L LR + IE +P     ++  LR LDL +  RL  I     
Sbjct: 122 NRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAF 181

Query: 225 SNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLF 282
             LS+L  L + +                 +  L  L  L  L+L    ++ +  G F
Sbjct: 182 EGLSNLRYLNL-AMCNL-----------REIPNLTPLIKLDELDLSGNHLSAIRPGSF 227

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

 Score = 74.0 bits (182), Expect = 3e-14
 Identities = 35/132 (26%), Positives = 62/132 (46%), Gaps = 6/132 (4%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYM-HLSLLPS-SLGLLTNLRTLCLY 166
            +L+ L L    + + ++P   F ++  +R LDL  +  LS +   +   L+NLR L L 
Sbjct: 136 SKLKELWL--RNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLA 193

Query: 167 CSELQDIAVIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLS 225
              L++I  +  L  L+ L L G+++  +       L  L+ L +    ++QVI  N   
Sbjct: 194 MCNLREIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQS-QIQVIERNAFD 252

Query: 226 NLSHLEELYIRS 237
           NL  L E+ +  
Sbjct: 253 NLQSLVEINLAH 264

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

 Score = 45.1 bits (107), Expect = 5e-05
 Identities = 55/298 (18%), Positives = 92/298 (30%), Gaps = 103/298 (34%)

Query: 136 QVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDI--AVIGELKNLEILCLRGSYIE 193
           Q   +     +L  +P   G+ TN R L L+ +++Q I       L++LEIL L  ++I 
Sbjct: 44  QFSKVICVRKNLREVPD--GISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIR 101

Query: 194 QLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKN 252
            + +     L  L +L+L D  RL  IP      LS L+EL++   N             
Sbjct: 102 TIEIGAFNGLANLNTLELFDN-RLTTIPNGAFVYLSKLKELWL-RNNP------------ 147

Query: 253 ASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLL 312
                                + ++P   F  ++   R                   RL 
Sbjct: 148 ---------------------IESIPSYAF-NRIPSLR-------------------RLD 166

Query: 313 LGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYS-----SQLKHLWVEG 367
           LG             +L  I +    GL +   + L    L          +L  L    
Sbjct: 167 LGELK----------RLSYISEGAFEGLSNLRYLNLAMCNLREIPNLTPLIKLDELD--- 213

Query: 368 CQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERI 425
                             +  N +       +    F   GL +L+ L +    ++ I
Sbjct: 214 ------------------LSGNHL-----SAIRPGSF--QGLMHLQKLWMIQSQIQVI 246

>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 = 82.0 bits (203), Expect = 2e-17
 Identities = 38/200 (19%), Positives = 74/200 (37%), Gaps = 17/200 (8%)

Query: 89  TSIVLHDSKMNVLLPEVLE-CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL 147
           T + L  +K+  L   V +   QL  LSL +   S            T ++ LDL++  +
Sbjct: 31  TRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGV 90

Query: 148 SLLPSSLGLLTNLRTLCLYC---SELQDIAVIGELKNLEILCLRGSYIEQLPVEI-GQLT 203
             + S+   L  L  L        ++ + +V   L+NL  L +  ++       I   L+
Sbjct: 91  ITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLS 150

Query: 204 RLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNK-WEVEVEAAGVKNASLEELKRLP 262
            L  L +      +   P++ + L +L  L + S  +  ++   A             L 
Sbjct: 151 SLEVLKMAGNSFQENFLPDIFTELRNLTFLDL-SQCQLEQLSPTA----------FNSLS 199

Query: 263 NLTTLELCIPDVNTLPKGLF 282
           +L  L +   +  +L    +
Sbjct: 200 SLQVLNMSHNNFFSLDTFPY 219

>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 = 66.2 bits (162), Expect = 4e-12
 Identities = 31/138 (22%), Positives = 58/138 (42%), Gaps = 10/138 (7%)

Query: 109 PQLQLLSLWTEKSSLITLPD-NFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLY 166
            QL+ L    + S+L  + + + F  L  +  LD+++ H  +  +     L++L  L + 
Sbjct: 101 EQLEHLDF--QHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMA 158

Query: 167 -CSELQDIA--VIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPN 222
             S  ++    +  EL+NL  L L    +EQL       L+ L+ L++        +   
Sbjct: 159 GNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHN-NFFSLDTF 217

Query: 223 VLSNLSHLEELYIRSFNK 240
               L+ L+ L   S N 
Sbjct: 218 PYKCLNSLQVLDY-SLNH 234

>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 = 64.3 bits (157), Expect = 2e-11
 Identities = 32/154 (20%), Positives = 53/154 (34%), Gaps = 20/154 (12%)

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS-LGLLTNLRTLCLYCSELQDIAVIGE-- 178
            L ++P       T    L+L    L  LP      LT L  L L  + L       +  
Sbjct: 18  GLTSVPTGIPSSAT---RLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSD 74

Query: 179 --LKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP-NVLSNLSHLEELYI 235
               +L+ L L  + +  +      L +L  LD +    L+ +   +V  +L +L  L I
Sbjct: 75  FGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDI 133

Query: 236 RSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
            S             + A       L +L  L++
Sbjct: 134 -SHTH---------TRVAFNGIFNGLSSLEVLKM 157

>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 = 82.9 bits (205), Expect = 5e-17
 Identities = 39/178 (21%), Positives = 67/178 (37%), Gaps = 18/178 (10%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYC 167
              + L+L   ++++  +  + FR L  + VL L    +  +   +   L +L TL L+ 
Sbjct: 75  SNTRYLNL--MENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFD 132

Query: 168 SELQDIA--VIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVL 224
           + L  I       L  L  L LR + IE +P     ++  L  LDL +  +L+ I     
Sbjct: 133 NWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAF 192

Query: 225 SNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLF 282
             L +L+ L +                   +  L  L  L  LE+       +  G F
Sbjct: 193 EGLFNLKYLNL-GMCNI-----------KDMPNLTPLVGLEELEMSGNHFPEIRPGSF 238

>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 = 73.2 bits (180), Expect = 6e-14
 Identities = 29/132 (21%), Positives = 60/132 (45%), Gaps = 6/132 (4%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYM-HLSLLPS-SLGLLTNLRTLCLY 166
            +L+ L L    + + ++P   F ++  +  LDL  +  L  +   +   L NL+ L L 
Sbjct: 147 SKLRELWL--RNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLG 204

Query: 167 CSELQDIAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLS 225
              ++D+  +  L  LE L + G++  ++       L+ L+ L + +  ++ +I  N   
Sbjct: 205 MCNIKDMPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNS-QVSLIERNAFD 263

Query: 226 NLSHLEELYIRS 237
            L+ L EL +  
Sbjct: 264 GLASLVELNLAH 275

>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 = 43.6 bits (103), Expect = 1e-04
 Identities = 57/292 (19%), Positives = 85/292 (29%), Gaps = 103/292 (35%)

Query: 136 QVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDI--AVIGELKNLEILCLRGSYIE 193
           Q   +  T   LS +P   G+ +N R L L  + +Q I       L +LE+L L  + I 
Sbjct: 55  QFSKVVCTRRGLSEVPQ--GIPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIR 112

Query: 194 QLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKN 252
           Q+ V     L  L +L+L D   L VIP      LS L EL++   N             
Sbjct: 113 QIEVGAFNGLASLNTLELFDN-WLTVIPSGAFEYLSKLRELWL-RNNP------------ 158

Query: 253 ASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLL 312
                                + ++P   F                           RL 
Sbjct: 159 ---------------------IESIPSYAFNR--------------------VPSLMRLD 177

Query: 313 LGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYS-----SQLKHLWVEG 367
           LG             +L+ I +    GL +   + L    +           L+ L    
Sbjct: 178 LGELK----------KLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVGLEEL---- 223

Query: 368 CQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYN 419
                            EM  N         +    F   GL +L+ L + N
Sbjct: 224 -----------------EMSGNHF-----PEIRPGSF--HGLSSLKKLWVMN 251

>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 = 80.8 bits (200), Expect = 2e-16
 Identities = 35/182 (19%), Positives = 67/182 (36%), Gaps = 24/182 (13%)

Query: 89  TSIVLHDSKMNVLLP-EVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL 147
           ++ +  D+ +N +     L     + +     K+++          L QV  L    + +
Sbjct: 5   SATITQDTPINQIFTDTALA----EKMKTVLGKTNVTDTVS--QTDLDQVTTLQADRLGI 58

Query: 148 SLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRS 207
             +   +  L NL  +    ++L DI  +  L  L  + +  + I  +   +  LT L  
Sbjct: 59  KSI-DGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADIT-PLANLTNLTG 116

Query: 208 LDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTL 267
           L L +  ++  I P  L NL++L  L + S N               +  L  L +L  L
Sbjct: 117 LTLFNN-QITDIDP--LKNLTNLNRLEL-SSNTIS-----------DISALSGLTSLQQL 161

Query: 268 EL 269
             
Sbjct: 162 SF 163

>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 = 74.2 bits (183), Expect = 2e-14
 Identities = 47/168 (27%), Positives = 76/168 (45%), Gaps = 22/168 (13%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
           +  +     LQ LS   + + L  L       LT +  LD++   +S +   L  LTNL 
Sbjct: 149 ISALSGLTSLQQLSFGNQVTDLKPL-----ANLTTLERLDISSNKVSDISV-LAKLTNLE 202

Query: 162 TLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP 221
           +L    +++ DI  +G L NL+ L L G+ ++ +   +  LT L  LDL +  ++  + P
Sbjct: 203 SLIATNNQISDITPLGILTNLDELSLNGNQLKDIG-TLASLTNLTDLDLANN-QISNLAP 260

Query: 222 NVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
             LS L+ L EL +   N+             ++  L  L  LT LEL
Sbjct: 261 --LSGLTKLTELKL-GANQIS-----------NISPLAGLTALTNLEL 294

>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 = 73.1 bits (180), Expect = 7e-14
 Identities = 41/168 (24%), Positives = 68/168 (40%), Gaps = 21/168 (12%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
           +  +     L  L L    + +  L       LT++  L L    +S +   L  LT L 
Sbjct: 236 IGTLASLTNLTDLDL--ANNQISNLAP--LSGLTKLTELKLGANQISNISP-LAGLTALT 290

Query: 162 TLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP 221
            L L  ++L+DI+ I  LKNL  L L  + I  +   +  LT+L+ L   +  ++  +  
Sbjct: 291 NLELNENQLEDISPISNLKNLTYLTLYFNNISDIS-PVSSLTKLQRLFFYNN-KVSDVSS 348

Query: 222 NVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
             L+NL+++  L     N+              L  L  L  +T L L
Sbjct: 349 --LANLTNINWLSA-GHNQIS-----------DLTPLANLTRITQLGL 382

>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 = 71.1 bits (175), Expect = 2e-13
 Identities = 64/325 (19%), Positives = 120/325 (36%), Gaps = 74/325 (22%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
           +  +     L  L+L+  +   IT  D   + LT +  L+L+   +S + + L  LT+L+
Sbjct: 105 ITPLANLTNLTGLTLFNNQ---ITDIDPL-KNLTNLNRLELSSNTISDISA-LSGLTSLQ 159

Query: 162 TLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP 221
            L     ++ D+  +  L  LE L +  + +  +   + +LT L SL   +  ++  I P
Sbjct: 160 QLSFGN-QVTDLKPLANLTTLERLDISSNKVSDIS-VLAKLTNLESLIATNN-QISDITP 216

Query: 222 NVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELC------IPDVN 275
             L  L++L+EL + + N+ +            +  L  L NLT L+L       +  ++
Sbjct: 217 --LGILTNLDELSL-NGNQLK-----------DIGTLASLTNLTDLDLANNQISNLAPLS 262

Query: 276 TLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDL 335
            L K      L                        L LG  N IS  S  +  L  + +L
Sbjct: 263 GLTK------LTE----------------------LKLG-ANQISNISP-LAGLTALTNL 292

Query: 336 CLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKE-STSEMRSNEIILE 394
            L+    +DI  + N K       L +L +               +       +N++   
Sbjct: 293 ELNENQLEDISPISNLK------NLTYLTLYFNNISDISPVSSLTKLQRLFFYNNKV--- 343

Query: 395 DHVNVPNTFFLKGGLPNLETLELYN 419
              +  ++      L N+  L   +
Sbjct: 344 ---SDVSSL---ANLTNINWLSAGH 362

>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 = 68.5 bits (168), Expect = 2e-12
 Identities = 32/176 (18%), Positives = 64/176 (36%), Gaps = 10/176 (5%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
           L  +    +L  L L    + +  +       LT +  L+L    L  +   +  L NL 
Sbjct: 258 LAPLSGLTKLTELKL--GANQISNISP--LAGLTALTNLELNENQLEDISP-ISNLKNLT 312

Query: 162 TLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP 221
            L LY + + DI+ +  L  L+ L    + +  +   +  LT +  L      ++  + P
Sbjct: 313 YLTLYFNNISDISPVSSLTKLQRLFFYNNKVSDVS-SLANLTNINWLSAGHN-QISDLTP 370

Query: 222 NVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTL 277
             L+NL+ + +L + +   W           +    +K +         I D  + 
Sbjct: 371 --LANLTRITQLGL-NDQAWTNAPVNYKANVSIPNTVKNVTGALIAPATISDGGSY 423

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

 Score = 59.2 bits (144), Expect = 2e-09
 Identities = 26/134 (19%), Positives = 51/134 (38%), Gaps = 7/134 (5%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
           +  +     L  L+L+    S I+        LT+++ L      +S + S L  LTN+ 
Sbjct: 302 ISPISNLKNLTYLTLYFNNISDIS----PVSSLTKLQRLFFYNNKVSDVSS-LANLTNIN 356

Query: 162 TLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP 221
            L    +++ D+  +  L  +  L L        PV       + +  +++     +I P
Sbjct: 357 WLSAGHNQISDLTPLANLTRITQLGLNDQAWTNAPVNYKANVSIPNT-VKNVTGA-LIAP 414

Query: 222 NVLSNLSHLEELYI 235
             +S+     E  I
Sbjct: 415 ATISDGGSYTEPDI 428

>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 = 81.3 bits (201), Expect = 2e-16
 Identities = 50/312 (16%), Positives = 103/312 (33%), Gaps = 33/312 (10%)

Query: 123 LITLPDNFFRKLTQVRVLDLTYMHLSLLP-SSLGLLTNLRTLCLYCSELQDIA--VIGEL 179
           +  +     R    ++VL L    ++ +   +   L +L  L L  + L  ++    G L
Sbjct: 38  ITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPL 97

Query: 180 KNLEILCLRGSYIEQLPV--EIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRS 237
            +L+ L L G+  + L V      LT L++L + + +    I     + L+ L EL I  
Sbjct: 98  SSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEI-K 156

Query: 238 FNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLF--FEKLERYRICIGR 295
                       ++N   + LK + ++  L L + +   L +        +    +    
Sbjct: 157 ALS---------LRNYQSQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYLELRDTN 207

Query: 296 WCWEDTSPTCSRTF--RLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKL 353
                 SP         +                +L ++    L  L + +  +   N L
Sbjct: 208 LARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILE-LSEVEFDDCTLNGL 266

Query: 354 GSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLE 413
           G ++     +            S+  K  T  +R   I         +T +    L  ++
Sbjct: 267 GDFNPSESDVV-----------SELGKVETVTIRRLHIPQFYLFYDLSTVY--SLLEKVK 313

Query: 414 TLELYNVNVERI 425
            + + N  V  +
Sbjct: 314 RITVENSKVFLV 325

>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 = 64.4 bits (157), Expect = 4e-11
 Identities = 22/133 (16%), Positives = 59/133 (44%), Gaps = 10/133 (7%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCS 168
             L  L +   +++   +PD+      ++R L+L+   + ++ +   +   L  L +  +
Sbjct: 387 KNLTSLDI--SRNTFHPMPDSCQ-WPEKMRFLNLSSTGIRVVKT--CIPQTLEVLDVSNN 441

Query: 169 ELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLS 228
            L   ++   L  L+ L +  + ++ LP +      L  + +    +L+ +P  +   L+
Sbjct: 442 NLDSFSL--FLPRLQELYISRNKLKTLP-DASLFPVLLVMKISRN-QLKSVPDGIFDRLT 497

Query: 229 HLEELYIRSFNKW 241
            L+++++   N W
Sbjct: 498 SLQKIWL-HTNPW 509

>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 = 63.6 bits (155), Expect = 9e-11
 Identities = 31/162 (19%), Positives = 59/162 (36%), Gaps = 17/162 (10%)

Query: 108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYC 167
            P LQ L L       +         L  +  LD++      +P S      +R L L  
Sbjct: 360 WPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLNLSS 419

Query: 168 SELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNL 227
           + ++ +      + LE+L +  + ++   +    L RL+ L +    +L+ +P   L   
Sbjct: 420 TGIRVVKT-CIPQTLEVLDVSNNNLDSFSLF---LPRLQELYISRN-KLKTLPDASL--F 472

Query: 228 SHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
             L  + I   N+         +K+       RL +L  + L
Sbjct: 473 PVLLVMKISR-NQ---------LKSVPDGIFDRLTSLQKIWL 504

>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 = 61.3 bits (149), Expect = 5e-10
 Identities = 51/306 (16%), Positives = 103/306 (33%), Gaps = 44/306 (14%)

Query: 139 VLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDI--AVIGELKNLEILCLRGSYIEQLP 196
           V D      + +PS  GL   +++L L  +++  I    +    NL++L L+ S I  + 
Sbjct: 9   VCDGRSRSFTSIPS--GLTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIE 66

Query: 197 VEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASL 255
            +    L  L  LDL D   L  +  +    LS L+ L +   N ++     +       
Sbjct: 67  GDAFYSLGSLEHLDLSDN-HLSSLSSSWFGPLSSLKYLNL-MGNPYQTLGVTS------- 117

Query: 256 EELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGT 315
                L NL TL +   +  +  + + F  L                        L +  
Sbjct: 118 -LFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNE-------------------LEIKA 157

Query: 316 DNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ------ 369
            +  +++S  +  ++ I  L L       ++E+  + L    S +++L +          
Sbjct: 158 LSLRNYQSQSLKSIRDIHHLTLHLSESAFLLEIFADIL----SSVRYLELRDTNLARFQF 213

Query: 370 APSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQ 429
           +P P +           R + +  E    +         L  +E  +     +     S+
Sbjct: 214 SPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSE 273

Query: 430 LPAMSC 435
              +S 
Sbjct: 274 SDVVSE 279

>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 = 78.7 bits (195), Expect = 4e-16
 Identities = 63/341 (18%), Positives = 114/341 (33%), Gaps = 80/341 (23%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
           +    E   +  L +      + ++       LT +  L+L    ++ +   L  L  L 
Sbjct: 37  VVTQEELESITKLVV--AGEKVASIQG--IEYLTNLEYLNLNGNQITDISP-LSNLVKLT 91

Query: 162 TLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP 221
            L +  +++ DI+ +  L NL  L L    I  +   +  LT++ SL+L     L  + P
Sbjct: 92  NLYIGTNKITDISALQNLTNLRELYLNEDNISDIS-PLANLTKMYSLNLGANHNLSDLSP 150

Query: 222 NVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELC------IPDVN 275
             LSN++ L  L + + +K +            +  +  L +L +L L       I  + 
Sbjct: 151 --LSNMTGLNYLTV-TESKVK-----------DVTPIANLTDLYSLSLNYNQIEDISPLA 196

Query: 276 TLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDL 335
           +L        L                              N I+     +  + R+  L
Sbjct: 197 SLTS------LHY----------------------FTAY-VNQIT-DITPVANMTRLNSL 226

Query: 336 CLSGLPDQDIIELVN-----------NKLGSYSS-----QLKHLWVEGCQAPSPKESKRC 379
            +      D+  L N           N++   ++     +LK L V   Q          
Sbjct: 227 KIGNNKITDLSPLANLSQLTWLEIGTNQISDINAVKDLTKLKMLNVGSNQISDISVLNNL 286

Query: 380 KESTS-EMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYN 419
            +  S  + +N++  ED           GGL NL TL L  
Sbjct: 287 SQLNSLFLNNNQLGNED----MEVI---GGLTNLTTLFLSQ 320

>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 = 77.6 bits (192), Expect = 9e-16
 Identities = 29/137 (21%), Positives = 55/137 (40%), Gaps = 17/137 (12%)

Query: 133 KLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYI 192
            L +     L    ++ + +    L ++  L +   ++  I  I  L NLE L L G+ I
Sbjct: 20  DLAEGIRAVLQKASVTDVVT-QEELESITKLVVAGEKVASIQGIEYLTNLEYLNLNGNQI 78

Query: 193 EQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKN 252
             +   +  L +L +L +    ++  I    L NL++L ELY+ + +             
Sbjct: 79  TDIS-PLSNLVKLTNLYIGTN-KITDISA--LQNLTNLRELYL-NEDNIS---------- 123

Query: 253 ASLEELKRLPNLTTLEL 269
             +  L  L  + +L L
Sbjct: 124 -DISPLANLTKMYSLNL 139

>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 = 76.4 bits (189), Expect = 3e-15
 Identities = 28/168 (16%), Positives = 67/168 (39%), Gaps = 19/168 (11%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
           +  +     L   + +   + +  +       +T++  L +    ++ L   L  L+ L 
Sbjct: 192 ISPLASLTSLHYFTAY--VNQITDITP--VANMTRLNSLKIGNNKITDLSP-LANLSQLT 246

Query: 162 TLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP 221
            L +  +++ DI  + +L  L++L +  + I  +   +  L++L SL L +  +L     
Sbjct: 247 WLEIGTNQISDINAVKDLTKLKMLNVGSNQISDIS-VLNNLSQLNSLFLNNN-QLGNEDM 304

Query: 222 NVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
            V+  L++L  L++ S N               +  L  L  + + + 
Sbjct: 305 EVIGGLTNLTTLFL-SQNHIT-----------DIRPLASLSKMDSADF 340

>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 = 68.0 bits (167), Expect = 1e-12
 Identities = 32/140 (22%), Positives = 62/140 (44%), Gaps = 10/140 (7%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
           +  V    +L  L +    + +  L       L+Q+  L++    +S + + +  LT L+
Sbjct: 214 ITPVANMTRLNSLKI--GNNKITDLS--PLANLSQLTWLEIGTNQISDINA-VKDLTKLK 268

Query: 162 TLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIP 220
            L +  +++ DI+V+  L  L  L L  + +    +E IG LT L +L L     +  I 
Sbjct: 269 MLNVGSNQISDISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQN-HITDIR 327

Query: 221 PNVLSNLSHLEELYIRSFNK 240
           P  L++LS ++     +   
Sbjct: 328 P--LASLSKMDSADF-ANQV 344

>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 = 52.9 bits (128), Expect = 1e-07
 Identities = 18/110 (16%), Positives = 38/110 (34%), Gaps = 16/110 (14%)

Query: 160 LRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVI 219
             TL    + +  I    +L       L+ + +  +     +L  +  L +    ++  I
Sbjct: 2   AATLATLPAPINQIFPDADLAEGIRAVLQKASVTDVV-TQEELESITKLVVAGE-KVASI 59

Query: 220 PPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
               +  L++LE L + + N           +   +  L  L  LT L +
Sbjct: 60  QG--IEYLTNLEYLNL-NGN-----------QITDISPLSNLVKLTNLYI 95

>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 = 40.6 bits (96), Expect = 9e-04
 Identities = 22/94 (23%), Positives = 41/94 (43%), Gaps = 5/94 (5%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLS-LLPSSLGLLTNL 160
           +  V +  +L++L++    S+ I+        L+Q+  L L    L       +G LTNL
Sbjct: 258 INAVKDLTKLKMLNVG---SNQISDISVL-NNLSQLNSLFLNNNQLGNEDMEVIGGLTNL 313

Query: 161 RTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQ 194
            TL L  + + DI  +  L  ++        I++
Sbjct: 314 TTLFLSQNHITDIRPLASLSKMDSADFANQVIKK 347

>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 = 74.6 bits (184), Expect = 1e-15
 Identities = 25/138 (18%), Positives = 53/138 (38%), Gaps = 14/138 (10%)

Query: 133 KLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYI 192
           ++  +  + L  ++++ L + +    N++ L +      +   I  L NLE L + G  +
Sbjct: 42  QMNSLTYITLANINVTDL-TGIEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGKDV 100

Query: 193 EQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVK 251
               +  +  LT L  LD+             ++ L  +  + + S+N            
Sbjct: 101 TSDKIPNLSGLTSLTLLDISHS-AHDDSILTKINTLPKVNSIDL-SYNG----------A 148

Query: 252 NASLEELKRLPNLTTLEL 269
              +  LK LP L +L +
Sbjct: 149 ITDIMPLKTLPELKSLNI 166

>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 = 71.5 bits (176), Expect = 1e-14
 Identities = 26/140 (18%), Positives = 52/140 (37%), Gaps = 18/140 (12%)

Query: 133 KLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAV--IGELKNLEILCLRGS 190
               ++ L +  +H +   + +  L+NL  L +   ++    +  +  L +L +L +  S
Sbjct: 64  YAHNIKDLTINNIHATNY-NPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHS 122

Query: 191 YIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAG 249
             +   +  I  L ++ S+DL     +  I P  L  L  L+ L I  F+          
Sbjct: 123 AHDDSILTKINTLPKVNSIDLSYNGAITDIMP--LKTLPELKSLNI-QFDGVH------- 172

Query: 250 VKNASLEELKRLPNLTTLEL 269
                   ++  P L  L  
Sbjct: 173 ----DYRGIEDFPKLNQLYA 188

>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 = 41.5 bits (98), Expect = 2e-04
 Identities = 18/84 (21%), Positives = 27/84 (32%), Gaps = 2/84 (2%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCS 168
             L LL +         L       L +V  +DL+Y         L  L  L++L +   
Sbjct: 112 TSLTLLDISHSAHDDSILT--KINTLPKVNSIDLSYNGAITDIMPLKTLPELKSLNIQFD 169

Query: 169 ELQDIAVIGELKNLEILCLRGSYI 192
            + D   I +   L  L      I
Sbjct: 170 GVHDYRGIEDFPKLNQLYAFSQTI 193

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 76.3 bits (188), Expect = 1e-15
 Identities = 45/164 (27%), Positives = 66/164 (40%), Gaps = 19/164 (11%)

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS-LGLLTNLRTLCLYCSELQDIAVIGELK 180
           +L  LP +         +L L+   L     + L   T L  L L  +EL  + V G L 
Sbjct: 21  NLTALPPDLP---KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLP 77

Query: 181 NLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNK 240
            L  L L  + ++ LP+    L  L  LD+    RL  +P   L  L  L+ELY++  N+
Sbjct: 78  VLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFN-RLTSLPLGALRGLGELQELYLKG-NE 135

Query: 241 WEVEVEAAGVKNASLEE--LKRLPNLTTLELCIPDVNTLPKGLF 282
            +           +L    L   P L  L L   ++  LP GL 
Sbjct: 136 LK-----------TLPPGLLTPTPKLEKLSLANNNLTELPAGLL 168

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 70.9 bits (174), Expect = 9e-14
 Identities = 35/153 (22%), Positives = 66/153 (43%), Gaps = 9/153 (5%)

Query: 89  TSIVLHDSKMNVLLPEVLE-CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL 147
           T + L ++ +       L    +L  L+L  +++ L  L       L  +  LDL++  L
Sbjct: 34  TILHLSENLLYTFSLATLMPYTRLTQLNL--DRAELTKLQ--VDGTLPVLGTLDLSHNQL 89

Query: 148 SLLPSSLGLLTNLRTLCLYCSELQDIA--VIGELKNLEILCLRGSYIEQLPVEI-GQLTR 204
             LP     L  L  L +  + L  +    +  L  L+ L L+G+ ++ LP  +     +
Sbjct: 90  QSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPK 149

Query: 205 LRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRS 237
           L  L L   + L  +P  +L+ L +L+ L ++ 
Sbjct: 150 LEKLSL-ANNNLTELPAGLLNGLENLDTLLLQE 181

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 53.2 bits (128), Expect = 6e-08
 Identities = 27/113 (23%), Positives = 46/113 (40%), Gaps = 9/113 (7%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSL-GLLTNLRTLCLYC 167
           P L +L +   +  L +LP    R L +++ L L    L  LP  L      L  L L  
Sbjct: 100 PALTVLDVSFNR--LTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLAN 157

Query: 168 SELQDI--AVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLR----DCD 214
           + L ++   ++  L+NL+ L L+ + +  +P        L    L      C+
Sbjct: 158 NNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPWLCN 210

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

 Score = 76.2 bits (188), Expect = 2e-15
 Identities = 28/181 (15%), Positives = 65/181 (35%), Gaps = 21/181 (11%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLP-SSLGLLTNLRTLCLYC 167
            + ++  +    SSL     +  +    V+ LDL+   LS +  + L   T L  L L  
Sbjct: 10  NRYKIEKV--TDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSS 67

Query: 168 SELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNL 227
           + L +   +  L  L  L L  +Y+++L         + +L   +   +  +  +     
Sbjct: 68  NVLYETLDLESLSTLRTLDLNNNYVQELL----VGPSIETLHAANN-NISRVSCSRGQG- 121

Query: 228 SHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLE 287
              + +Y+ + NK         +      +      +  L+L + +++T+         +
Sbjct: 122 --KKNIYL-ANNK---------ITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSD 169

Query: 288 R 288
            
Sbjct: 170 T 170

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

 Score = 75.4 bits (186), Expect = 4e-15
 Identities = 28/172 (16%), Positives = 58/172 (33%), Gaps = 13/172 (7%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLP--SSLGLLTNLRTLCLY 166
              + + L    + +  L D      ++V+ LDL    +  +           L  L L 
Sbjct: 120 QGKKNIYL--ANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQ 177

Query: 167 CSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSN 226
            + + D+        L+ L L  + +  +  E      +  + LR+  +L +I    L  
Sbjct: 178 YNFIYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNN-KLVLIEKA-LRF 235

Query: 227 LSHLEELYIRSFNKWEVEVEAAG------VKNASLEELKRLPNLTTLELCIP 272
             +LE   +   N +              V+  + + +K+L      E  +P
Sbjct: 236 SQNLEHFDL-RGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVP 286

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

 Score = 62.7 bits (153), Expect = 6e-11
 Identities = 58/370 (15%), Positives = 116/370 (31%), Gaps = 70/370 (18%)

Query: 150 LPSSLGLLTNLRTLCLYCSELQDI--AVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLR 206
           +          +   +  S L+    ++     N++ L L G+ + Q+    +   T+L 
Sbjct: 2   IHEIKQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLE 61

Query: 207 SLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTT 266
            L+L     L       L +LS L  L + + N               ++EL   P++ T
Sbjct: 62  LLNLSSN-VLYETLD--LESLSTLRTLDL-NNNY--------------VQELLVGPSIET 103

Query: 267 LELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCIS-FKSGH 325
           L     +++ +      +  +                       + L  +N I+  +   
Sbjct: 104 LHAANNNISRVSCSRG-QGKKN----------------------IYLA-NNKITMLRDLD 139

Query: 326 IVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPS-PKESKRCKESTS 384
                R++ L L       I  +   +L + S  L+HL ++         +    K  T 
Sbjct: 140 EGCRSRVQYLDLKLNE---IDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKLKTL 196

Query: 385 EMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLI 444
           ++ SN++       +   F        +  + L N N  ++    +       Q L    
Sbjct: 197 DLSSNKLA-----FMGPEF---QSAAGVTWISLRN-N--KL--VLIEKALRFSQNLEHFD 243

Query: 445 VYG----CGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVV---FPQLQ 497
           + G    CG LR  FS +     +  Q ++       EE  V              P   
Sbjct: 244 LRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLPAPF 303

Query: 498 FLKMVDLEKL 507
             +++ L   
Sbjct: 304 ADRLIALGHH 313

>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 = 78.2 bits (192), Expect = 2e-15
 Identities = 48/163 (29%), Positives = 69/163 (42%), Gaps = 21/163 (12%)

Query: 108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYC 167
            P +  L L   K + I         L  +  L L    +  L SSL  L  L++L L  
Sbjct: 64  LPNVTKLFLNGNKLTDIK----PLTNLKNLGWLFLDENKIKDL-SSLKDLKKLKSLSLEH 118

Query: 168 SELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNL 227
           + + DI  +  L  LE L L  + I  + V + +LT+L +L L D  ++  I P  L+ L
Sbjct: 119 NGISDINGLVHLPQLESLYLGNNKITDITV-LSRLTKLDTLSLEDN-QISDIVP--LAGL 174

Query: 228 SHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELC 270
           + L+ LY+ S N               L  L  L NL  LEL 
Sbjct: 175 TKLQNLYL-SKNHIS-----------DLRALAGLKNLDVLELF 205

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

 Score = 68.2 bits (166), Expect = 3e-12
 Identities = 27/150 (18%), Positives = 58/150 (38%), Gaps = 20/150 (13%)

Query: 133 KLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYI 192
              +    +L    ++    +   L ++  +    S+++ +  I  L N+  L L G+ +
Sbjct: 19  AFAETIKDNLKKKSVTDA-VTQNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKL 77

Query: 193 EQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKN 252
             +   +  L  L  L L +  +++ +    L +L  L+ L +   N          + +
Sbjct: 78  TDIK-PLTNLKNLGWLFLDEN-KIKDLSS--LKDLKKLKSLSL-EHNG---------ISD 123

Query: 253 ASLEELKRLPNLTTLELC---IPDVNTLPK 279
             +  L  LP L +L L    I D+  L +
Sbjct: 124 --INGLVHLPQLESLYLGNNKITDITVLSR 151

>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 = 52.0 bits (124), Expect = 4e-07
 Identities = 14/110 (12%), Positives = 36/110 (32%), Gaps = 16/110 (14%)

Query: 160 LRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVI 219
           +       + ++ I             L+   +    V   +L  +  +   +   ++ +
Sbjct: 1   MGETITVSTPIKQIFPDDAFAETIKDNLKKKSVTDA-VTQNELNSIDQIIANNS-DIKSV 58

Query: 220 PPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
               +  L ++ +L++ + N           K   ++ L  L NL  L L
Sbjct: 59  QG--IQYLPNVTKLFL-NGN-----------KLTDIKPLTNLKNLGWLFL 94

>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 = 48.2 bits (114), Expect = 6e-06
 Identities = 32/129 (24%), Positives = 56/129 (43%), Gaps = 9/129 (6%)

Query: 108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYC 167
            PQL+ L L   K + IT       +LT++  L L    +S +   L  LT L+ L L  
Sbjct: 130 LPQLESLYLGNNKITDIT----VLSRLTKLDTLSLEDNQISDI-VPLAGLTKLQNLYLSK 184

Query: 168 SELQDIAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSN 226
           + + D+  +  LKNL++L L        P+     L    ++   D     ++ P ++S+
Sbjct: 185 NHISDLRALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKNTD---GSLVTPEIISD 241

Query: 227 LSHLEELYI 235
               E+  +
Sbjct: 242 DGDYEKPNV 250

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

 Score = 77.0 bits (190), Expect = 3e-15
 Identities = 30/191 (15%), Positives = 72/191 (37%), Gaps = 15/191 (7%)

Query: 103 PEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLR 161
            E +     ++++   + S++  LP        QV +L+L  + +  + + +      ++
Sbjct: 39  FEDITLNNQKIVTF--KNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQ 96

Query: 162 TLCLYCSELQDIA--VIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQV 218
            L +  + ++ +   V   +  L +L L  + +  LP  I     +L +L + +   L+ 
Sbjct: 97  KLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNN-NLER 155

Query: 219 IPPNVLSNLSHLEELYIRSFNKWEV-------EVEAAGVKNASLEELKRLPNLTTLELCI 271
           I  +     + L+ L + S N+           +  A V    L  L     +  L+   
Sbjct: 156 IEDDTFQATTSLQNLQL-SSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELDASH 214

Query: 272 PDVNTLPKGLF 282
             +N +   + 
Sbjct: 215 NSINVVRGPVN 225

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

 Score = 68.1 bits (167), Expect = 2e-12
 Identities = 28/146 (19%), Positives = 54/146 (36%), Gaps = 9/146 (6%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
              +L  P L  + L    + L  +  + F K+ ++  L ++   L  L      +  L+
Sbjct: 241 TAWLLNYPGLVEVDL--SYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLK 298

Query: 162 TLCLYCSELQDI-AVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRD----CDRL 216
            L L  + L  +     +   LE L L  + I  L   +     L++L L      C+ L
Sbjct: 299 VLDLSHNHLLHVERNQPQFDRLENLYLDHNSIVTLK--LSTHHTLKNLTLSHNDWDCNSL 356

Query: 217 QVIPPNVLSNLSHLEELYIRSFNKWE 242
           + +  NV        + + +   + E
Sbjct: 357 RALFRNVARPAVDDADQHCKIDYQLE 382

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

 Score = 61.6 bits (150), Expect = 2e-10
 Identities = 52/345 (15%), Positives = 111/345 (32%), Gaps = 79/345 (22%)

Query: 89  TSIVLHDSKMNVLLPEVLE-CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL 147
             +   +S M  L   +L+   Q++LL+L      +  +    F     ++ L + +  +
Sbjct: 48  KIVTFKNSTMRKLPAALLDSFRQVELLNL--NDLQIEEIDTYAFAYAHTIQKLYMGFNAI 105

Query: 148 SLLPSSLGL-LTNLRTLCLYCSELQDIA--VIGELKNLEILCLRGSYIEQLPVEIGQ-LT 203
             LP  +   +  L  L L  ++L  +   +      L  L +  + +E++  +  Q  T
Sbjct: 106 RYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATT 165

Query: 204 RLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPN 263
            L++L L    RL  +  +++ +L H                    V    L  L     
Sbjct: 166 SLQNLQLSSN-RLTHVDLSLIPSLFHA------------------NVSYNLLSTLAIPIA 206

Query: 264 LTTLELCIPDVNTLPKGLFFE----KLERYRICIGRWCWEDTSPTCSRTFRL--LLGTDN 317
           +  L+     +N +   +  E    KL+   +          +        L  +  + N
Sbjct: 207 VEELDASHNSINVVRGPVNVELTILKLQHNNL--------TDTAWLLNYPGLVEVDLSYN 258

Query: 318 CISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGS---YSSQLKHLWVEGCQAPSPK 374
                     +L++I       +   + + + NN+L +   Y   +  L V         
Sbjct: 259 ----------ELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKV--------- 299

Query: 375 ESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYN 419
                     ++  N +     ++V            LE L L +
Sbjct: 300 ---------LDLSHNHL-----LHVERNQP---QFDRLENLYLDH 327

>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 = 77.8 bits (192), Expect = 3e-15
 Identities = 34/159 (21%), Positives = 72/159 (45%), Gaps = 10/159 (6%)

Query: 89  TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPD-NFFRKLTQVRVLDLTYMHL 147
             + L  + +  +    L   QL+ L    + S+L  + + + F  L  +  LD+++ H 
Sbjct: 376 KYLDLSFNGVITMSSNFLGLEQLEHLDF--QHSNLKQMSEFSVFLSLRNLIYLDISHTHT 433

Query: 148 SLLPSS-LGLLTNLRTLCLYCSELQDI---AVIGELKNLEILCLRGSYIEQLPVEI-GQL 202
            +  +     L++L  L +  +  Q+     +  EL+NL  L L    +EQL       L
Sbjct: 434 RVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSL 493

Query: 203 TRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKW 241
           + L+ L++    +L+ +P  +   L+ L+++++   N W
Sbjct: 494 SSLQVLNMASN-QLKSVPDGIFDRLTSLQKIWL-HTNPW 530

>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 = 75.9 bits (187), Expect = 1e-14
 Identities = 42/222 (18%), Positives = 77/222 (34%), Gaps = 19/222 (8%)

Query: 67  LTMRYELVNSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITL 126
                 +           LK    +    +K      EV + P L+ L L     S    
Sbjct: 306 WQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEV-DLPSLEFLDLSRNGLSFKGC 364

Query: 127 PDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDI---AVIGELKNLE 183
                   T ++ LDL++  +  + S+   L  L  L    S L+ +   +V   L+NL 
Sbjct: 365 CSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLI 424

Query: 184 ILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQ-VIPPNVLSNLSHLEELYIRSFNK- 240
            L +  ++       I   L+ L  L +      Q    P++ + L +L  L + S  + 
Sbjct: 425 YLDISHTHTRVAFNGIFNGLSSLEVLKMAGN-SFQENFLPDIFTELRNLTFLDL-SQCQL 482

Query: 241 WEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLF 282
            ++   A             L +L  L +    + ++P G+F
Sbjct: 483 EQLSPTA----------FNSLSSLQVLNMASNQLKSVPDGIF 514

>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 = 74.4 bits (183), Expect = 4e-14
 Identities = 72/460 (15%), Positives = 158/460 (34%), Gaps = 67/460 (14%)

Query: 89  TSIVLHDSKMNVLLPEVLE-CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL 147
           ++++L  + +  L          LQ L     +++L +L +     L  ++ L++ +  +
Sbjct: 79  STLILTGNPIQSLALGAFSGLSSLQKLVA--VETNLASLENFPIGHLKTLKELNVAHNLI 136

Query: 148 SLL--PSSLGLLTNLRTLCLYCSELQDIA--VIGELKNLEILC----LRGSYIEQLPVEI 199
                P     LTNL  L L  +++Q I    +  L  + +L     L  + +  +    
Sbjct: 137 QSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGA 196

Query: 200 GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELY-----IRSFNKWEVEVEAA--GVKN 252
            +  RL  L LR+      +    +  L+ LE         R+    E   ++A  G+ N
Sbjct: 197 FKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCN 256

Query: 253 ASLEEL----------------KRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRW 296
            ++EE                   L N+++  L    +  +    +    +   +   ++
Sbjct: 257 LTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKF 316

Query: 297 CWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSG--LPDQDIIELVNNKLG 354
               T     ++ + L  T N     +   V L  +E L LS   L  +      +    
Sbjct: 317 GQFPTLKL--KSLKRLTFTSNKGG-NAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGT- 372

Query: 355 SYSSQLKHLWVEGCQAPS-PKESKRCKESTS-EMRSNEIILEDHVNVPNTFFLKGGLPNL 412
              + LK+L +      +        ++    + + + +       +         L NL
Sbjct: 373 ---TSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNL-----KQMSEFSVFL-SLRNL 423

Query: 413 ETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEID 472
             L++ + +    +         G+ +L  L + G    +  F   I      L  L++ 
Sbjct: 424 IYLDISHTHTRVAFNGIF----NGLSSLEVLKMAGNS-FQENFLPDIFTELRNLTFLDLS 478

Query: 473 ECPILEEIIVIDQQERKNVVFPQLQFLKMVDLE--KLTSF 510
           +C + E++            F  L  L+++++   +L S 
Sbjct: 479 QCQL-EQLS--------PTAFNSLSSLQVLNMASNQLKSV 509

>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 = 73.2 bits (180), Expect = 8e-14
 Identities = 81/472 (17%), Positives = 153/472 (32%), Gaps = 62/472 (13%)

Query: 89  TSIVLHDSKMNVLLPEVLE-CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL 147
            ++ L  + +  L        P+LQ+L L   +  + T+ D  ++ L+ +  L LT   +
Sbjct: 31  KNLDLSFNPLRHLGSYSFFSFPELQVLDL--SRCEIQTIEDGAYQSLSHLSTLILTGNPI 88

Query: 148 SLLPS-SLGLLTNLRTLCLYCSELQDIA--VIGELKNLEILCLRGSYIEQLPV--EIGQL 202
             L   +   L++L+ L    + L  +    IG LK L+ L +  + I+   +      L
Sbjct: 89  QSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNL 148

Query: 203 TRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR---SFNKWEVEVEAAGVKNASLEEL- 258
           T L  LDL    ++Q I    L  L  +  L +    S N     ++    K   L +L 
Sbjct: 149 TNLEHLDLSSN-KIQSIYCTDLRVLHQMPLLNLSLDLSLNPMN-FIQPGAFKEIRLHKLT 206

Query: 259 ---------------KRLPNLTTLELCI------PDVNTLPKGLFFEKLERYRICIGRWC 297
                          + L  L    L +       ++    K    E L    I   R  
Sbjct: 207 LRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSA-LEGLCNLTIEEFRLA 265

Query: 298 WEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYS 357
           + D            L   +  S  S  I +++  +     G    +++     +  +  
Sbjct: 266 YLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVK--DFSYNFGWQHLELVNCKFGQFPTLK 323

Query: 358 -SQLKHLWVEGCQAPSPKESKRCKESTS-EMRSNEIILEDHVNVPNTFFLKGGLPNLETL 415
              LK L     +  +             ++  N +         +      G  +L+ L
Sbjct: 324 LKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGL---SFKGCCSQSDF--GTTSLKYL 378

Query: 416 ELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECP 475
           +L    V       + +   G++ L  L       L+ +   S+  S   L +L+I    
Sbjct: 379 DLSFNGV-----ITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISHTH 432

Query: 476 ILEEIIVIDQQERKNVVFPQLQFLKMVDLE--KLTSFCTGDVHIEFPTLETL 525
                     +   N +F  L  L+++ +           D+  E   L  L
Sbjct: 433 T---------RVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFL 475

>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 = 69.7 bits (171), Expect = 8e-13
 Identities = 38/153 (24%), Positives = 61/153 (39%), Gaps = 19/153 (12%)

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHL-SLLPSSLGLLTNLRTLCLYCSELQDI--AVIGE 178
           +   +PDN          LDL++  L  L   S      L+ L L   E+Q I       
Sbjct: 18  NFYKIPDNLPFSTK---NLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQS 74

Query: 179 LKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRS 237
           L +L  L L G+ I+ L +     L+ L+ L   +   L  +    + +L  L+EL + +
Sbjct: 75  LSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNV-A 132

Query: 238 FNKWEVEVEAAGVKNASL-EELKRLPNLTTLEL 269
            N          +++  L E    L NL  L+L
Sbjct: 133 HNL---------IQSFKLPEYFSNLTNLEHLDL 156

>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 = 42.0 bits (99), Expect = 4e-04
 Identities = 51/359 (14%), Positives = 97/359 (27%), Gaps = 80/359 (22%)

Query: 75  NSREWLDEGALKFY--TSIVLHDSKMNVLLPEVLEC--PQLQLLSLWTEK----SSLITL 126
           N   ++  GA K      + L ++  ++ + +        L++  L   +     +L   
Sbjct: 187 NPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKF 246

Query: 127 PDNFFRKLTQVRVLDLTYMHLSLLPSSLGL----LTNLRTLCLYCSELQDIAVIGELKNL 182
             +    L  + + +    +L      +      LTN+ +  L    ++ +         
Sbjct: 247 DKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGW 306

Query: 183 EILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWE 242
           + L L      Q P    +L  L+ L      +          +L  LE L + S N   
Sbjct: 307 QHLELVNCKFGQFP--TLKLKSLKRLTFTSN-KGGNAFS--EVDLPSLEFLDL-SRNGLS 360

Query: 243 VEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTS 302
                   K    +      +L  L+L    V T+                         
Sbjct: 361 F-------KGCCSQSDFGTTSLKYLDLSFNGVITMSSNF--------------------- 392

Query: 303 PTCSRTFRLLLGTDNCIS--FKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQL 360
               +   L     + +    +    + L+ +  L +S    +     + N L    S L
Sbjct: 393 LGLEQLEHLDFQ-HSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGL----SSL 447

Query: 361 KHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYN 419
           + L                      M  N        N     F    L NL  L+L  
Sbjct: 448 EVLK---------------------MAGNSFQE----NFLPDIF--TELRNLTFLDLSQ 479

>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 = 77.3 bits (191), Expect = 5e-15
 Identities = 35/180 (19%), Positives = 74/180 (41%), Gaps = 11/180 (6%)

Query: 89  TSIVLHDSKMNVLLPEVLE-CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL 147
           TS+ +  + ++ L PE+ +  P L++L+L  + + L  L D  F   T +  L L    +
Sbjct: 52  TSLDVGFNTISKLEPELCQKLPMLKVLNL--QHNELSQLSDKTFAFCTNLTELHLMSNSI 109

Query: 148 S-LLPSSLGLLTNLRTLCLYCSELQDI--AVIGELKNLEILCLRG---SYIEQLPVEIGQ 201
             +  +      NL TL L  + L         +L+NL+ L L       ++   ++I  
Sbjct: 110 QKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFA 169

Query: 202 LTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRL 261
            + L+ L+L    +++   P     +  L  L++ +  +    +        +   ++ L
Sbjct: 170 NSSLKKLELSSN-QIKEFSPGCFHAIGRLFGLFL-NNVQLGPSLTEKLCLELANTSIRNL 227

>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 = 73.1 bits (180), Expect = 1e-13
 Identities = 41/169 (24%), Positives = 66/169 (39%), Gaps = 23/169 (13%)

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHLSLL-PSSLGLLTNLRTLCLYCSELQDIA--VIGE 178
            L  LP   F + +Q+  LD+ +  +S L P     L  L+ L L  +EL  ++      
Sbjct: 36  QLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAF 95

Query: 179 LKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRS 237
             NL  L L  + I+++      +   L +LDL     L          L +L+EL + S
Sbjct: 96  CTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHN-GLSSTKLGTQVQLENLQELLL-S 153

Query: 238 FNK-WEVEVEA-AGVKNASLEEL---------------KRLPNLTTLEL 269
            NK   ++ E      N+SL++L                 +  L  L L
Sbjct: 154 NNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFL 202

>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 = 72.3 bits (178), Expect = 2e-13
 Identities = 81/415 (19%), Positives = 138/415 (33%), Gaps = 63/415 (15%)

Query: 104 EVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLS-LLPSSLGL---LTN 159
           ++     L+ L L    + +       F  + ++  L L  + L   L   L L    T+
Sbjct: 166 DIFANSSLKKLEL--SSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTS 223

Query: 160 LRTLCLYCSELQDI--AVIGELK--NLEILCLRGSYIEQL-PVEIGQLTRLRSLDLRDCD 214
           +R L L  S+L          LK  NL +L L  + +  +       L +L    L    
Sbjct: 224 IRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYN- 282

Query: 215 RLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDV 274
            +Q +  + L  L ++  L +   +  +  +  A +        + L  L  L +   D+
Sbjct: 283 NIQHLFSHSLHGLFNVRYLNL-KRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDI 341

Query: 275 NTLPKGLF--FEKLE-----RYRICIGRWCWEDTSPTCSRTFRLLLGTDNCIS-FKSGHI 326
             +   +F     L+          +     E           +L  T N IS  +S   
Sbjct: 342 PGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAF 401

Query: 327 VQLQRIEDLCLSG------LPDQDI--------IELVNNKLGSYS-------SQLKHLWV 365
             L  +E L L        L  Q+         I L  NK    +         L+ L +
Sbjct: 402 SWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLML 461

Query: 366 EGCQ----APSPKESKRCKESTS-EMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNV 420
                     SP   +  +  T  ++ +N I      N+ +      GL  LE L+L + 
Sbjct: 462 RRVALKNVDSSPSPFQPLRNLTILDLSNNNI-----ANINDDML--EGLEKLEILDLQHN 514

Query: 421 NVERIWKSQLPAMSCG-IQTLTRLIVYGCGEL---RCLFSSSIVNSFIRLQHLEI 471
           N+ R+WK   P      ++ L+ L +     L      F    V  F  L  L+I
Sbjct: 515 NLARLWKHANPGGPIYFLKGLSHLHI-----LNLESNGFDEIPVEVFKDLFELKI 564

>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 = 72.0 bits (177), Expect = 2e-13
 Identities = 35/176 (19%), Positives = 64/176 (36%), Gaps = 27/176 (15%)

Query: 108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGL---LTNLRTLC 164
              +  + L    +  + L  N F  +  ++ L L  + L  + SS      L NL  L 
Sbjct: 429 LENIFEIYL--SYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILD 486

Query: 165 LYCSELQDI--AVIGELKNLEILCLRGSYIEQLPVE---------IGQLTRLRSLDLRDC 213
           L  + + +I   ++  L+ LEIL L+ + + +L            +  L+ L  L+L   
Sbjct: 487 LSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESN 546

Query: 214 DRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
                IP  V  +L  L+ + +   N       +               +L +L L
Sbjct: 547 -GFDEIPVEVFKDLFELKIIDL-GLNNLNTLPASV---------FNNQVSLKSLNL 591

>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 = 69.6 bits (171), Expect = 1e-12
 Identities = 36/205 (17%), Positives = 75/205 (36%), Gaps = 41/205 (20%)

Query: 89  TSIVLHDSKMNVLLPEV---LECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYM 145
            ++ L +S+++         L+   L +L L    ++L  + ++ F  L Q+    L Y 
Sbjct: 225 RNLSLSNSQLSTTSNTTFLGLKWTNLTMLDL--SYNNLNVVGNDSFAWLPQLEYFFLEYN 282

Query: 146 HLS-LLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQL-PVEIGQLT 203
           ++  L   SL  L N+R L L              ++     +  + + ++       L 
Sbjct: 283 NIQHLFSHSLHGLFNVRYLNLK-------------RSFTKQSISLASLPKIDDFSFQWLK 329

Query: 204 RLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEA----AGVKNASLEEL- 258
            L  L++ D   +  I  N+ + L +L+ L + S +   +          + ++ L  L 
Sbjct: 330 CLEHLNMEDN-DIPGIKSNMFTGLINLKYLSL-SNSFTSLRTLTNETFVSLAHSPLHILN 387

Query: 259 --------------KRLPNLTTLEL 269
                           L +L  L+L
Sbjct: 388 LTKNKISKIESDAFSWLGHLEVLDL 412

>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 = 66.6 bits (163), Expect = 1e-11
 Identities = 38/161 (23%), Positives = 64/161 (39%), Gaps = 15/161 (9%)

Query: 93  LHDSKMNVLLPEVLE-CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLS-LL 150
           L  +K   L        P LQ L L       +    + F+ L  + +LDL+  +++ + 
Sbjct: 437 LSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANIN 496

Query: 151 PSSLGLLTNLRTLCLYCSELQDI----------AVIGELKNLEILCLRGSYIEQLPVE-I 199
              L  L  L  L L  + L  +            +  L +L IL L  +  +++PVE  
Sbjct: 497 DDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVF 556

Query: 200 GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNK 240
             L  L+ +DL     L  +P +V +N   L+ L +   N 
Sbjct: 557 KDLFELKIIDLGLN-NLNTLPASVFNNQVSLKSLNL-QKNL 595

>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 = 63.9 bits (156), Expect = 7e-11
 Identities = 61/346 (17%), Positives = 111/346 (32%), Gaps = 88/346 (25%)

Query: 138 RVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDI--AVIGELKNLEILCLRGSYIEQL 195
            V D +++ L+ +P    L TN+  L L  ++L+ +  A       L  L +  + I +L
Sbjct: 7   EVADCSHLKLTQVPD--DLPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKL 64

Query: 196 PVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNAS 254
             E   +L  L+ L+L+    L  +     +  ++L EL++   N  +            
Sbjct: 65  EPELCQKLPMLKVLNLQHN-ELSQLSDKTFAFCTNLTELHL-MSNSIQKIKNNP------ 116

Query: 255 LEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLG 314
                +  NL TL+L                                             
Sbjct: 117 ---FVKQKNLITLDL--------------------------------------------- 128

Query: 315 TDNCIS-FKSGHIVQLQRIEDLCLS-----GLPDQDIIELVNNKLGSYSSQLKHLWVEGC 368
           + N +S  K G  VQL+ +++L LS      L  +++    N       S LK L +   
Sbjct: 129 SHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFAN-------SSLKKLELSSN 181

Query: 369 Q--APSPKESKRCKESTS-EMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERI 425
           Q    SP             + + ++      ++     L+    ++  L L N  +   
Sbjct: 182 QIKEFSPGCFHAIGRLFGLFLNNVQL----GPSLTEKLCLELANTSIRNLSLSNSQLSTT 237

Query: 426 WKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEI 471
             +           LT L +          +    +SF  L  LE 
Sbjct: 238 SNTTFL--GLKWTNLTMLDLSY-----NNLNVVGNDSFAWLPQLEY 276

>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 = 63.9 bits (156), Expect = 8e-11
 Identities = 39/197 (19%), Positives = 69/197 (35%), Gaps = 26/197 (13%)

Query: 89  TSIVLHDSKMNVLLPEVLE-CPQLQLLSL-------WTEKSSLITLPDNFFRKLTQVRVL 140
               L  + +  L    L     ++ L+L           +SL  + D  F+ L  +  L
Sbjct: 275 EYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHL 334

Query: 141 DLTYMHLS-LLPSSLGLLTNLRTLCLYCSELQDIAVIGE------LKNLEILCLRGSYIE 193
           ++    +  +  +    L NL+ L L  S      +  E         L IL L  + I 
Sbjct: 335 NMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKIS 394

Query: 194 QLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKN 252
           ++  +    L  L  LDL   +  Q +       L ++ E+Y+ S+NK            
Sbjct: 395 KIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYL-SYNK---------YLQ 444

Query: 253 ASLEELKRLPNLTTLEL 269
            +      +P+L  L L
Sbjct: 445 LTRNSFALVPSLQRLML 461

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 75.5 bits (186), Expect = 5e-15
 Identities = 47/268 (17%), Positives = 92/268 (34%), Gaps = 44/268 (16%)

Query: 113 LLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSELQ 171
           + SL    + +  + ++  ++   ++ L LT   ++ +   S   L +L  L L  + L 
Sbjct: 54  VKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLS 113

Query: 172 DI--AVIGELKNLEILCLRGSYIEQLPVEI--GQLTRLRSLDLRDCDRLQVIPPNVLSNL 227
           ++  +    L +L  L L G+  + L        LT+L+ L + + D    I     + L
Sbjct: 114 NLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGL 173

Query: 228 SHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLE 287
           + LEEL I + +    E ++          LK + N++ L L +     L +        
Sbjct: 174 TFLEELEIDASDLQSYEPKS----------LKSIQNVSHLILHMKQHILLLEIFV----- 218

Query: 288 RYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIE 347
                             + +   L   D  +   + H  +L   E   L        ++
Sbjct: 219 ----------------DVTSSVECLELRDTDLD--TFHFSELSTGETNSLIKKFTFRNVK 260

Query: 348 LVNNKLGSYS------SQLKHLWVEGCQ 369
           + +  L          S L  L     Q
Sbjct: 261 ITDESLFQVMKLLNQISGLLELEFSRNQ 288

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 64.8 bits (158), Expect = 2e-11
 Identities = 22/145 (15%), Positives = 56/145 (38%), Gaps = 15/145 (10%)

Query: 108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLY 166
              L+ L +  + S L +      + +  V  L L      LL    + + +++  L L 
Sbjct: 173 LTFLEELEI--DASDLQSYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELR 230

Query: 167 CSELQDIAV----------IGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRL 216
            ++L               + +      + +    + Q+   + Q++ L  L+     +L
Sbjct: 231 DTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRN-QL 289

Query: 217 QVIPPNVLSNLSHLEELYIRSFNKW 241
           + +P  +   L+ L+++++ + N W
Sbjct: 290 KSVPDGIFDRLTSLQKIWLHT-NPW 313

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 52.4 bits (126), Expect = 2e-07
 Identities = 47/307 (15%), Positives = 93/307 (30%), Gaps = 81/307 (26%)

Query: 181 NLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFN 239
            ++ L L  + I  +      +   L++L L     +  I  +  S+L  LE L +   N
Sbjct: 53  AVKSLDLSNNRITYISNSDLQRCVNLQALVLTSN-GINTIEEDSFSSLGSLEHLDLSY-N 110

Query: 240 KWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWE 299
                     + N S    K L +LT L L      TL +   F  L             
Sbjct: 111 Y---------LSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHL------------- 148

Query: 300 DTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYS-- 357
                 ++   L +G          ++    +I+    +GL   + +E+  + L SY   
Sbjct: 149 ------TKLQILRVG----------NMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPK 192

Query: 358 -----SQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNL 412
                  + HL                      +   +      + +   F       ++
Sbjct: 193 SLKSIQNVSHLI---------------------LHMKQH-----ILLLEIFV--DVTSSV 224

Query: 413 ETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFI---RLQHL 469
           E LEL + +++    S+L        +L +   +   ++       ++        L  L
Sbjct: 225 ECLELRDTDLDTFHFSELSTGE--TNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLEL 282

Query: 470 EIDECPI 476
           E     +
Sbjct: 283 EFSRNQL 289

>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 = 76.5 bits (188), Expect = 7e-15
 Identities = 30/191 (15%), Positives = 71/191 (37%), Gaps = 15/191 (7%)

Query: 103 PEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLR 161
            E +     ++++     S++  LP        QV +L+L  + +  + + +      ++
Sbjct: 45  FEDITLNNQKIVTFK--NSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQ 102

Query: 162 TLCLYCSELQDIA--VIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQV 218
            L +  + ++ +   V   +  L +L L  + +  LP  I     +L +L + +   L+ 
Sbjct: 103 KLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNN-NLER 161

Query: 219 IPPNVLSNLSHLEELYIRSFNKWEV-------EVEAAGVKNASLEELKRLPNLTTLELCI 271
           I  +     + L+ L + S N+           +  A V    L  L     +  L+   
Sbjct: 162 IEDDTFQATTSLQNLQL-SSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELDASH 220

Query: 272 PDVNTLPKGLF 282
             +N +   + 
Sbjct: 221 NSINVVRGPVN 231

>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 = 65.3 bits (159), Expect = 3e-11
 Identities = 32/171 (18%), Positives = 63/171 (36%), Gaps = 9/171 (5%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
              +L  P L  + L    + L  +  + F K+ ++  L ++   L  L      +  L+
Sbjct: 247 TAWLLNYPGLVEVDL--SYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLK 304

Query: 162 TLCLYCSELQDI-AVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRD----CDRL 216
            L L  + L  +     +   LE L L  + I  L   +     L++L L      C+ L
Sbjct: 305 VLDLSHNHLLHVERNQPQFDRLENLYLDHNSIVTLK--LSTHHTLKNLTLSHNDWDCNSL 362

Query: 217 QVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTL 267
           + +  NV        + + +   + E  +         L+ L +   LT++
Sbjct: 363 RALFRNVARPAVDDADQHCKIDYQLEHGLCCKESDKPYLDRLLQYIALTSV 413

>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 = 54.9 bits (132), Expect = 5e-08
 Identities = 35/192 (18%), Positives = 60/192 (31%), Gaps = 39/192 (20%)

Query: 108 CPQLQLLSLWTEKSSLITLPDNFFRKLT----------------QVRVLDLTYMHLSLLP 151
              LQ L L    + L  +  +    L                  V  LD ++  ++++ 
Sbjct: 170 TTSLQNLQL--SSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVR 227

Query: 152 SSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDL 210
               +   L  L L  + L D A +     L  + L  + +E++      ++ RL  L +
Sbjct: 228 G--PVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYI 285

Query: 211 RDCDRLQVIPPNVLSNLSHLEELYIRSFNK-WEVEVEAAGVKNASLEEL----------- 258
            +  RL  +       +  L+ L + S N    VE          LE L           
Sbjct: 286 SNN-RLVALNL-YGQPIPTLKVLDL-SHNHLLHVERNQPQFDR--LENLYLDHNSIVTLK 340

Query: 259 -KRLPNLTTLEL 269
                 L  L L
Sbjct: 341 LSTHHTLKNLTL 352

>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 = 75.4 bits (186), Expect = 1e-14
 Identities = 34/141 (24%), Positives = 62/141 (43%), Gaps = 12/141 (8%)

Query: 108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLL--PSSLGLLTNLRTLCL 165
              LQ L+L    +  ++L    F++  Q+ +LDL +  L +    S    L  L+ L L
Sbjct: 375 LSHLQSLNL--SYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNL 432

Query: 166 YCSELQDIA--VIGELKNLEILCLRGSYIEQLPVE----IGQLTRLRSLDLRDCDRLQVI 219
             S L   +  +   L  L+ L L+G++  +  ++    +  L RL  L L  C  L  I
Sbjct: 433 SHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFC-DLSSI 491

Query: 220 PPNVLSNLSHLEELYIRSFNK 240
             +  ++L  +  + + S N+
Sbjct: 492 DQHAFTSLKMMNHVDL-SHNR 511

>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 = 75.1 bits (185), Expect = 2e-14
 Identities = 69/388 (17%), Positives = 121/388 (31%), Gaps = 81/388 (20%)

Query: 123 LITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSELQDIA--VIGEL 179
           L T+ +  F +L  +  LDLT   +  +   +      L TL L  + L  +A   +   
Sbjct: 45  LPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPLIFMAETALSGP 104

Query: 180 KNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSF 238
           K L+ L    + I  +    +     L SL L     +  I          L+ L     
Sbjct: 105 KALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSN-HISSIKLPKGFPTEKLKVLDF-QN 162

Query: 239 NKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPD--VNTLPKGLFFEKLERYRICIGRW 296
           N          +   S E++  L   T L L +    +  +  G F   +          
Sbjct: 163 NA---------IHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAV---------- 203

Query: 297 CWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSY 356
                     ++       +  + FK      +Q +       + D+DI   V   L   
Sbjct: 204 ---------FQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEM 254

Query: 357 SSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLE 416
           S  ++ + ++                      +           NTF        L+ L+
Sbjct: 255 S--VESINLQK---------------------HYF----FNISSNTF---HCFSGLQELD 284

Query: 417 LYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPI 476
           L   ++     S+LP+   G+ TL +L++    +   L   S  N F  L HL I     
Sbjct: 285 LTATHL-----SELPSGLVGLSTLKKLVLSAN-KFENLCQISASN-FPSLTHLSIKGNTK 337

Query: 477 LEEIIVIDQQERKNVVFPQLQFLKMVDL 504
             E+               L+ L+ +DL
Sbjct: 338 RLELG--------TGCLENLENLRELDL 357

>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 = 70.4 bits (173), Expect = 6e-13
 Identities = 48/188 (25%), Positives = 78/188 (41%), Gaps = 18/188 (9%)

Query: 89  TSIVLHDSKMNVLLPEVLE-CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL 147
                 D     + P V E   ++ + S+  +K     +  N F   + ++ LDLT  HL
Sbjct: 231 WLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHL 290

Query: 148 SLLPSSLGLLTNLRTLCLYCSELQDI--AVIGELKNLEILCLRGSYI--EQLPVEIGQLT 203
           S LPS L  L+ L+ L L  ++ +++         +L  L ++G+    E     +  L 
Sbjct: 291 SELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLE 350

Query: 204 RLRSLDLRDCDRLQVIP--PNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRL 261
            LR LDL     ++        L NLSHL+ L + S+N+           +   E  K  
Sbjct: 351 NLRELDLSHD-DIETSDCCNLQLRNLSHLQSLNL-SYNE---------PLSLKTEAFKEC 399

Query: 262 PNLTTLEL 269
           P L  L+L
Sbjct: 400 PQLELLDL 407

>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 = 64.7 bits (158), Expect = 4e-11
 Identities = 32/162 (19%), Positives = 61/162 (37%), Gaps = 12/162 (7%)

Query: 89  TSIVLHDSKMNVLLPEVL--ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMH 146
             + L  +++ V   +        L++L+L    S L    +  F  L  ++ L+L   H
Sbjct: 403 ELLDLAFTRLKVKDAQSPFQNLHLLKVLNL--SHSLLDISSEQLFDGLPALQHLNLQGNH 460

Query: 147 LS----LLPSSLGLLTNLRTLCLYCSELQDIA--VIGELKNLEILCLRGSYIEQLPVEIG 200
                    +SL  L  L  L L   +L  I       LK +  + L  + +    +E  
Sbjct: 461 FPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNHVDLSHNRLTSSSIEAL 520

Query: 201 QLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWE 242
              +   L+L   + + +I P++L  LS    + +   N  +
Sbjct: 521 SHLKGIYLNLAS-NHISIILPSLLPILSQQRTINL-RQNPLD 560

>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 = 63.1 bits (154), Expect = 1e-10
 Identities = 53/411 (12%), Positives = 107/411 (26%), Gaps = 73/411 (17%)

Query: 80  LDEGALKFYTSIV---LHDSKMNVLLPEVLE-CPQLQLLSLWTEKSSLITLPDNFFRKLT 135
           +         ++    L   ++  +  +  +   +L  L L    + LI + +       
Sbjct: 48  IQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVL--TANPLIFMAETALSGPK 105

Query: 136 QVRVLDLTYMHLSLL-PSSLGLLTNLRTLCLYCSELQDIA--VIGELKNLEILCLRGSYI 192
            ++ L      +S +    L     L +L L  + +  I        + L++L  + + I
Sbjct: 106 ALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNAI 165

Query: 193 EQLPVE-IGQLTRLRSLDLRDCD-RLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGV 250
             L  E +  L +  +L L      +  I P    + +  + L         V  +    
Sbjct: 166 HYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAF-DSAVFQSLNFGGTQNLLVIFKGLK- 223

Query: 251 KNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFR 310
                     + +L        D   +   +F                      C  +  
Sbjct: 224 -------NSTIQSLWLGTFEDMDDEDISPAVF-------------------EGLCEMSVE 257

Query: 311 LLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYS------SQLKHLW 364
            +    +              I             ++L    L          S LK L 
Sbjct: 258 SINLQKH----------YFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLV 307

Query: 365 VEGCQ--APSPKESKRCKESTS-EMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVN 421
           +   +        +      T   ++ N   LE              L NL  L+L + +
Sbjct: 308 LSANKFENLCQISASNFPSLTHLSIKGNTKRLE---LGTGCL---ENLENLRELDLSH-D 360

Query: 422 VERIWKSQLPAMS-CGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEI 471
              I  S    +    +  L  L +           S    +F     LE+
Sbjct: 361 --DIETSDCCNLQLRNLSHLQSLNLSYNE-----PLSLKTEAFKECPQLEL 404

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 74.3 bits (183), Expect = 3e-14
 Identities = 32/170 (18%), Positives = 60/170 (35%), Gaps = 6/170 (3%)

Query: 75  NSREWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKL 134
                     LK    +    +K      E ++ P L+ L L     S            
Sbjct: 314 CKFGQFPTLKLKSLKRLTFTSNKGGNAFSE-VDLPSLEFLDLSRNGLSFKGCCSQSDFGT 372

Query: 135 TQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDI---AVIGELKNLEILCLRGSY 191
           T ++ LDL++  +  + S+   L  L  L    S L+ +   +V   L+NL  L +  ++
Sbjct: 373 TSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTH 432

Query: 192 IEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNK 240
                      L+ L  L +      +   P++ + L +L  L + S  +
Sbjct: 433 TRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDL-SQCQ 481

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 73.1 bits (180), Expect = 8e-14
 Identities = 66/327 (20%), Positives = 117/327 (35%), Gaps = 36/327 (11%)

Query: 108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLS-LLPSSLGLLTNLRTLCLY 166
            P+LQ+L L   +  + T+ D  ++ L+ +  L LT   +  L   +   L++L+ L   
Sbjct: 51  FPELQVLDL--SRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAV 108

Query: 167 CSELQDI--AVIGELKNLEILCLRGSYIE--QLPVEIGQLTRLRSLDLRDCDRLQVIPPN 222
            + L  +    IG LK L+ L +  + I+  +LP     LT L  LDL    ++Q I   
Sbjct: 109 ETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN-KIQSIYCT 167

Query: 223 VLSNLSHLEELYIR---SFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPK 279
            L  L  +  L +    S N     ++    K   L +L    N  +L +    +  L  
Sbjct: 168 DLRVLHQMPLLNLSLDLSLNP-MNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLA- 225

Query: 280 GLFFEKLERYRICIGRWCWEDTSPTCS--RTFRLLLGTDNCISFKSGHIVQLQRIEDLCL 337
           GL   +L            +             +       + +    I+ L        
Sbjct: 226 GLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDL-------F 278

Query: 338 SGLPDQDIIELVNNKL-----GSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEII 392
           + L +     LV+  +      SY+   +HL +  C+           +  +    +   
Sbjct: 279 NCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCK---------FGQFPTLKLKSLKR 329

Query: 393 LEDHVNVPNTFFLKGGLPNLETLELYN 419
           L    N     F +  LP+LE L+L  
Sbjct: 330 LTFTSNKGGNAFSEVDLPSLEFLDLSR 356

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 72.0 bits (177), Expect = 2e-13
 Identities = 31/155 (20%), Positives = 59/155 (38%), Gaps = 9/155 (5%)

Query: 89  TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITL-PDNFFRKLTQVRVLDLTYMHL 147
             + L  + +  +    L   QL+ L    + S+L  +   + F  L  +  LD+++ H 
Sbjct: 376 KYLDLSFNGVITMSSNFLGLEQLEHLDF--QHSNLKQMSEFSVFLSLRNLIYLDISHTHT 433

Query: 148 S-LLPSSLGLLTNLRTLCLYCSELQDI---AVIGELKNLEILCLRGSYIEQLPVE-IGQL 202
                     L++L  L +  +  Q+     +  EL+NL  L L    +EQL       L
Sbjct: 434 RVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSL 493

Query: 203 TRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRS 237
           + L+ L++        +       L+ L+ L    
Sbjct: 494 SSLQVLNMSHN-NFFSLDTFPYKCLNSLQVLDYSL 527

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 70.8 bits (174), Expect = 5e-13
 Identities = 61/309 (19%), Positives = 112/309 (36%), Gaps = 55/309 (17%)

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHLS-LLPSSLGLLTNLRTLCLYCSELQDIA--VIGE 178
            L  L    F    +++VLDL+   +  +   +   L++L TL L  + +Q +A      
Sbjct: 39  PLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSG 98

Query: 179 LKNLEILCLRGSYIEQL-PVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRS 237
           L +L+ L    + +  L    IG L  L+ L++          P   SNL++LE L + S
Sbjct: 99  LSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL-S 157

Query: 238 FNKWEVEVEAAGVKNASLEELKRLPNL-TTLELCIPDVNTLPKGLFFEKLERYRICIGRW 296
            NK +       +    L  L ++P L  +L+L +  +N +  G F              
Sbjct: 158 SNKIQ------SIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAF-------------- 197

Query: 297 CWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSY 356
                     R  +L L  +N  S           +   C+ GL   ++  LV  +  + 
Sbjct: 198 -------KEIRLHKLTLR-NNFDSLN---------VMKTCIQGLAGLEVHRLVLGEFRNE 240

Query: 357 SSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLE 416
            +          +       +     T E      +     ++ + F     L N+ +  
Sbjct: 241 GN---------LEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLF---NCLTNVSSFS 288

Query: 417 LYNVNVERI 425
           L +V +ER+
Sbjct: 289 LVSVTIERV 297

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 68.5 bits (168), Expect = 3e-12
 Identities = 76/450 (16%), Positives = 145/450 (32%), Gaps = 69/450 (15%)

Query: 93  LHDSKMNVLLPEVLE-CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLS-LL 150
           L   ++  +     +    L  L L    + + +L    F  L+ ++ L     +L+ L 
Sbjct: 59  LSRCEIQTIEDGAYQSLSHLSTLIL--TGNPIQSLALGAFSGLSSLQKLVAVETNLASLE 116

Query: 151 PSSLGLLTNLRTLCLYCSELQDI---AVIGELKNLEILCLRGSYIEQL-PVEIGQLTRLR 206
              +G L  L+ L +  + +Q          L NLE L L  + I+ +   ++  L ++ 
Sbjct: 117 NFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMP 176

Query: 207 ----SLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLP 262
               SLDL     +  I P     +  L +L +   N   + V         ++ L  L 
Sbjct: 177 LLNLSLDLSLN-PMNFIQPGAFKEIR-LHKLTL-RNNFDSLNVM-----KTCIQGLAGLE 228

Query: 263 NLTTLELCIPDVNTLPKGLF--FEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCIS 320
               +     +   L K      E L    I   R  + D            L   +  S
Sbjct: 229 VHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFS 288

Query: 321 FKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGS----YSSQLKHLWVEGCQAPSPKES 376
             S  I +++       S       +ELVN K G         LK L     +  +    
Sbjct: 289 LVSVTIERVKD-----FSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSE 343

Query: 377 KRCKESTS-EMRSNEIILEDHVN---------------------VPNTFFLKGGLPNLET 414
                    ++  N +  +   +                     + + F    GL  LE 
Sbjct: 344 VDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFL---GLEQLEH 400

Query: 415 LELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDEC 474
           L+  + N++++ +    ++   ++ L  L +      R  F+         L+ L++   
Sbjct: 401 LDFQHSNLKQMSE---FSVFLSLRNLIYLDISHT-HTRVAFNGIFNG-LSSLEVLKMAGN 455

Query: 475 PILEEIIVIDQQERKNVVFPQLQFLKMVDL 504
              E  +          +F +L+ L  +DL
Sbjct: 456 SFQENFL--------PDIFTELRNLTFLDL 477

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 58.1 bits (141), Expect = 4e-09
 Identities = 34/191 (17%), Positives = 57/191 (29%), Gaps = 21/191 (10%)

Query: 83  GALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDL 142
             L   +S  L    +  +          Q L L          P    + L +   L  
Sbjct: 279 NCLTNVSSFSLVSVTIERVKDFSY-NFGWQHLEL--VNCKFGQFPTLKLKSLKR---LTF 332

Query: 143 TYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVI----GELKNLEILCLRGSYIEQLPVE 198
           T        S + L  +L  L L  + L              +L+ L L  + +  +   
Sbjct: 333 TSNKGGNAFSEVDL-PSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSN 391

Query: 199 IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEEL 258
              L +L  LD +  +  Q+   +V  +L +L  L I S     V               
Sbjct: 392 FLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDI-SHTHTRVAFN---------GIF 441

Query: 259 KRLPNLTTLEL 269
             L +L  L++
Sbjct: 442 NGLSSLEVLKM 452

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 52.3 bits (126), Expect = 3e-07
 Identities = 60/413 (14%), Positives = 115/413 (27%), Gaps = 96/413 (23%)

Query: 87  FYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMH 146
              S+ L  + MN + P   +  +L  L+L       + +     + L  + V  L    
Sbjct: 178 LNLSLDLSLNPMNFIQPGAFKEIRLHKLTL-RNNFDSLNVMKTCIQGLAGLEVHRLVLGE 236

Query: 147 LS----LLPSSLGLLTNLRTL--------CLYCSELQDIAVIGELKNLEILCLRGSYIEQ 194
                 L       L  L  L         L       I +   L N+    L    IE+
Sbjct: 237 FRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIER 296

Query: 195 LPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNAS 254
           +  +       + L+L +C +    P   L +L  L     +  N               
Sbjct: 297 VK-DFSYNFGWQHLELVNC-KFGQFPTLKLKSLKRLTFTSNKGGN--------------- 339

Query: 255 LEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLG 314
                 LP+L  L+L                    R  +        S   + + + L  
Sbjct: 340 AFSEVDLPSLEFLDL-------------------SRNGLSFKGCCSQSDFGTTSLKYLDL 380

Query: 315 TDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPK 374
           + N +   S + + L+++E L        ++ ++    +      L +L           
Sbjct: 381 SFNGVITMSSNFLGLEQLEHLDFQHS---NLKQMSEFSVFLSLRNLIYLD---------- 427

Query: 375 ESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAM- 433
                      +          V     F    GL +LE L++   + +  +   +    
Sbjct: 428 -----------ISHTHT----RVAFNGIF---NGLSSLEVLKMAGNSFQENFLPDIFTEL 469

Query: 434 ---------SCGIQTLTRLIVYGCGELRCL------FSSSIVNSFIRLQHLEI 471
                     C ++ L+         L+ L      F S     +  L  L++
Sbjct: 470 RNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQV 522

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 49.6 bits (119), Expect = 2e-06
 Identities = 30/207 (14%), Positives = 65/207 (31%), Gaps = 25/207 (12%)

Query: 75  NSREWLDEGALKFY--TSIVLHDSKMNVLLPEVL--ECPQLQLLSLW----TEKSSLITL 126
           N   ++  GA K      + L ++  ++ + +        L++  L       + +L   
Sbjct: 187 NPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKF 246

Query: 127 PDNFFRKLTQVRVLDLTYMHLSL----LPSSLGLLTNLRTLCLYCSELQDIAVIGELKNL 182
             +    L  + + +    +L      +      LTN+ +  L    ++ +         
Sbjct: 247 DKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGW 306

Query: 183 EILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWE 242
           + L L      Q P    +L  L+ L        +        +L  LE L + S N   
Sbjct: 307 QHLELVNCKFGQFP--TLKLKSLKRLTFTS---NKGGNAFSEVDLPSLEFLDL-SRNGLS 360

Query: 243 VEVEAAGVKNASLEELKRLPNLTTLEL 269
            +   +       +      +L  L+L
Sbjct: 361 FKGCCS-------QSDFGTTSLKYLDL 380

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 71.5 bits (176), Expect = 4e-14
 Identities = 51/172 (29%), Positives = 83/172 (48%), Gaps = 15/172 (8%)

Query: 115 SLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSL-GLLTNLRTLCLYCSELQDI 173
            L  + + L +LP   F +LT++R+L L    L  LP+ +   L NL TL +  ++LQ +
Sbjct: 41  KLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQAL 100

Query: 174 --AVIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHL 230
              V  +L NL  L L  + ++ LP  +   LT+L  L L     LQ +P  V   L+ L
Sbjct: 101 PIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYN-ELQSLPKGVFDKLTSL 159

Query: 231 EELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLF 282
           +EL + + N+  ++    G          +L  L TL+L    +  +P+G F
Sbjct: 160 KELRLYN-NQ--LKRVPEGA-------FDKLTELKTLKLDNNQLKRVPEGAF 201

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 62.3 bits (152), Expect = 5e-11
 Identities = 44/164 (26%), Positives = 71/164 (43%), Gaps = 17/164 (10%)

Query: 110 QLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSL-GLLTNLRTLCLYCS 168
           +L+LL L   K  L TLP   F++L  +  L +T   L  LP  +   L NL  L L  +
Sbjct: 62  KLRLLYLNDNK--LQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRN 119

Query: 169 ELQDI--AVIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLS 225
           +L+ +   V   L  L  L L  + ++ LP  +  +LT L+ L L   ++L+ +P     
Sbjct: 120 QLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRL-YNNQLKRVPEGAFD 178

Query: 226 NLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
            L+ L+ L + +            +K         L  L  L+L
Sbjct: 179 KLTELKTLKLDNNQ----------LKRVPEGAFDSLEKLKMLQL 212

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 72.5 bits (178), Expect = 8e-14
 Identities = 50/282 (17%), Positives = 93/282 (32%), Gaps = 20/282 (7%)

Query: 89  TSIVLHDSKMNVLLPEVLEC-PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL 147
             + L  + +  L          LQ L +  +   L  + +N FR L+ + +L L Y   
Sbjct: 33  NYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGL-VIRNNTFRGLSSLIILKLDYNQF 91

Query: 148 SLLPSS-LGLLTNLRTLCLYCSELQDIAVIGE----LKNLEILCLRGSYIEQLPVEI--G 200
             L +     L NL  L L    L    + G     L +LE+L LR + I+++       
Sbjct: 92  LQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFL 151

Query: 201 QLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKR 260
            + R   LDL   ++++ I    L N        +R  +    ++    +         +
Sbjct: 152 NMRRFHVLDLTF-NKVKSICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFK 210

Query: 261 LPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCIS 320
             ++TTL+L            FF+ +   +I          +   S         DN   
Sbjct: 211 NTSITTLDLSGNGFKESMAKRFFDAIAGTKIQS-LILSNSYNMGSSFGHTNFKDPDNFTF 269

Query: 321 FKSGHIV---------QLQRIEDLCLSGLPDQDIIELVNNKL 353
                           ++  +     S   D + + L  N++
Sbjct: 270 KGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEI 311

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 69.8 bits (171), Expect = 8e-13
 Identities = 34/140 (24%), Positives = 62/140 (44%), Gaps = 8/140 (5%)

Query: 106 LECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLC 164
           LE   ++   L   KS +  L  + F   T +  L L    ++ +   +   LT+L  L 
Sbjct: 272 LEASGVKTCDL--SKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLN 329

Query: 165 LYCSELQDI--AVIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPP 221
           L  + L  I   +   L  LE+L L  ++I  L  +    L  L+ L L    +L+ +P 
Sbjct: 330 LSQNFLGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDTN-QLKSVPD 388

Query: 222 NVLSNLSHLEELYIRSFNKW 241
            +   L+ L+++++ + N W
Sbjct: 389 GIFDRLTSLQKIWLHT-NPW 407

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 68.6 bits (168), Expect = 2e-12
 Identities = 36/199 (18%), Positives = 74/199 (37%), Gaps = 29/199 (14%)

Query: 89  TSIVLHDSKMNVLLPEV----LECPQLQLLSLWTEKSSLITLPDNFFRKL---------- 134
           T++ L  +     + +     +   ++Q L L    +   +     F+            
Sbjct: 215 TTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEA 274

Query: 135 TQVRVLDLTYMHLSLLPSSL-GLLTNLRTLCLYCSELQDIA--VIGELKNLEILCLRGSY 191
           + V+  DL+   +  L  S+    T+L  L L  +E+  I       L +L  L L  ++
Sbjct: 275 SGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNF 334

Query: 192 IEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGV 250
           +  +   +   L +L  LDL     ++ +       L +L+EL + + N+         +
Sbjct: 335 LGSIDSRMFENLDKLEVLDLSYN-HIRALGDQSFLGLPNLKELALDT-NQ---------L 383

Query: 251 KNASLEELKRLPNLTTLEL 269
           K+       RL +L  + L
Sbjct: 384 KSVPDGIFDRLTSLQKIWL 402

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 60.5 bits (147), Expect = 7e-10
 Identities = 47/301 (15%), Positives = 87/301 (28%), Gaps = 49/301 (16%)

Query: 132 RKLTQV-------RVLDLTYMHL-SLLPSSLGLLTNLRTLCLYCSELQDI---AVIGELK 180
           R L QV         +DL+   +  L  +S   L +L+ L +       +        L 
Sbjct: 20  RGLHQVPELPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLS 79

Query: 181 NLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCD-RLQVIPPNVLSNLSHLEELYIRSF 238
           +L IL L  +   QL       L  L  L L  C+    V+  N    L+ LE L +R  
Sbjct: 80  SLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRD- 138

Query: 239 NKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCW 298
           N  + +++ A            +     L+L    V ++ +                   
Sbjct: 139 NNIK-KIQPASF-------FLNMRRFHVLDLTFNKVKSICEEDL---------------- 174

Query: 299 EDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSS 358
              +        L L +         +   L   +            ++L  N      +
Sbjct: 175 --LNFQGKHFTLLRLSSITLQDM---NEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMA 229

Query: 359 QLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELY 418
           +          A +  + +    S S    +     +  +  N  F       ++T +L 
Sbjct: 230 KRF------FDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLS 283

Query: 419 N 419
            
Sbjct: 284 K 284

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 49.7 bits (119), Expect = 2e-06
 Identities = 59/359 (16%), Positives = 110/359 (30%), Gaps = 88/359 (24%)

Query: 89  TSIVLHDSKMNVLLPEVLE-CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL 147
             + L  ++   L          L++L+L         L  NFF+ LT + +L L   ++
Sbjct: 82  IILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNI 141

Query: 148 -SLLPSSL-GLLTNLRTLCLYCSELQDI--AVIGEL--KNLEILCLRGSYIEQLPVEIGQ 201
             + P+S    +     L L  ++++ I    +     K+  +L L    ++ +      
Sbjct: 142 KKIQPASFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLG 201

Query: 202 ---------LTRLRSLDLRDCDRLQVIPPNVLSNL---SHLEELYIRSFNKWEVEVEAAG 249
                     T + +LDL      +        +    + ++ L + +            
Sbjct: 202 WEKCGNPFKNTSITTLDLSGN-GFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTN 260

Query: 250 VKNASLEELKRLP--NLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSR 307
            K+      K L    + T +L    +  L K +F                       + 
Sbjct: 261 FKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSH--------------------FTD 300

Query: 308 TFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSS-------QL 360
             +L L   N          ++ +I+D    GL     + L  N LGS  S       +L
Sbjct: 301 LEQLTL-AQN----------EINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKL 349

Query: 361 KHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYN 419
           + L                      +  N I       + +  FL   LPNL+ L L  
Sbjct: 350 EVLD---------------------LSYNHIR-----ALGDQSFLG--LPNLKELALDT 380

>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 = 72.6 bits (178), Expect = 8e-14
 Identities = 35/254 (13%), Positives = 76/254 (29%), Gaps = 20/254 (7%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS--LGLLTNLRTLCLY 166
              + + L    + +  L D      ++V+ LDL    +  +  +        L  L L 
Sbjct: 120 QGKKNIYL--ANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQ 177

Query: 167 CSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSN 226
            + + D+        L+ L L  + +  +  E      +  + LR+  +L +I    L  
Sbjct: 178 YNFIYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNN-KLVLIEKA-LRF 235

Query: 227 LSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKL 286
             +LE   +   N +       G       + +R+  +    +         +       
Sbjct: 236 SQNLEHFDL-RGNGFHC-----GTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLG 289

Query: 287 ERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDII 346
                C                 RL+       +  SG   + +R+E         Q  I
Sbjct: 290 HYGAYCC-------EDLPAPFADRLIALKRKEHALLSGQGSETERLECE-RENQARQREI 341

Query: 347 ELVNNKLGSYSSQL 360
           + +  +  +   Q+
Sbjct: 342 DALKEQYRTVIDQV 355

>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 = 71.8 bits (176), Expect = 2e-13
 Identities = 34/206 (16%), Positives = 72/206 (34%), Gaps = 31/206 (15%)

Query: 102 LPEVLE-CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLS-LLPSSLGLLTN 159
           + E+ +   + ++  +    SSL     +  +    V+ LDL+   LS +  + L   T 
Sbjct: 2   IHEIKQNGNRYKIEKV--TDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTK 59

Query: 160 LRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLP-----------------VEIGQL 202
           L  L L  + L +   +  L  L  L L  +Y+++L                  V   + 
Sbjct: 60  LELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVSCSRG 119

Query: 203 TRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLP 262
              +++ L +  ++ ++        S ++ L +   N+ +             E      
Sbjct: 120 QGKKNIYLANN-KITMLRDLDEGCRSRVQYLDL-KLNEID--------TVNFAELAASSD 169

Query: 263 NLTTLELCIPDVNTLPKGLFFEKLER 288
            L  L L    +  +   + F KL+ 
Sbjct: 170 TLEHLNLQYNFIYDVKGQVVFAKLKT 195

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 70.4 bits (173), Expect = 1e-13
 Identities = 44/184 (23%), Positives = 73/184 (39%), Gaps = 27/184 (14%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSL-GLLTNLRTLCLYC 167
           P+LQ+L L   +  + T+ D  ++ L+ +  L LT   +  L       L++L+ L    
Sbjct: 52  PELQVLDLSRCE--IQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVE 109

Query: 168 SELQDIA--VIGELKNLEILCLRGSYIEQLPVE--IGQLTRLRSLDLRDCDRLQVIPPNV 223
           + L  +    IG LK L+ L +  + I+   +      LT L  LDL    ++Q I    
Sbjct: 110 TNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN-KIQSIYCTD 168

Query: 224 LSNLSHLEELYIR---SFNKWEVEVEAAGVKNASLEEL---------------KRLPNLT 265
           L  L  +  L +    S N     ++    K   L+EL                RL +L 
Sbjct: 169 LRVLHQMPLLNLSLDLSLNPMN-FIQPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQ 227

Query: 266 TLEL 269
            + L
Sbjct: 228 KIWL 231

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 65.0 bits (159), Expect = 7e-12
 Identities = 40/167 (23%), Positives = 74/167 (44%), Gaps = 20/167 (11%)

Query: 125 TLPDNFFRKLTQVRVLDLTYMHLSLLPSSL-GLLTNLRTLCLYCSELQDIA--VIGELKN 181
            L    F    +++VLDL+   +  +       L++L TL L  + +Q +A      L +
Sbjct: 42  HLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSS 101

Query: 182 LEILCLRGSYIEQLP-VEIGQLTRLRSLDLRDCDRLQVIP-PNVLSNLSHLEELYIRSFN 239
           L+ L    + +  L    IG L  L+ L++   + +Q    P   SNL++LE L + S N
Sbjct: 102 LQKLVAVETNLASLENFPIGHLKTLKELNVAH-NLIQSFKLPEYFSNLTNLEHLDL-SSN 159

Query: 240 KWEVEVEAAGVKNASLEELKRLPNLT----TLELCIPDVNTLPKGLF 282
           K         +++    +L+ L  +     +L+L +  +N +  G F
Sbjct: 160 K---------IQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAF 197

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 58.8 bits (143), Expect = 8e-10
 Identities = 28/143 (19%), Positives = 61/143 (42%), Gaps = 14/143 (9%)

Query: 108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGL---LTNLRTLC 164
              LQ L     +++L +L +     L  ++ L++ +  +            LTNL  L 
Sbjct: 99  LSSLQKLVA--VETNLASLENFPIGHLKTLKELNVAHNLIQSFKLP-EYFSNLTNLEHLD 155

Query: 165 LYCSELQDI--AVIGELKNLEI----LCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQV 218
           L  +++Q I    +  L  + +    L L  + +  +     +  RL+ L L    +L+ 
Sbjct: 156 LSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTN-QLKS 214

Query: 219 IPPNVLSNLSHLEELYIRSFNKW 241
           +P  +   L+ L+++++ + N W
Sbjct: 215 VPDGIFDRLTSLQKIWLHT-NPW 236

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 72.8 bits (179), Expect = 1e-13
 Identities = 38/172 (22%), Positives = 67/172 (38%), Gaps = 10/172 (5%)

Query: 93  LHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPD-NFFRKLTQVRVLDLTYMHLS-LL 150
           L  +   ++    +   +LQ L    + S+L  + + + F  L ++  LD++Y +     
Sbjct: 383 LSFNGAIIMSANFMGLEELQHLDF--QHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDF 440

Query: 151 PSSLGLLTNLRTLCLYCSELQDI---AVIGELKNLEILCLRGSYIEQLPVEI-GQLTRLR 206
                 LT+L TL +  +  +D     V     NL  L L    +EQ+   +   L RL+
Sbjct: 441 DGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQ 500

Query: 207 SLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEEL 258
            L++     L  +  +  + L  L  L   SFN+ E           SL   
Sbjct: 501 LLNMSHN-NLLFLDSSHYNQLYSLSTLDC-SFNRIETSKGILQHFPKSLAFF 550

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 70.4 bits (173), Expect = 6e-13
 Identities = 32/175 (18%), Positives = 63/175 (36%), Gaps = 18/175 (10%)

Query: 101 LLPEVLECPQLQLLSLWTEKSSLITLPDNFFR--KLTQVRVLDLTYMHLSLLPSSLGLLT 158
           +  + +  P L  L L   +++L       +       +R LDL++    ++ ++   L 
Sbjct: 342 ISFKKVALPSLSYLDL--SRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLE 399

Query: 159 NLRTLCLYCSELQDIA---VIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCD 214
            L+ L    S L+ +        L+ L  L +  +  +     I   LT L +L +    
Sbjct: 400 ELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNS 459

Query: 215 RLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
                  NV +N ++L  L + S  +         ++  S      L  L  L +
Sbjct: 460 FKDNTLSNVFANTTNLTFLDL-SKCQ---------LEQISWGVFDTLHRLQLLNM 504

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 70.1 bits (172), Expect = 8e-13
 Identities = 29/123 (23%), Positives = 52/123 (42%), Gaps = 5/123 (4%)

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHLSLL-PSSLGLLTNLRTLCLYCSELQDIA--VIGE 178
            L  L    F   ++++ LDL+   +  +   +   L +L  L L  + +Q  +      
Sbjct: 43  PLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSG 102

Query: 179 LKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRS 237
           L +LE L    + +  L    IGQL  L+ L++          P   SNL++L  + + S
Sbjct: 103 LTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDL-S 161

Query: 238 FNK 240
           +N 
Sbjct: 162 YNY 164

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 65.8 bits (161), Expect = 1e-11
 Identities = 82/474 (17%), Positives = 157/474 (33%), Gaps = 88/474 (18%)

Query: 89  TSIVLHDSKMNVLLPEVLE-CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL 147
           ++++L  + +    P        L+ L     ++ L +L      +L  ++ L++ +  +
Sbjct: 83  SNLILTGNPIQSFSPGSFSGLTSLENLVA--VETKLASLESFPIGQLITLKKLNVAHNFI 140

Query: 148 S--LLPSSLGLLTNLRTLCLYCSELQDI--AVIGELKNL----EILCLRGSYIEQLPVEI 199
               LP+    LTNL  + L  + +Q I    +  L+        L +  + I+ +  + 
Sbjct: 141 HSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQA 200

Query: 200 GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELY-----IRSFNKWEVEVEAA--GVKN 252
            Q  +L  L LR       I    L NL+ L          +     E+   +   G+ +
Sbjct: 201 FQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCD 260

Query: 253 ASLEEL---------------KRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWC 297
            +++E                  L N++ + L    +  L       K +   I     C
Sbjct: 261 VTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLEDVPKHFKWQSLSI---IRC 317

Query: 298 WEDTSPTCSRTF-RLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSY 356
                PT    F + L  T N  S  S   V L  +  L LS            + LG  
Sbjct: 318 QLKQFPTLDLPFLKSLTLTMNKGSI-SFKKVALPSLSYLDLSRNALSFSGCCSYSDLG-- 374

Query: 357 SSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLE 416
           ++ L+HL                     ++  N  I+     +   F    GL  L+ L+
Sbjct: 375 TNSLRHL---------------------DLSFNGAII-----MSANF---MGLEELQHLD 405

Query: 417 LYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPI 476
             +  ++R+ +         ++ L  L +      +  F    +     L  L++     
Sbjct: 406 FQHSTLKRVTEFSA---FLSLEKLLYLDISYT-NTKIDFDGIFLG-LTSLNTLKMAGNSF 460

Query: 477 LEEIIVIDQQERKNVVFPQLQFLKMVDLE--KLTSFCTGDVHIEFPTLETLEVI 528
            +  +        + VF     L  +DL   +L     G     F TL  L+++
Sbjct: 461 KDNTL--------SNVFANTTNLTFLDLSKCQLEQISWGV----FDTLHRLQLL 502

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 44.3 bits (105), Expect = 9e-05
 Identities = 22/144 (15%), Positives = 39/144 (27%), Gaps = 49/144 (34%)

Query: 99  NVLLPEVLE-CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLL 157
           +  L  V      L  L L   K  L  +    F  L ++++L++++ +L  L SS    
Sbjct: 462 DNTLSNVFANTTNLTFLDL--SKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSH--- 516

Query: 158 TNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQ 217
                                                      QL  L +LD     R++
Sbjct: 517 -----------------------------------------YNQLYSLSTLDCSFN-RIE 534

Query: 218 VIPPNVLSNLSHLEELYIRSFNKW 241
                +      L    + + N  
Sbjct: 535 TSKGILQHFPKSLAFFNL-TNNSV 557

>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 = 71.9 bits (177), Expect = 2e-13
 Identities = 32/165 (19%), Positives = 65/165 (39%), Gaps = 14/165 (8%)

Query: 83  GALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLI-TLPDNFFRKLTQVRVLD 141
                   + +  +  +  +P + +C  LQ L +    + L            T++++L+
Sbjct: 197 SRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISG--NKLSGDFSRAIS-TCTELKLLN 253

Query: 142 LTYMHLS-LLPSSLGLLTNLRTLCLYCSELQ-DI--AVIGELKNLEILCLRGSYIE-QLP 196
           ++       +P     L +L+ L L  ++   +I   + G    L  L L G++    +P
Sbjct: 254 ISSNQFVGPIPPLP--LKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVP 311

Query: 197 VEIGQLTRLRSLDLRDCDRLQ-VIPPNVLSNLSHLEELYIRSFNK 240
              G  + L SL L         +P + L  +  L+ L + SFN+
Sbjct: 312 PFFGSCSLLESLALSSN-NFSGELPMDTLLKMRGLKVLDL-SFNE 354

>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 = 71.5 bits (176), Expect = 3e-13
 Identities = 28/143 (19%), Positives = 51/143 (35%), Gaps = 15/143 (10%)

Query: 135 TQVRVLDLTYMHLSL----LPSSLGLLTNLRTLCLYCSELQ-DIAVIGELKNLEILCLRG 189
            +V  +DL+   L++    + SSL  LT L +L L  S +   ++      +L  L L  
Sbjct: 50  DKVTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSR 109

Query: 190 SYIE-QLP--VEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVE 246
           + +   +     +G  + L+ L++           +    L+ LE L + S N       
Sbjct: 110 NSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDL-SANSIS---- 164

Query: 247 AAGVKNASLEELKRLPNLTTLEL 269
             G              L  L +
Sbjct: 165 --GANVVGWVLSDGCGELKHLAI 185

>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 = 70.3 bits (173), Expect = 7e-13
 Identities = 31/194 (15%), Positives = 59/194 (30%), Gaps = 38/194 (19%)

Query: 102 LPEVLECPQLQLLSLWTEK-SSLITLPDNFFRKLTQVRVLDLTYMHLS-LLPSSLGLLTN 159
           +   L+   L++L L     S    +         +++ L ++   +S  +   +    N
Sbjct: 144 VSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDVD--VSRCVN 201

Query: 160 LRTLCLYCSELQ-DIAVIGELKNLEILCLRGSYIE-QLPVEIGQLTRLRSLDLRD----- 212
           L  L +  +     I  +G+   L+ L + G+ +       I   T L+ L++       
Sbjct: 202 LEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVG 261

Query: 213 ------CDRLQV-----------IPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASL 255
                    LQ            IP  +      L  L + S N +   V          
Sbjct: 262 PIPPLPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDL-SGNHFYGAVP--------- 311

Query: 256 EELKRLPNLTTLEL 269
                   L +L L
Sbjct: 312 PFFGSCSLLESLAL 325

>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 = 63.8 bits (156), Expect = 8e-11
 Identities = 40/218 (18%), Positives = 70/218 (32%), Gaps = 46/218 (21%)

Query: 83  GALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEK--------------SSLITL-- 126
            +L    S+ L +S +N  +        L  L L                  S L  L  
Sbjct: 74  LSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNV 133

Query: 127 ---------PDNFFRKLTQVRVLDLTYMHLS-LLPSSL---GLLTNLRTLCLYCSELQDI 173
                      +   KL  + VLDL+   +S               L+ L +  +++   
Sbjct: 134 SSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGD 193

Query: 174 AVIGELKNLEILCLRGSYIE-QLPVEIGQLTRLRSLDLRDCDRLQ-VIPPNVLSNLSHLE 231
             +    NLE L +  +     +P  +G  + L+ LD+    +L        +S  + L+
Sbjct: 194 VDVSRCVNLEFLDVSSNNFSTGIP-FLGDCSALQHLDISGN-KLSGDFSRA-ISTCTELK 250

Query: 232 ELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
            L I S N++   +               L +L  L L
Sbjct: 251 LLNI-SSNQFVGPIPPL-----------PLKSLQYLSL 276

>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 = 58.8 bits (143), Expect = 3e-09
 Identities = 33/173 (19%), Positives = 57/173 (32%), Gaps = 28/173 (16%)

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQ----DIAVIG 177
               +  +    LT +  L L+  H++   S      +L +L L  + L      +  +G
Sbjct: 65  GFSAVSSSLLS-LTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGPVTTLTSLG 123

Query: 178 ELKNLEILCLRGSYIE-QLPVEIG-QLTRLRSLDLRDCDRLQVIPPNV--LSNLSHLEEL 233
               L+ L +  + ++    V  G +L  L  LDL                     L+ L
Sbjct: 124 SCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHL 183

Query: 234 YIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELC-------IPDVNTLPK 279
            I S NK   +V           ++ R  NL  L++        IP +     
Sbjct: 184 AI-SGNKISGDV-----------DVSRCVNLEFLDVSSNNFSTGIPFLGDCSA 224

>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 = 54.1 bits (131), Expect = 7e-08
 Identities = 33/115 (28%), Positives = 49/115 (42%), Gaps = 8/115 (6%)

Query: 103 PEVLECPQLQLLSLWTEKSSLI-TLPDNFFRKLTQVRVLDLTYMHLS-LLPSSLGLLTNL 160
             +    +L+ L LW   + L   +P      +  +  L L +  L+  +PS L   TNL
Sbjct: 436 SSLGSLSKLRDLKLW--LNMLEGEIPQELM-YVKTLETLILDFNDLTGEIPSGLSNCTNL 492

Query: 161 RTLCLYCSELQDI--AVIGELKNLEILCLRG-SYIEQLPVEIGQLTRLRSLDLRD 212
             + L  + L       IG L+NL IL L   S+   +P E+G    L  LDL  
Sbjct: 493 NWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNT 547

>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 = 53.4 bits (129), Expect = 1e-07
 Identities = 50/191 (26%), Positives = 82/191 (42%), Gaps = 24/191 (12%)

Query: 89  TSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLI-TLPDNFFRKLTQVRVLDLTYMH 146
           T + L  +     +P     C  L+ L+L +  ++    LP +   K+  ++VLDL++  
Sbjct: 297 TGLDLSGNHFYGAVPPFFGSCSLLESLALSS--NNFSGELPMDTLLKMRGLKVLDLSFNE 354

Query: 147 LS-LLPSSLG-LLTNLRTLCLYCSELQ-DI-AVIGE--LKNLEILCLRGSYIE-QLPVEI 199
            S  LP SL  L  +L TL L  +     I   + +     L+ L L+ +    ++P  +
Sbjct: 355 FSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTL 414

Query: 200 GQLTRLRSLDLRDCDRLQ-VIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEEL 258
              + L SL L     L   IP + L +LS L +L +   N  E E+          +EL
Sbjct: 415 SNCSELVSLHLSFN-YLSGTIPSS-LGSLSKLRDLKL-WLNMLEGEI---------PQEL 462

Query: 259 KRLPNLTTLEL 269
             +  L TL L
Sbjct: 463 MYVKTLETLIL 473

>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 = 47.6 bits (114), Expect = 8e-06
 Identities = 19/118 (16%), Positives = 37/118 (31%), Gaps = 10/118 (8%)

Query: 130 FFRKLTQVRVLDLTYMHLSL---LPSSLGLLTNLRTLCLYCSEL--QDIAVIGELKNLEI 184
           + +     +        L         L  L+      +                 ++  
Sbjct: 577 YIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMF 636

Query: 185 LCLRGSYIE-QLPVEIGQLTRLRSLDLRDCDRLQ-VIPPNVLSNLSHLEELYIRSFNK 240
           L +  + +   +P EIG +  L  L+L   + +   IP   + +L  L  L + S NK
Sbjct: 637 LDMSYNMLSGYIPKEIGSMPYLFILNL-GHNDISGSIPDE-VGDLRGLNILDL-SSNK 691

>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 = 70.9 bits (174), Expect = 3e-13
 Identities = 40/178 (22%), Positives = 68/178 (38%), Gaps = 17/178 (9%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYC 167
             L  L +   ++ ++ L D  F+ L  ++ L++    L  +   +   L +L  L L  
Sbjct: 104 SNLTKLDI--SENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEK 161

Query: 168 SELQDIA--VIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVL 224
             L  I    +  L  L +L LR   I  +      +L RL+ L++     L  + PN L
Sbjct: 162 CNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCL 221

Query: 225 SNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLF 282
             L+ L  L I   N   V   A          ++ L  L  L L    ++T+   + 
Sbjct: 222 YGLN-LTSLSITHCNLTAVPYLA----------VRHLVYLRFLNLSYNPISTIEGSML 268

>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 = 70.1 bits (172), Expect = 5e-13
 Identities = 42/186 (22%), Positives = 70/186 (37%), Gaps = 18/186 (9%)

Query: 89  TSIVLHDSKMNVLLPEVLE-CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL 147
             + L  +++  L  +     P L+ L L   ++ +  +    F  L  +R L L    L
Sbjct: 35  RLLDLGKNRIKTLNQDEFASFPHLEELEL--NENIVSAVEPGAFNNLFNLRTLGLRSNRL 92

Query: 148 SLLPS-SLGLLTNLRTLCLYCSELQDIAVI--GELKNLEILCLRGSYIEQLPVEI-GQLT 203
            L+P      L+NL  L +  +++  +      +L NL+ L +  + +  +       L 
Sbjct: 93  KLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLN 152

Query: 204 RLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPN 263
            L  L L  C  L  IP   LS+L  L  L +R             +        KRL  
Sbjct: 153 SLEQLTLEKC-NLTSIPTEALSHLHGLIVLRLRH-LN---------INAIRDYSFKRLYR 201

Query: 264 LTTLEL 269
           L  LE+
Sbjct: 202 LKVLEI 207

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

 Score = 67.0 bits (164), Expect = 6e-12
 Identities = 57/358 (15%), Positives = 109/358 (30%), Gaps = 87/358 (24%)

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSELQDIA--VIGE 178
             + +P+    +     +LDL    +  L         +L  L L  + +  +       
Sbjct: 22  RFVAVPEGIPTETR---LLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNN 78

Query: 179 LKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRS 237
           L NL  L LR + ++ +P+ +   L+ L  LD+ +  ++ ++   +  +L +L+ L +  
Sbjct: 79  LFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISEN-KIVILLDYMFQDLYNLKSLEV-G 136

Query: 238 FNK-WEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLF--FEKLERYRICIG 294
            N    +   A             L +L  L L   ++ ++P         L        
Sbjct: 137 DNDLVYISHRA----------FSGLNSLEQLTLEKCNLTSIPTEALSHLHGL-------- 178

Query: 295 RWCWEDTSPTCSRTFRLLLGTDNCISF-KSGHIVQLQRIEDLCLSGLPDQDIIELVNNKL 353
                          RL       I+  +     +L R++ L +S  P  D +       
Sbjct: 179 ------------IVLRL---RHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMT----PN 219

Query: 354 GSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLE 413
             Y   L  L                      +    +       VP        L  L 
Sbjct: 220 CLYGLNLTSLS---------------------ITHCNL-----TAVPYLAV--RHLVYLR 251

Query: 414 TLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEI 471
            L L    +  I  S L      +  L  + + G  +L  +       +F  L +L +
Sbjct: 252 FLNLSYNPISTIEGSMLH----ELLRLQEIQLVGG-QLAVVEP----YAFRGLNYLRV 300

>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 = 58.2 bits (141), Expect = 3e-09
 Identities = 30/140 (21%), Positives = 52/140 (37%), Gaps = 26/140 (18%)

Query: 103 PEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRT 162
           P  L    L  LS+     +L  +P    R L  +R L+L+Y  +S +     +L  L  
Sbjct: 218 PNCLYGLNLTSLSI--THCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEG--SMLHELL- 272

Query: 163 LCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPP 221
                              L+ + L G  +  +       L  LR L++    +L  +  
Sbjct: 273 ------------------RLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGN-QLTTLEE 313

Query: 222 NVLSNLSHLEELYIRSFNKW 241
           +V  ++ +LE L + S N  
Sbjct: 314 SVFHSVGNLETLILDS-NPL 332

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 68.2 bits (167), Expect = 9e-13
 Identities = 35/168 (20%), Positives = 74/168 (44%), Gaps = 21/168 (12%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
           L  +    ++  L L       ++        L  ++ LDLT   ++ + + L  L+NL+
Sbjct: 78  LAPLKNLTKITELELSGNPLKNVS----AIAGLQSIKTLDLTSTQITDV-TPLAGLSNLQ 132

Query: 162 TLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP 221
            L L  +++ +I+ +  L NL+ L +  + +  L   +  L++L +L   D  ++  I P
Sbjct: 133 VLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLT-PLANLSKLTTLKADDN-KISDISP 190

Query: 222 NVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
             L++L +L E+++   N+            + +  L    NL  + L
Sbjct: 191 --LASLPNLIEVHL-KNNQ-----------ISDVSPLANTSNLFIVTL 224

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 68.2 bits (167), Expect = 1e-12
 Identities = 36/163 (22%), Positives = 69/163 (42%), Gaps = 21/163 (12%)

Query: 107 ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLY 166
           +   +  LS +    + I       + L  +  L+L    ++ L + L  LT +  L L 
Sbjct: 39  DLDGITTLSAFGTGVTTIE----GVQYLNNLIGLELKDNQITDL-APLKNLTKITELELS 93

Query: 167 CSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSN 226
            + L++++ I  L++++ L L  + I  +   +  L+ L+ L L    ++  I P  L+ 
Sbjct: 94  GNPLKNVSAIAGLQSIKTLDLTSTQITDVT-PLAGLSNLQVLYLDLN-QITNISP--LAG 149

Query: 227 LSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
           L++L+ L I    +              L  L  L  LTTL+ 
Sbjct: 150 LTNLQYLSI-GNAQVS-----------DLTPLANLSKLTTLKA 180

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 67.8 bits (166), Expect = 1e-12
 Identities = 25/137 (18%), Positives = 51/137 (37%), Gaps = 17/137 (12%)

Query: 133 KLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYI 192
            L     +     +++    +   L  + TL  + + +  I  +  L NL  L L+ + I
Sbjct: 17  ALANAIKIAAGKSNVTDT-VTQADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQI 75

Query: 193 EQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKN 252
             L   +  LT++  L+L     L+ +    ++ L  ++ L + +             + 
Sbjct: 76  TDLA-PLKNLTKITELELSGN-PLKNVSA--IAGLQSIKTLDL-TST-----------QI 119

Query: 253 ASLEELKRLPNLTTLEL 269
             +  L  L NL  L L
Sbjct: 120 TDVTPLAGLSNLQVLYL 136

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 66.6 bits (163), Expect = 3e-12
 Identities = 24/118 (20%), Positives = 47/118 (39%), Gaps = 16/118 (13%)

Query: 152 SSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLR 211
                L N   +    S + D     +L  +  L   G+ +  +   +  L  L  L+L+
Sbjct: 13  FPDPALANAIKIAAGKSNVTDTVTQADLDGITTLSAFGTGVTTIE-GVQYLNNLIGLELK 71

Query: 212 DCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
           D  ++  + P  L NL+ + EL + S N  +           ++  +  L ++ TL+L
Sbjct: 72  DN-QITDLAP--LKNLTKITELEL-SGNPLK-----------NVSAIAGLQSIKTLDL 114

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 60.9 bits (148), Expect = 3e-10
 Identities = 26/136 (19%), Positives = 60/136 (44%), Gaps = 9/136 (6%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
           +  +     ++ L L    + +  +       L+ ++VL L    ++ + S L  LTNL+
Sbjct: 100 VSAIAGLQSIKTLDLT--STQITDVTP--LAGLSNLQVLYLDLNQITNI-SPLAGLTNLQ 154

Query: 162 TLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP 221
            L +  +++ D+  +  L  L  L    + I  +   +  L  L  + L++  ++  + P
Sbjct: 155 YLSIGNAQVSDLTPLANLSKLTTLKADDNKISDIS-PLASLPNLIEVHLKNN-QISDVSP 212

Query: 222 NVLSNLSHLEELYIRS 237
             L+N S+L  + + +
Sbjct: 213 --LANTSNLFIVTLTN 226

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 46.6 bits (111), Expect = 1e-05
 Identities = 20/103 (19%), Positives = 33/103 (32%), Gaps = 16/103 (15%)

Query: 167 CSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSN 226
            + +  I     L N   +    S +    V    L  + +L       +  I    +  
Sbjct: 6   PTAINVIFPDPALANAIKIAAGKSNVTDT-VTQADLDGITTLSAFGT-GVTTIEG--VQY 61

Query: 227 LSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
           L++L  L +   N+              L  LK L  +T LEL
Sbjct: 62  LNNLIGLEL-KDNQIT-----------DLAPLKNLTKITELEL 92

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 43.9 bits (104), Expect = 7e-05
 Identities = 27/134 (20%), Positives = 50/134 (37%), Gaps = 7/134 (5%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
           +  +     LQ LS+   + S +T        L+++  L      +S + S L  L NL 
Sbjct: 144 ISPLAGLTNLQYLSIGNAQVSDLT----PLANLSKLTTLKADDNKISDI-SPLASLPNLI 198

Query: 162 TLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP 221
            + L  +++ D++ +    NL I+ L    I   PV       L   ++        I P
Sbjct: 199 EVHLKNNQISDVSPLANTSNLFIVTLTNQTITNQPVFY--NNNLVVPNVVKGPSGAPIAP 256

Query: 222 NVLSNLSHLEELYI 235
             +S+        +
Sbjct: 257 ATISDNGTYASPNL 270

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 67.7 bits (166), Expect = 1e-12
 Identities = 35/138 (25%), Positives = 55/138 (39%), Gaps = 8/138 (5%)

Query: 108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLY 166
             +L  L L  ++  L  L    FR L  ++ L L    L  LP  +   L NL  L L+
Sbjct: 104 LGRLHTLHL--DRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLH 161

Query: 167 CSELQDIA--VIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNV 223
            + +  +       L +L+ L L  + +  +       L RL +L L     L  +P   
Sbjct: 162 GNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFAN-NLSALPTEA 220

Query: 224 LSNLSHLEELYIRSFNKW 241
           L+ L  L+ L +   N W
Sbjct: 221 LAPLRALQYLRLND-NPW 237

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 66.6 bits (163), Expect = 3e-12
 Identities = 39/166 (23%), Positives = 65/166 (39%), Gaps = 19/166 (11%)

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSELQDIA--VIGE 178
            L  +P            + L    +S +P+ S     NL  L L+ + L  I       
Sbjct: 22  GLQAVPVGIPAASQ---RIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTG 78

Query: 179 LKNLEILCLRG-SYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR 236
           L  LE L L   + +  +       L RL +L L  C  LQ + P +   L+ L+ LY++
Sbjct: 79  LALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRC-GLQELGPGLFRGLAALQYLYLQ 137

Query: 237 SFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLF 282
             N          ++    +  + L NLT L L    ++++P+  F
Sbjct: 138 D-NA---------LQALPDDTFRDLGNLTHLFLHGNRISSVPERAF 173

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

 Score = 67.7 bits (166), Expect = 1e-12
 Identities = 34/179 (18%), Positives = 70/179 (39%), Gaps = 23/179 (12%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCS 168
             L  L L    + +  +    F  L ++  L L+   L  LP    +   L+ L ++ +
Sbjct: 76  KNLHTLIL--INNKISKISPGAFAPLVKLERLYLSKNQLKELPE--KMPKTLQELRVHEN 131

Query: 169 ELQDI--AVIGELKNLEILCLRGSYIEQLPVEIG---QLTRLRSLDLRDCDRLQVIPPNV 223
           E+  +  +V   L  + ++ L  + ++   +E G    + +L  + + D   +  IP  +
Sbjct: 132 EITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADT-NITTIPQGL 190

Query: 224 LSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLF 282
             +   L EL++      +V+  +          LK L NL  L L    ++ +  G  
Sbjct: 191 PPS---LTELHLDGNKITKVDAAS----------LKGLNNLAKLGLSFNSISAVDNGSL 236

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

 Score = 66.9 bits (164), Expect = 3e-12
 Identities = 35/188 (18%), Positives = 74/188 (39%), Gaps = 24/188 (12%)

Query: 103 PEVLECPQL---QLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLP-SSLGLLT 158
           P    CP      L  +      L  +P +         +LDL    ++ +       L 
Sbjct: 20  PMGPVCPFRCQCHLRVVQCSDLGLEKVPKDLPPDTA---LLDLQNNKITEIKDGDFKNLK 76

Query: 159 NLRTLCLYCSELQDIA--VIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRL 216
           NL TL L  +++  I+      L  LE L L  + +++LP        L+ L + +   +
Sbjct: 77  NLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKELPE--KMPKTLQELRVHEN-EI 133

Query: 217 QVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEE--LKRLPNLTTLELCIPDV 274
             +  +V + L+ +  + +   N          +K++ +E    + +  L+ + +   ++
Sbjct: 134 TKVRKSVFNGLNQMIVVEL-GTNP---------LKSSGIENGAFQGMKKLSYIRIADTNI 183

Query: 275 NTLPKGLF 282
            T+P+GL 
Sbjct: 184 TTIPQGLP 191

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

 Score = 52.7 bits (127), Expect = 1e-07
 Identities = 14/115 (12%), Positives = 38/115 (33%), Gaps = 13/115 (11%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCS 168
             L  L L    +S+  + +        +R L L    L  +P  L     ++ + L+ +
Sbjct: 216 NNLAKLGL--SFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNN 273

Query: 169 ELQDI--------AVIGELKNLEILCLRGSYIEQLPVEIG---QLTRLRSLDLRD 212
            +  I            +  +   + L  + ++   ++      +    ++ L +
Sbjct: 274 NISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAVQLGN 328

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 68.3 bits (167), Expect = 1e-12
 Identities = 41/167 (24%), Positives = 73/167 (43%), Gaps = 18/167 (10%)

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGL--LTNLRTLCLYCSELQDIA--VIG 177
            L  +P +     +   +LDL++ +LS L +      LTNL +L L  + L  I+     
Sbjct: 29  QLPNVPQSLP---SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFV 85

Query: 178 ELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR 236
            + NL  L L  +++  L   +   L  L  L L +   + V+  N   +++ L++LY+ 
Sbjct: 86  PVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYNN-HIVVVDRNAFEDMAQLQKLYL- 143

Query: 237 SFNK-WEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLF 282
           S N+     VE        +++  +LP L  L+L    +  LP    
Sbjct: 144 SQNQISRFPVEL-------IKDGNKLPKLMLLDLSSNKLKKLPLTDL 183

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 65.2 bits (159), Expect = 1e-11
 Identities = 36/155 (23%), Positives = 62/155 (40%), Gaps = 8/155 (5%)

Query: 89  TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLS 148
             + L  + ++ L  E        L SL    + L  +    F  +  +R LDL+  HL 
Sbjct: 42  ALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLH 101

Query: 149 LLPS-SLGLLTNLRTLCLYCSELQDIA--VIGELKNLEILCLRGSYIEQLPVEI----GQ 201
            L       L  L  L LY + +  +      ++  L+ L L  + I + PVE+     +
Sbjct: 102 TLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNK 161

Query: 202 LTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR 236
           L +L  LDL   ++L+ +P   L  L    +  + 
Sbjct: 162 LPKLMLLDLSS-NKLKKLPLTDLQKLPAWVKNGLY 195

>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 = 69.1 bits (169), Expect = 2e-12
 Identities = 67/430 (15%), Positives = 138/430 (32%), Gaps = 90/430 (20%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLL--PSSLGLLTN 159
           +P+VL     + L L    + + T+  + F  L Q+++L+L   +  L     +   L N
Sbjct: 19  VPQVL--NTTERLLL--SFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPN 74

Query: 160 LRTLCLYCSELQDIA--VIGELKNLEILCLRGSYIEQLPVE---IGQLTRLRSLDLRDCD 214
           LR L L  S++  +       L +L  L L    +    ++      L  L  LDL    
Sbjct: 75  LRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQ 134

Query: 215 RLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDV 274
              +        L+ L+ +   S N+  +      V    LE L +   L+   L    +
Sbjct: 135 IRSLYLHPSFGKLNSLKSIDF-SSNQIFL------VCEHELEPL-QGKTLSFFSLAANSL 186

Query: 275 NTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQ--LQRI 332
            +     + + +  +R               +    +L  + N  +          + + 
Sbjct: 187 YSRVSVDWGKCMNPFR---------------NMVLEILDVSGNGWTVDITGNFSNAISKS 231

Query: 333 EDLCLSGLPDQDIIELVNNKL---------GSYSSQLKHLWVEGCQAPSPKESKRCKEST 383
           +   L             + +         G   S ++HL                    
Sbjct: 232 QAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLD------------------- 272

Query: 384 SEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRL 443
             +    +      ++ +  F    L +L+ L L    + +I          G+  L  L
Sbjct: 273 --LSHGFV-----FSLNSRVF--ETLKDLKVLNLAYNKINKIADEAF----YGLDNLQVL 319

Query: 444 IVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVD 503
            +     L  L+SS+      ++ ++++ +  I            ++  F  L+ L+ +D
Sbjct: 320 NLSYN-LLGELYSSNFYG-LPKVAYIDLQKNHI---------AIIQDQTFKFLEKLQTLD 368

Query: 504 LE--KLTSFC 511
           L    LT+  
Sbjct: 369 LRDNALTTIH 378

>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 = 64.1 bits (156), Expect = 6e-11
 Identities = 36/204 (17%), Positives = 68/204 (33%), Gaps = 37/204 (18%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGL---------LTN 159
           P++  + L  +K+ +  + D  F+ L +++ LDL    L+ +     +         L  
Sbjct: 338 PKVAYIDL--QKNHIAIIQDQTFKFLEKLQTLDLRDNALTTIHFIPSIPDIFLSGNKLVT 395

Query: 160 LRTLCL----------YCSELQDIAVIGELKNLEILCLRGSYIEQLPVE--IGQLTRLRS 207
           L  + L              L  +  +  + +L+IL L  +       +    +   L  
Sbjct: 396 LPKINLTANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQ 455

Query: 208 LDLRDC----DRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPN 263
           L L +          +  +V   LSHL+ LY+ + N          + +        L  
Sbjct: 456 LFLGENMLQLAWETELCWDVFEGLSHLQVLYL-NHNY---------LNSLPPGVFSHLTA 505

Query: 264 LTTLELCIPDVNTLPKGLFFEKLE 287
           L  L L    +  L        LE
Sbjct: 506 LRGLSLNSNRLTVLSHNDLPANLE 529

>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 = 52.5 bits (126), Expect = 3e-07
 Identities = 55/393 (13%), Positives = 111/393 (28%), Gaps = 69/393 (17%)

Query: 106 LECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCL 165
           L+   L   SL         +  ++ + +   R + L  + +S      G   ++     
Sbjct: 171 LQGKTLSFFSLAANSLYSR-VSVDWGKCMNPFRNMVLEILDVS----GNGWTVDITGNFS 225

Query: 166 YCSELQDIAVIGELKNLEILCLRGSYIEQLPVEI---GQLTRLRSLDLRDCDRLQVIPPN 222
                     +    ++         I+            + +R LDL     +  +   
Sbjct: 226 NAISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHG-FVFSLNSR 284

Query: 223 VLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLF 282
           V   L  L+ L + ++NK         +   + E    L NL  L L    +  L    F
Sbjct: 285 VFETLKDLKVLNL-AYNK---------INKIADEAFYGLDNLQVLNLSYNLLGELYSSNF 334

Query: 283 FE--KLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHI-VQLQRIEDLCLS- 338
           +   K+                        + L   N I+         L++++ L L  
Sbjct: 335 YGLPKVAY----------------------IDL-QKNHIAIIQDQTFKFLEKLQTLDLRD 371

Query: 339 -------GLPDQDIIELVNNKLGSYSS---QLKHLWVEGCQAPSPKESKRCKESTS---- 384
                   +P    I L  NKL +          + +   +  +                
Sbjct: 372 NALTTIHFIPSIPDIFLSGNKLVTLPKINLTANLIHLSENRLENLDILYFLLRVPHLQIL 431

Query: 385 EMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMS-CGIQTLTRL 443
            +  N        +           P+LE L L    ++  W+++L      G+  L  L
Sbjct: 432 ILNQNRF-----SSCSGDQTP-SENPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQVL 485

Query: 444 IVYGCGELRCLFSSSIVNSFIRLQHLEIDECPI 476
            +     L  L    + +    L+ L ++   +
Sbjct: 486 YLNHNY-LNSL-PPGVFSHLTALRGLSLNSNRL 516

>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 = 68.5 bits (168), Expect = 2e-12
 Identities = 41/177 (23%), Positives = 69/177 (38%), Gaps = 27/177 (15%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
           LPE    P L+ L      +SL  LP+     L  + V +     LS LP        L 
Sbjct: 86  LPE--LPPHLESLVAS--CNSLTELPELPQ-SLKSLLVDNNNLKALSDLPP------LLE 134

Query: 162 TLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP 221
            L +  ++L+ +  +     L+I+ +  + +++LP     L     +   +  +L+ +P 
Sbjct: 135 YLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLE---FIAAGNN-QLEELPE 190

Query: 222 NVLSNLSHLEELYIRSFNKWEV---------EVEAAGVKNASLEELKRLPNLTTLEL 269
             L NL  L  +Y    N  +           + A       L EL+ LP LTT+  
Sbjct: 191 --LQNLPFLTAIYA-DNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPFLTTIYA 244

>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 = 59.6 bits (145), Expect = 1e-09
 Identities = 32/180 (17%), Positives = 63/180 (35%), Gaps = 31/180 (17%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
           LP++   P L+ ++     + L  LP+   + L  +  +      L  LP       +L 
Sbjct: 168 LPDLP--PSLEFIAA--GNNQLEELPE--LQNLPFLTAIYADNNSLKKLPDLPL---SLE 218

Query: 162 TLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP 221
           ++    + L+++  +  L  L  +    + ++ LP     L  L   D      L  + P
Sbjct: 219 SIVAGNNILEELPELQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRDN----YLTDL-P 273

Query: 222 NVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL 281
            +  +L+ L+                     + L EL   PNL  L     ++ +L    
Sbjct: 274 ELPQSLTFLDVSENI---------------FSGLSEL--PPNLYYLNASSNEIRSLCDLP 316

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

 Score = 58.5 bits (142), Expect = 2e-09
 Identities = 31/186 (16%), Positives = 49/186 (26%), Gaps = 37/186 (19%)

Query: 110 QLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL-SLLPSSLG------------- 155
              L       S+L  +P      +         +       P   G             
Sbjct: 10  NTFLQEPLRHSSNLTEMPVEAEN-VKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDC 68

Query: 156 LLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDR 215
           L      L L    L  +       +LE L    + + +LP     L  L   +      
Sbjct: 69  LDRQAHELELNNLGLSSLP--ELPPHLESLVASCNSLTELPELPQSLKSLLVDNNNLK-A 125

Query: 216 LQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVN 275
           L  +PP        LE L + S N           +   L EL+    L  +++    + 
Sbjct: 126 LSDLPPL-------LEYLGV-SNN-----------QLEKLPELQNSSFLKIIDVDNNSLK 166

Query: 276 TLPKGL 281
            LP   
Sbjct: 167 KLPDLP 172

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

 Score = 57.3 bits (139), Expect = 7e-09
 Identities = 32/154 (20%), Positives = 58/154 (37%), Gaps = 30/154 (19%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
           LPE+   P L  +    + + L TLPD        +  L++   +L+ LP     LT L 
Sbjct: 230 LPELQNLPFLTTIYA--DNNLLKTLPD----LPPSLEALNVRDNYLTDLPELPQSLTFLD 283

Query: 162 TLCLYCSELQDI---------------AVIGELKNLEILCLRGSYIEQLPVEIGQLTRLR 206
                 S L ++               ++     +LE L +  + + +LP    +L R  
Sbjct: 284 VSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPALPPRLER-- 341

Query: 207 SLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNK 240
            L       L  +P        +L++L++  +N 
Sbjct: 342 -LIASFN-HLAEVPE----LPQNLKQLHV-EYNP 368

>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 = 53.1 bits (128), Expect = 1e-07
 Identities = 23/135 (17%), Positives = 42/135 (31%), Gaps = 18/135 (13%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
           LP     P+L+ L      + L  +P+        ++ L + Y  L   P     + +LR
Sbjct: 332 LPA--LPPRLERLIA--SFNHLAEVPEL----PQNLKQLHVEYNPLREFPDIPESVEDLR 383

Query: 162 TLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP 221
                        V    +NL+ L +  + + + P     +  LR        R+     
Sbjct: 384 MNS------HLAEVPELPQNLKQLHVETNPLREFPDIPESVEDLRMNSE----RVVDPYE 433

Query: 222 NVLSNLSHLEELYIR 236
                   LE+    
Sbjct: 434 FAHETTDKLEDDVFE 448

>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 = 68.1 bits (167), Expect = 3e-12
 Identities = 23/156 (14%), Positives = 49/156 (31%), Gaps = 19/156 (12%)

Query: 101 LLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTY--------MHLSLLPS 152
           L P   +   +  ++L    + +   P   F   + +  ++L            L     
Sbjct: 425 LDPTPFKGINVSSINL--SNNQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENE 482

Query: 153 SLGLLTNLRTLCLYC---SELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLD 209
           +      L ++ L     ++L D      L  L  + L  +   + P +    + L+   
Sbjct: 483 NFKNTYLLTSIDLRFNKLTKLSDDFRATTLPYLVGIDLSYNSFSKFPTQPLNSSTLKGFG 542

Query: 210 LRDCD-----RLQVIPPNVLSNLSHLEELYIRSFNK 240
           +R+       R     P  ++    L +L I   N 
Sbjct: 543 IRNQRDAQGNRTLREWPEGITLCPSLTQLQI-GSND 577

>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 = 67.8 bits (166), Expect = 4e-12
 Identities = 47/410 (11%), Positives = 119/410 (29%), Gaps = 80/410 (19%)

Query: 82  EGALKFYTSIVLHDSKMNVLLPEVLE-CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVL 140
           E   + + +     ++         +    L  + ++    +L  LP      L +++++
Sbjct: 221 ENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVY-NCPNLTKLPTFLK-ALPEMQLI 278

Query: 141 DLTYMHLSLLP---------SSLGLLTNLRTLCLYCSELQDI---AVIGELKNLEILCLR 188
           ++                  +   +   ++ + +  + L+       + ++K L +L   
Sbjct: 279 NVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECL 338

Query: 189 GSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAA 248
            + +E      G   +L SL+L    ++  IP N       +E L   + NK +      
Sbjct: 339 YNQLEGKLPAFGSEIKLASLNLAYN-QITEIPANFCGFTEQVENLSF-AHNKLK------ 390

Query: 249 GVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRT 308
                ++ + K +  ++ ++      N +   +  +  +       +             
Sbjct: 391 --YIPNIFDAKSVSVMSAIDF---SYNEI-GSVDGKNFDPLDPTPFK---------GINV 435

Query: 309 FRLLLGTDNCIS-FKSGHIVQLQRIEDL-----CLSGLPDQDIIELVNNKLGSYSSQLKH 362
             + L  +N IS F          +  +      L+ +P  + ++  N    +    L  
Sbjct: 436 SSINLS-NNQISKFPKELFSTGSPLSSINLMGNMLTEIPK-NSLKDENENFKNTYL-LTS 492

Query: 363 LWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNV 422
           + +                     R N++       + + F     LP L  ++L   N 
Sbjct: 493 IDL---------------------RFNKL-----TKLSDDFRA-TTLPYLVGIDLSY-N- 523

Query: 423 ERIWKSQLPAMSCGIQTLTRLIVYGCGEL-RCLFSSSIVNSFIRLQHLEI 471
                S+ P       TL    +    +                   L  
Sbjct: 524 -SF--SKFPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQ 570

>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 = 54.7 bits (132), Expect = 5e-08
 Identities = 39/405 (9%), Positives = 98/405 (24%), Gaps = 119/405 (29%)

Query: 112 QLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQ 171
             +S   ++   +     F     +    DL    ++  P    +  +            
Sbjct: 131 ANMSDEQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKS------------ 178

Query: 172 DIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCD----------------- 214
                        +    + I  +   + +LT+LR   + +                   
Sbjct: 179 ----SRITLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEY 234

Query: 215 -RLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASL-EELKRLPNLTTLELCIP 272
            +          NL  L ++ + +                 L   LK LP +  + +   
Sbjct: 235 AQQYKTEDLKWDNLKDLTDVEVYNCPNLT-----------KLPTFLKALPEMQLINV--- 280

Query: 273 DVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHI----VQ 328
             N         +          W     +P   +   + +G  N  + K+  +     +
Sbjct: 281 ACN---------RGISGEQLKDDWQALADAPVGEKIQIIYIG-YN--NLKTFPVETSLQK 328

Query: 329 LQRIEDLCLS-----GLPDQ-------DIIELVNNKL-------GSYSSQLKHLWVEGCQ 369
           ++++  L        G             + L  N++         ++ Q+++L     +
Sbjct: 329 MKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNK 388

Query: 370 APSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYN---VNVERIW 426
                                  L+    +PN F     +  +  ++       +V+   
Sbjct: 389 -----------------------LK---YIPNIFDA-KSVSVMSAIDFSYNEIGSVDGKN 421

Query: 427 KSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEI 471
              L         ++ + +          S      F     L  
Sbjct: 422 FDPLDPTPFKGINVSSINLSN-----NQISKFPKELFSTGSPLSS 461

>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 = 44.6 bits (106), Expect = 7e-05
 Identities = 33/238 (13%), Positives = 64/238 (26%), Gaps = 51/238 (21%)

Query: 190 SYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAG 249
            +  Q  V +    R+  L L          P+ +  L+ LE L +   +  +V      
Sbjct: 68  MWGAQPGVSLNSNGRVTGLSLEGF-GASGRVPDAIGQLTELEVLAL-GSHGEKV------ 119

Query: 250 VKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTF 309
             N  L   K +    + E             F +   R                    F
Sbjct: 120 --NERLFGPKGISANMSDEQKQKMRMHYQ-KTFVDYDPR------------------EDF 158

Query: 310 RLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYS------SQLKHL 363
             L+        +   I +  R   + L        I  ++N +   S      ++L+  
Sbjct: 159 SDLIKDCINSDPQQKSIKKSSR---ITLKDT----QIGQLSNNITFVSKAVMRLTKLRQF 211

Query: 364 WVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVN 421
           ++      +    +  +   SE                 +     L +L  +E+YN  
Sbjct: 212 YMGNSPFVAENICEAWENENSEYAQQYKTE------DLKW---DNLKDLTDVEVYNCP 260

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 66.8 bits (163), Expect = 8e-12
 Identities = 36/187 (19%), Positives = 60/187 (32%), Gaps = 46/187 (24%)

Query: 101 LLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLT-----------------QVRVLDLT 143
           ++ ++  C       L   +S L TLPD     +T                 ++R L+++
Sbjct: 30  VVQKMRACLNNGNAVLNVGESGLTTLPDCLPAHITTLVIPDNNLTSLPALPPELRTLEVS 89

Query: 144 YMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLT 203
              L+ LP     L  L       + L  +        L  L + G+ +  LPV    L 
Sbjct: 90  GNQLTSLPVLPPGLLELSIFSNPLTHLPAL-----PSGLCKLWIFGNQLTSLPVLPPGLQ 144

Query: 204 RLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEEL-KRLP 262
               L + D  +L  +P       S L +L+    N+              L  L     
Sbjct: 145 ---ELSVSDN-QLASLPA----LPSELCKLWA-YNNQ--------------LTSLPMLPS 181

Query: 263 NLTTLEL 269
            L  L +
Sbjct: 182 GLQELSV 188

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 61.8 bits (150), Expect = 3e-10
 Identities = 24/141 (17%), Positives = 53/141 (37%), Gaps = 15/141 (10%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
           LP +      +L  LW   + L +LP       + ++ L ++   L+ LP        L+
Sbjct: 196 LPTLPS----ELYKLWAYNNRLTSLPAL----PSGLKELIVSGNRLTSLPVLPS---ELK 244

Query: 162 TLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP 221
            L +  + L  + +      L  L +  + + +LP  +  L+   +++L     L     
Sbjct: 245 ELMVSGNRLTSLPM--LPSGLLSLSVYRNQLTRLPESLIHLSSETTVNLEGN-PLSERTL 301

Query: 222 NVLSNLSHLEELYIRSFNKWE 242
             L  ++     Y     +++
Sbjct: 302 QALREITSA-PGYSGPIIRFD 321

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 60.3 bits (146), Expect = 1e-09
 Identities = 29/149 (19%), Positives = 46/149 (30%), Gaps = 28/149 (18%)

Query: 134 LTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIE 193
                VL++    L+ LP  L    ++ TL +  + L  +        L  L + G+ + 
Sbjct: 39  NNGNAVLNVGESGLTTLPDCLP--AHITTLVIPDNNLTSLP--ALPPELRTLEVSGNQLT 94

Query: 194 QLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNA 253
            LPV    L  L          L  +P         L +L+I                  
Sbjct: 95  SLPVLPPGLLELSIFSNPLT-HLPALPSG-------LCKLWIF---------------GN 131

Query: 254 SLEEL-KRLPNLTTLELCIPDVNTLPKGL 281
            L  L    P L  L +    + +LP   
Sbjct: 132 QLTSLPVLPPGLQELSVSDNQLASLPALP 160

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A Length = 220

 Score = 63.1 bits (154), Expect = 1e-11
 Identities = 32/133 (24%), Positives = 65/133 (48%), Gaps = 10/133 (7%)

Query: 116 LWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGL---LTNLRTLCLYCSELQD 172
           +  E++++  +P   F    ++R +DL+   +S L         L +L +L LY +++ +
Sbjct: 37  IRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAP--DAFQGLRSLNSLVLYGNKITE 94

Query: 173 I--AVIGELKNLEILCLRGSYIEQLPVEIGQ-LTRLRSLDLRDCDRLQVIPPNVLSNLSH 229
           +  ++   L +L++L L  + I  L V+  Q L  L  L L D ++LQ I     S L  
Sbjct: 95  LPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYD-NKLQTIAKGTFSPLRA 153

Query: 230 LEELYIRSFNKWE 242
           ++ +++   N + 
Sbjct: 154 IQTMHLAQ-NPFI 165

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A Length = 220

 Score = 58.1 bits (141), Expect = 7e-10
 Identities = 27/152 (17%), Positives = 58/152 (38%), Gaps = 18/152 (11%)

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSELQDIA--VIGE 178
            L  +P N       +  + L    + ++P  +      LR + L  +++ ++A      
Sbjct: 22  GLTEIPTNLP---ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQG 78

Query: 179 LKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRS 237
           L++L  L L G+ I +LP  +   L  L+ L L + +++  +  +   +L +L  L +  
Sbjct: 79  LRSLNSLVLYGNKITELPKSLFEGLFSLQLLLL-NANKINCLRVDAFQDLHNLNLLSLYD 137

Query: 238 FNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
                +                 L  + T+ L
Sbjct: 138 NKLQTIAKGT----------FSPLRAIQTMHL 159

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A Length = 220

 Score = 40.8 bits (96), Expect = 4e-04
 Identities = 22/108 (20%), Positives = 40/108 (37%), Gaps = 22/108 (20%)

Query: 181 NLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFN 239
            +  + L  + I+ +P        +LR +DL + +++  + P+    L  L  L +   N
Sbjct: 33  TITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSN-NQISELAPDAFQGLRSLNSLVLYG-N 90

Query: 240 KWEVEVEAAGVKNASLEEL-----KRLPNLTTLELCIPDVNTLPKGLF 282
           K              + EL     + L +L  L L    +N L    F
Sbjct: 91  K--------------ITELPKSLFEGLFSLQLLLLNANKINCLRVDAF 124

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 65.7 bits (160), Expect = 1e-11
 Identities = 22/135 (16%), Positives = 61/135 (45%), Gaps = 4/135 (2%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL--SLLPSSLGLLTNLRTLCLY 166
            +L+ L L   +   ++       ++  ++ LD++   +             +L +L + 
Sbjct: 348 TELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMS 407

Query: 167 CSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSN 226
            + L D         +++L L  + I+ +P ++ +L  L+ L++    +L+ +P  +   
Sbjct: 408 SNILTDTIFRCLPPRIKVLDLHSNKIKSIPKQVVKLEALQELNVASN-QLKSVPDGIFDR 466

Query: 227 LSHLEELYIRSFNKW 241
           L+ L+++++ + N W
Sbjct: 467 LTSLQKIWLHT-NPW 480

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 63.0 bits (153), Expect = 1e-10
 Identities = 29/180 (16%), Positives = 58/180 (32%), Gaps = 19/180 (10%)

Query: 110 QLQLLSLWT-EKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYC 167
            L+ LS+               +   + + + + T     ++       ++    L    
Sbjct: 274 SLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMVHMLCPSKISPFLHLDFSN 333

Query: 168 SELQDIA--VIGELKNLEILCLRGSYIEQLPVEIG---QLTRLRSLDLRDCDRLQVIPPN 222
           + L D      G L  LE L L+ + +++L        Q+  L+ LD+            
Sbjct: 334 NLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKG 393

Query: 223 VLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLF 282
             S    L  L + S N          + +     L   P +  L+L    + ++PK + 
Sbjct: 394 DCSWTKSLLSLNM-SSNI---------LTDTIFRCL--PPRIKVLDLHSNKIKSIPKQVV 441

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 60.6 bits (147), Expect = 7e-10
 Identities = 55/373 (14%), Positives = 115/373 (30%), Gaps = 38/373 (10%)

Query: 89  TSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL 147
           T + +  + ++ L    +    +L++L +    + +  L  + F+   ++  LDL++  L
Sbjct: 24  TILNISQNYISELWTSDILSLSKLRILIISH--NRIQYLDISVFKFNQELEYLDLSHNKL 81

Query: 148 SLLPSSLGLLTNLRTLCLYCSELQDI---AVIGELKNLEILCLRGSYIEQLPVE-IGQLT 203
             +        NL+ L L  +    +      G +  L+ L L  +++E+  V  I  L 
Sbjct: 82  VKISC--HPTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEKSSVLPIAHLN 139

Query: 204 RLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFN---KWEVEVEAAGVKNASLEELKR 260
             + L +      +   P  L + +      +   N    + ++V    V N  L  +K 
Sbjct: 140 ISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIKC 199

Query: 261 LPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCIS 320
           +         +  +  L        L    I      +         T        N   
Sbjct: 200 VLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYFSISNVKL 259

Query: 321 FKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSS---------QLKHLWVEGCQAP 371
                        D   + L    I ++V++  G   S          +K+  V G +  
Sbjct: 260 QGQLDFRDF----DYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMV 315

Query: 372 SPKESKRCKESTS-EMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQL 430
                 +       +  +N +      +        G L  LETL L    +      +L
Sbjct: 316 HMLCPSKISPFLHLDFSNNLLT-----DTVFENC--GHLTELETLILQMNQL-----KEL 363

Query: 431 PAMSCGIQTLTRL 443
             ++     +  L
Sbjct: 364 SKIAEMTTQMKSL 376

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 64.8 bits (158), Expect = 2e-11
 Identities = 43/236 (18%), Positives = 81/236 (34%), Gaps = 25/236 (10%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGL-LTNLRTLCLYC 167
           P+L  + +  + ++L+ +    F+ L  ++ L ++   +  LP    +       L +  
Sbjct: 79  PKLHEIRI-EKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQD 137

Query: 168 ----SELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNV 223
                 ++  + +G      IL L  + I+++       T+L  L+L D + L+ +P +V
Sbjct: 138 NINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDV 197

Query: 224 LSNLSHLEELYIRSFNKWEVEVEA-AGVK---------NASLEELKRLPNLTTLEL---- 269
               S    L I       +       +K            L  L++L  L    L    
Sbjct: 198 FHGASGPVILDISRTRIHSLPSYGLENLKKLRARSTYNLKKLPTLEKLVALMEASLTYPS 257

Query: 270 -CIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSG 324
            C    N   +      +    I       E    T +R  R  L  DN  S+  G
Sbjct: 258 HCCAFANWRRQISELHPICNKSIL----RQEVDYMTQARGQRSSLAEDNESSYSRG 309

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 56.8 bits (137), Expect = 6e-09
 Identities = 29/193 (15%), Positives = 58/193 (30%), Gaps = 23/193 (11%)

Query: 111 LQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL--SLLPSSLGLLTNLRTLCL-YC 167
              L      + L  +    F     +  ++++   +   +       L  L  + +   
Sbjct: 32  AIELRF--VLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKA 89

Query: 168 SELQDIA--VIGELKNLEILCLRGSYIEQLPVEIGQ-LTRLRSLDLRDCDRLQVIPPNVL 224
           + L  I       L NL+ L +  + I+ LP        +   LD++D   +  I  N  
Sbjct: 90  NNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSF 149

Query: 225 SNLSH-LEELYIRSFNKWEVEVEA-AGVKNASLEEL-------------KRLPNLTTLEL 269
             LS     L++      E+   A  G +   L                        L++
Sbjct: 150 VGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDI 209

Query: 270 CIPDVNTLPKGLF 282
               +++LP    
Sbjct: 210 SRTRIHSLPSYGL 222

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 51.0 bits (122), Expect = 5e-07
 Identities = 23/105 (21%), Positives = 38/105 (36%), Gaps = 10/105 (9%)

Query: 180 KNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSF 238
           +N   L    + +  +          L  +++   D L+VI  +V SNL  L E+ I   
Sbjct: 30  RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKA 89

Query: 239 NKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFF 283
           N          +   + E  + LPNL  L +    +  LP     
Sbjct: 90  NN---------LLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKI 125

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 50.6 bits (121), Expect = 6e-07
 Identities = 36/237 (15%), Positives = 76/237 (32%), Gaps = 51/237 (21%)

Query: 138 RVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDI--AVIGELKNLEILCLRGSYIEQL 195
           RV       ++ +PS   L  N   L    ++L+ I         +LE + +  + + ++
Sbjct: 12  RVFLCQESKVTEIPS--DLPRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEV 69

Query: 196 PVEIG---QLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKN 252
            +E      L +L  + +   + L  I P    NL +L+ L I                N
Sbjct: 70  -IEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLIS---------------N 113

Query: 253 ASLEEL-----KRLPNLTTLELCI-PDVNTLPKGLFFE--------KLERYRICIGRWCW 298
             ++ L             L++    +++T+ +  F           L +  I   +   
Sbjct: 114 TGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGI---QEIH 170

Query: 299 EDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGS 355
                       L L  +N           L+ + +    G     I+++   ++ S
Sbjct: 171 NSAFNGTQLD-ELNLSDNN----------NLEELPNDVFHGASGPVILDISRTRIHS 216

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 62.7 bits (153), Expect = 4e-11
 Identities = 32/139 (23%), Positives = 60/139 (43%), Gaps = 18/139 (12%)

Query: 131 FRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGS 190
            ++L+ V+  +    ++  L + +   TNL+ L L  +++ D++ + +L  LE L +  +
Sbjct: 37  QKELSGVQNFNGDNSNIQSL-AGMQFFTNLKELHLSHNQISDLSPLKDLTKLEELSVNRN 95

Query: 191 YIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGV 250
            ++ L         L  L L +   L+      L +L +LE L I   NK +        
Sbjct: 96  RLKNL--NGIPSACLSRLFLDNN-ELRDTDS--LIHLKNLEILSI-RNNKLK-------- 141

Query: 251 KNASLEELKRLPNLTTLEL 269
              S+  L  L  L  L+L
Sbjct: 142 ---SIVMLGFLSKLEVLDL 157

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 54.6 bits (132), Expect = 2e-08
 Identities = 35/161 (21%), Positives = 66/161 (40%), Gaps = 20/161 (12%)

Query: 108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYC 167
              L+ L L   + S ++      + LT++  L +    L  L + +     L  L L  
Sbjct: 62  FTNLKELHLSHNQISDLS----PLKDLTKLEELSVNRNRLKNL-NGIPSA-CLSRLFLDN 115

Query: 168 SELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNL 227
           +EL+D   +  LKNLEIL +R + ++ +   +G L++L  LDL     +       L+ L
Sbjct: 116 NELRDTDSLIHLKNLEILSIRNNKLKSIV-MLGFLSKLEVLDLHGN-EITNTGG--LTRL 171

Query: 228 SHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLE 268
             +  + + +  K           N  ++    L    T++
Sbjct: 172 KKVNWIDL-TGQK---------CVNEPVKYQPELYITNTVK 202

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 63.1 bits (154), Expect = 5e-11
 Identities = 37/179 (20%), Positives = 73/179 (40%), Gaps = 24/179 (13%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCS 168
             L  L L    + +  + +  F  L +++ L ++  HL  +P    L ++L  L ++ +
Sbjct: 78  QHLYALVLV--NNKISKIHEKAFSPLRKLQKLYISKNHLVEIPP--NLPSSLVELRIHDN 133

Query: 169 ELQDIA--VIGELKNLEILCLRGSYIEQLPVEIGQLT--RLRSLDLRDCDRLQVIPPNVL 224
            ++ +   V   L+N+  + + G+ +E    E G     +L  L + +  +L  IP ++ 
Sbjct: 134 RIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKLNYLRISEA-KLTGIPKDLP 192

Query: 225 SNLSHLEELYIRSFNK-WEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLF 282
                L EL++   NK   +E+E           L R   L  L L    +  +  G  
Sbjct: 193 ET---LNELHLDH-NKIQAIELED----------LLRYSKLYRLGLGHNQIRMIENGSL 237

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 62.3 bits (152), Expect = 1e-10
 Identities = 36/164 (21%), Positives = 60/164 (36%), Gaps = 18/164 (10%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCS 168
             L  L +    + +  +P   F  L  +  +++    L       G    L+   L  S
Sbjct: 123 SSLVELRI--HDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKLNYLRIS 180

Query: 169 E--LQDIAVIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLS 225
           E  L  I      + L  L L  + I+ + +E   + ++L  L L    ++++I    LS
Sbjct: 181 EAKLTGIPK-DLPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHN-QIRMIENGSLS 238

Query: 226 NLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
            L  L EL++   NK    V A          L  L  L  + L
Sbjct: 239 FLPTLRELHL-DNNKLS-RVPAG---------LPDLKLLQVVYL 271

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 59.3 bits (144), Expect = 1e-09
 Identities = 62/334 (18%), Positives = 105/334 (31%), Gaps = 84/334 (25%)

Query: 122 SLITLPDNFFRKLTQVRVLDLTYMHLSLLP-SSLGLLTNLRTLCLYCSELQDIA--VIGE 178
            L  +P           +LDL    +S L       L +L  L L  +++  I       
Sbjct: 44  GLKAVPKEIS---PDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSP 100

Query: 179 LKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSF 238
           L+ L+ L +  +++ ++P      + L  L + D  R++ +P  V S L ++  + +   
Sbjct: 101 LRKLQKLYISKNHLVEIPP--NLPSSLVELRIHDN-RIRKVPKGVFSGLRNMNCIEM-GG 156

Query: 239 NKWEVEVEAAGV-KNASLEEL-------KRLP-----NLTTLELCIPDVN---TLPKGLF 282
           N  E      G      L  L         +P      L  L L   D N    +     
Sbjct: 157 NPLENSGFEPGAFDGLKLNYLRISEAKLTGIPKDLPETLNELHL---DHNKIQAIELEDL 213

Query: 283 --FEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGL 340
             + KL R                      L LG  N I            IE+  LS L
Sbjct: 214 LRYSKLYR----------------------LGLG-HNQIR----------MIENGSLSFL 240

Query: 341 PDQDIIELVNNKLGSYSS------QLKHLWVEGCQ---------APSPKESKRCKESTSE 385
           P    + L NNKL    +       L+ +++              P     KR   +   
Sbjct: 241 PTLRELHLDNNKLSRVPAGLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGIS 300

Query: 386 MRSNEIILEDHVNVPNTFFLKGGLPNLETLELYN 419
           + +N +    +  V    F    + +   ++  N
Sbjct: 301 LFNNPV---PYWEVQPATFR--CVTDRLAIQFGN 329

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 50.4 bits (121), Expect = 7e-07
 Identities = 18/135 (13%), Positives = 45/135 (33%), Gaps = 20/135 (14%)

Query: 108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYC 167
             +L  L L    + +  + +     L  +R L L    LS +P+ L  L  L+ + L+ 
Sbjct: 216 YSKLYRLGLG--HNQIRMIENGSLSFLPTLRELHLDNNKLSRVPAGLPDLKLLQVVYLHT 273

Query: 168 SELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQV--IPPNVLS 225
           + +  + V  +   +                  +      + L + + +    + P    
Sbjct: 274 NNITKVGV-NDFCPVGFG--------------VKRAYYNGISLFN-NPVPYWEVQPATFR 317

Query: 226 NLSHLEELYIRSFNK 240
            ++    +   ++ K
Sbjct: 318 CVTDRLAIQFGNYKK 332

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 61.2 bits (149), Expect = 2e-10
 Identities = 24/137 (17%), Positives = 51/137 (37%), Gaps = 17/137 (12%)

Query: 133 KLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYI 192
              +    +L    ++    +   L ++  +    S+++ +  I  L N+  L L G+ +
Sbjct: 22  AFAETIKDNLKKKSVTDA-VTQNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKL 80

Query: 193 EQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKN 252
             +   +  L  L  L L +  +++ +    L +L  L+ L +   N             
Sbjct: 81  TDIK-PLANLKNLGWLFLDEN-KVKDLSS--LKDLKKLKSLSL-EHNGIS---------- 125

Query: 253 ASLEELKRLPNLTTLEL 269
             +  L  LP L +L L
Sbjct: 126 -DINGLVHLPQLESLYL 141

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 59.3 bits (144), Expect = 6e-10
 Identities = 29/139 (20%), Positives = 59/139 (42%), Gaps = 15/139 (10%)

Query: 131 FRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGS 190
            + L +++ L L +  +S + + L  L  L +L L  +++ DI V+  L  L+ L L  +
Sbjct: 108 LKDLKKLKSLSLEHNGISDI-NGLVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLEDN 166

Query: 191 YIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGV 250
            I  +   +  LT+L++L L     +  +    L+ L +L+ L +    +          
Sbjct: 167 QISDIV-PLAGLTKLQNLYLSKN-HISDLRA--LAGLKNLDVLEL-FSQE---------C 212

Query: 251 KNASLEELKRLPNLTTLEL 269
            N  +     L    T++ 
Sbjct: 213 LNKPINHQSNLVVPNTVKN 231

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 59.3 bits (144), Expect = 7e-10
 Identities = 28/118 (23%), Positives = 42/118 (35%), Gaps = 16/118 (13%)

Query: 152 SSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLR 211
            S           L    + D     EL +++ +    S I+ +   I  L  +  L L 
Sbjct: 18  FSDDAFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQ-GIQYLPNVTKLFLN 76

Query: 212 DCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
              +L  I P  L+NL +L  L++   N           K   L  LK L  L +L L
Sbjct: 77  GN-KLTDIKP--LANLKNLGWLFL-DEN-----------KVKDLSSLKDLKKLKSLSL 119

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 46.6 bits (111), Expect = 9e-06
 Identities = 14/105 (13%), Positives = 35/105 (33%), Gaps = 16/105 (15%)

Query: 165 LYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVL 224
              + ++ I             L+   +    V   +L  +  +   +   ++ +    +
Sbjct: 9   TVPTPIKQIFSDDAFAETIKDNLKKKSVTDA-VTQNELNSIDQIIANNS-DIKSVQG--I 64

Query: 225 SNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
             L ++ +L++ + N           K   ++ L  L NL  L L
Sbjct: 65  QYLPNVTKLFL-NGN-----------KLTDIKPLANLKNLGWLFL 97

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A Length = 198

 Score = 59.3 bits (144), Expect = 2e-10
 Identities = 26/130 (20%), Positives = 52/130 (40%), Gaps = 12/130 (9%)

Query: 140 LDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEI 199
           L      +  + ++L  L   + L L  + ++ I+ +  ++NL IL L  + I+++    
Sbjct: 30  LHGMIPPIEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKKIENLD 89

Query: 200 GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELK 259
                L  L +    ++  +    +  L +L  LY+ S NK              +++L 
Sbjct: 90  AVADTLEELWISYN-QIASLSG--IEKLVNLRVLYM-SNNKIT--------NWGEIDKLA 137

Query: 260 RLPNLTTLEL 269
            L  L  L L
Sbjct: 138 ALDKLEDLLL 147

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A Length = 198

 Score = 39.7 bits (93), Expect = 8e-04
 Identities = 20/101 (19%), Positives = 41/101 (40%), Gaps = 5/101 (4%)

Query: 108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYC 167
               + L+L T     I    +    +  +R+L L    +  + +   +   L  L +  
Sbjct: 47  LKACKHLALSTNN---IEKISSL-SGMENLRILSLGRNLIKKIENLDAVADTLEELWISY 102

Query: 168 SELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSL 208
           +++  ++ I +L NL +L +  + I     EI +L  L  L
Sbjct: 103 NQIASLSGIEKLVNLRVLYMSNNKITNWG-EIDKLAALDKL 142

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 59.6 bits (145), Expect = 3e-10
 Identities = 18/136 (13%), Positives = 44/136 (32%), Gaps = 8/136 (5%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLP--SSLGLLTNLRTLCLY 166
            ++  + +     +L  +  +  ++L  ++ L +    L + P  + +        L + 
Sbjct: 80  SKVTHIEI-RNTRNLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEIT 138

Query: 167 C----SELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPN 222
                + +   A  G       L L  +    +       T+L ++ L     L VI  +
Sbjct: 139 DNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFNGTKLDAVYLNKNKYLTVIDKD 198

Query: 223 VLSNL-SHLEELYIRS 237
               + S    L +  
Sbjct: 199 AFGGVYSGPSLLDVSQ 214

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 55.0 bits (133), Expect = 1e-08
 Identities = 30/205 (14%), Positives = 59/205 (28%), Gaps = 52/205 (25%)

Query: 158 TNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRL 216
                  + C ++Q I  +    + + L L  +++  +P      L  +  + +     L
Sbjct: 11  HQEEDFRVTCKDIQRIPSL--PPSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTL 68

Query: 217 QVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEEL-----KRLPNLTTLELCI 271
           Q +  +   NLS +  + IR                 +L  +     K LP L  L +  
Sbjct: 69  QQLESHSFYNLSKVTHIEIR--------------NTRNLTYIDPDALKELPLLKFLGIFN 114

Query: 272 PDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQR 331
             +   P        +                     F L +  +            +  
Sbjct: 115 TGLKMFPDLTKVYSTD-------------------IFFILEITDNP----------YMTS 145

Query: 332 IEDLCLSGLPDQ-DIIELVNNKLGS 355
           I      GL ++   ++L NN   S
Sbjct: 146 IPVNAFQGLCNETLTLKLYNNGFTS 170

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 55.0 bits (133), Expect = 1e-08
 Identities = 28/134 (20%), Positives = 53/134 (39%), Gaps = 10/134 (7%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTY-MHLSLLPS-SLGLLTNLRTLCLY 166
           P  Q L L   ++ L T+P + F  L  +  + ++  + L  L S S   L+ +  + + 
Sbjct: 31  PSTQTLKL--IETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIR 88

Query: 167 -CSELQDIA--VIGELKNLEILCLRGSYIEQLP--VEIGQLTRLRSLDLRDCDRLQVIPP 221
               L  I    + EL  L+ L +  + ++  P   ++        L++ D   +  IP 
Sbjct: 89  NTRNLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPV 148

Query: 222 NVLSNL-SHLEELY 234
           N    L +    L 
Sbjct: 149 NAFQGLCNETLTLK 162

>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 = 61.3 bits (148), Expect = 4e-10
 Identities = 40/210 (19%), Positives = 73/210 (34%), Gaps = 32/210 (15%)

Query: 81  DEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSL-----------ITLPDN 129
           D    +      L   K  VL  E+  C +LQ L    +   L           +     
Sbjct: 344 DSATDEQLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKE 403

Query: 130 FFRKLTQVRVLD---------LTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELK 180
             +  + ++ +D         L    L           ++R L L   +L  +  + +L 
Sbjct: 404 TLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTVLCHLEQLL 463

Query: 181 NLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNK 240
            +  L L  + +  LP  +  L  L  L   D   L+ +    ++NL  L+EL +   N+
Sbjct: 464 LVTHLDLSHNRLRALPPALAALRCLEVLQASDN-ALENVDG--VANLPRLQELLL-CNNR 519

Query: 241 WEVEVEAAGVKNASLEELKRLPNLTTLELC 270
            +        ++A+++ L   P L  L L 
Sbjct: 520 LQ--------QSAAIQPLVSCPRLVLLNLQ 541

>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 = 60.2 bits (145), Expect = 9e-10
 Identities = 29/135 (21%), Positives = 52/135 (38%), Gaps = 6/135 (4%)

Query: 103 PEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRT 162
             VL+     +  L      L  L      +L  V  LDL++  L  LP +L  L  L  
Sbjct: 433 NSVLKMEYADVRVLHLAHKDLTVLC--HLEQLLLVTHLDLSHNRLRALPPALAALRCLEV 490

Query: 163 LCLYCSELQDIAVIGELKNLEILCLRGSYIEQLP--VEIGQLTRLRSLDLRD--CDRLQV 218
           L    + L+++  +  L  L+ L L  + ++Q      +    RL  L+L+     + + 
Sbjct: 491 LQASDNALENVDGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEG 550

Query: 219 IPPNVLSNLSHLEEL 233
           I   +   L  +  +
Sbjct: 551 IQERLAEMLPSVSSI 565

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

 Score = 61.1 bits (148), Expect = 5e-10
 Identities = 27/140 (19%), Positives = 53/140 (37%), Gaps = 19/140 (13%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
           LPE+       L  L  + + L  LP+        +  ++     L++LP      T+L 
Sbjct: 115 LPELPA----SLKHLDVDNNQLTMLPEL----PALLEYINADNNQLTMLPELP---TSLE 163

Query: 162 TLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRS----LDLRDCDRLQ 217
            L +  ++L  +      ++LE L +  + +E LP    +             R+  R+ 
Sbjct: 164 VLSVRNNQLTFLP--ELPESLEALDVSTNLLESLPAVPVRNHHSEETEIFFRCREN-RIT 220

Query: 218 VIPPNVLSNLSHLEELYIRS 237
            IP N + +L     + +  
Sbjct: 221 HIPEN-ILSLDPTCTIILED 239

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

 Score = 53.1 bits (127), Expect = 2e-07
 Identities = 24/130 (18%), Positives = 42/130 (32%), Gaps = 12/130 (9%)

Query: 106 LECPQLQLLSLWTEKSS--LITLPDNFFRKLTQVRVLDLTYMHLSLLPSSL--GLLTNLR 161
           +  P     SL        +     ++F    +     L   + +   S L   L+    
Sbjct: 3   IMLPINNNFSLSQNSFYNTISGTYADYFSAWDKWEKQALPGENRNEAVSLLKECLINQFS 62

Query: 162 TLCLYCSELQDI-AVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIP 220
            L L    L  +   +     + +L +  + +  LP     L     LD  D  RL  +P
Sbjct: 63  ELQLNRLNLSSLPDNLP--PQITVLEITQNALISLPELPASLEY---LDACDN-RLSTLP 116

Query: 221 PNVLSNLSHL 230
               ++L HL
Sbjct: 117 EL-PASLKHL 125

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

 Score = 41.9 bits (98), Expect = 5e-04
 Identities = 31/197 (15%), Positives = 55/197 (27%), Gaps = 26/197 (13%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR 161
           LPE      L++LS+    + L  LP+        +  LD++   L  LP+      +  
Sbjct: 155 LPE--LPTSLEVLSV--RNNQLTFLPE----LPESLEALDVSTNLLESLPAVPVRNHHSE 206

Query: 162 TLC--LYCSE--LQDI-AVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRL 216
                  C E  +  I   I  L     + L  + +     E       +          
Sbjct: 207 ETEIFFRCRENRITHIPENILSLDPTCTIILEDNPLSSRIRESLSQQTAQPDYHGPRIYF 266

Query: 217 QVIPPNVLSNLSHLEELYIRSF------------NKWEVEVEAAGVKNASLEELKRLPNL 264
            +      +    L +     F            + +E E  A    +A L+ L    + 
Sbjct: 267 SMSDGQQNTLHRPLADAVTAWFPENKQSDVSQIWHAFEHEEHANT-FSAFLDRLSDTVSA 325

Query: 265 TTLELCIPDVNTLPKGL 281
                    V    + L
Sbjct: 326 RNTSGFREQVAAWLEKL 342

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens} Length = 220

 Score = 58.5 bits (142), Expect = 6e-10
 Identities = 25/131 (19%), Positives = 57/131 (43%), Gaps = 7/131 (5%)

Query: 116 LWTEKSSLITLPDN-FFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSELQDI 173
           L    +    L     F+KL Q+R ++ +   ++ +   +    + +  + L  + L+++
Sbjct: 37  LRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLENV 96

Query: 174 --AVIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHL 230
              +   L++L+ L LR + I  +  +    L+ +R L L D  ++  + P     L  L
Sbjct: 97  QHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDN-QITTVAPGAFDTLHSL 155

Query: 231 EELYIRSFNKW 241
             L + + N +
Sbjct: 156 STLNLLA-NPF 165

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens} Length = 220

 Score = 46.2 bits (110), Expect = 8e-06
 Identities = 21/137 (15%), Positives = 45/137 (32%), Gaps = 25/137 (18%)

Query: 155 GLLTNLRTLCLY---CSELQDIAVIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDL 210
            +      L L     + L+   +  +L  L  +    + I  +        + +  + L
Sbjct: 29  HIPQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILL 88

Query: 211 RDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEEL-----KRLPNLT 265
              +RL+ +   +   L  L+ L +RS N+              +  +       L ++ 
Sbjct: 89  TS-NRLENVQHKMFKGLESLKTLMLRS-NR--------------ITCVGNDSFIGLSSVR 132

Query: 266 TLELCIPDVNTLPKGLF 282
            L L    + T+  G F
Sbjct: 133 LLSLYDNQITTVAPGAF 149

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 59.3 bits (144), Expect = 7e-10
 Identities = 47/175 (26%), Positives = 83/175 (47%), Gaps = 20/175 (11%)

Query: 115 SLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIA 174
               +K S+         +L  +  +      +  +   +  L N+R L L  ++L DI+
Sbjct: 23  KANLKKKSVTDAVT--QNELNSIDQIIANNSDIKSVQG-IQYLPNVRYLALGGNKLHDIS 79

Query: 175 VIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEEL 233
            + EL NL  L L G+ ++ LP  +  +LT L+ L L + ++LQ +P  V   L++L  L
Sbjct: 80  ALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVE-NQLQSLPDGVFDKLTNLTYL 138

Query: 234 YIRSFNKWEVEVEAAGVKNASLEE--LKRLPNLTTLELCIPDVNTLPKGLFFEKL 286
            +   N+ +           SL +    +L NLT L+L    + +LP+G+ F+KL
Sbjct: 139 NLAH-NQLQ-----------SLPKGVFDKLTNLTELDLSYNQLQSLPEGV-FDKL 180

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 54.6 bits (132), Expect = 2e-08
 Identities = 42/134 (31%), Positives = 68/134 (50%), Gaps = 6/134 (4%)

Query: 112 QLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSL-GLLTNLRTLCLYCSEL 170
            L  L    + L +LP+  F KLT ++ L L    L  LP  +   LTNL  L L  ++L
Sbjct: 86  NLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQL 145

Query: 171 QDI--AVIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNL 227
           Q +   V  +L NL  L L  + ++ LP  +  +LT+L+ L L   ++L+ +P  V   L
Sbjct: 146 QSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQ-NQLKSVPDGVFDRL 204

Query: 228 SHLEELYIRSFNKW 241
           + L+ +++   N W
Sbjct: 205 TSLQYIWLHD-NPW 217

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus} Length = 229

 Score = 56.2 bits (136), Expect = 4e-09
 Identities = 37/130 (28%), Positives = 57/130 (43%), Gaps = 5/130 (3%)

Query: 115 SLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSL-GLLTNLRTLCLYCSELQDI 173
            L+   + +  L    F  L  ++ L L    L  LP  +   LT L  L L  ++L  +
Sbjct: 44  ILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVL 103

Query: 174 --AVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLE 231
             AV   L +L+ L +  + + +LP  I +LT L  L L   ++L+ IP      LS L 
Sbjct: 104 PSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQ-NQLKSIPHGAFDRLSSLT 162

Query: 232 ELYIRSFNKW 241
             Y+   N W
Sbjct: 163 HAYLFG-NPW 171

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 57.8 bits (140), Expect = 5e-09
 Identities = 31/147 (21%), Positives = 49/147 (33%), Gaps = 28/147 (19%)

Query: 125 TLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEI 184
             PD+ F        +   +   +    S   L  L +L  + S + D+  I +L  L  
Sbjct: 14  WFPDDNFASE-----VAAAFEMQATDTISEEQLATLTSLDCHNSSITDMTGIEKLTGLTK 68

Query: 185 LCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVE 244
           L    + I  L   + Q T L  L      +L  +    ++ L+ L  L     NK    
Sbjct: 69  LICTSNNITTLD--LSQNTNLTYLACDSN-KLTNLD---VTPLTKLTYLNC-DTNK---- 117

Query: 245 VEAAGVKNASLEEL--KRLPNLTTLEL 269
                     L +L   + P LT L  
Sbjct: 118 ----------LTKLDVSQNPLLTYLNC 134

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 57.0 bits (138), Expect = 7e-09
 Identities = 30/176 (17%), Positives = 56/176 (31%), Gaps = 27/176 (15%)

Query: 108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTL-CLY 166
             QL         + L  L  +   KLT    L      L  +   L   T L       
Sbjct: 232 LTQLTYFDC--SVNPLTELDVSTLSKLTT---LHCIQTDLLEID--LTHNTQLIYFQAEG 284

Query: 167 CSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSN 226
           C +++++  +     L +L  + + I +L   + Q  +L  L L +   L  +    +S+
Sbjct: 285 CRKIKELD-VTHNTQLYLLDCQAAGITELD--LSQNPKLVYLYLNNT-ELTELD---VSH 337

Query: 227 LSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLF 282
            + L+ L        +               + ++P L           T+PK   
Sbjct: 338 NTKLKSLSC-VNAHIQ-----------DFSSVGKIPALNNNFEAEGQTITMPKETL 381

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 57.0 bits (138), Expect = 7e-09
 Identities = 26/165 (15%), Positives = 51/165 (30%), Gaps = 26/165 (15%)

Query: 105 VLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLC 164
           V    +L  L+   + + L  L      +   +  L+     L+ +   +   T L  L 
Sbjct: 102 VTPLTKLTYLNC--DTNKLTKLD---VSQNPLLTYLNCARNTLTEID--VSHNTQLTELD 154

Query: 165 LYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVL 224
            + ++      +     L  L    + I +L   + Q   L  L+      +  +    L
Sbjct: 155 CHLNKKITKLDVTPQTQLTTLDCSFNKITELD--VSQNKLLNRLNCDTN-NITKLD---L 208

Query: 225 SNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
           +    L  L   S NK              + ++  L  LT  + 
Sbjct: 209 NQNIQLTFLDC-SSNKLT-----------EI-DVTPLTQLTYFDC 240

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 51.2 bits (123), Expect = 5e-07
 Identities = 31/210 (14%), Positives = 63/210 (30%), Gaps = 46/210 (21%)

Query: 80  LDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRV 139
           +D       T +  H +K  +   +V    QL  L      + +  L      +   +  
Sbjct: 142 IDVSHNTQLTELDCHLNK-KITKLDVTPQTQLTTLDC--SFNKITELD---VSQNKLLNR 195

Query: 140 LDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEI 199
           L+    +++ L   L     L  L    ++L +I  +  L  L       + + +L   +
Sbjct: 196 LNCDTNNITKLD--LNQNIQLTFLDCSSNKLTEID-VTPLTQLTYFDCSVNPLTELD--V 250

Query: 200 GQLTRLRSLDLR------------------DCDRLQVIPPNVLSNLSHLEELYIRSFNKW 241
             L++L +L                       +  + I    +++ + L  L        
Sbjct: 251 STLSKLTTLHCIQTDLLEIDLTHNTQLIYFQAEGCRKIKELDVTHNTQLYLLDC-QAAG- 308

Query: 242 EVEVEAAGVKNASLEEL--KRLPNLTTLEL 269
                        + EL   + P L  L L
Sbjct: 309 -------------ITELDLSQNPKLVYLYL 325

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 45.1 bits (107), Expect = 4e-05
 Identities = 20/103 (19%), Positives = 38/103 (36%), Gaps = 7/103 (6%)

Query: 103 PEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRT 162
            +V    QL LL    + + +  L      +  ++  L L    L+ L   +   T L++
Sbjct: 291 LDVTHNTQLYLLDC--QAAGITELD---LSQNPKLVYLYLNNTELTELD--VSHNTKLKS 343

Query: 163 LCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRL 205
           L    + +QD + +G++  L            +P E      L
Sbjct: 344 LSCVNAHIQDFSSVGKIPALNNNFEAEGQTITMPKETLTNNSL 386

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

 Score = 56.4 bits (137), Expect = 6e-09
 Identities = 33/165 (20%), Positives = 55/165 (33%), Gaps = 41/165 (24%)

Query: 114 LSLWTEKSSLIT------LPDNFFRKLTQVRVLDLTYMHLS---LLPSSLGLLTNLRTLC 164
           LS W   +          L D    +  +V  LDL+ ++L     +PSSL  L  L  L 
Sbjct: 24  LSSWLPTTDCCNRTWLGVLCDTD-TQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLY 82

Query: 165 LY---------------CSELQDI------------AVIGELKNLEILCLRGSYIE-QLP 196
           +                 ++L  +              + ++K L  L    + +   LP
Sbjct: 83  IGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLP 142

Query: 197 VEIGQLTRLRSLDLRDCDRLQ-VIPPNVLSNLSHLEELYIRSFNK 240
             I  L  L  +     +R+   IP +   + S L      S N+
Sbjct: 143 PSISSLPNLVGITFDG-NRISGAIPDS-YGSFSKLFTSMTISRNR 185

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

 Score = 45.2 bits (108), Expect = 3e-05
 Identities = 35/169 (20%), Positives = 55/169 (32%), Gaps = 39/169 (23%)

Query: 103 PEVLECPQLQLLSL-WTEKSSLITLPDNFFRKLTQVRVLDLTYMHLS-LLPSSLGLLTNL 160
           P + +  QL  L +  T  S  I  PD F  ++  +  LD +Y  LS  LP S+  L NL
Sbjct: 95  PAIAKLTQLHYLYITHTNVSGAI--PD-FLSQIKTLVTLDFSYNALSGTLPPSISSLPNL 151

Query: 161 RTLCLY--------------CSELQDI-------------AVIGELKNLEILCLRGSYIE 193
             +                  S+L                     L NL  + L  + +E
Sbjct: 152 VGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANL-NLAFVDLSRNMLE 210

Query: 194 -QLPVEIGQLTRLRSLDLRDCDRLQ-VIPPNVLSNLSHLEELYIRSFNK 240
               V  G     + + L     L   +    +    +L  L +   N+
Sbjct: 211 GDASVLFGSDKNTQKIHLAKN-SLAFDLGK--VGLSKNLNGLDL-RNNR 255

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 56.4 bits (136), Expect = 1e-08
 Identities = 56/432 (12%), Positives = 118/432 (27%), Gaps = 88/432 (20%)

Query: 89  TSIVLHDSKMNVLLPEVLE-CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL 147
            ++ L  + ++ L    +    +L++L L   +  + +L  + F     +  LD+++  L
Sbjct: 55  KALSLSQNSISELRMPDISFLSELRVLRLSHNR--IRSLDFHVFLFNQDLEYLDVSHNRL 112

Query: 148 SLLPSSLGLLTNLRTLCLYCSELQDI---AVIGELKNLEILCLRGSYIEQLPVE------ 198
             +      + +LR L L  ++   +      G L  L  L L  +   QL +       
Sbjct: 113 QNISC--CPMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQLDLLPVAHLH 170

Query: 199 ---------------------IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRS 237
                                    T +  L         V     ++ L HL+   I+ 
Sbjct: 171 LSCILLDLVSYHIKGGETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQLSNIKL 230

Query: 238 FNKWEVEVEAAGVKNASLEELKRL--PNLTTLELCIPDVNTLPKGLFFEKLERYRICI-G 294
            ++    +     +      L  +   ++ T   C   +         E L  Y + I  
Sbjct: 231 NDENCQRLMTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRPVEYLNIYNLTITE 290

Query: 295 RWCWE--DTSPTCSRTFRLLLGTDNCISFKSG--------------HIVQLQRIEDLCLS 338
           R   E    S T  ++  +    +    F                  I     I  +C  
Sbjct: 291 RIDREEFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPFIHMVCPP 350

Query: 339 GLPDQDIIELVNNKLGSYSS-------QLKHLWVEGCQAPSPKESKRCKESTSEMRSNEI 391
                  +    N              +L+ L ++     +           + M  N  
Sbjct: 351 SPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKN-------FFKVALMTKNMS 403

Query: 392 ILEDHVNVPNTF------FLKGGLPNLETLELYN------------VNVERIWKS--QLP 431
            LE      N+              ++  L L +              V+ +     ++ 
Sbjct: 404 SLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLPPKVKVLDLHNNRIM 463

Query: 432 AMSCGIQTLTRL 443
           ++   +  L  L
Sbjct: 464 SIPKDVTHLQAL 475

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 55.6 bits (134), Expect = 3e-08
 Identities = 25/177 (14%), Positives = 54/177 (30%), Gaps = 31/177 (17%)

Query: 93  LHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS 152
           L  S    +       P      L   ++            L +++ L L    L     
Sbjct: 336 LSISDTPFIHMVCPPSPS-SFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFK 394

Query: 153 SLGLLT----------------------------NLRTLCLYCSELQDIAVIGELKNLEI 184
              +                              ++  L L  + L           +++
Sbjct: 395 VALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLPPKVKV 454

Query: 185 LCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKW 241
           L L  + I  +P ++  L  L+ L++   ++L+ +P  V   L+ L+ +++   N W
Sbjct: 455 LDLHNNRIMSIPKDVTHLQALQELNVAS-NQLKSVPDGVFDRLTSLQYIWLHD-NPW 509

>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 = 56.4 bits (135), Expect = 2e-08
 Identities = 63/451 (13%), Positives = 121/451 (26%), Gaps = 164/451 (36%)

Query: 227 LSHLEELYIRSFNKWEVEVEAAGV-KNASLEELKRLPN-------LTTLELCIPDVNTLP 278
           LS  E+ ++ +F+  +V+     +     ++ +    +       L    L       + 
Sbjct: 22  LSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWT-LLSKQEEMVQ 80

Query: 279 KGLFFEKLER--YRICIGRWCWEDTSPTCSRT----FRLLLGTDNCISFKSGHIVQLQRI 332
           K  F E++ R  Y+  +     E   P+         R  L  DN + F   ++ +LQ  
Sbjct: 81  K--FVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQV-FAKYNVSRLQPY 137

Query: 333 EDL--CLSGL-PDQDII----------ELVNNKLGSYSSQLKH----LWVE-G-CQAP-- 371
             L   L  L P ++++           +  +   SY  Q K      W+    C +P  
Sbjct: 138 LKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPET 197

Query: 372 ------------SPKESKRCKESTS-EMRSNE------------------IILEDHV--- 397
                        P  + R   S++ ++R +                   ++L  +V   
Sbjct: 198 VLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL-LNVQNA 256

Query: 398 -----------------NVPNTFFLKG-------------GLPNLETLELYNVNVERIWK 427
                                T FL                L   E   L  +       
Sbjct: 257 KAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL-LKYLDCRP 315

Query: 428 SQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEII-----V 482
             LP            +         + + SI +      + +   C  L  II     V
Sbjct: 316 QDLPREVLTTNPR--RL--------SIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV 365

Query: 483 IDQQERKN-----VVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETL---------EVI 528
           ++  E +       VFP                     HI    L  +          V+
Sbjct: 366 LEPAEYRKMFDRLSVFPP------------------SAHIPTILLSLIWFDVIKSDVMVV 407

Query: 529 ------------RCPEFLLTAHDLTKEVRTR 547
                       +  E  ++   +  E++ +
Sbjct: 408 VNKLHKYSLVEKQPKESTISIPSIYLELKVK 438

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A Length = 251

 Score = 53.9 bits (130), Expect = 3e-08
 Identities = 36/134 (26%), Positives = 63/134 (47%), Gaps = 6/134 (4%)

Query: 112 QLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSL-GLLTNLRTLCLYCSEL 170
           +L  L  + + L TL    F  LT++  L L    L+ LP  +   LT L  L L  ++L
Sbjct: 60  KLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQL 119

Query: 171 QDI--AVIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNL 227
           + +   V   L  L+ L L  + ++ +P     +LT L++L L   ++LQ +P      L
Sbjct: 120 KSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLST-NQLQSVPHGAFDRL 178

Query: 228 SHLEELYIRSFNKW 241
             L+ + +   N++
Sbjct: 179 GKLQTITLFG-NQF 191

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A Length = 251

 Score = 50.5 bits (121), Expect = 4e-07
 Identities = 42/160 (26%), Positives = 67/160 (41%), Gaps = 31/160 (19%)

Query: 135 TQVRVLDLTYMHLSLLPSS-LGLLTNLRTLCLYCSELQDI--AVIGELKNLEILCLRGSY 191
                LDL    L+ L  +    LT L  L L  ++LQ +   V  +L  L  L L  + 
Sbjct: 35  ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQ 94

Query: 192 IEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGV 250
           +  LP+ +   LT+L  L L   ++L+ +P  V   L+ L+EL + + N+          
Sbjct: 95  LASLPLGVFDHLTQLDKLYL-GGNQLKSLPSGVFDRLTKLKELRLNT-NQ---------- 142

Query: 251 KNASLEELKRLP--------NLTTLELCIPDVNTLPKGLF 282
                  L+ +P        NL TL L    + ++P G F
Sbjct: 143 -------LQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAF 175

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 51.6 bits (124), Expect = 6e-08
 Identities = 27/133 (20%), Positives = 50/133 (37%), Gaps = 15/133 (11%)

Query: 139 VLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGE-LKNLEILCLRGSYIEQLPV 197
           ++ LT   +             R L L   ++  I  +G  L   + +    + I +L  
Sbjct: 1   MVKLTAELIEQAAQ-YTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLD- 58

Query: 198 EIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKN-ASLE 256
               L RL++L + + +R+  I   +   L  L EL + + N          +     L+
Sbjct: 59  GFPLLRRLKTLLVNN-NRICRIGEGLDQALPDLTELILTN-NS---------LVELGDLD 107

Query: 257 ELKRLPNLTTLEL 269
            L  L +LT L +
Sbjct: 108 PLASLKSLTYLCI 120

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 45.4 bits (108), Expect = 9e-06
 Identities = 21/108 (19%), Positives = 44/108 (40%), Gaps = 5/108 (4%)

Query: 131 FRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGS 190
           +    + R LDL    + ++ +    L     +    +E++ +     L+ L+ L +  +
Sbjct: 15  YTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNN 74

Query: 191 YIEQLPVEIGQ-LTRLRSLDLRDC--DRLQVIPPNVLSNLSHLEELYI 235
            I ++   + Q L  L  L L +     L  +  + L++L  L  L I
Sbjct: 75  RICRIGEGLDQALPDLTELILTNNSLVELGDL--DPLASLKSLTYLCI 120

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens} Length = 193

 Score = 49.6 bits (119), Expect = 4e-07
 Identities = 25/110 (22%), Positives = 43/110 (39%), Gaps = 5/110 (4%)

Query: 135 TQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIA--VIGELKNLEILCLRGSYI 192
             V  L L     +L+P  L    +L  + L  + +  ++      +  L  L L  + +
Sbjct: 31  RDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRL 90

Query: 193 EQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKW 241
             +P      L  LR L L   + + V+P    ++LS L  L I + N  
Sbjct: 91  RCIPPRTFDGLKSLRLLSLHG-NDISVVPEGAFNDLSALSHLAIGA-NPL 138

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens} Length = 193

 Score = 43.1 bits (102), Expect = 7e-05
 Identities = 24/105 (22%), Positives = 43/105 (40%), Gaps = 21/105 (20%)

Query: 183 EILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWE 242
             L L G+    +P E+     L  +DL + +R+  +     SN++ L  L + S+N+  
Sbjct: 34  TELYLDGNQFTLVPKELSNYKHLTLIDLSN-NRISTLSNQSFSNMTQLLTLIL-SYNR-- 89

Query: 243 VEVEAAGVKNASLEEL-----KRLPNLTTLELCIPDVNTLPKGLF 282
                       L  +       L +L  L L   D++ +P+G F
Sbjct: 90  ------------LRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAF 122

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens} Length = 193

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 23/89 (25%), Positives = 42/89 (47%), Gaps = 9/89 (10%)

Query: 89  TSIVLHDSKMNVLLPEVLEC-PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL 147
           T + L  ++   L+P+ L     L L+ L   +  + TL +  F  +TQ+  L L+Y  L
Sbjct: 34  TELYLDGNQFT-LVPKELSNYKHLTLIDLSNNR--ISTLSNQSFSNMTQLLTLILSYNRL 90

Query: 148 SLLPSSLGL---LTNLRTLCLYCSELQDI 173
             +P        L +LR L L+ +++  +
Sbjct: 91  RCIPP--RTFDGLKSLRLLSLHGNDISVV 117

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 47.7 bits (114), Expect = 8e-07
 Identities = 24/116 (20%), Positives = 49/116 (42%), Gaps = 14/116 (12%)

Query: 157 LTNLRTLCLYCSELQDIAVIG---ELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDC 213
            ++++ L L  S   +  + G   E + LE L      +  +   + +L +L+ L+L D 
Sbjct: 16  PSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIAN-LPKLNKLKKLELSDN 74

Query: 214 DRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
            R+      +     +L  L +      ++          ++E LK+L NL +L+L
Sbjct: 75  -RVSGGLEVLAEKCPNLTHLNLSGNKIKDLS---------TIEPLKKLENLKSLDL 120

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 42.0 bits (99), Expect = 7e-05
 Identities = 24/109 (22%), Positives = 37/109 (33%), Gaps = 7/109 (6%)

Query: 132 RKLTQVRVLDLTYMHLSL--LPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRG 189
           R  + V+ L L     +   L         L  L      L  IA + +L  L+ L L  
Sbjct: 14  RTPSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIANLPKLNKLKKLELSD 73

Query: 190 SYIEQL-PVEIGQLTRLRSLDLRDC--DRLQVIPPNVLSNLSHLEELYI 235
           + +     V   +   L  L+L       L  I    L  L +L+ L +
Sbjct: 74  NRVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTI--EPLKKLENLKSLDL 120

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 50.7 bits (121), Expect = 9e-07
 Identities = 50/312 (16%), Positives = 105/312 (33%), Gaps = 39/312 (12%)

Query: 89  TSIVLHDSKMNVLLPEVLE-CPQLQLLSLWTEKSSLITLPDN----FFRKLTQVRVLD-L 142
            S+ L+ +     L  +L+  PQL+ L      + +     +          ++R L   
Sbjct: 214 KSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGF 273

Query: 143 TYMHLSLLPSSLGLLTNLRTLCLYCSELQD---IAVIGELKNLEILCLRGSYIEQLPVE- 198
                + LP+   + + L TL L  + +Q    + ++ +   L+ L +   YIE   +E 
Sbjct: 274 WDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVL-DYIEDAGLEV 332

Query: 199 -IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEE 257
                  LR L +   +   + P   L+    L  + +       V      + NA+L  
Sbjct: 333 LASTCKDLRELRVFPSEPFVMEPNVALTEQG-LVSVSMGCPKLESVLYFCRQMTNAALIT 391

Query: 258 L-KRLPNLTTLELC-------------IPDVNTLPKGLFFEKLERYRI--CIGRWCWEDT 301
           + +  PN+T   LC               D+         + L R  +   +    +E  
Sbjct: 392 IARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGLLTDKVFEYI 451

Query: 302 SPTCSRTFRLLLG----TDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYS 357
                +   L +     +D  +         L+++ ++      D+ ++        S  
Sbjct: 452 GTYAKKMEMLSVAFAGDSDLGMHHVLSGCDSLRKL-EIRDCPFGDKALLANA-----SKL 505

Query: 358 SQLKHLWVEGCQ 369
             ++ LW+  C 
Sbjct: 506 ETMRSLWMSSCS 517

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 45.7 bits (108), Expect = 3e-05
 Identities = 60/394 (15%), Positives = 118/394 (29%), Gaps = 68/394 (17%)

Query: 108 CPQLQLLSLWTEKSSLITLP--DNFFRKLTQVRVLDLTYMHLSLLPSSLGLL----TNLR 161
           C  L+ L L       ++     +F    T +  L+++ +   +  S+L  L     NL+
Sbjct: 155 CRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLK 214

Query: 162 TLCL-YCSELQDIAVIGE-LKNLEILCLRG-------SYIEQLPVEIGQLTRLRSLDLRD 212
           +L L     L+ +A + +    LE L   G            L V +     LR L    
Sbjct: 215 SLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFW 274

Query: 213 CDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEEL-KRLPNLTTLELC- 270
                 +P  V S  S L  L +            A V++  L +L  + P L  L +  
Sbjct: 275 DAVPAYLP-AVYSVCSRLTTLNLSY----------ATVQSYDLVKLLCQCPKLQRLWVLD 323

Query: 271 -IPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQL 329
            I D          + L   R+                       T+  +   S    +L
Sbjct: 324 YIEDAGLEVLASTCKDLRELRV---FPSEPFVMEPNVA------LTEQGLVSVSMGCPKL 374

Query: 330 QRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSN 389
           + +       + +  +I +           +    +   +  +P       E        
Sbjct: 375 ESV-LYFCRQMTNAALITI-----ARNRPNMTRFRLCIIEPKAP--DYLTLEPLDIG--- 423

Query: 390 EIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCG 449
                          +     +L  L L  +    +       +    + +  L V   G
Sbjct: 424 ------------FGAIVEHCKDLRRLSLSGL----LTDKVFEYIGTYAKKMEMLSVAFAG 467

Query: 450 E-LRCLFSSSIVNSFIRLQHLEIDECPILEEIIV 482
           +    +    +++    L+ LEI +CP  ++ ++
Sbjct: 468 DSDLGM--HHVLSGCDSLRKLEIRDCPFGDKALL 499

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 49.2 bits (117), Expect = 2e-06
 Identities = 58/387 (14%), Positives = 118/387 (30%), Gaps = 61/387 (15%)

Query: 108 CPQLQLLSLWTEKSSLITLPDNFFRKL----TQVRVLDLTYMHLSLL-PSSLGLL----T 158
           C +++ L +  E+SS       +  +L    T + VL+      + + P  L  +     
Sbjct: 163 CRKIKTLLM--EESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCR 220

Query: 159 NLRTLCL-YCSELQDIAVIGELKNLEILCLRGSYIEQ-LPVEIGQLTRLRSLDLRDCDRL 216
           +L ++ +     L+ +       NLE  C      +  +P +   L   R L       +
Sbjct: 221 SLVSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYM 280

Query: 217 QVIP-PNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL--CIPD 273
                P +    + + +L +           A          +++ PNL  LE    I D
Sbjct: 281 GPNEMPILFPFAAQIRKLDLLY---------ALLETEDHCTLIQKCPNLEVLETRNVIGD 331

Query: 274 VNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIE 333
                   + ++L+R RI       ++            L +   +   +    +L+ + 
Sbjct: 332 RGLEVLAQYCKQLKRLRI---ERGADEQGMEDEEG----LVSQRGLIALAQGCQELEYM- 383

Query: 334 DLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIIL 393
            + +S + ++ +  +     G+Y   L    +            R +  T     N +  
Sbjct: 384 AVYVSDITNESLESI-----GTYLKNLCDFRLVLL--------DREERITDLPLDNGVR- 429

Query: 394 EDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGEL-R 452
                      L  G   L     Y      +    L  +      +  +++   GE   
Sbjct: 430 ----------SLLIGCKKLRRFAFYL-RQGGLTDLGLSYIGQYSPNVRWMLLGYVGESDE 478

Query: 453 CLFSSSIVNSFIRLQHLEIDECPILEE 479
            L           LQ LE+  C   E 
Sbjct: 479 GL--MEFSRGCPNLQKLEMRGCCFSER 503

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7 Length = 192

 Score = 47.3 bits (113), Expect = 3e-06
 Identities = 27/123 (21%), Positives = 54/123 (43%), Gaps = 15/123 (12%)

Query: 132 RKLTQV--------RVLDLTYMHLSLLPSS--LGLLTNLRTLCLYCSELQDI--AVIGEL 179
           R L ++          L L    L  + S    G L +L  L L  ++L  I        
Sbjct: 18  RGLKEIPRDIPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGA 77

Query: 180 KNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSF 238
            +++ L L  + I+++  ++   L +L++L+L D +++  + P    +L+ L  L + S 
Sbjct: 78  SHIQELQLGENKIKEISNKMFLGLHQLKTLNLYD-NQISCVMPGSFEHLNSLTSLNLAS- 135

Query: 239 NKW 241
           N +
Sbjct: 136 NPF 138

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7 Length = 192

 Score = 42.3 bits (100), Expect = 1e-04
 Identities = 19/90 (21%), Positives = 41/90 (45%), Gaps = 9/90 (10%)

Query: 89  TSIVLHDSKMNVLLPEVL--ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMH 146
           T ++L+D+++  +  + L    P L  L L   +  L  +  N F   + ++ L L    
Sbjct: 32  TELLLNDNELGRISSDGLFGRLPHLVKLELKRNQ--LTGIEPNAFEGASHIQELQLGENK 89

Query: 147 LSLLPSSLGL---LTNLRTLCLYCSELQDI 173
           +  + +   +   L  L+TL LY +++  +
Sbjct: 90  IKEISN--KMFLGLHQLKTLNLYDNQISCV 117

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 48.3 bits (115), Expect = 3e-06
 Identities = 40/178 (22%), Positives = 66/178 (37%), Gaps = 29/178 (16%)

Query: 108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTY------MHLSLLPSSLGLLTNLR 161
           C +LQ LSL   + S   +  N   K + +  L+L+         L  L SS    + L 
Sbjct: 117 CSKLQNLSLEGLRLSDPIV--NTLAKNSNLVRLNLSGCSGFSEFALQTLLSSC---SRLD 171

Query: 162 TLCL-YCSELQDIAVIGEL----KNLEILCLRGSYI----EQLPVEIGQLTRLRSLDLRD 212
            L L +C +  +  V   +    + +  L L G         L   + +   L  LDL D
Sbjct: 172 ELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSD 231

Query: 213 CDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELC 270
              L+         L++L+ L +              +   +L EL  +P L TL++ 
Sbjct: 232 SVMLKNDCFQEFFQLNYLQHLSLSRCY---------DIIPETLLELGEIPTLKTLQVF 280

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 45.3 bits (107), Expect = 3e-05
 Identities = 38/180 (21%), Positives = 66/180 (36%), Gaps = 18/180 (10%)

Query: 101 LLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLS--LLPSSLGLLT 158
           L P+V      Q +  +    S +  P        +V+ +DL+   +    L   L   +
Sbjct: 59  LHPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCS 118

Query: 159 NLRTLCLYCSELQD--IAVIGELKNLEILCLRGSYI---EQLPVEIGQLTRLRSLDLRDC 213
            L+ L L    L D  +  + +  NL  L L G        L   +   +RL  L+L  C
Sbjct: 119 KLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWC 178

Query: 214 DRL--QVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEEL-KRLPNLTTLELC 270
                + +   V      + +L +  + K         ++ + L  L +R PNL  L+L 
Sbjct: 179 FDFTEKHVQVAVAHVSETITQLNLSGYRK--------NLQKSDLSTLVRRCPNLVHLDLS 230

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7 Length = 347

 Score = 47.8 bits (113), Expect = 5e-06
 Identities = 19/101 (18%), Positives = 31/101 (30%), Gaps = 13/101 (12%)

Query: 183 EILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNK-W 241
            + C R   ++ L   +     L  L + +   LQ +    L  L  L  L I   +   
Sbjct: 12  GLRCTRDGALDSLH-HLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTI-VKSGLR 69

Query: 242 EVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLF 282
            V  +A              P L+ L L    + +L     
Sbjct: 70  FVAPDA----------FHFTPRLSRLNLSFNALESLSWKTV 100

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7 Length = 347

 Score = 42.4 bits (99), Expect = 2e-04
 Identities = 27/136 (19%), Positives = 42/136 (30%), Gaps = 14/136 (10%)

Query: 108 CPQ----LQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYM-HLSLLPS-SLGLLTNLR 161
           CP          L   +   +    +       +  L +    HL  L    L  L  LR
Sbjct: 1   CPDACCPHGSSGLRCTRDGALDSLHHL-PGAENLTELYIENQQHLQHLELRDLRGLGELR 59

Query: 162 TLCLYCSELQDIA--VIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRD----CD- 214
            L +  S L+ +A         L  L L  + +E L  +  Q   L+ L L      C  
Sbjct: 60  NLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGLSLQELVLSGNPLHCSC 119

Query: 215 RLQVIPPNVLSNLSHL 230
            L+ +       L  +
Sbjct: 120 ALRWLQRWEEEGLGGV 135

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A Length = 168

 Score = 45.9 bits (109), Expect = 5e-06
 Identities = 27/116 (23%), Positives = 48/116 (41%), Gaps = 14/116 (12%)

Query: 157 LTNLRTLCLYCSELQDIAVIG---ELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDC 213
              +R L L   +  D  + G   E  NLE L L    +  +   + +L +L+ L+L + 
Sbjct: 23  PAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSN-LPKLPKLKKLELSEN 81

Query: 214 DRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
            R+      +   L +L  L +      ++          +LE LK+L  L +L+L
Sbjct: 82  -RIFGGLDMLAEKLPNLTHLNLSGNKLKDIS---------TLEPLKKLECLKSLDL 127

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A Length = 168

 Score = 43.2 bits (102), Expect = 5e-05
 Identities = 33/135 (24%), Positives = 53/135 (39%), Gaps = 16/135 (11%)

Query: 89  TSIVLHDSKMNVLLPEVL--ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMH 146
             +VL + K N    E L  E   L+ LSL    +  +    N   KL +++ L+L+   
Sbjct: 27  RELVLDNCKSNDGKIEGLTAEFVNLEFLSLI---NVGLISVSNL-PKLPKLKKLELSENR 82

Query: 147 LS-LLPSSLGLLTNLRTLCLYC---SELQDIAVIGELKNLEILCLRGSYIEQLP-----V 197
           +   L      L NL  L L      ++  +  + +L+ L+ L L    +  L      V
Sbjct: 83  IFGGLDMLAEKLPNLTHLNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESV 142

Query: 198 EIGQLTRLRSLDLRD 212
               L +L  LD  D
Sbjct: 143 -FKLLPQLTYLDGYD 156

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 47.2 bits (112), Expect = 7e-06
 Identities = 32/181 (17%), Positives = 60/181 (33%), Gaps = 28/181 (15%)

Query: 101 LLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLS---LLPSSL--G 155
            L E+ +  +  L  L   ++  +       R    +  LDL+         L S+L   
Sbjct: 139 WLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPL 198

Query: 156 LLTNLRTLCLYCSELQDI-----AVIGELKNLEILCLRGSYIEQLPVEIGQ--LTRLRSL 208
               L+ L L  + ++       A+      L+ L L  + +            ++L SL
Sbjct: 199 KFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSL 258

Query: 209 DLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLE 268
           +L     L+ +P  + +    L  L + S+N           +         LP +  L 
Sbjct: 259 NLSFT-GLKQVPKGLPAK---LSVLDL-SYN-----------RLDRNPSPDELPQVGNLS 302

Query: 269 L 269
           L
Sbjct: 303 L 303

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri} Length = 177

 Score = 42.6 bits (101), Expect = 8e-05
 Identities = 35/131 (26%), Positives = 60/131 (45%), Gaps = 30/131 (22%)

Query: 115 SLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGL---LTNLRTLCLYCSELQ 171
            L  E + L +LP   F KLTQ+  L L+   +  LP   G+   LT L  L L+ ++LQ
Sbjct: 32  RLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPD--GVFDKLTKLTILYLHENKLQ 89

Query: 172 DIAVIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHL 230
                                  LP  +  +LT+L+ L L   ++L+ +P  +   L+ L
Sbjct: 90  ----------------------SLPNGVFDKLTQLKELALDT-NQLKSVPDGIFDRLTSL 126

Query: 231 EELYIRSFNKW 241
           +++++ + N W
Sbjct: 127 QKIWLHT-NPW 136

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri} Length = 208

 Score = 42.4 bits (100), Expect = 1e-04
 Identities = 36/134 (26%), Positives = 61/134 (45%), Gaps = 30/134 (22%)

Query: 112 QLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGL---LTNLRTLCLYCS 168
            L  L+   + L +LP+  F KLT +  L+L+   L  LP+  G+   LT L+ L L  +
Sbjct: 53  SLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPN--GVFDKLTQLKELALNTN 110

Query: 169 ELQDIAVIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNL 227
           +LQ                       LP  +  +LT+L+ L L   ++L+ +P  V   L
Sbjct: 111 QLQ----------------------SLPDGVFDKLTQLKDLRLYQ-NQLKSVPDGVFDRL 147

Query: 228 SHLEELYIRSFNKW 241
           + L+ +++   N W
Sbjct: 148 TSLQYIWLHD-NPW 160

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	552
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.97
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.97
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.97
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.97
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.96
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.96
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.96
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.96
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.96
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.96
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.96
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.96
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.96
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.95
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.95
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.95
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.95
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.95
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.95
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.94
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.94
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.94
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.94
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.94
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.94
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.94
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.93
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.93
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.93
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.93
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.92
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.92
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.91
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.91
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.91
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.9
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.9
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.9
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.9
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.89
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.88
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.88
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.88
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.87
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.86
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.86
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.86
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.84
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.84
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.84
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.84
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.83
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.83
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.82
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.81
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.81
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.81
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.8
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.8
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.8
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.79
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.79
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.79
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.78
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.78
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.78
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.78
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.77
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.76
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.75
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.75
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.75
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.75
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.75
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.74
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.73
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.72
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.72
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.71
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.71
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.71
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.7
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.7
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.7
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.69
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.68
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.67
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.65
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.64
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.63
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.63
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.63
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.62
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.62
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.62
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.6
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.6
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.6
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.59
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.59
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.57
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.56
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.56
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.56
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.55
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.53
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.53
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.52
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.52
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.52
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.51
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.51
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.51
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.51
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.51
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.5
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.45
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.45
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.44
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.42
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.4
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.39
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.39
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.39
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.36
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.34
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.32
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.31
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.31
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.27
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.26
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.26
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.26
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.25
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.15
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.14
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.11
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.05
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.0
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.93
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.73
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.73
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.72
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.72
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.67
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.63
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.48
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.45
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.35
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.2
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.19
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	98.09
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.04
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.96
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.93
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.86
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.75
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.68
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.99
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	96.06
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	95.15
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.13
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	93.1
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	92.91
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	92.52
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	92.01
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	90.65
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	81.87

>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=99.97  E-value=3e-29  Score=267.26  Aligned_cols=425  Identities=18%  Similarity=0.116  Sum_probs=264.4

Q ss_pred             cccccCccccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccc-cch
Q 040303           76 SREWLDEGALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLL-PSS  153 (552)
Q Consensus        76 ~~~~~~~~~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~l-p~~  153 (552)
                      ....|. ..++++++|+++++.+....+..+ .+++|++|++++|...  .+++..|.++++|++|++++|.+..+ |..
T Consensus        23 l~~ip~-~~~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~--~i~~~~~~~l~~L~~L~Ls~n~l~~~~p~~   99 (606)
T 3vq2_A           23 LSKVPD-DIPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIE--TIEDKAWHGLHHLSNLILTGNPIQSFSPGS   99 (606)
T ss_dssp             CSSCCT-TSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCC--EECTTTTTTCTTCCEEECTTCCCCCCCTTS
T ss_pred             cccCCC-CCCCCcCEEECCCCCcCEeChhhccCCccCcEEeCCCCccc--ccCHHHhhchhhcCEeECCCCcccccChhh
Confidence            344443 356889999999999988444344 8999999999998765  67666679999999999999999877 788


Q ss_pred             hcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEecCCcCc--ccchhhccCCCCCEEeccCCCCCCccCcccccCCC-
Q 040303          154 LGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCLRGSYIE--QLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLS-  228 (552)
Q Consensus       154 i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~--~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~-  228 (552)
                      ++++++|++|++++|.+..  +..++++++|++|++++|.+.  .+|..++++++|++|++++|. +..+++..++.++ 
T Consensus       100 ~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~  178 (606)
T 3vq2_A          100 FSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNY-IQTITVNDLQFLRE  178 (606)
T ss_dssp             STTCTTCCEEECTTSCCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGGGGTCTTCCEEECCSSC-CCEECTTTTHHHHH
T ss_pred             cCCcccCCEEEccCCccccccccccCCCCCCCEEeCCCCcccceechHhHhhcCCCCEEEccCCc-ceecChhhhhhhhc
Confidence            9999999999999999876  477999999999999999887  578999999999999999986 4444332233332 


Q ss_pred             --------------------------CCcEEEccccccchhhhh------------------------------------
Q 040303          229 --------------------------HLEELYIRSFNKWEVEVE------------------------------------  246 (552)
Q Consensus       229 --------------------------~L~~L~l~~~~~~~~~~~------------------------------------  246 (552)
                                                +|+.|+++++........                                    
T Consensus       179 L~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~l~~~~~~~~~~l  258 (606)
T 3vq2_A          179 NPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGL  258 (606)
T ss_dssp             CTTCCCEEECTTCCCCEECTTTTTTCEEEEEEEESCCSCHHHHHHHHHTTTTCEEEEEEEECCTTSCCCSCCCGGGGTTG
T ss_pred             cccccceeeccCCCcceeCcccccCceeeeeeccCCccchhHHHHHhccccccccccccccccccCCcccccChHHhhhh
Confidence                                      455555543211000000                                    


Q ss_pred             -----------hhcccccChh----------------------hhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEe
Q 040303          247 -----------AAGVKNASLE----------------------ELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICI  293 (552)
Q Consensus       247 -----------~~~~~~~~~~----------------------~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~  293 (552)
                                 ..........                      .+..+++|++|++++|.+..+|.. .+++|+.|.+..
T Consensus       259 ~~l~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~l~~~~~L~~L~l~~n~l~~lp~~-~l~~L~~L~l~~  337 (606)
T 3vq2_A          259 CDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQLKQFPTL-DLPFLKSLTLTM  337 (606)
T ss_dssp             GGSEEEEEEECCCTTCCGGGGSCGGGTTCSEEEEESCCCCCCCCCCTTCCCSEEEEESCCCSSCCCC-CCSSCCEEEEES
T ss_pred             hhccHhheeccccccccccccccccCCCCCEEEecCccchhhhhccccccCCEEEcccccCcccccC-CCCccceeeccC
Confidence                       0000000111                      233344455555555555445533 455555555554


Q ss_pred             cccccCCCCCCcccceeeecCcccccccc--hhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC--
Q 040303          294 GRWCWEDTSPTCSRTFRLLLGTDNCISFK--SGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ--  369 (552)
Q Consensus       294 ~~~~~~~~~~~~~~~~~l~l~~~~~~~~~--~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~--  369 (552)
                      +............+...+.+..+.-....  ......+++|+.|++.++.-   ..++  .....+++|+.|++++|.  
T Consensus       338 n~~~~~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~L~~n~l---~~~~--~~~~~l~~L~~L~l~~n~l~  412 (606)
T 3vq2_A          338 NKGSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGA---IIMS--ANFMGLEELQHLDFQHSTLK  412 (606)
T ss_dssp             CSSCEECCCCCCTTCCEEECCSSCEEEEEECCHHHHCCSCCCEEECCSCSE---EEEC--CCCTTCTTCCEEECTTSEEE
T ss_pred             CcCccchhhccCCCCCEEECcCCccCCCcchhhhhccCCcccEeECCCCcc---ccch--hhccCCCCCCeeECCCCccC
Confidence            42111111112223333333332211111  23344556666776666543   3333  223456777777777765  


Q ss_pred             CCCC-cchhhhhhc----ccccccceeeeccCCCCCccccccccCCCcccccccceeeeE-eccCCCCccccccCcceEE
Q 040303          370 APSP-KESKRCKES----TSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVER-IWKSQLPAMSCGIQTLTRL  443 (552)
Q Consensus       370 ~~lp-~~~~~~~~L----i~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~-~~~~~~~~~~~~l~~L~~L  443 (552)
                      +..| ..+..+++|    ++.|.+...          .+...+.+++|+.|++++|.+.. .......    .+++|++|
T Consensus       413 ~~~~~~~~~~l~~L~~L~l~~n~l~~~----------~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~----~l~~L~~L  478 (606)
T 3vq2_A          413 RVTEFSAFLSLEKLLYLDISYTNTKID----------FDGIFLGLTSLNTLKMAGNSFKDNTLSNVFA----NTTNLTFL  478 (606)
T ss_dssp             STTTTTTTTTCTTCCEEECTTSCCEEC----------CTTTTTTCTTCCEEECTTCEEGGGEECSCCT----TCTTCCEE
T ss_pred             CccChhhhhccccCCEEECcCCCCCcc----------chhhhcCCCCCCEEECCCCcCCCcchHHhhc----cCCCCCEE
Confidence            2222 233334333    333332221          22334678899999999997654 2222222    78999999


Q ss_pred             EEecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEEeccccccccccCCcccccCC-Cc
Q 040303          444 IVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFP-TL  522 (552)
Q Consensus       444 ~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~-~L  522 (552)
                      ++++| .++.+++ ..+..+++|++|++.+|. ++.+. +.    ....+++|+.|+++++ .++.+|.. +. .++ +|
T Consensus       479 ~Ls~n-~l~~~~~-~~~~~l~~L~~L~Ls~N~-l~~~~-~~----~~~~l~~L~~L~l~~N-~l~~~p~~-~~-~l~~~L  547 (606)
T 3vq2_A          479 DLSKC-QLEQISW-GVFDTLHRLQLLNMSHNN-LLFLD-SS----HYNQLYSLSTLDCSFN-RIETSKGI-LQ-HFPKSL  547 (606)
T ss_dssp             ECTTS-CCCEECT-TTTTTCTTCCEEECCSSC-CSCEE-GG----GTTTCTTCCEEECTTS-CCCCEESC-GG-GSCTTC
T ss_pred             ECCCC-cCCccCh-hhhcccccCCEEECCCCc-CCCcC-HH----HccCCCcCCEEECCCC-cCcccCHh-Hh-hhcccC
Confidence            99987 5666654 257889999999999985 44431 12    2344889999999998 47788776 33 566 59


Q ss_pred             cEEEeecCCCcch
Q 040303          523 ETLEVIRCPEFLL  535 (552)
Q Consensus       523 ~~L~i~~C~~L~~  535 (552)
                      +.|++.++|-.-.
T Consensus       548 ~~l~l~~N~~~c~  560 (606)
T 3vq2_A          548 AFFNLTNNSVACI  560 (606)
T ss_dssp             CEEECCSCCCCCS
T ss_pred             cEEEccCCCcccC
Confidence            9999988765433

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

Probab=99.97  E-value=2.6e-29  Score=265.86  Aligned_cols=432  Identities=19%  Similarity=0.130  Sum_probs=278.0

Q ss_pred             cccccCccccCcccEEEeecCCCcccCCC-ccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccccc-ch
Q 040303           76 SREWLDEGALKFYTSIVLHDSKMNVLLPE-VLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLP-SS  153 (552)
Q Consensus        76 ~~~~~~~~~~~~lr~L~l~~~~~~~~~~~-~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp-~~  153 (552)
                      ...+|. ..++++++|++++|.+....+. +..+++|++|++++|...  .++...|.++++|++|++++|.+..+| ..
T Consensus        19 l~~ip~-~l~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~--~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~   95 (570)
T 2z63_A           19 FYKIPD-NLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQ--TIEDGAYQSLSHLSTLILTGNPIQSLALGA   95 (570)
T ss_dssp             CSSCCS-SSCSSCCEEECCSCCCCEECTTTTTTCSSCCEEECTTCCCC--EECTTTTTTCTTCCEEECTTCCCCEECTTT
T ss_pred             ccccCC-CccccccEEEccCCccCccChhHhhCCCCceEEECCCCcCC--ccCcccccCchhCCEEeCcCCcCCccCHhh
Confidence            444443 3567899999999998874443 348999999999998755  677777799999999999999988775 67


Q ss_pred             hcCCCCCcEEEccCCCCCC-h-hhhcCCCCccEEEecCCcCcc--cchhhccCCCCCEEeccCCCCCCccCcccccCCCC
Q 040303          154 LGLLTNLRTLCLYCSELQD-I-AVIGELKNLEILCLRGSYIEQ--LPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSH  229 (552)
Q Consensus       154 i~~l~~L~~L~l~~~~~~~-~-~~i~~L~~L~~L~l~~~~l~~--lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~  229 (552)
                      ++++++|++|++++|.+.. + ..++++++|++|++++|.+..  +|..++++++|++|++++|. +..++...++.+++
T Consensus        96 ~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~  174 (570)
T 2z63_A           96 FSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNK-IQSIYCTDLRVLHQ  174 (570)
T ss_dssp             TTTCTTCCEEECTTSCCCCSTTCSCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECTTSC-CCEECGGGGHHHHT
T ss_pred             hcCccccccccccccccccCCCccccccccccEEecCCCccceecChhhhcccCCCCEEeCcCCc-cceecHHHccchhc
Confidence            8999999999999999887 3 368999999999999998875  78899999999999999886 55555443555555


Q ss_pred             C----cEEEccccccchhhhh-h---------------------------------------------------------
Q 040303          230 L----EELYIRSFNKWEVEVE-A---------------------------------------------------------  247 (552)
Q Consensus       230 L----~~L~l~~~~~~~~~~~-~---------------------------------------------------------  247 (552)
                      |    +.|+++++........ .                                                         
T Consensus       175 L~~~~~~L~l~~n~l~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~l~~l~~~~l~~~~~~~~~~l~~~~~~~~~~l  254 (570)
T 2z63_A          175 MPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGL  254 (570)
T ss_dssp             CTTCCCEEECTTCCCCEECTTTTTTCEEEEEEEESCCSCTTHHHHHHHTTTTCEEEEEEEEECCCCSSCEECCTTTTGGG
T ss_pred             cchhhhhcccCCCCceecCHHHhccCcceeEecccccccccchhhhhcCccccceeeeccccccCchhhhhcchhhhccc
Confidence            5    5555542211000000 0                                                         


Q ss_pred             -------------hcccccChhhhcCCCCCcEEEccCCCCCcCCCcc-cccCCceEEEEecccccCCCCCCcccceeeec
Q 040303          248 -------------AGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL-FFEKLERYRICIGRWCWEDTSPTCSRTFRLLL  313 (552)
Q Consensus       248 -------------~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l  313 (552)
                                   ..........+..+++|+.|+++++.+..+|..+ .+ +|+.|.+..+..... ..........+.+
T Consensus       255 ~~l~l~~l~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~l~~l~~~~~~~-~L~~L~l~~n~~~~l-~~~~l~~L~~L~l  332 (570)
T 2z63_A          255 CNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNF-GWQHLELVNCKFGQF-PTLKLKSLKRLTF  332 (570)
T ss_dssp             GGSEEEEEEEEETTEEESCSTTTTGGGTTCSEEEEESCEECSCCBCCSCC-CCSEEEEESCBCSSC-CBCBCSSCCEEEE
T ss_pred             cccchhhhhhhcchhhhhhchhhhcCcCcccEEEecCccchhhhhhhccC-CccEEeeccCccccc-CcccccccCEEeC
Confidence                         0111223345667788889999888887888776 44 888888877664321 1111122222222


Q ss_pred             CcccccccchhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC-CCCCcchhhhhhcccccccceee
Q 040303          314 GTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ-APSPKESKRCKESTSEMRSNEII  392 (552)
Q Consensus       314 ~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~-~~lp~~~~~~~~Li~~c~l~~l~  392 (552)
                      ..+........  ..+++|+.|++.++.-......+.  ....+++|++|++++|. ..+|..+..+++|      +.+.
T Consensus       333 ~~n~~~~~~~~--~~~~~L~~L~l~~n~l~~~~~~~~--~~~~~~~L~~L~l~~n~l~~~~~~~~~l~~L------~~L~  402 (570)
T 2z63_A          333 TSNKGGNAFSE--VDLPSLEFLDLSRNGLSFKGCCSQ--SDFGTTSLKYLDLSFNGVITMSSNFLGLEQL------EHLD  402 (570)
T ss_dssp             ESCBSCCBCCC--CBCTTCCEEECCSSCCBEEEEEEH--HHHTCSCCCEEECCSCSEEEEEEEEETCTTC------CEEE
T ss_pred             cCCcccccccc--ccCCCCCEEeCcCCccCccccccc--cccccCccCEEECCCCccccccccccccCCC------CEEE
Confidence            22111111000  345677777777655321211111  22456777777777776 2223223333332      2222


Q ss_pred             eccCCCCCc-cccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCc-cccccchhHhhhcccceEE
Q 040303          393 LEDHVNVPN-TFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGEL-RCLFSSSIVNSFIRLQHLE  470 (552)
Q Consensus       393 ~~~~~~~~~-~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L-~~lp~~~~~~~l~~L~~L~  470 (552)
                      ......... .......+++|+.|++++|.+.........    .+++|++|++.+|.-. ..+|.  .+..+++|++|+
T Consensus       403 l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~----~l~~L~~L~l~~n~l~~~~~p~--~~~~l~~L~~L~  476 (570)
T 2z63_A          403 FQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFN----GLSSLEVLKMAGNSFQENFLPD--IFTELRNLTFLD  476 (570)
T ss_dssp             CTTSEEESCTTSCTTTTCTTCCEEECTTSCCEECCTTTTT----TCTTCCEEECTTCEEGGGEECS--CCTTCTTCCEEE
T ss_pred             ccCCccccccchhhhhcCCCCCEEeCcCCcccccchhhhh----cCCcCcEEECcCCcCccccchh--hhhcccCCCEEE
Confidence            211100000 012345788999999999977665433333    7899999999997533 24554  478899999999


Q ss_pred             EecCCchhhhhccccccccccccCCccEEEeccccccccccCCcccccCCCccEEEeecCCCcchhh
Q 040303          471 IDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCPEFLLTA  537 (552)
Q Consensus       471 i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~  537 (552)
                      +.+|. ++.+. +.    ....+++|++|++.+| .++.++...+. .+++|+.|++++++---..|
T Consensus       477 l~~n~-l~~~~-~~----~~~~l~~L~~L~l~~n-~l~~~~~~~~~-~l~~L~~L~l~~N~~~~~~~  535 (570)
T 2z63_A          477 LSQCQ-LEQLS-PT----AFNSLSSLQVLNMASN-QLKSVPDGIFD-RLTSLQKIWLHTNPWDCSCP  535 (570)
T ss_dssp             CTTSC-CCEEC-TT----TTTTCTTCCEEECCSS-CCSCCCTTTTT-TCTTCCEEECCSSCBCCCTT
T ss_pred             CCCCc-cccCC-hh----hhhcccCCCEEeCCCC-cCCCCCHHHhh-cccCCcEEEecCCcccCCCc
Confidence            99985 43331 11    2345899999999998 67777665443 78999999999976443333

>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=99.97  E-value=6.8e-29  Score=264.48  Aligned_cols=433  Identities=15%  Similarity=0.147  Sum_probs=262.7

Q ss_pred             cccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccc-cchhcCCCCC
Q 040303           83 GALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLL-PSSLGLLTNL  160 (552)
Q Consensus        83 ~~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~l-p~~i~~l~~L  160 (552)
                      ..++++++|++++|.+....+..+ .+++|++|++++|...  .+++..|.++++|++|++++|.+..+ |..++++++|
T Consensus        30 ~l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~--~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L  107 (606)
T 3t6q_A           30 TLPNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIY--WIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKAL  107 (606)
T ss_dssp             TSCTTCCEEECTTCCCSEECTTTSTTCTTCSEEECTTCCCC--EECTTTTTTCTTCCEEECTTCCCSEECTTTTSSCTTC
T ss_pred             CCCCcCcEEEccCCccCcCChhHhccCccceEEECCCCccc--eeChhhccCccccCeeeCCCCcccccChhhhcccccc
Confidence            356789999999999988545444 8999999999998765  56555568999999999999988765 6789999999


Q ss_pred             cEEEccCCCCCC--hhhhcCCCCccEEEecCCcCcccc-hhhccCCCCCEEeccCCCCCCccCcccccCCCCCc--EEEc
Q 040303          161 RTLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQLP-VEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLE--ELYI  235 (552)
Q Consensus       161 ~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp-~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~--~L~l  235 (552)
                      ++|++++|.+..  +..++++++|++|++++|.+..++ ..+..+++|++|++++|. +..+++..++.+++|+  +|++
T Consensus       108 ~~L~L~~n~i~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~l~L~l  186 (606)
T 3t6q_A          108 KHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNA-IHYLSKEDMSSLQQATNLSLNL  186 (606)
T ss_dssp             CEEECTTSCCSCGGGSCCTTCTTCCEEECCSSCCCCCCCCTTCCCTTCCEEECCSSC-CCEECHHHHHTTTTCCSEEEEC
T ss_pred             cEeeccccCcccCCcchhccCCcccEEECCCCcccccCcccccCCcccCEEEcccCc-ccccChhhhhhhcccceeEEec
Confidence            999999999887  578899999999999999888652 334458999999999887 6666555578888888  6666


Q ss_pred             cccccchhhhh-----------------------------------------------------------------hhcc
Q 040303          236 RSFNKWEVEVE-----------------------------------------------------------------AAGV  250 (552)
Q Consensus       236 ~~~~~~~~~~~-----------------------------------------------------------------~~~~  250 (552)
                      .++........                                                                 ....
T Consensus       187 ~~n~l~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~l~~l~~~~~~~~~~~~i~~~~~~~l~~~~L~~L~l~~n~l  266 (606)
T 3t6q_A          187 NGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYF  266 (606)
T ss_dssp             TTCCCCEECTTTTTTCEEEEEECTTCSCHHHHHHHTTTCEEEEEECCCCTTSCCCCCCGGGGGGGGGSEEEEEECTTCCC
T ss_pred             CCCccCccChhHhhhccccccccCCchhHHHHhhhccccchhheechhhccccccccChhHhchhhcCceeEEEeecCcc
Confidence            53321110000                                                                 0000


Q ss_pred             cccChhhhcCCCCCcEEEccCCCCCcCCCcc-cccCCceEEEEecccccC--CCCCCcccceeeecCccccc-ccchhHH
Q 040303          251 KNASLEELKRLPNLTTLELCIPDVNTLPKGL-FFEKLERYRICIGRWCWE--DTSPTCSRTFRLLLGTDNCI-SFKSGHI  326 (552)
Q Consensus       251 ~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~-~l~~L~~L~l~~~~~~~~--~~~~~~~~~~~l~l~~~~~~-~~~~~~~  326 (552)
                      .......++.+++|+.|++++|.+..+|..+ .+++|+.|.+..+.....  ...........+.+..+... ..+....
T Consensus       267 ~~~~~~~~~~l~~L~~L~l~~n~l~~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~  346 (606)
T 3t6q_A          267 FNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCL  346 (606)
T ss_dssp             SSCCTTTTTTCTTCSEEECTTSCCSCCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCCSSTT
T ss_pred             CccCHHHhccccCCCEEeccCCccCCCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccccchhhh
Confidence            1112233677888999999998888888876 778888888876653221  01122233334444333222 2233344


Q ss_pred             HHhchheeeeecCCCCCcceeee-ccccCcccccccEEEeecCC--CCCCcchhhhhhc----ccccc------------
Q 040303          327 VQLQRIEDLCLSGLPDQDIIELV-NNKLGSYSSQLKHLWVEGCQ--APSPKESKRCKES----TSEMR------------  387 (552)
Q Consensus       327 ~~l~~L~~L~l~~~~~~~~~~~~-~~~~~~~~~~L~~L~l~~c~--~~lp~~~~~~~~L----i~~c~------------  387 (552)
                      ..+++|+.|++.++.-   .... .......+++|++|++++|.  +..|..+..+++|    +..+.            
T Consensus       347 ~~l~~L~~L~l~~n~l---~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~  423 (606)
T 3t6q_A          347 ENLENLRELDLSHDDI---ETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQN  423 (606)
T ss_dssp             TTCTTCCEEECCSSCC---CEEEESTTTTTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTTCCTTTT
T ss_pred             hccCcCCEEECCCCcc---ccccCcchhcccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcccchhhhC
Confidence            4567777777776654   2221 01234567777777777776  2233334334333    22222            


Q ss_pred             ---cceeeeccCCCCCccccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhc
Q 040303          388 ---SNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFI  464 (552)
Q Consensus       388 ---l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~  464 (552)
                         ++.+...............+.+++|+.|++++|.+...... .....+.+++|++|++++| ++..+++ ..+..++
T Consensus       424 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-~~~~~~~l~~L~~L~Ls~n-~l~~~~~-~~~~~l~  500 (606)
T 3t6q_A          424 LHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQ-KTNSLQTLGRLEILVLSFC-DLSSIDQ-HAFTSLK  500 (606)
T ss_dssp             CTTCCEEECTTCCCBTTCTTTTTTCTTCCEEECTTCBCGGGEEC-SSCGGGGCTTCCEEECTTS-CCCEECT-TTTTTCT
T ss_pred             cccCCEEECCCCccCCcCHHHHhCCCCCCEEECCCCCCCccccc-cchhhccCCCccEEECCCC-ccCccCh-hhhcccc
Confidence               22222211111111122234566666666666654321000 0011125667777777665 4455443 2356667


Q ss_pred             ccceEEEecCCchhhhhccccccccccccCCccEEEeccccccccccCCcccccCCCccEEEeecCCCc
Q 040303          465 RLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCPEF  533 (552)
Q Consensus       465 ~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~L  533 (552)
                      +|++|++.+|. ++... ++    ....+++| .|++.++ .++.++...+. .+++|+.|+++++|--
T Consensus       501 ~L~~L~Ls~N~-l~~~~-~~----~l~~l~~L-~L~L~~N-~l~~~~~~~~~-~l~~L~~L~l~~N~~~  560 (606)
T 3t6q_A          501 MMNHVDLSHNR-LTSSS-IE----ALSHLKGI-YLNLASN-HISIILPSLLP-ILSQQRTINLRQNPLD  560 (606)
T ss_dssp             TCCEEECCSSC-CCGGG-GG----GGTTCCSC-EEECCSS-CCCCCCGGGHH-HHHTSSEEECTTCCEE
T ss_pred             CCCEEECCCCc-cCcCC-hh----HhCccccc-EEECcCC-cccccCHhhcc-cCCCCCEEeCCCCCcc
Confidence            77777777664 33321 11    23336666 7777776 44455444332 5677888888877643

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

Probab=99.97  E-value=6.9e-30  Score=272.23  Aligned_cols=397  Identities=12%  Similarity=0.101  Sum_probs=249.9

Q ss_pred             CcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCC-------------------------------------------
Q 040303           86 KFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKS-------------------------------------------  121 (552)
Q Consensus        86 ~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~-------------------------------------------  121 (552)
                      .+|+.|+++++.+.+.+|..+ .+++|++|++++|..                                           
T Consensus        81 ~~V~~L~L~~~~l~g~lp~~l~~L~~L~~L~Ls~N~~~~~~~~~~~~~~~~~~~~~~~~~l~l~l~~~~l~~~~~~~~~~  160 (636)
T 4eco_A           81 GRVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSD  160 (636)
T ss_dssp             CCEEEEECTTSCCEEEECGGGGGCTTCCEEESCCGGGGGTCCSBSTTSBCTTCCHHHHHHHHTHHHHHHTCCCGGGGSCH
T ss_pred             CCEEEEEecCcccCCcCChHHhcCccceEEECcCCccccCCccccccccccCchHHHHHHHHhhHHHhhhccCchhhHHH
Confidence            478899999999887777555 899999999988742                                           


Q ss_pred             ---------------------------------CCcccChhHhhCCCCccEEEeecccccc------------------c
Q 040303          122 ---------------------------------SLITLPDNFFRKLTQVRVLDLTYMHLSL------------------L  150 (552)
Q Consensus       122 ---------------------------------~~~~~~~~~~~~l~~Lr~L~l~~~~~~~------------------l  150 (552)
                                                       ....+|..+ +++++|++|++++|.+..                  +
T Consensus       161 ~~~~l~~~~l~~~~~~~~~~~~l~~l~l~~~~n~l~~ip~~l-~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~i  239 (636)
T 4eco_A          161 LIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNITFVSKAV-MRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYK  239 (636)
T ss_dssp             HHHHHHHHCTTSCCCCCCCCCCCCTTTTTCCSCEEEEECGGG-GGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHT
T ss_pred             HHHHHhhcCccccccccccccchhhhhhccccCCCccCCHHH-hcccCCCEEECcCCccccccccccccccccchhcccC
Confidence                                             111366664 889999999999999987                  9


Q ss_pred             cchhc--CCCCCcEEEccCCCCCC--hhhhcCCCCccEEEecCCc-Cc--ccchhhccC------CCCCEEeccCCCCCC
Q 040303          151 PSSLG--LLTNLRTLCLYCSELQD--IAVIGELKNLEILCLRGSY-IE--QLPVEIGQL------TRLRSLDLRDCDRLQ  217 (552)
Q Consensus       151 p~~i~--~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~-l~--~lp~~i~~l------~~L~~L~l~~~~~~~  217 (552)
                      |..++  ++++|++|++++|.+..  |..++++++|++|++++|+ ++  .+|..++++      ++|++|++++|. +.
T Consensus       240 p~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~-l~  318 (636)
T 4eco_A          240 TEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNN-LK  318 (636)
T ss_dssp             TSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSC-CS
T ss_pred             chhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEECcCCCCCccccchHHHHhhhccccCCCCCEEECCCCc-CC
Confidence            99999  99999999999998655  8899999999999999997 87  489888887      999999999987 56


Q ss_pred             ccCc--ccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcc-cccC-CceEEEEe
Q 040303          218 VIPP--NVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL-FFEK-LERYRICI  293 (552)
Q Consensus       218 ~~~~--~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~-~l~~-L~~L~l~~  293 (552)
                      .+|.  . ++++++|++|+++++..          .+..+ .++.+++|+.|++++|.+..+|..+ .+++ |+.|.++.
T Consensus       319 ~ip~~~~-l~~l~~L~~L~L~~N~l----------~g~ip-~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~~L~~L~Ls~  386 (636)
T 4eco_A          319 TFPVETS-LQKMKKLGMLECLYNQL----------EGKLP-AFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAH  386 (636)
T ss_dssp             SCCCHHH-HTTCTTCCEEECCSCCC----------EEECC-CCEEEEEESEEECCSSEEEECCTTSEEECTTCCEEECCS
T ss_pred             ccCchhh-hccCCCCCEEeCcCCcC----------ccchh-hhCCCCCCCEEECCCCccccccHhhhhhcccCcEEEccC
Confidence            8887  5 89999999999985543          11233 6778888899999888888888877 7777 88888876


Q ss_pred             cccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcceeeeccc-----cCcccccccEEEeecC
Q 040303          294 GRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNK-----LGSYSSQLKHLWVEGC  368 (552)
Q Consensus       294 ~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-----~~~~~~~L~~L~l~~c  368 (552)
                      +............                     .+++|+.|++.++.-...  .+..+     ....+++|++|++++|
T Consensus       387 N~l~~lp~~~~~~---------------------~l~~L~~L~Ls~N~l~~~--~p~~l~~~~~~~~~~~~L~~L~Ls~N  443 (636)
T 4eco_A          387 NKLKYIPNIFDAK---------------------SVSVMSAIDFSYNEIGSV--DGKNFDPLDPTPFKGINVSSINLSNN  443 (636)
T ss_dssp             SCCSSCCSCCCTT---------------------CSSCEEEEECCSSCTTTT--TTCSSCTTCSSCCCCCCEEEEECCSS
T ss_pred             CcCcccchhhhhc---------------------ccCccCEEECcCCcCCCc--chhhhcccccccccCCCCCEEECcCC
Confidence            6533110100000                     012344444444332100  00000     0002234444444444


Q ss_pred             C-CCCCcch-hhhhhc----ccccccceeeeccCCCCCccccccccCCCcccccccceeeeEeccCCCCccccccCcceE
Q 040303          369 Q-APSPKES-KRCKES----TSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTR  442 (552)
Q Consensus       369 ~-~~lp~~~-~~~~~L----i~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~  442 (552)
                      . ..+|... ..+++|    ++.+.+..+...   .+.........+++|+.|++++|.+..++....   ...+++|++
T Consensus       444 ~l~~lp~~~~~~l~~L~~L~Ls~N~l~~i~~~---~~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~~~---~~~l~~L~~  517 (636)
T 4eco_A          444 QISKFPKELFSTGSPLSSINLMGNMLTEIPKN---SLKDENENFKNTYLLTSIDLRFNKLTKLSDDFR---ATTLPYLVG  517 (636)
T ss_dssp             CCCSCCTHHHHTTCCCSEEECCSSCCSBCCSS---SSEETTEECTTGGGCCEEECCSSCCCBCCGGGS---TTTCTTCCE
T ss_pred             ccCcCCHHHHccCCCCCEEECCCCCCCCcCHH---HhccccccccccCCccEEECcCCcCCccChhhh---hccCCCcCE
Confidence            4 2333222 112222    222222221100   000000011233478888888886665443221   015678888


Q ss_pred             EEEecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEEeccccccccccCCcccccCCCc
Q 040303          443 LIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTL  522 (552)
Q Consensus       443 L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L  522 (552)
                      |+++++ .++.+|.  .+..+++|++|++.++..+..-............+++|+.|++.++. ++.+|.. +   +++|
T Consensus       518 L~Ls~N-~l~~ip~--~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~-l~~ip~~-~---~~~L  589 (636)
T 4eco_A          518 IDLSYN-SFSKFPT--QPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSND-IRKVNEK-I---TPNI  589 (636)
T ss_dssp             EECCSS-CCSSCCC--GGGGCSSCCEEECCSCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSC-CCBCCSC-C---CTTC
T ss_pred             EECCCC-CCCCcCh--hhhcCCCCCEEECCCCcccccCcccccChHHHhcCCCCCEEECCCCc-CCccCHh-H---hCcC
Confidence            888774 5666665  36678888888886543211100001111134447788888888774 4677654 2   2788


Q ss_pred             cEEEeecCCCc
Q 040303          523 ETLEVIRCPEF  533 (552)
Q Consensus       523 ~~L~i~~C~~L  533 (552)
                      +.|++++|+-.
T Consensus       590 ~~L~Ls~N~l~  600 (636)
T 4eco_A          590 SVLDIKDNPNI  600 (636)
T ss_dssp             CEEECCSCTTC
T ss_pred             CEEECcCCCCc
Confidence            88888887543

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

Probab=99.96  E-value=4.4e-29  Score=270.58  Aligned_cols=399  Identities=13%  Similarity=0.089  Sum_probs=267.2

Q ss_pred             CcccEEEeecCCCcccCCCcc-CCCCceEEEe-ecCCCC-----------------------------------------
Q 040303           86 KFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSL-WTEKSS-----------------------------------------  122 (552)
Q Consensus        86 ~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l-~~~~~~-----------------------------------------  122 (552)
                      .++..|+++++.+.+.+|..+ .+++|++|++ ++|...                                         
T Consensus       323 ~~V~~L~Ls~~~L~G~ip~~l~~L~~L~~LdLss~N~lsG~~~~~~~~~~~~l~~~~l~~lr~~~~~~~l~~~~~~~~s~  402 (876)
T 4ecn_A          323 GRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSD  402 (876)
T ss_dssp             SCEEEEECTTTCCEEEECGGGGGCTTCCEEESCCTTHHHHTTCBTTBCCCSSCCHHHHHHHHTHHHHHHTCCCGGGGSCH
T ss_pred             CCEEEEECccCCCCCcCchHHhccccceEeeecccccccccccccccccccccchhHHHHHHHhhhhhhhccCcchhhhH
Confidence            578899999999988787655 9999999999 554210                                         


Q ss_pred             ----------------------------------CcccChhHhhCCCCccEEEeecccccc------------------c
Q 040303          123 ----------------------------------LITLPDNFFRKLTQVRVLDLTYMHLSL------------------L  150 (552)
Q Consensus       123 ----------------------------------~~~~~~~~~~~l~~Lr~L~l~~~~~~~------------------l  150 (552)
                                                        +..+|..+ +++++|++|++++|.+..                  +
T Consensus       403 l~~~~l~~~~~~~~i~~~~~l~l~~l~l~~~~N~L~~IP~~l-~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~i  481 (876)
T 4ecn_A          403 LLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNRITFISKAI-QRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYE  481 (876)
T ss_dssp             HHHHHHHTCTTSCCCCCCCCCCCCTTTTTCCSCEEEEECGGG-GGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHT
T ss_pred             HHHHHhhhCccccccccccccchhhceeccccCcccchhHHH-hcCCCCCEEECcCCcCCCCcccccccccccccccccC
Confidence                                              00167664 899999999999999987                  9


Q ss_pred             cchhc--CCCCCcEEEccCCCCCC--hhhhcCCCCccEEEecCCc-Ccc--cchhhccCC-------CCCEEeccCCCCC
Q 040303          151 PSSLG--LLTNLRTLCLYCSELQD--IAVIGELKNLEILCLRGSY-IEQ--LPVEIGQLT-------RLRSLDLRDCDRL  216 (552)
Q Consensus       151 p~~i~--~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~-l~~--lp~~i~~l~-------~L~~L~l~~~~~~  216 (552)
                      |..++  ++++|++|++++|.+..  |..++++++|++|++++|+ ++.  +|..+++++       +|++|++++|. +
T Consensus       482 P~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~-L  560 (876)
T 4ecn_A          482 NEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNN-L  560 (876)
T ss_dssp             TSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSC-C
T ss_pred             ChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCc-C
Confidence            99988  99999999999998655  8899999999999999997 874  898888776       99999999988 5


Q ss_pred             CccCc--ccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcc-cccC-CceEEEE
Q 040303          217 QVIPP--NVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL-FFEK-LERYRIC  292 (552)
Q Consensus       217 ~~~~~--~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~-~l~~-L~~L~l~  292 (552)
                      ..+|.  . ++++++|+.|+++++..          . ..+ .++.+++|+.|++++|.+..+|..+ .+++ |+.|.++
T Consensus       561 ~~ip~~~~-l~~L~~L~~L~Ls~N~l----------~-~lp-~~~~L~~L~~L~Ls~N~l~~lp~~l~~l~~~L~~L~Ls  627 (876)
T 4ecn_A          561 EEFPASAS-LQKMVKLGLLDCVHNKV----------R-HLE-AFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFS  627 (876)
T ss_dssp             CBCCCHHH-HTTCTTCCEEECTTSCC----------C-BCC-CCCTTSEESEEECCSSCCSCCCTTSCEECTTCCEEECC
T ss_pred             CccCChhh-hhcCCCCCEEECCCCCc----------c-cch-hhcCCCcceEEECcCCccccchHHHhhccccCCEEECc
Confidence            68998  5 89999999999985543          1 233 7889999999999999988999887 7788 9999987


Q ss_pred             ecccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcc-eeeeccccCcccccccEEEeecCC-C
Q 040303          293 IGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDI-IELVNNKLGSYSSQLKHLWVEGCQ-A  370 (552)
Q Consensus       293 ~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~~~~~~~~~L~~L~l~~c~-~  370 (552)
                      .+............                     ..++|+.|+++++.-... +.++........++|+.|++++|. .
T Consensus       628 ~N~L~~lp~~~~~~---------------------~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N~L~  686 (876)
T 4ecn_A          628 HNKLKYIPNIFNAK---------------------SVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQ  686 (876)
T ss_dssp             SSCCCSCCSCCCTT---------------------CSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSSCCC
T ss_pred             CCCCCcCchhhhcc---------------------ccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccCCcCC
Confidence            76533111100000                     012355555544432111 111111111122355555555554 3


Q ss_pred             CCCcchh-hhhhc----ccccccceeeeccCCCCCccccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEE
Q 040303          371 PSPKESK-RCKES----TSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIV  445 (552)
Q Consensus       371 ~lp~~~~-~~~~L----i~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i  445 (552)
                      .+|.... .+++|    ++.+.+..+....   +........++++|+.|+|++|++..++....   ...+++|+.|++
T Consensus       687 ~lp~~~~~~l~~L~~L~Ls~N~L~~ip~~~---~~~~~~~l~nl~~L~~L~Ls~N~L~~lp~~l~---~~~l~~L~~L~L  760 (876)
T 4ecn_A          687 KFPTELFATGSPISTIILSNNLMTSIPENS---LKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFR---ATTLPYLSNMDV  760 (876)
T ss_dssp             SCCHHHHHTTCCCSEEECCSCCCSCCCTTS---SSCTTSCCTTGGGCCEEECCSSCCCCCCGGGS---TTTCTTCCEEEC
T ss_pred             ccCHHHHccCCCCCEEECCCCcCCccChHH---hccccccccccCCccEEECCCCCCccchHHhh---hccCCCcCEEEe
Confidence            3333321 22222    2222232221000   00000012345589999999997775543321   016789999999


Q ss_pred             ecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEEeccccccccccCCcccccCCCccEE
Q 040303          446 YGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETL  525 (552)
Q Consensus       446 ~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L  525 (552)
                      ++| .+..+|.  .+..+++|+.|++.+++.+..-............+++|+.|++++|. +..+|.. +   +++|+.|
T Consensus       761 s~N-~L~~lp~--~l~~L~~L~~L~Ls~N~~ls~N~l~~~ip~~l~~L~~L~~L~Ls~N~-L~~Ip~~-l---~~~L~~L  832 (876)
T 4ecn_A          761 SYN-CFSSFPT--QPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSND-IRKVDEK-L---TPQLYIL  832 (876)
T ss_dssp             CSS-CCSSCCC--GGGGCTTCCEEECCCCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSC-CCBCCSC-C---CSSSCEE
T ss_pred             CCC-CCCccch--hhhcCCCCCEEECCCCCCcccccccccChHHHhcCCCCCEEECCCCC-CCccCHh-h---cCCCCEE
Confidence            885 6777775  47789999999998754221110001111134558999999999985 4888765 2   3799999


Q ss_pred             EeecCCCcc
Q 040303          526 EVIRCPEFL  534 (552)
Q Consensus       526 ~i~~C~~L~  534 (552)
                      ++++|+-..
T Consensus       833 dLs~N~l~~  841 (876)
T 4ecn_A          833 DIADNPNIS  841 (876)
T ss_dssp             ECCSCTTCE
T ss_pred             ECCCCCCCc
Confidence            999997543

>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=99.96  E-value=6.5e-28  Score=256.92  Aligned_cols=194  Identities=19%  Similarity=0.215  Sum_probs=144.7

Q ss_pred             cEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccc-cchhcCCCCCcEEEccC
Q 040303           89 TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLL-PSSLGLLTNLRTLCLYC  167 (552)
Q Consensus        89 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~l-p~~i~~l~~L~~L~l~~  167 (552)
                      ++++.+++.+.. +|... .+++++|++++|...  .++...|.++++|++|++++|.+..+ |..++++++|++|++++
T Consensus        14 ~~~~c~~~~l~~-ip~~~-~~~l~~L~Ls~n~l~--~~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~   89 (606)
T 3vq2_A           14 ITYQCMDQKLSK-VPDDI-PSSTKNIDLSFNPLK--ILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTG   89 (606)
T ss_dssp             TEEECTTSCCSS-CCTTS-CTTCCEEECTTSCCC--EECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTT
T ss_pred             CceEccCCCccc-CCCCC-CCCcCEEECCCCCcC--EeChhhccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCC
Confidence            567888888877 66543 389999999998876  67776679999999999999999876 56789999999999999


Q ss_pred             CCCCC--hhhhcCCCCccEEEecCCcCcccc-hhhccCCCCCEEeccCCCCCC-ccCcccccCCCCCcEEEccccccchh
Q 040303          168 SELQD--IAVIGELKNLEILCLRGSYIEQLP-VEIGQLTRLRSLDLRDCDRLQ-VIPPNVLSNLSHLEELYIRSFNKWEV  243 (552)
Q Consensus       168 ~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp-~~i~~l~~L~~L~l~~~~~~~-~~~~~~l~~l~~L~~L~l~~~~~~~~  243 (552)
                      |.+..  |..++++++|++|++++|.+..+| ..++++++|++|++++|.... .+|.. ++++++|++|+++++.....
T Consensus        90 n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~-~~~l~~L~~L~Ls~n~l~~~  168 (606)
T 3vq2_A           90 NPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAY-FSNLTNLVHVDLSYNYIQTI  168 (606)
T ss_dssp             CCCCCCCTTSSTTCTTCCEEECTTSCCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGG-GGTCTTCCEEECCSSCCCEE
T ss_pred             CcccccChhhcCCcccCCEEEccCCccccccccccCCCCCCCEEeCCCCcccceechHh-HhhcCCCCEEEccCCcceec
Confidence            99876  788999999999999999998877 579999999999999988433 46776 89999999999985533110


Q ss_pred             hhhhhcccccChhhhcCCCC-CcEEEccCCCCCcCCCcc-cccCCceEEEEec
Q 040303          244 EVEAAGVKNASLEELKRLPN-LTTLELCIPDVNTLPKGL-FFEKLERYRICIG  294 (552)
Q Consensus       244 ~~~~~~~~~~~~~~l~~l~~-L~~L~l~~~~~~~~p~~~-~l~~L~~L~l~~~  294 (552)
                             .......+..++. +..|++++|.+..++... ...+|+.|.+.++
T Consensus       169 -------~~~~~~~l~~L~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~n  214 (606)
T 3vq2_A          169 -------TVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGN  214 (606)
T ss_dssp             -------CTTTTHHHHHCTTCCCEEECTTCCCCEECTTTTTTCEEEEEEEESC
T ss_pred             -------ChhhhhhhhccccccceeeccCCCcceeCcccccCceeeeeeccCC
Confidence                   1112222333332 335666666655555443 3334555555443

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

Probab=99.96  E-value=2.3e-28  Score=264.94  Aligned_cols=369  Identities=14%  Similarity=0.146  Sum_probs=263.3

Q ss_pred             CCCcc-CCCCceEEEeecCCCCCc----------------ccChhH-hhCCCCccEEEeecccc-ccccchhcCCCCCcE
Q 040303          102 LPEVL-ECPQLQLLSLWTEKSSLI----------------TLPDNF-FRKLTQVRVLDLTYMHL-SLLPSSLGLLTNLRT  162 (552)
Q Consensus       102 ~~~~~-~~~~Lr~L~l~~~~~~~~----------------~~~~~~-~~~l~~Lr~L~l~~~~~-~~lp~~i~~l~~L~~  162 (552)
                      +|..+ .+++|++|++++|.+...                .+|..+ |.++++|++|++++|.+ ..+|..++++++|++
T Consensus       440 IP~~l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~  519 (876)
T 4ecn_A          440 ISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQS  519 (876)
T ss_dssp             ECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCE
T ss_pred             hhHHHhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCE
Confidence            44433 889999999999987631                178876 34999999999999975 578999999999999


Q ss_pred             EEccCCC-CCC---hhhhcCCC-------CccEEEecCCcCcccch--hhccCCCCCEEeccCCCCCCccCcccccCCCC
Q 040303          163 LCLYCSE-LQD---IAVIGELK-------NLEILCLRGSYIEQLPV--EIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSH  229 (552)
Q Consensus       163 L~l~~~~-~~~---~~~i~~L~-------~L~~L~l~~~~l~~lp~--~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~  229 (552)
                      |++++|. +..   |..++++.       +|++|++++|.+..+|.  .++++++|++|++++|. +..+| . ++.+++
T Consensus       520 L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N~-l~~lp-~-~~~L~~  596 (876)
T 4ecn_A          520 LNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHNK-VRHLE-A-FGTNVK  596 (876)
T ss_dssp             EECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCCBCCCHHHHTTCTTCCEEECTTSC-CCBCC-C-CCTTSE
T ss_pred             EECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcCCccCChhhhhcCCCCCEEECCCCC-cccch-h-hcCCCc
Confidence            9999998 763   66666655       99999999999999999  89999999999999988 56888 4 899999


Q ss_pred             CcEEEccccccchhhhhhhcccccChhhhcCCCC-CcEEEccCCCCCcCCCcc-c--ccCCceEEEEecccccCCC----
Q 040303          230 LEELYIRSFNKWEVEVEAAGVKNASLEELKRLPN-LTTLELCIPDVNTLPKGL-F--FEKLERYRICIGRWCWEDT----  301 (552)
Q Consensus       230 L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~-L~~L~l~~~~~~~~p~~~-~--l~~L~~L~l~~~~~~~~~~----  301 (552)
                      |+.|+++++..          . ..+..+..+++ |+.|++++|.+..+|..+ .  .++|+.|.++.+.......    
T Consensus       597 L~~L~Ls~N~l----------~-~lp~~l~~l~~~L~~L~Ls~N~L~~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~  665 (876)
T 4ecn_A          597 LTDLKLDYNQI----------E-EIPEDFCAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISC  665 (876)
T ss_dssp             ESEEECCSSCC----------S-CCCTTSCEECTTCCEEECCSSCCCSCCSCCCTTCSSCEEEEECCSSCTTTTSSSCSS
T ss_pred             ceEEECcCCcc----------c-cchHHHhhccccCCEEECcCCCCCcCchhhhccccCCCCEEECcCCcCCCccccchh
Confidence            99999985544          1 35566888998 999999999998999876 2  3459999988776432211    


Q ss_pred             ---CCCcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcceeeeccccC------cccccccEEEeecCC-CC
Q 040303          302 ---SPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLG------SYSSQLKHLWVEGCQ-AP  371 (552)
Q Consensus       302 ---~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~------~~~~~L~~L~l~~c~-~~  371 (552)
                         .........+.+..+.-...+.++...+++|+.|++.++.-   ..++.....      ..+++|+.|+|++|. ..
T Consensus       666 ~l~~~~~~~L~~L~Ls~N~L~~lp~~~~~~l~~L~~L~Ls~N~L---~~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~L~~  742 (876)
T 4ecn_A          666 SMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLM---TSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTS  742 (876)
T ss_dssp             CTTTCCCCCEEEEECCSSCCCSCCHHHHHTTCCCSEEECCSCCC---SCCCTTSSSCTTSCCTTGGGCCEEECCSSCCCC
T ss_pred             hhccccCCCcCEEEccCCcCCccCHHHHccCCCCCEEECCCCcC---CccChHHhccccccccccCCccEEECCCCCCcc
Confidence               11222444555555444445666666667777777776643   233322111      123477777777776 22


Q ss_pred             CCcchhhhhhcccccccceeeeccCCCCCccccccc--cCCCcccccccceeeeEeccCCCCccccccCcceEEEEec--
Q 040303          372 SPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKG--GLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYG--  447 (552)
Q Consensus       372 lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~~--~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~--  447 (552)
                      +|.                              ...  .+++|+.|+|++|.+..++..     ...+++|+.|++++  
T Consensus       743 lp~------------------------------~l~~~~l~~L~~L~Ls~N~L~~lp~~-----l~~L~~L~~L~Ls~N~  787 (876)
T 4ecn_A          743 LSD------------------------------DFRATTLPYLSNMDVSYNCFSSFPTQ-----PLNSSQLKAFGIRHQR  787 (876)
T ss_dssp             CCG------------------------------GGSTTTCTTCCEEECCSSCCSSCCCG-----GGGCTTCCEEECCCCB
T ss_pred             chH------------------------------HhhhccCCCcCEEEeCCCCCCccchh-----hhcCCCCCEEECCCCC
Confidence            222                              223  789999999999987764332     22889999999987  


Q ss_pred             ----CCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEEeccccccccccCCccc-------
Q 040303          448 ----CGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVH-------  516 (552)
Q Consensus       448 ----C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~-------  516 (552)
                          |.-...+|.  .+..+++|++|++.+|.- ..++  ..      .+++|+.|+|++++- ..+....+.       
T Consensus       788 ~ls~N~l~~~ip~--~l~~L~~L~~L~Ls~N~L-~~Ip--~~------l~~~L~~LdLs~N~l-~~i~~~~~~~~~~~~~  855 (876)
T 4ecn_A          788 DAEGNRILRQWPT--GITTCPSLIQLQIGSNDI-RKVD--EK------LTPQLYILDIADNPN-ISIDVTSVCPYIEAGM  855 (876)
T ss_dssp             CTTCCBCCCCCCT--TGGGCSSCCEEECCSSCC-CBCC--SC------CCSSSCEEECCSCTT-CEEECGGGHHHHHTTC
T ss_pred             CcccccccccChH--HHhcCCCCCEEECCCCCC-CccC--Hh------hcCCCCEEECCCCCC-CccChHHccccccchh
Confidence                333445554  588999999999999864 6663  22      247999999999973 333211110       


Q ss_pred             ccCCCccEEEeecCCCcc
Q 040303          517 IEFPTLETLEVIRCPEFL  534 (552)
Q Consensus       517 ~~~~~L~~L~i~~C~~L~  534 (552)
                      ..+..-+...|.+|+.|.
T Consensus       856 ~~L~~n~~~~I~gC~~L~  873 (876)
T 4ecn_A          856 YVLLYDKTQDIRGCDALG  873 (876)
T ss_dssp             CEEECCTTSEEESCGGGC
T ss_pred             eeecCCCccccCCCCCcc
Confidence            012222344788999874

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

Probab=99.96  E-value=3.3e-28  Score=265.30  Aligned_cols=425  Identities=16%  Similarity=0.092  Sum_probs=244.8

Q ss_pred             cccCcccEEEeecCCCcccCCC---ccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccc-cch---hc
Q 040303           83 GALKFYTSIVLHDSKMNVLLPE---VLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLL-PSS---LG  155 (552)
Q Consensus        83 ~~~~~lr~L~l~~~~~~~~~~~---~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~l-p~~---i~  155 (552)
                      ...+++++|++++|.+.+.+|.   ...+++|++|++++|.... .+|..++.++++|++|++++|.+... |..   ++
T Consensus        97 ~~l~~L~~L~Ls~n~l~~~~~~~~~l~~l~~L~~L~Ls~n~l~~-~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~  175 (768)
T 3rgz_A           97 KCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDF-PGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSD  175 (768)
T ss_dssp             CCCTTCCEEECCSSEEEEEGGGGGGGGGCTTCCEEECCSSEEEC-CSSCCSCCCCTTCSEEECCSSCCEEETHHHHHHTT
T ss_pred             ccCCCCCEEECCCCcCCCcCCChHHHhCCCCCCEEECcCCccCC-cCCHHHhccCCCCCEEECCCCccCCcCChhhhhhc
Confidence            4567888999998888765554   3378888899888876543 45555446788888888888877643 333   66


Q ss_pred             CCCCCcEEEccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEc
Q 040303          156 LLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYI  235 (552)
Q Consensus       156 ~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l  235 (552)
                      ++++|++|++++|.+.....+.++++|++|++++|.+...+..++++++|++|++++|...+.+|.. ++.+++|++|++
T Consensus       176 ~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~Ls~n~l~~~~~~l~~l~~L~~L~Ls~n~l~~~~~~~-l~~l~~L~~L~L  254 (768)
T 3rgz_A          176 GCGELKHLAISGNKISGDVDVSRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRA-ISTCTELKLLNI  254 (768)
T ss_dssp             CCTTCCEEECCSSEEESCCBCTTCTTCCEEECCSSCCCSCCCBCTTCCSCCEEECCSSCCCSCHHHH-TTTCSSCCEEEC
T ss_pred             cCCCCCEEECCCCcccccCCcccCCcCCEEECcCCcCCCCCcccccCCCCCEEECcCCcCCCcccHH-HhcCCCCCEEEC
Confidence            7777777777777766533346777777777777766643334777777777777777644445544 677777777777


Q ss_pred             cccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCC-cCCCcc-c-ccCCceEEEEecccccCC--CCCCccccee
Q 040303          236 RSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVN-TLPKGL-F-FEKLERYRICIGRWCWED--TSPTCSRTFR  310 (552)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~-~~p~~~-~-l~~L~~L~l~~~~~~~~~--~~~~~~~~~~  310 (552)
                      +++....           .... ..+++|++|++++|.+. .+|..+ . +++|+.|.+..+......  ..........
T Consensus       255 s~n~l~~-----------~~~~-~~l~~L~~L~L~~n~l~~~ip~~~~~~~~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~  322 (768)
T 3rgz_A          255 SSNQFVG-----------PIPP-LPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLES  322 (768)
T ss_dssp             CSSCCEE-----------SCCC-CCCTTCCEEECCSSEEEESCCCCSCTTCTTCSEEECCSSEEEECCCGGGGGCTTCCE
T ss_pred             CCCcccC-----------ccCc-cccCCCCEEECcCCccCCccCHHHHhhcCcCCEEECcCCcCCCccchHHhcCCCccE
Confidence            6443210           0011 14555566666555533 445444 2 255555555444322110  0111222223


Q ss_pred             eecCccccc-ccchhHHHHhchheeeeecCCCCC-c----------------------ceeeeccccCcccccccEEEee
Q 040303          311 LLLGTDNCI-SFKSGHIVQLQRIEDLCLSGLPDQ-D----------------------IIELVNNKLGSYSSQLKHLWVE  366 (552)
Q Consensus       311 l~l~~~~~~-~~~~~~~~~l~~L~~L~l~~~~~~-~----------------------~~~~~~~~~~~~~~~L~~L~l~  366 (552)
                      +.+..+... ..+......+++|+.|++.++.-. .                      ....+.......+++|++|+++
T Consensus       323 L~L~~n~l~~~ip~~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~~L~~L~Ls~N~l~~~~~~~~~~~~~~~L~~L~L~  402 (768)
T 3rgz_A          323 LALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQ  402 (768)
T ss_dssp             EECCSSEEEEECCHHHHTTCTTCCEEECCSSEEEECCCTTHHHHTTTCSEEECCSSEEEEECCTTTTCSTTCCCCEEECC
T ss_pred             EECCCCcccCcCCHHHHhcCCCCCEEeCcCCccCccccHHHHhhhcCCcEEEccCCCcCCCcChhhhhcccCCccEEECC
Confidence            333322222 223333334455555555444320 0                      1111221111124455555555


Q ss_pred             cCC--CCCCcchhhhhhcccccccceeeeccCCCCCccccccccCCCcccccccceeeeEeccCCCCccccccCcceEEE
Q 040303          367 GCQ--APSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLI  444 (552)
Q Consensus       367 ~c~--~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~  444 (552)
                      +|.  +.+|..+..+++|      +.+...........+...+.+++|+.|++.+|.+.......    .+.+++|++|+
T Consensus       403 ~n~l~~~~p~~l~~l~~L------~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~----~~~l~~L~~L~  472 (768)
T 3rgz_A          403 NNGFTGKIPPTLSNCSEL------VSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQE----LMYVKTLETLI  472 (768)
T ss_dssp             SSEEEEECCGGGGGCTTC------CEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCCSCCCGG----GGGCTTCCEEE
T ss_pred             CCccccccCHHHhcCCCC------CEEECcCCcccCcccHHHhcCCCCCEEECCCCcccCcCCHH----HcCCCCceEEE
Confidence            554  3444444444433      22222211111122334566788888888888665322211    22678899999


Q ss_pred             EecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEEeccccccccccCCcccccCCCccE
Q 040303          445 VYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLET  524 (552)
Q Consensus       445 i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~  524 (552)
                      +.+|.-...+|.  .+..+++|++|++.+|.--..+  +.    ....+++|+.|++++|.-...+|.. + ..+++|+.
T Consensus       473 L~~N~l~~~~p~--~l~~l~~L~~L~L~~N~l~~~~--p~----~~~~l~~L~~L~L~~N~l~~~~p~~-l-~~l~~L~~  542 (768)
T 3rgz_A          473 LDFNDLTGEIPS--GLSNCTNLNWISLSNNRLTGEI--PK----WIGRLENLAILKLSNNSFSGNIPAE-L-GDCRSLIW  542 (768)
T ss_dssp             CCSSCCCSCCCG--GGGGCTTCCEEECCSSCCCSCC--CG----GGGGCTTCCEEECCSSCCEEECCGG-G-GGCTTCCE
T ss_pred             ecCCcccCcCCH--HHhcCCCCCEEEccCCccCCcC--Ch----HHhcCCCCCEEECCCCcccCcCCHH-H-cCCCCCCE
Confidence            988754445554  4788899999999988633333  22    3445899999999999655566543 3 36899999


Q ss_pred             EEeecCCCcchhhccch
Q 040303          525 LEVIRCPEFLLTAHDLT  541 (552)
Q Consensus       525 L~i~~C~~L~~l~~~~~  541 (552)
                      |++++|+--..+|....
T Consensus       543 L~Ls~N~l~g~ip~~~~  559 (768)
T 3rgz_A          543 LDLNTNLFNGTIPAAMF  559 (768)
T ss_dssp             EECCSSEEESBCCGGGG
T ss_pred             EECCCCccCCcCChHHh
Confidence            99999976667775543

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

Probab=99.96  E-value=2.6e-28  Score=260.04  Aligned_cols=369  Identities=12%  Similarity=0.121  Sum_probs=266.5

Q ss_pred             CCCcc-CCCCceEEEeecCCCCCcc-----------------cChhHhh--CCCCccEEEeecccc-ccccchhcCCCCC
Q 040303          102 LPEVL-ECPQLQLLSLWTEKSSLIT-----------------LPDNFFR--KLTQVRVLDLTYMHL-SLLPSSLGLLTNL  160 (552)
Q Consensus       102 ~~~~~-~~~~Lr~L~l~~~~~~~~~-----------------~~~~~~~--~l~~Lr~L~l~~~~~-~~lp~~i~~l~~L  160 (552)
                      +|..+ .+++|++|++++|.... .                 +|..+ +  ++++|++|++++|.+ ..+|..++++++|
T Consensus       198 ip~~l~~l~~L~~L~Ls~n~l~~-~~~~~~~~~~~~~~~~~~ip~~l-~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L  275 (636)
T 4eco_A          198 VSKAVMRLTKLRQFYMGNSPFVA-ENICEAWENENSEYAQQYKTEDL-KWDNLKDLTDVEVYNCPNLTKLPTFLKALPEM  275 (636)
T ss_dssp             ECGGGGGCTTCCEEEEESCCCCG-GGBSSSCSCTTSHHHHHHTTSCC-CGGGCTTCCEEEEECCTTCSSCCTTTTTCSSC
T ss_pred             CCHHHhcccCCCEEECcCCcccc-ccccccccccccchhcccCchhh-hhcccCCCCEEEecCCcCCccChHHHhcCCCC
Confidence            45434 89999999999998663 2                 88876 6  899999999999986 4789999999999


Q ss_pred             cEEEccCCC-CCC---hhhhcCC------CCccEEEecCCcCcccch--hhccCCCCCEEeccCCCCCCccCcccccCCC
Q 040303          161 RTLCLYCSE-LQD---IAVIGEL------KNLEILCLRGSYIEQLPV--EIGQLTRLRSLDLRDCDRLQVIPPNVLSNLS  228 (552)
Q Consensus       161 ~~L~l~~~~-~~~---~~~i~~L------~~L~~L~l~~~~l~~lp~--~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~  228 (552)
                      ++|++++|. +..   |..++++      ++|++|++++|.++.+|.  .++++++|++|++++|...+.+| . ++.++
T Consensus       276 ~~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~~ip~~~~l~~l~~L~~L~L~~N~l~g~ip-~-~~~l~  353 (636)
T 4eco_A          276 QLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLP-A-FGSEI  353 (636)
T ss_dssp             CEEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCSSCCCHHHHTTCTTCCEEECCSCCCEEECC-C-CEEEE
T ss_pred             CEEECcCCCCCccccchHHHHhhhccccCCCCCEEECCCCcCCccCchhhhccCCCCCEEeCcCCcCccchh-h-hCCCC
Confidence            999999998 773   7788877      999999999999999999  89999999999999998444888 4 89999


Q ss_pred             CCcEEEccccccchhhhhhhcccccChhhhcCCCC-CcEEEccCCCCCcCCCccc---ccCCceEEEEecccccCC--CC
Q 040303          229 HLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPN-LTTLELCIPDVNTLPKGLF---FEKLERYRICIGRWCWED--TS  302 (552)
Q Consensus       229 ~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~-L~~L~l~~~~~~~~p~~~~---l~~L~~L~l~~~~~~~~~--~~  302 (552)
                      +|++|+++++...           ..+..+..+++ |+.|++++|.+..+|..+.   +++|+.|.++.+......  ..
T Consensus       354 ~L~~L~L~~N~l~-----------~lp~~l~~l~~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l  422 (636)
T 4eco_A          354 KLASLNLAYNQIT-----------EIPANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNF  422 (636)
T ss_dssp             EESEEECCSSEEE-----------ECCTTSEEECTTCCEEECCSSCCSSCCSCCCTTCSSCEEEEECCSSCTTTTTTCSS
T ss_pred             CCCEEECCCCccc-----------cccHhhhhhcccCcEEEccCCcCcccchhhhhcccCccCEEECcCCcCCCcchhhh
Confidence            9999999855431           35567888999 9999999999989998762   447999998877643221  11


Q ss_pred             C-------CcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcceeeeccccC------cccccccEEEeecCC
Q 040303          303 P-------TCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLG------SYSSQLKHLWVEGCQ  369 (552)
Q Consensus       303 ~-------~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~------~~~~~L~~L~l~~c~  369 (552)
                      .       .......+.+..+.-...+..+...+++|+.|++.++.-.   .++.....      ..+++|+.|++++|.
T Consensus       423 ~~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~~~l~~L~~L~Ls~N~l~---~i~~~~~~~~~~~~~~l~~L~~L~Ls~N~  499 (636)
T 4eco_A          423 DPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLMGNMLT---EIPKNSLKDENENFKNTYLLTSIDLRFNK  499 (636)
T ss_dssp             CTTCSSCCCCCCEEEEECCSSCCCSCCTHHHHTTCCCSEEECCSSCCS---BCCSSSSEETTEECTTGGGCCEEECCSSC
T ss_pred             cccccccccCCCCCEEECcCCccCcCCHHHHccCCCCCEEECCCCCCC---CcCHHHhccccccccccCCccEEECcCCc
Confidence            1       2234445555554444456666666777777777776542   33322111      112377778777776


Q ss_pred             CCCCcchhhhhhcccccccceeeeccCCCCCccccccc--cCCCcccccccceeeeEeccCCCCccccccCcceEEEEec
Q 040303          370 APSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKG--GLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYG  447 (552)
Q Consensus       370 ~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~~--~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~  447 (552)
                                        +..           ++....  .+++|+.|++++|.+..++...     ..+++|++|++++
T Consensus       500 ------------------l~~-----------lp~~~~~~~l~~L~~L~Ls~N~l~~ip~~~-----~~l~~L~~L~Ls~  545 (636)
T 4eco_A          500 ------------------LTK-----------LSDDFRATTLPYLVGIDLSYNSFSKFPTQP-----LNSSTLKGFGIRN  545 (636)
T ss_dssp             ------------------CCB-----------CCGGGSTTTCTTCCEEECCSSCCSSCCCGG-----GGCSSCCEEECCS
T ss_pred             ------------------CCc-----------cChhhhhccCCCcCEEECCCCCCCCcChhh-----hcCCCCCEEECCC
Confidence                              111           112223  7899999999999877643322     2789999999965


Q ss_pred             C------CCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEEeccccccccccCCcc-c----
Q 040303          448 C------GELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDV-H----  516 (552)
Q Consensus       448 C------~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~-~----  516 (552)
                      +      .-...+|.  .+..+++|++|++.+|.- +.++  ..      .+++|+.|++.+++-. ++....+ +    
T Consensus       546 N~~ls~N~l~~~~p~--~l~~l~~L~~L~Ls~N~l-~~ip--~~------~~~~L~~L~Ls~N~l~-~~~~~~~~~~~~~  613 (636)
T 4eco_A          546 QRDAQGNRTLREWPE--GITLCPSLTQLQIGSNDI-RKVN--EK------ITPNISVLDIKDNPNI-SIDLSYVCPYIEA  613 (636)
T ss_dssp             CBCTTCCBCCCCCCT--TGGGCSSCCEEECCSSCC-CBCC--SC------CCTTCCEEECCSCTTC-EEECTTTHHHHHT
T ss_pred             CcccccCcccccChH--HHhcCCCCCEEECCCCcC-CccC--Hh------HhCcCCEEECcCCCCc-cccHHhcchhhhc
Confidence            3      33445654  588899999999999874 6662  22      2489999999999632 3221111 0    


Q ss_pred             --ccCCCccEEEeecCCCcc
Q 040303          517 --IEFPTLETLEVIRCPEFL  534 (552)
Q Consensus       517 --~~~~~L~~L~i~~C~~L~  534 (552)
                        ..+...+..+|.+|+.|.
T Consensus       614 ~~~~l~~~~~~~i~~C~~L~  633 (636)
T 4eco_A          614 GMYMLFYDKTQDIRGCDALD  633 (636)
T ss_dssp             TCCEEECCTTSEEESCGGGC
T ss_pred             ccceeecCCccccCCCcccc
Confidence              123344567899999875

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

Probab=99.96  E-value=6.1e-28  Score=263.14  Aligned_cols=150  Identities=19%  Similarity=0.223  Sum_probs=87.6

Q ss_pred             ccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccc-ccchhcCCCCCcE
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSL-LPSSLGLLTNLRT  162 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~-lp~~i~~l~~L~~  162 (552)
                      ..+++++|++++|.+...+|.+..+++|++|++++|.... .+|.. +.++++|++|++++|.+.. +|..  .+++|++
T Consensus       198 ~l~~L~~L~Ls~n~l~~~~~~l~~l~~L~~L~Ls~n~l~~-~~~~~-l~~l~~L~~L~Ls~n~l~~~~~~~--~l~~L~~  273 (768)
T 3rgz_A          198 RCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSG-DFSRA-ISTCTELKLLNISSNQFVGPIPPL--PLKSLQY  273 (768)
T ss_dssp             TCTTCCEEECCSSCCCSCCCBCTTCCSCCEEECCSSCCCS-CHHHH-TTTCSSCCEEECCSSCCEESCCCC--CCTTCCE
T ss_pred             cCCcCCEEECcCCcCCCCCcccccCCCCCEEECcCCcCCC-cccHH-HhcCCCCCEEECCCCcccCccCcc--ccCCCCE
Confidence            3556666666666666545554466667777776665442 23333 3666666666666665542 2221  4555555


Q ss_pred             EEccCCCCC-C-hhhhcCC-CCccEEEecCCcCc-ccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccc
Q 040303          163 LCLYCSELQ-D-IAVIGEL-KNLEILCLRGSYIE-QLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRS  237 (552)
Q Consensus       163 L~l~~~~~~-~-~~~i~~L-~~L~~L~l~~~~l~-~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~  237 (552)
                      |++++|.+. . |..+.++ ++|++|++++|.+. .+|..++++++|++|++++|...+.+|...++++++|++|++++
T Consensus       274 L~L~~n~l~~~ip~~~~~~~~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~ip~~~l~~l~~L~~L~Ls~  352 (768)
T 3rgz_A          274 LSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSF  352 (768)
T ss_dssp             EECCSSEEEESCCCCSCTTCTTCSEEECCSSEEEECCCGGGGGCTTCCEEECCSSEEEEECCHHHHTTCTTCCEEECCS
T ss_pred             EECcCCccCCccCHHHHhhcCcCCEEECcCCcCCCccchHHhcCCCccEEECCCCcccCcCCHHHHhcCCCCCEEeCcC
Confidence            555555543 2 4455443 66777777777665 56666677777777777766643456655456666666666653

>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=99.96  E-value=1.3e-27  Score=251.43  Aligned_cols=417  Identities=18%  Similarity=0.135  Sum_probs=267.5

Q ss_pred             ccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccch-hcCCCCCc
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS-LGLLTNLR  161 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~-i~~l~~L~  161 (552)
                      ..+++++|++++|.+....+..+ .+++|++|++++|...  .++.+.|.++++|++|++++|.+..+|.. ++++++|+
T Consensus        24 ~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~--~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~  101 (549)
T 2z81_A           24 LTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRIN--TIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLK  101 (549)
T ss_dssp             CCTTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSCCC--EECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCC
T ss_pred             CCCCccEEECcCCccCccChhhhhcCCcccEEECCCCCcC--ccChhhccccccCCEEECCCCccCccCHHHhccCCCCc
Confidence            45789999999999988555444 8999999999999766  66666679999999999999999887765 99999999


Q ss_pred             EEEccCCCCCC---hhhhcCCCCccEEEecCCc-Ccccc-hhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcc
Q 040303          162 TLCLYCSELQD---IAVIGELKNLEILCLRGSY-IEQLP-VEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       162 ~L~l~~~~~~~---~~~i~~L~~L~~L~l~~~~-l~~lp-~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                      +|++++|.+..   |..++++++|++|++++|. +..+| ..+.++++|++|++++|...+..|.. ++.+++|++|++.
T Consensus       102 ~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-l~~l~~L~~L~l~  180 (549)
T 2z81_A          102 YLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQS-LKSIRDIHHLTLH  180 (549)
T ss_dssp             EEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTT-TTTCSEEEEEEEE
T ss_pred             EEECCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhh-hhccccCceEecc
Confidence            99999999874   5789999999999999996 67776 47999999999999998844445655 8999999999997


Q ss_pred             ccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCC---Ccc--cccCCceEEEEeccc---------------
Q 040303          237 SFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLP---KGL--FFEKLERYRICIGRW---------------  296 (552)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p---~~~--~l~~L~~L~l~~~~~---------------  296 (552)
                      .+.....          ....++.+++|+.|++++|.+..++   ..+  .+++|+.|.+..+.+               
T Consensus       181 ~n~~~~~----------~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~~~~~  250 (549)
T 2z81_A          181 LSESAFL----------LEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYI  250 (549)
T ss_dssp             CSBSTTH----------HHHHHHSTTTBSEEEEESCBCTTCCCCCCSSCCCCCCCCEEEEESCEEEHHHHHHHHGGGGGC
T ss_pred             cCccccc----------chhhHhhcccccEEEccCCccccccccccchhhhhhcccceeccccccchhHHHHHHHHhhhh
Confidence            4432111          1122457899999999999876642   121  345555555543321               


Q ss_pred             -------------ccCC----------CCCCccc---------------------------ceeeecCcccccccchhHH
Q 040303          297 -------------CWED----------TSPTCSR---------------------------TFRLLLGTDNCISFKSGHI  326 (552)
Q Consensus       297 -------------~~~~----------~~~~~~~---------------------------~~~l~l~~~~~~~~~~~~~  326 (552)
                                   ....          ...+..+                           ...+.+..+.-...|.++.
T Consensus       251 ~~L~~l~l~~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~i~~~~~~~~l~~~~~~~~~L~~L~l~~n~l~~ip~~~~  330 (549)
T 2z81_A          251 LELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVFLVPCSFS  330 (549)
T ss_dssp             TTCCEEEEESCEEECCSCCCCCTTTCCCCCTTCCEEEEESCBCSCGGGSCCCCHHHHHSTTCCEEEEESSCCCCCCHHHH
T ss_pred             ccccccccccccccccccccccchhhhhhhcccccccccccccchhhhcccchhhhhhcccceEEEeccCccccCCHHHH
Confidence                         1000          0001111                           1111221221122344444


Q ss_pred             HHhchheeeeecCCCCCcceeeec-cccCcccccccEEEeecCC-CCCCc---chhhhhhcccccccceeeeccCCCCCc
Q 040303          327 VQLQRIEDLCLSGLPDQDIIELVN-NKLGSYSSQLKHLWVEGCQ-APSPK---ESKRCKESTSEMRSNEIILEDHVNVPN  401 (552)
Q Consensus       327 ~~l~~L~~L~l~~~~~~~~~~~~~-~~~~~~~~~L~~L~l~~c~-~~lp~---~~~~~~~Li~~c~l~~l~~~~~~~~~~  401 (552)
                      ..+++|+.|+++++.-  ...++. ....+.+++|+.|++++|. ..+|.   .+..+++|      +.+..... ....
T Consensus       331 ~~l~~L~~L~Ls~N~l--~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~l~~L------~~L~Ls~N-~l~~  401 (549)
T 2z81_A          331 QHLKSLEFLDLSENLM--VEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNL------TSLDISRN-TFHP  401 (549)
T ss_dssp             HHCTTCCEEECCSSCC--CHHHHHHHTCTTSSTTCCEEECTTSCCCCHHHHHHHGGGCTTC------CEEECTTC-CCCC
T ss_pred             hcCccccEEEccCCcc--ccccccchhhhhccccCcEEEccCCcccccccchhhhhcCCCC------CEEECCCC-CCcc
Confidence            4566666666666553  111111 1112456677777777665 22221   12222222      22222111 1112


Q ss_pred             cccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhh
Q 040303          402 TFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEII  481 (552)
Q Consensus       402 ~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~  481 (552)
                      ++.....+++|+.|++++|.+..++..       .+++|++|++++| +++.++     ..+++|++|++++| +++.++
T Consensus       402 lp~~~~~~~~L~~L~Ls~N~l~~l~~~-------~~~~L~~L~Ls~N-~l~~~~-----~~l~~L~~L~Ls~N-~l~~ip  467 (549)
T 2z81_A          402 MPDSCQWPEKMRFLNLSSTGIRVVKTC-------IPQTLEVLDVSNN-NLDSFS-----LFLPRLQELYISRN-KLKTLP  467 (549)
T ss_dssp             CCSCCCCCTTCCEEECTTSCCSCCCTT-------SCTTCSEEECCSS-CCSCCC-----CCCTTCCEEECCSS-CCSSCC
T ss_pred             CChhhcccccccEEECCCCCcccccch-------hcCCceEEECCCC-Chhhhc-----ccCChhcEEECCCC-ccCcCC
Confidence            222334566777777777765543221       2357777777775 555543     46789999999987 466553


Q ss_pred             ccccccccccccCCccEEEeccccccccccCCcccccCCCccEEEeecCCCcchhh-ccchhhhh
Q 040303          482 VIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCPEFLLTA-HDLTKEVR  545 (552)
Q Consensus       482 ~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~-~~~~~~~~  545 (552)
                      .       ...+++|+.|+++++ .++.++...+. .+++|+.|+++++|-.-..| ......|.
T Consensus       468 ~-------~~~l~~L~~L~Ls~N-~l~~~~~~~~~-~l~~L~~L~l~~N~~~~~~~~~~~l~~~l  523 (549)
T 2z81_A          468 D-------ASLFPVLLVMKISRN-QLKSVPDGIFD-RLTSLQKIWLHTNPWDCSCPRIDYLSRWL  523 (549)
T ss_dssp             C-------GGGCTTCCEEECCSS-CCCCCCTTGGG-GCTTCCEEECCSSCBCCCHHHHHHHHHHH
T ss_pred             C-------cccCccCCEEecCCC-ccCCcCHHHHh-cCcccCEEEecCCCccCCCccHHHHHHHH
Confidence            2       124889999999997 67777665443 78999999999988655554 23333443

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

Probab=99.96  E-value=2.2e-27  Score=261.35  Aligned_cols=158  Identities=27%  Similarity=0.340  Sum_probs=126.5

Q ss_pred             ccccccCccccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccc-cc
Q 040303           75 NSREWLDEGALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLL-PS  152 (552)
Q Consensus        75 ~~~~~~~~~~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~l-p~  152 (552)
                      +....|.  .++++++|++++|.+....+..+ .+++|++|++++|.... .+++..|.++++|++|++++|.+..+ |.
T Consensus        15 ~L~~vP~--lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~-~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~   91 (844)
T 3j0a_A           15 NLTQVPQ--VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPL-TIDKEAFRNLPNLRILDLGSSKIYFLHPD   91 (844)
T ss_dssp             CSSCCCS--SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCC-EECTTTTSSCTTCCEEECTTCCCCEECTT
T ss_pred             CCCCCCC--CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCcc-ccCHHHhcCCCCCCEEECCCCcCcccCHh
Confidence            3455555  67899999999999988555544 89999999999986543 67666679999999999999999876 88


Q ss_pred             hhcCCCCCcEEEccCCCCCC--hhh--hcCCCCccEEEecCCcCccc--chhhccCCCCCEEeccCCCCCCccCcccccC
Q 040303          153 SLGLLTNLRTLCLYCSELQD--IAV--IGELKNLEILCLRGSYIEQL--PVEIGQLTRLRSLDLRDCDRLQVIPPNVLSN  226 (552)
Q Consensus       153 ~i~~l~~L~~L~l~~~~~~~--~~~--i~~L~~L~~L~l~~~~l~~l--p~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~  226 (552)
                      .++++++|++|++++|.+..  |..  ++++++|++|++++|.+..+  +..++++++|++|++++|......+.. ++.
T Consensus        92 ~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~~~~-l~~  170 (844)
T 3j0a_A           92 AFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHE-LEP  170 (844)
T ss_dssp             SSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCCCSGG-GHH
T ss_pred             HccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCeeCHHH-ccc
Confidence            89999999999999999875  554  99999999999999988865  357999999999999998733333333 454


Q ss_pred             C--CCCcEEEcc
Q 040303          227 L--SHLEELYIR  236 (552)
Q Consensus       227 l--~~L~~L~l~  236 (552)
                      +  ++|+.|+++
T Consensus       171 l~~~~L~~L~L~  182 (844)
T 3j0a_A          171 LQGKTLSFFSLA  182 (844)
T ss_dssp             HHHCSSCCCEEC
T ss_pred             ccCCccceEECC
Confidence            4  556666555

>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=99.96  E-value=8.8e-27  Score=251.54  Aligned_cols=150  Identities=25%  Similarity=0.232  Sum_probs=104.2

Q ss_pred             ccCcccEEEeecCCCcccCCC-ccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCc
Q 040303           84 ALKFYTSIVLHDSKMNVLLPE-VLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLR  161 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~-~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~  161 (552)
                      .++++++|+++++.+....+. +..+++|++|++++|...  .+++..|.++++|++|++++|.+..+|. .++++++|+
T Consensus        23 ~~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~--~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~  100 (680)
T 1ziw_A           23 LPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTIS--KLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLT  100 (680)
T ss_dssp             SCTTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSCCC--CCCTTHHHHCTTCCEEECCSSCCCCCCTTTTTTCTTCS
T ss_pred             cCCCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCccC--ccCHHHHhcccCcCEEECCCCccCccChhhhccCCCCC
Confidence            356788888888887773333 337788888888877654  4555556778888888888888777776 477888888


Q ss_pred             EEEccCCCCCC--hhhhcCCCCccEEEecCCcCccc-chhhccCCCCCEEeccCCCCCCccCccccc--CCCCCcEEEcc
Q 040303          162 TLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQL-PVEIGQLTRLRSLDLRDCDRLQVIPPNVLS--NLSHLEELYIR  236 (552)
Q Consensus       162 ~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~l-p~~i~~l~~L~~L~l~~~~~~~~~~~~~l~--~l~~L~~L~l~  236 (552)
                      +|++++|.+..  +..++++++|++|++++|.+... |..++++++|++|++++|. +..++...++  .+++|++|+++
T Consensus       101 ~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~~~~~~L~~L~L~  179 (680)
T 1ziw_A          101 ELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNK-IQALKSEELDIFANSSLKKLELS  179 (680)
T ss_dssp             EEECCSSCCCCCCSCTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECCSSC-CCCBCHHHHGGGTTCEESEEECT
T ss_pred             EEECCCCccCccChhHccccCCCCEEECCCCcccccCchhhcccccCCEEEccCCc-ccccCHHHhhccccccccEEECC
Confidence            88888887766  35678888888888888877644 4456777778888777765 4444443222  44666666665

>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=99.95  E-value=1.2e-26  Score=247.12  Aligned_cols=188  Identities=19%  Similarity=0.190  Sum_probs=148.6

Q ss_pred             cEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccc-cchhcCCCCCcEEEccC
Q 040303           89 TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLL-PSSLGLLTNLRTLCLYC  167 (552)
Q Consensus        89 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~l-p~~i~~l~~L~~L~l~~  167 (552)
                      ++++..+..+.. +|... -+.+++|++++|...  .+++..|.++++|++|++++|.+..+ |..++++++|++|++++
T Consensus        15 ~~~~c~~~~l~~-iP~~l-~~~l~~L~Ls~n~i~--~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~   90 (606)
T 3t6q_A           15 KTYNCENLGLNE-IPGTL-PNSTECLEFSFNVLP--TIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTA   90 (606)
T ss_dssp             TEEECTTSCCSS-CCTTS-CTTCCEEECTTCCCS--EECTTTSTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTT
T ss_pred             ceEECCCCCccc-CcCCC-CCcCcEEEccCCccC--cCChhHhccCccceEEECCCCccceeChhhccCccccCeeeCCC
Confidence            466777666666 66543 247999999999876  66666679999999999999998865 77899999999999999


Q ss_pred             CCCCC--hhhhcCCCCccEEEecCCcCccc-chhhccCCCCCEEeccCCCCCCccC-cccccCCCCCcEEEccccccchh
Q 040303          168 SELQD--IAVIGELKNLEILCLRGSYIEQL-PVEIGQLTRLRSLDLRDCDRLQVIP-PNVLSNLSHLEELYIRSFNKWEV  243 (552)
Q Consensus       168 ~~~~~--~~~i~~L~~L~~L~l~~~~l~~l-p~~i~~l~~L~~L~l~~~~~~~~~~-~~~l~~l~~L~~L~l~~~~~~~~  243 (552)
                      |.+..  |..++++++|++|++++|.++.+ |..++++++|++|++++|. +..++ +. +..+++|++|+++++..   
T Consensus        91 n~l~~~~~~~~~~l~~L~~L~L~~n~i~~l~~~~~~~l~~L~~L~L~~n~-l~~~~~~~-~~~l~~L~~L~L~~n~l---  165 (606)
T 3t6q_A           91 NPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNH-ISSIKLPK-GFPTEKLKVLDFQNNAI---  165 (606)
T ss_dssp             CCCSEECTTTTSSCTTCCEEECTTSCCSCGGGSCCTTCTTCCEEECCSSC-CCCCCCCT-TCCCTTCCEEECCSSCC---
T ss_pred             CcccccChhhhcccccccEeeccccCcccCCcchhccCCcccEEECCCCc-ccccCccc-ccCCcccCEEEcccCcc---
Confidence            99876  68899999999999999999987 5678999999999999988 55553 23 45699999999985543   


Q ss_pred             hhhhhcccccChhhhcCCCCCc--EEEccCCCCCcCCCcc-cccCCceEEEE
Q 040303          244 EVEAAGVKNASLEELKRLPNLT--TLELCIPDVNTLPKGL-FFEKLERYRIC  292 (552)
Q Consensus       244 ~~~~~~~~~~~~~~l~~l~~L~--~L~l~~~~~~~~p~~~-~l~~L~~L~l~  292 (552)
                             .......++.+++|+  .|++++|.+..++... ....|+.|.+.
T Consensus       166 -------~~~~~~~~~~l~~L~~l~L~l~~n~l~~~~~~~~~~~~L~~L~l~  210 (606)
T 3t6q_A          166 -------HYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFG  210 (606)
T ss_dssp             -------CEECHHHHHTTTTCCSEEEECTTCCCCEECTTTTTTCEEEEEECT
T ss_pred             -------cccChhhhhhhcccceeEEecCCCccCccChhHhhhccccccccC
Confidence                   122456688889999  8999999877766553 44555555543

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

Probab=99.95  E-value=1.1e-26  Score=238.84  Aligned_cols=342  Identities=20%  Similarity=0.253  Sum_probs=244.4

Q ss_pred             ccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEE
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTL  163 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L  163 (552)
                      ..+++++|++.++.+.. ++....+++|++|++++|...  .++.  +.++++|++|++++|.+..++. ++++++|++|
T Consensus        44 ~l~~l~~L~l~~~~i~~-l~~~~~l~~L~~L~Ls~n~l~--~~~~--~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L  117 (466)
T 1o6v_A           44 DLDQVTTLQADRLGIKS-IDGVEYLNNLTQINFSNNQLT--DITP--LKNLTKLVDILMNNNQIADITP-LANLTNLTGL  117 (466)
T ss_dssp             HHHTCCEEECCSSCCCC-CTTGGGCTTCCEEECCSSCCC--CCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEE
T ss_pred             HhccccEEecCCCCCcc-CcchhhhcCCCEEECCCCccC--Cchh--hhccccCCEEECCCCccccChh-hcCCCCCCEE
Confidence            46789999999998887 777778999999999998765  5665  5899999999999999988877 9999999999


Q ss_pred             EccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchh
Q 040303          164 CLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEV  243 (552)
Q Consensus       164 ~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  243 (552)
                      ++++|.+.....+.++++|++|++++|.+..+| .++++++|++|++.++  ...++.  ++++++|++|+++++...  
T Consensus       118 ~L~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~-~~~~l~~L~~L~l~~~--~~~~~~--~~~l~~L~~L~l~~n~l~--  190 (466)
T 1o6v_A          118 TLFNNQITDIDPLKNLTNLNRLELSSNTISDIS-ALSGLTSLQQLSFGNQ--VTDLKP--LANLTTLERLDISSNKVS--  190 (466)
T ss_dssp             ECCSSCCCCCGGGTTCTTCSEEEEEEEEECCCG-GGTTCTTCSEEEEEES--CCCCGG--GTTCTTCCEEECCSSCCC--
T ss_pred             ECCCCCCCCChHHcCCCCCCEEECCCCccCCCh-hhccCCcccEeecCCc--ccCchh--hccCCCCCEEECcCCcCC--
Confidence            999999888445999999999999999988886 5899999999999742  455554  789999999999855431  


Q ss_pred             hhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcccccccch
Q 040303          244 EVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKS  323 (552)
Q Consensus       244 ~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~  323 (552)
                                ....+..+++|+.|++++|.+..++....+++|+.|.+..+.....                        
T Consensus       191 ----------~~~~l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~------------------------  236 (466)
T 1o6v_A          191 ----------DISVLAKLTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDI------------------------  236 (466)
T ss_dssp             ----------CCGGGGGCTTCSEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCC------------------------
T ss_pred             ----------CChhhccCCCCCEEEecCCcccccccccccCCCCEEECCCCCcccc------------------------
Confidence                      2345888999999999999877766544678888888765431110                        


Q ss_pred             hHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC-CCCCcchhhhhhcccccccceeeeccCCCCCcc
Q 040303          324 GHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ-APSPKESKRCKESTSEMRSNEIILEDHVNVPNT  402 (552)
Q Consensus       324 ~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~-~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~  402 (552)
                      .....+++|+.|++.++.-   ...++   ...+++|++|++++|. ..+|.                            
T Consensus       237 ~~l~~l~~L~~L~l~~n~l---~~~~~---~~~l~~L~~L~l~~n~l~~~~~----------------------------  282 (466)
T 1o6v_A          237 GTLASLTNLTDLDLANNQI---SNLAP---LSGLTKLTELKLGANQISNISP----------------------------  282 (466)
T ss_dssp             GGGGGCTTCSEEECCSSCC---CCCGG---GTTCTTCSEEECCSSCCCCCGG----------------------------
T ss_pred             hhhhcCCCCCEEECCCCcc---ccchh---hhcCCCCCEEECCCCccCcccc----------------------------
Confidence            1122467888888887664   22222   3567888888888876 11111                            


Q ss_pred             ccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhc
Q 040303          403 FFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIV  482 (552)
Q Consensus       403 ~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~  482 (552)
                         ...+++|+.|++++|.+..+..  .    +.+++|+.|++.+| .+..+++   +..+++|++|++.+|. ++.+. 
T Consensus       283 ---~~~l~~L~~L~L~~n~l~~~~~--~----~~l~~L~~L~L~~n-~l~~~~~---~~~l~~L~~L~l~~n~-l~~~~-  347 (466)
T 1o6v_A          283 ---LAGLTALTNLELNENQLEDISP--I----SNLKNLTYLTLYFN-NISDISP---VSSLTKLQRLFFYNNK-VSDVS-  347 (466)
T ss_dssp             ---GTTCTTCSEEECCSSCCSCCGG--G----GGCTTCSEEECCSS-CCSCCGG---GGGCTTCCEEECCSSC-CCCCG-
T ss_pred             ---ccCCCccCeEEcCCCcccCchh--h----cCCCCCCEEECcCC-cCCCchh---hccCccCCEeECCCCc-cCCch-
Confidence               2456677777777776554322  1    15677777777775 4555543   5567777777777763 43331 


Q ss_pred             cccccccccccCCccEEEeccccccccccCCcccccCCCccEEEeecCC
Q 040303          483 IDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCP  531 (552)
Q Consensus       483 ~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  531 (552)
                            ....+++|+.|++.+|. +..++.  + ..+++|+.|++.+|+
T Consensus       348 ------~l~~l~~L~~L~l~~n~-l~~~~~--~-~~l~~L~~L~l~~n~  386 (466)
T 1o6v_A          348 ------SLANLTNINWLSAGHNQ-ISDLTP--L-ANLTRITQLGLNDQA  386 (466)
T ss_dssp             ------GGTTCTTCCEEECCSSC-CCBCGG--G-TTCTTCCEEECCCEE
T ss_pred             ------hhccCCCCCEEeCCCCc-cCccch--h-hcCCCCCEEeccCCc
Confidence                  23346777777777763 333332  1 256777777777663

>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=99.95  E-value=2.5e-26  Score=247.96  Aligned_cols=152  Identities=24%  Similarity=0.295  Sum_probs=123.5

Q ss_pred             cccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccccc-chhcCCCCC
Q 040303           83 GALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLP-SSLGLLTNL  160 (552)
Q Consensus        83 ~~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp-~~i~~l~~L  160 (552)
                      ...+++++|+++++.+....+..+ .+++|++|++++|...  .+|...|.++++|++|++++|.+..+| ..++++++|
T Consensus        46 ~~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           46 TRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELS--QLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNL  123 (680)
T ss_dssp             GGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSCCC--CCCTTTTTTCTTCSEEECCSSCCCCCCSCTTTTCTTC
T ss_pred             hCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCCccC--ccChhhhccCCCCCEEECCCCccCccChhHccccCCC
Confidence            356789999999999888555554 8999999999998765  788776789999999999999988776 578999999


Q ss_pred             cEEEccCCCCCC--hhhhcCCCCccEEEecCCcCcccchh-h--ccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEc
Q 040303          161 RTLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQLPVE-I--GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYI  235 (552)
Q Consensus       161 ~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~~-i--~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l  235 (552)
                      ++|++++|.+..  +..++++++|++|++++|.++.++.. +  ..+++|++|++++|. +..+++..++.+++|+.|++
T Consensus       124 ~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~l  202 (680)
T 1ziw_A          124 ITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQ-IKEFSPGCFHAIGRLFGLFL  202 (680)
T ss_dssp             CEEECCSSCCSCCCCCSSSCCTTCCEEECCSSCCCCBCHHHHGGGTTCEESEEECTTCC-CCCBCTTGGGGSSEECEEEC
T ss_pred             CEEECCCCcccccCchhhcccccCCEEEccCCcccccCHHHhhccccccccEEECCCCc-ccccChhhhhhhhhhhhhhc
Confidence            999999998776  57788999999999999988877654 3  356899999999986 56665554777777777776


Q ss_pred             cc
Q 040303          236 RS  237 (552)
Q Consensus       236 ~~  237 (552)
                      .+
T Consensus       203 ~~  204 (680)
T 1ziw_A          203 NN  204 (680)
T ss_dssp             TT
T ss_pred             cc
Confidence            53

>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=99.95  E-value=2.3e-26  Score=240.26  Aligned_cols=407  Identities=16%  Similarity=0.132  Sum_probs=247.6

Q ss_pred             cCcccEEEeecCCCcccCCC-ccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEE
Q 040303           85 LKFYTSIVLHDSKMNVLLPE-VLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTL  163 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~~~~-~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L  163 (552)
                      .+++++|++++|.+....+. +..+++|++|++++|...  .+++..|.++++|++|++++|.++.+|..  .+++|++|
T Consensus        20 ~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~--~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L~~L   95 (520)
T 2z7x_B           20 SQKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQ--YLDISVFKFNQELEYLDLSHNKLVKISCH--PTVNLKHL   95 (520)
T ss_dssp             CTTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSCCC--EEEGGGGTTCTTCCEEECCSSCCCEEECC--CCCCCSEE
T ss_pred             cccccEEECCCCcccccChhhccccccccEEecCCCccC--CcChHHhhcccCCCEEecCCCceeecCcc--ccCCccEE
Confidence            36778888887777763332 337778888888877655  45444457778888888888877777766  77788888


Q ss_pred             EccCCCCCC---hhhhcCCCCccEEEecCCcCcccchhhccCCCC--CEEeccCCCC--CCccCcccccC----------
Q 040303          164 CLYCSELQD---IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRL--RSLDLRDCDR--LQVIPPNVLSN----------  226 (552)
Q Consensus       164 ~l~~~~~~~---~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L--~~L~l~~~~~--~~~~~~~~l~~----------  226 (552)
                      ++++|.+..   |..++++++|++|++++|.+..  ..+..+++|  ++|++++|..  ....|.. ++.          
T Consensus        96 ~L~~N~l~~~~~p~~~~~l~~L~~L~L~~n~l~~--~~~~~l~~L~L~~L~l~~n~l~~~~~~~~~-l~~l~~~~l~l~l  172 (520)
T 2z7x_B           96 DLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEK--SSVLPIAHLNISKVLLVLGETYGEKEDPEG-LQDFNTESLHIVF  172 (520)
T ss_dssp             ECCSSCCSSCCCCGGGGGCTTCCEEEEEESSCCG--GGGGGGTTSCEEEEEEEECTTTTSSCCTTT-TTTCCEEEEEEEC
T ss_pred             eccCCccccccchhhhccCCcceEEEecCcccch--hhccccccceeeEEEeeccccccccccccc-ccccccceEEEEe
Confidence            888877654   4677788888888888777665  345666666  8888877764  3444443 444          


Q ss_pred             ----------------CCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCc-----CCCcccccC
Q 040303          227 ----------------LSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNT-----LPKGLFFEK  285 (552)
Q Consensus       227 ----------------l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~-----~p~~~~l~~  285 (552)
                                      +++|+.|+++++.....    ..........++.+++|+.|+++.+.+..     ++.....++
T Consensus       173 ~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~----~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~~~~~~~~~  248 (520)
T 2z7x_B          173 PTNKEFHFILDVSVKTVANLELSNIKCVLEDNK----CSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTT  248 (520)
T ss_dssp             CSSSCCCCCCCCCCTTCSEEEECCEEECCSTTT----THHHHHHHHGGGGCTTCCEEEEEEEEEEHHHHHHHHHHHHTSS
T ss_pred             ccCcchhhhhhhhhhcccceeeccccccccccc----cceeecchhhhccccchhhccccccccCHHHHHHHHHHhhhCc
Confidence                            33444444442210000    00000122356666777777766554221     111123457


Q ss_pred             CceEEEEecccccCC--CC-----CCcccceeeecCcccccccc-hhHHHHh--chheeeeecCCCCCcceeeeccccCc
Q 040303          286 LERYRICIGRWCWED--TS-----PTCSRTFRLLLGTDNCISFK-SGHIVQL--QRIEDLCLSGLPDQDIIELVNNKLGS  355 (552)
Q Consensus       286 L~~L~l~~~~~~~~~--~~-----~~~~~~~~l~l~~~~~~~~~-~~~~~~l--~~L~~L~l~~~~~~~~~~~~~~~~~~  355 (552)
                      |+.|.++.+......  ..     ........+.+..+. +..| .++...+  .+|+.|++.++.-   ....   ...
T Consensus       249 L~~L~l~~n~l~~~~p~~~~~~~~~~l~~L~~l~l~~n~-~~~p~~~~~~~~~~~~L~~L~l~~n~l---~~~~---~~~  321 (520)
T 2z7x_B          249 VWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDV-FGFPQSYIYEIFSNMNIKNFTVSGTRM---VHML---CPS  321 (520)
T ss_dssp             CSEEEEEEEEEESCCCCCCCCCCSCCCCEEEEEEEEECC-CCSCTHHHHHHHHTCCCSEEEEESSCC---CCCC---CCS
T ss_pred             ccEEEeecccccCccccchhhcccccCceeEeccccccc-eecchhhhhcccccCceeEEEcCCCcc---cccc---chh
Confidence            777777766533110  01     112222222222221 1334 2222222  4589999988764   2221   124


Q ss_pred             ccccccEEEeecCC--CCCCcchhhhhhc----ccccccceeeeccCCCCCccccccccCCCcccccccceeeeE-eccC
Q 040303          356 YSSQLKHLWVEGCQ--APSPKESKRCKES----TSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVER-IWKS  428 (552)
Q Consensus       356 ~~~~L~~L~l~~c~--~~lp~~~~~~~~L----i~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~-~~~~  428 (552)
                      .+++|++|++++|.  +..|..+..+++|    ++.+.+..+.        .++...+.+++|+.|++++|.+.. ++..
T Consensus       322 ~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~--------~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~  393 (520)
T 2z7x_B          322 KISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELS--------KIAEMTTQMKSLQQLDISQNSVSYDEKKG  393 (520)
T ss_dssp             SCCCCCEEECCSSCCCTTTTTTCCCCSSCCEEECCSSCCCBHH--------HHHHHHTTCTTCCEEECCSSCCBCCGGGC
T ss_pred             hCCcccEEEeECCccChhhhhhhccCCCCCEEEccCCccCccc--------cchHHHhhCCCCCEEECCCCcCCcccccc
Confidence            78899999999987  3456555555544    3333333221        122335678999999999998776 5543


Q ss_pred             CCCccccccCcceEEEEecCCCccccccchhHhhh-cccceEEEecCCchhhhhccccccccccccCCccEEEecccccc
Q 040303          429 QLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSF-IRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKL  507 (552)
Q Consensus       429 ~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l-~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L  507 (552)
                      ...    .+++|++|++++|.--..+|.     .+ ++|++|++++|. ++.++  .    ....+++|+.|++.++ .+
T Consensus       394 ~~~----~l~~L~~L~Ls~N~l~~~~~~-----~l~~~L~~L~Ls~N~-l~~ip--~----~~~~l~~L~~L~L~~N-~l  456 (520)
T 2z7x_B          394 DCS----WTKSLLSLNMSSNILTDTIFR-----CLPPRIKVLDLHSNK-IKSIP--K----QVVKLEALQELNVASN-QL  456 (520)
T ss_dssp             SCC----CCTTCCEEECCSSCCCGGGGG-----SCCTTCCEEECCSSC-CCCCC--G----GGGGCTTCCEEECCSS-CC
T ss_pred             hhc----cCccCCEEECcCCCCCcchhh-----hhcccCCEEECCCCc-ccccc--h----hhhcCCCCCEEECCCC-cC
Confidence            333    679999999999753344433     22 799999999984 65552  2    2335999999999998 78


Q ss_pred             ccccCCcccccCCCccEEEeecCCCcch
Q 040303          508 TSFCTGDVHIEFPTLETLEVIRCPEFLL  535 (552)
Q Consensus       508 ~~~~~~~~~~~~~~L~~L~i~~C~~L~~  535 (552)
                      +.++...+ ..+++|++|+++++|---.
T Consensus       457 ~~l~~~~~-~~l~~L~~L~l~~N~~~c~  483 (520)
T 2z7x_B          457 KSVPDGIF-DRLTSLQKIWLHTNPWDCS  483 (520)
T ss_dssp             CCCCTTTT-TTCTTCCEEECCSSCBCCC
T ss_pred             CccCHHHh-ccCCcccEEECcCCCCccc
Confidence            88877634 3789999999999875433

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

Probab=99.95  E-value=2.5e-26  Score=242.93  Aligned_cols=411  Identities=18%  Similarity=0.175  Sum_probs=248.8

Q ss_pred             cEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccccc-chhcCCCCCcEEEccC
Q 040303           89 TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLP-SSLGLLTNLRTLCLYC  167 (552)
Q Consensus        89 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp-~~i~~l~~L~~L~l~~  167 (552)
                      ++++.++..+.. +|... .+.+++|++++|...  .++...|.++++|++|++++|.+..++ ..++++++|++|++++
T Consensus        10 ~~~~c~~~~l~~-ip~~l-~~~l~~L~Ls~n~l~--~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~   85 (570)
T 2z63_A           10 ITYQCMELNFYK-IPDNL-PFSTKNLDLSFNPLR--HLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTG   85 (570)
T ss_dssp             TEEECCSSCCSS-CCSSS-CSSCCEEECCSCCCC--EECTTTTTTCSSCCEEECTTCCCCEECTTTTTTCTTCCEEECTT
T ss_pred             cEEEeCCCCccc-cCCCc-cccccEEEccCCccC--ccChhHhhCCCCceEEECCCCcCCccCcccccCchhCCEEeCcC
Confidence            445555555555 66533 367999999998766  666666799999999999999998775 5689999999999999


Q ss_pred             CCCCC--hhhhcCCCCccEEEecCCcCcccch-hhccCCCCCEEeccCCCCCC-ccCcccccCCCCCcEEEccccccchh
Q 040303          168 SELQD--IAVIGELKNLEILCLRGSYIEQLPV-EIGQLTRLRSLDLRDCDRLQ-VIPPNVLSNLSHLEELYIRSFNKWEV  243 (552)
Q Consensus       168 ~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~-~i~~l~~L~~L~l~~~~~~~-~~~~~~l~~l~~L~~L~l~~~~~~~~  243 (552)
                      |.+..  +..++++++|++|++++|.++.+|. .++++++|++|++++|.... .+|.. ++++++|++|+++++.... 
T Consensus        86 n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~-~~~l~~L~~L~l~~n~l~~-  163 (570)
T 2z63_A           86 NPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEY-FSNLTNLEHLDLSSNKIQS-  163 (570)
T ss_dssp             CCCCEECTTTTTTCTTCCEEECTTSCCCCSTTCSCTTCTTCCEEECCSSCCCCCCCCGG-GGGCTTCCEEECTTSCCCE-
T ss_pred             CcCCccCHhhhcCccccccccccccccccCCCccccccccccEEecCCCccceecChhh-hcccCCCCEEeCcCCccce-
Confidence            99887  5789999999999999999998876 58999999999999987333 36776 8999999999998554311 


Q ss_pred             hhhhhcccccChhhhcCCCCC----cEEEccCCCCCcCCCcc-cccCCceEEEEecc-----------------------
Q 040303          244 EVEAAGVKNASLEELKRLPNL----TTLELCIPDVNTLPKGL-FFEKLERYRICIGR-----------------------  295 (552)
Q Consensus       244 ~~~~~~~~~~~~~~l~~l~~L----~~L~l~~~~~~~~p~~~-~l~~L~~L~l~~~~-----------------------  295 (552)
                               .....++.+.+|    +.|++++|.+..++... ...+|+.|.+..+.                       
T Consensus       164 ---------~~~~~~~~l~~L~~~~~~L~l~~n~l~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~l~~l~~~~l~~  234 (570)
T 2z63_A          164 ---------IYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVL  234 (570)
T ss_dssp             ---------ECGGGGHHHHTCTTCCCEEECTTCCCCEECTTTTTTCEEEEEEEESCCSCTTHHHHHHHTTTTCEEEEEEE
T ss_pred             ---------ecHHHccchhccchhhhhcccCCCCceecCHHHhccCcceeEecccccccccchhhhhcCccccceeeecc
Confidence                     122334444444    56777776655544432 22244444443320                       


Q ss_pred             -----------------------------------cccC--CCCCCcccceeeecCcccccccchhHHHHhchheeeeec
Q 040303          296 -----------------------------------WCWE--DTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLS  338 (552)
Q Consensus       296 -----------------------------------~~~~--~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~  338 (552)
                                                         +...  ...........+.+..+.....+.++. .+ +|+.|++.
T Consensus       235 ~~~~~~~~l~~~~~~~~~~l~~l~l~~l~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~l~~l~~~~~-~~-~L~~L~l~  312 (570)
T 2z63_A          235 GEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSY-NF-GWQHLELV  312 (570)
T ss_dssp             EECCCCSSCEECCTTTTGGGGGSEEEEEEEEETTEEESCSTTTTGGGTTCSEEEEESCEECSCCBCCS-CC-CCSEEEEE
T ss_pred             ccccCchhhhhcchhhhccccccchhhhhhhcchhhhhhchhhhcCcCcccEEEecCccchhhhhhhc-cC-CccEEeec
Confidence                                               0000  000001111122222211112222221 22 56666665


Q ss_pred             CCCCCcceeeeccccCcccccccEEEeecCCCCCCcchhhhhhc----ccccc----------------cceeeeccCCC
Q 040303          339 GLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKES----TSEMR----------------SNEIILEDHVN  398 (552)
Q Consensus       339 ~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~L----i~~c~----------------l~~l~~~~~~~  398 (552)
                      ++...   .++.    ..+++|++|++.++..........+++|    ++.+.                ++.+..... .
T Consensus       313 ~n~~~---~l~~----~~l~~L~~L~l~~n~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~l~~n-~  384 (570)
T 2z63_A          313 NCKFG---QFPT----LKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFN-G  384 (570)
T ss_dssp             SCBCS---SCCB----CBCSSCCEEEEESCBSCCBCCCCBCTTCCEEECCSSCCBEEEEEEHHHHTCSCCCEEECCSC-S
T ss_pred             cCccc---ccCc----ccccccCEEeCcCCccccccccccCCCCCEEeCcCCccCccccccccccccCccCEEECCCC-c
Confidence            55432   2211    2344455555544441100000111111    11111                222221111 0


Q ss_pred             CCccccccccCCCcccccccceeeeEecc-CCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCch
Q 040303          399 VPNTFFLKGGLPNLETLELYNVNVERIWK-SQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPIL  477 (552)
Q Consensus       399 ~~~~~~~~~~~~~L~~L~l~~~~l~~~~~-~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l  477 (552)
                      ..........+++|+.|++.++.+..... ...    ..+++|++|++.+|. +...++ ..+..+++|++|++.+|.--
T Consensus       385 l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~----~~l~~L~~L~l~~n~-l~~~~~-~~~~~l~~L~~L~l~~n~l~  458 (570)
T 2z63_A          385 VITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVF----LSLRNLIYLDISHTH-TRVAFN-GIFNGLSSLEVLKMAGNSFQ  458 (570)
T ss_dssp             EEEEEEEEETCTTCCEEECTTSEEESCTTSCTT----TTCTTCCEEECTTSC-CEECCT-TTTTTCTTCCEEECTTCEEG
T ss_pred             cccccccccccCCCCEEEccCCccccccchhhh----hcCCCCCEEeCcCCc-ccccch-hhhhcCCcCcEEECcCCcCc
Confidence            11111224567888888888887665432 112    278899999999874 444333 25778899999999998632


Q ss_pred             h-hhhccccccccccccCCccEEEeccccccccccCCcccccCCCccEEEeecCCCcchhhcc
Q 040303          478 E-EIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCPEFLLTAHD  539 (552)
Q Consensus       478 ~-~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~  539 (552)
                      . .+  +.    ....+++|+.|++.+| .++.+....+. .+++|++|++++| +++.+|.+
T Consensus       459 ~~~~--p~----~~~~l~~L~~L~l~~n-~l~~~~~~~~~-~l~~L~~L~l~~n-~l~~~~~~  512 (570)
T 2z63_A          459 ENFL--PD----IFTELRNLTFLDLSQC-QLEQLSPTAFN-SLSSLQVLNMASN-QLKSVPDG  512 (570)
T ss_dssp             GGEE--CS----CCTTCTTCCEEECTTS-CCCEECTTTTT-TCTTCCEEECCSS-CCSCCCTT
T ss_pred             cccc--hh----hhhcccCCCEEECCCC-ccccCChhhhh-cccCCCEEeCCCC-cCCCCCHH
Confidence            1 22  22    3445899999999998 56666444443 6899999999998 56666543

>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=99.95  E-value=9.2e-26  Score=231.64  Aligned_cols=365  Identities=19%  Similarity=0.200  Sum_probs=218.1

Q ss_pred             ccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccc-cchhcCCCCCc
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLL-PSSLGLLTNLR  161 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~l-p~~i~~l~~L~  161 (552)
                      .++++++|++++|.+....+..+ .+++|++|++++|.... .++...|.++++|++|++++|.+..+ |..++++++|+
T Consensus        28 l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~~~~-~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~  106 (455)
T 3v47_A           28 LPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGL-VIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLE  106 (455)
T ss_dssp             CCTTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCCSTTC-EECTTTTTTCTTCCEEECTTCTTCEECTTTTTTCTTCC
T ss_pred             CCCccCEEEecCCccCcCChhHhccCccccEEECcCCcccc-eECcccccccccCCEEeCCCCccCccChhhccCcccCC
Confidence            45778888888888877445444 78888888888876543 56555568888888888888887765 66788888888


Q ss_pred             EEEccCCCCCC--hhh--hcCCCCccEEEecCCcCccc-chh-hccCCCCCEEeccCCCCCCccCcccccCC--CCCcEE
Q 040303          162 TLCLYCSELQD--IAV--IGELKNLEILCLRGSYIEQL-PVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNL--SHLEEL  233 (552)
Q Consensus       162 ~L~l~~~~~~~--~~~--i~~L~~L~~L~l~~~~l~~l-p~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l--~~L~~L  233 (552)
                      +|++++|.+..  +..  +.++++|++|++++|.+..+ |.. +.++++|++|++++|. +..+++..+..+  .+|+.|
T Consensus       107 ~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~l~~l~~~~L~~L  185 (455)
T 3v47_A          107 VLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNK-VKSICEEDLLNFQGKHFTLL  185 (455)
T ss_dssp             EEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCC-BSCCCTTTSGGGTTCEEEEE
T ss_pred             EEeCCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCc-ccccChhhhhcccccccccc
Confidence            88888888776  444  78888888888888887765 444 7788888888888877 444433335554  577777


Q ss_pred             EccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCc-CCCcc-cccCCceEEEEecccccCCCCCCcccceee
Q 040303          234 YIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNT-LPKGL-FFEKLERYRICIGRWCWEDTSPTCSRTFRL  311 (552)
Q Consensus       234 ~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~-~p~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l  311 (552)
                      ++.++.......  ..........+..+++|+.|++++|.+.. .|..+ ..                            
T Consensus       186 ~l~~n~l~~~~~--~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~----------------------------  235 (455)
T 3v47_A          186 RLSSITLQDMNE--YWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDA----------------------------  235 (455)
T ss_dssp             ECTTCBCTTCST--TCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHHHH----------------------------
T ss_pred             ccccCcccccch--hhccccccccccccceeeeEecCCCcccccchhhhhcc----------------------------
Confidence            776433211000  00000001123355677778887776432 22111 00                            


Q ss_pred             ecCcccccccchhHHHHhchheeeeecCCCCCc-------ceeeec-cccCcccccccEEEeecCCCCCCcchhhhhhcc
Q 040303          312 LLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQD-------IIELVN-NKLGSYSSQLKHLWVEGCQAPSPKESKRCKEST  383 (552)
Q Consensus       312 ~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~-------~~~~~~-~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li  383 (552)
                                     ....+|+.|.+.++....       +..... .+..-..++|+.|++++|.              
T Consensus       236 ---------------~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~--------------  286 (455)
T 3v47_A          236 ---------------IAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSK--------------  286 (455)
T ss_dssp             ---------------TTTCCEEEEECTTCTTTSCCTTCCSSCCCCTTTTGGGTTSCCCEEECCSSC--------------
T ss_pred             ---------------ccccceeeEeeccccccccccchhhhccCcccccccccccCceEEEecCcc--------------
Confidence                           001333344433321100       000000 0001123577777777765              


Q ss_pred             cccccceeeeccCCCCCccccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhh
Q 040303          384 SEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSF  463 (552)
Q Consensus       384 ~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l  463 (552)
                          +..+.          ....+.+++|+.|++++|.+..+......    .+++|++|++++| .++.+++ ..+..+
T Consensus       287 ----l~~~~----------~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~----~l~~L~~L~Ls~N-~l~~~~~-~~~~~l  346 (455)
T 3v47_A          287 ----IFALL----------KSVFSHFTDLEQLTLAQNEINKIDDNAFW----GLTHLLKLNLSQN-FLGSIDS-RMFENL  346 (455)
T ss_dssp             ----CCEEC----------TTTTTTCTTCCEEECTTSCCCEECTTTTT----TCTTCCEEECCSS-CCCEECG-GGGTTC
T ss_pred             ----ccccc----------hhhcccCCCCCEEECCCCcccccChhHhc----CcccCCEEECCCC-ccCCcCh-hHhcCc
Confidence                11110          11224577788888888776665443333    6778888888775 5566644 246777


Q ss_pred             cccceEEEecCCchhhhhccccccccccccCCccEEEeccccccccccCCcccccCCCccEEEeecCCCcchhh
Q 040303          464 IRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCPEFLLTA  537 (552)
Q Consensus       464 ~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~  537 (552)
                      ++|++|++.+|. ++.+. ++    ....+++|++|++.++ .++.++...+ ..+++|++|++++++---..|
T Consensus       347 ~~L~~L~Ls~N~-l~~~~-~~----~~~~l~~L~~L~L~~N-~l~~~~~~~~-~~l~~L~~L~l~~N~l~~~~~  412 (455)
T 3v47_A          347 DKLEVLDLSYNH-IRALG-DQ----SFLGLPNLKELALDTN-QLKSVPDGIF-DRLTSLQKIWLHTNPWDCSCP  412 (455)
T ss_dssp             TTCCEEECCSSC-CCEEC-TT----TTTTCTTCCEEECCSS-CCSCCCTTTT-TTCTTCCEEECCSSCBCCCTT
T ss_pred             ccCCEEECCCCc-ccccC-hh----hccccccccEEECCCC-ccccCCHhHh-ccCCcccEEEccCCCcccCCC
Confidence            888888888774 33331 11    2334778888888876 5666665443 367788888887665433333

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

Probab=99.94  E-value=4e-26  Score=229.27  Aligned_cols=305  Identities=16%  Similarity=0.162  Sum_probs=209.8

Q ss_pred             cCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEEccCCCCCC--hhhhcCCCCc
Q 040303          106 LECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSELQD--IAVIGELKNL  182 (552)
Q Consensus       106 ~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L  182 (552)
                      ..++++++|++.++...  .+|..+|..+++|++|++++|.+..++. .++.+++|++|++++|.+..  |..++++++|
T Consensus        42 ~~l~~l~~l~l~~~~l~--~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  119 (390)
T 3o6n_A           42 ITLNNQKIVTFKNSTMR--KLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLL  119 (390)
T ss_dssp             GGGCCCSEEEEESCEES--EECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             cccCCceEEEecCCchh--hCChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCC
Confidence            35688888888887644  7888888888999999999988887654 78889999999999988776  4668889999


Q ss_pred             cEEEecCCcCcccchhh-ccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCC
Q 040303          183 EILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRL  261 (552)
Q Consensus       183 ~~L~l~~~~l~~lp~~i-~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l  261 (552)
                      ++|++++|.++.+|..+ .++++|++|++++|. +..+++..++.+++|++|+++++..             ....++.+
T Consensus       120 ~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l-------------~~~~~~~l  185 (390)
T 3o6n_A          120 TVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNN-LERIEDDTFQATTSLQNLQLSSNRL-------------THVDLSLI  185 (390)
T ss_dssp             CEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCBCCTTTTSSCTTCCEEECCSSCC-------------SBCCGGGC
T ss_pred             CEEECCCCccCcCCHHHhcCCCCCcEEECCCCc-cCccChhhccCCCCCCEEECCCCcC-------------Cccccccc
Confidence            99999999888888774 788899999998877 5666655578889999998875443             11236677


Q ss_pred             CCCcEEEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeeecCCC
Q 040303          262 PNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLP  341 (552)
Q Consensus       262 ~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~  341 (552)
                      ++|+.|++++|.+..++.   ..+|+.|.+..+....                      .+..   .+++|+.|++.++.
T Consensus       186 ~~L~~L~l~~n~l~~~~~---~~~L~~L~l~~n~l~~----------------------~~~~---~~~~L~~L~l~~n~  237 (390)
T 3o6n_A          186 PSLFHANVSYNLLSTLAI---PIAVEELDASHNSINV----------------------VRGP---VNVELTILKLQHNN  237 (390)
T ss_dssp             TTCSEEECCSSCCSEEEC---CSSCSEEECCSSCCCE----------------------EECC---CCSSCCEEECCSSC
T ss_pred             cccceeecccccccccCC---CCcceEEECCCCeeee----------------------cccc---ccccccEEECCCCC
Confidence            888888888887654432   2355555554332100                      0000   12567777777665


Q ss_pred             CCcceeeeccccCcccccccEEEeecCCCCCCcchhhhhhcccccccceeeeccCCCCCccccccccCCCccccccccee
Q 040303          342 DQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVN  421 (552)
Q Consensus       342 ~~~~~~~~~~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  421 (552)
                      -...   .   ....+++|++|++++|.                  +..+.          +.....+++|+.|+++++.
T Consensus       238 l~~~---~---~l~~l~~L~~L~Ls~n~------------------l~~~~----------~~~~~~l~~L~~L~L~~n~  283 (390)
T 3o6n_A          238 LTDT---A---WLLNYPGLVEVDLSYNE------------------LEKIM----------YHPFVKMQRLERLYISNNR  283 (390)
T ss_dssp             CCCC---G---GGGGCTTCSEEECCSSC------------------CCEEE----------SGGGTTCSSCCEEECCSSC
T ss_pred             Cccc---H---HHcCCCCccEEECCCCc------------------CCCcC----------hhHccccccCCEEECCCCc
Confidence            4222   1   23467778888777765                  11111          1123567788888888887


Q ss_pred             eeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEEe
Q 040303          422 VERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKM  501 (552)
Q Consensus       422 l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l  501 (552)
                      +..+.....     .+++|++|++++| .+..+|.  .+..+++|++|++.+|. ++.+        ....+++|+.|++
T Consensus       284 l~~~~~~~~-----~l~~L~~L~L~~n-~l~~~~~--~~~~l~~L~~L~L~~N~-i~~~--------~~~~~~~L~~L~l  346 (390)
T 3o6n_A          284 LVALNLYGQ-----PIPTLKVLDLSHN-HLLHVER--NQPQFDRLENLYLDHNS-IVTL--------KLSTHHTLKNLTL  346 (390)
T ss_dssp             CCEEECSSS-----CCTTCCEEECCSS-CCCCCGG--GHHHHTTCSEEECCSSC-CCCC--------CCCTTCCCSEEEC
T ss_pred             CcccCcccC-----CCCCCCEEECCCC-cceecCc--cccccCcCCEEECCCCc-ccee--------CchhhccCCEEEc
Confidence            766543322     6788888888876 6667765  36778888888888775 4443        1334778888888


Q ss_pred             cccc
Q 040303          502 VDLE  505 (552)
Q Consensus       502 ~~c~  505 (552)
                      .+++
T Consensus       347 ~~N~  350 (390)
T 3o6n_A          347 SHND  350 (390)
T ss_dssp             CSSC
T ss_pred             CCCC
Confidence            7764

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

Probab=99.94  E-value=8.9e-26  Score=232.05  Aligned_cols=323  Identities=20%  Similarity=0.218  Sum_probs=252.7

Q ss_pred             CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCChhhhcCCCCccEEE
Q 040303          107 ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILC  186 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~  186 (552)
                      .++++++|.+.++...  .+|.  +..+++|++|++++|.+..+|. ++++++|++|++++|.+.....++++++|++|+
T Consensus        44 ~l~~l~~L~l~~~~i~--~l~~--~~~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~  118 (466)
T 1o6v_A           44 DLDQVTTLQADRLGIK--SIDG--VEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIADITPLANLTNLTGLT  118 (466)
T ss_dssp             HHHTCCEEECCSSCCC--CCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGGGTTCTTCCEEE
T ss_pred             HhccccEEecCCCCCc--cCcc--hhhhcCCCEEECCCCccCCchh-hhccccCCEEECCCCccccChhhcCCCCCCEEE
Confidence            4678999999988765  5664  5789999999999999998887 999999999999999988833399999999999


Q ss_pred             ecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcE
Q 040303          187 LRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTT  266 (552)
Q Consensus       187 l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~  266 (552)
                      +++|.+..+|. +.++++|++|++++|. +..++.  ++.+++|+.|++.+...             ....++.+++|+.
T Consensus       119 L~~n~l~~~~~-~~~l~~L~~L~l~~n~-l~~~~~--~~~l~~L~~L~l~~~~~-------------~~~~~~~l~~L~~  181 (466)
T 1o6v_A          119 LFNNQITDIDP-LKNLTNLNRLELSSNT-ISDISA--LSGLTSLQQLSFGNQVT-------------DLKPLANLTTLER  181 (466)
T ss_dssp             CCSSCCCCCGG-GTTCTTCSEEEEEEEE-ECCCGG--GTTCTTCSEEEEEESCC-------------CCGGGTTCTTCCE
T ss_pred             CCCCCCCCChH-HcCCCCCCEEECCCCc-cCCChh--hccCCcccEeecCCccc-------------CchhhccCCCCCE
Confidence            99999998875 8999999999999987 666764  79999999999863322             3345899999999


Q ss_pred             EEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcce
Q 040303          267 LELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDII  346 (552)
Q Consensus       267 L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~  346 (552)
                      |++++|.+..++....+++|+.|.+..+.....                      +.  ...+++|+.|++.++.-..+ 
T Consensus       182 L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~----------------------~~--~~~l~~L~~L~l~~n~l~~~-  236 (466)
T 1o6v_A          182 LDISSNKVSDISVLAKLTNLESLIATNNQISDI----------------------TP--LGILTNLDELSLNGNQLKDI-  236 (466)
T ss_dssp             EECCSSCCCCCGGGGGCTTCSEEECCSSCCCCC----------------------GG--GGGCTTCCEEECCSSCCCCC-
T ss_pred             EECcCCcCCCChhhccCCCCCEEEecCCccccc----------------------cc--ccccCCCCEEECCCCCcccc-
Confidence            999999988776544788899888765431110                      00  22468899999988765322 


Q ss_pred             eeeccccCcccccccEEEeecCCCCCCcchhhhhhcccccccceeeeccCCCCCccccccccCCCcccccccceeeeEec
Q 040303          347 ELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIW  426 (552)
Q Consensus       347 ~~~~~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~  426 (552)
                        .   ....+++|+.|++++|.                  +..+            .....+++|+.|++++|.+..+.
T Consensus       237 --~---~l~~l~~L~~L~l~~n~------------------l~~~------------~~~~~l~~L~~L~l~~n~l~~~~  281 (466)
T 1o6v_A          237 --G---TLASLTNLTDLDLANNQ------------------ISNL------------APLSGLTKLTELKLGANQISNIS  281 (466)
T ss_dssp             --G---GGGGCTTCSEEECCSSC------------------CCCC------------GGGTTCTTCSEEECCSSCCCCCG
T ss_pred             --h---hhhcCCCCCEEECCCCc------------------cccc------------hhhhcCCCCCEEECCCCccCccc
Confidence              2   23578999999999987                  1111            11357899999999999877654


Q ss_pred             cCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEEeccccc
Q 040303          427 KSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEK  506 (552)
Q Consensus       427 ~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~  506 (552)
                      .  ..    .+++|+.|++.+| .++.+++   +..+++|++|++.+|. ++.+.       ....+++|+.|++.+| .
T Consensus       282 ~--~~----~l~~L~~L~L~~n-~l~~~~~---~~~l~~L~~L~L~~n~-l~~~~-------~~~~l~~L~~L~l~~n-~  342 (466)
T 1o6v_A          282 P--LA----GLTALTNLELNEN-QLEDISP---ISNLKNLTYLTLYFNN-ISDIS-------PVSSLTKLQRLFFYNN-K  342 (466)
T ss_dssp             G--GT----TCTTCSEEECCSS-CCSCCGG---GGGCTTCSEEECCSSC-CSCCG-------GGGGCTTCCEEECCSS-C
T ss_pred             c--cc----CCCccCeEEcCCC-cccCchh---hcCCCCCCEEECcCCc-CCCch-------hhccCccCCEeECCCC-c
Confidence            3  22    7899999999996 6777765   7899999999999985 54442       1345899999999999 5


Q ss_pred             cccccCCcccccCCCccEEEeecCCCc
Q 040303          507 LTSFCTGDVHIEFPTLETLEVIRCPEF  533 (552)
Q Consensus       507 L~~~~~~~~~~~~~~L~~L~i~~C~~L  533 (552)
                      ++.++.  + ..+++|+.|++++|+--
T Consensus       343 l~~~~~--l-~~l~~L~~L~l~~n~l~  366 (466)
T 1o6v_A          343 VSDVSS--L-ANLTNINWLSAGHNQIS  366 (466)
T ss_dssp             CCCCGG--G-TTCTTCCEEECCSSCCC
T ss_pred             cCCchh--h-ccCCCCCEEeCCCCccC
Confidence            666632  2 37899999999998643

>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=99.94  E-value=1.6e-25  Score=221.33  Aligned_cols=101  Identities=28%  Similarity=0.412  Sum_probs=50.4

Q ss_pred             hCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEecc
Q 040303          132 RKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLR  211 (552)
Q Consensus       132 ~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~  211 (552)
                      ..+++|++|++++|.+..+|. +..+++|++|++++|.+..++.+.++++|++|++++|.+..+|. +..+++|++|+++
T Consensus        63 ~~~~~L~~L~l~~n~i~~~~~-~~~l~~L~~L~L~~n~i~~~~~~~~l~~L~~L~l~~n~i~~~~~-~~~l~~L~~L~l~  140 (347)
T 4fmz_A           63 EYLTNLEYLNLNGNQITDISP-LSNLVKLTNLYIGTNKITDISALQNLTNLRELYLNEDNISDISP-LANLTKMYSLNLG  140 (347)
T ss_dssp             GGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEECTTSCCCCCGG-GTTCTTCCEEECT
T ss_pred             hhcCCccEEEccCCccccchh-hhcCCcCCEEEccCCcccCchHHcCCCcCCEEECcCCcccCchh-hccCCceeEEECC
Confidence            445555555555555544444 45555555555555554443345555555555555555554443 4455555555555


Q ss_pred             CCCCCCccCcccccCCCCCcEEEcc
Q 040303          212 DCDRLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       212 ~~~~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                      +|.....++.  ++.+++|++|++.
T Consensus       141 ~n~~~~~~~~--~~~l~~L~~L~l~  163 (347)
T 4fmz_A          141 ANHNLSDLSP--LSNMTGLNYLTVT  163 (347)
T ss_dssp             TCTTCCCCGG--GTTCTTCCEEECC
T ss_pred             CCCCcccccc--hhhCCCCcEEEec
Confidence            5543333332  4555555555554

>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=99.94  E-value=8.8e-26  Score=237.54  Aligned_cols=388  Identities=18%  Similarity=0.128  Sum_probs=252.1

Q ss_pred             cccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccc--ccchhcCCCC
Q 040303           83 GALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSL--LPSSLGLLTN  159 (552)
Q Consensus        83 ~~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~--lp~~i~~l~~  159 (552)
                      ...+++++|++++|.+....+..+ .+++|++|++++|...  .++...|+++++|++|++++|.+..  .|..++++++
T Consensus        47 ~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~--~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~  124 (549)
T 2z81_A           47 RACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLS--SLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTN  124 (549)
T ss_dssp             SSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCC--SCCHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTCTT
T ss_pred             hcCCcccEEECCCCCcCccChhhccccccCCEEECCCCccC--ccCHHHhccCCCCcEEECCCCcccccchhhhhhccCC
Confidence            457889999999999988554444 8999999999999776  7888877999999999999999874  5778999999


Q ss_pred             CcEEEccCCC-CCC-h-hhhcCCCCccEEEecCCcCcc-cchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEc
Q 040303          160 LRTLCLYCSE-LQD-I-AVIGELKNLEILCLRGSYIEQ-LPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYI  235 (552)
Q Consensus       160 L~~L~l~~~~-~~~-~-~~i~~L~~L~~L~l~~~~l~~-lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l  235 (552)
                      |++|++++|. +.. + ..+.++++|++|++++|.+.. .|..++++++|++|+++.+. ...+|...++.+++|+.|++
T Consensus       125 L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~l~~n~-~~~~~~~~~~~l~~L~~L~L  203 (549)
T 2z81_A          125 LQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSE-SAFLLEIFADILSSVRYLEL  203 (549)
T ss_dssp             CCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSB-STTHHHHHHHSTTTBSEEEE
T ss_pred             ccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhhhhccccCceEecccCc-ccccchhhHhhcccccEEEc
Confidence            9999999998 554 3 689999999999999998884 78889999999999999987 56777665578999999999


Q ss_pred             cccccchhhhhh-h--------------------cccccChhhhcCCCCCcEEEccCCCCCcCCCc--------c-----
Q 040303          236 RSFNKWEVEVEA-A--------------------GVKNASLEELKRLPNLTTLELCIPDVNTLPKG--------L-----  281 (552)
Q Consensus       236 ~~~~~~~~~~~~-~--------------------~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~--------~-----  281 (552)
                      +++......... .                    .........+..+++|+.+++++|....++..        -     
T Consensus       204 ~~n~l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~l~~L  283 (549)
T 2z81_A          204 RDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKV  283 (549)
T ss_dssp             ESCBCTTCCCCCCSSCCCCCCCCEEEEESCEEEHHHHHHHHGGGGGCTTCCEEEEESCEEECCSCCCCCTTTCCCCCTTC
T ss_pred             cCCccccccccccchhhhhhcccceeccccccchhHHHHHHHHhhhhccccccccccccccccccccccchhhhhhhccc
Confidence            854321100000 0                    00000001112333444444443321111000        0     


Q ss_pred             ------------------------cccCCceEEEEecccccCCCC--CCcccceeeecCccccccc-c--hhHHHHhchh
Q 040303          282 ------------------------FFEKLERYRICIGRWCWEDTS--PTCSRTFRLLLGTDNCISF-K--SGHIVQLQRI  332 (552)
Q Consensus       282 ------------------------~l~~L~~L~l~~~~~~~~~~~--~~~~~~~~l~l~~~~~~~~-~--~~~~~~l~~L  332 (552)
                                              ..++|+.|.+..+........  ........+.+..+.-... +  ......+++|
T Consensus       284 ~~L~l~~~~i~~~~~~~~l~~~~~~~~~L~~L~l~~n~l~~ip~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~l~~L  363 (549)
T 2z81_A          284 ETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSL  363 (549)
T ss_dssp             CEEEEESCBCSCGGGSCCCCHHHHHSTTCCEEEEESSCCCCCCHHHHHHCTTCCEEECCSSCCCHHHHHHHTCTTSSTTC
T ss_pred             ccccccccccchhhhcccchhhhhhcccceEEEeccCccccCCHHHHhcCccccEEEccCCccccccccchhhhhccccC
Confidence                                    123444455444332111000  0122333444433321111 1  1112346788


Q ss_pred             eeeeecCCCCCcceeeeccccCcccccccEEEeecCC-CCCCcchhhhhhc----ccccccceeeeccCCCCCccccccc
Q 040303          333 EDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ-APSPKESKRCKES----TSEMRSNEIILEDHVNVPNTFFLKG  407 (552)
Q Consensus       333 ~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~-~~lp~~~~~~~~L----i~~c~l~~l~~~~~~~~~~~~~~~~  407 (552)
                      +.|+++++.-..+...  ......+++|++|++++|. ..+|..+..+++|    ++.+.+..+.           .  .
T Consensus       364 ~~L~Ls~N~l~~~~~~--~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~~~~L~~L~Ls~N~l~~l~-----------~--~  428 (549)
T 2z81_A          364 QTLVLSQNHLRSMQKT--GEILLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLNLSSTGIRVVK-----------T--C  428 (549)
T ss_dssp             CEEECTTSCCCCHHHH--HHHGGGCTTCCEEECTTCCCCCCCSCCCCCTTCCEEECTTSCCSCCC-----------T--T
T ss_pred             cEEEccCCcccccccc--hhhhhcCCCCCEEECCCCCCccCChhhcccccccEEECCCCCccccc-----------c--h
Confidence            8888887654222110  0123567888888888887 5566555444443    3333333221           0  1


Q ss_pred             cCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhcccccc
Q 040303          408 GLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQE  487 (552)
Q Consensus       408 ~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~  487 (552)
                      .+++|+.|++++|+++.+.    .    .+++|++|++++| +++.+|.   ...+++|++|++++|. ++.++. +   
T Consensus       429 ~~~~L~~L~Ls~N~l~~~~----~----~l~~L~~L~Ls~N-~l~~ip~---~~~l~~L~~L~Ls~N~-l~~~~~-~---  491 (549)
T 2z81_A          429 IPQTLEVLDVSNNNLDSFS----L----FLPRLQELYISRN-KLKTLPD---ASLFPVLLVMKISRNQ-LKSVPD-G---  491 (549)
T ss_dssp             SCTTCSEEECCSSCCSCCC----C----CCTTCCEEECCSS-CCSSCCC---GGGCTTCCEEECCSSC-CCCCCT-T---
T ss_pred             hcCCceEEECCCCChhhhc----c----cCChhcEEECCCC-ccCcCCC---cccCccCCEEecCCCc-cCCcCH-H---
Confidence            2469999999999876542    1    7899999999996 7888886   4679999999999974 555421 1   


Q ss_pred             ccccccCCccEEEeccccc
Q 040303          488 RKNVVFPQLQFLKMVDLEK  506 (552)
Q Consensus       488 ~~~~~l~~L~~L~l~~c~~  506 (552)
                       ....+++|+.|++.+++-
T Consensus       492 -~~~~l~~L~~L~l~~N~~  509 (549)
T 2z81_A          492 -IFDRLTSLQKIWLHTNPW  509 (549)
T ss_dssp             -GGGGCTTCCEEECCSSCB
T ss_pred             -HHhcCcccCEEEecCCCc
Confidence             244589999999998874

>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=99.94  E-value=1.5e-25  Score=221.44  Aligned_cols=304  Identities=17%  Similarity=0.207  Sum_probs=232.9

Q ss_pred             cccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcE
Q 040303           83 GALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRT  162 (552)
Q Consensus        83 ~~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~  162 (552)
                      ...+++++|+++++.+.. ++....+++|++|++++|...  .++.  +.++++|++|++++|.+..+| .++++++|++
T Consensus        41 ~~l~~L~~L~l~~~~i~~-~~~~~~~~~L~~L~l~~n~i~--~~~~--~~~l~~L~~L~L~~n~i~~~~-~~~~l~~L~~  114 (347)
T 4fmz_A           41 EELESITKLVVAGEKVAS-IQGIEYLTNLEYLNLNGNQIT--DISP--LSNLVKLTNLYIGTNKITDIS-ALQNLTNLRE  114 (347)
T ss_dssp             HHHTTCSEEECCSSCCCC-CTTGGGCTTCCEEECCSSCCC--CCGG--GTTCTTCCEEECCSSCCCCCG-GGTTCTTCSE
T ss_pred             hhcccccEEEEeCCcccc-chhhhhcCCccEEEccCCccc--cchh--hhcCCcCCEEEccCCcccCch-HHcCCCcCCE
Confidence            457889999999999887 777778999999999998765  5665  689999999999999998875 5999999999


Q ss_pred             EEccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccch
Q 040303          163 LCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWE  242 (552)
Q Consensus       163 L~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  242 (552)
                      |++++|.+.....+.++++|++|++++|.....+..+..+++|++|++++|. +..++.  ++.+++|++|+++++... 
T Consensus       115 L~l~~n~i~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~-~~~~~~--~~~l~~L~~L~l~~n~l~-  190 (347)
T 4fmz_A          115 LYLNEDNISDISPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESK-VKDVTP--IANLTDLYSLSLNYNQIE-  190 (347)
T ss_dssp             EECTTSCCCCCGGGTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSSC-CCCCGG--GGGCTTCSEEECTTSCCC-
T ss_pred             EECcCCcccCchhhccCCceeEEECCCCCCcccccchhhCCCCcEEEecCCC-cCCchh--hccCCCCCEEEccCCccc-
Confidence            9999999988444999999999999999544444569999999999999987 666665  789999999999855431 


Q ss_pred             hhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcccccccc
Q 040303          243 VEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFK  322 (552)
Q Consensus       243 ~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~  322 (552)
                                 ....+..+++|+.|++++|.+..++..                                          
T Consensus       191 -----------~~~~~~~l~~L~~L~l~~n~l~~~~~~------------------------------------------  217 (347)
T 4fmz_A          191 -----------DISPLASLTSLHYFTAYVNQITDITPV------------------------------------------  217 (347)
T ss_dssp             -----------CCGGGGGCTTCCEEECCSSCCCCCGGG------------------------------------------
T ss_pred             -----------ccccccCCCccceeecccCCCCCCchh------------------------------------------
Confidence                       223378889999999998876654321                                          


Q ss_pred             hhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCCCCCCcchhhhhhcccccccceeeeccCCCCCcc
Q 040303          323 SGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNT  402 (552)
Q Consensus       323 ~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~  402 (552)
                          ..+++|+.|++.++.-   ...+.   ...+++|++|++++|.                  +..            
T Consensus       218 ----~~~~~L~~L~l~~n~l---~~~~~---~~~l~~L~~L~l~~n~------------------l~~------------  257 (347)
T 4fmz_A          218 ----ANMTRLNSLKIGNNKI---TDLSP---LANLSQLTWLEIGTNQ------------------ISD------------  257 (347)
T ss_dssp             ----GGCTTCCEEECCSSCC---CCCGG---GTTCTTCCEEECCSSC------------------CCC------------
T ss_pred             ----hcCCcCCEEEccCCcc---CCCcc---hhcCCCCCEEECCCCc------------------cCC------------
Confidence                1346677777776654   22222   3567889999998876                  111            


Q ss_pred             ccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhc
Q 040303          403 FFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIV  482 (552)
Q Consensus       403 ~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~  482 (552)
                      ......+++|+.|++++|.+..+..  .    ..+++|++|++++| .+...++ ..+..+++|++|++.+|+ ++.++.
T Consensus       258 ~~~~~~l~~L~~L~l~~n~l~~~~~--~----~~l~~L~~L~L~~n-~l~~~~~-~~l~~l~~L~~L~L~~n~-l~~~~~  328 (347)
T 4fmz_A          258 INAVKDLTKLKMLNVGSNQISDISV--L----NNLSQLNSLFLNNN-QLGNEDM-EVIGGLTNLTTLFLSQNH-ITDIRP  328 (347)
T ss_dssp             CGGGTTCTTCCEEECCSSCCCCCGG--G----GGCTTCSEEECCSS-CCCGGGH-HHHHTCTTCSEEECCSSS-CCCCGG
T ss_pred             ChhHhcCCCcCEEEccCCccCCChh--h----cCCCCCCEEECcCC-cCCCcCh-hHhhccccCCEEEccCCc-cccccC
Confidence            0123568899999999987766421  1    27899999999997 4555544 357889999999999987 555422


Q ss_pred             cccccccccccCCccEEEecccc
Q 040303          483 IDQQERKNVVFPQLQFLKMVDLE  505 (552)
Q Consensus       483 ~~~~~~~~~~l~~L~~L~l~~c~  505 (552)
                             ...+++|++|++.+|+
T Consensus       329 -------~~~l~~L~~L~l~~N~  344 (347)
T 4fmz_A          329 -------LASLSKMDSADFANQV  344 (347)
T ss_dssp             -------GGGCTTCSEESSSCC-
T ss_pred             -------hhhhhccceeehhhhc
Confidence                   3458999999999885

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

Probab=99.94  E-value=3.4e-25  Score=222.50  Aligned_cols=302  Identities=15%  Similarity=0.157  Sum_probs=235.9

Q ss_pred             ccCcccEEEeecCCCcccCCCc--cCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccccc-chhcCCCCC
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEV--LECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLP-SSLGLLTNL  160 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~--~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp-~~i~~l~~L  160 (552)
                      ...+++++++.++.+.. +|..  ..+++|++|++.++...  .++...|..+++|++|++++|.+..+| ..++++++|
T Consensus        43 ~l~~l~~l~l~~~~l~~-l~~~~~~~l~~L~~L~L~~n~i~--~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  119 (390)
T 3o6n_A           43 TLNNQKIVTFKNSTMRK-LPAALLDSFRQVELLNLNDLQIE--EIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLL  119 (390)
T ss_dssp             GGCCCSEEEEESCEESE-ECTHHHHHCCCCSEEECTTSCCC--EECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             ccCCceEEEecCCchhh-CChhHhcccccCcEEECCCCccc--ccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCC
Confidence            46889999999999887 6653  37999999999998765  677766799999999999999998775 458999999


Q ss_pred             cEEEccCCCCCC-hhh-hcCCCCccEEEecCCcCcccch-hhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccc
Q 040303          161 RTLCLYCSELQD-IAV-IGELKNLEILCLRGSYIEQLPV-EIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRS  237 (552)
Q Consensus       161 ~~L~l~~~~~~~-~~~-i~~L~~L~~L~l~~~~l~~lp~-~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~  237 (552)
                      ++|++++|.+.. |.. +.++++|++|++++|.+..++. .+.++++|++|++++|. +..++   ++.+++|+.|++++
T Consensus       120 ~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~---~~~l~~L~~L~l~~  195 (390)
T 3o6n_A          120 TVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNR-LTHVD---LSLIPSLFHANVSY  195 (390)
T ss_dssp             CEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSC-CSBCC---GGGCTTCSEEECCS
T ss_pred             CEEECCCCccCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCc-CCccc---cccccccceeeccc
Confidence            999999999888 544 6999999999999999987754 58999999999999987 66664   57789999999975


Q ss_pred             cccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCccc
Q 040303          238 FNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDN  317 (552)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~  317 (552)
                      +..               ..+....+|+.|++++|.+..+|... .++|+.|.+..+....                   
T Consensus       196 n~l---------------~~~~~~~~L~~L~l~~n~l~~~~~~~-~~~L~~L~l~~n~l~~-------------------  240 (390)
T 3o6n_A          196 NLL---------------STLAIPIAVEELDASHNSINVVRGPV-NVELTILKLQHNNLTD-------------------  240 (390)
T ss_dssp             SCC---------------SEEECCSSCSEEECCSSCCCEEECCC-CSSCCEEECCSSCCCC-------------------
T ss_pred             ccc---------------cccCCCCcceEEECCCCeeeeccccc-cccccEEECCCCCCcc-------------------
Confidence            433               33455678999999999988876654 4788888876543110                   


Q ss_pred             ccccchhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCCCCCCcchhhhhhcccccccceeeeccCC
Q 040303          318 CISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHV  397 (552)
Q Consensus       318 ~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li~~c~l~~l~~~~~~  397 (552)
                          . .....+++|+.|++.++.-   ....+ ..+..+++|++|++++|.                  +..+.     
T Consensus       241 ----~-~~l~~l~~L~~L~Ls~n~l---~~~~~-~~~~~l~~L~~L~L~~n~------------------l~~~~-----  288 (390)
T 3o6n_A          241 ----T-AWLLNYPGLVEVDLSYNEL---EKIMY-HPFVKMQRLERLYISNNR------------------LVALN-----  288 (390)
T ss_dssp             ----C-GGGGGCTTCSEEECCSSCC---CEEES-GGGTTCSSCCEEECCSSC------------------CCEEE-----
T ss_pred             ----c-HHHcCCCCccEEECCCCcC---CCcCh-hHccccccCCEEECCCCc------------------CcccC-----
Confidence                1 1233578999999998764   33322 234578999999999987                  22211     


Q ss_pred             CCCccccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCC
Q 040303          398 NVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECP  475 (552)
Q Consensus       398 ~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~  475 (552)
                            .....+++|+.|++++|.+..++...     +.+++|++|++.+| .++.++    +..+++|++|++.+++
T Consensus       289 ------~~~~~l~~L~~L~L~~n~l~~~~~~~-----~~l~~L~~L~L~~N-~i~~~~----~~~~~~L~~L~l~~N~  350 (390)
T 3o6n_A          289 ------LYGQPIPTLKVLDLSHNHLLHVERNQ-----PQFDRLENLYLDHN-SIVTLK----LSTHHTLKNLTLSHND  350 (390)
T ss_dssp             ------CSSSCCTTCCEEECCSSCCCCCGGGH-----HHHTTCSEEECCSS-CCCCCC----CCTTCCCSEEECCSSC
T ss_pred             ------cccCCCCCCCEEECCCCcceecCccc-----cccCcCCEEECCCC-ccceeC----chhhccCCEEEcCCCC
Confidence                  12256899999999999887654332     27899999999996 577774    5678999999999986

>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=99.94  E-value=8.6e-25  Score=230.30  Aligned_cols=403  Identities=16%  Similarity=0.113  Sum_probs=205.9

Q ss_pred             CcccEEEeecCCCcccCCCc-cCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEE
Q 040303           86 KFYTSIVLHDSKMNVLLPEV-LECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLC  164 (552)
Q Consensus        86 ~~lr~L~l~~~~~~~~~~~~-~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~  164 (552)
                      +++++|++++|.+....+.. ..+++|++|++++|...  .++.+.|.++++|++|++++|.++.+|..  .+++|++|+
T Consensus        52 ~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~--~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L~~L~  127 (562)
T 3a79_B           52 PRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIR--SLDFHVFLFNQDLEYLDVSHNRLQNISCC--PMASLRHLD  127 (562)
T ss_dssp             TTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCCCC--EECTTTTTTCTTCCEEECTTSCCCEECSC--CCTTCSEEE
T ss_pred             CCcCEEECCCCCccccChhhhccCCCccEEECCCCCCC--cCCHHHhCCCCCCCEEECCCCcCCccCcc--ccccCCEEE
Confidence            45555555555555522222 25555555555555443  34333345555555555555555555554  555555555


Q ss_pred             ccCCCCCC---hhhhcCCCCccEEEecCCcCcccchhhccCCCC--CEEeccCCCC--CCccCcccccCC----------
Q 040303          165 LYCSELQD---IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRL--RSLDLRDCDR--LQVIPPNVLSNL----------  227 (552)
Q Consensus       165 l~~~~~~~---~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L--~~L~l~~~~~--~~~~~~~~l~~l----------  227 (552)
                      +++|.+..   |..++++++|++|+++++.+..  ..+..+++|  ++|++++|..  ....|.. +..+          
T Consensus       128 Ls~N~l~~l~~p~~~~~l~~L~~L~L~~n~l~~--~~~~~l~~L~L~~L~L~~n~l~~~~~~~~~-l~~l~~~~l~l~l~  204 (562)
T 3a79_B          128 LSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQ--LDLLPVAHLHLSCILLDLVSYHIKGGETES-LQIPNTTVLHLVFH  204 (562)
T ss_dssp             CCSSCCSBCCCCGGGGGCTTCCEEEEECSBCCT--TTTGGGTTSCEEEEEEEESSCCCCSSSCCE-EEECCEEEEEEEEC
T ss_pred             CCCCCccccCchHhhcccCcccEEecCCCcccc--CchhhhhhceeeEEEeecccccccccCccc-ccccCcceEEEEec
Confidence            55555443   2455555555555555555443  123333333  5555555542  2222322 3322          


Q ss_pred             ----------------CCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCC-----cCCCcccccCC
Q 040303          228 ----------------SHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVN-----TLPKGLFFEKL  286 (552)
Q Consensus       228 ----------------~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~-----~~p~~~~l~~L  286 (552)
                                      ++|+.|++.++... .     .........+..+++|+.+++..+.+.     .++......+|
T Consensus       205 ~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~-~-----~~l~~~~~~l~~l~~L~~L~L~~~~l~~~~~~~~~~~~~~~~L  278 (562)
T 3a79_B          205 PNSLFSVQVNMSVNALGHLQLSNIKLNDEN-C-----QRLMTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRPV  278 (562)
T ss_dssp             SSSCCCCCCEEEESSEEEEEEEEEECCSTT-H-----HHHHHHHHHHHSCSSCEEEEEEEEEECHHHHHHHHHHHTTSSE
T ss_pred             CccchhhhhhhcccccceEEEecccccccc-c-----chHHHHHHHHhccCcceEEEecCCcCcHHHHHHHHHhhhcccc
Confidence                            22333333211000 0     000001122333444444433322211     11111122366


Q ss_pred             ceEEEEecccccCC-CCC-----CcccceeeecCcccccccch-hHHHHh--chheeeeecCCCCCcceeeeccccCccc
Q 040303          287 ERYRICIGRWCWED-TSP-----TCSRTFRLLLGTDNCISFKS-GHIVQL--QRIEDLCLSGLPDQDIIELVNNKLGSYS  357 (552)
Q Consensus       287 ~~L~l~~~~~~~~~-~~~-----~~~~~~~l~l~~~~~~~~~~-~~~~~l--~~L~~L~l~~~~~~~~~~~~~~~~~~~~  357 (552)
                      +.|.+..+...... ...     ...+.+.+......-...+. +....+  .+|+.|++.++.-   ....   ....+
T Consensus       279 ~~L~l~~n~l~~~ip~~~~~~~~~~L~~L~~~~~~~~~~~~p~~~~~~~~~~~~L~~L~l~~n~~---~~~~---~~~~l  352 (562)
T 3a79_B          279 EYLNIYNLTITERIDREEFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPF---IHMV---CPPSP  352 (562)
T ss_dssp             EEEEEEEEEECSCCCCCCCCCCSCSCCEEEEEEEEECCCSSCHHHHHHHHHTCCCSEEEEESSCC---CCCC---CCSSC
T ss_pred             cEEEEeccEeeccccchhhhcccccchheehhhcccceeecChhhhhhhhccCcceEEEccCCCc---cccc---CccCC
Confidence            66666655422110 000     11222211111111112232 222221  4588888887654   1211   12467


Q ss_pred             ccccEEEeecCC--CCCCcchhhhhhc----ccccccceeeeccCCCCCccccccccCCCcccccccceeeeE-eccCCC
Q 040303          358 SQLKHLWVEGCQ--APSPKESKRCKES----TSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVER-IWKSQL  430 (552)
Q Consensus       358 ~~L~~L~l~~c~--~~lp~~~~~~~~L----i~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~-~~~~~~  430 (552)
                      ++|++|++++|.  +..|..+..+++|    +.++.+..+        +......+.+++|+.|++++|.+.. ++....
T Consensus       353 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~--------~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~  424 (562)
T 3a79_B          353 SSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNF--------FKVALMTKNMSSLETLDVSLNSLNSHAYDRTC  424 (562)
T ss_dssp             CCCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSSCCCBT--------THHHHTTTTCTTCCEEECTTSCCBSCCSSCCC
T ss_pred             CCceEEECCCCccccchhhhhcccCCCCEEECCCCCcCCc--------ccchhhhcCCCCCCEEECCCCcCCCccChhhh
Confidence            889999998887  3355555444444    223222221        1222335678999999999997765 444333


Q ss_pred             CccccccCcceEEEEecCCCccccccchhHhhh-cccceEEEecCCchhhhhccccccccccccCCccEEEecccccccc
Q 040303          431 PAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSF-IRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTS  509 (552)
Q Consensus       431 ~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l-~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~  509 (552)
                      .    .+++|++|++++|.--..+|.     .+ ++|++|++.+| .++.++  .+    ...+++|+.|++.++ .++.
T Consensus       425 ~----~l~~L~~L~l~~n~l~~~~~~-----~l~~~L~~L~L~~N-~l~~ip--~~----~~~l~~L~~L~L~~N-~l~~  487 (562)
T 3a79_B          425 A----WAESILVLNLSSNMLTGSVFR-----CLPPKVKVLDLHNN-RIMSIP--KD----VTHLQALQELNVASN-QLKS  487 (562)
T ss_dssp             C----CCTTCCEEECCSSCCCGGGGS-----SCCTTCSEEECCSS-CCCCCC--TT----TTSSCCCSEEECCSS-CCCC
T ss_pred             c----CcccCCEEECCCCCCCcchhh-----hhcCcCCEEECCCC-cCcccC--hh----hcCCCCCCEEECCCC-CCCC
Confidence            2    779999999999743233332     33 69999999998 576653  22    235899999999997 6778


Q ss_pred             ccCCcccccCCCccEEEeecCCCc
Q 040303          510 FCTGDVHIEFPTLETLEVIRCPEF  533 (552)
Q Consensus       510 ~~~~~~~~~~~~L~~L~i~~C~~L  533 (552)
                      ++...+ ..+++|+.|+++++|--
T Consensus       488 l~~~~~-~~l~~L~~L~l~~N~~~  510 (562)
T 3a79_B          488 VPDGVF-DRLTSLQYIWLHDNPWD  510 (562)
T ss_dssp             CCTTST-TTCTTCCCEECCSCCBC
T ss_pred             CCHHHH-hcCCCCCEEEecCCCcC
Confidence            877633 37899999999998754

>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=99.93  E-value=2.2e-25  Score=236.09  Aligned_cols=304  Identities=16%  Similarity=0.157  Sum_probs=223.2

Q ss_pred             CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEEccCCCCCC--hhhhcCCCCcc
Q 040303          107 ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSELQD--IAVIGELKNLE  183 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~  183 (552)
                      .+++++.+.+.++...  .+|..+|.++++|++|++++|.+..+|. .++.+++|++|++++|.+..  |..++++++|+
T Consensus        49 ~l~~l~~l~l~~~~l~--~lp~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  126 (597)
T 3oja_B           49 TLNNQKIVTFKNSTMR--KLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLT  126 (597)
T ss_dssp             GGCCCSEEEESSCEES--EECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCC
T ss_pred             cCCCceEEEeeCCCCC--CcCHHHHccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCC
Confidence            5678899998887654  7888888889999999999998887654 78899999999999998877  45678999999


Q ss_pred             EEEecCCcCcccchhh-ccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCC
Q 040303          184 ILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLP  262 (552)
Q Consensus       184 ~L~l~~~~l~~lp~~i-~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~  262 (552)
                      +|++++|.+..+|..+ +++++|++|++++|. +..+++..++.+++|++|+++++..             ....++.++
T Consensus       127 ~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~N~l-------------~~~~~~~l~  192 (597)
T 3oja_B          127 VLVLERNDLSSLPRGIFHNTPKLTTLSMSNNN-LERIEDDTFQATTSLQNLQLSSNRL-------------THVDLSLIP  192 (597)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCBCCTTTTTTCTTCCEEECTTSCC-------------SBCCGGGCT
T ss_pred             EEEeeCCCCCCCCHHHhccCCCCCEEEeeCCc-CCCCChhhhhcCCcCcEEECcCCCC-------------CCcChhhhh
Confidence            9999999988888774 889999999999887 5666655578899999999885543             112366778


Q ss_pred             CCcEEEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeeecCCCC
Q 040303          263 NLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPD  342 (552)
Q Consensus       263 ~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~  342 (552)
                      +|+.|++++|.+..++.   ...|+.|.++.+.....                      +..   ..++|+.|++.++.-
T Consensus       193 ~L~~L~l~~n~l~~l~~---~~~L~~L~ls~n~l~~~----------------------~~~---~~~~L~~L~L~~n~l  244 (597)
T 3oja_B          193 SLFHANVSYNLLSTLAI---PIAVEELDASHNSINVV----------------------RGP---VNVELTILKLQHNNL  244 (597)
T ss_dssp             TCSEEECCSSCCSEEEC---CTTCSEEECCSSCCCEE----------------------ECS---CCSCCCEEECCSSCC
T ss_pred             hhhhhhcccCccccccC---CchhheeeccCCccccc----------------------ccc---cCCCCCEEECCCCCC
Confidence            89999998887665432   34566666544321100                      000   125788888877664


Q ss_pred             CcceeeeccccCcccccccEEEeecCCCCCCcchhhhhhcccccccceeeeccCCCCCccccccccCCCcccccccceee
Q 040303          343 QDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNV  422 (552)
Q Consensus       343 ~~~~~~~~~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l  422 (552)
                      ...      .....+++|+.|++++|.                  +..+.          +...+.+++|+.|++++|.+
T Consensus       245 ~~~------~~l~~l~~L~~L~Ls~N~------------------l~~~~----------~~~~~~l~~L~~L~Ls~N~l  290 (597)
T 3oja_B          245 TDT------AWLLNYPGLVEVDLSYNE------------------LEKIM----------YHPFVKMQRLERLYISNNRL  290 (597)
T ss_dssp             CCC------GGGGGCTTCSEEECCSSC------------------CCEEE----------SGGGTTCSSCCEEECTTSCC
T ss_pred             CCC------hhhccCCCCCEEECCCCc------------------cCCCC----------HHHhcCccCCCEEECCCCCC
Confidence            221      123567888888888876                  11111          12336789999999999988


Q ss_pred             eEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEEec
Q 040303          423 ERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMV  502 (552)
Q Consensus       423 ~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~  502 (552)
                      ..++....     .+++|+.|++++| .+..+|.  .+..+++|+.|++.+|. +..+        ....+++|+.|++.
T Consensus       291 ~~l~~~~~-----~l~~L~~L~Ls~N-~l~~i~~--~~~~l~~L~~L~L~~N~-l~~~--------~~~~~~~L~~L~l~  353 (597)
T 3oja_B          291 VALNLYGQ-----PIPTLKVLDLSHN-HLLHVER--NQPQFDRLENLYLDHNS-IVTL--------KLSTHHTLKNLTLS  353 (597)
T ss_dssp             CEEECSSS-----CCTTCCEEECCSS-CCCCCGG--GHHHHTTCSEEECCSSC-CCCC--------CCCTTCCCSEEECC
T ss_pred             CCCCcccc-----cCCCCcEEECCCC-CCCccCc--ccccCCCCCEEECCCCC-CCCc--------ChhhcCCCCEEEee
Confidence            77654332     6899999999986 6777876  47889999999999986 4443        23458899999999


Q ss_pred             ccc
Q 040303          503 DLE  505 (552)
Q Consensus       503 ~c~  505 (552)
                      +++
T Consensus       354 ~N~  356 (597)
T 3oja_B          354 HND  356 (597)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            876

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

Probab=99.93  E-value=1.2e-24  Score=239.66  Aligned_cols=171  Identities=19%  Similarity=0.127  Sum_probs=133.0

Q ss_pred             cEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccc-cccc-cchhcCCCCCcEEEcc
Q 040303           89 TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMH-LSLL-PSSLGLLTNLRTLCLY  166 (552)
Q Consensus        89 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~-~~~l-p~~i~~l~~L~~L~l~  166 (552)
                      +..+.+++.+.. +|.  ..+++++|++++|...  .++...|.++++|++|++++|. +..+ |..++++++|++|+++
T Consensus         7 ~~~dcs~~~L~~-vP~--lp~~l~~LdLs~N~i~--~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls   81 (844)
T 3j0a_A            7 RIAFYRFCNLTQ-VPQ--VLNTTERLLLSFNYIR--TVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLG   81 (844)
T ss_dssp             EEEEESCCCSSC-CCS--SCTTCCEEEEESCCCC--EECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECT
T ss_pred             eEEEccCCCCCC-CCC--CCCCcCEEECCCCcCC--ccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECC
Confidence            456677777777 777  5689999999999776  5555556999999999999994 4566 7789999999999999


Q ss_pred             CCCCCC--hhhhcCCCCccEEEecCCcCcc-cchh--hccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccc
Q 040303          167 CSELQD--IAVIGELKNLEILCLRGSYIEQ-LPVE--IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKW  241 (552)
Q Consensus       167 ~~~~~~--~~~i~~L~~L~~L~l~~~~l~~-lp~~--i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  241 (552)
                      +|.+..  |..++++++|++|++++|.+.. +|..  ++++++|++|++++|...+..+...++++++|++|+++++.. 
T Consensus        82 ~N~l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i-  160 (844)
T 3j0a_A           82 SSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQI-  160 (844)
T ss_dssp             TCCCCEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCC-
T ss_pred             CCcCcccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcC-
Confidence            999886  7899999999999999998874 5655  899999999999999843333433489999999999985433 


Q ss_pred             hhhhhhhcccccChhhhcCC--CCCcEEEccCCCC
Q 040303          242 EVEVEAAGVKNASLEELKRL--PNLTTLELCIPDV  274 (552)
Q Consensus       242 ~~~~~~~~~~~~~~~~l~~l--~~L~~L~l~~~~~  274 (552)
                               .......+..+  ++|+.|+++.|.+
T Consensus       161 ---------~~~~~~~l~~l~~~~L~~L~L~~n~l  186 (844)
T 3j0a_A          161 ---------FLVCEHELEPLQGKTLSFFSLAANSL  186 (844)
T ss_dssp             ---------CCCCSGGGHHHHHCSSCCCEECCSBS
T ss_pred             ---------CeeCHHHcccccCCccceEECCCCcc
Confidence                     11122334433  5677777776653

>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=99.93  E-value=3.9e-25  Score=230.94  Aligned_cols=376  Identities=12%  Similarity=0.071  Sum_probs=232.0

Q ss_pred             cccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccc--ccchhcCCCC
Q 040303           83 GALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSL--LPSSLGLLTN  159 (552)
Q Consensus        83 ~~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~--lp~~i~~l~~  159 (552)
                      ...+++++|++++|.+....|..+ .+++|++|++++|...  .+|..   .+++|++|++++|.+..  +|..++++++
T Consensus        42 ~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~--~lp~~---~l~~L~~L~L~~N~l~~~~~p~~~~~l~~  116 (520)
T 2z7x_B           42 LSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNKLV--KISCH---PTVNLKHLDLSFNAFDALPICKEFGNMSQ  116 (520)
T ss_dssp             TTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCSSCCC--EEECC---CCCCCSEEECCSSCCSSCCCCGGGGGCTT
T ss_pred             cccccccEEecCCCccCCcChHHhhcccCCCEEecCCCcee--ecCcc---ccCCccEEeccCCccccccchhhhccCCc
Confidence            357889999999999988556544 8999999999999776  67764   79999999999999875  6789999999


Q ss_pred             CcEEEccCCCCCChhhhcCCCCc--cEEEecCCcC--c-ccchhhcc--------------------------CCCCCEE
Q 040303          160 LRTLCLYCSELQDIAVIGELKNL--EILCLRGSYI--E-QLPVEIGQ--------------------------LTRLRSL  208 (552)
Q Consensus       160 L~~L~l~~~~~~~~~~i~~L~~L--~~L~l~~~~l--~-~lp~~i~~--------------------------l~~L~~L  208 (552)
                      |++|++++|.+.. ..+..+.+|  ++|++++|.+  . ..|..+..                          +++|+.|
T Consensus       117 L~~L~L~~n~l~~-~~~~~l~~L~L~~L~l~~n~l~~~~~~~~~l~~l~~~~l~l~l~~n~~~~~~~~~~~~~l~~L~~L  195 (520)
T 2z7x_B          117 LKFLGLSTTHLEK-SSVLPIAHLNISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELS  195 (520)
T ss_dssp             CCEEEEEESSCCG-GGGGGGTTSCEEEEEEEECTTTTSSCCTTTTTTCCEEEEEEECCSSSCCCCCCCCCCTTCSEEEEC
T ss_pred             ceEEEecCcccch-hhccccccceeeEEEeecccccccccccccccccccceEEEEeccCcchhhhhhhhhhcccceeec
Confidence            9999999999876 456667777  9999999977  2 44554444                          6677777


Q ss_pred             eccCCC-------CCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCC-cCCCc
Q 040303          209 DLRDCD-------RLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVN-TLPKG  280 (552)
Q Consensus       209 ~l~~~~-------~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~-~~p~~  280 (552)
                      ++++|.       ..+.++ . ++.+++|+.|++.++.......      ...... ...++|+.|++++|.+. .+|..
T Consensus       196 ~l~~n~~~~~~~~~~~~~~-~-l~~l~~L~~L~l~~~~l~~~~~------~~~~~~-~~~~~L~~L~l~~n~l~~~~p~~  266 (520)
T 2z7x_B          196 NIKCVLEDNKCSYFLSILA-K-LQTNPKLSNLTLNNIETTWNSF------IRILQL-VWHTTVWYFSISNVKLQGQLDFR  266 (520)
T ss_dssp             CEEECCSTTTTHHHHHHHH-G-GGGCTTCCEEEEEEEEEEHHHH------HHHHHH-HHTSSCSEEEEEEEEEESCCCCC
T ss_pred             cccccccccccceeecchh-h-hccccchhhccccccccCHHHH------HHHHHH-hhhCcccEEEeecccccCccccc
Confidence            777764       223333 3 6788888888887432211000      000011 11346666666666543 45544


Q ss_pred             c------cccCCceEEEEecccccCCC----CCCcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcceeeec
Q 040303          281 L------FFEKLERYRICIGRWCWEDT----SPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVN  350 (552)
Q Consensus       281 ~------~l~~L~~L~l~~~~~~~~~~----~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~  350 (552)
                      +      .+++|+.+.+..+.......    .....+...+.+..+.-...+  ....+++|+.|+++++.-..  ..+.
T Consensus       267 ~~~~~~~~l~~L~~l~l~~n~~~~p~~~~~~~~~~~~L~~L~l~~n~l~~~~--~~~~l~~L~~L~Ls~n~l~~--~~~~  342 (520)
T 2z7x_B          267 DFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMVHML--CPSKISPFLHLDFSNNLLTD--TVFE  342 (520)
T ss_dssp             CCCCCSCCCCEEEEEEEEECCCCSCTHHHHHHHHTCCCSEEEEESSCCCCCC--CCSSCCCCCEEECCSSCCCT--TTTT
T ss_pred             hhhcccccCceeEeccccccceecchhhhhcccccCceeEEEcCCCcccccc--chhhCCcccEEEeECCccCh--hhhh
Confidence            3      24444444444433200000    000011122222111111111  00245677777777665411  1111


Q ss_pred             cccCcccccccEEEeecCC-C---CCCcchhhhhhc----ccccccceeeeccCCCCCcccc-ccccCCCccccccccee
Q 040303          351 NKLGSYSSQLKHLWVEGCQ-A---PSPKESKRCKES----TSEMRSNEIILEDHVNVPNTFF-LKGGLPNLETLELYNVN  421 (552)
Q Consensus       351 ~~~~~~~~~L~~L~l~~c~-~---~lp~~~~~~~~L----i~~c~l~~l~~~~~~~~~~~~~-~~~~~~~L~~L~l~~~~  421 (552)
                        ....+++|++|++++|. .   .+|..+..+++|    ++++.+..          .+.. ....+++|+.|++++|.
T Consensus       343 --~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~----------~l~~~~~~~l~~L~~L~Ls~N~  410 (520)
T 2z7x_B          343 --NCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSY----------DEKKGDCSWTKSLLSLNMSSNI  410 (520)
T ss_dssp             --TCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBC----------CGGGCSCCCCTTCCEEECCSSC
T ss_pred             --hhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCc----------ccccchhccCccCCEEECcCCC
Confidence              22456777777777776 2   122223333333    22322222          0111 13567899999999997


Q ss_pred             eeEeccCCCCcccccc-CcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEE
Q 040303          422 VERIWKSQLPAMSCGI-QTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLK  500 (552)
Q Consensus       422 l~~~~~~~~~~~~~~l-~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~  500 (552)
                      +......       .+ ++|+.|++++| +++.+|.  .+..+++|++|++.+|. ++.++.  .   ....+++|++|+
T Consensus       411 l~~~~~~-------~l~~~L~~L~Ls~N-~l~~ip~--~~~~l~~L~~L~L~~N~-l~~l~~--~---~~~~l~~L~~L~  474 (520)
T 2z7x_B          411 LTDTIFR-------CLPPRIKVLDLHSN-KIKSIPK--QVVKLEALQELNVASNQ-LKSVPD--G---IFDRLTSLQKIW  474 (520)
T ss_dssp             CCGGGGG-------SCCTTCCEEECCSS-CCCCCCG--GGGGCTTCCEEECCSSC-CCCCCT--T---TTTTCTTCCEEE
T ss_pred             CCcchhh-------hhcccCCEEECCCC-cccccch--hhhcCCCCCEEECCCCc-CCccCH--H---HhccCCcccEEE
Confidence            7532211       22 79999999996 7888886  35699999999999984 666532  1   234589999999


Q ss_pred             ecccc
Q 040303          501 MVDLE  505 (552)
Q Consensus       501 l~~c~  505 (552)
                      +.+++
T Consensus       475 l~~N~  479 (520)
T 2z7x_B          475 LHTNP  479 (520)
T ss_dssp             CCSSC
T ss_pred             CcCCC
Confidence            99886

>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=99.93  E-value=1.3e-24  Score=232.72  Aligned_cols=147  Identities=26%  Similarity=0.251  Sum_probs=122.1

Q ss_pred             ccccccCccccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-
Q 040303           75 NSREWLDEGALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-  152 (552)
Q Consensus        75 ~~~~~~~~~~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-  152 (552)
                      +....|. ..+.++++|++++|.+....+..+ .+++|++|++++|...  .++++.|.++++|++|+|++|+++.+|. 
T Consensus        42 ~l~~vP~-~lp~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i~--~i~~~~f~~L~~L~~L~Ls~N~l~~l~~~  118 (635)
T 4g8a_A           42 NFYKIPD-NLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQ--TIEDGAYQSLSHLSTLILTGNPIQSLALG  118 (635)
T ss_dssp             CCSSCCS-SSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCC--EECTTTTTTCTTCCEEECTTCCCCEECGG
T ss_pred             CcCccCC-CCCcCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcCC--CcChhHhcCCCCCCEEEccCCcCCCCCHH
Confidence            3445443 456789999999999998434444 8999999999999766  7888888999999999999999999886 


Q ss_pred             hhcCCCCCcEEEccCCCCCC-h-hhhcCCCCccEEEecCCcCc--ccchhhccCCCCCEEeccCCCCCCccCccccc
Q 040303          153 SLGLLTNLRTLCLYCSELQD-I-AVIGELKNLEILCLRGSYIE--QLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLS  225 (552)
Q Consensus       153 ~i~~l~~L~~L~l~~~~~~~-~-~~i~~L~~L~~L~l~~~~l~--~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~  225 (552)
                      .++++++|++|++++|.++. + ..++++++|++|++++|.+.  .+|..++.+++|++|++++|. +..++...+.
T Consensus       119 ~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~l~  194 (635)
T 4g8a_A          119 AFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNK-IQSIYCTDLR  194 (635)
T ss_dssp             GGTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSC-CCEECGGGGH
T ss_pred             HhcCCCCCCEEECCCCcCCCCChhhhhcCcccCeeccccCccccCCCchhhccchhhhhhcccCcc-cccccccccc
Confidence            57999999999999999887 4 46899999999999999887  467889999999999999986 5555443333

>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=99.92  E-value=2.4e-24  Score=228.11  Aligned_cols=302  Identities=16%  Similarity=0.167  Sum_probs=235.8

Q ss_pred             ccCcccEEEeecCCCcccCCCc-c-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCC
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEV-L-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNL  160 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~-~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L  160 (552)
                      ...+++.+++.++.+.. +|.. + .+++|++|++++|...  .++...|..+++|++|++++|.+..+|. .++++++|
T Consensus        49 ~l~~l~~l~l~~~~l~~-lp~~~~~~l~~L~~L~L~~n~l~--~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  125 (597)
T 3oja_B           49 TLNNQKIVTFKNSTMRK-LPAALLDSFRQVELLNLNDLQIE--EIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLL  125 (597)
T ss_dssp             GGCCCSEEEESSCEESE-ECTHHHHHCCCCSEEECTTSCCC--EECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             cCCCceEEEeeCCCCCC-cCHHHHccCCCCcEEECCCCCCC--CCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCC
Confidence            45788999999998887 6643 3 7999999999998765  6776567999999999999999988765 46999999


Q ss_pred             cEEEccCCCCCC-hhh-hcCCCCccEEEecCCcCcccch-hhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccc
Q 040303          161 RTLCLYCSELQD-IAV-IGELKNLEILCLRGSYIEQLPV-EIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRS  237 (552)
Q Consensus       161 ~~L~l~~~~~~~-~~~-i~~L~~L~~L~l~~~~l~~lp~-~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~  237 (552)
                      ++|++++|.+.. |.. ++++++|++|++++|.+..+|. .++.+++|++|++++|. +..++   ++.+++|+.|++++
T Consensus       126 ~~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~---~~~l~~L~~L~l~~  201 (597)
T 3oja_B          126 TVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNR-LTHVD---LSLIPSLFHANVSY  201 (597)
T ss_dssp             CEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSC-CSBCC---GGGCTTCSEEECCS
T ss_pred             CEEEeeCCCCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCC-CCCcC---hhhhhhhhhhhccc
Confidence            999999999888 544 6999999999999999987665 58999999999999987 66665   46789999999975


Q ss_pred             cccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCccc
Q 040303          238 FNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDN  317 (552)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~  317 (552)
                      +..               ..+....+|+.|++++|.+..++..+ .++|+.|.+.++...                    
T Consensus       202 n~l---------------~~l~~~~~L~~L~ls~n~l~~~~~~~-~~~L~~L~L~~n~l~--------------------  245 (597)
T 3oja_B          202 NLL---------------STLAIPIAVEELDASHNSINVVRGPV-NVELTILKLQHNNLT--------------------  245 (597)
T ss_dssp             SCC---------------SEEECCTTCSEEECCSSCCCEEECSC-CSCCCEEECCSSCCC--------------------
T ss_pred             Ccc---------------ccccCCchhheeeccCCccccccccc-CCCCCEEECCCCCCC--------------------
Confidence            433               33556678999999999988777654 367888887654311                    


Q ss_pred             ccccchhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCCCCCCcchhhhhhcccccccceeeeccCC
Q 040303          318 CISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHV  397 (552)
Q Consensus       318 ~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li~~c~l~~l~~~~~~  397 (552)
                         .+ .....+++|+.|+++++.-   ...++. .+..+++|+.|++++|.                  +..+      
T Consensus       246 ---~~-~~l~~l~~L~~L~Ls~N~l---~~~~~~-~~~~l~~L~~L~Ls~N~------------------l~~l------  293 (597)
T 3oja_B          246 ---DT-AWLLNYPGLVEVDLSYNEL---EKIMYH-PFVKMQRLERLYISNNR------------------LVAL------  293 (597)
T ss_dssp             ---CC-GGGGGCTTCSEEECCSSCC---CEEESG-GGTTCSSCCEEECTTSC------------------CCEE------
T ss_pred             ---CC-hhhccCCCCCEEECCCCcc---CCCCHH-HhcCccCCCEEECCCCC------------------CCCC------
Confidence               01 2233578999999998764   333322 34578999999999987                  1221      


Q ss_pred             CCCccccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCC
Q 040303          398 NVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECP  475 (552)
Q Consensus       398 ~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~  475 (552)
                           ....+.+++|+.|++++|.+..++...     +.+++|+.|++++| .+..++    +..+++|+.|++.+++
T Consensus       294 -----~~~~~~l~~L~~L~Ls~N~l~~i~~~~-----~~l~~L~~L~L~~N-~l~~~~----~~~~~~L~~L~l~~N~  356 (597)
T 3oja_B          294 -----NLYGQPIPTLKVLDLSHNHLLHVERNQ-----PQFDRLENLYLDHN-SIVTLK----LSTHHTLKNLTLSHND  356 (597)
T ss_dssp             -----ECSSSCCTTCCEEECCSSCCCCCGGGH-----HHHTTCSEEECCSS-CCCCCC----CCTTCCCSEEECCSSC
T ss_pred             -----CcccccCCCCcEEECCCCCCCccCccc-----ccCCCCCEEECCCC-CCCCcC----hhhcCCCCEEEeeCCC
Confidence                 112356899999999999887654332     27899999999996 566664    5678999999999987

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

Probab=99.92  E-value=7.1e-24  Score=216.22  Aligned_cols=304  Identities=16%  Similarity=0.088  Sum_probs=190.2

Q ss_pred             ccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEE
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTL  163 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L  163 (552)
                      ..+++++|+++++.+.+ +|.+..+++|++|++++|...  .+|   ++.+++|++|++++|.++.+|  ++++++|++|
T Consensus        40 ~l~~L~~L~Ls~n~l~~-~~~l~~l~~L~~L~Ls~n~l~--~~~---~~~l~~L~~L~Ls~N~l~~~~--~~~l~~L~~L  111 (457)
T 3bz5_A           40 QLATLTSLDCHNSSITD-MTGIEKLTGLTKLICTSNNIT--TLD---LSQNTNLTYLACDSNKLTNLD--VTPLTKLTYL  111 (457)
T ss_dssp             HHTTCCEEECCSSCCCC-CTTGGGCTTCSEEECCSSCCS--CCC---CTTCTTCSEEECCSSCCSCCC--CTTCTTCCEE
T ss_pred             HcCCCCEEEccCCCccc-ChhhcccCCCCEEEccCCcCC--eEc---cccCCCCCEEECcCCCCceee--cCCCCcCCEE
Confidence            46778888888888877 666567888888888887655  444   477888888888888887765  7788888888


Q ss_pred             EccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchh
Q 040303          164 CLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEV  243 (552)
Q Consensus       164 ~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  243 (552)
                      ++++|.+...+ ++++++|++|++++|.++.+|  ++++++|++|++++|..++.++   ++.+++|++|+++++..   
T Consensus       112 ~L~~N~l~~l~-~~~l~~L~~L~l~~N~l~~l~--l~~l~~L~~L~l~~n~~~~~~~---~~~l~~L~~L~ls~n~l---  182 (457)
T 3bz5_A          112 NCDTNKLTKLD-VSQNPLLTYLNCARNTLTEID--VSHNTQLTELDCHLNKKITKLD---VTPQTQLTTLDCSFNKI---  182 (457)
T ss_dssp             ECCSSCCSCCC-CTTCTTCCEEECTTSCCSCCC--CTTCTTCCEEECTTCSCCCCCC---CTTCTTCCEEECCSSCC---
T ss_pred             ECCCCcCCeec-CCCCCcCCEEECCCCccceec--cccCCcCCEEECCCCCcccccc---cccCCcCCEEECCCCcc---
Confidence            88888877632 778888888888888887764  7778888888888876566663   57788888888874433   


Q ss_pred             hhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcccccccch
Q 040303          244 EVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKS  323 (552)
Q Consensus       244 ~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~  323 (552)
                             .  .. .++.+++|+.|++++|.+..++ ...+                                        
T Consensus       183 -------~--~l-~l~~l~~L~~L~l~~N~l~~~~-l~~l----------------------------------------  211 (457)
T 3bz5_A          183 -------T--EL-DVSQNKLLNRLNCDTNNITKLD-LNQN----------------------------------------  211 (457)
T ss_dssp             -------C--CC-CCTTCTTCCEEECCSSCCSCCC-CTTC----------------------------------------
T ss_pred             -------c--ee-ccccCCCCCEEECcCCcCCeec-cccC----------------------------------------
Confidence                   0  11 2667778888888877766542 1123                                        


Q ss_pred             hHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC-CCCCcchhhhhhcccccccceeeeccCCCCCcc
Q 040303          324 GHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ-APSPKESKRCKESTSEMRSNEIILEDHVNVPNT  402 (552)
Q Consensus       324 ~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~-~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~  402 (552)
                            ++|+.|++.++.-.   .++    ...+++|+.|++++|. ..+|.  ..+++      ++.+.          
T Consensus       212 ------~~L~~L~Ls~N~l~---~ip----~~~l~~L~~L~l~~N~l~~~~~--~~l~~------L~~L~----------  260 (457)
T 3bz5_A          212 ------IQLTFLDCSSNKLT---EID----VTPLTQLTYFDCSVNPLTELDV--STLSK------LTTLH----------  260 (457)
T ss_dssp             ------TTCSEEECCSSCCS---CCC----CTTCTTCSEEECCSSCCSCCCC--TTCTT------CCEEE----------
T ss_pred             ------CCCCEEECcCCccc---ccC----ccccCCCCEEEeeCCcCCCcCH--HHCCC------CCEEe----------
Confidence                  44555555544331   111    2345666666666655 11110  00000      01111          


Q ss_pred             ccccccCCCcccccccce-eeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhh
Q 040303          403 FFLKGGLPNLETLELYNV-NVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEII  481 (552)
Q Consensus       403 ~~~~~~~~~L~~L~l~~~-~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~  481 (552)
                          ....+|+.|++++| .+..++.       +.+++|+.|++++|..+..+|.     ..++|+.|++.+|++++.+.
T Consensus       261 ----l~~n~L~~L~l~~n~~~~~~~~-------~~l~~L~~L~Ls~n~~l~~l~~-----~~~~L~~L~l~~~~~L~~L~  324 (457)
T 3bz5_A          261 ----CIQTDLLEIDLTHNTQLIYFQA-------EGCRKIKELDVTHNTQLYLLDC-----QAAGITELDLSQNPKLVYLY  324 (457)
T ss_dssp             ----CTTCCCSCCCCTTCTTCCEEEC-------TTCTTCCCCCCTTCTTCCEEEC-----TTCCCSCCCCTTCTTCCEEE
T ss_pred             ----ccCCCCCEEECCCCccCCcccc-------cccccCCEEECCCCcccceecc-----CCCcceEechhhcccCCEEE
Confidence                11235667777777 3333321       1678888999988887777764     23455555555555444431


Q ss_pred             cc----ccccccccccCCccEEEeccc
Q 040303          482 VI----DQQERKNVVFPQLQFLKMVDL  504 (552)
Q Consensus       482 ~~----~~~~~~~~~l~~L~~L~l~~c  504 (552)
                      ..    .+.  .+..+++|+.|++.+.
T Consensus       325 L~~N~l~~l--~l~~l~~L~~L~l~~N  349 (457)
T 3bz5_A          325 LNNTELTEL--DVSHNTKLKSLSCVNA  349 (457)
T ss_dssp             CTTCCCSCC--CCTTCTTCSEEECCSS
T ss_pred             CCCCccccc--ccccCCcCcEEECCCC
Confidence            10    010  2334666777776664

>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=99.91  E-value=2.4e-23  Score=214.89  Aligned_cols=149  Identities=25%  Similarity=0.308  Sum_probs=69.4

Q ss_pred             cCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccch-hcCCCCCcE
Q 040303           85 LKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS-LGLLTNLRT  162 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~-i~~l~~L~~  162 (552)
                      ++++++|++++|.+....+..+ .+++|++|++++|...  .++...|.++++|++|++++|.+..+|.. ++++++|++
T Consensus        31 ~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~i~--~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  108 (477)
T 2id5_A           31 PTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVS--AVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTK  108 (477)
T ss_dssp             CTTCSEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCC--EECTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCCE
T ss_pred             CCCCcEEECCCCccceECHhHccCCCCCCEEECCCCccC--EeChhhhhCCccCCEEECCCCcCCccCcccccCCCCCCE
Confidence            3445555555555544222222 4555555555544333  33222334555555555555555444432 344555555


Q ss_pred             EEccCCCCCC--hhhhcCCCCccEEEecCCcCccc-chhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcc
Q 040303          163 LCLYCSELQD--IAVIGELKNLEILCLRGSYIEQL-PVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       163 L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~l-p~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                      |++++|.+..  +..+.++++|++|++++|.+..+ |..+..+++|++|++++|. +..++...+..+++|+.|++.
T Consensus       109 L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~l~~l~~L~~L~l~  184 (477)
T 2id5_A          109 LDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCN-LTSIPTEALSHLHGLIVLRLR  184 (477)
T ss_dssp             EECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCC-CSSCCHHHHTTCTTCCEEEEE
T ss_pred             EECCCCccccCChhHccccccCCEEECCCCccceeChhhccCCCCCCEEECCCCc-CcccChhHhcccCCCcEEeCC
Confidence            5555555443  34445555555555555544433 2234445555555555543 444444334455555555544

>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=99.91  E-value=3.9e-23  Score=213.25  Aligned_cols=312  Identities=23%  Similarity=0.230  Sum_probs=229.4

Q ss_pred             cEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccc-cchhcCCCCCcEEEccC
Q 040303           89 TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLL-PSSLGLLTNLRTLCLYC  167 (552)
Q Consensus        89 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~l-p~~i~~l~~L~~L~l~~  167 (552)
                      +.++.+++.+.. +|... .+++++|++++|...  .++...|.++++|++|++++|.+..+ |..++++++|++|++++
T Consensus        14 ~~v~c~~~~l~~-ip~~~-~~~l~~L~L~~n~l~--~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~   89 (477)
T 2id5_A           14 RAVLCHRKRFVA-VPEGI-PTETRLLDLGKNRIK--TLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRS   89 (477)
T ss_dssp             TEEECCSCCCSS-CCSCC-CTTCSEEECCSSCCC--EECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CEEEeCCCCcCc-CCCCC-CCCCcEEECCCCccc--eECHhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCC
Confidence            567777777766 66533 368999999998766  66666679999999999999999876 77899999999999999


Q ss_pred             CCCCC-h-hhhcCCCCccEEEecCCcCccc-chhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhh
Q 040303          168 SELQD-I-AVIGELKNLEILCLRGSYIEQL-PVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVE  244 (552)
Q Consensus       168 ~~~~~-~-~~i~~L~~L~~L~l~~~~l~~l-p~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  244 (552)
                      |.+.. | ..+.++++|++|++++|.+..+ |..+.++++|++|++++|. +..++...++.+++|++|++.++..    
T Consensus        90 n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l----  164 (477)
T 2id5_A           90 NRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDND-LVYISHRAFSGLNSLEQLTLEKCNL----  164 (477)
T ss_dssp             SCCCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECCTT-CCEECTTSSTTCTTCCEEEEESCCC----
T ss_pred             CcCCccCcccccCCCCCCEEECCCCccccCChhHccccccCCEEECCCCc-cceeChhhccCCCCCCEEECCCCcC----
Confidence            99887 4 4689999999999999988865 5578999999999999987 6666555589999999999985543    


Q ss_pred             hhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcc--cccCCceEEEEecccccCCCCCCcccceeeecCcccccccc
Q 040303          245 VEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL--FFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFK  322 (552)
Q Consensus       245 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~--~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~  322 (552)
                            .......+..+++|+.|++++|.+..++...  .+++|+.|.+..+.....                     .+
T Consensus       165 ------~~~~~~~l~~l~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~~~~~~~---------------------~~  217 (477)
T 2id5_A          165 ------TSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDT---------------------MT  217 (477)
T ss_dssp             ------SSCCHHHHTTCTTCCEEEEESCCCCEECTTCSCSCTTCCEEEEECCTTCCE---------------------EC
T ss_pred             ------cccChhHhcccCCCcEEeCCCCcCcEeChhhcccCcccceeeCCCCccccc---------------------cC
Confidence                  1223456889999999999999988777643  778888888876431100                     01


Q ss_pred             hhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCCCCCCcchhhhhhcccccccceeeeccCCCCCcc
Q 040303          323 SGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNT  402 (552)
Q Consensus       323 ~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~  402 (552)
                      .... ...+|+.|++.++.-   ..++. ..+..+++|+.|++++|.                  +..+.          
T Consensus       218 ~~~~-~~~~L~~L~l~~n~l---~~~~~-~~~~~l~~L~~L~Ls~n~------------------l~~~~----------  264 (477)
T 2id5_A          218 PNCL-YGLNLTSLSITHCNL---TAVPY-LAVRHLVYLRFLNLSYNP------------------ISTIE----------  264 (477)
T ss_dssp             TTTT-TTCCCSEEEEESSCC---CSCCH-HHHTTCTTCCEEECCSSC------------------CCEEC----------
T ss_pred             cccc-cCccccEEECcCCcc---cccCH-HHhcCccccCeeECCCCc------------------CCccC----------
Confidence            1111 124788888877654   22221 123467888888888876                  11111          


Q ss_pred             ccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCC
Q 040303          403 FFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECP  475 (552)
Q Consensus       403 ~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~  475 (552)
                      ......+++|+.|++.++.+..+......    .+++|+.|+++++ .++.+++ ..+..+++|++|++.+++
T Consensus       265 ~~~~~~l~~L~~L~L~~n~l~~~~~~~~~----~l~~L~~L~L~~N-~l~~~~~-~~~~~l~~L~~L~l~~N~  331 (477)
T 2id5_A          265 GSMLHELLRLQEIQLVGGQLAVVEPYAFR----GLNYLRVLNVSGN-QLTTLEE-SVFHSVGNLETLILDSNP  331 (477)
T ss_dssp             TTSCTTCTTCCEEECCSSCCSEECTTTBT----TCTTCCEEECCSS-CCSCCCG-GGBSCGGGCCEEECCSSC
T ss_pred             hhhccccccCCEEECCCCccceECHHHhc----CcccCCEEECCCC-cCceeCH-hHcCCCcccCEEEccCCC
Confidence            01224678888888888877766443333    7788899988885 7777766 346778888888888775

>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=99.91  E-value=2.4e-23  Score=219.30  Aligned_cols=376  Identities=14%  Similarity=0.056  Sum_probs=229.4

Q ss_pred             cccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccccc--chhcCCCC
Q 040303           83 GALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLP--SSLGLLTN  159 (552)
Q Consensus        83 ~~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp--~~i~~l~~  159 (552)
                      ...+++++|++++|.+....+..+ .+++|++|++++|...  .+|..   .+++|++|++++|.+..+|  ..++++++
T Consensus        73 ~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~--~lp~~---~l~~L~~L~Ls~N~l~~l~~p~~~~~l~~  147 (562)
T 3a79_B           73 SFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNRLQ--NISCC---PMASLRHLDLSFNDFDVLPVCKEFGNLTK  147 (562)
T ss_dssp             TTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECTTSCCC--EECSC---CCTTCSEEECCSSCCSBCCCCGGGGGCTT
T ss_pred             ccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECCCCcCC--ccCcc---ccccCCEEECCCCCccccCchHhhcccCc
Confidence            457889999999999988556555 8999999999999876  78875   7999999999999998754  78999999


Q ss_pred             CcEEEccCCCCCC--hhhhcCCCCccEEEecCCcC--c-ccchhhcc--------------------------CCCCCEE
Q 040303          160 LRTLCLYCSELQD--IAVIGELKNLEILCLRGSYI--E-QLPVEIGQ--------------------------LTRLRSL  208 (552)
Q Consensus       160 L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l--~-~lp~~i~~--------------------------l~~L~~L  208 (552)
                      |++|++++|.+..  ...+.++ +|++|++++|.+  . ..|..+..                          +++|+.|
T Consensus       148 L~~L~L~~n~l~~~~~~~l~~L-~L~~L~L~~n~l~~~~~~~~~l~~l~~~~l~l~l~~n~~~~~~~~~~~~~l~~L~~L  226 (562)
T 3a79_B          148 LTFLGLSAAKFRQLDLLPVAHL-HLSCILLDLVSYHIKGGETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQLS  226 (562)
T ss_dssp             CCEEEEECSBCCTTTTGGGTTS-CEEEEEEEESSCCCCSSSCCEEEECCEEEEEEEECSSSCCCCCCEEEESSEEEEEEE
T ss_pred             ccEEecCCCccccCchhhhhhc-eeeEEEeecccccccccCcccccccCcceEEEEecCccchhhhhhhcccccceEEEe
Confidence            9999999999876  3444444 459999999977  3 33444433                          4567777


Q ss_pred             eccCCC----CCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCC-cCCCcc--
Q 040303          209 DLRDCD----RLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVN-TLPKGL--  281 (552)
Q Consensus       209 ~l~~~~----~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~-~~p~~~--  281 (552)
                      ++++|.    .+...... +..+++|+.|++.+.......      .. .........+|++|++++|.+. .+|..+  
T Consensus       227 ~l~~n~~~~~~l~~~~~~-l~~l~~L~~L~L~~~~l~~~~------~~-~~~~~~~~~~L~~L~l~~n~l~~~ip~~~~~  298 (562)
T 3a79_B          227 NIKLNDENCQRLMTFLSE-LTRGPTLLNVTLQHIETTWKC------SV-KLFQFFWPRPVEYLNIYNLTITERIDREEFT  298 (562)
T ss_dssp             EEECCSTTHHHHHHHHHH-HHSCSSCEEEEEEEEEECHHH------HH-HHHHHHTTSSEEEEEEEEEEECSCCCCCCCC
T ss_pred             cccccccccchHHHHHHH-HhccCcceEEEecCCcCcHHH------HH-HHHHhhhcccccEEEEeccEeeccccchhhh
Confidence            777653    11112223 577888888887633221000      00 0111223347888888877744 666654  


Q ss_pred             -cccCCceEEEEecccccCCCCC--------CcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcceeeeccc
Q 040303          282 -FFEKLERYRICIGRWCWEDTSP--------TCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNK  352 (552)
Q Consensus       282 -~l~~L~~L~l~~~~~~~~~~~~--------~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~  352 (552)
                       ...+|+.|.+........ ..+        ...+...+.+..+.-....  ....+++|+.|++.++.-..  ..+.  
T Consensus       299 ~~~~~L~~L~~~~~~~~~~-~~p~~~~~~~~~~~~L~~L~l~~n~~~~~~--~~~~l~~L~~L~l~~n~l~~--~~~~--  371 (562)
T 3a79_B          299 YSETALKSLMIEHVKNQVF-LFSKEALYSVFAEMNIKMLSISDTPFIHMV--CPPSPSSFTFLNFTQNVFTD--SVFQ--  371 (562)
T ss_dssp             CCSCSCCEEEEEEEEECCC-SSCHHHHHHHHHTCCCSEEEEESSCCCCCC--CCSSCCCCCEEECCSSCCCT--TTTT--
T ss_pred             cccccchheehhhccccee-ecChhhhhhhhccCcceEEEccCCCccccc--CccCCCCceEEECCCCcccc--chhh--
Confidence             124455544433221000 000        0011122222211111110  00235677777777655311  1111  


Q ss_pred             cCcccccccEEEeecCC-CCCC---cchhhhhhc----ccccccce-eeeccCCCCCccccccccCCCcccccccceeee
Q 040303          353 LGSYSSQLKHLWVEGCQ-APSP---KESKRCKES----TSEMRSNE-IILEDHVNVPNTFFLKGGLPNLETLELYNVNVE  423 (552)
Q Consensus       353 ~~~~~~~L~~L~l~~c~-~~lp---~~~~~~~~L----i~~c~l~~-l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~  423 (552)
                      ....+++|+.|++++|. ..+|   ..+..+++|    ++.+.+.. +.          ......+++|+.|++++|.+.
T Consensus       372 ~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~----------~~~~~~l~~L~~L~l~~n~l~  441 (562)
T 3a79_B          372 GCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAY----------DRTCAWAESILVLNLSSNMLT  441 (562)
T ss_dssp             TCCSCSSCCEEECCSSCCCBTTHHHHTTTTCTTCCEEECTTSCCBSCCS----------SCCCCCCTTCCEEECCSSCCC
T ss_pred             hhcccCCCCEEECCCCCcCCcccchhhhcCCCCCCEEECCCCcCCCccC----------hhhhcCcccCCEEECCCCCCC
Confidence            23456777777777776 2222   222333333    22222222 11          012346789999999999765


Q ss_pred             EeccCCCCcccccc-CcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEEec
Q 040303          424 RIWKSQLPAMSCGI-QTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMV  502 (552)
Q Consensus       424 ~~~~~~~~~~~~~l-~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~  502 (552)
                      .....       .+ ++|+.|+++++ +++.+|..  +..+++|++|++.++. ++.++.  +   ....+++|+.|++.
T Consensus       442 ~~~~~-------~l~~~L~~L~L~~N-~l~~ip~~--~~~l~~L~~L~L~~N~-l~~l~~--~---~~~~l~~L~~L~l~  505 (562)
T 3a79_B          442 GSVFR-------CLPPKVKVLDLHNN-RIMSIPKD--VTHLQALQELNVASNQ-LKSVPD--G---VFDRLTSLQYIWLH  505 (562)
T ss_dssp             GGGGS-------SCCTTCSEEECCSS-CCCCCCTT--TTSSCCCSEEECCSSC-CCCCCT--T---STTTCTTCCCEECC
T ss_pred             cchhh-------hhcCcCCEEECCCC-cCcccChh--hcCCCCCCEEECCCCC-CCCCCH--H---HHhcCCCCCEEEec
Confidence            32111       33 69999999986 88888873  5589999999999974 666532  1   13458999999999


Q ss_pred             ccc
Q 040303          503 DLE  505 (552)
Q Consensus       503 ~c~  505 (552)
                      +++
T Consensus       506 ~N~  508 (562)
T 3a79_B          506 DNP  508 (562)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            876

>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=99.90  E-value=1.5e-22  Score=216.79  Aligned_cols=144  Identities=24%  Similarity=0.293  Sum_probs=118.9

Q ss_pred             EEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEEccCC
Q 040303           90 SIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCS  168 (552)
Q Consensus        90 ~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~~~  168 (552)
                      +.+-++..+.. +|... -+.+++|++++|.+.  .+|+..|.++++|++|+|++|.++.+|+ .++++++|++|+|++|
T Consensus        35 ~~~c~~~~l~~-vP~~l-p~~~~~LdLs~N~i~--~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N  110 (635)
T 4g8a_A           35 TYQCMELNFYK-IPDNL-PFSTKNLDLSFNPLR--HLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN  110 (635)
T ss_dssp             EEECTTSCCSS-CCSSS-CTTCCEEECTTSCCC--EECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTC
T ss_pred             EEECCCCCcCc-cCCCC-CcCCCEEEeeCCCCC--CCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCC
Confidence            34444445555 66432 147999999999876  7888778999999999999999998865 5899999999999999


Q ss_pred             CCCC-h-hhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEeccCCCCCCc--cCcccccCCCCCcEEEccccc
Q 040303          169 ELQD-I-AVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQV--IPPNVLSNLSHLEELYIRSFN  239 (552)
Q Consensus       169 ~~~~-~-~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~--~~~~~l~~l~~L~~L~l~~~~  239 (552)
                      .++. | ..|.++.+|++|++++|+++.+|.. ++++++|++|++++|. +..  .|.. ++.+++|++|+++++.
T Consensus       111 ~l~~l~~~~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N~-l~~~~~~~~-~~~l~~L~~L~L~~N~  184 (635)
T 4g8a_A          111 PIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNL-IQSFKLPEY-FSNLTNLEHLDLSSNK  184 (635)
T ss_dssp             CCCEECGGGGTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSC-CCCCCCCGG-GGGCTTCCEEECCSSC
T ss_pred             cCCCCCHHHhcCCCCCCEEECCCCcCCCCChhhhhcCcccCeeccccCc-cccCCCchh-hccchhhhhhcccCcc
Confidence            9987 4 6789999999999999999998875 8999999999999987 443  3444 7899999999998543

>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=99.90  E-value=1.6e-22  Score=207.37  Aligned_cols=366  Identities=17%  Similarity=0.185  Sum_probs=242.0

Q ss_pred             cEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccc-cc-cchhcCCCCCcEEEcc
Q 040303           89 TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLS-LL-PSSLGLLTNLRTLCLY  166 (552)
Q Consensus        89 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~-~l-p~~i~~l~~L~~L~l~  166 (552)
                      +.++..++.+.. +|.  -.++|++|++++|...  .++...|.++++|++|++++|.+. .+ |..++++++|++|+++
T Consensus        13 ~~~~c~~~~l~~-lp~--l~~~l~~L~Ls~n~i~--~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls   87 (455)
T 3v47_A           13 YNAICINRGLHQ-VPE--LPAHVNYVDLSLNSIA--ELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLD   87 (455)
T ss_dssp             TEEECCSSCCSS-CCC--CCTTCCEEECCSSCCC--EECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECT
T ss_pred             cccCcCCCCccc-CCC--CCCccCEEEecCCccC--cCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCC
Confidence            445666666666 666  3378999999988765  554455688999999999999775 44 4568889999999999


Q ss_pred             CCCCCC--hhhhcCCCCccEEEecCCcCcc-cchh--hccCCCCCEEeccCCCCCCcc-CcccccCCCCCcEEEcccccc
Q 040303          167 CSELQD--IAVIGELKNLEILCLRGSYIEQ-LPVE--IGQLTRLRSLDLRDCDRLQVI-PPNVLSNLSHLEELYIRSFNK  240 (552)
Q Consensus       167 ~~~~~~--~~~i~~L~~L~~L~l~~~~l~~-lp~~--i~~l~~L~~L~l~~~~~~~~~-~~~~l~~l~~L~~L~l~~~~~  240 (552)
                      +|.+..  |..++++++|++|++++|.++. .|..  +.++++|++|++++|. +..+ |...++++++|++|+++++..
T Consensus        88 ~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~~l~~L~~L~L~~n~l  166 (455)
T 3v47_A           88 YNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNN-IKKIQPASFFLNMRRFHVLDLTFNKV  166 (455)
T ss_dssp             TCTTCEECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSB-CCSCCCCGGGGGCTTCCEEECTTCCB
T ss_pred             CCccCccChhhccCcccCCEEeCCCCCCCccccCcccccCcccCCEEECCCCc-cCccCcccccCCCCcccEEeCCCCcc
Confidence            998776  6788999999999999998874 4444  8888999999999887 4444 554468889999998875433


Q ss_pred             chhhhhhhcccccChhhhcCC--CCCcEEEccCCCCCcCCCcc-cccCCceEEEEecccccCCCCCCcccceeeecCccc
Q 040303          241 WEVEVEAAGVKNASLEELKRL--PNLTTLELCIPDVNTLPKGL-FFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDN  317 (552)
Q Consensus       241 ~~~~~~~~~~~~~~~~~l~~l--~~L~~L~l~~~~~~~~p~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~  317 (552)
                                .......+..+  .+|+.|+++.+.+..++... ...                                 
T Consensus       167 ----------~~~~~~~l~~l~~~~L~~L~l~~n~l~~~~~~~~~~~---------------------------------  203 (455)
T 3v47_A          167 ----------KSICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWE---------------------------------  203 (455)
T ss_dssp             ----------SCCCTTTSGGGTTCEEEEEECTTCBCTTCSTTCTTHH---------------------------------
T ss_pred             ----------cccChhhhhccccccccccccccCcccccchhhcccc---------------------------------
Confidence                      11122333333  57788888877766554321 000                                 


Q ss_pred             ccccchhHHHHhchheeeeecCCCCCcceeeeccc-cCcccccccEEEeecCCCCCCcchhhhhhcccccccceeeeccC
Q 040303          318 CISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNK-LGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDH  396 (552)
Q Consensus       318 ~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li~~c~l~~l~~~~~  396 (552)
                          .......+++|+.|+++++.-  ....+..+ .....++|+.|++++|.......        ....+...     
T Consensus       204 ----~~~~~~~~~~L~~L~Ls~n~l--~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~--------~~~~~~~~-----  264 (455)
T 3v47_A          204 ----KCGNPFKNTSITTLDLSGNGF--KESMAKRFFDAIAGTKIQSLILSNSYNMGSSF--------GHTNFKDP-----  264 (455)
T ss_dssp             ----HHCCTTTTCEEEEEECTTSCC--CHHHHHHHHHHTTTCCEEEEECTTCTTTSCCT--------TCCSSCCC-----
T ss_pred             ----ccccccccceeeeEecCCCcc--cccchhhhhccccccceeeEeecccccccccc--------chhhhccC-----
Confidence                000001236788888887654  11111111 01123789999999886110000        00000000     


Q ss_pred             CCCCccccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCc
Q 040303          397 VNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPI  476 (552)
Q Consensus       397 ~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~  476 (552)
                         ..........++|+.|+++++.+..+......    .+++|++|++.+| .+..+++ ..+..+++|++|++.+|. 
T Consensus       265 ---~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~----~l~~L~~L~Ls~n-~l~~~~~-~~~~~l~~L~~L~Ls~N~-  334 (455)
T 3v47_A          265 ---DNFTFKGLEASGVKTCDLSKSKIFALLKSVFS----HFTDLEQLTLAQN-EINKIDD-NAFWGLTHLLKLNLSQNF-  334 (455)
T ss_dssp             ---CTTTTGGGTTSCCCEEECCSSCCCEECTTTTT----TCTTCCEEECTTS-CCCEECT-TTTTTCTTCCEEECCSSC-
T ss_pred             ---cccccccccccCceEEEecCccccccchhhcc----cCCCCCEEECCCC-cccccCh-hHhcCcccCCEEECCCCc-
Confidence               00111112357999999999988776544443    7899999999986 5666654 257889999999999985 


Q ss_pred             hhhhhccccccccccccCCccEEEeccccccccccCCcccccCCCccEEEeecCCCcchhhccc
Q 040303          477 LEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRCPEFLLTAHDL  540 (552)
Q Consensus       477 l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~  540 (552)
                      ++.+.. .    ....+++|++|++.++ .++.+....+. .+++|++|+++++ +++.+|.+.
T Consensus       335 l~~~~~-~----~~~~l~~L~~L~Ls~N-~l~~~~~~~~~-~l~~L~~L~L~~N-~l~~~~~~~  390 (455)
T 3v47_A          335 LGSIDS-R----MFENLDKLEVLDLSYN-HIRALGDQSFL-GLPNLKELALDTN-QLKSVPDGI  390 (455)
T ss_dssp             CCEECG-G----GGTTCTTCCEEECCSS-CCCEECTTTTT-TCTTCCEEECCSS-CCSCCCTTT
T ss_pred             cCCcCh-h----HhcCcccCCEEECCCC-cccccChhhcc-ccccccEEECCCC-ccccCCHhH
Confidence            444421 1    2345899999999998 56666544443 7899999999996 577776543

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

Probab=99.90  E-value=1.5e-23  Score=213.68  Aligned_cols=136  Identities=19%  Similarity=0.236  Sum_probs=51.3

Q ss_pred             CcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCC-------------ccEEEeecccccccc
Q 040303           86 KFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQ-------------VRVLDLTYMHLSLLP  151 (552)
Q Consensus        86 ~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~-------------Lr~L~l~~~~~~~lp  151 (552)
                      ..+++++++++.+.. +|..+ .+++|++|++++|.... .+|.++ +++++             +++|+++++.++.+|
T Consensus        11 ~~L~~L~l~~n~l~~-iP~~i~~L~~L~~L~l~~n~~~~-~~p~~~-~~l~~L~~l~l~~c~~~~l~~L~l~~~~l~~lp   87 (454)
T 1jl5_A           11 TFLQEPLRHSSNLTE-MPVEAENVKSKTEYYNAWSEWER-NAPPGN-GEQREMAVSRLRDCLDRQAHELELNNLGLSSLP   87 (454)
T ss_dssp             ------------------------CCHHHHHHHHHHHHH-TSCTTS-CCCHHHHHHHHHHHHHHTCSEEECTTSCCSCCC
T ss_pred             ccchhhhcccCchhh-CChhHhcccchhhhhccCCcccc-cCCccc-ccchhcchhhhhhhhccCCCEEEecCCccccCC
Confidence            445566666665533 55333 55666666655544322 344433 33333             255555555555444


Q ss_pred             chhcCCCCCcEEEccCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCC
Q 040303          152 SSLGLLTNLRTLCLYCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHL  230 (552)
Q Consensus       152 ~~i~~l~~L~~L~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L  230 (552)
                      ..   .++|++|++++|.++. |..   +.+|++|++++|.++.+|..   .++|++|++++|. +..+| + ++++++|
T Consensus        88 ~~---~~~L~~L~l~~n~l~~lp~~---~~~L~~L~l~~n~l~~l~~~---~~~L~~L~L~~n~-l~~lp-~-~~~l~~L  155 (454)
T 1jl5_A           88 EL---PPHLESLVASCNSLTELPEL---PQSLKSLLVDNNNLKALSDL---PPLLEYLGVSNNQ-LEKLP-E-LQNSSFL  155 (454)
T ss_dssp             SC---CTTCSEEECCSSCCSSCCCC---CTTCCEEECCSSCCSCCCSC---CTTCCEEECCSSC-CSSCC-C-CTTCTTC
T ss_pred             CC---cCCCCEEEccCCcCCccccc---cCCCcEEECCCCccCcccCC---CCCCCEEECcCCC-CCCCc-c-cCCCCCC
Confidence            41   2445555555555444 221   24444455544444443321   1344455544443 33344 2 4444455


Q ss_pred             cEEEcc
Q 040303          231 EELYIR  236 (552)
Q Consensus       231 ~~L~l~  236 (552)
                      ++|+++
T Consensus       156 ~~L~l~  161 (454)
T 1jl5_A          156 KIIDVD  161 (454)
T ss_dssp             CEEECC
T ss_pred             CEEECC
Confidence            555444

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

Probab=99.90  E-value=1.1e-22  Score=207.30  Aligned_cols=298  Identities=17%  Similarity=0.132  Sum_probs=216.1

Q ss_pred             cCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCChhhhcCCCCccEE
Q 040303          106 LECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEIL  185 (552)
Q Consensus       106 ~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L  185 (552)
                      ..+++|++|+++++...  .+| + +..+++|++|++++|.++.+|  ++.+++|++|++++|.+...+ ++++++|++|
T Consensus        39 ~~l~~L~~L~Ls~n~l~--~~~-~-l~~l~~L~~L~Ls~n~l~~~~--~~~l~~L~~L~Ls~N~l~~~~-~~~l~~L~~L  111 (457)
T 3bz5_A           39 EQLATLTSLDCHNSSIT--DMT-G-IEKLTGLTKLICTSNNITTLD--LSQNTNLTYLACDSNKLTNLD-VTPLTKLTYL  111 (457)
T ss_dssp             HHHTTCCEEECCSSCCC--CCT-T-GGGCTTCSEEECCSSCCSCCC--CTTCTTCSEEECCSSCCSCCC-CTTCTTCCEE
T ss_pred             hHcCCCCEEEccCCCcc--cCh-h-hcccCCCCEEEccCCcCCeEc--cccCCCCCEEECcCCCCceee-cCCCCcCCEE
Confidence            36889999999998765  566 3 588999999999999998886  889999999999999988843 8899999999


Q ss_pred             EecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCc
Q 040303          186 CLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLT  265 (552)
Q Consensus       186 ~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~  265 (552)
                      ++++|.++.+|  ++++++|++|++++|. +..++   ++.+++|++|+++++...          . . ..++.+++|+
T Consensus       112 ~L~~N~l~~l~--~~~l~~L~~L~l~~N~-l~~l~---l~~l~~L~~L~l~~n~~~----------~-~-~~~~~l~~L~  173 (457)
T 3bz5_A          112 NCDTNKLTKLD--VSQNPLLTYLNCARNT-LTEID---VSHNTQLTELDCHLNKKI----------T-K-LDVTPQTQLT  173 (457)
T ss_dssp             ECCSSCCSCCC--CTTCTTCCEEECTTSC-CSCCC---CTTCTTCCEEECTTCSCC----------C-C-CCCTTCTTCC
T ss_pred             ECCCCcCCeec--CCCCCcCCEEECCCCc-cceec---cccCCcCCEEECCCCCcc----------c-c-cccccCCcCC
Confidence            99999999886  8899999999999987 66664   688999999999855321          0 1 1477889999


Q ss_pred             EEEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcc
Q 040303          266 TLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDI  345 (552)
Q Consensus       266 ~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~  345 (552)
                      .|++++|.+..+| ...                                              +++|+.|++.++.-..+
T Consensus       174 ~L~ls~n~l~~l~-l~~----------------------------------------------l~~L~~L~l~~N~l~~~  206 (457)
T 3bz5_A          174 TLDCSFNKITELD-VSQ----------------------------------------------NKLLNRLNCDTNNITKL  206 (457)
T ss_dssp             EEECCSSCCCCCC-CTT----------------------------------------------CTTCCEEECCSSCCSCC
T ss_pred             EEECCCCccceec-ccc----------------------------------------------CCCCCEEECcCCcCCee
Confidence            9999998877654 112                                              35666666666543222


Q ss_pred             eeeeccccCcccccccEEEeecCC-CCCCcchhhhhhcccccccceeeeccCCCCCccccccccCCCcccccccceeeeE
Q 040303          346 IELVNNKLGSYSSQLKHLWVEGCQ-APSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVER  424 (552)
Q Consensus       346 ~~~~~~~~~~~~~~L~~L~l~~c~-~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~  424 (552)
                             ....+++|+.|++++|. ..+|                                .+.+++|+.|+++++.+..
T Consensus       207 -------~l~~l~~L~~L~Ls~N~l~~ip--------------------------------~~~l~~L~~L~l~~N~l~~  247 (457)
T 3bz5_A          207 -------DLNQNIQLTFLDCSSNKLTEID--------------------------------VTPLTQLTYFDCSVNPLTE  247 (457)
T ss_dssp             -------CCTTCTTCSEEECCSSCCSCCC--------------------------------CTTCTTCSEEECCSSCCSC
T ss_pred             -------ccccCCCCCEEECcCCcccccC--------------------------------ccccCCCCEEEeeCCcCCC
Confidence                   13578999999999987 1111                                2568899999999997766


Q ss_pred             eccCCCCccccccCcc----------eEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhccc-cccc-cccc
Q 040303          425 IWKSQLPAMSCGIQTL----------TRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVID-QQER-KNVV  492 (552)
Q Consensus       425 ~~~~~~~~~~~~l~~L----------~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~-~~~~-~~~~  492 (552)
                      ++..       .+++|          +.|++.+|..+..+|    .+.+++|+.|++.+|..+..++... .... .+..
T Consensus       248 ~~~~-------~l~~L~~L~l~~n~L~~L~l~~n~~~~~~~----~~~l~~L~~L~Ls~n~~l~~l~~~~~~L~~L~l~~  316 (457)
T 3bz5_A          248 LDVS-------TLSKLTTLHCIQTDLLEIDLTHNTQLIYFQ----AEGCRKIKELDVTHNTQLYLLDCQAAGITELDLSQ  316 (457)
T ss_dssp             CCCT-------TCTTCCEEECTTCCCSCCCCTTCTTCCEEE----CTTCTTCCCCCCTTCTTCCEEECTTCCCSCCCCTT
T ss_pred             cCHH-------HCCCCCEEeccCCCCCEEECCCCccCCccc----ccccccCCEEECCCCcccceeccCCCcceEechhh
Confidence            5422       34444          455566666565564    3578999999999998777663210 0000 2233


Q ss_pred             cCCccEEEeccccccccccCCcccccCCCccEEEeecC
Q 040303          493 FPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRC  530 (552)
Q Consensus       493 l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C  530 (552)
                      .++|+.|++.++ +++.++   + ..+++|+.|++++.
T Consensus       317 ~~~L~~L~L~~N-~l~~l~---l-~~l~~L~~L~l~~N  349 (457)
T 3bz5_A          317 NPKLVYLYLNNT-ELTELD---V-SHNTKLKSLSCVNA  349 (457)
T ss_dssp             CTTCCEEECTTC-CCSCCC---C-TTCTTCSEEECCSS
T ss_pred             cccCCEEECCCC-cccccc---c-ccCCcCcEEECCCC
Confidence            566666666665 455542   2 26788999988654

>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=99.89  E-value=1.2e-21  Score=191.80  Aligned_cols=156  Identities=17%  Similarity=0.307  Sum_probs=106.1

Q ss_pred             CceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEE
Q 040303          110 QLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILC  186 (552)
Q Consensus       110 ~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~  186 (552)
                      ++++++++++...  .+|..+   .+.|++|++++|.++.++. .++++++|++|++++|.+..  |..++++++|++|+
T Consensus        32 ~l~~l~~~~~~l~--~lp~~~---~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~  106 (330)
T 1xku_A           32 HLRVVQCSDLGLE--KVPKDL---PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLY  106 (330)
T ss_dssp             ETTEEECTTSCCC--SCCCSC---CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEE
T ss_pred             CCeEEEecCCCcc--ccCccC---CCCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEE
Confidence            5666666655433  555533   3567777777777776655 57777788888887777665  56777788888888


Q ss_pred             ecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcE
Q 040303          187 LRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTT  266 (552)
Q Consensus       187 l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~  266 (552)
                      +++|.++.+|..+.  ++|++|++++|. +..++...++++++|++|+++++....        .......+..+++|+.
T Consensus       107 Ls~n~l~~l~~~~~--~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~--------~~~~~~~~~~l~~L~~  175 (330)
T 1xku_A          107 LSKNQLKELPEKMP--KTLQELRVHENE-ITKVRKSVFNGLNQMIVVELGTNPLKS--------SGIENGAFQGMKKLSY  175 (330)
T ss_dssp             CCSSCCSBCCSSCC--TTCCEEECCSSC-CCBBCHHHHTTCTTCCEEECCSSCCCG--------GGBCTTGGGGCTTCCE
T ss_pred             CCCCcCCccChhhc--ccccEEECCCCc-ccccCHhHhcCCccccEEECCCCcCCc--------cCcChhhccCCCCcCE
Confidence            88877777776654  678888887776 566666556778888888877443210        1123456777888888


Q ss_pred             EEccCCCCCcCCCcc
Q 040303          267 LELCIPDVNTLPKGL  281 (552)
Q Consensus       267 L~l~~~~~~~~p~~~  281 (552)
                      |++++|.+..+|..+
T Consensus       176 L~l~~n~l~~l~~~~  190 (330)
T 1xku_A          176 IRIADTNITTIPQGL  190 (330)
T ss_dssp             EECCSSCCCSCCSSC
T ss_pred             EECCCCccccCCccc
Confidence            888888777666543

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

Probab=99.88  E-value=5.6e-22  Score=194.34  Aligned_cols=164  Identities=18%  Similarity=0.285  Sum_probs=105.5

Q ss_pred             CceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccccc-chhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEE
Q 040303          110 QLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLP-SSLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILC  186 (552)
Q Consensus       110 ~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp-~~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~  186 (552)
                      +++.++++++...  .+|..+   .++|++|++++|.+..++ ..++++++|++|++++|.+..  |..++++++|++|+
T Consensus        34 ~l~~l~~~~~~l~--~ip~~~---~~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~  108 (332)
T 2ft3_A           34 HLRVVQCSDLGLK--AVPKEI---SPDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLY  108 (332)
T ss_dssp             ETTEEECCSSCCS--SCCSCC---CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEE
T ss_pred             cCCEEECCCCCcc--ccCCCC---CCCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEE
Confidence            4666666665443  566543   356777777777776653 467777777777777777665  56677777777777


Q ss_pred             ecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcE
Q 040303          187 LRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTT  266 (552)
Q Consensus       187 l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~  266 (552)
                      +++|.++.+|..+.  ++|++|++++|. +..++...++.+++|++|+++++....        .......+..+ +|+.
T Consensus       109 L~~n~l~~l~~~~~--~~L~~L~l~~n~-i~~~~~~~~~~l~~L~~L~l~~n~l~~--------~~~~~~~~~~l-~L~~  176 (332)
T 2ft3_A          109 ISKNHLVEIPPNLP--SSLVELRIHDNR-IRKVPKGVFSGLRNMNCIEMGGNPLEN--------SGFEPGAFDGL-KLNY  176 (332)
T ss_dssp             CCSSCCCSCCSSCC--TTCCEEECCSSC-CCCCCSGGGSSCSSCCEEECCSCCCBG--------GGSCTTSSCSC-CCSC
T ss_pred             CCCCcCCccCcccc--ccCCEEECCCCc-cCccCHhHhCCCccCCEEECCCCcccc--------CCCCcccccCC-ccCE
Confidence            77777777776655  677777777766 566666556777777777776443310        01133445555 7777


Q ss_pred             EEccCCCCCcCCCcccccCCceEEE
Q 040303          267 LELCIPDVNTLPKGLFFEKLERYRI  291 (552)
Q Consensus       267 L~l~~~~~~~~p~~~~l~~L~~L~l  291 (552)
                      |++++|.+..+|..+. ++|+.|.+
T Consensus       177 L~l~~n~l~~l~~~~~-~~L~~L~l  200 (332)
T 2ft3_A          177 LRISEAKLTGIPKDLP-ETLNELHL  200 (332)
T ss_dssp             CBCCSSBCSSCCSSSC-SSCSCCBC
T ss_pred             EECcCCCCCccCcccc-CCCCEEEC
Confidence            7787777776665442 34444443

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

Probab=99.88  E-value=4.5e-22  Score=202.76  Aligned_cols=362  Identities=15%  Similarity=0.062  Sum_probs=196.3

Q ss_pred             CCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccc-cccchhcCCCCC-------------cEEEccCC
Q 040303          103 PEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLS-LLPSSLGLLTNL-------------RTLCLYCS  168 (552)
Q Consensus       103 ~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~-~lp~~i~~l~~L-------------~~L~l~~~  168 (552)
                      |...+...|++|.++++...  .+|.++ +++++|++|++++|.+. .+|.+++++.+|             ++|++++|
T Consensus         5 p~~~~~~~L~~L~l~~n~l~--~iP~~i-~~L~~L~~L~l~~n~~~~~~p~~~~~l~~L~~l~l~~c~~~~l~~L~l~~~   81 (454)
T 1jl5_A            5 PRNVSNTFLQEPLRHSSNLT--EMPVEA-ENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHELELNNL   81 (454)
T ss_dssp             --------------------------------CCHHHHHHHHHHHHHTSCTTSCCCHHHHHHHHHHHHHHTCSEEECTTS
T ss_pred             ccccccccchhhhcccCchh--hCChhH-hcccchhhhhccCCcccccCCcccccchhcchhhhhhhhccCCCEEEecCC
Confidence            34456789999999998773  899886 99999999999999876 799999998875             99999999


Q ss_pred             CCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhh
Q 040303          169 ELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEA  247 (552)
Q Consensus       169 ~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~  247 (552)
                      .++. |. +  .++|++|++++|.++.+|..   +++|++|++++|. +..++..    .++|++|+++++..       
T Consensus        82 ~l~~lp~-~--~~~L~~L~l~~n~l~~lp~~---~~~L~~L~l~~n~-l~~l~~~----~~~L~~L~L~~n~l-------  143 (454)
T 1jl5_A           82 GLSSLPE-L--PPHLESLVASCNSLTELPEL---PQSLKSLLVDNNN-LKALSDL----PPLLEYLGVSNNQL-------  143 (454)
T ss_dssp             CCSCCCS-C--CTTCSEEECCSSCCSSCCCC---CTTCCEEECCSSC-CSCCCSC----CTTCCEEECCSSCC-------
T ss_pred             ccccCCC-C--cCCCCEEEccCCcCCccccc---cCCCcEEECCCCc-cCcccCC----CCCCCEEECcCCCC-------
Confidence            9887 44 2  47999999999999998854   4889999999986 6666642    27999999985543       


Q ss_pred             hcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcccccccchhHHH
Q 040303          248 AGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIV  327 (552)
Q Consensus       248 ~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~  327 (552)
                         .  .+.+++.+++|+.|++++|.+..+|...  .+|+.|.+..+................+.+..+.....+.    
T Consensus       144 ---~--~lp~~~~l~~L~~L~l~~N~l~~lp~~~--~~L~~L~L~~n~l~~l~~~~~l~~L~~L~l~~N~l~~l~~----  212 (454)
T 1jl5_A          144 ---E--KLPELQNSSFLKIIDVDNNSLKKLPDLP--PSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKLPD----  212 (454)
T ss_dssp             ---S--SCCCCTTCTTCCEEECCSSCCSCCCCCC--TTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCSSCCC----
T ss_pred             ---C--CCcccCCCCCCCEEECCCCcCcccCCCc--ccccEEECcCCcCCcCccccCCCCCCEEECCCCcCCcCCC----
Confidence               1  1225889999999999999988887654  5888888877664333222233333444444332222221    


Q ss_pred             HhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC-CCCCcchhhhhhc-ccccccceee----------ecc
Q 040303          328 QLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ-APSPKESKRCKES-TSEMRSNEII----------LED  395 (552)
Q Consensus       328 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~-~~lp~~~~~~~~L-i~~c~l~~l~----------~~~  395 (552)
                      ..++|+.|++.++.-   ..++.   ...+++|++|++++|. ..+|....++..| +..+.+..+.          ...
T Consensus       213 ~~~~L~~L~l~~n~l---~~lp~---~~~l~~L~~L~l~~N~l~~l~~~~~~L~~L~l~~N~l~~l~~~~~~L~~L~ls~  286 (454)
T 1jl5_A          213 LPLSLESIVAGNNIL---EELPE---LQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSE  286 (454)
T ss_dssp             CCTTCCEEECCSSCC---SSCCC---CTTCTTCCEEECCSSCCSSCCSCCTTCCEEECCSSCCSCCCCCCTTCCEEECCS
T ss_pred             CcCcccEEECcCCcC---Ccccc---cCCCCCCCEEECCCCcCCcccccccccCEEECCCCcccccCcccCcCCEEECcC
Confidence            124778888877654   23331   3467888888888876 3444433333333 3333322211          100


Q ss_pred             CCCCCccccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCC
Q 040303          396 HVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECP  475 (552)
Q Consensus       396 ~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~  475 (552)
                      . ....+.   ...++|+.|+++++.+..+..        ..++|++|+++++ ++..+|.     .+++|++|++.+|.
T Consensus       287 N-~l~~l~---~~~~~L~~L~l~~N~l~~i~~--------~~~~L~~L~Ls~N-~l~~lp~-----~~~~L~~L~L~~N~  348 (454)
T 1jl5_A          287 N-IFSGLS---ELPPNLYYLNASSNEIRSLCD--------LPPSLEELNVSNN-KLIELPA-----LPPRLERLIASFNH  348 (454)
T ss_dssp             S-CCSEES---CCCTTCCEEECCSSCCSEECC--------CCTTCCEEECCSS-CCSCCCC-----CCTTCCEEECCSSC
T ss_pred             C-ccCccc---CcCCcCCEEECcCCcCCcccC--------CcCcCCEEECCCC-ccccccc-----cCCcCCEEECCCCc
Confidence            0 000000   112345555555554443211        1246777777763 5666654     25777777777763


Q ss_pred             chhhhhccccccccccccCCccEEEecccccccc---ccCCcc-----------cccCCCccEEEeecCC
Q 040303          476 ILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTS---FCTGDV-----------HIEFPTLETLEVIRCP  531 (552)
Q Consensus       476 ~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~---~~~~~~-----------~~~~~~L~~L~i~~C~  531 (552)
                       ++.++.         .+++|++|++.+++ ++.   +|....           +..+++|+.|++++++
T Consensus       349 -l~~lp~---------~l~~L~~L~L~~N~-l~~l~~ip~~l~~L~~n~~~~~i~~~~~~L~~L~ls~N~  407 (454)
T 1jl5_A          349 -LAEVPE---------LPQNLKQLHVEYNP-LREFPDIPESVEDLRMNSHLAEVPELPQNLKQLHVETNP  407 (454)
T ss_dssp             -CSCCCC---------CCTTCCEEECCSSC-CSSCCCCCTTCCEEECCC---------------------
T ss_pred             -cccccc---------hhhhccEEECCCCC-CCcCCCChHHHHhhhhcccccccccccCcCCEEECCCCc
Confidence             544421         26778888887764 333   332210           0112677777777764

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

Probab=99.88  E-value=7.7e-22  Score=192.51  Aligned_cols=90  Identities=26%  Similarity=0.418  Sum_probs=76.5

Q ss_pred             CCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEecc
Q 040303          133 KLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLR  211 (552)
Q Consensus       133 ~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~  211 (552)
                      ...++++|+++++.+..+|..++++++|++|++++|.+.. |..++++++|++|++++|.+..+|..++++++|++|+++
T Consensus        79 ~~~~l~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~n~l~~lp~~~~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~L~  158 (328)
T 4fcg_A           79 TQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELSIR  158 (328)
T ss_dssp             TSTTCCEEEEESSCCSSCCSCGGGGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEESCCCCCCCGGGGGCTTCCEEEEE
T ss_pred             cccceeEEEccCCCchhcChhhhhCCCCCEEECCCCCccchhHHHhccCCCCEEECCCCccccCcHHHhcCcCCCEEECC
Confidence            4577888888888888888888888888888888888777 777888888999999888888888888889999999998


Q ss_pred             CCCCCCccCcc
Q 040303          212 DCDRLQVIPPN  222 (552)
Q Consensus       212 ~~~~~~~~~~~  222 (552)
                      +|...+.+|..
T Consensus       159 ~n~~~~~~p~~  169 (328)
T 4fcg_A          159 ACPELTELPEP  169 (328)
T ss_dssp             EETTCCCCCSC
T ss_pred             CCCCccccChh
Confidence            88777777765

>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=99.87  E-value=5.7e-21  Score=186.34  Aligned_cols=180  Identities=25%  Similarity=0.326  Sum_probs=141.8

Q ss_pred             cCcccEEEeecCCCcccCCC-ccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEE
Q 040303           85 LKFYTSIVLHDSKMNVLLPE-VLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTL  163 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~~~~-~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L  163 (552)
                      ..+++.|+++++.+.. +|. ...+++|++|++++|...  .+|..+ .++++|++|++++|.+..+|..++++++|++|
T Consensus        80 ~~~l~~L~L~~n~l~~-lp~~l~~l~~L~~L~L~~n~l~--~lp~~~-~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L  155 (328)
T 4fcg_A           80 QPGRVALELRSVPLPQ-FPDQAFRLSHLQHMTIDAAGLM--ELPDTM-QQFAGLETLTLARNPLRALPASIASLNRLREL  155 (328)
T ss_dssp             STTCCEEEEESSCCSS-CCSCGGGGTTCSEEEEESSCCC--CCCSCG-GGGTTCSEEEEESCCCCCCCGGGGGCTTCCEE
T ss_pred             ccceeEEEccCCCchh-cChhhhhCCCCCEEECCCCCcc--chhHHH-hccCCCCEEECCCCccccCcHHHhcCcCCCEE
Confidence            4678889999988886 665 447889999999988766  677765 78899999999999888888889999999999


Q ss_pred             EccCCCCC-C-hhhhcC---------CCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcE
Q 040303          164 CLYCSELQ-D-IAVIGE---------LKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEE  232 (552)
Q Consensus       164 ~l~~~~~~-~-~~~i~~---------L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~  232 (552)
                      ++++|.+. . |..++.         +++|++|++++|.++.+|..++++++|++|++++|. +..+|.. ++.+++|++
T Consensus       156 ~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~N~-l~~l~~~-l~~l~~L~~  233 (328)
T 4fcg_A          156 SIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSP-LSALGPA-IHHLPKLEE  233 (328)
T ss_dssp             EEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCCCCCGGGGGCTTCCEEEEESSC-CCCCCGG-GGGCTTCCE
T ss_pred             ECCCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcCcchHhhcCCCCCCEEEccCCC-CCcCchh-hccCCCCCE
Confidence            99987743 3 665554         889999999999888888888899999999998887 6678776 788899999


Q ss_pred             EEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCC-CCcCCCc
Q 040303          233 LYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPD-VNTLPKG  280 (552)
Q Consensus       233 L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~-~~~~p~~  280 (552)
                      |+++++..          ....+..++.+++|+.|++++|. .+.+|..
T Consensus       234 L~Ls~n~~----------~~~~p~~~~~l~~L~~L~L~~n~~~~~~p~~  272 (328)
T 4fcg_A          234 LDLRGCTA----------LRNYPPIFGGRAPLKRLILKDCSNLLTLPLD  272 (328)
T ss_dssp             EECTTCTT----------CCBCCCCTTCCCCCCEEECTTCTTCCBCCTT
T ss_pred             EECcCCcc----------hhhhHHHhcCCCCCCEEECCCCCchhhcchh
Confidence            98875443          22345567888888888888765 4444443

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

Probab=99.86  E-value=1.4e-20  Score=184.38  Aligned_cols=291  Identities=17%  Similarity=0.143  Sum_probs=203.3

Q ss_pred             CCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEecCCcCccc-chhhccCCCCCEEecc
Q 040303          135 TQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQL-PVEIGQLTRLRSLDLR  211 (552)
Q Consensus       135 ~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~l-p~~i~~l~~L~~L~l~  211 (552)
                      .++++++++++.++.+|..+.  .+|++|++++|.+..  +..+.++++|++|++++|.++.+ |..++++++|++|+++
T Consensus        33 c~l~~l~~~~~~l~~ip~~~~--~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~  110 (332)
T 2ft3_A           33 CHLRVVQCSDLGLKAVPKEIS--PDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYIS  110 (332)
T ss_dssp             EETTEEECCSSCCSSCCSCCC--TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECC
T ss_pred             ccCCEEECCCCCccccCCCCC--CCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECC
Confidence            368999999999999998774  799999999999887  56899999999999999999876 6789999999999999


Q ss_pred             CCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcC---CCcccccCCce
Q 040303          212 DCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTL---PKGLFFEKLER  288 (552)
Q Consensus       212 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~---p~~~~l~~L~~  288 (552)
                      +|. +..+|.. +.  ++|++|+++++..          .......+..+++|+.|++++|.+...   +..+.      
T Consensus       111 ~n~-l~~l~~~-~~--~~L~~L~l~~n~i----------~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~------  170 (332)
T 2ft3_A          111 KNH-LVEIPPN-LP--SSLVELRIHDNRI----------RKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFD------  170 (332)
T ss_dssp             SSC-CCSCCSS-CC--TTCCEEECCSSCC----------CCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSC------
T ss_pred             CCc-CCccCcc-cc--ccCCEEECCCCcc----------CccCHhHhCCCccCCEEECCCCccccCCCCccccc------
Confidence            987 7788876 33  8999999985543          112334578899999999998876531   11110      


Q ss_pred             EEEEecccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecC
Q 040303          289 YRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGC  368 (552)
Q Consensus       289 L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c  368 (552)
                                                             .+ +|+.|++.++.-   ..++..    .+++|++|+++++
T Consensus       171 ---------------------------------------~l-~L~~L~l~~n~l---~~l~~~----~~~~L~~L~l~~n  203 (332)
T 2ft3_A          171 ---------------------------------------GL-KLNYLRISEAKL---TGIPKD----LPETLNELHLDHN  203 (332)
T ss_dssp             ---------------------------------------SC-CCSCCBCCSSBC---SSCCSS----SCSSCSCCBCCSS
T ss_pred             ---------------------------------------CC-ccCEEECcCCCC---CccCcc----ccCCCCEEECCCC
Confidence                                                   11 455555555443   222221    2368888888887


Q ss_pred             CCCCCcchhhhhhcccccccceeeeccCCCCCccccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecC
Q 040303          369 QAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGC  448 (552)
Q Consensus       369 ~~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C  448 (552)
                      .                  +..+.          ......+++|+.|+++++.+..+......    .+++|++|++.+|
T Consensus       204 ~------------------i~~~~----------~~~l~~l~~L~~L~L~~N~l~~~~~~~~~----~l~~L~~L~L~~N  251 (332)
T 2ft3_A          204 K------------------IQAIE----------LEDLLRYSKLYRLGLGHNQIRMIENGSLS----FLPTLRELHLDNN  251 (332)
T ss_dssp             C------------------CCCCC----------TTSSTTCTTCSCCBCCSSCCCCCCTTGGG----GCTTCCEEECCSS
T ss_pred             c------------------CCccC----------HHHhcCCCCCCEEECCCCcCCcCChhHhh----CCCCCCEEECCCC
Confidence            6                  11110          01235678999999999977765443332    7899999999986


Q ss_pred             CCccccccchhHhhhcccceEEEecCCchhhhhccccccc-cccccCCccEEEeccccccc-cccCCcccccCCCccEEE
Q 040303          449 GELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQER-KNVVFPQLQFLKMVDLEKLT-SFCTGDVHIEFPTLETLE  526 (552)
Q Consensus       449 ~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~-~~~~l~~L~~L~l~~c~~L~-~~~~~~~~~~~~~L~~L~  526 (552)
                       +++.+|.  .+..+++|++|++.++. ++.+....-... ....+++|+.|++.+++-.. .+....+ ..+++|+.++
T Consensus       252 -~l~~lp~--~l~~l~~L~~L~l~~N~-l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~~~~~~~~~~~~-~~l~~L~~l~  326 (332)
T 2ft3_A          252 -KLSRVPA--GLPDLKLLQVVYLHTNN-ITKVGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEVQPATF-RCVTDRLAIQ  326 (332)
T ss_dssp             -CCCBCCT--TGGGCTTCCEEECCSSC-CCBCCTTSSSCSSCCSSSCCBSEEECCSSSSCGGGSCGGGG-TTBCCSTTEE
T ss_pred             -cCeecCh--hhhcCccCCEEECCCCC-CCccChhHccccccccccccccceEeecCcccccccCcccc-cccchhhhhh
Confidence             7788876  47889999999999875 555522110000 11126789999999987432 3333333 3678899999


Q ss_pred             eecCC
Q 040303          527 VIRCP  531 (552)
Q Consensus       527 i~~C~  531 (552)
                      +.++.
T Consensus       327 l~~n~  331 (332)
T 2ft3_A          327 FGNYK  331 (332)
T ss_dssp             C----
T ss_pred             ccccc
Confidence            88875

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

Probab=99.86  E-value=2.6e-21  Score=187.66  Aligned_cols=243  Identities=18%  Similarity=0.157  Sum_probs=184.6

Q ss_pred             CcccEEEeecCCCcc--cCCCcc-CCCCceEEEeec-CCCCCcccChhHhhCCCCccEEEeeccccc-cccchhcCCCCC
Q 040303           86 KFYTSIVLHDSKMNV--LLPEVL-ECPQLQLLSLWT-EKSSLITLPDNFFRKLTQVRVLDLTYMHLS-LLPSSLGLLTNL  160 (552)
Q Consensus        86 ~~lr~L~l~~~~~~~--~~~~~~-~~~~Lr~L~l~~-~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~-~lp~~i~~l~~L  160 (552)
                      .++++|+++++.+.+  .+|..+ .+++|++|++++ +.... .+|..+ .++++|++|++++|.+. .+|..++++++|
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~l~~-~~p~~l-~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L  127 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVG-PIPPAI-AKLTQLHYLYITHTNVSGAIPDFLSQIKTL  127 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEES-CCCGGG-GGCTTCSEEEEEEECCEEECCGGGGGCTTC
T ss_pred             ceEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCcccc-cCChhH-hcCCCCCEEECcCCeeCCcCCHHHhCCCCC
Confidence            579999999999986  566555 899999999995 65543 667665 89999999999999997 789999999999


Q ss_pred             cEEEccCCCCCC--hhhhcCCCCccEEEecCCcCc-ccchhhccCC-CCCEEeccCCCCCCccCcccccCCCCCcEEEcc
Q 040303          161 RTLCLYCSELQD--IAVIGELKNLEILCLRGSYIE-QLPVEIGQLT-RLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       161 ~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~-~lp~~i~~l~-~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                      ++|++++|.+..  |..+.++++|++|++++|.+. .+|..+++++ +|++|++++|...+.+|.. ++.++ |+.|+++
T Consensus       128 ~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~-~~~l~-L~~L~Ls  205 (313)
T 1ogq_A          128 VTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPT-FANLN-LAFVDLS  205 (313)
T ss_dssp             CEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGG-GGGCC-CSEEECC
T ss_pred             CEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeeccCChH-HhCCc-ccEEECc
Confidence            999999999874  789999999999999999998 8999999998 9999999998854566766 78887 9999998


Q ss_pred             ccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcc-cccCCceEEEEecccccCCCCCCcccceeeecCc
Q 040303          237 SFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL-FFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGT  315 (552)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~  315 (552)
                      ++..          .......+..+++|+.|++++|.+...+..+ .+++|+.|.++.+....                 
T Consensus       206 ~N~l----------~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~l~~L~~L~Ls~N~l~~-----------------  258 (313)
T 1ogq_A          206 RNML----------EGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYG-----------------  258 (313)
T ss_dssp             SSEE----------EECCGGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSSCCEE-----------------
T ss_pred             CCcc----------cCcCCHHHhcCCCCCEEECCCCceeeecCcccccCCCCEEECcCCcccC-----------------
Confidence            5543          1235567889999999999999865443333 66777777765443110                 


Q ss_pred             ccccccchhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC
Q 040303          316 DNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ  369 (552)
Q Consensus       316 ~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~  369 (552)
                           ........+++|+.|++.++.-   ....+..  ..+++|+.|++.+++
T Consensus       259 -----~~p~~l~~l~~L~~L~Ls~N~l---~~~ip~~--~~l~~L~~l~l~~N~  302 (313)
T 1ogq_A          259 -----TLPQGLTQLKFLHSLNVSFNNL---CGEIPQG--GNLQRFDVSAYANNK  302 (313)
T ss_dssp             -----CCCGGGGGCTTCCEEECCSSEE---EEECCCS--TTGGGSCGGGTCSSS
T ss_pred             -----cCChHHhcCcCCCEEECcCCcc---cccCCCC--ccccccChHHhcCCC
Confidence                 1111223457777777776653   3222221  567777777777765

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

Probab=99.86  E-value=3.7e-20  Score=181.24  Aligned_cols=295  Identities=15%  Similarity=0.153  Sum_probs=203.9

Q ss_pred             CCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEecCCcCccc-chhhccCCCCCEEec
Q 040303          134 LTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQL-PVEIGQLTRLRSLDL  210 (552)
Q Consensus       134 l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~l-p~~i~~l~~L~~L~l  210 (552)
                      ..++++++++++.+..+|..+.  .+|++|++++|.+..  +..++++++|++|++++|.+..+ |..++++++|++|++
T Consensus        30 ~c~l~~l~~~~~~l~~lp~~~~--~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  107 (330)
T 1xku_A           30 QCHLRVVQCSDLGLEKVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYL  107 (330)
T ss_dssp             EEETTEEECTTSCCCSCCCSCC--TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC
T ss_pred             cCCCeEEEecCCCccccCccCC--CCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEEC
Confidence            3478999999999999998764  699999999999887  45799999999999999999877 778999999999999


Q ss_pred             cCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEE
Q 040303          211 RDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYR  290 (552)
Q Consensus       211 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~  290 (552)
                      ++|. +..+|.. +.  ++|++|+++++..          .......+..+++|+.|++++|.+...+..          
T Consensus       108 s~n~-l~~l~~~-~~--~~L~~L~l~~n~l----------~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~----------  163 (330)
T 1xku_A          108 SKNQ-LKELPEK-MP--KTLQELRVHENEI----------TKVRKSVFNGLNQMIVVELGTNPLKSSGIE----------  163 (330)
T ss_dssp             CSSC-CSBCCSS-CC--TTCCEEECCSSCC----------CBBCHHHHTTCTTCCEEECCSSCCCGGGBC----------
T ss_pred             CCCc-CCccChh-hc--ccccEEECCCCcc----------cccCHhHhcCCccccEEECCCCcCCccCcC----------
Confidence            9987 7788876 33  7999999985543          122445688999999999998876431100          


Q ss_pred             EEecccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCCC
Q 040303          291 ICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQA  370 (552)
Q Consensus       291 l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~  370 (552)
                                                      ......+++|+.|++.++.-   ..++.    ..+++|++|++++|. 
T Consensus       164 --------------------------------~~~~~~l~~L~~L~l~~n~l---~~l~~----~~~~~L~~L~l~~n~-  203 (330)
T 1xku_A          164 --------------------------------NGAFQGMKKLSYIRIADTNI---TTIPQ----GLPPSLTELHLDGNK-  203 (330)
T ss_dssp             --------------------------------TTGGGGCTTCCEEECCSSCC---CSCCS----SCCTTCSEEECTTSC-
T ss_pred             --------------------------------hhhccCCCCcCEEECCCCcc---ccCCc----cccccCCEEECCCCc-
Confidence                                            00111346667777766543   22222    123788888888876 


Q ss_pred             CCCcchhhhhhcccccccceeeeccCCCCCccccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCC
Q 040303          371 PSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGE  450 (552)
Q Consensus       371 ~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~  450 (552)
                                       +..+.          ......+++|+.|+++++.+..+......    .+++|++|++++| .
T Consensus       204 -----------------l~~~~----------~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~----~l~~L~~L~L~~N-~  251 (330)
T 1xku_A          204 -----------------ITKVD----------AASLKGLNNLAKLGLSFNSISAVDNGSLA----NTPHLRELHLNNN-K  251 (330)
T ss_dssp             -----------------CCEEC----------TGGGTTCTTCCEEECCSSCCCEECTTTGG----GSTTCCEEECCSS-C
T ss_pred             -----------------CCccC----------HHHhcCCCCCCEEECCCCcCceeChhhcc----CCCCCCEEECCCC-c
Confidence                             11111          11235678899999998877776543333    7789999999886 6


Q ss_pred             ccccccchhHhhhcccceEEEecCCchhhhhcccccc-ccccccCCccEEEeccccccc-cccCCcccccCCCccEEEee
Q 040303          451 LRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQE-RKNVVFPQLQFLKMVDLEKLT-SFCTGDVHIEFPTLETLEVI  528 (552)
Q Consensus       451 L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~-~~~~~l~~L~~L~l~~c~~L~-~~~~~~~~~~~~~L~~L~i~  528 (552)
                      +..+|.  .+..+++|++|++.+|. ++.+....... ......++|+.|++.+.|--. .++...+ ..+++|+.++++
T Consensus       252 l~~lp~--~l~~l~~L~~L~l~~N~-i~~~~~~~f~~~~~~~~~~~l~~l~l~~N~~~~~~i~~~~f-~~~~~l~~l~L~  327 (330)
T 1xku_A          252 LVKVPG--GLADHKYIQVVYLHNNN-ISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTF-RCVYVRAAVQLG  327 (330)
T ss_dssp             CSSCCT--TTTTCSSCCEEECCSSC-CCCCCTTSSSCSSCCTTSCCCSEEECCSSSSCGGGSCGGGG-TTCCCGGGEEC-
T ss_pred             CccCCh--hhccCCCcCEEECCCCc-CCccChhhcCCcccccccccccceEeecCcccccccCcccc-ccccceeEEEec
Confidence            778876  47788999999999875 55542211100 011235788899999887321 2333333 256778888877


Q ss_pred             cC
Q 040303          529 RC  530 (552)
Q Consensus       529 ~C  530 (552)
                      ++
T Consensus       328 ~N  329 (330)
T 1xku_A          328 NY  329 (330)
T ss_dssp             --
T ss_pred             cc
Confidence            64

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

Probab=99.84  E-value=1.1e-20  Score=183.32  Aligned_cols=154  Identities=17%  Similarity=0.208  Sum_probs=123.6

Q ss_pred             CCceEEEeecCCCCCc-ccChhHhhCCCCccEEEeec-cccc-cccchhcCCCCCcEEEccCCCCCC--hhhhcCCCCcc
Q 040303          109 PQLQLLSLWTEKSSLI-TLPDNFFRKLTQVRVLDLTY-MHLS-LLPSSLGLLTNLRTLCLYCSELQD--IAVIGELKNLE  183 (552)
Q Consensus       109 ~~Lr~L~l~~~~~~~~-~~~~~~~~~l~~Lr~L~l~~-~~~~-~lp~~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~  183 (552)
                      .+++.|+++++..... .+|..+ .++++|++|++++ +.+. .+|..++++++|++|++++|.+..  |..+.++++|+
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~l-~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~  128 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSSL-ANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLV  128 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGG-GGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCC
T ss_pred             ceEEEEECCCCCccCCcccChhH-hCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCC
Confidence            6899999999876521 466654 8899999999995 7665 689999999999999999999874  78899999999


Q ss_pred             EEEecCCcCc-ccchhhccCCCCCEEeccCCCCCCccCcccccCCC-CCcEEEccccccchhhhhhhcccccChhhhcCC
Q 040303          184 ILCLRGSYIE-QLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLS-HLEELYIRSFNKWEVEVEAAGVKNASLEELKRL  261 (552)
Q Consensus       184 ~L~l~~~~l~-~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~-~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l  261 (552)
                      +|++++|.+. .+|..+.++++|++|++++|...+.+|.. ++.++ +|++|+++++..          ....+..+..+
T Consensus       129 ~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~-l~~l~~~L~~L~L~~N~l----------~~~~~~~~~~l  197 (313)
T 1ogq_A          129 TLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDS-YGSFSKLFTSMTISRNRL----------TGKIPPTFANL  197 (313)
T ss_dssp             EEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGG-GGCCCTTCCEEECCSSEE----------EEECCGGGGGC
T ss_pred             EEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHH-HhhhhhcCcEEECcCCee----------eccCChHHhCC
Confidence            9999999888 78889999999999999998844477776 78887 899999875433          12244556666


Q ss_pred             CCCcEEEccCCCCC
Q 040303          262 PNLTTLELCIPDVN  275 (552)
Q Consensus       262 ~~L~~L~l~~~~~~  275 (552)
                      + |+.|++++|.+.
T Consensus       198 ~-L~~L~Ls~N~l~  210 (313)
T 1ogq_A          198 N-LAFVDLSRNMLE  210 (313)
T ss_dssp             C-CSEEECCSSEEE
T ss_pred             c-ccEEECcCCccc
Confidence            6 888888877644

>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=99.84  E-value=2.1e-20  Score=184.84  Aligned_cols=172  Identities=22%  Similarity=0.257  Sum_probs=103.7

Q ss_pred             EEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccccc-chhcCCCCCcEEEccCC
Q 040303           90 SIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLP-SSLGLLTNLRTLCLYCS  168 (552)
Q Consensus        90 ~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp-~~i~~l~~L~~L~l~~~  168 (552)
                      ..+.+++.+.. +|... .++|++|++++|...  .++...|.++++|++|++++|.++.++ ..++++++|++|++++|
T Consensus        35 ~c~~~~~~l~~-iP~~~-~~~L~~L~l~~n~i~--~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n  110 (353)
T 2z80_A           35 ICKGSSGSLNS-IPSGL-TEAVKSLDLSNNRIT--YISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYN  110 (353)
T ss_dssp             EEECCSTTCSS-CCTTC-CTTCCEEECTTSCCC--EECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS
T ss_pred             EeeCCCCCccc-ccccc-cccCcEEECCCCcCc--ccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCC
Confidence            35555566555 55422 246777777766544  455544566777777777777666553 45667777777777777


Q ss_pred             CCCC-h-hhhcCCCCccEEEecCCcCcccch--hhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhh
Q 040303          169 ELQD-I-AVIGELKNLEILCLRGSYIEQLPV--EIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVE  244 (552)
Q Consensus       169 ~~~~-~-~~i~~L~~L~~L~l~~~~l~~lp~--~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  244 (552)
                      .+.. + ..++++++|++|++++|.++.+|.  .+.++++|++|++++|..+..++...++.+++|++|+++++..    
T Consensus       111 ~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l----  186 (353)
T 2z80_A          111 YLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDL----  186 (353)
T ss_dssp             CCSSCCHHHHTTCTTCSEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTC----
T ss_pred             cCCcCCHhHhCCCccCCEEECCCCCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCc----
Confidence            6665 3 336677777777777776666665  4666777777777766445555544456666666666653322    


Q ss_pred             hhhhcccccChhhhcCCCCCcEEEccCCCCC
Q 040303          245 VEAAGVKNASLEELKRLPNLTTLELCIPDVN  275 (552)
Q Consensus       245 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  275 (552)
                            .......++.+++|++|++++|.+.
T Consensus       187 ------~~~~~~~l~~l~~L~~L~l~~n~l~  211 (353)
T 2z80_A          187 ------QSYEPKSLKSIQNVSHLILHMKQHI  211 (353)
T ss_dssp             ------CEECTTTTTTCSEEEEEEEECSCST
T ss_pred             ------CccCHHHHhccccCCeecCCCCccc
Confidence                  1112344555666666666655543

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=99.84  E-value=3e-21  Score=204.84  Aligned_cols=178  Identities=17%  Similarity=0.118  Sum_probs=112.7

Q ss_pred             CCCCceEEEeecCCCCCcccChhHhhC-CC-CccEEEeeccc-cc--cccchhcCCCCCcEEEccCCCCCC------hhh
Q 040303          107 ECPQLQLLSLWTEKSSLITLPDNFFRK-LT-QVRVLDLTYMH-LS--LLPSSLGLLTNLRTLCLYCSELQD------IAV  175 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~-l~-~Lr~L~l~~~~-~~--~lp~~i~~l~~L~~L~l~~~~~~~------~~~  175 (552)
                      .+++|++|+++++.... ..+..+ .. ++ +|++|++++|. +.  .++..+..+++|++|++++|.+.+      +..
T Consensus       110 ~~~~L~~L~L~~~~i~~-~~~~~l-~~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~~~~~~l~~~  187 (592)
T 3ogk_B          110 NLRQLKSVHFRRMIVSD-LDLDRL-AKARADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHEL  187 (592)
T ss_dssp             HCTTCCEEEEESCBCCH-HHHHHH-HHHHGGGCCEEEEESCEEEEHHHHHHHHHHCTTCSEEECTTCEEECCCSHHHHHH
T ss_pred             hCCCCCeEEeeccEecH-HHHHHH-HHhccccCcEEECcCCCCcCHHHHHHHHhhCCCCCEEECccccccCcchhHHHHH
Confidence            57888888888774432 122222 33 33 48888888775 22  344445578888888888887543      134


Q ss_pred             hcCCCCccEEEecCCcCc-----ccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcc
Q 040303          176 IGELKNLEILCLRGSYIE-----QLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGV  250 (552)
Q Consensus       176 i~~L~~L~~L~l~~~~l~-----~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~  250 (552)
                      ..++++|++|+++++.+.     .++..+.++++|++|++++|. +..++.. ++.+++|++|++..+...       ..
T Consensus       188 ~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~-~~~l~~~-~~~~~~L~~L~l~~~~~~-------~~  258 (592)
T 3ogk_B          188 AQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFE-ILELVGF-FKAAANLEEFCGGSLNED-------IG  258 (592)
T ss_dssp             HHHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCB-GGGGHHH-HHHCTTCCEEEECBCCCC-------TT
T ss_pred             HhcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCcc-HHHHHHH-HhhhhHHHhhcccccccc-------cc
Confidence            567788888888887664     344456677888888888876 5556644 677888888887632210       00


Q ss_pred             cccChhhhcCCCCCcEEEccCCCCCcCCCcc-cccCCceEEEEecc
Q 040303          251 KNASLEELKRLPNLTTLELCIPDVNTLPKGL-FFEKLERYRICIGR  295 (552)
Q Consensus       251 ~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~-~l~~L~~L~l~~~~  295 (552)
                      .......+..+++|+.|+++.+....+|..+ .+++|+.|.++++.
T Consensus       259 ~~~~~~~l~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~  304 (592)
T 3ogk_B          259 MPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYAL  304 (592)
T ss_dssp             CTTSSSCCCCCTTCCEEEETTCCTTTGGGGGGGGGGCCEEEETTCC
T ss_pred             hHHHHHHhhccccccccCccccchhHHHHHHhhcCCCcEEecCCCc
Confidence            1223445666777777777766555566555 56777777776544

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.84  E-value=3.5e-19  Score=186.98  Aligned_cols=255  Identities=22%  Similarity=0.230  Sum_probs=178.9

Q ss_pred             CcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEc
Q 040303           86 KFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCL  165 (552)
Q Consensus        86 ~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l  165 (552)
                      .+++.|+++++.+.. +|.... ++|++|++++|...  .+|.    .+++|++|++++|.++.+|.   .+++|++|++
T Consensus        40 ~~l~~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           40 NGNAVLNVGESGLTT-LPDCLP-AHITTLVIPDNNLT--SLPA----LPPELRTLEVSGNQLTSLPV---LPPGLLELSI  108 (622)
T ss_dssp             HCCCEEECCSSCCSC-CCSCCC-TTCSEEEECSCCCS--CCCC----CCTTCCEEEECSCCCSCCCC---CCTTCCEEEE
T ss_pred             CCCcEEEecCCCcCc-cChhhC-CCCcEEEecCCCCC--CCCC----cCCCCCEEEcCCCcCCcCCC---CCCCCCEEEC
Confidence            357899999999886 776443 89999999998765  6775    57899999999999998887   7899999999


Q ss_pred             cCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhh
Q 040303          166 YCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVE  244 (552)
Q Consensus       166 ~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  244 (552)
                      ++|.+.. |.   .+.+|++|++++|+++.+|..   +++|++|++++|. +..+|..    +++|+.|++.++...   
T Consensus       109 s~N~l~~l~~---~l~~L~~L~L~~N~l~~lp~~---l~~L~~L~Ls~N~-l~~l~~~----~~~L~~L~L~~N~l~---  174 (622)
T 3g06_A          109 FSNPLTHLPA---LPSGLCKLWIFGNQLTSLPVL---PPGLQELSVSDNQ-LASLPAL----PSELCKLWAYNNQLT---  174 (622)
T ss_dssp             CSCCCCCCCC---CCTTCCEEECCSSCCSCCCCC---CTTCCEEECCSSC-CSCCCCC----CTTCCEEECCSSCCS---
T ss_pred             cCCcCCCCCC---CCCCcCEEECCCCCCCcCCCC---CCCCCEEECcCCc-CCCcCCc----cCCCCEEECCCCCCC---
Confidence            9999887 44   678899999999999988864   4889999999986 6677652    467888888754431   


Q ss_pred             hhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcccccccchh
Q 040303          245 VEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSG  324 (552)
Q Consensus       245 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~  324 (552)
                               .+.  ..+++|+.|++++|.+..+|...                                           
T Consensus       175 ---------~l~--~~~~~L~~L~Ls~N~l~~l~~~~-------------------------------------------  200 (622)
T 3g06_A          175 ---------SLP--MLPSGLQELSVSDNQLASLPTLP-------------------------------------------  200 (622)
T ss_dssp             ---------CCC--CCCTTCCEEECCSSCCSCCCCCC-------------------------------------------
T ss_pred             ---------CCc--ccCCCCcEEECCCCCCCCCCCcc-------------------------------------------
Confidence                     111  45678999999988877766432                                           


Q ss_pred             HHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCCCCCCcchhhhhhcccccccceeeeccCCCCCcccc
Q 040303          325 HIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFF  404 (552)
Q Consensus       325 ~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~  404 (552)
                           ++|+.|.+.++.-   ..++     ..+++|+.|++++|.                  +..+        +    
T Consensus       201 -----~~L~~L~L~~N~l---~~l~-----~~~~~L~~L~Ls~N~------------------L~~l--------p----  237 (622)
T 3g06_A          201 -----SELYKLWAYNNRL---TSLP-----ALPSGLKELIVSGNR------------------LTSL--------P----  237 (622)
T ss_dssp             -----TTCCEEECCSSCC---SSCC-----CCCTTCCEEECCSSC------------------CSCC--------C----
T ss_pred             -----chhhEEECcCCcc---cccC-----CCCCCCCEEEccCCc------------------cCcC--------C----
Confidence                 3444444444332   2222     123667777777665                  1110        0    


Q ss_pred             ccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCC
Q 040303          405 LKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECP  475 (552)
Q Consensus       405 ~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~  475 (552)
                        ..+++|+.|++++|.+..++.        .+++|+.|++++| +++.+|.  .+..+++|+.|++.+++
T Consensus       238 --~~l~~L~~L~Ls~N~L~~lp~--------~~~~L~~L~Ls~N-~L~~lp~--~l~~l~~L~~L~L~~N~  295 (622)
T 3g06_A          238 --VLPSELKELMVSGNRLTSLPM--------LPSGLLSLSVYRN-QLTRLPE--SLIHLSSETTVNLEGNP  295 (622)
T ss_dssp             --CCCTTCCEEECCSSCCSCCCC--------CCTTCCEEECCSS-CCCSCCG--GGGGSCTTCEEECCSCC
T ss_pred             --CCCCcCcEEECCCCCCCcCCc--------ccccCcEEeCCCC-CCCcCCH--HHhhccccCEEEecCCC
Confidence              235667777777776654332        3467777777775 5666664  36677777777777765

>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=99.83  E-value=2.2e-20  Score=184.60  Aligned_cols=172  Identities=20%  Similarity=0.329  Sum_probs=135.4

Q ss_pred             CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEEccCCCCCC--hhhhcCCCCcc
Q 040303          107 ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSELQD--IAVIGELKNLE  183 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~  183 (552)
                      .++...+.+.+++...  .+|.++   .++|++|++++|.++.+|. .++++++|++|++++|.+..  +..+.++++|+
T Consensus        29 ~C~~~~~c~~~~~~l~--~iP~~~---~~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  103 (353)
T 2z80_A           29 SCDRNGICKGSSGSLN--SIPSGL---TEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLE  103 (353)
T ss_dssp             EECTTSEEECCSTTCS--SCCTTC---CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCC
T ss_pred             CCCCCeEeeCCCCCcc--cccccc---cccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCC
Confidence            4555666777766555  788765   3589999999999998876 79999999999999999887  56799999999


Q ss_pred             EEEecCCcCcccchh-hccCCCCCEEeccCCCCCCccCc-ccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCC
Q 040303          184 ILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPP-NVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRL  261 (552)
Q Consensus       184 ~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l  261 (552)
                      +|++++|.++.+|.. ++++++|++|++++|. +..+|. ..++.+++|++|+++++...         .......++.+
T Consensus       104 ~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~l~~~~~~~~l~~L~~L~l~~n~~~---------~~~~~~~~~~l  173 (353)
T 2z80_A          104 HLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNP-YKTLGETSLFSHLTKLQILRVGNMDTF---------TKIQRKDFAGL  173 (353)
T ss_dssp             EEECCSSCCSSCCHHHHTTCTTCSEEECTTCC-CSSSCSSCSCTTCTTCCEEEEEESSSC---------CEECTTTTTTC
T ss_pred             EEECCCCcCCcCCHhHhCCCccCCEEECCCCC-CcccCchhhhccCCCCcEEECCCCccc---------cccCHHHccCC
Confidence            999999999999887 8899999999999987 778887 45789999999999855321         11234567889


Q ss_pred             CCCcEEEccCCCCCcC-CCcc-cccCCceEEEEe
Q 040303          262 PNLTTLELCIPDVNTL-PKGL-FFEKLERYRICI  293 (552)
Q Consensus       262 ~~L~~L~l~~~~~~~~-p~~~-~l~~L~~L~l~~  293 (552)
                      ++|+.|++++|.+..+ |..+ .+++|+.|.+..
T Consensus       174 ~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~  207 (353)
T 2z80_A          174 TFLEELEIDASDLQSYEPKSLKSIQNVSHLILHM  207 (353)
T ss_dssp             CEEEEEEEEETTCCEECTTTTTTCSEEEEEEEEC
T ss_pred             CCCCEEECCCCCcCccCHHHHhccccCCeecCCC
Confidence            9999999999887655 3333 455555555543

>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=99.83  E-value=1.4e-19  Score=173.24  Aligned_cols=201  Identities=23%  Similarity=0.349  Sum_probs=162.6

Q ss_pred             cccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccc-cccc-cchhcCCCC
Q 040303           83 GALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMH-LSLL-PSSLGLLTN  159 (552)
Q Consensus        83 ~~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~-~~~l-p~~i~~l~~  159 (552)
                      ..++++++|+++++.+....+..+ .+++|++|++++|...  .++...|.++++|++|++++|. +..+ |..+..+++
T Consensus        29 ~~~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~--~~~~~~~~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~  106 (285)
T 1ozn_A           29 GIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLA--RIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGR  106 (285)
T ss_dssp             TCCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCC--EECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTT
T ss_pred             CCCCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCccc--eeCHhhcCCccCCCEEeCCCCCCccccCHHHhcCCcC
Confidence            356789999999999887443433 8899999999988765  5655556889999999999996 7776 677899999


Q ss_pred             CcEEEccCCCCCC--hhhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcc
Q 040303          160 LRTLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       160 L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                      |++|++++|.+..  +..+.++++|++|++++|.+..+|.. ++++++|++|++++|. +..++...+..+++|++|+++
T Consensus       107 L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~  185 (285)
T 1ozn_A          107 LHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNR-ISSVPERAFRGLHSLDRLLLH  185 (285)
T ss_dssp             CCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCEECTTTTTTCTTCCEEECC
T ss_pred             CCEEECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCc-ccccCHHHhcCccccCEEECC
Confidence            9999999999876  57789999999999999999888765 7889999999999986 777877667889999999998


Q ss_pred             ccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCc-c-cccCCceEEEEeccc
Q 040303          237 SFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKG-L-FFEKLERYRICIGRW  296 (552)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~-~-~l~~L~~L~l~~~~~  296 (552)
                      ++..          .......+..+++|+.|++++|.+..++.. + .+++|+.|.+.++.|
T Consensus       186 ~n~l----------~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~~  237 (285)
T 1ozn_A          186 QNRV----------AHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPW  237 (285)
T ss_dssp             SSCC----------CEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCE
T ss_pred             CCcc----------cccCHhHccCcccccEeeCCCCcCCcCCHHHcccCcccCEEeccCCCc
Confidence            5543          122356678899999999999998888765 3 678888888866653

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=99.82  E-value=1.3e-21  Score=207.68  Aligned_cols=202  Identities=18%  Similarity=0.140  Sum_probs=124.9

Q ss_pred             cCcccEEEeecCCCcccC---C------------Ccc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecc-cc
Q 040303           85 LKFYTSIVLHDSKMNVLL---P------------EVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYM-HL  147 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~~---~------------~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~-~~  147 (552)
                      .+++++|++.++.....+   |            ... .+++|+.|+++++.... ..+..+...+++|++|++++| .+
T Consensus        65 ~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~-~~~~~l~~~~~~L~~L~L~~~~~~  143 (594)
T 2p1m_B           65 FPKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRMVVTD-DCLELIAKSFKNFKVLVLSSCEGF  143 (594)
T ss_dssp             CTTCCEEEEECSCGGGGGTCSCTTSCCBCHHHHHHHHHHCTTCCEEEEESCBCCH-HHHHHHHHHCTTCCEEEEESCEEE
T ss_pred             CCCceEEeccCCCchhhcccccccccchhhHHHHHHHHhCCCCCeEEeeCcEEcH-HHHHHHHHhCCCCcEEeCCCcCCC
Confidence            467888888876422101   1            111 57889999999876442 233334336889999999988 55


Q ss_pred             cc--ccchhcCCCCCcEEEccCCCCCC--hhhhc----CCCCccEEEecCCc--Cc--ccchhhccCCCCCEEeccCCCC
Q 040303          148 SL--LPSSLGLLTNLRTLCLYCSELQD--IAVIG----ELKNLEILCLRGSY--IE--QLPVEIGQLTRLRSLDLRDCDR  215 (552)
Q Consensus       148 ~~--lp~~i~~l~~L~~L~l~~~~~~~--~~~i~----~L~~L~~L~l~~~~--l~--~lp~~i~~l~~L~~L~l~~~~~  215 (552)
                      ..  ++..+.++++|++|++++|.+.+  +..+.    .+++|++|++++|.  +.  .++.-+.++++|++|++++|..
T Consensus       144 ~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~  223 (594)
T 2p1m_B          144 STDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVP  223 (594)
T ss_dssp             EHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCTTCCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTTSC
T ss_pred             CHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhhcCCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCCCc
Confidence            43  55666688999999999888654  33333    66789999998885  32  2333345678999999998865


Q ss_pred             CCccCcccccCCCCCcEEEcccccc-chhhhhhhcccccChhhhcCCCCCcEE-EccCCCCCcCCCcc-cccCCceEEEE
Q 040303          216 LQVIPPNVLSNLSHLEELYIRSFNK-WEVEVEAAGVKNASLEELKRLPNLTTL-ELCIPDVNTLPKGL-FFEKLERYRIC  292 (552)
Q Consensus       216 ~~~~~~~~l~~l~~L~~L~l~~~~~-~~~~~~~~~~~~~~~~~l~~l~~L~~L-~l~~~~~~~~p~~~-~l~~L~~L~l~  292 (552)
                      +..++.. +..+++|++|++..+.. ....     ........+.++++|+.| .+.......++..+ .+++|+.|.+.
T Consensus       224 ~~~l~~~-~~~~~~L~~L~l~~~~~~~~~~-----~~~~l~~~l~~~~~L~~Ls~~~~~~~~~l~~~~~~~~~L~~L~L~  297 (594)
T 2p1m_B          224 LEKLATL-LQRAPQLEELGTGGYTAEVRPD-----VYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLS  297 (594)
T ss_dssp             HHHHHHH-HHHCTTCSEEECSBCCCCCCHH-----HHHHHHHHHHTCTTCCEEECCBTCCGGGGGGGHHHHTTCCEEECT
T ss_pred             HHHHHHH-HhcCCcceEcccccccCccchh-----hHHHHHHHHhcCCCcccccCCcccchhhHHHHHHhhCCCCEEEcc
Confidence            6666654 67888899998763321 0000     001122355666677766 34333333344333 45666666654


Q ss_pred             e
Q 040303          293 I  293 (552)
Q Consensus       293 ~  293 (552)
                      +
T Consensus       298 ~  298 (594)
T 2p1m_B          298 Y  298 (594)
T ss_dssp             T
T ss_pred             C
Confidence            3

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

Probab=99.81  E-value=2.4e-19  Score=173.47  Aligned_cols=224  Identities=20%  Similarity=0.144  Sum_probs=117.4

Q ss_pred             cCcccEEEeecCCCcccCCC-c-cCCCCceEEEeecCCCCCc-ccChhHhhCCCCccEEEeeccccccccchhcCCCCCc
Q 040303           85 LKFYTSIVLHDSKMNVLLPE-V-LECPQLQLLSLWTEKSSLI-TLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR  161 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~~~~-~-~~~~~Lr~L~l~~~~~~~~-~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~  161 (552)
                      .+++++|+++++.+.. ++. . ..+++|++|++++|..... ..+..+ ..+++|++|++++|.+..+|..+..+++|+
T Consensus        27 ~~~l~~L~L~~n~l~~-i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~-~~~~~L~~L~Ls~n~i~~l~~~~~~l~~L~  104 (306)
T 2z66_A           27 PSSATRLELESNKLQS-LPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSD-FGTTSLKYLDLSFNGVITMSSNFLGLEQLE  104 (306)
T ss_dssp             CTTCCEEECCSSCCCC-CCTTTTTTCTTCSEEECCSSCCCEEEEEEHHH-HSCSCCCEEECCSCSEEEEEEEEETCTTCC
T ss_pred             CCCCCEEECCCCccCc-cCHhHhhccccCCEEECCCCccCcccCccccc-ccccccCEEECCCCccccChhhcCCCCCCC
Confidence            3456666666665554 332 2 2556666666665544310 112332 445666666666665555555555666666


Q ss_pred             EEEccCCCCCC-h--hhhcCCCCccEEEecCCcCcc-cchhhccCCCCCEEeccCCCCCC-ccCcccccCCCCCcEEEcc
Q 040303          162 TLCLYCSELQD-I--AVIGELKNLEILCLRGSYIEQ-LPVEIGQLTRLRSLDLRDCDRLQ-VIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       162 ~L~l~~~~~~~-~--~~i~~L~~L~~L~l~~~~l~~-lp~~i~~l~~L~~L~l~~~~~~~-~~~~~~l~~l~~L~~L~l~  236 (552)
                      +|++++|.+.. +  ..+.++++|++|++++|.+.. .|..+..+++|++|++++|...+ .+|.. ++.+++|++|+++
T Consensus       105 ~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~-~~~l~~L~~L~Ls  183 (306)
T 2z66_A          105 HLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDI-FTELRNLTFLDLS  183 (306)
T ss_dssp             EEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECSC-CTTCTTCCEEECT
T ss_pred             EEECCCCcccccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCCCccccccchhH-HhhCcCCCEEECC
Confidence            66666655544 2  345556666666666655543 23335555666666665554222 13333 4555666666655


Q ss_pred             ccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcc
Q 040303          237 SFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTD  316 (552)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~  316 (552)
                      ++..          .......+..+++|+.|++++|.+..++..                                    
T Consensus       184 ~n~l----------~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~------------------------------------  217 (306)
T 2z66_A          184 QCQL----------EQLSPTAFNSLSSLQVLNMSHNNFFSLDTF------------------------------------  217 (306)
T ss_dssp             TSCC----------CEECTTTTTTCTTCCEEECTTSCCSBCCSG------------------------------------
T ss_pred             CCCc----------CCcCHHHhcCCCCCCEEECCCCccCccChh------------------------------------
Confidence            3322          111233445555566666655554443321                                    


Q ss_pred             cccccchhHHHHhchheeeeecCCCCCcceeeeccccCccc-ccccEEEeecCC
Q 040303          317 NCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYS-SQLKHLWVEGCQ  369 (552)
Q Consensus       317 ~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~-~~L~~L~l~~c~  369 (552)
                              ....+++|+.|++.++.-   ....+. ....+ ++|++|++++++
T Consensus       218 --------~~~~l~~L~~L~L~~N~l---~~~~~~-~~~~~~~~L~~L~L~~N~  259 (306)
T 2z66_A          218 --------PYKCLNSLQVLDYSLNHI---MTSKKQ-ELQHFPSSLAFLNLTQND  259 (306)
T ss_dssp             --------GGTTCTTCCEEECTTSCC---CBCSSS-SCCCCCTTCCEEECTTCC
T ss_pred             --------hccCcccCCEeECCCCCC---cccCHH-HHHhhhccCCEEEccCCC
Confidence                    112356788888877654   222221 22345 489999999987

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.81  E-value=1.7e-21  Score=200.22  Aligned_cols=394  Identities=15%  Similarity=0.047  Sum_probs=222.1

Q ss_pred             cCcccEEEeecCCCcccC-CC-ccCCCCceEEEeecCCCCCc---ccChhHhhCCCCccEEEeecccccc-ccchh-cCC
Q 040303           85 LKFYTSIVLHDSKMNVLL-PE-VLECPQLQLLSLWTEKSSLI---TLPDNFFRKLTQVRVLDLTYMHLSL-LPSSL-GLL  157 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~~-~~-~~~~~~Lr~L~l~~~~~~~~---~~~~~~~~~l~~Lr~L~l~~~~~~~-lp~~i-~~l  157 (552)
                      ++++++|+++++.+.... .. +..+++|++|++++|.....   .++. .+..+++|++|++++|.+.. -+..+ ..+
T Consensus         2 ~~~l~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~-~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l   80 (461)
T 1z7x_W            2 SLDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISS-ALRVNPALAELNLRSNELGDVGVHCVLQGL   80 (461)
T ss_dssp             CEEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHH-HHHTCTTCCEEECTTCCCHHHHHHHHHHTT
T ss_pred             CccceehhhhhcccCchhHHHHHhhcCCccEEEccCCCCCHHHHHHHHH-HHHhCCCcCEEeCCCCcCChHHHHHHHHHH
Confidence            356788888888876522 12 22678899999988865421   2233 34778889999999888754 12222 334


Q ss_pred             C----CCcEEEccCCCCCC------hhhhcCCCCccEEEecCCcCccc-chhhc-----cCCCCCEEeccCCCCCCc---
Q 040303          158 T----NLRTLCLYCSELQD------IAVIGELKNLEILCLRGSYIEQL-PVEIG-----QLTRLRSLDLRDCDRLQV---  218 (552)
Q Consensus       158 ~----~L~~L~l~~~~~~~------~~~i~~L~~L~~L~l~~~~l~~l-p~~i~-----~l~~L~~L~l~~~~~~~~---  218 (552)
                      .    +|++|++++|.+..      +..+.++++|++|++++|.+... +..+.     ..++|++|++++|. +..   
T Consensus        81 ~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~-l~~~~~  159 (461)
T 1z7x_W           81 QTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCS-LSAASC  159 (461)
T ss_dssp             CSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSC-CBGGGH
T ss_pred             hhCCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCC-CCHHHH
Confidence            4    69999999988763      56788888999999998877621 22222     25679999998886 333   


Q ss_pred             --cCcccccCCCCCcEEEccccccchhhhhhhcccccChhhh-cCCCCCcEEEccCCCCCc-----CCCcc-cccCCceE
Q 040303          219 --IPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEEL-KRLPNLTTLELCIPDVNT-----LPKGL-FFEKLERY  289 (552)
Q Consensus       219 --~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l-~~l~~L~~L~l~~~~~~~-----~p~~~-~l~~L~~L  289 (552)
                        ++.. ++.+++|++|+++++......      .......+ ...++|+.|++++|.+..     ++..+ .+++|+.|
T Consensus       160 ~~l~~~-l~~~~~L~~L~L~~n~i~~~~------~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L  232 (461)
T 1z7x_W          160 EPLASV-LRAKPDFKELTVSNNDINEAG------VRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLREL  232 (461)
T ss_dssp             HHHHHH-HHHCTTCCEEECCSSBCHHHH------HHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEE
T ss_pred             HHHHHH-HhhCCCCCEEECcCCCcchHH------HHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHHhCCCccEE
Confidence              2333 567788999998755431110      00011112 145688899998887665     23333 56777777


Q ss_pred             EEEecccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcce--eeeccccCcccccccEEEeec
Q 040303          290 RICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDII--ELVNNKLGSYSSQLKHLWVEG  367 (552)
Q Consensus       290 ~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~--~~~~~~~~~~~~~L~~L~l~~  367 (552)
                      .++.+.....                 ............+++|+.|++.++.-....  .++.  ....+++|++|++++
T Consensus       233 ~Ls~n~l~~~-----------------~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~--~l~~~~~L~~L~Ls~  293 (461)
T 1z7x_W          233 ALGSNKLGDV-----------------GMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCR--VLRAKESLKELSLAG  293 (461)
T ss_dssp             ECCSSBCHHH-----------------HHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHH--HHHHCTTCCEEECTT
T ss_pred             eccCCcCChH-----------------HHHHHHHHHhcCCCCceEEECcCCCCCHHHHHHHHH--HHhhCCCcceEECCC
Confidence            7644321000                 000001111123567888888776431100  0121  123467888888888


Q ss_pred             CCCCCCcchhhhhhcccccccceeeeccCCCCCccccc-cccCCCcccccccceeeeEeccCCCCccccccCcceEEEEe
Q 040303          368 CQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFL-KGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVY  446 (552)
Q Consensus       368 c~~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~-~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~  446 (552)
                      |.  +           ...+...+           ... ....++|+.|++++|.+........+.....+++|++|+++
T Consensus       294 n~--i-----------~~~~~~~l-----------~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls  349 (461)
T 1z7x_W          294 NE--L-----------GDEGARLL-----------CETLLEPGCQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQIS  349 (461)
T ss_dssp             CC--C-----------HHHHHHHH-----------HHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEECC
T ss_pred             CC--C-----------chHHHHHH-----------HHHhccCCccceeeEcCCCCCchHHHHHHHHHHhhCCCccEEEcc
Confidence            75  0           00000000           000 02346889999998876542111111111156889999998


Q ss_pred             cCCCccccccchhHhh----hcccceEEEecCCchhhhhccccccccccccCCccEEEeccccccccccCC----ccccc
Q 040303          447 GCGELRCLFSSSIVNS----FIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTG----DVHIE  518 (552)
Q Consensus       447 ~C~~L~~lp~~~~~~~----l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~----~~~~~  518 (552)
                      +| .+...........    .++|++|++.+|. ++.... ......+..+++|++|++++++ +......    .++..
T Consensus       350 ~n-~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~-i~~~~~-~~l~~~l~~~~~L~~L~l~~N~-i~~~~~~~l~~~l~~~  425 (461)
T 1z7x_W          350 NN-RLEDAGVRELCQGLGQPGSVLRVLWLADCD-VSDSSC-SSLAATLLANHSLRELDLSNNC-LGDAGILQLVESVRQP  425 (461)
T ss_dssp             SS-BCHHHHHHHHHHHHTSTTCCCCEEECTTSC-CCHHHH-HHHHHHHHHCCCCCEEECCSSS-CCHHHHHHHHHHHTST
T ss_pred             CC-ccccccHHHHHHHHcCCCCceEEEECCCCC-CChhhH-HHHHHHHHhCCCccEEECCCCC-CCHHHHHHHHHHhccC
Confidence            87 5655432111121    5689999999884 442100 0001123447899999999884 3332111    12223


Q ss_pred             CCCccEEEeecCCCcc
Q 040303          519 FPTLETLEVIRCPEFL  534 (552)
Q Consensus       519 ~~~L~~L~i~~C~~L~  534 (552)
                      .+.|+.|.+.++..-.
T Consensus       426 ~~~L~~L~~~~~~~~~  441 (461)
T 1z7x_W          426 GCLLEQLVLYDIYWSE  441 (461)
T ss_dssp             TCCCCEEECTTCCCCH
T ss_pred             CcchhheeecccccCH
Confidence            4578888888775543

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.81  E-value=1.1e-18  Score=183.09  Aligned_cols=255  Identities=19%  Similarity=0.148  Sum_probs=185.3

Q ss_pred             CCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC-hhhhcCCCCccEEEe
Q 040303          109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD-IAVIGELKNLEILCL  187 (552)
Q Consensus       109 ~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~-~~~i~~L~~L~~L~l  187 (552)
                      .++++|+++++...  .+|..++   ++|++|++++|.++.+|.   .+++|++|++++|.++. |.   .+++|++|++
T Consensus        40 ~~l~~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           40 NGNAVLNVGESGLT--TLPDCLP---AHITTLVIPDNNLTSLPA---LPPELRTLEVSGNQLTSLPV---LPPGLLELSI  108 (622)
T ss_dssp             HCCCEEECCSSCCS--CCCSCCC---TTCSEEEECSCCCSCCCC---CCTTCCEEEECSCCCSCCCC---CCTTCCEEEE
T ss_pred             CCCcEEEecCCCcC--ccChhhC---CCCcEEEecCCCCCCCCC---cCCCCCEEEcCCCcCCcCCC---CCCCCCEEEC
Confidence            35888888887765  7777652   788999999998888887   57889999999888877 44   7788899999


Q ss_pred             cCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEE
Q 040303          188 RGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTL  267 (552)
Q Consensus       188 ~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L  267 (552)
                      ++|.++.+|.   .+++|++|++++|. +..+|..    +++|++|+++++....           ..   ....+|+.|
T Consensus       109 s~N~l~~l~~---~l~~L~~L~L~~N~-l~~lp~~----l~~L~~L~Ls~N~l~~-----------l~---~~~~~L~~L  166 (622)
T 3g06_A          109 FSNPLTHLPA---LPSGLCKLWIFGNQ-LTSLPVL----PPGLQELSVSDNQLAS-----------LP---ALPSELCKL  166 (622)
T ss_dssp             CSCCCCCCCC---CCTTCCEEECCSSC-CSCCCCC----CTTCCEEECCSSCCSC-----------CC---CCCTTCCEE
T ss_pred             cCCcCCCCCC---CCCCcCEEECCCCC-CCcCCCC----CCCCCEEECcCCcCCC-----------cC---CccCCCCEE
Confidence            8888888876   66788888888876 6777753    3788888887443300           11   134578888


Q ss_pred             EccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeeecCCCCCccee
Q 040303          268 ELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIE  347 (552)
Q Consensus       268 ~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~  347 (552)
                      ++++|.+..+|.                                                .+++|+.|++.++.-   ..
T Consensus       167 ~L~~N~l~~l~~------------------------------------------------~~~~L~~L~Ls~N~l---~~  195 (622)
T 3g06_A          167 WAYNNQLTSLPM------------------------------------------------LPSGLQELSVSDNQL---AS  195 (622)
T ss_dssp             ECCSSCCSCCCC------------------------------------------------CCTTCCEEECCSSCC---SC
T ss_pred             ECCCCCCCCCcc------------------------------------------------cCCCCcEEECCCCCC---CC
Confidence            888777666552                                                135666777766543   23


Q ss_pred             eeccccCcccccccEEEeecCCCCCCcchhhhhhcccccccceeeeccCCCCCccccccccCCCcccccccceeeeEecc
Q 040303          348 LVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWK  427 (552)
Q Consensus       348 ~~~~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~  427 (552)
                      ++     ..+++|+.|++++|.                  +..+.              ..+++|+.|++++|.+..++ 
T Consensus       196 l~-----~~~~~L~~L~L~~N~------------------l~~l~--------------~~~~~L~~L~Ls~N~L~~lp-  237 (622)
T 3g06_A          196 LP-----TLPSELYKLWAYNNR------------------LTSLP--------------ALPSGLKELIVSGNRLTSLP-  237 (622)
T ss_dssp             CC-----CCCTTCCEEECCSSC------------------CSSCC--------------CCCTTCCEEECCSSCCSCCC-
T ss_pred             CC-----CccchhhEEECcCCc------------------ccccC--------------CCCCCCCEEEccCCccCcCC-
Confidence            22     135789999999886                  11111              13588999999999877654 


Q ss_pred             CCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEEecccc
Q 040303          428 SQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLE  505 (552)
Q Consensus       428 ~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~  505 (552)
                         .    .+++|+.|+++++ +++.+|.     .+++|++|++.+| .++.++  .    ....+++|+.|++.+++
T Consensus       238 ---~----~l~~L~~L~Ls~N-~L~~lp~-----~~~~L~~L~Ls~N-~L~~lp--~----~l~~l~~L~~L~L~~N~  295 (622)
T 3g06_A          238 ---V----LPSELKELMVSGN-RLTSLPM-----LPSGLLSLSVYRN-QLTRLP--E----SLIHLSSETTVNLEGNP  295 (622)
T ss_dssp             ---C----CCTTCCEEECCSS-CCSCCCC-----CCTTCCEEECCSS-CCCSCC--G----GGGGSCTTCEEECCSCC
T ss_pred             ---C----CCCcCcEEECCCC-CCCcCCc-----ccccCcEEeCCCC-CCCcCC--H----HHhhccccCEEEecCCC
Confidence               1    6689999999996 7888875     5689999999998 466652  3    24458999999999986

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

Probab=99.80  E-value=1.5e-18  Score=176.77  Aligned_cols=240  Identities=21%  Similarity=0.312  Sum_probs=148.9

Q ss_pred             ccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccccc-chhcCCCCCcEEEcc
Q 040303           88 YTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLP-SSLGLLTNLRTLCLY  166 (552)
Q Consensus        88 lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp-~~i~~l~~L~~L~l~  166 (552)
                      .+.++..+..+.. +|... .++++.|++++|...  .++...|.++++|++|++++|.+..++ ..+.++++|++|+++
T Consensus        45 ~~~v~c~~~~l~~-iP~~~-~~~l~~L~L~~n~i~--~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~  120 (440)
T 3zyj_A           45 FSKVICVRKNLRE-VPDGI-STNTRLLNLHENQIQ--IIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELF  120 (440)
T ss_dssp             SCEEECCSCCCSS-CCSCC-CTTCSEEECCSCCCC--EECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECC
T ss_pred             CCEEEeCCCCcCc-CCCCC-CCCCcEEEccCCcCC--eeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECC
Confidence            3455555555555 55433 256777777776554  455445567777777777777766554 456677777777777


Q ss_pred             CCCCCC-h-hhhcCCCCccEEEecCCcCcccch-hhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchh
Q 040303          167 CSELQD-I-AVIGELKNLEILCLRGSYIEQLPV-EIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEV  243 (552)
Q Consensus       167 ~~~~~~-~-~~i~~L~~L~~L~l~~~~l~~lp~-~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  243 (552)
                      +|.+.. + ..+.++++|++|++++|.+..+|. .+.++++|++|++++|..+..++...+..+++|++|+++++...  
T Consensus       121 ~n~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~--  198 (440)
T 3zyj_A          121 DNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLR--  198 (440)
T ss_dssp             SSCCSSCCTTTSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCS--
T ss_pred             CCcCCeeCHhHhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCc--
Confidence            777665 3 456777777777777777766654 46667777777777766666666655667777777777644321  


Q ss_pred             hhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCc-c-cccCCceEEEEecccccCCCCCCcccceeeecCccccccc
Q 040303          244 EVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKG-L-FFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISF  321 (552)
Q Consensus       244 ~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~-~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~  321 (552)
                                ....+..+++|+.|++++|.+..++.. + .+++|+.|.+..+...                      ..
T Consensus       199 ----------~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~----------------------~~  246 (440)
T 3zyj_A          199 ----------EIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQ----------------------VI  246 (440)
T ss_dssp             ----------SCCCCTTCSSCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCC----------------------EE
T ss_pred             ----------cccccCCCcccCEEECCCCccCccChhhhccCccCCEEECCCCcee----------------------EE
Confidence                      223466667777777777776655433 3 5666666665433210                      11


Q ss_pred             chhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC
Q 040303          322 KSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ  369 (552)
Q Consensus       322 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~  369 (552)
                      +......+++|+.|++.++.-   ..++.. .+..+++|+.|++++++
T Consensus       247 ~~~~~~~l~~L~~L~L~~N~l---~~~~~~-~~~~l~~L~~L~L~~Np  290 (440)
T 3zyj_A          247 ERNAFDNLQSLVEINLAHNNL---TLLPHD-LFTPLHHLERIHLHHNP  290 (440)
T ss_dssp             CTTSSTTCTTCCEEECTTSCC---CCCCTT-TTSSCTTCCEEECCSSC
T ss_pred             ChhhhcCCCCCCEEECCCCCC---CccChh-HhccccCCCEEEcCCCC
Confidence            112222467888888887654   333322 34568999999999987

>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=99.80  E-value=9.4e-19  Score=178.92  Aligned_cols=240  Identities=20%  Similarity=0.250  Sum_probs=156.8

Q ss_pred             ccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccccc-chhcCCCCCcEEEcc
Q 040303           88 YTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLP-SSLGLLTNLRTLCLY  166 (552)
Q Consensus        88 lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp-~~i~~l~~L~~L~l~  166 (552)
                      .+.++..+..+.. +|... .+++++|++++|...  .++...|.++++|++|++++|.+..++ ..+.++.+|++|+++
T Consensus        56 ~~~v~c~~~~l~~-iP~~~-~~~l~~L~L~~n~i~--~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~  131 (452)
T 3zyi_A           56 FSKVVCTRRGLSE-VPQGI-PSNTRYLNLMENNIQ--MIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELF  131 (452)
T ss_dssp             SCEEECCSSCCSS-CCSCC-CTTCSEEECCSSCCC--EECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC
T ss_pred             CcEEEECCCCcCc-cCCCC-CCCccEEECcCCcCc--eECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECC
Confidence            3456666555555 55322 257777777777654  455555577777888888777776654 567777778888887


Q ss_pred             CCCCCC-h-hhhcCCCCccEEEecCCcCcccch-hhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchh
Q 040303          167 CSELQD-I-AVIGELKNLEILCLRGSYIEQLPV-EIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEV  243 (552)
Q Consensus       167 ~~~~~~-~-~~i~~L~~L~~L~l~~~~l~~lp~-~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  243 (552)
                      +|.+.. + ..+.++++|++|++++|.+..+|. .+.++++|++|++++|..++.++...+..+++|+.|+++++...  
T Consensus       132 ~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~--  209 (452)
T 3zyi_A          132 DNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIK--  209 (452)
T ss_dssp             SSCCSBCCTTTSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCS--
T ss_pred             CCcCCccChhhhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCccc--
Confidence            777666 3 457777778888887777776665 46677778888877766677777665677777888877644330  


Q ss_pred             hhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCc-c-cccCCceEEEEecccccCCCCCCcccceeeecCccccccc
Q 040303          244 EVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKG-L-FFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISF  321 (552)
Q Consensus       244 ~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~-~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~  321 (552)
                                ....+..+++|+.|++++|.+..++.. + .+++|+.|.+..+...                      ..
T Consensus       210 ----------~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~----------------------~~  257 (452)
T 3zyi_A          210 ----------DMPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVS----------------------LI  257 (452)
T ss_dssp             ----------SCCCCTTCTTCCEEECTTSCCSEECGGGGTTCTTCCEEECTTSCCC----------------------EE
T ss_pred             ----------ccccccccccccEEECcCCcCcccCcccccCccCCCEEEeCCCcCc----------------------eE
Confidence                      223466777777888877776666443 3 6667777766433211                      11


Q ss_pred             chhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC
Q 040303          322 KSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ  369 (552)
Q Consensus       322 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~  369 (552)
                      +......+++|+.|++.++.-   ..++.. .+..+++|+.|++++++
T Consensus       258 ~~~~~~~l~~L~~L~L~~N~l---~~~~~~-~~~~l~~L~~L~L~~Np  301 (452)
T 3zyi_A          258 ERNAFDGLASLVELNLAHNNL---SSLPHD-LFTPLRYLVELHLHHNP  301 (452)
T ss_dssp             CTTTTTTCTTCCEEECCSSCC---SCCCTT-SSTTCTTCCEEECCSSC
T ss_pred             CHHHhcCCCCCCEEECCCCcC---CccChH-HhccccCCCEEEccCCC
Confidence            112223467888888887653   333322 34568899999999987

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

Probab=99.80  E-value=4.3e-20  Score=179.49  Aligned_cols=133  Identities=17%  Similarity=0.182  Sum_probs=81.5

Q ss_pred             ccChhHhhCCCCccEEEeecccccccc-chhcCCCCCcEEEccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCC
Q 040303          125 TLPDNFFRKLTQVRVLDLTYMHLSLLP-SSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLT  203 (552)
Q Consensus       125 ~~~~~~~~~l~~Lr~L~l~~~~~~~lp-~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~  203 (552)
                      ..+..++..+++|++|++++|.+..++ ..++++++|++|++++|.+.....+.++++|++|++++|.++.+|    ..+
T Consensus        24 ~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~Ls~n~l~~l~----~~~   99 (317)
T 3o53_A           24 QALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELL----VGP   99 (317)
T ss_dssp             HHHHHHHTTGGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEEEEEETTCTTCCEEECCSSEEEEEE----ECT
T ss_pred             hhHHHHhccCCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCCcchhhhhcCCCCEEECcCCcccccc----CCC
Confidence            344455566667777777777776654 467777777777777777765223777777777777777776655    236


Q ss_pred             CCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCC
Q 040303          204 RLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVN  275 (552)
Q Consensus       204 ~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  275 (552)
                      +|++|++++|. +..++.   ..+++|++|+++++...          ......++.+++|+.|++++|.+.
T Consensus       100 ~L~~L~l~~n~-l~~~~~---~~~~~L~~L~l~~N~l~----------~~~~~~~~~l~~L~~L~Ls~N~l~  157 (317)
T 3o53_A          100 SIETLHAANNN-ISRVSC---SRGQGKKNIYLANNKIT----------MLRDLDEGCRSRVQYLDLKLNEID  157 (317)
T ss_dssp             TCCEEECCSSC-CSEEEE---CCCSSCEEEECCSSCCC----------SGGGBCTGGGSSEEEEECTTSCCC
T ss_pred             CcCEEECCCCc-cCCcCc---cccCCCCEEECCCCCCC----------CccchhhhccCCCCEEECCCCCCC
Confidence            77777777765 455443   23566666666533321          011223445556666666655443

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.79  E-value=4e-21  Score=197.37  Aligned_cols=366  Identities=21%  Similarity=0.192  Sum_probs=231.9

Q ss_pred             CCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccc-----cccchhcCCCCCcEEEccCCCCCC--hhhh-cCCC
Q 040303          109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLS-----LLPSSLGLLTNLRTLCLYCSELQD--IAVI-GELK  180 (552)
Q Consensus       109 ~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~-----~lp~~i~~l~~L~~L~l~~~~~~~--~~~i-~~L~  180 (552)
                      ++|++|+++++.... .....++..+++|++|++++|.+.     .++..+..+++|++|++++|.+.+  +..+ ..+.
T Consensus         3 ~~l~~L~Ls~~~l~~-~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~   81 (461)
T 1z7x_W            3 LDIQSLDIQCEELSD-ARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQ   81 (461)
T ss_dssp             EEEEEEEEESCCCCH-HHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTC
T ss_pred             ccceehhhhhcccCc-hhHHHHHhhcCCccEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeCCCCcCChHHHHHHHHHHh
Confidence            578999999887652 223344688999999999999887     567889999999999999999876  4444 3465


Q ss_pred             ----CccEEEecCCcCc-----ccchhhccCCCCCEEeccCCCCCCcc-C----cccccCCCCCcEEEccccccchhhhh
Q 040303          181 ----NLEILCLRGSYIE-----QLPVEIGQLTRLRSLDLRDCDRLQVI-P----PNVLSNLSHLEELYIRSFNKWEVEVE  246 (552)
Q Consensus       181 ----~L~~L~l~~~~l~-----~lp~~i~~l~~L~~L~l~~~~~~~~~-~----~~~l~~l~~L~~L~l~~~~~~~~~~~  246 (552)
                          +|++|++++|.+.     .+|..+.++++|++|++++|. +... +    .......++|++|+++++.....   
T Consensus        82 ~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~-i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~---  157 (461)
T 1z7x_W           82 TPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNL-LGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAA---  157 (461)
T ss_dssp             STTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSB-CHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGG---
T ss_pred             hCCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCc-CchHHHHHHHHHHhcCCCcceEEECCCCCCCHH---
Confidence                7999999999887     467889999999999999987 4322 1    12123367899999985543110   


Q ss_pred             hhcccccChhhhcCCCCCcEEEccCCCCCcCCCc-c------cccCCceEEEEecccccCCCCCCcccceeeecCccccc
Q 040303          247 AAGVKNASLEELKRLPNLTTLELCIPDVNTLPKG-L------FFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCI  319 (552)
Q Consensus       247 ~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~-~------~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~  319 (552)
                         ........+..+++|++|++++|.+...... +      ..++|+.|.+.++.....                 .+.
T Consensus       158 ---~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~-----------------~~~  217 (461)
T 1z7x_W          158 ---SCEPLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSD-----------------NCR  217 (461)
T ss_dssp             ---GHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTT-----------------HHH
T ss_pred             ---HHHHHHHHHhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCCCcHH-----------------HHH
Confidence               0111345577789999999999886542211 1      144788777644321000                 000


Q ss_pred             ccchhHHHHhchheeeeecCCCCCcc--eeeeccccCcccccccEEEeecCCCCCCcchhhhhhcccccccceeeeccCC
Q 040303          320 SFKSGHIVQLQRIEDLCLSGLPDQDI--IELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHV  397 (552)
Q Consensus       320 ~~~~~~~~~l~~L~~L~l~~~~~~~~--~~~~~~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li~~c~l~~l~~~~~~  397 (552)
                      . -......+++|+.|++.++.-...  ..+.. .....+++|++|++++|.-                  ....     
T Consensus       218 ~-l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~-~~~~~~~~L~~L~L~~n~l------------------~~~~-----  272 (461)
T 1z7x_W          218 D-LCGIVASKASLRELALGSNKLGDVGMAELCP-GLLHPSSRLRTLWIWECGI------------------TAKG-----  272 (461)
T ss_dssp             H-HHHHHHHCTTCCEEECCSSBCHHHHHHHHHH-HHTSTTCCCCEEECTTSCC------------------CHHH-----
T ss_pred             H-HHHHHHhCCCccEEeccCCcCChHHHHHHHH-HHhcCCCCceEEECcCCCC------------------CHHH-----
Confidence            0 122334568899999988753110  00111 1122478999999998860                  0000     


Q ss_pred             CCCccccccccCCCcccccccceeeeEeccCCCCc-cccccCcceEEEEecCCCcccccc---chhHhhhcccceEEEec
Q 040303          398 NVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPA-MSCGIQTLTRLIVYGCGELRCLFS---SSIVNSFIRLQHLEIDE  473 (552)
Q Consensus       398 ~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~-~~~~l~~L~~L~i~~C~~L~~lp~---~~~~~~l~~L~~L~i~~  473 (552)
                       ...+......+++|+.|+++++.+.......... .....++|++|++.+|. ++....   ...+..+++|++|++++
T Consensus       273 -~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~Ls~  350 (461)
T 1z7x_W          273 -CGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCS-FTAACCSHFSSVLAQNRFLLELQISN  350 (461)
T ss_dssp             -HHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEECTTSC-CBGGGHHHHHHHHHHCSSCCEEECCS
T ss_pred             -HHHHHHHHhhCCCcceEECCCCCCchHHHHHHHHHhccCCccceeeEcCCCC-CchHHHHHHHHHHhhCCCccEEEccC
Confidence             0001112345889999999999764321111100 00033799999999985 443211   12466789999999999


Q ss_pred             CCchhhhhcccccccccc-ccCCccEEEeccccccc-----cccCCcccccCCCccEEEeecCC
Q 040303          474 CPILEEIIVIDQQERKNV-VFPQLQFLKMVDLEKLT-----SFCTGDVHIEFPTLETLEVIRCP  531 (552)
Q Consensus       474 c~~l~~~~~~~~~~~~~~-~l~~L~~L~l~~c~~L~-----~~~~~~~~~~~~~L~~L~i~~C~  531 (552)
                      |. +...... ....... ..++|++|++.+| .++     .++.. + ..+++|++|++++|+
T Consensus       351 n~-i~~~~~~-~l~~~l~~~~~~L~~L~L~~n-~i~~~~~~~l~~~-l-~~~~~L~~L~l~~N~  409 (461)
T 1z7x_W          351 NR-LEDAGVR-ELCQGLGQPGSVLRVLWLADC-DVSDSSCSSLAAT-L-LANHSLRELDLSNNC  409 (461)
T ss_dssp             SB-CHHHHHH-HHHHHHTSTTCCCCEEECTTS-CCCHHHHHHHHHH-H-HHCCCCCEEECCSSS
T ss_pred             Cc-cccccHH-HHHHHHcCCCCceEEEECCCC-CCChhhHHHHHHH-H-HhCCCccEEECCCCC
Confidence            84 5443111 0000111 2679999999999 455     33322 2 257999999999985

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

Probab=99.79  E-value=1.9e-18  Score=176.67  Aligned_cols=198  Identities=19%  Similarity=0.268  Sum_probs=165.4

Q ss_pred             cccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccch-hcCCCCC
Q 040303           83 GALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS-LGLLTNL  160 (552)
Q Consensus        83 ~~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~-i~~l~~L  160 (552)
                      ...+++++|++++|.+....+..+ .+++|+.|++++|...  .++...|.++++|++|++++|.+..+|.. ++.+++|
T Consensus        72 ~~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~--~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  149 (452)
T 3zyi_A           72 GIPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIR--QIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKL  149 (452)
T ss_dssp             CCCTTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCC--EECTTTTTTCTTCCEEECCSSCCSBCCTTTSSSCTTC
T ss_pred             CCCCCccEEECcCCcCceECHHHcCCCCCCCEEECCCCccC--CcChhhccCcccCCEEECCCCcCCccChhhhcccCCC
Confidence            356789999999999988555544 8999999999999766  67766679999999999999999988765 8889999


Q ss_pred             cEEEccCCCCCC--hhhhcCCCCccEEEecCC-cCcccchh-hccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcc
Q 040303          161 RTLCLYCSELQD--IAVIGELKNLEILCLRGS-YIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       161 ~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~-~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                      ++|++++|.+..  +..+.++++|++|+++++ .+..+|.. +..+++|++|++++|. +..+|.  +..+++|++|+++
T Consensus       150 ~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~-l~~~~~--~~~l~~L~~L~Ls  226 (452)
T 3zyi_A          150 RELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCN-IKDMPN--LTPLVGLEELEMS  226 (452)
T ss_dssp             CEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSC-CSSCCC--CTTCTTCCEEECT
T ss_pred             CEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCc-cccccc--ccccccccEEECc
Confidence            999999999887  457899999999999996 77777764 8889999999999987 777875  7899999999998


Q ss_pred             ccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCc-c-cccCCceEEEEecc
Q 040303          237 SFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKG-L-FFEKLERYRICIGR  295 (552)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~-~-~l~~L~~L~l~~~~  295 (552)
                      ++..          .......+..+++|+.|++++|.+..++.. + .+++|+.|+++.+.
T Consensus       227 ~N~l----------~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~  277 (452)
T 3zyi_A          227 GNHF----------PEIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNN  277 (452)
T ss_dssp             TSCC----------SEECGGGGTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSC
T ss_pred             CCcC----------cccCcccccCccCCCEEEeCCCcCceECHHHhcCCCCCCEEECCCCc
Confidence            5543          222456788999999999999998777554 3 78899999887654

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

Probab=99.79  E-value=2.1e-18  Score=175.64  Aligned_cols=204  Identities=20%  Similarity=0.293  Sum_probs=167.6

Q ss_pred             cccccCccccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-h
Q 040303           76 SREWLDEGALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-S  153 (552)
Q Consensus        76 ~~~~~~~~~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~  153 (552)
                      ....|. ...++++.|++++|.+....+..+ .+++|++|++++|...  .++...|.++++|++|++++|.++.+|. .
T Consensus        55 l~~iP~-~~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~--~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~  131 (440)
T 3zyj_A           55 LREVPD-GISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIR--TIEIGAFNGLANLNTLELFDNRLTTIPNGA  131 (440)
T ss_dssp             CSSCCS-CCCTTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSCCC--EECGGGGTTCSSCCEEECCSSCCSSCCTTT
T ss_pred             cCcCCC-CCCCCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCcCC--ccChhhccCCccCCEEECCCCcCCeeCHhH
Confidence            344443 456789999999999988444444 8999999999998765  6777778999999999999999998876 5


Q ss_pred             hcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEecCC-cCcccch-hhccCCCCCEEeccCCCCCCccCcccccCCCC
Q 040303          154 LGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCLRGS-YIEQLPV-EIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSH  229 (552)
Q Consensus       154 i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~-~l~~lp~-~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~  229 (552)
                      +..+++|++|++++|.+..  +..+.++++|++|+++++ .+..+|. .+.++++|++|++++|. +..+|.  +..+++
T Consensus       132 ~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~-l~~~~~--~~~l~~  208 (440)
T 3zyj_A          132 FVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCN-LREIPN--LTPLIK  208 (440)
T ss_dssp             SCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSC-CSSCCC--CTTCSS
T ss_pred             hhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCc-Cccccc--cCCCcc
Confidence            8999999999999999887  457899999999999996 6777766 48889999999999987 778885  789999


Q ss_pred             CcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcc--cccCCceEEEEecc
Q 040303          230 LEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL--FFEKLERYRICIGR  295 (552)
Q Consensus       230 L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~--~l~~L~~L~l~~~~  295 (552)
                      |++|+++++..          .......+..+++|+.|++++|.+..++...  .+++|+.|+++.+.
T Consensus       209 L~~L~Ls~N~l----------~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~  266 (440)
T 3zyj_A          209 LDELDLSGNHL----------SAIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHNN  266 (440)
T ss_dssp             CCEEECTTSCC----------CEECTTTTTTCTTCCEEECTTCCCCEECTTSSTTCTTCCEEECTTSC
T ss_pred             cCEEECCCCcc----------CccChhhhccCccCCEEECCCCceeEEChhhhcCCCCCCEEECCCCC
Confidence            99999986543          1224567888999999999999988776653  77889888886554

>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=99.78  E-value=6.1e-18  Score=161.79  Aligned_cols=191  Identities=21%  Similarity=0.242  Sum_probs=156.0

Q ss_pred             cEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccc-cchhcCCCCCcEEEccC
Q 040303           89 TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLL-PSSLGLLTNLRTLCLYC  167 (552)
Q Consensus        89 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~l-p~~i~~l~~L~~L~l~~  167 (552)
                      ++++..++.+.. +|.. ..++|+.|+++++...  .++...|.++++|++|++++|.+..+ |..++++++|++|++++
T Consensus        14 ~~~~c~~~~l~~-ip~~-~~~~l~~L~l~~n~i~--~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~   89 (285)
T 1ozn_A           14 VTTSCPQQGLQA-VPVG-IPAASQRIFLHGNRIS--HVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSD   89 (285)
T ss_dssp             CEEECCSSCCSS-CCTT-CCTTCSEEECTTSCCC--EECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             eEEEcCcCCccc-CCcC-CCCCceEEEeeCCcCC--ccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCC
Confidence            677888777776 6643 3579999999998766  67776679999999999999999876 77899999999999999


Q ss_pred             CC-CCC--hhhhcCCCCccEEEecCCcCccc-chhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchh
Q 040303          168 SE-LQD--IAVIGELKNLEILCLRGSYIEQL-PVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEV  243 (552)
Q Consensus       168 ~~-~~~--~~~i~~L~~L~~L~l~~~~l~~l-p~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  243 (552)
                      |. +..  +..+.++++|++|++++|.+..+ |..+.++++|++|++++|. +..++...++.+++|++|+++++...  
T Consensus        90 n~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~--  166 (285)
T 1ozn_A           90 NAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNA-LQALPDDTFRDLGNLTHLFLHGNRIS--  166 (285)
T ss_dssp             CTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCC--
T ss_pred             CCCccccCHHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCc-ccccCHhHhccCCCccEEECCCCccc--
Confidence            97 776  67899999999999999999877 4568899999999999987 77777766899999999999855431  


Q ss_pred             hhhhhcccccChhhhcCCCCCcEEEccCCCCCcC-CCcc-cccCCceEEEEec
Q 040303          244 EVEAAGVKNASLEELKRLPNLTTLELCIPDVNTL-PKGL-FFEKLERYRICIG  294 (552)
Q Consensus       244 ~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~-p~~~-~l~~L~~L~l~~~  294 (552)
                              ......+..+++|+.|++++|.+..+ |..+ .+++|+.|.+..+
T Consensus       167 --------~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n  211 (285)
T 1ozn_A          167 --------SVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFAN  211 (285)
T ss_dssp             --------EECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS
T ss_pred             --------ccCHHHhcCccccCEEECCCCcccccCHhHccCcccccEeeCCCC
Confidence                    11234578899999999999997776 4444 6778888877544

>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=99.78  E-value=5.2e-18  Score=162.24  Aligned_cols=197  Identities=25%  Similarity=0.273  Sum_probs=165.6

Q ss_pred             ccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEE
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTL  163 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L  163 (552)
                      ...+++.+++.++.+.. +|... .++++.|++++|...  .++...|..+++|++|++++|.++.++.. +.+++|++|
T Consensus         8 ~l~~l~~l~~~~~~l~~-ip~~~-~~~l~~L~L~~N~l~--~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-~~l~~L~~L   82 (290)
T 1p9a_G            8 KVASHLEVNCDKRNLTA-LPPDL-PKDTTILHLSENLLY--TFSLATLMPYTRLTQLNLDRAELTKLQVD-GTLPVLGTL   82 (290)
T ss_dssp             CSTTCCEEECTTSCCSS-CCSCC-CTTCCEEECTTSCCS--EEEGGGGTTCTTCCEEECTTSCCCEEECC-SCCTTCCEE
T ss_pred             ccCCccEEECCCCCCCc-CCCCC-CCCCCEEEcCCCcCC--ccCHHHhhcCCCCCEEECCCCccCcccCC-CCCCcCCEE
Confidence            35678999999998887 66544 378999999998875  56666679999999999999999988765 899999999


Q ss_pred             EccCCCCCC-hhhhcCCCCccEEEecCCcCcccch-hhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccc
Q 040303          164 CLYCSELQD-IAVIGELKNLEILCLRGSYIEQLPV-EIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKW  241 (552)
Q Consensus       164 ~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~-~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  241 (552)
                      ++++|.+.. |..+.++++|++|++++|+++.+|. .+..+++|++|++++|. +..+|...+..+++|+.|+++++.. 
T Consensus        83 ~Ls~N~l~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N~l-  160 (290)
T 1p9a_G           83 DLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNE-LKTLPPGLLTPTPKLEKLSLANNNL-  160 (290)
T ss_dssp             ECCSSCCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECTTSCC-
T ss_pred             ECCCCcCCcCchhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCC-CCccChhhcccccCCCEEECCCCcC-
Confidence            999999888 7888999999999999999998874 58899999999999987 7788887678999999999985543 


Q ss_pred             hhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcc-cccCCceEEEEeccc
Q 040303          242 EVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL-FFEKLERYRICIGRW  296 (552)
Q Consensus       242 ~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~-~l~~L~~L~l~~~~~  296 (552)
                               .......+..+++|+.|++++|.+..+|..+ ....|+.+.+.+++|
T Consensus       161 ---------~~l~~~~~~~l~~L~~L~L~~N~l~~ip~~~~~~~~L~~l~L~~Np~  207 (290)
T 1p9a_G          161 ---------TELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPW  207 (290)
T ss_dssp             ---------SCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECCSCCB
T ss_pred             ---------CccCHHHhcCcCCCCEEECCCCcCCccChhhcccccCCeEEeCCCCc
Confidence                     1112344678999999999999999999886 677899888877664

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

Probab=99.78  E-value=8.6e-18  Score=159.29  Aligned_cols=196  Identities=30%  Similarity=0.430  Sum_probs=154.2

Q ss_pred             CcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchh-cCCCCCcEEE
Q 040303           86 KFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSL-GLLTNLRTLC  164 (552)
Q Consensus        86 ~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i-~~l~~L~~L~  164 (552)
                      ...++++++++.+.. +|... .++++.|+++++...  .++...|.++++|++|++++|.+..+|..+ .++++|++|+
T Consensus        16 ~~~~~l~~~~~~l~~-ip~~~-~~~l~~L~l~~n~l~--~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~   91 (270)
T 2o6q_A           16 NNKNSVDCSSKKLTA-IPSNI-PADTKKLDLQSNKLS--SLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLW   91 (270)
T ss_dssp             TTTTEEECTTSCCSS-CCSCC-CTTCSEEECCSSCCS--CCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEE
T ss_pred             CCCCEEEccCCCCCc-cCCCC-CCCCCEEECcCCCCC--eeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEE
Confidence            346788888888876 66533 267899999988765  677666788999999999999888887764 7899999999


Q ss_pred             ccCCCCCC--hhhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccc
Q 040303          165 LYCSELQD--IAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKW  241 (552)
Q Consensus       165 l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  241 (552)
                      +++|.+..  +..+.++++|++|++++|.++.+|.. +..+++|++|++++|. +..+|...++.+++|++|+++++.. 
T Consensus        92 l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~L~~n~l-  169 (270)
T 2o6q_A           92 VTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNE-LQSLPKGVFDKLTSLKELRLYNNQL-  169 (270)
T ss_dssp             CCSSCCCCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCC-
T ss_pred             CCCCcCCcCCHhHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCCCc-CCccCHhHccCCcccceeEecCCcC-
Confidence            99998877  35678899999999999988877654 6889999999999887 7778776678899999999875533 


Q ss_pred             hhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcc--cccCCceEEEEeccc
Q 040303          242 EVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL--FFEKLERYRICIGRW  296 (552)
Q Consensus       242 ~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~--~l~~L~~L~l~~~~~  296 (552)
                               .......+..+++|+.|++++|.+..+|...  .+++|+.|.+.+++|
T Consensus       170 ---------~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~  217 (270)
T 2o6q_A          170 ---------KRVPEGAFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQENPW  217 (270)
T ss_dssp             ---------SCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCB
T ss_pred             ---------cEeChhHhccCCCcCEEECCCCcCCcCCHHHhccccCCCEEEecCCCe
Confidence                     1112345778889999999999988888763  678888888876654

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

Probab=99.78  E-value=5e-20  Score=179.05  Aligned_cols=216  Identities=16%  Similarity=0.131  Sum_probs=135.8

Q ss_pred             CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCChhhhcCCCCccEEE
Q 040303          107 ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILC  186 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~  186 (552)
                      .+++|+.|++++|...  .++...|.++++|++|++++|.+...+. ++.+++|++|++++|.+...   ...++|++|+
T Consensus        32 ~~~~L~~L~L~~n~l~--~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~Ls~n~l~~l---~~~~~L~~L~  105 (317)
T 3o53_A           32 SAWNVKELDLSGNPLS--QISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLDLNNNYVQEL---LVGPSIETLH  105 (317)
T ss_dssp             TGGGCSEEECTTSCCC--CCCHHHHTTCTTCCEEECTTSCCEEEEE-ETTCTTCCEEECCSSEEEEE---EECTTCCEEE
T ss_pred             cCCCCCEEECcCCccC--cCCHHHhhCCCcCCEEECCCCcCCcchh-hhhcCCCCEEECcCCccccc---cCCCCcCEEE
Confidence            4567777777777655  5565556778888888888887766554 77778888888887776551   1337778888


Q ss_pred             ecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhh-cCCCCCc
Q 040303          187 LRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEEL-KRLPNLT  265 (552)
Q Consensus       187 l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l-~~l~~L~  265 (552)
                      +++|.+..++..  .+++|++|++++|. +..+++..++.+++|++|+++++...          ......+ ..+++|+
T Consensus       106 l~~n~l~~~~~~--~~~~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~Ls~N~l~----------~~~~~~~~~~l~~L~  172 (317)
T 3o53_A          106 AANNNISRVSCS--RGQGKKNIYLANNK-ITMLRDLDEGCRSRVQYLDLKLNEID----------TVNFAELAASSDTLE  172 (317)
T ss_dssp             CCSSCCSEEEEC--CCSSCEEEECCSSC-CCSGGGBCTGGGSSEEEEECTTSCCC----------EEEGGGGGGGTTTCC
T ss_pred             CCCCccCCcCcc--ccCCCCEEECCCCC-CCCccchhhhccCCCCEEECCCCCCC----------cccHHHHhhccCcCC
Confidence            888777766543  36778888887776 55555544677778888887744331          1112233 3567788


Q ss_pred             EEEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcc
Q 040303          266 TLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDI  345 (552)
Q Consensus       266 ~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~  345 (552)
                      .|++++|.+..++....+++|+.|.++.+...                      ..+.. ...+++|+.|++.++.-   
T Consensus       173 ~L~L~~N~l~~~~~~~~l~~L~~L~Ls~N~l~----------------------~l~~~-~~~l~~L~~L~L~~N~l---  226 (317)
T 3o53_A          173 HLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLA----------------------FMGPE-FQSAAGVTWISLRNNKL---  226 (317)
T ss_dssp             EEECTTSCCCEEECCCCCTTCCEEECCSSCCC----------------------EECGG-GGGGTTCSEEECTTSCC---
T ss_pred             EEECCCCcCcccccccccccCCEEECCCCcCC----------------------cchhh-hcccCcccEEECcCCcc---
Confidence            88888877776665555666666665433210                      01111 22456777777776643   


Q ss_pred             eeeeccccCcccccccEEEeecCC
Q 040303          346 IELVNNKLGSYSSQLKHLWVEGCQ  369 (552)
Q Consensus       346 ~~~~~~~~~~~~~~L~~L~l~~c~  369 (552)
                      ..++..  ...+++|+.|++++|+
T Consensus       227 ~~l~~~--~~~l~~L~~L~l~~N~  248 (317)
T 3o53_A          227 VLIEKA--LRFSQNLEHFDLRGNG  248 (317)
T ss_dssp             CEECTT--CCCCTTCCEEECTTCC
T ss_pred             cchhhH--hhcCCCCCEEEccCCC
Confidence            333332  2456777777777776

>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=99.77  E-value=9.8e-18  Score=161.94  Aligned_cols=192  Identities=21%  Similarity=0.264  Sum_probs=165.5

Q ss_pred             cccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcE
Q 040303           83 GALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRT  162 (552)
Q Consensus        83 ~~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~  162 (552)
                      ...+++++|++.++.+.. ++....+++|++|++++|...  .++.  +..+++|++|++++|.+..+| .++.+++|++
T Consensus        38 ~~l~~L~~L~l~~~~i~~-l~~~~~l~~L~~L~L~~n~i~--~~~~--~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~~  111 (308)
T 1h6u_A           38 ADLDGITTLSAFGTGVTT-IEGVQYLNNLIGLELKDNQIT--DLAP--LKNLTKITELELSGNPLKNVS-AIAGLQSIKT  111 (308)
T ss_dssp             HHHHTCCEEECTTSCCCC-CTTGGGCTTCCEEECCSSCCC--CCGG--GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCE
T ss_pred             HHcCCcCEEEeeCCCccC-chhhhccCCCCEEEccCCcCC--CChh--HccCCCCCEEEccCCcCCCch-hhcCCCCCCE
Confidence            347789999999999887 777778999999999998765  5665  589999999999999998876 6899999999


Q ss_pred             EEccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccch
Q 040303          163 LCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWE  242 (552)
Q Consensus       163 L~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  242 (552)
                      |++++|.+...+.+.++++|++|++++|.+..+|. +..+++|++|++++|. +..++.  +..+++|+.|+++++... 
T Consensus       112 L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~-l~~~~~--l~~l~~L~~L~l~~n~l~-  186 (308)
T 1h6u_A          112 LDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGNAQ-VSDLTP--LANLSKLTTLKADDNKIS-  186 (308)
T ss_dssp             EECTTSCCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCC-
T ss_pred             EECCCCCCCCchhhcCCCCCCEEECCCCccCcCcc-ccCCCCccEEEccCCc-CCCChh--hcCCCCCCEEECCCCccC-
Confidence            99999999885569999999999999999998875 8999999999999987 677776  799999999999855431 


Q ss_pred             hhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEeccc
Q 040303          243 VEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRW  296 (552)
Q Consensus       243 ~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~  296 (552)
                                 ....+..+++|+.|++++|.+..++....+++|+.|.+.++.+
T Consensus       187 -----------~~~~l~~l~~L~~L~L~~N~l~~~~~l~~l~~L~~L~l~~N~i  229 (308)
T 1h6u_A          187 -----------DISPLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLTNQTI  229 (308)
T ss_dssp             -----------CCGGGGGCTTCCEEECTTSCCCBCGGGTTCTTCCEEEEEEEEE
T ss_pred             -----------cChhhcCCCCCCEEEccCCccCccccccCCCCCCEEEccCCee
Confidence                       2234889999999999999988888644889999999987764

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=99.76  E-value=9e-20  Score=193.58  Aligned_cols=198  Identities=19%  Similarity=0.140  Sum_probs=132.7

Q ss_pred             ccCcccEEEeecCCCcccCCCcc--CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccc-----ccchhcC
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVL--ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSL-----LPSSLGL  156 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~--~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~-----lp~~i~~  156 (552)
                      ..+++++|+++++.+.+......  .+++|++|++.+|..........++.++++|++|++++|.+..     ++.....
T Consensus       103 ~~~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~  182 (594)
T 2p1m_B          103 SYTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDT  182 (594)
T ss_dssp             HCTTCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCTT
T ss_pred             hCCCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhhc
Confidence            35689999999988765333222  6899999999988422112233445689999999999998653     4444457


Q ss_pred             CCCCcEEEccCCC--CCC--h-hhhcCCCCccEEEecCC-cCcccchhhccCCCCCEEeccCCCC------CCccCcccc
Q 040303          157 LTNLRTLCLYCSE--LQD--I-AVIGELKNLEILCLRGS-YIEQLPVEIGQLTRLRSLDLRDCDR------LQVIPPNVL  224 (552)
Q Consensus       157 l~~L~~L~l~~~~--~~~--~-~~i~~L~~L~~L~l~~~-~l~~lp~~i~~l~~L~~L~l~~~~~------~~~~~~~~l  224 (552)
                      +++|++|++++|.  +..  . ..+.++++|++|++++| .+..+|..+.++++|++|++..+..      +..++.. +
T Consensus       183 ~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~l~~~-l  261 (594)
T 2p1m_B          183 YTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVA-L  261 (594)
T ss_dssp             CCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTTSCHHHHHHHHHHCTTCSEEECSBCCCCCCHHHHHHHHHH-H
T ss_pred             CCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCCCcHHHHHHHHhcCCcceEcccccccCccchhhHHHHHHH-H
Confidence            8899999999997  322  2 33466899999999999 6677888899999999999776531      2234444 6


Q ss_pred             cCCCCCcEEE-ccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCc--CCCcc-cccCCceEEEEe
Q 040303          225 SNLSHLEELY-IRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNT--LPKGL-FFEKLERYRICI  293 (552)
Q Consensus       225 ~~l~~L~~L~-l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~--~p~~~-~l~~L~~L~l~~  293 (552)
                      +++++|+.|. +....           .......+..+++|++|++++|.+..  ++..+ .+++|+.|.+..
T Consensus       262 ~~~~~L~~Ls~~~~~~-----------~~~l~~~~~~~~~L~~L~L~~~~l~~~~l~~~~~~~~~L~~L~l~~  323 (594)
T 2p1m_B          262 SGCKELRCLSGFWDAV-----------PAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLD  323 (594)
T ss_dssp             HTCTTCCEEECCBTCC-----------GGGGGGGHHHHTTCCEEECTTCCCCHHHHHHHHTTCTTCCEEEEEG
T ss_pred             hcCCCcccccCCcccc-----------hhhHHHHHHhhCCCCEEEccCCCCCHHHHHHHHhcCCCcCEEeCcC
Confidence            7788888883 22111           11122333466788888888777432  11111 567777777754

>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=99.75  E-value=5.6e-17  Score=156.80  Aligned_cols=199  Identities=24%  Similarity=0.296  Sum_probs=160.8

Q ss_pred             cccCcccEEEeecCCCccc--CC-CccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc--hhcCC
Q 040303           83 GALKFYTSIVLHDSKMNVL--LP-EVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS--SLGLL  157 (552)
Q Consensus        83 ~~~~~lr~L~l~~~~~~~~--~~-~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~--~i~~l  157 (552)
                      ...+++++|++++|.+...  .+ ....+++|++|++++|...  .+|..+ ..+++|++|++++|.+..++.  .+..+
T Consensus        49 ~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~--~l~~~~-~~l~~L~~L~l~~n~l~~~~~~~~~~~l  125 (306)
T 2z66_A           49 DKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVI--TMSSNF-LGLEQLEHLDFQHSNLKQMSEFSVFLSL  125 (306)
T ss_dssp             TTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEECCSCSEE--EEEEEE-ETCTTCCEEECTTSEEESSTTTTTTTTC
T ss_pred             hccccCCEEECCCCccCcccCcccccccccccCEEECCCCccc--cChhhc-CCCCCCCEEECCCCcccccccchhhhhc
Confidence            4578899999999988752  12 3337899999999998765  677664 889999999999999988764  78999


Q ss_pred             CCCcEEEccCCCCCC--hhhhcCCCCccEEEecCCcCcc--cchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEE
Q 040303          158 TNLRTLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQ--LPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEEL  233 (552)
Q Consensus       158 ~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~--lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L  233 (552)
                      ++|++|++++|.+..  +..+.++++|++|++++|.+..  +|..+..+++|++|++++|. +..+++..++.+++|++|
T Consensus       126 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L  204 (306)
T 2z66_A          126 RNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ-LEQLSPTAFNSLSSLQVL  204 (306)
T ss_dssp             TTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSC-CCEECTTTTTTCTTCCEE
T ss_pred             cCCCEEECCCCcCCccchhhcccCcCCCEEECCCCccccccchhHHhhCcCCCEEECCCCC-cCCcCHHHhcCCCCCCEE
Confidence            999999999999775  6778999999999999998875  78889999999999999987 666655558999999999


Q ss_pred             EccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCC-cc-cc-cCCceEEEEecc
Q 040303          234 YIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPK-GL-FF-EKLERYRICIGR  295 (552)
Q Consensus       234 ~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~-~~-~l-~~L~~L~l~~~~  295 (552)
                      +++++..          .......+..+++|+.|++++|.+...+. .+ .+ ++|+.|.++++.
T Consensus       205 ~L~~N~l----------~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~L~L~~N~  259 (306)
T 2z66_A          205 NMSHNNF----------FSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQND  259 (306)
T ss_dssp             ECTTSCC----------SBCCSGGGTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCCEEECTTCC
T ss_pred             ECCCCcc----------CccChhhccCcccCCEeECCCCCCcccCHHHHHhhhccCCEEEccCCC
Confidence            9985543          11233457889999999999999766544 33 44 478888876554

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

Probab=99.75  E-value=7.7e-19  Score=170.23  Aligned_cols=153  Identities=17%  Similarity=0.190  Sum_probs=105.8

Q ss_pred             CCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccc--cccchhc-------CCCCCcEEEccCCCCCC--hhhh
Q 040303          108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLS--LLPSSLG-------LLTNLRTLCLYCSELQD--IAVI  176 (552)
Q Consensus       108 ~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~--~lp~~i~-------~l~~L~~L~l~~~~~~~--~~~i  176 (552)
                      .++|+.|++.++..   .+|..+...   |++|+++++.+.  .+|..+.       ++.+|++|++++|.+..  |..+
T Consensus        42 ~~~L~~l~l~~n~l---~~p~~~~~~---L~~L~L~~n~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~  115 (312)
T 1wwl_A           42 GRSLEYLLKRVDTE---ADLGQFTDI---IKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPL  115 (312)
T ss_dssp             EEECTTHHHHCCTT---CCCHHHHHH---HHHCCCCEEEEEEEECBHHHHHHHHHHHTTSCCCEEEEEEEBCBSCCCCCS
T ss_pred             CCCceeEeeccccc---ccHHHHHHH---HhhcccccccccCCCcCHHHHHHHHHhcCcCCccEEEccCCcccchhHHHH
Confidence            34566666666654   567666433   778888888774  3666655       68888888888888764  6555


Q ss_pred             --cCCCCccEEEecCCcCcccchhhccC-----CCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhc
Q 040303          177 --GELKNLEILCLRGSYIEQLPVEIGQL-----TRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAG  249 (552)
Q Consensus       177 --~~L~~L~~L~l~~~~l~~lp~~i~~l-----~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  249 (552)
                        ..+++|++|++++|.+..+|..++.+     ++|++|++++|. +..+++..++.+++|++|+++++.....      
T Consensus       116 ~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~Ls~N~l~~~------  188 (312)
T 1wwl_A          116 LEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAH-SLNFSCEQVRVFPALSTLDLSDNPELGE------  188 (312)
T ss_dssp             SSCCSCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESCS-CCCCCTTTCCCCSSCCEEECCSCTTCHH------
T ss_pred             HHhcCCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCCC-CccchHHHhccCCCCCEEECCCCCcCcc------
Confidence              78888888888888888777777766     888888888877 5666644478888888888875542100      


Q ss_pred             ccccChhhh--cCCCCCcEEEccCCCCC
Q 040303          250 VKNASLEEL--KRLPNLTTLELCIPDVN  275 (552)
Q Consensus       250 ~~~~~~~~l--~~l~~L~~L~l~~~~~~  275 (552)
                        ...+..+  +.+++|+.|++++|.+.
T Consensus       189 --~~~~~~~~~~~l~~L~~L~L~~N~l~  214 (312)
T 1wwl_A          189 --RGLISALCPLKFPTLQVLALRNAGME  214 (312)
T ss_dssp             --HHHHHHSCTTSCTTCCEEECTTSCCC
T ss_pred             --hHHHHHHHhccCCCCCEEECCCCcCc
Confidence              0012233  67788888888877654

>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=99.75  E-value=1.4e-17  Score=158.38  Aligned_cols=199  Identities=23%  Similarity=0.251  Sum_probs=160.5

Q ss_pred             ccCcccEEEeecCCCcccCC-CccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccccc-chhcCCCCCc
Q 040303           84 ALKFYTSIVLHDSKMNVLLP-EVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLP-SSLGLLTNLR  161 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~-~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp-~~i~~l~~L~  161 (552)
                      ..+++++|+++++.+....+ .+..+++|++|++++|...  .++...|.++++|++|++++|.+..++ ..++++++|+
T Consensus        26 l~~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~--~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  103 (276)
T 2z62_A           26 LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQ--TIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ  103 (276)
T ss_dssp             SCTTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCCCC--EECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCC
T ss_pred             CCCCccEEECCCCcccccCHhHhccccCCcEEECCCCcCC--ccCHHHccCCcCCCEEECCCCccCccChhhhcCCcccc
Confidence            45689999999999988444 3348999999999998765  677766799999999999999998766 5789999999


Q ss_pred             EEEccCCCCCC--hhhhcCCCCccEEEecCCcCcc--cchhhccCCCCCEEeccCCCCCCccCcccccCCCCCc----EE
Q 040303          162 TLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQ--LPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLE----EL  233 (552)
Q Consensus       162 ~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~--lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~----~L  233 (552)
                      +|++++|.+..  +..++++++|++|++++|.+..  +|..+.++++|++|++++|. +..++...+..+++|+    .|
T Consensus       104 ~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~l~l~L  182 (276)
T 2z62_A          104 KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNK-IQSIYCTDLRVLHQMPLLNLSL  182 (276)
T ss_dssp             EEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSC-CCEECGGGGHHHHTCTTCCEEE
T ss_pred             EEECCCCCccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCCC-CCcCCHHHhhhhhhccccceee
Confidence            99999999887  3469999999999999998886  78899999999999999987 6777655466666666    78


Q ss_pred             EccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcc--cccCCceEEEEeccc
Q 040303          234 YIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL--FFEKLERYRICIGRW  296 (552)
Q Consensus       234 ~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~--~l~~L~~L~l~~~~~  296 (552)
                      +++++...           ..........+|+.|++++|.+..+|...  .+++|+.|.+.++.|
T Consensus       183 ~ls~n~l~-----------~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~~  236 (276)
T 2z62_A          183 DLSLNPMN-----------FIQPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPW  236 (276)
T ss_dssp             ECCSSCCC-----------EECTTSSCSCCEEEEECCSSCCSCCCTTTTTTCCSCCEEECCSSCB
T ss_pred             ecCCCccc-----------ccCccccCCCcccEEECCCCceeecCHhHhcccccccEEEccCCcc
Confidence            88744331           11222333448999999999999998874  688999999877654

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

Probab=99.75  E-value=5.8e-17  Score=153.53  Aligned_cols=179  Identities=26%  Similarity=0.327  Sum_probs=151.4

Q ss_pred             ccCcccEEEeecCCCcccCCC-ccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccch-hcCCCCCc
Q 040303           84 ALKFYTSIVLHDSKMNVLLPE-VLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS-LGLLTNLR  161 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~-~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~-i~~l~~L~  161 (552)
                      .+.++++|+++++.+....+. +..+++|++|++++|...  .++..+|.++++|++|++++|.+..+|.. +..+++|+
T Consensus        35 ~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~--~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~  112 (270)
T 2o6q_A           35 IPADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQ--TLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLA  112 (270)
T ss_dssp             CCTTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSCCS--CCCTTTTSSCTTCCEEECCSSCCCCCCTTTTTTCSSCC
T ss_pred             CCCCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCccC--eeChhhhcCCCCCCEEECCCCcCCcCCHhHcccccCCC
Confidence            457899999999999883333 348999999999998766  78888889999999999999999988754 68999999


Q ss_pred             EEEccCCCCCC--hhhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcccc
Q 040303          162 TLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSF  238 (552)
Q Consensus       162 ~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~  238 (552)
                      +|++++|.+..  +..+.++++|++|++++|.+..+|.. +..+++|++|++++|. +..++...+..+++|++|+++++
T Consensus       113 ~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~N  191 (270)
T 2o6q_A          113 ELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQ-LKRVPEGAFDKLTELKTLKLDNN  191 (270)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSS
T ss_pred             EEECCCCccCeeCHHHhCcCcCCCEEECCCCcCCccCHhHccCCcccceeEecCCc-CcEeChhHhccCCCcCEEECCCC
Confidence            99999999887  46689999999999999999988876 7889999999999987 77788766889999999999855


Q ss_pred             ccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCC
Q 040303          239 NKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVN  275 (552)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  275 (552)
                      ..          .......+..+++|+.|++++|...
T Consensus       192 ~l----------~~~~~~~~~~l~~L~~L~l~~N~~~  218 (270)
T 2o6q_A          192 QL----------KRVPEGAFDSLEKLKMLQLQENPWD  218 (270)
T ss_dssp             CC----------SCCCTTTTTTCTTCCEEECCSSCBC
T ss_pred             cC----------CcCCHHHhccccCCCEEEecCCCee
Confidence            43          1112345788999999999998754

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=99.75  E-value=2.1e-18  Score=182.95  Aligned_cols=387  Identities=15%  Similarity=0.095  Sum_probs=227.0

Q ss_pred             CcccEEEeecCCC-cc-cCCCcc-CCCCceEEEeecCCCCCcc--cChhHhhCCCCccEEEeeccccc-----cccchhc
Q 040303           86 KFYTSIVLHDSKM-NV-LLPEVL-ECPQLQLLSLWTEKSSLIT--LPDNFFRKLTQVRVLDLTYMHLS-----LLPSSLG  155 (552)
Q Consensus        86 ~~lr~L~l~~~~~-~~-~~~~~~-~~~~Lr~L~l~~~~~~~~~--~~~~~~~~l~~Lr~L~l~~~~~~-----~lp~~i~  155 (552)
                      .++++|++.++.. .. .++... .+++|++|++.+|......  ....++..+++|++|+++++.+.     .++..+.
T Consensus       138 ~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~  217 (592)
T 3ogk_B          138 DDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIAR  217 (592)
T ss_dssp             GGCCEEEEESCEEEEHHHHHHHHHHCTTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTCCCSSCCHHHHHHHHH
T ss_pred             ccCcEEECcCCCCcCHHHHHHHHhhCCCCCEEECccccccCcchhHHHHHHhcCCCccEEEeeccCCCccCHHHHHHHHh
Confidence            3489999987752 11 122222 6889999999988543111  01234467889999999988775     4566677


Q ss_pred             CCCCCcEEEccCCCCCC-hhhhcCCCCccEEEecCCcC----cccchhhccCCCCCEEeccCCCCCCccCcccccCCCCC
Q 040303          156 LLTNLRTLCLYCSELQD-IAVIGELKNLEILCLRGSYI----EQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHL  230 (552)
Q Consensus       156 ~l~~L~~L~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l----~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L  230 (552)
                      ++++|++|++++|.+.. +..+.++++|++|+++++..    ...+..+..+++|+.|++..+. ...+|.. +..+++|
T Consensus       218 ~~~~L~~L~L~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~-~~~l~~~-~~~~~~L  295 (592)
T 3ogk_B          218 NCRSLVSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMG-PNEMPIL-FPFAAQI  295 (592)
T ss_dssp             HCTTCCEEECSSCBGGGGHHHHHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTCC-TTTGGGG-GGGGGGC
T ss_pred             hCCCCcEEeccCccHHHHHHHHhhhhHHHhhcccccccccchHHHHHHhhccccccccCccccc-hhHHHHH-HhhcCCC
Confidence            88999999999988777 77888899999999975421    2344567788889999888753 4556654 6788899


Q ss_pred             cEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCC-CcCCCcc-cccCCceEEEEecccccCCCCCCcccc
Q 040303          231 EELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDV-NTLPKGL-FFEKLERYRICIGRWCWEDTSPTCSRT  308 (552)
Q Consensus       231 ~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~-~~~p~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~  308 (552)
                      ++|+++++.. ...        .....+..+++|+.|++..+-. ..++... .+++|+.|++..+..    ...     
T Consensus       296 ~~L~Ls~~~l-~~~--------~~~~~~~~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~L~~g~~----~~~-----  357 (592)
T 3ogk_B          296 RKLDLLYALL-ETE--------DHCTLIQKCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLRIERGAD----EQG-----  357 (592)
T ss_dssp             CEEEETTCCC-CHH--------HHHHHHTTCTTCCEEEEEGGGHHHHHHHHHHHCTTCCEEEEECCCC----SST-----
T ss_pred             cEEecCCCcC-CHH--------HHHHHHHhCcCCCEEeccCccCHHHHHHHHHhCCCCCEEEeecCcc----ccc-----
Confidence            9999885542 111        1223467888999998873321 1122222 567899998873100    000     


Q ss_pred             eeeecCccccccc----chhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCCCCCCcchhhhhhccc
Q 040303          309 FRLLLGTDNCISF----KSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTS  384 (552)
Q Consensus       309 ~~l~l~~~~~~~~----~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li~  384 (552)
                           ..+.|...    ...+...+++|++|.+.. ..  +...........+++|++|++++|..              
T Consensus       358 -----~~~~~~~~~~~~~~~l~~~~~~L~~L~l~~-~~--l~~~~~~~l~~~~~~L~~L~l~~~~~--------------  415 (592)
T 3ogk_B          358 -----MEDEEGLVSQRGLIALAQGCQELEYMAVYV-SD--ITNESLESIGTYLKNLCDFRLVLLDR--------------  415 (592)
T ss_dssp             -----TSSTTCCCCHHHHHHHHHHCTTCSEEEEEE-SC--CCHHHHHHHHHHCCSCCEEEEEECSC--------------
T ss_pred             -----cccccCccCHHHHHHHHhhCccCeEEEeec-CC--ccHHHHHHHHhhCCCCcEEEEeecCC--------------
Confidence                 00000011    112234578899998833 22  22211111123478899999985430              


Q ss_pred             ccc-cceeeeccCCCCCccccccccCCCccccccccee--eeEeccCCCCccccccCcceEEEEecCCCccccccchhHh
Q 040303          385 EMR-SNEIILEDHVNVPNTFFLKGGLPNLETLELYNVN--VERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVN  461 (552)
Q Consensus       385 ~c~-l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~--l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~  461 (552)
                       |+ +......     ..+......+++|+.|++++|.  +....   .......+++|++|++.+|. ++.......+.
T Consensus       416 -~n~l~~~p~~-----~~~~~~~~~~~~L~~L~L~~~~~~l~~~~---~~~~~~~~~~L~~L~L~~n~-l~~~~~~~~~~  485 (592)
T 3ogk_B          416 -EERITDLPLD-----NGVRSLLIGCKKLRRFAFYLRQGGLTDLG---LSYIGQYSPNVRWMLLGYVG-ESDEGLMEFSR  485 (592)
T ss_dssp             -CSCCSSCCCH-----HHHHHHHHHCTTCCEEEEECCGGGCCHHH---HHHHHHSCTTCCEEEECSCC-SSHHHHHHHHT
T ss_pred             -CccccCchHH-----HHHHHHHHhCCCCCEEEEecCCCCccHHH---HHHHHHhCccceEeeccCCC-CCHHHHHHHHh
Confidence             00 0000000     0000112357888888887652  22110   11111146888888888764 44321112456


Q ss_pred             hhcccceEEEecCCchhhhhccccccccccccCCccEEEeccccccccccCCcccccCCCccEEEeecC
Q 040303          462 SFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEVIRC  530 (552)
Q Consensus       462 ~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C  530 (552)
                      .+++|++|+|.+|+ ++......    ....+++|++|++++|. ++......+...+|.++...+...
T Consensus       486 ~~~~L~~L~l~~n~-l~~~~~~~----~~~~l~~L~~L~ls~n~-it~~~~~~l~~~~p~l~~~~~~~~  548 (592)
T 3ogk_B          486 GCPNLQKLEMRGCC-FSERAIAA----AVTKLPSLRYLWVQGYR-ASMTGQDLMQMARPYWNIELIPSR  548 (592)
T ss_dssp             CCTTCCEEEEESCC-CBHHHHHH----HHHHCSSCCEEEEESCB-CCTTCTTGGGGCCTTEEEEEECCC
T ss_pred             cCcccCeeeccCCC-CcHHHHHH----HHHhcCccCeeECcCCc-CCHHHHHHHHHhCCCcEEEEecCc
Confidence            77888999999887 43321111    23347888999999887 655544445556777777666553

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

Probab=99.74  E-value=2.1e-18  Score=167.12  Aligned_cols=242  Identities=15%  Similarity=0.115  Sum_probs=138.1

Q ss_pred             CcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHh------hCCCCccEEEeeccccc-cccchh--c
Q 040303           86 KFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFF------RKLTQVRVLDLTYMHLS-LLPSSL--G  155 (552)
Q Consensus        86 ~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~------~~l~~Lr~L~l~~~~~~-~lp~~i--~  155 (552)
                      ++++.++++++.+ . +|... ..  |+.|++.++......+|..+.      .++++|++|++++|.+. .+|..+  +
T Consensus        43 ~~L~~l~l~~n~l-~-~p~~~~~~--L~~L~L~~n~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~  118 (312)
T 1wwl_A           43 RSLEYLLKRVDTE-A-DLGQFTDI--IKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEA  118 (312)
T ss_dssp             EECTTHHHHCCTT-C-CCHHHHHH--HHHCCCCEEEEEEEECBHHHHHHHHHHHTTSCCCEEEEEEEBCBSCCCCCSSSC
T ss_pred             CCceeEeeccccc-c-cHHHHHHH--HhhcccccccccCCCcCHHHHHHHHHhcCcCCccEEEccCCcccchhHHHHHHh
Confidence            3455566666666 2 44322 21  666666655443224444431      15677777777777765 466655  6


Q ss_pred             CCCCCcEEEccCCCCCC-hhhhcCC-----CCccEEEecCCcCcccc-hhhccCCCCCEEeccCCCCCCc--cCccc-cc
Q 040303          156 LLTNLRTLCLYCSELQD-IAVIGEL-----KNLEILCLRGSYIEQLP-VEIGQLTRLRSLDLRDCDRLQV--IPPNV-LS  225 (552)
Q Consensus       156 ~l~~L~~L~l~~~~~~~-~~~i~~L-----~~L~~L~l~~~~l~~lp-~~i~~l~~L~~L~l~~~~~~~~--~~~~~-l~  225 (552)
                      .+++|++|++++|.+.. |..++++     ++|++|++++|.+..+| ..++++++|++|++++|...+.  ++... ++
T Consensus       119 ~l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~  198 (312)
T 1wwl_A          119 TGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPL  198 (312)
T ss_dssp             CSCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCCCSSCCEEECCSCTTCHHHHHHHHSCTT
T ss_pred             cCCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCCCCccchHHHhccCCCCCEEECCCCCcCcchHHHHHHHhc
Confidence            77777777777777665 5555555     67777777777776655 4567777777777777653332  22220 26


Q ss_pred             CCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCC-c--ccccCCceEEEEecccccCCCC
Q 040303          226 NLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPK-G--LFFEKLERYRICIGRWCWEDTS  302 (552)
Q Consensus       226 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~-~--~~l~~L~~L~l~~~~~~~~~~~  302 (552)
                      .+++|++|+++++......       ......+..+++|+.|++++|.+...+. .  ..+++|+.|.++.+...     
T Consensus       199 ~l~~L~~L~L~~N~l~~~~-------~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~Ls~N~l~-----  266 (312)
T 1wwl_A          199 KFPTLQVLALRNAGMETPS-------GVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSFTGLK-----  266 (312)
T ss_dssp             SCTTCCEEECTTSCCCCHH-------HHHHHHHHTTCCCSEEECTTSCCCSSCCCSCCCCCTTCCEEECTTSCCS-----
T ss_pred             cCCCCCEEECCCCcCcchH-------HHHHHHHhcCCCCCEEECCCCcCCcccchhhhhhcCCCCEEECCCCccC-----
Confidence            6777777777644331000       0011223466777777777777655431 1  14566666666443311     


Q ss_pred             CCcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC
Q 040303          303 PTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ  369 (552)
Q Consensus       303 ~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~  369 (552)
                                       ..+.++   .++|+.|+++++.-   ..++.   ...+++|++|++++++
T Consensus       267 -----------------~ip~~~---~~~L~~L~Ls~N~l---~~~p~---~~~l~~L~~L~L~~N~  307 (312)
T 1wwl_A          267 -----------------QVPKGL---PAKLSVLDLSYNRL---DRNPS---PDELPQVGNLSLKGNP  307 (312)
T ss_dssp             -----------------SCCSSC---CSEEEEEECCSSCC---CSCCC---TTTSCEEEEEECTTCT
T ss_pred             -----------------hhhhhc---cCCceEEECCCCCC---CCChh---HhhCCCCCEEeccCCC
Confidence                             011111   15778888877654   33332   3578899999999876

>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=99.73  E-value=5e-17  Score=151.08  Aligned_cols=198  Identities=14%  Similarity=0.257  Sum_probs=160.5

Q ss_pred             ccccCccccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCC-CCCcccChhHhhCCCCccEEEeec-cccccccc-
Q 040303           77 REWLDEGALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEK-SSLITLPDNFFRKLTQVRVLDLTY-MHLSLLPS-  152 (552)
Q Consensus        77 ~~~~~~~~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~-~~~~~~~~~~~~~l~~Lr~L~l~~-~~~~~lp~-  152 (552)
                      ..+|.  ...++++|+++++.+....+..+ .+++|++|++++|. ..  .++...|.++++|++|++++ +.++.+|. 
T Consensus        24 ~~ip~--~~~~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~--~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~   99 (239)
T 2xwt_C           24 QRIPS--LPPSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQ--QLESHSFYNLSKVTHIEIRNTRNLTYIDPD   99 (239)
T ss_dssp             SSCCC--CCTTCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCC--EECTTTEESCTTCCEEEEEEETTCCEECTT
T ss_pred             cccCC--CCCcccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCcc--eeCHhHcCCCcCCcEEECCCCCCeeEcCHH
Confidence            34444  56689999999999988333334 89999999999986 54  77877779999999999998 89988874 


Q ss_pred             hhcCCCCCcEEEccCCCCCChhhhcCCCCcc---EEEecCC-cCcccchh-hccCCCCC-EEeccCCCCCCccCcccccC
Q 040303          153 SLGLLTNLRTLCLYCSELQDIAVIGELKNLE---ILCLRGS-YIEQLPVE-IGQLTRLR-SLDLRDCDRLQVIPPNVLSN  226 (552)
Q Consensus       153 ~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~---~L~l~~~-~l~~lp~~-i~~l~~L~-~L~l~~~~~~~~~~~~~l~~  226 (552)
                      .+.++++|++|++++|.+...+.+.++.+|+   +|++++| .++.+|.. +..+++|+ +|++++|. +..+|...+..
T Consensus       100 ~f~~l~~L~~L~l~~n~l~~lp~~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~-l~~i~~~~~~~  178 (239)
T 2xwt_C          100 ALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNG-FTSVQGYAFNG  178 (239)
T ss_dssp             SEECCTTCCEEEEEEECCCSCCCCTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCC-CCEECTTTTTT
T ss_pred             HhCCCCCCCEEeCCCCCCccccccccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCC-CcccCHhhcCC
Confidence            6889999999999999988833388888888   9999999 99988865 88899999 99999987 67888874444


Q ss_pred             CCCCcEEEccccc-cchhhhhhhcccccChhhhcCC-CCCcEEEccCCCCCcCCCcccccCCceEEE
Q 040303          227 LSHLEELYIRSFN-KWEVEVEAAGVKNASLEELKRL-PNLTTLELCIPDVNTLPKGLFFEKLERYRI  291 (552)
Q Consensus       227 l~~L~~L~l~~~~-~~~~~~~~~~~~~~~~~~l~~l-~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l  291 (552)
                       ++|++|+++++. .          .......+..+ ++|+.|++++|.+..+|.. .+++|+.|.+
T Consensus       179 -~~L~~L~L~~n~~l----------~~i~~~~~~~l~~~L~~L~l~~N~l~~l~~~-~~~~L~~L~l  233 (239)
T 2xwt_C          179 -TKLDAVYLNKNKYL----------TVIDKDAFGGVYSGPSLLDVSQTSVTALPSK-GLEHLKELIA  233 (239)
T ss_dssp             -CEEEEEECTTCTTC----------CEECTTTTTTCSBCCSEEECTTCCCCCCCCT-TCTTCSEEEC
T ss_pred             -CCCCEEEcCCCCCc----------ccCCHHHhhccccCCcEEECCCCccccCChh-HhccCceeec
Confidence             899999998653 2          11133557788 9999999999999988877 6778888875

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

Probab=99.72  E-value=9.9e-18  Score=172.36  Aligned_cols=235  Identities=18%  Similarity=0.129  Sum_probs=132.7

Q ss_pred             CccEEEeecccccccc-chhcCCCCCcEEEccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCC
Q 040303          136 QVRVLDLTYMHLSLLP-SSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCD  214 (552)
Q Consensus       136 ~Lr~L~l~~~~~~~lp-~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~  214 (552)
                      +|++|++++|.+..++ ..++.+++|++|++++|.+.....++.+++|++|++++|.++.+|..    ++|++|++++|.
T Consensus        35 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l~~l~~~----~~L~~L~L~~N~  110 (487)
T 3oja_A           35 NVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLVG----PSIETLHAANNN  110 (487)
T ss_dssp             GCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSCCEEEEECTTCTTCCEEECCSSEEEEEEEC----TTCCEEECCSSC
T ss_pred             CccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCCCCcccccCCCCCEEEecCCcCCCCCCC----CCcCEEECcCCc
Confidence            6777777777666543 45667777777777777666522266677777777777766655532    667777777665


Q ss_pred             CCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEec
Q 040303          215 RLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIG  294 (552)
Q Consensus       215 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~  294 (552)
                       +..++.   ..+++|+.|+++++..          .......++.+++|+.|++++|.+...+.               
T Consensus       111 -l~~~~~---~~l~~L~~L~L~~N~l----------~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~---------------  161 (487)
T 3oja_A          111 -ISRVSC---SRGQGKKNIYLANNKI----------TMLRDLDEGCRSRVQYLDLKLNEIDTVNF---------------  161 (487)
T ss_dssp             -CCCEEE---CCCSSCEEEECCSSCC----------CSGGGBCGGGGSSEEEEECTTSCCCEEEG---------------
T ss_pred             -CCCCCc---cccCCCCEEECCCCCC----------CCCCchhhcCCCCCCEEECCCCCCCCcCh---------------
Confidence             444443   2356666666664332          11122345556666667766665443211               


Q ss_pred             ccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCCCCCCc
Q 040303          295 RWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPK  374 (552)
Q Consensus       295 ~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~~lp~  374 (552)
                                                  ..+...+++|+.|+++++.-   ..++..   ..+++|+.|++++|.     
T Consensus       162 ----------------------------~~l~~~l~~L~~L~Ls~N~l---~~~~~~---~~l~~L~~L~Ls~N~-----  202 (487)
T 3oja_A          162 ----------------------------AELAASSDTLEHLNLQYNFI---YDVKGQ---VVFAKLKTLDLSSNK-----  202 (487)
T ss_dssp             ----------------------------GGGGGGTTTCCEEECTTSCC---CEEECC---CCCTTCCEEECCSSC-----
T ss_pred             ----------------------------HHHhhhCCcccEEecCCCcc---cccccc---ccCCCCCEEECCCCC-----
Confidence                                        01111235556666655543   222211   246777777777765     


Q ss_pred             chhhhhhcccccccceeeeccCCCCCccccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCc-cc
Q 040303          375 ESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGEL-RC  453 (552)
Q Consensus       375 ~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L-~~  453 (552)
                                   +..+           +.....+++|+.|++++|.+..++....     .+++|+.|++.+++-. ..
T Consensus       203 -------------l~~~-----------~~~~~~l~~L~~L~Ls~N~l~~lp~~l~-----~l~~L~~L~l~~N~l~c~~  253 (487)
T 3oja_A          203 -------------LAFM-----------GPEFQSAAGVTWISLRNNKLVLIEKALR-----FSQNLEHFDLRGNGFHCGT  253 (487)
T ss_dssp             -------------CCEE-----------CGGGGGGTTCSEEECTTSCCCEECTTCC-----CCTTCCEEECTTCCBCHHH
T ss_pred             -------------CCCC-----------CHhHcCCCCccEEEecCCcCcccchhhc-----cCCCCCEEEcCCCCCcCcc
Confidence                         1111           1122456778888888887766554322     6688888888876443 23


Q ss_pred             cccchhHhhhcccceEEEec
Q 040303          454 LFSSSIVNSFIRLQHLEIDE  473 (552)
Q Consensus       454 lp~~~~~~~l~~L~~L~i~~  473 (552)
                      +|.  .+..++.|+.+.+..
T Consensus       254 ~~~--~~~~l~~L~~l~~~~  271 (487)
T 3oja_A          254 LRD--FFSKNQRVQTVAKQT  271 (487)
T ss_dssp             HHH--HHTTCHHHHHHHHHH
T ss_pred             hHH--HHHhCCCCcEEeccc
Confidence            332  456666666666653

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

Probab=99.72  E-value=1.5e-17  Score=157.79  Aligned_cols=174  Identities=28%  Similarity=0.369  Sum_probs=113.5

Q ss_pred             ccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccch-hcCCCCCcE
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS-LGLLTNLRT  162 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~-i~~l~~L~~  162 (552)
                      ..++++.|++.++.+.. ++....+++|++|++++|...  .++ . +..+++|++|++++|.+..+|.. ++++++|++
T Consensus        39 ~l~~L~~L~l~~~~i~~-~~~l~~l~~L~~L~l~~n~l~--~~~-~-l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  113 (272)
T 3rfs_A           39 ELNSIDQIIANNSDIKS-VQGIQYLPNVRYLALGGNKLH--DIS-A-LKELTNLTYLILTGNQLQSLPNGVFDKLTNLKE  113 (272)
T ss_dssp             HHTTCCEEECTTSCCCC-CTTGGGCTTCCEEECTTSCCC--CCG-G-GTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCE
T ss_pred             cccceeeeeeCCCCccc-ccccccCCCCcEEECCCCCCC--Cch-h-hcCCCCCCEEECCCCccCccChhHhcCCcCCCE
Confidence            46667777777777665 555556777777777776654  332 2 46777777777777777665544 567777777


Q ss_pred             EEccCCCCCC--hhhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccc
Q 040303          163 LCLYCSELQD--IAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFN  239 (552)
Q Consensus       163 L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  239 (552)
                      |++++|.+..  +..++++++|++|++++|.++.+|.. ++++++|++|++++|. +..++...++.+++|++|+++++.
T Consensus       114 L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~L~~N~  192 (272)
T 3rfs_A          114 LVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQ-LQSLPEGVFDKLTQLKDLRLYQNQ  192 (272)
T ss_dssp             EECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             EECCCCcCCccCHHHhccCCCCCEEECCCCccCccCHHHhccCccCCEEECCCCC-cCccCHHHhcCCccCCEEECCCCc
Confidence            7777777665  34467777777777777777766654 4667777777777765 556665545677777777776443


Q ss_pred             cchhhhhhhcccccChhhhcCCCCCcEEEccCCC
Q 040303          240 KWEVEVEAAGVKNASLEELKRLPNLTTLELCIPD  273 (552)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  273 (552)
                      .          .......++.+++|+.|++++|.
T Consensus       193 l----------~~~~~~~~~~l~~L~~L~l~~N~  216 (272)
T 3rfs_A          193 L----------KSVPDGVFDRLTSLQYIWLHDNP  216 (272)
T ss_dssp             C----------SCCCTTTTTTCTTCCEEECCSSC
T ss_pred             C----------CccCHHHHhCCcCCCEEEccCCC
Confidence            2          11122335666777777776664

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

Probab=99.71  E-value=2.7e-16  Score=149.09  Aligned_cols=191  Identities=24%  Similarity=0.301  Sum_probs=141.9

Q ss_pred             EEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCC
Q 040303           90 SIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSE  169 (552)
Q Consensus        90 ~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~  169 (552)
                      .+.+..+.+.. ......+++|+.|.+.++...  .++.  +..+++|++|++++|.+..++ .++.+++|++|++++|.
T Consensus        23 ~l~l~~~~~~~-~~~~~~l~~L~~L~l~~~~i~--~~~~--l~~l~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~L~~n~   96 (272)
T 3rfs_A           23 KANLKKKSVTD-AVTQNELNSIDQIIANNSDIK--SVQG--IQYLPNVRYLALGGNKLHDIS-ALKELTNLTYLILTGNQ   96 (272)
T ss_dssp             HHHHTCSCTTS-EECHHHHTTCCEEECTTSCCC--CCTT--GGGCTTCCEEECTTSCCCCCG-GGTTCTTCCEEECTTSC
T ss_pred             HHHhcCccccc-ccccccccceeeeeeCCCCcc--cccc--cccCCCCcEEECCCCCCCCch-hhcCCCCCCEEECCCCc
Confidence            33444444443 233346788889988887654  4443  478889999999998887764 68888999999999988


Q ss_pred             CCC--hhhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhh
Q 040303          170 LQD--IAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVE  246 (552)
Q Consensus       170 ~~~--~~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~  246 (552)
                      +..  +..++++++|++|++++|.+..+|.. ++++++|++|++++|. +..++...++.+++|++|+++++..      
T Consensus        97 l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l------  169 (272)
T 3rfs_A           97 LQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQ-LQSLPKGVFDKLTNLTELDLSYNQL------  169 (272)
T ss_dssp             CCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCC------
T ss_pred             cCccChhHhcCCcCCCEEECCCCcCCccCHHHhccCCCCCEEECCCCc-cCccCHHHhccCccCCEEECCCCCc------
Confidence            877  34578889999999999888877765 6788899999998886 6777776568889999999885543      


Q ss_pred             hhcccccChhhhcCCCCCcEEEccCCCCCcCCCcc--cccCCceEEEEecccc
Q 040303          247 AAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL--FFEKLERYRICIGRWC  297 (552)
Q Consensus       247 ~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~--~l~~L~~L~l~~~~~~  297 (552)
                          .......++.+++|+.|++++|.+..++...  .+++|+.|.+..+.|.
T Consensus       170 ----~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~  218 (272)
T 3rfs_A          170 ----QSLPEGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWD  218 (272)
T ss_dssp             ----CCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBC
T ss_pred             ----CccCHHHhcCCccCCEEECCCCcCCccCHHHHhCCcCCCEEEccCCCcc
Confidence                1112344678889999999988887777653  6888888888776643

>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=99.71  E-value=1.1e-16  Score=152.35  Aligned_cols=191  Identities=23%  Similarity=0.296  Sum_probs=143.3

Q ss_pred             EEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEEccCCC
Q 040303           91 IVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSE  169 (552)
Q Consensus        91 L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~~~~  169 (552)
                      ++..+..+.. +|... .++|++|++++|...  .++...|.++++|++|++++|.+..++. .++++++|++|++++|.
T Consensus        12 ~~c~~~~l~~-ip~~l-~~~l~~L~ls~n~l~--~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~   87 (276)
T 2z62_A           12 YQCMELNFYK-IPDNL-PFSTKNLDLSFNPLR--HLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP   87 (276)
T ss_dssp             EECTTSCCSS-CCSSS-CTTCCEEECTTCCCC--EECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCC
T ss_pred             EEecCCCccc-cCCCC-CCCccEEECCCCccc--ccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCc
Confidence            3334444444 55433 257999999998765  6676567899999999999999987765 68999999999999999


Q ss_pred             CCC--hhhhcCCCCccEEEecCCcCcccch-hhccCCCCCEEeccCCCCCCc--cCcccccCCCCCcEEEccccccchhh
Q 040303          170 LQD--IAVIGELKNLEILCLRGSYIEQLPV-EIGQLTRLRSLDLRDCDRLQV--IPPNVLSNLSHLEELYIRSFNKWEVE  244 (552)
Q Consensus       170 ~~~--~~~i~~L~~L~~L~l~~~~l~~lp~-~i~~l~~L~~L~l~~~~~~~~--~~~~~l~~l~~L~~L~l~~~~~~~~~  244 (552)
                      +..  +..+.++++|++|++++|.+..++. .++++++|++|++++|. +..  +|.. ++.+++|++|+++++....  
T Consensus        88 l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~l~~~-~~~l~~L~~L~Ls~N~l~~--  163 (276)
T 2z62_A           88 IQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNL-IQSFKLPEY-FSNLTNLEHLDLSSNKIQS--  163 (276)
T ss_dssp             CCEECTTTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSC-CCCCCCCGG-GGGCTTCCEEECCSSCCCE--
T ss_pred             cCccChhhhcCCccccEEECCCCCccccCchhcccCCCCCEEECcCCc-cceecCchh-hccCCCCCEEECCCCCCCc--
Confidence            887  5789999999999999999887766 58899999999999987 554  5665 8999999999998554311  


Q ss_pred             hhhhcccccChhhhcCCCCCc-EEEccCCCCCcCCCcc-cccCCceEEEEec
Q 040303          245 VEAAGVKNASLEELKRLPNLT-TLELCIPDVNTLPKGL-FFEKLERYRICIG  294 (552)
Q Consensus       245 ~~~~~~~~~~~~~l~~l~~L~-~L~l~~~~~~~~p~~~-~l~~L~~L~l~~~  294 (552)
                           ........+..++.|. .|++++|.+..++... ...+|+.|.++++
T Consensus       164 -----~~~~~~~~l~~L~~l~l~L~ls~n~l~~~~~~~~~~~~L~~L~L~~n  210 (276)
T 2z62_A          164 -----IYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTN  210 (276)
T ss_dssp             -----ECGGGGHHHHTCTTCCEEEECCSSCCCEECTTSSCSCCEEEEECCSS
T ss_pred             -----CCHHHhhhhhhccccceeeecCCCcccccCccccCCCcccEEECCCC
Confidence                 1111234445555555 8999999988877664 4446766666433

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

Probab=99.71  E-value=3.9e-17  Score=167.93  Aligned_cols=211  Identities=17%  Similarity=0.164  Sum_probs=109.2

Q ss_pred             cccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEc
Q 040303           87 FYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCL  165 (552)
Q Consensus        87 ~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l  165 (552)
                      ++++|++++|.+....+..+ .+++|++|++++|...  ..++  +..+++|++|++++|.+..+|.    .++|++|++
T Consensus        35 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~--~~~~--l~~l~~L~~L~Ls~N~l~~l~~----~~~L~~L~L  106 (487)
T 3oja_A           35 NVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLY--ETLD--LESLSTLRTLDLNNNYVQELLV----GPSIETLHA  106 (487)
T ss_dssp             GCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSCCE--EEEE--CTTCTTCCEEECCSSEEEEEEE----CTTCCEEEC
T ss_pred             CccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCC--CCcc--cccCCCCCEEEecCCcCCCCCC----CCCcCEEEC
Confidence            55666666665555222222 5555666666555443  2222  3555556666666555554442    255566666


Q ss_pred             cCCCCCC-hhhhcCCCCccEEEecCCcCccc-chhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchh
Q 040303          166 YCSELQD-IAVIGELKNLEILCLRGSYIEQL-PVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEV  243 (552)
Q Consensus       166 ~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~l-p~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  243 (552)
                      ++|.+.. +.  ..+++|++|++++|.+..+ |..++.+++|++|++++|...+..|..+.+.+++|++|+++++...  
T Consensus       107 ~~N~l~~~~~--~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~--  182 (487)
T 3oja_A          107 ANNNISRVSC--SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIY--  182 (487)
T ss_dssp             CSSCCCCEEE--CCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCC--
T ss_pred             cCCcCCCCCc--cccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCCccc--
Confidence            5555554 22  1345555566655555543 3345555556666655554222233331124555555555533220  


Q ss_pred             hhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcccccccch
Q 040303          244 EVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKS  323 (552)
Q Consensus       244 ~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~  323 (552)
                                .......+++|+.|++++|.+..+|..+                                          
T Consensus       183 ----------~~~~~~~l~~L~~L~Ls~N~l~~~~~~~------------------------------------------  210 (487)
T 3oja_A          183 ----------DVKGQVVFAKLKTLDLSSNKLAFMGPEF------------------------------------------  210 (487)
T ss_dssp             ----------EEECCCCCTTCCEEECCSSCCCEECGGG------------------------------------------
T ss_pred             ----------cccccccCCCCCEEECCCCCCCCCCHhH------------------------------------------
Confidence                      0122223555555555555544433221                                          


Q ss_pred             hHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC
Q 040303          324 GHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ  369 (552)
Q Consensus       324 ~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~  369 (552)
                         ..+++|+.|+++++.-   ..++..  ...+++|+.|++++|+
T Consensus       211 ---~~l~~L~~L~Ls~N~l---~~lp~~--l~~l~~L~~L~l~~N~  248 (487)
T 3oja_A          211 ---QSAAGVTWISLRNNKL---VLIEKA--LRFSQNLEHFDLRGNG  248 (487)
T ss_dssp             ---GGGTTCSEEECTTSCC---CEECTT--CCCCTTCCEEECTTCC
T ss_pred             ---cCCCCccEEEecCCcC---cccchh--hccCCCCCEEEcCCCC
Confidence               2357778888877654   344432  3567899999999987

>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=99.70  E-value=4.5e-16  Score=145.68  Aligned_cols=175  Identities=27%  Similarity=0.398  Sum_probs=134.7

Q ss_pred             CcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEE
Q 040303           86 KFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLC  164 (552)
Q Consensus        86 ~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~  164 (552)
                      ...++++++++.+.. +|.... +.++.|++.++...  .++...|.++++|++|++++|.+..++. .+.++++|++|+
T Consensus        14 ~~~~~l~~~~~~l~~-~p~~~~-~~l~~L~L~~n~l~--~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~   89 (251)
T 3m19_A           14 EGKKEVDCQGKSLDS-VPSGIP-ADTEKLDLQSTGLA--TLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLG   89 (251)
T ss_dssp             GGGTEEECTTCCCSS-CCSCCC-TTCCEEECTTSCCC--CCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CCCeEEecCCCCccc-cCCCCC-CCCCEEEccCCCcC--ccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEE
Confidence            345678888888776 665432 68889999888765  5666556888999999999998877654 478899999999


Q ss_pred             ccCCCCCC--hhhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccc
Q 040303          165 LYCSELQD--IAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKW  241 (552)
Q Consensus       165 l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  241 (552)
                      +++|.+..  +..+.++++|++|++++|.++.+|.. +..+++|++|++++|. +..++...++.+++|++|+++++.. 
T Consensus        90 L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~N~l-  167 (251)
T 3m19_A           90 LANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQ-LQSIPAGAFDKLTNLQTLSLSTNQL-  167 (251)
T ss_dssp             CTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCC-
T ss_pred             CCCCcccccChhHhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcCCc-CCccCHHHcCcCcCCCEEECCCCcC-
Confidence            99998877  45678899999999999988888776 5788999999998886 7777775578888899998875543 


Q ss_pred             hhhhhhhcccccChhhhcCCCCCcEEEccCCCCC
Q 040303          242 EVEVEAAGVKNASLEELKRLPNLTTLELCIPDVN  275 (552)
Q Consensus       242 ~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  275 (552)
                               .......+..+++|+.|++++|.+.
T Consensus       168 ---------~~~~~~~~~~l~~L~~L~l~~N~~~  192 (251)
T 3m19_A          168 ---------QSVPHGAFDRLGKLQTITLFGNQFD  192 (251)
T ss_dssp             ---------SCCCTTTTTTCTTCCEEECCSCCBC
T ss_pred             ---------CccCHHHHhCCCCCCEEEeeCCcee
Confidence                     1112345777888888888887754

>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=99.70  E-value=1.8e-16  Score=151.57  Aligned_cols=173  Identities=27%  Similarity=0.352  Sum_probs=123.7

Q ss_pred             ccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEE
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTL  163 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L  163 (552)
                      ..+++++|+++++.+.. ++....+++|++|++++|...  .++.  +.++++|++|++++|.+..+|. ++.+++|++|
T Consensus        44 ~l~~L~~L~l~~~~i~~-~~~~~~l~~L~~L~L~~n~l~--~~~~--l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L  117 (291)
T 1h6t_A           44 ELNSIDQIIANNSDIKS-VQGIQYLPNVTKLFLNGNKLT--DIKP--LANLKNLGWLFLDENKVKDLSS-LKDLKKLKSL  117 (291)
T ss_dssp             HHHTCCEEECTTSCCCC-CTTGGGCTTCCEEECCSSCCC--CCGG--GTTCTTCCEEECCSSCCCCGGG-GTTCTTCCEE
T ss_pred             hcCcccEEEccCCCccc-ChhHhcCCCCCEEEccCCccC--CCcc--cccCCCCCEEECCCCcCCCChh-hccCCCCCEE
Confidence            45677888888887776 566557788888888877655  4444  4778888888888887777654 7778888888


Q ss_pred             EccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchh
Q 040303          164 CLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEV  243 (552)
Q Consensus       164 ~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  243 (552)
                      ++++|.+..++.+.++++|++|++++|.++.+ ..+..+++|++|++++|. +..+++  +..+++|+.|+++++...  
T Consensus       118 ~L~~n~i~~~~~l~~l~~L~~L~l~~n~l~~~-~~l~~l~~L~~L~L~~N~-l~~~~~--l~~l~~L~~L~L~~N~i~--  191 (291)
T 1h6t_A          118 SLEHNGISDINGLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDNQ-ISDIVP--LAGLTKLQNLYLSKNHIS--  191 (291)
T ss_dssp             ECTTSCCCCCGGGGGCTTCCEEECCSSCCCCC-GGGGGCTTCSEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCC--
T ss_pred             ECCCCcCCCChhhcCCCCCCEEEccCCcCCcc-hhhccCCCCCEEEccCCc-cccchh--hcCCCccCEEECCCCcCC--
Confidence            88888777766777788888888888877776 467778888888887776 556654  677788888887744330  


Q ss_pred             hhhhhcccccChhhhcCCCCCcEEEccCCCCCcCC
Q 040303          244 EVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLP  278 (552)
Q Consensus       244 ~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p  278 (552)
                                ....+..+++|+.|++++|.+...|
T Consensus       192 ----------~l~~l~~l~~L~~L~l~~n~i~~~~  216 (291)
T 1h6t_A          192 ----------DLRALAGLKNLDVLELFSQECLNKP  216 (291)
T ss_dssp             ----------BCGGGTTCTTCSEEEEEEEEEECCC
T ss_pred             ----------CChhhccCCCCCEEECcCCcccCCc
Confidence                      1234677777777777777654433

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=99.70  E-value=2.3e-16  Score=150.80  Aligned_cols=170  Identities=26%  Similarity=0.310  Sum_probs=138.1

Q ss_pred             cCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccc-cchhcCCCCCcEEEccCCCCCChhhhcCCCCccE
Q 040303          106 LECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLL-PSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEI  184 (552)
Q Consensus       106 ~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~l-p~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~  184 (552)
                      ..+++++.+++.++...  .+|..+   .+.+++|++++|.+..+ |..+..+++|++|++++|.+......+.+++|++
T Consensus         7 ~~l~~l~~l~~~~~~l~--~ip~~~---~~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~   81 (290)
T 1p9a_G            7 SKVASHLEVNCDKRNLT--ALPPDL---PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGT   81 (290)
T ss_dssp             ECSTTCCEEECTTSCCS--SCCSCC---CTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEECCSCCTTCCE
T ss_pred             cccCCccEEECCCCCCC--cCCCCC---CCCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccCcccCCCCCCcCCE
Confidence            36788999999987765  788765   37899999999999876 4679999999999999999888444489999999


Q ss_pred             EEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCC
Q 040303          185 LCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNL  264 (552)
Q Consensus       185 L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L  264 (552)
                      |++++|.+..+|..+..+++|++|++++|. +..+++..++.+++|++|+++++..          .......+..+++|
T Consensus        82 L~Ls~N~l~~l~~~~~~l~~L~~L~l~~N~-l~~l~~~~~~~l~~L~~L~L~~N~l----------~~~~~~~~~~l~~L  150 (290)
T 1p9a_G           82 LDLSHNQLQSLPLLGQTLPALTVLDVSFNR-LTSLPLGALRGLGELQELYLKGNEL----------KTLPPGLLTPTPKL  150 (290)
T ss_dssp             EECCSSCCSSCCCCTTTCTTCCEEECCSSC-CCCCCSSTTTTCTTCCEEECTTSCC----------CCCCTTTTTTCTTC
T ss_pred             EECCCCcCCcCchhhccCCCCCEEECCCCc-CcccCHHHHcCCCCCCEEECCCCCC----------CccChhhcccccCC
Confidence            999999999999999999999999999987 7788876689999999999985543          11233456789999


Q ss_pred             cEEEccCCCCCcCCCcc--cccCCceEEE
Q 040303          265 TTLELCIPDVNTLPKGL--FFEKLERYRI  291 (552)
Q Consensus       265 ~~L~l~~~~~~~~p~~~--~l~~L~~L~l  291 (552)
                      +.|++++|.+..+|..+  .+++|+.|.+
T Consensus       151 ~~L~L~~N~l~~l~~~~~~~l~~L~~L~L  179 (290)
T 1p9a_G          151 EKLSLANNNLTELPAGLLNGLENLDTLLL  179 (290)
T ss_dssp             CEEECTTSCCSCCCTTTTTTCTTCCEEEC
T ss_pred             CEEECCCCcCCccCHHHhcCcCCCCEEEC
Confidence            99999999988887654  3444444443

>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=99.69  E-value=3.7e-16  Score=150.84  Aligned_cols=181  Identities=21%  Similarity=0.300  Sum_probs=153.3

Q ss_pred             cccCccccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCC
Q 040303           78 EWLDEGALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLL  157 (552)
Q Consensus        78 ~~~~~~~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l  157 (552)
                      .++.....+++++|++++|.+.. ++....+++|++|++++|...  .++ . +..+++|++|++++|.+..+|. ++.+
T Consensus        55 ~l~~~~~l~~L~~L~L~~n~i~~-~~~~~~l~~L~~L~L~~n~l~--~~~-~-~~~l~~L~~L~l~~n~l~~~~~-l~~l  128 (308)
T 1h6u_A           55 TIEGVQYLNNLIGLELKDNQITD-LAPLKNLTKITELELSGNPLK--NVS-A-IAGLQSIKTLDLTSTQITDVTP-LAGL  128 (308)
T ss_dssp             CCTTGGGCTTCCEEECCSSCCCC-CGGGTTCCSCCEEECCSCCCS--CCG-G-GTTCTTCCEEECTTSCCCCCGG-GTTC
T ss_pred             CchhhhccCCCCEEEccCCcCCC-ChhHccCCCCCEEEccCCcCC--Cch-h-hcCCCCCCEEECCCCCCCCchh-hcCC
Confidence            33444567899999999999988 666669999999999999865  454 3 5899999999999999998875 8999


Q ss_pred             CCCcEEEccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccc
Q 040303          158 TNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRS  237 (552)
Q Consensus       158 ~~L~~L~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~  237 (552)
                      ++|++|++++|.+.....++++++|++|++++|.++.++. +..+++|++|++++|. +..++.  +..+++|++|++++
T Consensus       129 ~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~-l~~~~~--l~~l~~L~~L~L~~  204 (308)
T 1h6u_A          129 SNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTP-LANLSKLTTLKADDNK-ISDISP--LASLPNLIEVHLKN  204 (308)
T ss_dssp             TTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSC-CCCCGG--GGGCTTCCEEECTT
T ss_pred             CCCCEEECCCCccCcCccccCCCCccEEEccCCcCCCChh-hcCCCCCCEEECCCCc-cCcChh--hcCCCCCCEEEccC
Confidence            9999999999999885559999999999999999998876 8999999999999987 777776  78999999999985


Q ss_pred             cccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCc
Q 040303          238 FNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKG  280 (552)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~  280 (552)
                      +...            ....+..+++|+.|++++|.+...|..
T Consensus       205 N~l~------------~~~~l~~l~~L~~L~l~~N~i~~~~~~  235 (308)
T 1h6u_A          205 NQIS------------DVSPLANTSNLFIVTLTNQTITNQPVF  235 (308)
T ss_dssp             SCCC------------BCGGGTTCTTCCEEEEEEEEEECCCEE
T ss_pred             CccC------------ccccccCCCCCCEEEccCCeeecCCee
Confidence            5431            122588999999999999987766643

>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=99.68  E-value=4.8e-16  Score=144.42  Aligned_cols=166  Identities=19%  Similarity=0.219  Sum_probs=129.1

Q ss_pred             CcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccc-cccccc-hhcCCCCCcEEEccC-CCCCC--
Q 040303           98 MNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMH-LSLLPS-SLGLLTNLRTLCLYC-SELQD--  172 (552)
Q Consensus        98 ~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~-~~~lp~-~i~~l~~L~~L~l~~-~~~~~--  172 (552)
                      +.. +|.  -.++++.|++.++...  .+|...|.++++|++|++++|. ++.+|. .++++++|++|++++ +.++.  
T Consensus        23 l~~-ip~--~~~~l~~L~l~~n~l~--~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~   97 (239)
T 2xwt_C           23 IQR-IPS--LPPSTQTLKLIETHLR--TIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYID   97 (239)
T ss_dssp             CSS-CCC--CCTTCCEEEEESCCCS--EECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEEC
T ss_pred             ccc-cCC--CCCcccEEEEeCCcce--EECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcC
Confidence            444 666  3458999999998766  7777677899999999999996 888776 688999999999998 78877  


Q ss_pred             hhhhcCCCCccEEEecCCcCcccchhhccCCCCC---EEeccCCCCCCccCcccccCCCCCc-EEEccccccchhhhhhh
Q 040303          173 IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLR---SLDLRDCDRLQVIPPNVLSNLSHLE-ELYIRSFNKWEVEVEAA  248 (552)
Q Consensus       173 ~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~---~L~l~~~~~~~~~~~~~l~~l~~L~-~L~l~~~~~~~~~~~~~  248 (552)
                      +..+.++++|++|++++|.++.+|. +..+++|+   +|++++|..+..++...+..+++|+ +|+++++.....     
T Consensus        98 ~~~f~~l~~L~~L~l~~n~l~~lp~-~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~~i-----  171 (239)
T 2xwt_C           98 PDALKELPLLKFLGIFNTGLKMFPD-LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSV-----  171 (239)
T ss_dssp             TTSEECCTTCCEEEEEEECCCSCCC-CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCCEE-----
T ss_pred             HHHhCCCCCCCEEeCCCCCCccccc-cccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCCCccc-----
Confidence            4678899999999999999998886 78888888   9999998448888877678899999 999874433110     


Q ss_pred             cccccChhhhcCCCCCcEEEccCCC-CCcCCCc
Q 040303          249 GVKNASLEELKRLPNLTTLELCIPD-VNTLPKG  280 (552)
Q Consensus       249 ~~~~~~~~~l~~l~~L~~L~l~~~~-~~~~p~~  280 (552)
                           ....+.. ++|+.|++++|. +..+|..
T Consensus       172 -----~~~~~~~-~~L~~L~L~~n~~l~~i~~~  198 (239)
T 2xwt_C          172 -----QGYAFNG-TKLDAVYLNKNKYLTVIDKD  198 (239)
T ss_dssp             -----CTTTTTT-CEEEEEECTTCTTCCEECTT
T ss_pred             -----CHhhcCC-CCCCEEEcCCCCCcccCCHH
Confidence                 1122333 688899998884 7666543

>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=99.67  E-value=1.8e-16  Score=151.71  Aligned_cols=185  Identities=21%  Similarity=0.198  Sum_probs=152.5

Q ss_pred             cEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCC
Q 040303           89 TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCS  168 (552)
Q Consensus        89 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~  168 (552)
                      .++.+....+.+ +.....+++|+.|+++++...  .++.  +..+++|++|++++|.+..++. ++++++|++|++++|
T Consensus        27 ~~~~l~~~~~~~-~~~~~~l~~L~~L~l~~~~i~--~~~~--~~~l~~L~~L~L~~n~l~~~~~-l~~l~~L~~L~l~~n  100 (291)
T 1h6t_A           27 IKDNLKKKSVTD-AVTQNELNSIDQIIANNSDIK--SVQG--IQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDEN  100 (291)
T ss_dssp             HHHHTTCSCTTS-EECHHHHHTCCEEECTTSCCC--CCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSS
T ss_pred             HHHHhcCCCccc-ccchhhcCcccEEEccCCCcc--cChh--HhcCCCCCEEEccCCccCCCcc-cccCCCCCEEECCCC
Confidence            333444444444 333347889999999998765  5554  5889999999999999998877 999999999999999


Q ss_pred             CCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhh
Q 040303          169 ELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAA  248 (552)
Q Consensus       169 ~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~  248 (552)
                      .+..++.+.++++|++|++++|.+..++ .+..+++|++|++++|. +..++ . ++.+++|++|+++++...       
T Consensus       101 ~l~~~~~l~~l~~L~~L~L~~n~i~~~~-~l~~l~~L~~L~l~~n~-l~~~~-~-l~~l~~L~~L~L~~N~l~-------  169 (291)
T 1h6t_A          101 KVKDLSSLKDLKKLKSLSLEHNGISDIN-GLVHLPQLESLYLGNNK-ITDIT-V-LSRLTKLDTLSLEDNQIS-------  169 (291)
T ss_dssp             CCCCGGGGTTCTTCCEEECTTSCCCCCG-GGGGCTTCCEEECCSSC-CCCCG-G-GGGCTTCSEEECCSSCCC-------
T ss_pred             cCCCChhhccCCCCCEEECCCCcCCCCh-hhcCCCCCCEEEccCCc-CCcch-h-hccCCCCCEEEccCCccc-------
Confidence            9999777999999999999999999884 78999999999999987 66674 3 899999999999855431       


Q ss_pred             cccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecc
Q 040303          249 GVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGR  295 (552)
Q Consensus       249 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~  295 (552)
                           ....+..+++|+.|++++|.+..++....+++|+.|.+.++.
T Consensus       170 -----~~~~l~~l~~L~~L~L~~N~i~~l~~l~~l~~L~~L~l~~n~  211 (291)
T 1h6t_A          170 -----DIVPLAGLTKLQNLYLSKNHISDLRALAGLKNLDVLELFSQE  211 (291)
T ss_dssp             -----CCGGGTTCTTCCEEECCSSCCCBCGGGTTCTTCSEEEEEEEE
T ss_pred             -----cchhhcCCCccCEEECCCCcCCCChhhccCCCCCEEECcCCc
Confidence                 122388999999999999999888765588999999998765

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=99.65  E-value=3.5e-15  Score=146.85  Aligned_cols=77  Identities=17%  Similarity=0.138  Sum_probs=39.4

Q ss_pred             CCcccccccce-eeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccc
Q 040303          410 PNLETLELYNV-NVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQER  488 (552)
Q Consensus       410 ~~L~~L~l~~~-~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~  488 (552)
                      .+|+.|.+.++ .++.++.....    .+++|+.|+++++ +++.+|.    ..+.+|++|.+.++.+++.++.      
T Consensus       177 ~~L~~l~l~~~n~l~~i~~~~f~----~l~~L~~LdLs~N-~l~~lp~----~~~~~L~~L~~l~~~~l~~lP~------  241 (350)
T 4ay9_X          177 TQLDELNLSDNNNLEELPNDVFH----GASGPVILDISRT-RIHSLPS----YGLENLKKLRARSTYNLKKLPT------  241 (350)
T ss_dssp             EEEEEEECTTCTTCCCCCTTTTT----TEECCSEEECTTS-CCCCCCS----SSCTTCCEEECTTCTTCCCCCC------
T ss_pred             cchhHHhhccCCcccCCCHHHhc----cCcccchhhcCCC-CcCccCh----hhhccchHhhhccCCCcCcCCC------
Confidence            34555555443 44444333222    5566666666653 5666654    1245555555555655555532      


Q ss_pred             cccccCCccEEEec
Q 040303          489 KNVVFPQLQFLKMV  502 (552)
Q Consensus       489 ~~~~l~~L~~L~l~  502 (552)
                       ...|++|+.+++.
T Consensus       242 -l~~l~~L~~l~l~  254 (350)
T 4ay9_X          242 -LEKLVALMEASLT  254 (350)
T ss_dssp             -TTTCCSCCEEECS
T ss_pred             -chhCcChhhCcCC
Confidence             2235666666654

>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=99.64  E-value=2.8e-15  Score=140.21  Aligned_cols=153  Identities=24%  Similarity=0.329  Sum_probs=132.7

Q ss_pred             ccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCc
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLR  161 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~  161 (552)
                      ...++++|+++++.+....+..+ .+++|++|++++|...  .++...|..+++|++|++++|.+..+|. .++.+++|+
T Consensus        33 ~~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~--~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  110 (251)
T 3m19_A           33 IPADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQ--TLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLD  110 (251)
T ss_dssp             CCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCC--CCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCC
T ss_pred             CCCCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCC--ccCHhHhccCCcCCEEECCCCcccccChhHhcccCCCC
Confidence            45789999999999988555434 8999999999998776  6777767999999999999999988775 568999999


Q ss_pred             EEEccCCCCCC-h-hhhcCCCCccEEEecCCcCcccch-hhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcccc
Q 040303          162 TLCLYCSELQD-I-AVIGELKNLEILCLRGSYIEQLPV-EIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSF  238 (552)
Q Consensus       162 ~L~l~~~~~~~-~-~~i~~L~~L~~L~l~~~~l~~lp~-~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~  238 (552)
                      +|++++|.+.. + ..+.++++|++|++++|.++.+|. .++.+++|++|++++|. +..++...+..+++|+.|++.++
T Consensus       111 ~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~N  189 (251)
T 3m19_A          111 KLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQ-LQSVPHGAFDRLGKLQTITLFGN  189 (251)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSC
T ss_pred             EEEcCCCcCCCcChhHhccCCcccEEECcCCcCCccCHHHcCcCcCCCEEECCCCc-CCccCHHHHhCCCCCCEEEeeCC
Confidence            99999999887 4 457999999999999999998887 58899999999999987 77887766899999999999854


Q ss_pred             c
Q 040303          239 N  239 (552)
Q Consensus       239 ~  239 (552)
                      .
T Consensus       190 ~  190 (251)
T 3m19_A          190 Q  190 (251)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=99.63  E-value=1.4e-15  Score=159.45  Aligned_cols=175  Identities=27%  Similarity=0.348  Sum_probs=147.2

Q ss_pred             cccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcE
Q 040303           83 GALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRT  162 (552)
Q Consensus        83 ~~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~  162 (552)
                      ..+++++.|+++++.+.. ++.+..+++|+.|++++|...  .++.  +..+++|++|+|++|.+..+| .++.+++|++
T Consensus        40 ~~L~~L~~L~l~~n~i~~-l~~l~~l~~L~~L~Ls~N~l~--~~~~--l~~l~~L~~L~Ls~N~l~~l~-~l~~l~~L~~  113 (605)
T 1m9s_A           40 NELNSIDQIIANNSDIKS-VQGIQYLPNVTKLFLNGNKLT--DIKP--LTNLKNLGWLFLDENKIKDLS-SLKDLKKLKS  113 (605)
T ss_dssp             HHHTTCCCCBCTTCCCCC-CTTGGGCTTCCEEECTTSCCC--CCGG--GGGCTTCCEEECCSSCCCCCT-TSTTCTTCCE
T ss_pred             hcCCCCCEEECcCCCCCC-ChHHccCCCCCEEEeeCCCCC--CChh--hccCCCCCEEECcCCCCCCCh-hhccCCCCCE
Confidence            356788999999998887 777778999999999998765  5555  589999999999999998876 6899999999


Q ss_pred             EEccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccch
Q 040303          163 LCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWE  242 (552)
Q Consensus       163 L~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  242 (552)
                      |++++|.+..++.+..+++|+.|++++|.+..+ ..+..+++|++|++++|. +..+++  +..+++|+.|+++++... 
T Consensus       114 L~Ls~N~l~~l~~l~~l~~L~~L~Ls~N~l~~l-~~l~~l~~L~~L~Ls~N~-l~~~~~--l~~l~~L~~L~Ls~N~i~-  188 (605)
T 1m9s_A          114 LSLEHNGISDINGLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDNQ-ISDIVP--LAGLTKLQNLYLSKNHIS-  188 (605)
T ss_dssp             EECTTSCCCCCGGGGGCTTCSEEECCSSCCCCC-GGGGSCTTCSEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCC-
T ss_pred             EEecCCCCCCCccccCCCccCEEECCCCccCCc-hhhcccCCCCEEECcCCc-CCCchh--hccCCCCCEEECcCCCCC-
Confidence            999999998877899999999999999999888 578999999999999987 666665  789999999999855431 


Q ss_pred             hhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCC
Q 040303          243 VEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPK  279 (552)
Q Consensus       243 ~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~  279 (552)
                                 .+..+..+++|+.|++++|.+...|.
T Consensus       189 -----------~l~~l~~l~~L~~L~L~~N~l~~~p~  214 (605)
T 1m9s_A          189 -----------DLRALAGLKNLDVLELFSQECLNKPI  214 (605)
T ss_dssp             -----------BCGGGTTCTTCSEEECCSEEEECCCC
T ss_pred             -----------CChHHccCCCCCEEEccCCcCcCCcc
Confidence                       23568899999999999888665543

>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=99.63  E-value=4.5e-15  Score=133.30  Aligned_cols=146  Identities=18%  Similarity=0.195  Sum_probs=111.9

Q ss_pred             ccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccc-ccchhcCCCCCcE
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSL-LPSSLGLLTNLRT  162 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~-lp~~i~~l~~L~~  162 (552)
                      ..+++++|+++++.+.. ++....+++|++|++++|...  .++ . +..+++|++|++++|.+.. .|..++.+++|++
T Consensus        42 ~l~~L~~L~l~~n~i~~-l~~l~~l~~L~~L~l~~n~~~--~~~-~-l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~  116 (197)
T 4ezg_A           42 QMNSLTYITLANINVTD-LTGIEYAHNIKDLTINNIHAT--NYN-P-ISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTL  116 (197)
T ss_dssp             HHHTCCEEEEESSCCSC-CTTGGGCTTCSEEEEESCCCS--CCG-G-GTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCE
T ss_pred             hcCCccEEeccCCCccC-hHHHhcCCCCCEEEccCCCCC--cch-h-hhcCCCCCEEEeECCccCcccChhhcCCCCCCE
Confidence            46678888888888876 676668888888888887433  333 3 4778888888888888764 6777888888888


Q ss_pred             EEccCCCCCC--hhhhcCCCCccEEEecCCc-CcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcccc
Q 040303          163 LCLYCSELQD--IAVIGELKNLEILCLRGSY-IEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSF  238 (552)
Q Consensus       163 L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~-l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~  238 (552)
                      |++++|.+..  +..++++++|++|++++|. +..+| .+..+++|++|++++|. +..++.  +..+++|++|++.++
T Consensus       117 L~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l~~n~-i~~~~~--l~~l~~L~~L~l~~N  191 (197)
T 4ezg_A          117 LDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQFDG-VHDYRG--IEDFPKLNQLYAFSQ  191 (197)
T ss_dssp             EECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEECTTBC-CCCCTT--GGGCSSCCEEEECBC
T ss_pred             EEecCCccCcHhHHHHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEECCCCC-CcChHH--hccCCCCCEEEeeCc
Confidence            8888888776  7778888888888888886 77776 67888888888888876 566662  677788888877644

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.63  E-value=2.6e-16  Score=154.33  Aligned_cols=149  Identities=16%  Similarity=0.153  Sum_probs=98.2

Q ss_pred             CceEEEeecCCCCCcccChhHhhCC--CCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC---hhhhcCCCCccE
Q 040303          110 QLQLLSLWTEKSSLITLPDNFFRKL--TQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD---IAVIGELKNLEI  184 (552)
Q Consensus       110 ~Lr~L~l~~~~~~~~~~~~~~~~~l--~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~---~~~i~~L~~L~~  184 (552)
                      .++.++++++..     .+..+..+  +++++|+++++.+...+..+..+++|++|++++|.+..   +..+.++++|++
T Consensus        48 ~~~~l~l~~~~~-----~~~~~~~~~~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~  122 (336)
T 2ast_B           48 LWQTLDLTGKNL-----HPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQN  122 (336)
T ss_dssp             TSSEEECTTCBC-----CHHHHHHHHHTTCSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSE
T ss_pred             hheeeccccccC-----CHHHHHhhhhccceEEEcCCccccccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCE
Confidence            467777776533     23444666  78888888888877666667778888888888887653   466778888888


Q ss_pred             EEecCCcCc-ccchhhccCCCCCEEeccCCCCCCc--cCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCC
Q 040303          185 LCLRGSYIE-QLPVEIGQLTRLRSLDLRDCDRLQV--IPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRL  261 (552)
Q Consensus       185 L~l~~~~l~-~lp~~i~~l~~L~~L~l~~~~~~~~--~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l  261 (552)
                      |++++|.+. ..|..++++++|++|++++|..+..  ++.. ++.+++|++|+++++.....        ......+..+
T Consensus       123 L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~-~~~~~~L~~L~l~~~~~l~~--------~~~~~~~~~l  193 (336)
T 2ast_B          123 LSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTL-LSSCSRLDELNLSWCFDFTE--------KHVQVAVAHV  193 (336)
T ss_dssp             EECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHH-HHHCTTCCEEECCCCTTCCH--------HHHHHHHHHS
T ss_pred             EeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHH-HhcCCCCCEEcCCCCCCcCh--------HHHHHHHHhc
Confidence            888888766 5666777788888888887743442  4433 56677777777764422110        0122335556


Q ss_pred             C-CCcEEEccCC
Q 040303          262 P-NLTTLELCIP  272 (552)
Q Consensus       262 ~-~L~~L~l~~~  272 (552)
                      + +|++|++++|
T Consensus       194 ~~~L~~L~l~~~  205 (336)
T 2ast_B          194 SETITQLNLSGY  205 (336)
T ss_dssp             CTTCCEEECCSC
T ss_pred             ccCCCEEEeCCC
Confidence            6 6666666654

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.62  E-value=3.7e-16  Score=153.18  Aligned_cols=125  Identities=18%  Similarity=0.207  Sum_probs=62.6

Q ss_pred             CCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccc--ccchhcCCCCCcEEEccCCCCCC--hhhhcCCCCccE
Q 040303          109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSL--LPSSLGLLTNLRTLCLYCSELQD--IAVIGELKNLEI  184 (552)
Q Consensus       109 ~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~--lp~~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~  184 (552)
                      ++++.|.+.++...  ..+..+ .++++|++|++++|.+..  +|..+..+++|++|++++|.+..  +..++++++|++
T Consensus        70 ~~l~~L~l~~n~l~--~~~~~~-~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~  146 (336)
T 2ast_B           70 QGVIAFRCPRSFMD--QPLAEH-FSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVR  146 (336)
T ss_dssp             TTCSEEECTTCEEC--SCCCSC-CCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSE
T ss_pred             ccceEEEcCCcccc--ccchhh-ccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCE
Confidence            45555555554332  222222 345555555555555432  45555555555555555555443  455555555555


Q ss_pred             EEecCC-cCc--ccchhhccCCCCCEEeccCCCCCCc--cCcccccCCC-CCcEEEccc
Q 040303          185 LCLRGS-YIE--QLPVEIGQLTRLRSLDLRDCDRLQV--IPPNVLSNLS-HLEELYIRS  237 (552)
Q Consensus       185 L~l~~~-~l~--~lp~~i~~l~~L~~L~l~~~~~~~~--~~~~~l~~l~-~L~~L~l~~  237 (552)
                      |++++| .++  .+|..+.++++|++|++++|..+..  ++.. +..++ +|++|++++
T Consensus       147 L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~-~~~l~~~L~~L~l~~  204 (336)
T 2ast_B          147 LNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVA-VAHVSETITQLNLSG  204 (336)
T ss_dssp             EECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHH-HHHSCTTCCEEECCS
T ss_pred             EECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHH-HHhcccCCCEEEeCC
Confidence            555555 444  2444455555555555555522332  2222 44555 555555553

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

Probab=99.62  E-value=3e-15  Score=144.80  Aligned_cols=195  Identities=16%  Similarity=0.115  Sum_probs=139.1

Q ss_pred             CcccEEEeecCCCcccCCCc---cCCCCceEEEeecCCCCCcccC---hhHhhCCCCccEEEeecccccccc-chhcCCC
Q 040303           86 KFYTSIVLHDSKMNVLLPEV---LECPQLQLLSLWTEKSSLITLP---DNFFRKLTQVRVLDLTYMHLSLLP-SSLGLLT  158 (552)
Q Consensus        86 ~~lr~L~l~~~~~~~~~~~~---~~~~~Lr~L~l~~~~~~~~~~~---~~~~~~l~~Lr~L~l~~~~~~~lp-~~i~~l~  158 (552)
                      .++++|++++|.+.+..+..   ..+++|++|++++|.... ..+   ...+..+++|++|++++|.+..++ ..++.++
T Consensus        91 ~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~-~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~  169 (310)
T 4glp_A           91 SRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWAT-GRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFP  169 (310)
T ss_dssp             SCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSS-TTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCT
T ss_pred             CceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccc-hhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCC
Confidence            45888899888887655544   568889999998887653 222   122356888999999998887655 5678889


Q ss_pred             CCcEEEccCCCCCC----h--hhhcCCCCccEEEecCCcCcccchh----hccCCCCCEEeccCCCCCCccCcccccCC-
Q 040303          159 NLRTLCLYCSELQD----I--AVIGELKNLEILCLRGSYIEQLPVE----IGQLTRLRSLDLRDCDRLQVIPPNVLSNL-  227 (552)
Q Consensus       159 ~L~~L~l~~~~~~~----~--~~i~~L~~L~~L~l~~~~l~~lp~~----i~~l~~L~~L~l~~~~~~~~~~~~~l~~l-  227 (552)
                      +|++|++++|.+..    +  ..++++++|++|++++|+++.+|..    +..+++|++|++++|......|.. ++.+ 
T Consensus       170 ~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~-~~~~~  248 (310)
T 4glp_A          170 ALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGMETPTGVCAALAAAGVQPHSLDLSHNSLRATVNPS-APRCM  248 (310)
T ss_dssp             TCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHHHHHHHHHHHTCCCSSEECTTSCCCCCCCSC-CSSCC
T ss_pred             CCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCCchHHHHHHHHhcCCCCCEEECCCCCCCccchhh-HHhcc
Confidence            99999999888643    1  2346888899999999888766653    467888999999888733333655 5555 


Q ss_pred             --CCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecc
Q 040303          228 --SHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGR  295 (552)
Q Consensus       228 --~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~  295 (552)
                        ++|++|+++++...           ..+..+.  ++|+.|++++|.+..+|....+++|+.|.++++.
T Consensus       249 ~~~~L~~L~Ls~N~l~-----------~lp~~~~--~~L~~L~Ls~N~l~~~~~~~~l~~L~~L~L~~N~  305 (310)
T 4glp_A          249 WSSALNSLNLSFAGLE-----------QVPKGLP--AKLRVLDLSSNRLNRAPQPDELPEVDNLTLDGNP  305 (310)
T ss_dssp             CCTTCCCEECCSSCCC-----------SCCSCCC--SCCSCEECCSCCCCSCCCTTSCCCCSCEECSSTT
T ss_pred             CcCcCCEEECCCCCCC-----------chhhhhc--CCCCEEECCCCcCCCCchhhhCCCccEEECcCCC
Confidence              68899988755431           1222232  6888999998888877665577888888776554

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

Probab=99.62  E-value=3.1e-15  Score=135.65  Aligned_cols=171  Identities=25%  Similarity=0.334  Sum_probs=122.7

Q ss_pred             cEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccch-hcCCCCCcEEEccC
Q 040303           89 TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS-LGLLTNLRTLCLYC  167 (552)
Q Consensus        89 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~-i~~l~~L~~L~l~~  167 (552)
                      +.++..++.+.. +|... .++|+.|+++++...  .++..+|..+++|++|++++|.++.+|.. +..+++|++|++++
T Consensus        10 ~~v~c~~~~l~~-~p~~~-~~~l~~L~l~~n~l~--~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~   85 (208)
T 2o6s_A           10 TTVECYSQGRTS-VPTGI-PAQTTYLDLETNSLK--SLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLST   85 (208)
T ss_dssp             TEEECCSSCCSS-CCSCC-CTTCSEEECCSSCCC--CCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CEEEecCCCccC-CCCCC-CCCCcEEEcCCCccC--cCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCC
Confidence            455566565555 44322 457888888887665  66776677888888888888888877664 57888888888888


Q ss_pred             CCCCC-h-hhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhh
Q 040303          168 SELQD-I-AVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVE  244 (552)
Q Consensus       168 ~~~~~-~-~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  244 (552)
                      |.+.. + ..+.++++|++|++++|.++.+|.. +.++++|++|++++|. +..++...+..+++|+.|++.++..    
T Consensus        86 n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~l~~N~~----  160 (208)
T 2o6s_A           86 NQLQSLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQ-LKSVPDGVFDRLTSLQYIWLHDNPW----  160 (208)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSCCB----
T ss_pred             CcCCccCHhHhcCccCCCEEEcCCCcCcccCHhHhccCCcCCEEECCCCc-cceeCHHHhccCCCccEEEecCCCe----
Confidence            88776 3 4568888888888888888877765 5778888888888876 6677766577888888888874432    


Q ss_pred             hhhhcccccChhhhcCCCCCcEEEccCCC-CCcCCCcc
Q 040303          245 VEAAGVKNASLEELKRLPNLTTLELCIPD-VNTLPKGL  281 (552)
Q Consensus       245 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~-~~~~p~~~  281 (552)
                                   .+.+++|+.|+++.|. .+.+|.++
T Consensus       161 -------------~~~~~~l~~L~~~~n~~~g~ip~~~  185 (208)
T 2o6s_A          161 -------------DCTCPGIRYLSEWINKHSGVVRNSA  185 (208)
T ss_dssp             -------------CCCTTTTHHHHHHHHHCTTTBBCTT
T ss_pred             -------------ecCCCCHHHHHHHHHhCCceeeccC
Confidence                         2345677777777665 33555543

>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=99.60  E-value=8.4e-16  Score=161.15  Aligned_cols=189  Identities=20%  Similarity=0.186  Sum_probs=154.9

Q ss_pred             cCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEE
Q 040303           85 LKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLC  164 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~  164 (552)
                      +..+..+.+..+.+.. +.....+++|+.|.+.++...  .++.  +..+++|++|+|++|.+..+|. ++.+++|++|+
T Consensus        20 l~~l~~l~l~~~~i~~-~~~~~~L~~L~~L~l~~n~i~--~l~~--l~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~   93 (605)
T 1m9s_A           20 FAETIKDNLKKKSVTD-AVTQNELNSIDQIIANNSDIK--SVQG--IQYLPNVTKLFLNGNKLTDIKP-LTNLKNLGWLF   93 (605)
T ss_dssp             HHHHHHHHTTCSCTTS-EECHHHHTTCCCCBCTTCCCC--CCTT--GGGCTTCCEEECTTSCCCCCGG-GGGCTTCCEEE
T ss_pred             HHHHHHHhccCCCccc-ccchhcCCCCCEEECcCCCCC--CChH--HccCCCCCEEEeeCCCCCCChh-hccCCCCCEEE
Confidence            3344445555555554 334447889999999988765  5653  5899999999999999998877 99999999999


Q ss_pred             ccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhh
Q 040303          165 LYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVE  244 (552)
Q Consensus       165 l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  244 (552)
                      |++|.+..++.+.++++|++|++++|.+..+| .+..+++|+.|++++|. +..++.  ++.+++|+.|+++++...   
T Consensus        94 Ls~N~l~~l~~l~~l~~L~~L~Ls~N~l~~l~-~l~~l~~L~~L~Ls~N~-l~~l~~--l~~l~~L~~L~Ls~N~l~---  166 (605)
T 1m9s_A           94 LDENKIKDLSSLKDLKKLKSLSLEHNGISDIN-GLVHLPQLESLYLGNNK-ITDITV--LSRLTKLDTLSLEDNQIS---  166 (605)
T ss_dssp             CCSSCCCCCTTSTTCTTCCEEECTTSCCCCCG-GGGGCTTCSEEECCSSC-CCCCGG--GGSCTTCSEEECCSSCCC---
T ss_pred             CcCCCCCCChhhccCCCCCEEEecCCCCCCCc-cccCCCccCEEECCCCc-cCCchh--hcccCCCCEEECcCCcCC---
Confidence            99999998778999999999999999999875 69999999999999987 666643  899999999999855431   


Q ss_pred             hhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecc
Q 040303          245 VEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGR  295 (552)
Q Consensus       245 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~  295 (552)
                               ....+..+++|+.|++++|.+..+|....+++|+.|.+..+.
T Consensus       167 ---------~~~~l~~l~~L~~L~Ls~N~i~~l~~l~~l~~L~~L~L~~N~  208 (605)
T 1m9s_A          167 ---------DIVPLAGLTKLQNLYLSKNHISDLRALAGLKNLDVLELFSQE  208 (605)
T ss_dssp             ---------CCGGGTTCTTCCEEECCSSCCCBCGGGTTCTTCSEEECCSEE
T ss_pred             ---------CchhhccCCCCCEEECcCCCCCCChHHccCCCCCEEEccCCc
Confidence                     122388999999999999999888755588999999987665

>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=99.60  E-value=1.6e-14  Score=132.99  Aligned_cols=146  Identities=27%  Similarity=0.332  Sum_probs=116.1

Q ss_pred             ccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccch-hcCCCCCcEEEcc
Q 040303           88 YTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS-LGLLTNLRTLCLY  166 (552)
Q Consensus        88 lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~-i~~l~~L~~L~l~  166 (552)
                      .+.++.+++.+.. +|... .++|++|++++|...  .++...|..+++|++|++++|.+..+|.. +..+++|++|+++
T Consensus        21 ~~~v~c~~~~l~~-ip~~~-~~~L~~L~Ls~n~i~--~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls   96 (229)
T 3e6j_A           21 GTTVDCRSKRHAS-VPAGI-PTNAQILYLHDNQIT--KLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLG   96 (229)
T ss_dssp             TTEEECTTSCCSS-CCSCC-CTTCSEEECCSSCCC--CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCEeEccCCCcCc-cCCCC-CCCCCEEEcCCCccC--ccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECC
Confidence            4567777777766 66433 378999999988766  56555568889999999999988888754 5889999999999


Q ss_pred             CCCCCC-h-hhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcccc
Q 040303          167 CSELQD-I-AVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSF  238 (552)
Q Consensus       167 ~~~~~~-~-~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~  238 (552)
                      +|.+.. + ..+..+++|++|++++|+++.+|..+..+++|++|++++|. +..++...+..+++|+.|++.++
T Consensus        97 ~N~l~~l~~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~N  169 (229)
T 3e6j_A           97 TNQLTVLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQNQ-LKSIPHGAFDRLSSLTHAYLFGN  169 (229)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECCSSCCCSCCTTGGGCTTCSEEECCSSC-CCCCCTTTTTTCTTCCEEECTTS
T ss_pred             CCcCCccChhHhCcchhhCeEeccCCcccccCcccccCCCCCEEECCCCc-CCccCHHHHhCCCCCCEEEeeCC
Confidence            998877 3 45788999999999999888999888899999999998876 67777665777888888887644

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=99.60  E-value=2.7e-14  Score=140.55  Aligned_cols=184  Identities=14%  Similarity=0.117  Sum_probs=126.3

Q ss_pred             ccCcccEEEeecCCCcccCCC-cc-CCCCceEEEeecCCCCCcccChhHhhCCCCccE-EEeecccccccc-chhcCCCC
Q 040303           84 ALKFYTSIVLHDSKMNVLLPE-VL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRV-LDLTYMHLSLLP-SSLGLLTN  159 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~-~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~-L~l~~~~~~~lp-~~i~~l~~  159 (552)
                      .++++++|++++|.+.. ++. .+ .+++|++|++++|.... .+|.++|.++.+++. +.+.++.+..+| ..+..+++
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~~  105 (350)
T 4ay9_X           28 LPRNAIELRFVLTKLRV-IQKGAFSGFGDLEKIEISQNDVLE-VIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPN  105 (350)
T ss_dssp             CCTTCSEEEEESCCCSE-ECTTSSTTCTTCCEEEEECCTTCC-EECTTSBCSCTTCCEEEEEEETTCCEECTTSBCCCTT
T ss_pred             cCCCCCEEEccCCcCCC-cCHHHHcCCCCCCEEECcCCCCCC-ccChhHhhcchhhhhhhcccCCcccccCchhhhhccc
Confidence            45678888888888877 553 33 78888888888876542 567767777777664 556667777764 45778888


Q ss_pred             CcEEEccCCCCCC-h-hhhcCCCCccEEEecCC-cCcccchh-hccC-CCCCEEeccCCCCCCccCcccccCCCCCcEEE
Q 040303          160 LRTLCLYCSELQD-I-AVIGELKNLEILCLRGS-YIEQLPVE-IGQL-TRLRSLDLRDCDRLQVIPPNVLSNLSHLEELY  234 (552)
Q Consensus       160 L~~L~l~~~~~~~-~-~~i~~L~~L~~L~l~~~-~l~~lp~~-i~~l-~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~  234 (552)
                      |++|++++|.+.. + ..+....++.+|++.++ .+..+|.. +..+ ..+++|++++|. ++.++.. .....+|++|+
T Consensus       106 L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~-i~~i~~~-~f~~~~L~~l~  183 (350)
T 4ay9_X          106 LQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNG-IQEIHNS-AFNGTQLDELN  183 (350)
T ss_dssp             CCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSC-CCEECTT-SSTTEEEEEEE
T ss_pred             cccccccccccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhcccccc-ccCCChh-hccccchhHHh
Confidence            8888888888776 3 34455667778888665 67777654 3444 357888888876 7777776 45667788888


Q ss_pred             ccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCc
Q 040303          235 IRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKG  280 (552)
Q Consensus       235 l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~  280 (552)
                      +.++...         .......++.+++|+.|++++|.+..+|..
T Consensus       184 l~~~n~l---------~~i~~~~f~~l~~L~~LdLs~N~l~~lp~~  220 (350)
T 4ay9_X          184 LSDNNNL---------EELPNDVFHGASGPVILDISRTRIHSLPSY  220 (350)
T ss_dssp             CTTCTTC---------CCCCTTTTTTEECCSEEECTTSCCCCCCSS
T ss_pred             hccCCcc---------cCCCHHHhccCcccchhhcCCCCcCccChh
Confidence            7632221         111223467788888888888888777754

>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=99.59  E-value=6.8e-15  Score=132.11  Aligned_cols=150  Identities=19%  Similarity=0.290  Sum_probs=110.4

Q ss_pred             CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC--hhhhcCCCCccE
Q 040303          107 ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD--IAVIGELKNLEI  184 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~  184 (552)
                      .+++|+.|+++++...  .+| . +..+++|++|++++|.+..++ .++.+++|++|++++|.+..  +..++++++|++
T Consensus        42 ~l~~L~~L~l~~n~i~--~l~-~-l~~l~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~  116 (197)
T 4ezg_A           42 QMNSLTYITLANINVT--DLT-G-IEYAHNIKDLTINNIHATNYN-PISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTL  116 (197)
T ss_dssp             HHHTCCEEEEESSCCS--CCT-T-GGGCTTCSEEEEESCCCSCCG-GGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCE
T ss_pred             hcCCccEEeccCCCcc--ChH-H-HhcCCCCCEEEccCCCCCcch-hhhcCCCCCEEEeECCccCcccChhhcCCCCCCE
Confidence            5678888888887665  566 3 477888888888888766554 67788888888888888775  677888888888


Q ss_pred             EEecCCcCcc-cchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCC
Q 040303          185 LCLRGSYIEQ-LPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPN  263 (552)
Q Consensus       185 L~l~~~~l~~-lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~  263 (552)
                      |++++|.+.. .|..++++++|++|++++|..+..++.  ++.+++|+.|+++++...            ....+..+++
T Consensus       117 L~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~~--l~~l~~L~~L~l~~n~i~------------~~~~l~~l~~  182 (197)
T 4ezg_A          117 LDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIMP--LKTLPELKSLNIQFDGVH------------DYRGIEDFPK  182 (197)
T ss_dssp             EECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCGG--GGGCSSCCEEECTTBCCC------------CCTTGGGCSS
T ss_pred             EEecCCccCcHhHHHHhhCCCCCEEEccCCCCccccHh--hcCCCCCCEEECCCCCCc------------ChHHhccCCC
Confidence            8888887774 667788888888888888765667763  678888888888744330            1236777788


Q ss_pred             CcEEEccCCCCC
Q 040303          264 LTTLELCIPDVN  275 (552)
Q Consensus       264 L~~L~l~~~~~~  275 (552)
                      |+.|++++|.++
T Consensus       183 L~~L~l~~N~i~  194 (197)
T 4ezg_A          183 LNQLYAFSQTIG  194 (197)
T ss_dssp             CCEEEECBC---
T ss_pred             CCEEEeeCcccC
Confidence            888888877654

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

Probab=99.59  E-value=1.3e-15  Score=143.30  Aligned_cols=170  Identities=22%  Similarity=0.186  Sum_probs=100.3

Q ss_pred             cCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEE
Q 040303           85 LKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLC  164 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~  164 (552)
                      ..++..+.+.++.+.+ ++....+++|++|++++|...  .++ . +..+++|++|++++|.+..+|. ++++++|++|+
T Consensus        18 l~~l~~l~l~~~~i~~-~~~~~~l~~L~~L~l~~n~i~--~l~-~-l~~l~~L~~L~L~~N~i~~~~~-l~~l~~L~~L~   91 (263)
T 1xeu_A           18 LANAVKQNLGKQSVTD-LVSQKELSGVQNFNGDNSNIQ--SLA-G-MQFFTNLKELHLSHNQISDLSP-LKDLTKLEELS   91 (263)
T ss_dssp             HHHHHHHHHTCSCTTS-EECHHHHTTCSEEECTTSCCC--CCT-T-GGGCTTCCEEECCSSCCCCCGG-GTTCSSCCEEE
T ss_pred             HHHHHHHHhcCCCccc-ccchhhcCcCcEEECcCCCcc--cch-H-HhhCCCCCEEECCCCccCCChh-hccCCCCCEEE
Confidence            4444555555555554 443345666666666666543  444 2 3566677777777766666655 66667777777


Q ss_pred             ccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhh
Q 040303          165 LYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVE  244 (552)
Q Consensus       165 l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  244 (552)
                      +++|.+...+.+.. .+|++|++++|.++.+| .+.++++|++|++++|. +..++.  ++.+++|+.|+++++...   
T Consensus        92 L~~N~l~~l~~~~~-~~L~~L~L~~N~l~~~~-~l~~l~~L~~L~Ls~N~-i~~~~~--l~~l~~L~~L~L~~N~i~---  163 (263)
T 1xeu_A           92 VNRNRLKNLNGIPS-ACLSRLFLDNNELRDTD-SLIHLKNLEILSIRNNK-LKSIVM--LGFLSKLEVLDLHGNEIT---  163 (263)
T ss_dssp             CCSSCCSCCTTCCC-SSCCEEECCSSCCSBSG-GGTTCTTCCEEECTTSC-CCBCGG--GGGCTTCCEEECTTSCCC---
T ss_pred             CCCCccCCcCcccc-CcccEEEccCCccCCCh-hhcCcccccEEECCCCc-CCCChH--HccCCCCCEEECCCCcCc---
Confidence            77766665333333 66777777776666654 46666677777776665 555542  566666666666643320   


Q ss_pred             hhhhcccccChhhhcCCCCCcEEEccCCCCCcC
Q 040303          245 VEAAGVKNASLEELKRLPNLTTLELCIPDVNTL  277 (552)
Q Consensus       245 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  277 (552)
                               ....+..+++|+.|++++|.+...
T Consensus       164 ---------~~~~l~~l~~L~~L~l~~N~~~~~  187 (263)
T 1xeu_A          164 ---------NTGGLTRLKKVNWIDLTGQKCVNE  187 (263)
T ss_dssp             ---------BCTTSTTCCCCCEEEEEEEEEECC
T ss_pred             ---------chHHhccCCCCCEEeCCCCcccCC
Confidence                     114455666666666666654433

>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=99.57  E-value=2.8e-14  Score=130.36  Aligned_cols=145  Identities=22%  Similarity=0.324  Sum_probs=100.1

Q ss_pred             cEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccc-cchhcCCCCCcEEEccC
Q 040303           89 TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLL-PSSLGLLTNLRTLCLYC  167 (552)
Q Consensus        89 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~l-p~~i~~l~~L~~L~l~~  167 (552)
                      +.++.+++.+.. +|... .++++.|++.+|...  .++...|..+++|++|++++|.+..+ |..+.++++|++|++++
T Consensus        14 ~~v~c~~~~l~~-iP~~l-~~~l~~L~l~~n~i~--~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~   89 (220)
T 2v9t_B           14 NIVDCRGKGLTE-IPTNL-PETITEIRLEQNTIK--VIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYG   89 (220)
T ss_dssp             TEEECTTSCCSS-CCSSC-CTTCCEEECCSSCCC--EECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCS
T ss_pred             CEEEcCCCCcCc-CCCcc-CcCCCEEECCCCcCC--CcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCC
Confidence            456666666665 55433 257777777777655  56665567777888888888877765 56677778888888887


Q ss_pred             CCCCC-h-hhhcCCCCccEEEecCCcCcccc-hhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcccc
Q 040303          168 SELQD-I-AVIGELKNLEILCLRGSYIEQLP-VEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSF  238 (552)
Q Consensus       168 ~~~~~-~-~~i~~L~~L~~L~l~~~~l~~lp-~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~  238 (552)
                      |.+.. | ..+.++++|++|++++|.+..++ ..+..+++|++|++++|. +..++...+..+++|+.|++.++
T Consensus        90 N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N  162 (220)
T 2v9t_B           90 NKITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNK-LQTIAKGTFSPLRAIQTMHLAQN  162 (220)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSS
T ss_pred             CcCCccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCc-CCEECHHHHhCCCCCCEEEeCCC
Confidence            77776 3 34577777888888777777653 456777777777777766 56666554667777777777633

>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=99.56  E-value=4e-14  Score=129.31  Aligned_cols=145  Identities=21%  Similarity=0.318  Sum_probs=102.7

Q ss_pred             cEEEeecCCCcccCCCccCCCCceEEEeecCCCCCccc-ChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEEcc
Q 040303           89 TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITL-PDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLY  166 (552)
Q Consensus        89 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~-~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~  166 (552)
                      ++++++++.+.. +|... .+.++.|++++|...  .+ +..+|..+++|++|++++|.++.++. .++++.+|++|+++
T Consensus        14 ~~l~~s~n~l~~-iP~~~-~~~~~~L~L~~N~l~--~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls   89 (220)
T 2v70_A           14 TTVDCSNQKLNK-IPEHI-PQYTAELRLNNNEFT--VLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLT   89 (220)
T ss_dssp             TEEECCSSCCSS-CCSCC-CTTCSEEECCSSCCC--EECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC
T ss_pred             CEeEeCCCCccc-CccCC-CCCCCEEEcCCCcCC--ccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECC
Confidence            477888777776 65433 345678888877665  34 34456778888888888888776655 67788888888888


Q ss_pred             CCCCCC--hhhhcCCCCccEEEecCCcCccc-chhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcccc
Q 040303          167 CSELQD--IAVIGELKNLEILCLRGSYIEQL-PVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSF  238 (552)
Q Consensus       167 ~~~~~~--~~~i~~L~~L~~L~l~~~~l~~l-p~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~  238 (552)
                      +|.+..  +..+.++++|++|++++|.++.+ |..+..+++|++|++++|. +..+++..+..+++|+.|++.++
T Consensus        90 ~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N  163 (220)
T 2v70_A           90 SNRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQ-ITTVAPGAFDTLHSLSTLNLLAN  163 (220)
T ss_dssp             SSCCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSC-CCCBCTTTTTTCTTCCEEECCSC
T ss_pred             CCccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCc-CCEECHHHhcCCCCCCEEEecCc
Confidence            888766  45577888888888888877766 4557778888888888776 55554444677777777777633

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

Probab=99.56  E-value=2.9e-14  Score=137.89  Aligned_cols=175  Identities=17%  Similarity=0.109  Sum_probs=140.8

Q ss_pred             cccCcccEEEeecCCCcccCCC-----ccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccc---ccc--
Q 040303           83 GALKFYTSIVLHDSKMNVLLPE-----VLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSL---LPS--  152 (552)
Q Consensus        83 ~~~~~lr~L~l~~~~~~~~~~~-----~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~---lp~--  152 (552)
                      ...+++++|++++|.+....+.     ...+++|++|++++|...  .++...|..+++|++|++++|.+..   ++.  
T Consensus       114 ~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~--~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~  191 (310)
T 4glp_A          114 ATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSP--AFSCEQVRAFPALTSLDLSDNPGLGERGLMAAL  191 (310)
T ss_dssp             CCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSC--CCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTS
T ss_pred             ccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcc--hhhHHHhccCCCCCEEECCCCCCccchhhhHHH
Confidence            4578899999999998864432     126899999999999875  6666667899999999999998653   433  


Q ss_pred             hhcCCCCCcEEEccCCCCCC-hh----hhcCCCCccEEEecCCcCccc-chhhccC---CCCCEEeccCCCCCCccCccc
Q 040303          153 SLGLLTNLRTLCLYCSELQD-IA----VIGELKNLEILCLRGSYIEQL-PVEIGQL---TRLRSLDLRDCDRLQVIPPNV  223 (552)
Q Consensus       153 ~i~~l~~L~~L~l~~~~~~~-~~----~i~~L~~L~~L~l~~~~l~~l-p~~i~~l---~~L~~L~l~~~~~~~~~~~~~  223 (552)
                      .++.+++|++|++++|.++. +.    .++++++|++|++++|.+..+ |..+..+   ++|++|++++|. +..+|.. 
T Consensus       192 ~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~-l~~lp~~-  269 (310)
T 4glp_A          192 CPHKFPAIQNLALRNTGMETPTGVCAALAAAGVQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFAG-LEQVPKG-  269 (310)
T ss_dssp             CTTSSCCCCSCBCCSSCCCCHHHHHHHHHHHTCCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSSC-CCSCCSC-
T ss_pred             hhhcCCCCCEEECCCCCCCchHHHHHHHHhcCCCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCCC-CCchhhh-
Confidence            34789999999999999987 33    357899999999999999876 8777777   699999999988 7788886 


Q ss_pred             ccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCC
Q 040303          224 LSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVN  275 (552)
Q Consensus       224 l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  275 (552)
                      +.  ++|++|+++++...            ....+..+++|+.|++++|.+.
T Consensus       270 ~~--~~L~~L~Ls~N~l~------------~~~~~~~l~~L~~L~L~~N~l~  307 (310)
T 4glp_A          270 LP--AKLRVLDLSSNRLN------------RAPQPDELPEVDNLTLDGNPFL  307 (310)
T ss_dssp             CC--SCCSCEECCSCCCC------------SCCCTTSCCCCSCEECSSTTTS
T ss_pred             hc--CCCCEEECCCCcCC------------CCchhhhCCCccEEECcCCCCC
Confidence            43  89999999865441            1133678899999999999865

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.56  E-value=1.6e-15  Score=151.60  Aligned_cols=185  Identities=18%  Similarity=0.126  Sum_probs=124.4

Q ss_pred             cCcccEEEeecCCCccc----CCC-ccCCCCceEEEeecCCCC--CcccChhH------hhCCCCccEEEeecccccc--
Q 040303           85 LKFYTSIVLHDSKMNVL----LPE-VLECPQLQLLSLWTEKSS--LITLPDNF------FRKLTQVRVLDLTYMHLSL--  149 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~----~~~-~~~~~~Lr~L~l~~~~~~--~~~~~~~~------~~~l~~Lr~L~l~~~~~~~--  149 (552)
                      .+++++|++++|.+...    ++. +..+++|++|++++|...  ...+|..+      +..+++|++|++++|.+..  
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            46688888888877652    111 236888888888876432  11334433      3678888889888888765  


Q ss_pred             ---ccchhcCCCCCcEEEccCCCCCC--hhh----hcCC---------CCccEEEecCCcCc--ccc---hhhccCCCCC
Q 040303          150 ---LPSSLGLLTNLRTLCLYCSELQD--IAV----IGEL---------KNLEILCLRGSYIE--QLP---VEIGQLTRLR  206 (552)
Q Consensus       150 ---lp~~i~~l~~L~~L~l~~~~~~~--~~~----i~~L---------~~L~~L~l~~~~l~--~lp---~~i~~l~~L~  206 (552)
                         +|..+..+++|++|++++|.+..  +..    +..+         ++|++|++++|.+.  .+|   ..+..+++|+
T Consensus       111 ~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~  190 (386)
T 2ca6_A          111 QEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLH  190 (386)
T ss_dssp             HHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCC
T ss_pred             HHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCCcC
Confidence               77788888888999888888764  333    3334         88888888888775  444   4567788888


Q ss_pred             EEeccCCCCCCc-----cCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCc
Q 040303          207 SLDLRDCDRLQV-----IPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNT  276 (552)
Q Consensus       207 ~L~l~~~~~~~~-----~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  276 (552)
                      +|++++|. +..     +.+..+..+++|++|+++++.... .     ........+..+++|+.|++++|.+..
T Consensus       191 ~L~L~~n~-l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~-~-----g~~~l~~~l~~~~~L~~L~L~~n~i~~  258 (386)
T 2ca6_A          191 TVKMVQNG-IRPEGIEHLLLEGLAYCQELKVLDLQDNTFTH-L-----GSSALAIALKSWPNLRELGLNDCLLSA  258 (386)
T ss_dssp             EEECCSSC-CCHHHHHHHHHTTGGGCTTCCEEECCSSCCHH-H-----HHHHHHHHGGGCTTCCEEECTTCCCCH
T ss_pred             EEECcCCC-CCHhHHHHHHHHHhhcCCCccEEECcCCCCCc-H-----HHHHHHHHHccCCCcCEEECCCCCCch
Confidence            88888876 441     222126788888888887544310 0     011234567788888888888877543

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

Probab=99.55  E-value=4.4e-14  Score=132.81  Aligned_cols=146  Identities=24%  Similarity=0.288  Sum_probs=128.0

Q ss_pred             cccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcE
Q 040303           83 GALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRT  162 (552)
Q Consensus        83 ~~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~  162 (552)
                      ...+++++|+++++.+.. ++....+++|+.|++++|...  .++.  +.++++|++|++++|.++.+|....  .+|++
T Consensus        38 ~~l~~L~~L~l~~n~i~~-l~~l~~l~~L~~L~L~~N~i~--~~~~--l~~l~~L~~L~L~~N~l~~l~~~~~--~~L~~  110 (263)
T 1xeu_A           38 KELSGVQNFNGDNSNIQS-LAGMQFFTNLKELHLSHNQIS--DLSP--LKDLTKLEELSVNRNRLKNLNGIPS--ACLSR  110 (263)
T ss_dssp             HHHTTCSEEECTTSCCCC-CTTGGGCTTCCEEECCSSCCC--CCGG--GTTCSSCCEEECCSSCCSCCTTCCC--SSCCE
T ss_pred             hhcCcCcEEECcCCCccc-chHHhhCCCCCEEECCCCccC--CChh--hccCCCCCEEECCCCccCCcCcccc--CcccE
Confidence            457889999999999987 776668999999999999766  5666  6899999999999999998876444  99999


Q ss_pred             EEccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccc
Q 040303          163 LCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFN  239 (552)
Q Consensus       163 L~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  239 (552)
                      |++++|.+..++.+.++++|++|++++|+++.+| .+..+++|++|++++|. +..++ . +..+++|+.|+++++.
T Consensus       111 L~L~~N~l~~~~~l~~l~~L~~L~Ls~N~i~~~~-~l~~l~~L~~L~L~~N~-i~~~~-~-l~~l~~L~~L~l~~N~  183 (263)
T 1xeu_A          111 LFLDNNELRDTDSLIHLKNLEILSIRNNKLKSIV-MLGFLSKLEVLDLHGNE-ITNTG-G-LTRLKKVNWIDLTGQK  183 (263)
T ss_dssp             EECCSSCCSBSGGGTTCTTCCEEECTTSCCCBCG-GGGGCTTCCEEECTTSC-CCBCT-T-STTCCCCCEEEEEEEE
T ss_pred             EEccCCccCCChhhcCcccccEEECCCCcCCCCh-HHccCCCCCEEECCCCc-CcchH-H-hccCCCCCEEeCCCCc
Confidence            9999999998778999999999999999999986 79999999999999987 66663 3 8999999999998554

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

Probab=99.53  E-value=1.4e-13  Score=142.82  Aligned_cols=174  Identities=20%  Similarity=0.217  Sum_probs=138.6

Q ss_pred             CcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEc
Q 040303           86 KFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCL  165 (552)
Q Consensus        86 ~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l  165 (552)
                      .+++.|+++++.+.. +|... .++|++|++++|.+.  .+|    ..+++|++|++++|.++.+|. +.+  +|++|++
T Consensus        59 ~~L~~L~Ls~n~L~~-lp~~l-~~~L~~L~Ls~N~l~--~ip----~~l~~L~~L~Ls~N~l~~ip~-l~~--~L~~L~L  127 (571)
T 3cvr_A           59 NQFSELQLNRLNLSS-LPDNL-PPQITVLEITQNALI--SLP----ELPASLEYLDACDNRLSTLPE-LPA--SLKHLDV  127 (571)
T ss_dssp             TTCSEEECCSSCCSC-CCSCC-CTTCSEEECCSSCCS--CCC----CCCTTCCEEECCSSCCSCCCC-CCT--TCCEEEC
T ss_pred             CCccEEEeCCCCCCc-cCHhH-cCCCCEEECcCCCCc--ccc----cccCCCCEEEccCCCCCCcch-hhc--CCCEEEC
Confidence            378899999999887 77644 488999999998766  677    357899999999999988888 665  9999999


Q ss_pred             cCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhh
Q 040303          166 YCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVE  244 (552)
Q Consensus       166 ~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  244 (552)
                      ++|.+.. |.   .+++|++|++++|.++.+|.   .+++|++|++++|. +..+|.  ++  ++|+.|+++++....  
T Consensus       128 s~N~l~~lp~---~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~N~-L~~lp~--l~--~~L~~L~Ls~N~L~~--  194 (571)
T 3cvr_A          128 DNNQLTMLPE---LPALLEYINADNNQLTMLPE---LPTSLEVLSVRNNQ-LTFLPE--LP--ESLEALDVSTNLLES--  194 (571)
T ss_dssp             CSSCCSCCCC---CCTTCCEEECCSSCCSCCCC---CCTTCCEEECCSSC-CSCCCC--CC--TTCCEEECCSSCCSS--
T ss_pred             CCCcCCCCCC---cCccccEEeCCCCccCcCCC---cCCCcCEEECCCCC-CCCcch--hh--CCCCEEECcCCCCCc--
Confidence            9999887 44   78999999999999998886   67899999999987 677887  45  899999998554311  


Q ss_pred             hhhhcccccChhhhcCCCCC-------cEEEccCCCCCcCCCcc-cccCCceEEEEecc
Q 040303          245 VEAAGVKNASLEELKRLPNL-------TTLELCIPDVNTLPKGL-FFEKLERYRICIGR  295 (552)
Q Consensus       245 ~~~~~~~~~~~~~l~~l~~L-------~~L~l~~~~~~~~p~~~-~l~~L~~L~l~~~~  295 (552)
                               .+. +..  +|       +.|++++|.+..+|..+ .+++|+.|.++++.
T Consensus       195 ---------lp~-~~~--~L~~~~~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~L~~N~  241 (571)
T 3cvr_A          195 ---------LPA-VPV--RNHHSEETEIFFRCRENRITHIPENILSLDPTCTIILEDNP  241 (571)
T ss_dssp             ---------CCC-CC----------CCEEEECCSSCCCCCCGGGGGSCTTEEEECCSSS
T ss_pred             ---------hhh-HHH--hhhcccccceEEecCCCcceecCHHHhcCCCCCEEEeeCCc
Confidence                     111 222  55       99999999999999876 78888888886654

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

Probab=99.53  E-value=6e-14  Score=127.13  Aligned_cols=143  Identities=27%  Similarity=0.307  Sum_probs=121.9

Q ss_pred             ccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccch-hcCCCCCc
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS-LGLLTNLR  161 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~-i~~l~~L~  161 (552)
                      ..+++++|+++++.+....+..+ .+++|++|++.+|...  .++...|..+++|++|++++|.+..+|.. ++++++|+
T Consensus        26 ~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~--~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~  103 (208)
T 2o6s_A           26 IPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQ--SLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLK  103 (208)
T ss_dssp             CCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCC--CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCC
T ss_pred             CCCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccC--ccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccCCC
Confidence            46789999999999987344444 8999999999998766  78888789999999999999999988765 68999999


Q ss_pred             EEEccCCCCCC-h-hhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcc
Q 040303          162 TLCLYCSELQD-I-AVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       162 ~L~l~~~~~~~-~-~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                      +|++++|.+.. + ..+.++++|++|++++|.++.+|.. +.++++|++|++++|..        .+.+++|+.|++.
T Consensus       104 ~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~--------~~~~~~l~~L~~~  173 (208)
T 2o6s_A          104 ELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPW--------DCTCPGIRYLSEW  173 (208)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCB--------CCCTTTTHHHHHH
T ss_pred             EEEcCCCcCcccCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEecCCCe--------ecCCCCHHHHHHH
Confidence            99999999887 4 4589999999999999999988876 78899999999998742        3566778888765

>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=99.52  E-value=1e-13  Score=126.63  Aligned_cols=147  Identities=17%  Similarity=0.281  Sum_probs=106.8

Q ss_pred             eEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEec
Q 040303          112 QLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCLR  188 (552)
Q Consensus       112 r~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~  188 (552)
                      +.+++.++...  .+|..+   .+.|++|++++|.+..+|. .+..+++|++|++++|.+..  |..+.++++|++|+++
T Consensus        14 ~~v~c~~~~l~--~iP~~l---~~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls   88 (220)
T 2v9t_B           14 NIVDCRGKGLT--EIPTNL---PETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLY   88 (220)
T ss_dssp             TEEECTTSCCS--SCCSSC---CTTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECC
T ss_pred             CEEEcCCCCcC--cCCCcc---CcCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECC
Confidence            45666665544  677654   2678888888888887765 67888888888888888776  5778888888888888


Q ss_pred             CCcCcccchh-hccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEE
Q 040303          189 GSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTL  267 (552)
Q Consensus       189 ~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L  267 (552)
                      +|.++.+|.. +..+++|++|++++|. +..+++..+..+++|+.|+++++..          .......+..+++|+.|
T Consensus        89 ~N~l~~l~~~~f~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N~l----------~~~~~~~~~~l~~L~~L  157 (220)
T 2v9t_B           89 GNKITELPKSLFEGLFSLQLLLLNANK-INCLRVDAFQDLHNLNLLSLYDNKL----------QTIAKGTFSPLRAIQTM  157 (220)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCC----------SCCCTTTTTTCTTCCEE
T ss_pred             CCcCCccCHhHccCCCCCCEEECCCCC-CCEeCHHHcCCCCCCCEEECCCCcC----------CEECHHHHhCCCCCCEE
Confidence            8888888776 4678888888888877 6666555577888888888874433          11122346677777888


Q ss_pred             EccCCCC
Q 040303          268 ELCIPDV  274 (552)
Q Consensus       268 ~l~~~~~  274 (552)
                      ++++|.+
T Consensus       158 ~L~~N~~  164 (220)
T 2v9t_B          158 HLAQNPF  164 (220)
T ss_dssp             ECCSSCE
T ss_pred             EeCCCCc
Confidence            8777653

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.52  E-value=5.9e-15  Score=146.03  Aligned_cols=174  Identities=18%  Similarity=0.158  Sum_probs=96.0

Q ss_pred             EeecCCCcccCCCccCCC-CceEEEeecCCCCCcccCh----hHhhCCC-CccEEEeeccccccc-cchhcCC-----CC
Q 040303           92 VLHDSKMNVLLPEVLECP-QLQLLSLWTEKSSLITLPD----NFFRKLT-QVRVLDLTYMHLSLL-PSSLGLL-----TN  159 (552)
Q Consensus        92 ~l~~~~~~~~~~~~~~~~-~Lr~L~l~~~~~~~~~~~~----~~~~~l~-~Lr~L~l~~~~~~~l-p~~i~~l-----~~  159 (552)
                      .++.+.+.+.+|.+...+ +|+.|++++|...  ..+.    ..+.+++ +|++|++++|.+... +..+..+     ++
T Consensus         4 ~ls~n~~~~~~~~~~~~~~~L~~L~Ls~n~l~--~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~   81 (362)
T 3goz_A            4 KLTLHPGSNPVEEFTSIPHGVTSLDLSLNNLY--SISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPAN   81 (362)
T ss_dssp             ECCCCTTCCHHHHHHTSCTTCCEEECTTSCGG--GSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTT
T ss_pred             ccccccchHHHHHHHhCCCCceEEEccCCCCC--hHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCC
Confidence            455566655455544333 4777777776644  4443    4456666 777777777776543 3444443     77


Q ss_pred             CcEEEccCCCCCC--hhh----hcCC-CCccEEEecCCcCcccchh-----hcc-CCCCCEEeccCCCCCC-----ccCc
Q 040303          160 LRTLCLYCSELQD--IAV----IGEL-KNLEILCLRGSYIEQLPVE-----IGQ-LTRLRSLDLRDCDRLQ-----VIPP  221 (552)
Q Consensus       160 L~~L~l~~~~~~~--~~~----i~~L-~~L~~L~l~~~~l~~lp~~-----i~~-l~~L~~L~l~~~~~~~-----~~~~  221 (552)
                      |++|++++|.+..  +..    +..+ ++|++|++++|.+...+..     +.. .++|++|++++|. ++     .++.
T Consensus        82 L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-l~~~~~~~l~~  160 (362)
T 3goz_A           82 VTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGND-LGIKSSDELIQ  160 (362)
T ss_dssp             CCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSC-GGGSCHHHHHH
T ss_pred             ccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCc-CCHHHHHHHHH
Confidence            7777777777654  332    3344 6777777777776654431     223 2577777777765 33     2222


Q ss_pred             ccccCCC-CCcEEEccccccchhhhhhhcccccChhhhcCC-CCCcEEEccCCCCC
Q 040303          222 NVLSNLS-HLEELYIRSFNKWEVEVEAAGVKNASLEELKRL-PNLTTLELCIPDVN  275 (552)
Q Consensus       222 ~~l~~l~-~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l-~~L~~L~l~~~~~~  275 (552)
                      . +..++ +|++|+++++.....      ........+... ++|+.|++++|.+.
T Consensus       161 ~-l~~~~~~L~~L~Ls~n~l~~~------~~~~l~~~l~~~~~~L~~L~Ls~N~i~  209 (362)
T 3goz_A          161 I-LAAIPANVNSLNLRGNNLASK------NCAELAKFLASIPASVTSLDLSANLLG  209 (362)
T ss_dssp             H-HHTSCTTCCEEECTTSCGGGS------CHHHHHHHHHTSCTTCCEEECTTSCGG
T ss_pred             H-HhcCCccccEeeecCCCCchh------hHHHHHHHHHhCCCCCCEEECCCCCCC
Confidence            2 34444 677777764432100      000112234444 37777777766544

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.52  E-value=1e-15  Score=153.11  Aligned_cols=67  Identities=19%  Similarity=0.108  Sum_probs=37.1

Q ss_pred             ccCCCcccccccceeeeEeccCCCCccc--cccCcceEEEEecCCCccc-----cccchhHhhhcccceEEEecCC
Q 040303          407 GGLPNLETLELYNVNVERIWKSQLPAMS--CGIQTLTRLIVYGCGELRC-----LFSSSIVNSFIRLQHLEIDECP  475 (552)
Q Consensus       407 ~~~~~L~~L~l~~~~l~~~~~~~~~~~~--~~l~~L~~L~i~~C~~L~~-----lp~~~~~~~l~~L~~L~i~~c~  475 (552)
                      ..+++|+.|++++|.+........+...  +.+++|++|++++| .+..     +|. ....++++|++|++.+|+
T Consensus       241 ~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n-~i~~~g~~~l~~-~l~~~l~~L~~L~l~~N~  314 (386)
T 2ca6_A          241 KSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYN-EIELDAVRTLKT-VIDEKMPDLLFLELNGNR  314 (386)
T ss_dssp             GGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSS-CCBHHHHHHHHH-HHHHHCTTCCEEECTTSB
T ss_pred             ccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCC-cCCHHHHHHHHH-HHHhcCCCceEEEccCCc
Confidence            4567777777777765432110000000  12677778887775 3444     543 122556777888777765

>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=99.51  E-value=1.9e-13  Score=124.77  Aligned_cols=147  Identities=16%  Similarity=0.227  Sum_probs=112.3

Q ss_pred             eEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc--hhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEe
Q 040303          112 QLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS--SLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCL  187 (552)
Q Consensus       112 r~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~--~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l  187 (552)
                      ++++++++...  .+|..+   ...+++|++++|.+..++.  .++.+++|++|++++|.+..  +..+.++.+|++|++
T Consensus        14 ~~l~~s~n~l~--~iP~~~---~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~L   88 (220)
T 2v70_A           14 TTVDCSNQKLN--KIPEHI---PQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILL   88 (220)
T ss_dssp             TEEECCSSCCS--SCCSCC---CTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEEC
T ss_pred             CEeEeCCCCcc--cCccCC---CCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEEC
Confidence            47788777654  677654   3457899999998887743  47889999999999998887  457889999999999


Q ss_pred             cCCcCcccchh-hccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcE
Q 040303          188 RGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTT  266 (552)
Q Consensus       188 ~~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~  266 (552)
                      ++|.++.+|.. +..+++|++|++++|. +..+++..+..+++|++|+++++..          .......+..+++|+.
T Consensus        89 s~N~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~N~l----------~~~~~~~~~~l~~L~~  157 (220)
T 2v70_A           89 TSNRLENVQHKMFKGLESLKTLMLRSNR-ITCVGNDSFIGLSSVRLLSLYDNQI----------TTVAPGAFDTLHSLST  157 (220)
T ss_dssp             CSSCCCCCCGGGGTTCSSCCEEECTTSC-CCCBCTTSSTTCTTCSEEECTTSCC----------CCBCTTTTTTCTTCCE
T ss_pred             CCCccCccCHhHhcCCcCCCEEECCCCc-CCeECHhHcCCCccCCEEECCCCcC----------CEECHHHhcCCCCCCE
Confidence            99988877765 7889999999999887 6666544478888899888875443          1123456778888888


Q ss_pred             EEccCCCC
Q 040303          267 LELCIPDV  274 (552)
Q Consensus       267 L~l~~~~~  274 (552)
                      |++++|.+
T Consensus       158 L~L~~N~l  165 (220)
T 2v70_A          158 LNLLANPF  165 (220)
T ss_dssp             EECCSCCE
T ss_pred             EEecCcCC
Confidence            88887764

>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=2e-13  Score=125.60  Aligned_cols=136  Identities=28%  Similarity=0.382  Sum_probs=118.7

Q ss_pred             cccccCccccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccch-
Q 040303           76 SREWLDEGALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS-  153 (552)
Q Consensus        76 ~~~~~~~~~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~-  153 (552)
                      ...++. ....++++|++++|.+....+..+ .+++|+.|++++|...  .+|...|..+++|++|++++|.+..+|.. 
T Consensus        31 l~~ip~-~~~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~--~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~  107 (229)
T 3e6j_A           31 HASVPA-GIPTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLG--ALPVGVFDSLTQLTVLDLGTNQLTVLPSAV  107 (229)
T ss_dssp             CSSCCS-CCCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC--CCCTTTTTTCTTCCEEECCSSCCCCCCTTT
T ss_pred             cCccCC-CCCCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCC--CcChhhcccCCCcCEEECCCCcCCccChhH
Confidence            344443 356889999999999998555554 8999999999999875  78888889999999999999999988765 


Q ss_pred             hcCCCCCcEEEccCCCCCC-hhhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEeccCCC
Q 040303          154 LGLLTNLRTLCLYCSELQD-IAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCD  214 (552)
Q Consensus       154 i~~l~~L~~L~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~  214 (552)
                      +..+.+|++|++++|.+.. |..+.++++|++|++++|.+..+|.. +..+++|++|++.+|.
T Consensus       108 ~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~  170 (229)
T 3e6j_A          108 FDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYLFGNP  170 (229)
T ss_dssp             TTTCTTCCEEECCSSCCCSCCTTGGGCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             hCcchhhCeEeccCCcccccCcccccCCCCCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCC
Confidence            6899999999999999988 88999999999999999999988864 7889999999999986

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

Probab=99.51  E-value=1e-13  Score=136.95  Aligned_cols=143  Identities=23%  Similarity=0.312  Sum_probs=86.1

Q ss_pred             cEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhh-CCCCccEEEeeccccccccc-hhcCCCCCcEEEcc
Q 040303           89 TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFR-KLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLY  166 (552)
Q Consensus        89 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~-~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~  166 (552)
                      +.++++++.+.. +|... .+.++.|++++|.+.  .++...|. ++++|++|++++|.+..++. .+.++++|++|+++
T Consensus        21 ~~l~c~~~~l~~-iP~~~-~~~l~~L~Ls~N~l~--~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls   96 (361)
T 2xot_A           21 NILSCSKQQLPN-VPQSL-PSYTALLDLSHNNLS--RLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLS   96 (361)
T ss_dssp             TEEECCSSCCSS-CCSSC-CTTCSEEECCSSCCC--EECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC
T ss_pred             CEEEeCCCCcCc-cCccC-CCCCCEEECCCCCCC--ccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECC
Confidence            456666666655 55322 234666777766554  45555555 66677777777776666553 46667777777777


Q ss_pred             CCCCCC--hhhhcCCCCccEEEecCCcCccc-chhhccCCCCCEEeccCCCCCCccCcccc---cCCCCCcEEEcc
Q 040303          167 CSELQD--IAVIGELKNLEILCLRGSYIEQL-PVEIGQLTRLRSLDLRDCDRLQVIPPNVL---SNLSHLEELYIR  236 (552)
Q Consensus       167 ~~~~~~--~~~i~~L~~L~~L~l~~~~l~~l-p~~i~~l~~L~~L~l~~~~~~~~~~~~~l---~~l~~L~~L~l~  236 (552)
                      +|.+..  +..+.++.+|++|++++|.+..+ |..+..+++|++|++++|. +..+|...+   ..+++|+.|+++
T Consensus        97 ~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~-l~~l~~~~~~~~~~l~~L~~L~L~  171 (361)
T 2xot_A           97 SNHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQ-ISRFPVELIKDGNKLPKLMLLDLS  171 (361)
T ss_dssp             SSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSC-CCSCCGGGTC----CTTCCEEECC
T ss_pred             CCcCCcCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCCCc-CCeeCHHHhcCcccCCcCCEEECC
Confidence            766665  34566667777777777666654 3456666677777776665 555655433   345555555554

>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=99.51  E-value=1e-13  Score=120.99  Aligned_cols=139  Identities=23%  Similarity=0.213  Sum_probs=86.5

Q ss_pred             CCCccEEEeeccccc--cccchhcCCCCCcEEEccCCCCCChhhhcCCCCccEEEecCCcCcc-cchhhccCCCCCEEec
Q 040303          134 LTQVRVLDLTYMHLS--LLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQ-LPVEIGQLTRLRSLDL  210 (552)
Q Consensus       134 l~~Lr~L~l~~~~~~--~lp~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~-lp~~i~~l~~L~~L~l  210 (552)
                      .++|++|++++|.+.  .+|..+..+++|++|++++|.+.....+..+++|++|++++|.+.. +|..+.++++|++|++
T Consensus        23 ~~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  102 (168)
T 2ell_A           23 PAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNL  102 (168)
T ss_dssp             TTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCCSSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEEC
T ss_pred             cccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCChhhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEec
Confidence            456677777777666  6666666777777777777766655666667777777777776665 5555556777777777


Q ss_pred             cCCCCCCccCc-ccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCc
Q 040303          211 RDCDRLQVIPP-NVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKG  280 (552)
Q Consensus       211 ~~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~  280 (552)
                      ++|. +..++. ..++.+++|++|+++++.....       .......+..+++|+.|+++.|....+|..
T Consensus       103 s~N~-l~~~~~~~~l~~l~~L~~L~l~~N~l~~~-------~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~  165 (168)
T 2ell_A          103 SGNK-LKDISTLEPLKKLECLKSLDLFNCEVTNL-------NDYRESVFKLLPQLTYLDGYDREDQEAPDS  165 (168)
T ss_dssp             BSSS-CCSSGGGGGGSSCSCCCEEECCSSGGGTS-------TTHHHHHHTTCSSCCEETTEETTSCBCCSS
T ss_pred             cCCc-cCcchhHHHHhcCCCCCEEEeeCCcCcch-------HHHHHHHHHhCccCcEecCCCCChhhcccc
Confidence            7765 555542 2256777777777764432100       000013566777777777777776666543

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

Probab=99.51  E-value=6.4e-14  Score=138.42  Aligned_cols=159  Identities=23%  Similarity=0.310  Sum_probs=132.1

Q ss_pred             cccccCccccCcccEEEeecCCCcccCCCcc--CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-
Q 040303           76 SREWLDEGALKFYTSIVLHDSKMNVLLPEVL--ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-  152 (552)
Q Consensus        76 ~~~~~~~~~~~~lr~L~l~~~~~~~~~~~~~--~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-  152 (552)
                      ...+|. .....++.|++++|.+....+..+  .+++|++|++++|.+.  .++...|.++++|++|++++|.+..+|. 
T Consensus        30 l~~iP~-~~~~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~--~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~  106 (361)
T 2xot_A           30 LPNVPQ-SLPSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLN--FISSEAFVPVPNLRYLDLSSNHLHTLDEF  106 (361)
T ss_dssp             CSSCCS-SCCTTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCC--EECTTTTTTCTTCCEEECCSSCCCEECTT
T ss_pred             cCccCc-cCCCCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCC--ccChhhccCCCCCCEEECCCCcCCcCCHH
Confidence            344443 356679999999999988444444  7999999999999776  6777777999999999999999998766 


Q ss_pred             hhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEecCCcCcccchhh----ccCCCCCEEeccCCCCCCccCcccccC
Q 040303          153 SLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQLPVEI----GQLTRLRSLDLRDCDRLQVIPPNVLSN  226 (552)
Q Consensus       153 ~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~~i----~~l~~L~~L~l~~~~~~~~~~~~~l~~  226 (552)
                      .+..+.+|++|++++|.+..  +..+.++++|++|++++|.++.+|..+    ..+++|++|++++|. +..+|...+..
T Consensus       107 ~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~~L~L~~N~-l~~l~~~~~~~  185 (361)
T 2xot_A          107 LFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNK-LKKLPLTDLQK  185 (361)
T ss_dssp             TTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC----CTTCCEEECCSSC-CCCCCHHHHHH
T ss_pred             HhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCCEEECCCCC-CCccCHHHhhh
Confidence            58999999999999999887  678999999999999999999999876    679999999999987 78888765777


Q ss_pred             CCCC--cEEEcccc
Q 040303          227 LSHL--EELYIRSF  238 (552)
Q Consensus       227 l~~L--~~L~l~~~  238 (552)
                      ++.+  +.|++.++
T Consensus       186 l~~~~l~~l~l~~N  199 (361)
T 2xot_A          186 LPAWVKNGLYLHNN  199 (361)
T ss_dssp             SCHHHHTTEECCSS
T ss_pred             ccHhhcceEEecCC
Confidence            7763  77888743

>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=99.50  E-value=1.1e-13  Score=120.72  Aligned_cols=133  Identities=25%  Similarity=0.212  Sum_probs=105.6

Q ss_pred             ccCcccEEEeecCCCc-ccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccc-ccchhcCCCCC
Q 040303           84 ALKFYTSIVLHDSKMN-VLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSL-LPSSLGLLTNL  160 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~-~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~-lp~~i~~l~~L  160 (552)
                      .++++++|+++++.+. +.+|..+ .+++|++|++++|...  .+  ..+..+++|++|++++|.+.. +|..++.+++|
T Consensus        22 ~~~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~--~~--~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L   97 (168)
T 2ell_A           22 TPAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLI--SV--SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNL   97 (168)
T ss_dssp             CTTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCC--CC--SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTC
T ss_pred             CcccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCC--Ch--hhhccCCCCCEEECcCCcCchHHHHHHhhCCCC
Confidence            3577899999999887 3367664 7888999999988765  34  335788899999999998876 77777778999


Q ss_pred             cEEEccCCCCCC-h--hhhcCCCCccEEEecCCcCcccch----hhccCCCCCEEeccCCCCCCccCc
Q 040303          161 RTLCLYCSELQD-I--AVIGELKNLEILCLRGSYIEQLPV----EIGQLTRLRSLDLRDCDRLQVIPP  221 (552)
Q Consensus       161 ~~L~l~~~~~~~-~--~~i~~L~~L~~L~l~~~~l~~lp~----~i~~l~~L~~L~l~~~~~~~~~~~  221 (552)
                      ++|++++|.+.. +  ..+.++++|++|++++|.+..+|.    .+..+++|++|++++|. ..++|.
T Consensus        98 ~~L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~-~~~~~~  164 (168)
T 2ell_A           98 THLNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDRE-DQEAPD  164 (168)
T ss_dssp             CEEECBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEETT-SCBCCS
T ss_pred             CEEeccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCCC-hhhccc
Confidence            999999988877 4  678888899999998888888776    67888889999888876 555554

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

Probab=99.45  E-value=2.8e-13  Score=115.51  Aligned_cols=123  Identities=24%  Similarity=0.220  Sum_probs=85.4

Q ss_pred             cCcccEEEeecCCCc-ccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccc-ccchhcCCCCCc
Q 040303           85 LKFYTSIVLHDSKMN-VLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSL-LPSSLGLLTNLR  161 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~-~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~-lp~~i~~l~~L~  161 (552)
                      .+++++|+++++.+. +.+|..+ .+++|++|++++|...  .+  ..+..+++|++|++++|.+.. +|..++.+++|+
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~--~~--~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~   91 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLT--SI--ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLT   91 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCC--CC--TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCC
T ss_pred             CccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCC--Cc--hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCC
Confidence            467888888888877 3366543 6777777777777554  33  234677777777777777765 666666677777


Q ss_pred             EEEccCCCCCC-h--hhhcCCCCccEEEecCCcCcccch----hhccCCCCCEEecc
Q 040303          162 TLCLYCSELQD-I--AVIGELKNLEILCLRGSYIEQLPV----EIGQLTRLRSLDLR  211 (552)
Q Consensus       162 ~L~l~~~~~~~-~--~~i~~L~~L~~L~l~~~~l~~lp~----~i~~l~~L~~L~l~  211 (552)
                      +|++++|.+.. +  ..++.+++|++|++++|.++.+|.    .+..+++|++|+++
T Consensus        92 ~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           92 HLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             EEECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             EEECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccCC
Confidence            77777777766 3  667777777777777777776664    46667777777654

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

Probab=99.45  E-value=1.2e-13  Score=117.84  Aligned_cols=124  Identities=24%  Similarity=0.292  Sum_probs=73.7

Q ss_pred             CCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEE
Q 040303          109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILC  186 (552)
Q Consensus       109 ~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~  186 (552)
                      ++++.|++++|......+|.. +..+++|++|++++|.+..+ ..++.+++|++|++++|.+..  |..++++++|++|+
T Consensus        17 ~~l~~L~l~~n~l~~~~~~~~-~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~   94 (149)
T 2je0_A           17 SDVKELVLDNSRSNEGKLEGL-TDEFEELEFLSTINVGLTSI-ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLN   94 (149)
T ss_dssp             GGCSEEECTTCBCBTTBCCSC-CTTCTTCCEEECTTSCCCCC-TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEEE
T ss_pred             ccCeEEEccCCcCChhHHHHH-HhhcCCCcEEECcCCCCCCc-hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEEE
Confidence            556666666665431244543 35666666666666666655 556666666666666666554  34455566666666


Q ss_pred             ecCCcCcccc--hhhccCCCCCEEeccCCCCCCccCc---ccccCCCCCcEEEc
Q 040303          187 LRGSYIEQLP--VEIGQLTRLRSLDLRDCDRLQVIPP---NVLSNLSHLEELYI  235 (552)
Q Consensus       187 l~~~~l~~lp--~~i~~l~~L~~L~l~~~~~~~~~~~---~~l~~l~~L~~L~l  235 (552)
                      +++|.++.+|  ..++.+++|++|++++|. +..++.   ..++.+++|+.|++
T Consensus        95 ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~~~~~~~l~~L~~L~l  147 (149)
T 2je0_A           95 LSGNKIKDLSTIEPLKKLENLKSLDLFNCE-VTNLNDYRENVFKLLPQLTYLDG  147 (149)
T ss_dssp             CTTSCCCSHHHHGGGGGCTTCCEEECTTCG-GGGSTTHHHHHHHHCTTCCEETT
T ss_pred             CCCCcCCChHHHHHHhhCCCCCEEeCcCCc-ccchHHHHHHHHHHCCCcccccC
Confidence            6666666544  556666666666666664 444444   23556666666654

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.44  E-value=6.7e-14  Score=138.42  Aligned_cols=186  Identities=17%  Similarity=0.168  Sum_probs=131.5

Q ss_pred             ccCcccEEEeecCCCcccCC----Ccc-CCC-CceEEEeecCCCCCcccChhHhhCC-----CCccEEEeeccccccccc
Q 040303           84 ALKFYTSIVLHDSKMNVLLP----EVL-ECP-QLQLLSLWTEKSSLITLPDNFFRKL-----TQVRVLDLTYMHLSLLPS  152 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~----~~~-~~~-~Lr~L~l~~~~~~~~~~~~~~~~~l-----~~Lr~L~l~~~~~~~lp~  152 (552)
                      ..+++++|++++|.+....+    ..+ .++ +|++|++++|...  ......+..+     ++|++|++++|.+...+.
T Consensus        20 ~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~--~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~   97 (362)
T 3goz_A           20 IPHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLG--FKNSDELVQILAAIPANVTSLNLSGNFLSYKSS   97 (362)
T ss_dssp             SCTTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSCGG--GSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCH
T ss_pred             CCCCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCCCC--HHHHHHHHHHHhccCCCccEEECcCCcCChHHH
Confidence            34569999999999887332    233 677 8999999999765  3333333443     999999999999875433


Q ss_pred             -h----hcCC-CCCcEEEccCCCCCC--hhh----hcCC-CCccEEEecCCcCc-----ccchhhccCC-CCCEEeccCC
Q 040303          153 -S----LGLL-TNLRTLCLYCSELQD--IAV----IGEL-KNLEILCLRGSYIE-----QLPVEIGQLT-RLRSLDLRDC  213 (552)
Q Consensus       153 -~----i~~l-~~L~~L~l~~~~~~~--~~~----i~~L-~~L~~L~l~~~~l~-----~lp~~i~~l~-~L~~L~l~~~  213 (552)
                       .    +..+ ++|++|++++|.+..  +..    +..+ .+|++|++++|.+.     .++..+..+. +|++|++++|
T Consensus        98 ~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n  177 (362)
T 3goz_A           98 DELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGN  177 (362)
T ss_dssp             HHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTS
T ss_pred             HHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEeeecCC
Confidence             2    5555 899999999999876  333    4443 69999999999887     5556667776 9999999998


Q ss_pred             CCCCccCccc----ccCC-CCCcEEEccccccchhhhhhhcccccChhhhcC-CCCCcEEEccCCCCCcCC
Q 040303          214 DRLQVIPPNV----LSNL-SHLEELYIRSFNKWEVEVEAAGVKNASLEELKR-LPNLTTLELCIPDVNTLP  278 (552)
Q Consensus       214 ~~~~~~~~~~----l~~l-~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~-l~~L~~L~l~~~~~~~~p  278 (552)
                      . +.......    +..+ ++|++|+++++.....      ........+.. .++|+.|++++|.+...+
T Consensus       178 ~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~------~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~  241 (362)
T 3goz_A          178 N-LASKNCAELAKFLASIPASVTSLDLSANLLGLK------SYAELAYIFSSIPNHVVSLNLCLNCLHGPS  241 (362)
T ss_dssp             C-GGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGS------CHHHHHHHHHHSCTTCCEEECCSSCCCCCC
T ss_pred             C-CchhhHHHHHHHHHhCCCCCCEEECCCCCCChh------HHHHHHHHHhcCCCCceEEECcCCCCCcHH
Confidence            7 55544321    3455 5999999985543110      01112344555 359999999999876654

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

Probab=99.42  E-value=2.2e-12  Score=133.72  Aligned_cols=159  Identities=21%  Similarity=0.224  Sum_probs=132.4

Q ss_pred             ccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEE
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTL  163 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L  163 (552)
                      ..+++++|++++|.+.. +|  ..+++|++|++++|.+.  .+|. + .+  +|++|++++|.++.+|.   .+++|++|
T Consensus        78 l~~~L~~L~Ls~N~l~~-ip--~~l~~L~~L~Ls~N~l~--~ip~-l-~~--~L~~L~Ls~N~l~~lp~---~l~~L~~L  145 (571)
T 3cvr_A           78 LPPQITVLEITQNALIS-LP--ELPASLEYLDACDNRLS--TLPE-L-PA--SLKHLDVDNNQLTMLPE---LPALLEYI  145 (571)
T ss_dssp             CCTTCSEEECCSSCCSC-CC--CCCTTCCEEECCSSCCS--CCCC-C-CT--TCCEEECCSSCCSCCCC---CCTTCCEE
T ss_pred             HcCCCCEEECcCCCCcc-cc--cccCCCCEEEccCCCCC--Ccch-h-hc--CCCEEECCCCcCCCCCC---cCccccEE
Confidence            35789999999999986 77  55799999999999776  5777 4 44  99999999999999988   78999999


Q ss_pred             EccCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCC-------cEEEc
Q 040303          164 CLYCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHL-------EELYI  235 (552)
Q Consensus       164 ~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L-------~~L~l  235 (552)
                      ++++|.+.. |.   .+++|++|++++|.++.+|. +.  ++|++|++++|. +..+|.  +..  +|       +.|++
T Consensus       146 ~Ls~N~l~~lp~---~l~~L~~L~Ls~N~L~~lp~-l~--~~L~~L~Ls~N~-L~~lp~--~~~--~L~~~~~~L~~L~L  214 (571)
T 3cvr_A          146 NADNNQLTMLPE---LPTSLEVLSVRNNQLTFLPE-LP--ESLEALDVSTNL-LESLPA--VPV--RNHHSEETEIFFRC  214 (571)
T ss_dssp             ECCSSCCSCCCC---CCTTCCEEECCSSCCSCCCC-CC--TTCCEEECCSSC-CSSCCC--CC----------CCEEEEC
T ss_pred             eCCCCccCcCCC---cCCCcCEEECCCCCCCCcch-hh--CCCCEEECcCCC-CCchhh--HHH--hhhcccccceEEec
Confidence            999999988 54   68899999999999999998 66  899999999987 778887  444  67       99999


Q ss_pred             cccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCc
Q 040303          236 RSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNT  276 (552)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  276 (552)
                      +++..           ...+..+..+++|+.|++++|.+..
T Consensus       215 s~N~l-----------~~lp~~l~~l~~L~~L~L~~N~l~~  244 (571)
T 3cvr_A          215 RENRI-----------THIPENILSLDPTCTIILEDNPLSS  244 (571)
T ss_dssp             CSSCC-----------CCCCGGGGGSCTTEEEECCSSSCCH
T ss_pred             CCCcc-----------eecCHHHhcCCCCCEEEeeCCcCCC
Confidence            86543           1255667789999999999998643

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

Probab=99.40  E-value=6e-13  Score=143.11  Aligned_cols=152  Identities=20%  Similarity=0.239  Sum_probs=98.5

Q ss_pred             cCcccEEEeecCCCcccCCCccCCCCceEEEeecCCC---CCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCc
Q 040303           85 LKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKS---SLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLR  161 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~---~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~  161 (552)
                      ..++++|++.++.+...........+|+.+.+.....   .. .++.+.|..+..|++|+|++|.+..+|..+.++++|+
T Consensus       172 ~~~~~~l~L~~n~~~~~~~~~l~~l~Ls~~~i~~~~~~~n~~-~~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~~l~~L~  250 (727)
T 4b8c_D          172 TPLTPKIELFANGKDEANQALLQHKKLSQYSIDEDDDIENRM-VMPKDSKYDDQLWHALDLSNLQIFNISANIFKYDFLT  250 (727)
T ss_dssp             ---------------------------------------------------CCCCCCEEECTTSCCSCCCGGGGGCCSCS
T ss_pred             CCccceEEeeCCCCCcchhhHhhcCccCcccccCccccccce-ecChhhhccCCCCcEEECCCCCCCCCChhhcCCCCCC
Confidence            4567888988887766222333444555544433211   11 3455667899999999999999999999999999999


Q ss_pred             EEEccCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccc
Q 040303          162 TLCLYCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFN  239 (552)
Q Consensus       162 ~L~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  239 (552)
                      +|+|++|.+.. |..|++|.+|++|+|++|.++.+|..+++|++|++|++++|. ++.+|.. ++++++|++|+++++.
T Consensus       251 ~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~-l~~lp~~-~~~l~~L~~L~L~~N~  327 (727)
T 4b8c_D          251 RLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDNM-VTTLPWE-FGNLCNLQFLGVEGNP  327 (727)
T ss_dssp             CCBCTTSCCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCSEEECCSSC-CCCCCSS-TTSCTTCCCEECTTSC
T ss_pred             EEEeeCCcCcccChhhhCCCCCCEEeCcCCcCCccChhhcCCCCCCEEECCCCC-CCccChh-hhcCCCccEEeCCCCc
Confidence            99999999888 888999999999999999999999999999999999999987 7899988 8999999999998554

>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=99.39  E-value=7.8e-13  Score=116.23  Aligned_cols=125  Identities=18%  Similarity=0.153  Sum_probs=61.4

Q ss_pred             CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC-hhh-hcCCCCccE
Q 040303          107 ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD-IAV-IGELKNLEI  184 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~-~~~-i~~L~~L~~  184 (552)
                      .+++|+.|++++|...  .++. +....++|++|++++|.+..+ ..++.+++|++|++++|.+.. |+. +..+++|++
T Consensus        17 ~~~~L~~L~l~~n~l~--~i~~-~~~~~~~L~~L~Ls~N~l~~~-~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~   92 (176)
T 1a9n_A           17 NAVRDRELDLRGYKIP--VIEN-LGATLDQFDAIDFSDNEIRKL-DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTE   92 (176)
T ss_dssp             CTTSCEEEECTTSCCC--SCCC-GGGGTTCCSEEECCSSCCCEE-CCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCE
T ss_pred             CcCCceEEEeeCCCCc--hhHH-hhhcCCCCCEEECCCCCCCcc-cccccCCCCCEEECCCCcccccCcchhhcCCCCCE
Confidence            3444555555544333  2322 212222555555555555544 345555555555555555554 322 255555555


Q ss_pred             EEecCCcCcccch--hhccCCCCCEEeccCCCCCCccCcc---cccCCCCCcEEEcc
Q 040303          185 LCLRGSYIEQLPV--EIGQLTRLRSLDLRDCDRLQVIPPN---VLSNLSHLEELYIR  236 (552)
Q Consensus       185 L~l~~~~l~~lp~--~i~~l~~L~~L~l~~~~~~~~~~~~---~l~~l~~L~~L~l~  236 (552)
                      |++++|.+..+|.  .+..+++|++|++++|. +..+|..   .++.+++|+.|++.
T Consensus        93 L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~-i~~~~~~~~~~~~~l~~L~~Ld~~  148 (176)
T 1a9n_A           93 LILTNNSLVELGDLDPLASLKSLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLDFQ  148 (176)
T ss_dssp             EECCSCCCCCGGGGGGGGGCTTCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEETTE
T ss_pred             EECCCCcCCcchhhHhhhcCCCCCEEEecCCC-CCCcHhHHHHHHHHCCccceeCCC
Confidence            5555555555554  45555555555555554 3344432   24555555555554

>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=99.39  E-value=8.1e-13  Score=116.12  Aligned_cols=126  Identities=18%  Similarity=0.219  Sum_probs=110.2

Q ss_pred             ccCcccEEEeecCCCcccCCCccCCC-CceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchh-cCCCCCc
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVLECP-QLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSL-GLLTNLR  161 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~~~~-~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i-~~l~~L~  161 (552)
                      ...+++.|++++|.+.. ++....+. +|++|++++|...  .++  .+..+++|++|++++|.+..+|..+ +.+++|+
T Consensus        17 ~~~~L~~L~l~~n~l~~-i~~~~~~~~~L~~L~Ls~N~l~--~~~--~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~   91 (176)
T 1a9n_A           17 NAVRDRELDLRGYKIPV-IENLGATLDQFDAIDFSDNEIR--KLD--GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLT   91 (176)
T ss_dssp             CTTSCEEEECTTSCCCS-CCCGGGGTTCCSEEECCSSCCC--EEC--CCCCCSSCCEEECCSSCCCEECSCHHHHCTTCC
T ss_pred             CcCCceEEEeeCCCCch-hHHhhhcCCCCCEEECCCCCCC--ccc--ccccCCCCCEEECCCCcccccCcchhhcCCCCC
Confidence            46789999999999987 67666554 9999999999776  442  3589999999999999999988765 8999999


Q ss_pred             EEEccCCCCCC-hh--hhcCCCCccEEEecCCcCcccchh----hccCCCCCEEeccCCC
Q 040303          162 TLCLYCSELQD-IA--VIGELKNLEILCLRGSYIEQLPVE----IGQLTRLRSLDLRDCD  214 (552)
Q Consensus       162 ~L~l~~~~~~~-~~--~i~~L~~L~~L~l~~~~l~~lp~~----i~~l~~L~~L~l~~~~  214 (552)
                      +|++++|.+.. |.  .+.++++|++|++++|.+..+|..    ++.+++|++|+++.|.
T Consensus        92 ~L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~i~~~~~~~~~~~~~l~~L~~Ld~~~n~  151 (176)
T 1a9n_A           92 ELILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDFQKVK  151 (176)
T ss_dssp             EEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETTEECC
T ss_pred             EEECCCCcCCcchhhHhhhcCCCCCEEEecCCCCCCcHhHHHHHHHHCCccceeCCCcCC
Confidence            99999999987 54  799999999999999999999885    8999999999998876

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

Probab=99.39  E-value=2.4e-12  Score=114.68  Aligned_cols=101  Identities=25%  Similarity=0.338  Sum_probs=65.5

Q ss_pred             CCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEecCCcCcccch-hhccCCCCCEEecc
Q 040303          135 TQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQLPV-EIGQLTRLRSLDLR  211 (552)
Q Consensus       135 ~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~-~i~~l~~L~~L~l~  211 (552)
                      +.|++|++++|.+..+|..+.++.+|++|++++|.+..  +..+.++++|++|++++|.++.+|. .+..+++|++|+++
T Consensus        31 ~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~L~  110 (193)
T 2wfh_A           31 RDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSLH  110 (193)
T ss_dssp             TTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECC
T ss_pred             CCCCEEECCCCcCchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCccCEeCHHHhCCCCCCCEEECC
Confidence            45666666666666666666666677777776666665  3456666777777777766665554 36666677777776


Q ss_pred             CCCCCCccCcccccCCCCCcEEEcc
Q 040303          212 DCDRLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       212 ~~~~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                      +|. +..+|...+..+++|+.|++.
T Consensus       111 ~N~-l~~~~~~~~~~l~~L~~L~L~  134 (193)
T 2wfh_A          111 GND-ISVVPEGAFNDLSALSHLAIG  134 (193)
T ss_dssp             SSC-CCBCCTTTTTTCTTCCEEECC
T ss_pred             CCC-CCeeChhhhhcCccccEEEeC
Confidence            665 556665545666666666665

>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=99.36  E-value=2.7e-12  Score=114.47  Aligned_cols=121  Identities=19%  Similarity=0.259  Sum_probs=50.5

Q ss_pred             cEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccCh-hHhhCCCCccEEEeeccccccc-cchhcCCCCCcEEEcc
Q 040303           89 TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPD-NFFRKLTQVRVLDLTYMHLSLL-PSSLGLLTNLRTLCLY  166 (552)
Q Consensus        89 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~-~~~~~l~~Lr~L~l~~~~~~~l-p~~i~~l~~L~~L~l~  166 (552)
                      ++++++++.+.. +|... ..++++|++.+|.+.  .++. .+|..+++|++|++++|.++.+ |..++++++|++|+++
T Consensus        11 ~~l~~s~~~l~~-ip~~~-~~~l~~L~l~~n~i~--~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls   86 (192)
T 1w8a_A           11 TTVDCTGRGLKE-IPRDI-PLHTTELLLNDNELG--RISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLG   86 (192)
T ss_dssp             TEEECTTSCCSS-CCSCC-CTTCSEEECCSCCCC--SBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             CEEEcCCCCcCc-CccCC-CCCCCEEECCCCcCC--ccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECC
Confidence            445555555543 33322 124444444444332  2222 1234444444444444444433 3344444444444444


Q ss_pred             CCCCCC--hhhhcCCCCccEEEecCCcCccc-chhhccCCCCCEEeccCC
Q 040303          167 CSELQD--IAVIGELKNLEILCLRGSYIEQL-PVEIGQLTRLRSLDLRDC  213 (552)
Q Consensus       167 ~~~~~~--~~~i~~L~~L~~L~l~~~~l~~l-p~~i~~l~~L~~L~l~~~  213 (552)
                      +|.+..  +..+.++++|++|++++|.++.+ |..+..+++|++|++++|
T Consensus        87 ~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N  136 (192)
T 1w8a_A           87 ENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASN  136 (192)
T ss_dssp             SCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTC
T ss_pred             CCcCCccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCC
Confidence            444443  22344444444444444444422 333444444444444443

>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=99.34  E-value=6e-12  Score=112.17  Aligned_cols=119  Identities=19%  Similarity=0.247  Sum_probs=71.7

Q ss_pred             eEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccch--hcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEe
Q 040303          112 QLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS--LGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCL  187 (552)
Q Consensus       112 r~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~--i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l  187 (552)
                      ++++++++...  .+|..++   .+|++|++++|.+..++..  ++.+++|++|++++|.+..  |..+.++++|++|++
T Consensus        11 ~~l~~s~~~l~--~ip~~~~---~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L   85 (192)
T 1w8a_A           11 TTVDCTGRGLK--EIPRDIP---LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQL   85 (192)
T ss_dssp             TEEECTTSCCS--SCCSCCC---TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC
T ss_pred             CEEEcCCCCcC--cCccCCC---CCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEEC
Confidence            45666665543  5665442   2666777777766666543  6666777777777666655  456666667777777


Q ss_pred             cCCcCcccchh-hccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcc
Q 040303          188 RGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       188 ~~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                      ++|+++.++.. +..+++|++|++++|. +..+++..++.+++|++|++.
T Consensus        86 s~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~  134 (192)
T 1w8a_A           86 GENKIKEISNKMFLGLHQLKTLNLYDNQ-ISCVMPGSFEHLNSLTSLNLA  134 (192)
T ss_dssp             CSCCCCEECSSSSTTCTTCCEEECCSSC-CCEECTTSSTTCTTCCEEECT
T ss_pred             CCCcCCccCHHHhcCCCCCCEEECCCCc-CCeeCHHHhhcCCCCCEEEeC
Confidence            66666655443 5666666666666665 444433335566666666655

>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=109.58  Aligned_cols=121  Identities=24%  Similarity=0.339  Sum_probs=104.7

Q ss_pred             cEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEEccC
Q 040303           89 TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYC  167 (552)
Q Consensus        89 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~~  167 (552)
                      ++++++++.+.. +|... .++|++|++.+|.+.  .+|.. |.++++|++|++++|.++.++. .+.++++|++|++++
T Consensus        13 ~~l~~~~~~l~~-ip~~~-~~~l~~L~L~~n~i~--~ip~~-~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~   87 (193)
T 2wfh_A           13 TVVRCSNKGLKV-LPKGI-PRDVTELYLDGNQFT--LVPKE-LSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSY   87 (193)
T ss_dssp             TEEECTTSCCSS-CCSCC-CTTCCEEECCSSCCC--SCCGG-GGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CEEEcCCCCCCc-CCCCC-CCCCCEEECCCCcCc--hhHHH-hhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCC
Confidence            578888888877 66543 468999999999876  78854 5899999999999999988764 689999999999999


Q ss_pred             CCCCC--hhhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEeccCCC
Q 040303          168 SELQD--IAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCD  214 (552)
Q Consensus       168 ~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~  214 (552)
                      |.+..  +..+.++++|++|++++|.++.+|.. +..+++|++|++++|.
T Consensus        88 N~l~~i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~  137 (193)
T 2wfh_A           88 NRLRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANP  137 (193)
T ss_dssp             SCCCBCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSC
T ss_pred             CccCEeCHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCCC
Confidence            99887  56799999999999999999999875 7889999999999876

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

Probab=99.31  E-value=1.6e-11  Score=107.92  Aligned_cols=122  Identities=29%  Similarity=0.360  Sum_probs=76.2

Q ss_pred             cEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccch-hcCCCCCcEEEccC
Q 040303           89 TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS-LGLLTNLRTLCLYC  167 (552)
Q Consensus        89 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~-i~~l~~L~~L~l~~  167 (552)
                      +.+++.++.+.. +|.. ..++|+.|+++++...  .++...|..+++|++|++++|.+..+|.. ++.+++|++|++++
T Consensus        10 ~~l~~~~~~l~~-~p~~-~~~~l~~L~l~~n~l~--~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~   85 (177)
T 2o6r_A           10 TEIRCNSKGLTS-VPTG-IPSSATRLELESNKLQ--SLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHE   85 (177)
T ss_dssp             TEEECCSSCCSS-CCTT-CCTTCSEEECCSSCCC--CCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CEEEecCCCCcc-CCCC-CCCCCcEEEeCCCccc--EeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCC
Confidence            456666666655 4422 2356777777766544  55555556677777777777766666544 46667777777777


Q ss_pred             CCCCC-h-hhhcCCCCccEEEecCCcCcccchhh-ccCCCCCEEeccCCC
Q 040303          168 SELQD-I-AVIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLRDCD  214 (552)
Q Consensus       168 ~~~~~-~-~~i~~L~~L~~L~l~~~~l~~lp~~i-~~l~~L~~L~l~~~~  214 (552)
                      |.+.. + ..+.++++|++|++++|.++.+|..+ ..+++|++|++++|.
T Consensus        86 N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~  135 (177)
T 2o6r_A           86 NKLQSLPNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNP  135 (177)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCccccCHHHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEEecCCC
Confidence            66665 3 34566667777777666666666553 556666666666654

>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=99.31  E-value=7.7e-12  Score=130.32  Aligned_cols=123  Identities=24%  Similarity=0.259  Sum_probs=99.2

Q ss_pred             CccEEEeeccccccccchhcCCCCCcEEEccCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCC
Q 040303          136 QVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCD  214 (552)
Q Consensus       136 ~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~  214 (552)
                      .|++|++++|.++.+|. ++.+++|++|++++|.+.. |..++++++|++|++++|.++.+| .++++++|++|++++|.
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~Ls~N~  519 (567)
T 1dce_A          442 DVRVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCNNR  519 (567)
T ss_dssp             TCSEEECTTSCCSSCCC-GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSSC
T ss_pred             CceEEEecCCCCCCCcC-ccccccCcEeecCcccccccchhhhcCCCCCEEECCCCCCCCCc-ccCCCCCCcEEECCCCC
Confidence            58999999999988887 9999999999999999888 889999999999999999999988 89999999999999987


Q ss_pred             CCCcc--CcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEc
Q 040303          215 RLQVI--PPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL  269 (552)
Q Consensus       215 ~~~~~--~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l  269 (552)
                       +..+  |.. ++.+++|+.|+++++....       ........+..+++|+.|++
T Consensus       520 -l~~~~~p~~-l~~l~~L~~L~L~~N~l~~-------~~~~~~~l~~~lp~L~~L~l  567 (567)
T 1dce_A          520 -LQQSAAIQP-LVSCPRLVLLNLQGNSLCQ-------EEGIQERLAEMLPSVSSILT  567 (567)
T ss_dssp             -CCSSSTTGG-GGGCTTCCEEECTTSGGGG-------SSSCTTHHHHHCTTCSEEEC
T ss_pred             -CCCCCCcHH-HhcCCCCCEEEecCCcCCC-------CccHHHHHHHHCcccCccCC
Confidence             6666  555 8999999999998554311       11112233455788888864

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

Probab=99.27  E-value=4e-12  Score=136.68  Aligned_cols=112  Identities=24%  Similarity=0.262  Sum_probs=102.2

Q ss_pred             CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC-hhhhcCCCCccEE
Q 040303          107 ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD-IAVIGELKNLEIL  185 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~-~~~i~~L~~L~~L  185 (552)
                      .++.|++|++++|...  .+|..++ ++++|++|+|++|.+..+|..+++|++|++|+|++|.+.. |..|++|.+|++|
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~~L  298 (727)
T 4b8c_D          222 DDQLWHALDLSNLQIF--NISANIF-KYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYF  298 (727)
T ss_dssp             CCCCCCEEECTTSCCS--CCCGGGG-GCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCSEE
T ss_pred             cCCCCcEEECCCCCCC--CCChhhc-CCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCcCCccChhhcCCCCCCEE
Confidence            7899999999998876  7888874 8999999999999999999999999999999999999888 8899999999999


Q ss_pred             EecCCcCcccchhhccCCCCCEEeccCCCCCCccCc
Q 040303          186 CLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPP  221 (552)
Q Consensus       186 ~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~  221 (552)
                      ++++|.+..+|.+++++++|++|++++|...+.+|.
T Consensus       299 ~L~~N~l~~lp~~~~~l~~L~~L~L~~N~l~~~~p~  334 (727)
T 4b8c_D          299 YFFDNMVTTLPWEFGNLCNLQFLGVEGNPLEKQFLK  334 (727)
T ss_dssp             ECCSSCCCCCCSSTTSCTTCCCEECTTSCCCSHHHH
T ss_pred             ECCCCCCCccChhhhcCCCccEEeCCCCccCCCChH
Confidence            999999999999999999999999999984444443

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

Probab=99.26  E-value=4.4e-11  Score=105.05  Aligned_cols=121  Identities=24%  Similarity=0.418  Sum_probs=82.3

Q ss_pred             eEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccch-hcCCCCCcEEEccCCCCCC-h-hhhcCCCCccEEEec
Q 040303          112 QLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS-LGLLTNLRTLCLYCSELQD-I-AVIGELKNLEILCLR  188 (552)
Q Consensus       112 r~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~-i~~l~~L~~L~l~~~~~~~-~-~~i~~L~~L~~L~l~  188 (552)
                      +.+++.++...  .+|..+   .++|++|++++|.+..+|.. ++.+++|++|++++|.+.. + ..+.++++|++|+++
T Consensus        10 ~~l~~~~~~l~--~~p~~~---~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~   84 (177)
T 2o6r_A           10 TEIRCNSKGLT--SVPTGI---PSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLH   84 (177)
T ss_dssp             TEEECCSSCCS--SCCTTC---CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CEEEecCCCCc--cCCCCC---CCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECC
Confidence            45666655443  566533   36778888888777766654 5777788888888777766 3 446777788888887


Q ss_pred             CCcCcccchh-hccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcccc
Q 040303          189 GSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSF  238 (552)
Q Consensus       189 ~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~  238 (552)
                      +|.++.+|.. +..+++|++|++++|. +..+|...+..+++|++|+++++
T Consensus        85 ~N~l~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~l~~N  134 (177)
T 2o6r_A           85 ENKLQSLPNGVFDKLTQLKELALDTNQ-LKSVPDGIFDRLTSLQKIWLHTN  134 (177)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSS
T ss_pred             CCCccccCHHHhhCCcccCEEECcCCc-ceEeCHHHhcCCcccCEEEecCC
Confidence            7777776654 5677777888777765 56666654566777777776633

>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=99.26  E-value=2e-11  Score=127.19  Aligned_cols=190  Identities=20%  Similarity=0.217  Sum_probs=135.9

Q ss_pred             cccEEEeecCCCcccCCCcc-CCCCceEEEeecCCC-----------CCcccChhHhhCCCCccEEE-eeccccccccc-
Q 040303           87 FYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKS-----------SLITLPDNFFRKLTQVRVLD-LTYMHLSLLPS-  152 (552)
Q Consensus        87 ~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~-----------~~~~~~~~~~~~l~~Lr~L~-l~~~~~~~lp~-  152 (552)
                      ++++|++++|.+.. +|... .+++|+.|++.++..           .....++..++.+++|+.|+ ++.+.+..++. 
T Consensus       350 ~L~~L~Ls~n~L~~-Lp~~i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~~l~~l~~L~~L~~l~~n~~~~L~~l  428 (567)
T 1dce_A          350 QLFRCELSVEKSTV-LQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSK  428 (567)
T ss_dssp             TSSSCCCCHHHHHH-HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHH
T ss_pred             cceeccCChhhHHh-hHHHHHHHHHHHHhccccchhhhhHHHHHHhcccccCCHHHHHHHHhcccCcchhhcccchhhhh
Confidence            34445555555443 44322 555666665533310           01123334457888899998 66654443332 


Q ss_pred             -----hhcC--CCCCcEEEccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCccccc
Q 040303          153 -----SLGL--LTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLS  225 (552)
Q Consensus       153 -----~i~~--l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~  225 (552)
                           .+..  ...|++|++++|.+...+.++++++|++|++++|.++.+|..++++++|++|++++|. +..+| . ++
T Consensus       429 ~l~~n~i~~l~~~~L~~L~Ls~n~l~~lp~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~-l~~lp-~-l~  505 (567)
T 1dce_A          429 FLLENSVLKMEYADVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNA-LENVD-G-VA  505 (567)
T ss_dssp             HHHHHHHHHHHHTTCSEEECTTSCCSSCCCGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSC-CCCCG-G-GT
T ss_pred             hhhcccccccCccCceEEEecCCCCCCCcCccccccCcEeecCcccccccchhhhcCCCCCEEECCCCC-CCCCc-c-cC
Confidence                 1211  1369999999999988434999999999999999999999999999999999999987 77788 4 89


Q ss_pred             CCCCCcEEEccccccchhhhhhhcccccC-hhhhcCCCCCcEEEccCCCCCcCCCcc-----cccCCceEE
Q 040303          226 NLSHLEELYIRSFNKWEVEVEAAGVKNAS-LEELKRLPNLTTLELCIPDVNTLPKGL-----FFEKLERYR  290 (552)
Q Consensus       226 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~-~~~l~~l~~L~~L~l~~~~~~~~p~~~-----~l~~L~~L~  290 (552)
                      .+++|++|+++++..          .... +..++.+++|+.|++++|.+..+|...     .+++|+.|.
T Consensus       506 ~l~~L~~L~Ls~N~l----------~~~~~p~~l~~l~~L~~L~L~~N~l~~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          506 NLPRLQELLLCNNRL----------QQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             TCSSCCEEECCSSCC----------CSSSTTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEEE
T ss_pred             CCCCCcEEECCCCCC----------CCCCCcHHHhcCCCCCEEEecCCcCCCCccHHHHHHHHCcccCccC
Confidence            999999999985543          1112 678999999999999999988887654     377888774

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=99.26  E-value=2.1e-13  Score=122.46  Aligned_cols=102  Identities=25%  Similarity=0.290  Sum_probs=47.4

Q ss_pred             hCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEec
Q 040303          132 RKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDL  210 (552)
Q Consensus       132 ~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l  210 (552)
                      ..+++|++|++++|.+..+| .++.+++|++|++++|.+.. |..+..+++|++|++++|.++.+| .+..+++|++|++
T Consensus        45 ~~l~~L~~L~ls~n~l~~l~-~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~~N~l~~l~-~~~~l~~L~~L~l  122 (198)
T 1ds9_A           45 STLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLS-GIEKLVNLRVLYM  122 (198)
T ss_dssp             HHTTTCSEEECSEEEESCCC-CHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEEEEECCCHH-HHHHHHHSSEEEE
T ss_pred             hcCCCCCEEECCCCCCcccc-ccccCCCCCEEECCCCCcccccchhhcCCcCCEEECcCCcCCcCC-ccccCCCCCEEEC
Confidence            44455555555555444444 44444555555555544444 333444444555555555444443 3444445555555


Q ss_pred             cCCCCCCccCc-ccccCCCCCcEEEcc
Q 040303          211 RDCDRLQVIPP-NVLSNLSHLEELYIR  236 (552)
Q Consensus       211 ~~~~~~~~~~~-~~l~~l~~L~~L~l~  236 (552)
                      ++|. +..++. ..+..+++|++|++.
T Consensus       123 ~~N~-i~~~~~~~~l~~l~~L~~L~l~  148 (198)
T 1ds9_A          123 SNNK-ITNWGEIDKLAALDKLEDLLLA  148 (198)
T ss_dssp             SEEE-CCCHHHHHHHTTTTTCSEEEEC
T ss_pred             CCCc-CCchhHHHHHhcCCCCCEEEec
Confidence            4443 333322 113444555555544

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=99.25  E-value=1e-13  Score=124.42  Aligned_cols=125  Identities=18%  Similarity=0.239  Sum_probs=104.7

Q ss_pred             cCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCChhhhcCCCCccEE
Q 040303          106 LECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEIL  185 (552)
Q Consensus       106 ~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L  185 (552)
                      ..+++|++|++++|...  .+| . +.++++|++|++++|.+..+|..++.+++|++|++++|.+..++.+.++++|++|
T Consensus        45 ~~l~~L~~L~ls~n~l~--~l~-~-~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~~N~l~~l~~~~~l~~L~~L  120 (198)
T 1ds9_A           45 STLKACKHLALSTNNIE--KIS-S-LSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLSGIEKLVNLRVL  120 (198)
T ss_dssp             HHTTTCSEEECSEEEES--CCC-C-HHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEEEEECCCHHHHHHHHHSSEE
T ss_pred             hcCCCCCEEECCCCCCc--ccc-c-cccCCCCCEEECCCCCcccccchhhcCCcCCEEECcCCcCCcCCccccCCCCCEE
Confidence            37899999999998765  577 3 5889999999999999999999888899999999999999985579999999999


Q ss_pred             EecCCcCcccch--hhccCCCCCEEeccCCCCCCccCc---------ccccCCCCCcEEE
Q 040303          186 CLRGSYIEQLPV--EIGQLTRLRSLDLRDCDRLQVIPP---------NVLSNLSHLEELY  234 (552)
Q Consensus       186 ~l~~~~l~~lp~--~i~~l~~L~~L~l~~~~~~~~~~~---------~~l~~l~~L~~L~  234 (552)
                      ++++|.+..+|.  .+..+++|++|++++|......|.         ..+..+++|+.|+
T Consensus       121 ~l~~N~i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~~l~~L~~Ld  180 (198)
T 1ds9_A          121 YMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKLD  180 (198)
T ss_dssp             EESEEECCCHHHHHHHTTTTTCSEEEECSCHHHHHHHTTTTHHHHHHHHHHHCSSCSEEC
T ss_pred             ECCCCcCCchhHHHHHhcCCCCCEEEecCCccccccccccchHHHHHHHHHhCCCcEEEC
Confidence            999999998765  689999999999999873222221         2256778888877

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

Probab=99.15  E-value=1.7e-10  Score=100.80  Aligned_cols=80  Identities=24%  Similarity=0.319  Sum_probs=37.6

Q ss_pred             CCccEEEeeccccccc-cchhcCCCCCcEEEccCCCCCC-hh-hhcCCCCccEEEecCCcCcccchh-hccCCCCCEEec
Q 040303          135 TQVRVLDLTYMHLSLL-PSSLGLLTNLRTLCLYCSELQD-IA-VIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDL  210 (552)
Q Consensus       135 ~~Lr~L~l~~~~~~~l-p~~i~~l~~L~~L~l~~~~~~~-~~-~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l  210 (552)
                      ++|++|++++|.+..+ |..++++++|++|++++|.+.. |. .+.++++|++|++++|.++.+|.. +..+++|++|++
T Consensus        33 ~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L  112 (174)
T 2r9u_A           33 TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNHLKSIPRGAFDNLKSLTHIYL  112 (174)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEEC
T ss_pred             CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCccceeCHHHhccccCCCEEEe
Confidence            4455555555554443 3334445555555555554444 22 234445555555555544444443 444444555544


Q ss_pred             cCCC
Q 040303          211 RDCD  214 (552)
Q Consensus       211 ~~~~  214 (552)
                      ++|.
T Consensus       113 ~~N~  116 (174)
T 2r9u_A          113 YNNP  116 (174)
T ss_dssp             CSSC
T ss_pred             CCCC
Confidence            4443

>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=99.14  E-value=1.9e-10  Score=100.05  Aligned_cols=96  Identities=27%  Similarity=0.444  Sum_probs=53.6

Q ss_pred             cEEEeeccccccccchhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEeccCCC
Q 040303          138 RVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCD  214 (552)
Q Consensus       138 r~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~  214 (552)
                      ++++++++.++.+|..+.  .+|++|++++|.+..  +..+.++.+|++|++++|+++.+|.. +.++++|++|++++|.
T Consensus        12 ~~l~~s~n~l~~ip~~~~--~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~   89 (170)
T 3g39_A           12 TTVDCSGKSLASVPTGIP--TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQ   89 (170)
T ss_dssp             TEEECTTSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CEEEeCCCCcCccCccCC--CCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCCc
Confidence            455566655555555442  556666666665554  34455666666666666666555554 3556666666666554


Q ss_pred             CCCccCcccccCCCCCcEEEcc
Q 040303          215 RLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       215 ~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                       +..++...+..+++|+.|+++
T Consensus        90 -l~~~~~~~~~~l~~L~~L~L~  110 (170)
T 3g39_A           90 -LKSIPRGAFDNLKSLTHIWLL  110 (170)
T ss_dssp             -CCCCCTTTTTTCTTCCEEECC
T ss_pred             -cCEeCHHHhcCCCCCCEEEeC
Confidence             445554434555555555554

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

Probab=99.11  E-value=3.2e-10  Score=99.02  Aligned_cols=110  Identities=20%  Similarity=0.210  Sum_probs=92.8

Q ss_pred             ccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccch-hcCCCCCcEEEcc
Q 040303           88 YTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS-LGLLTNLRTLCLY  166 (552)
Q Consensus        88 lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~-i~~l~~L~~L~l~  166 (552)
                      .+.++++++.+.. +|... .++|+.|++++|.+.  .++...|.++++|++|++++|.+..+|.. ++++++|++|+++
T Consensus        14 ~~~l~~~~n~l~~-iP~~~-~~~L~~L~Ls~N~l~--~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~   89 (174)
T 2r9u_A           14 QTLVNCQNIRLAS-VPAGI-PTDKQRLWLNNNQIT--KLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLN   89 (174)
T ss_dssp             SSEEECCSSCCSS-CCSCC-CTTCSEEECCSSCCC--CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CcEEEeCCCCCCc-cCCCc-CCCCcEEEeCCCCcc--ccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECC
Confidence            3678999888877 77544 389999999999876  67666679999999999999999999876 5899999999999


Q ss_pred             CCCCCC-hh-hhcCCCCccEEEecCCcCcccchhhcc
Q 040303          167 CSELQD-IA-VIGELKNLEILCLRGSYIEQLPVEIGQ  201 (552)
Q Consensus       167 ~~~~~~-~~-~i~~L~~L~~L~l~~~~l~~lp~~i~~  201 (552)
                      +|.+.. |. .+.++++|++|++++|.+...|..+..
T Consensus        90 ~N~l~~l~~~~~~~l~~L~~L~L~~N~~~c~~~~~~~  126 (174)
T 2r9u_A           90 DNHLKSIPRGAFDNLKSLTHIYLYNNPWDCECRDIMY  126 (174)
T ss_dssp             SSCCCCCCTTTTTTCTTCSEEECCSSCBCTTBGGGHH
T ss_pred             CCccceeCHHHhccccCCCEEEeCCCCcccccccHHH
Confidence            999988 54 599999999999999988877665443

>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=99.05  E-value=1e-09  Score=95.43  Aligned_cols=80  Identities=26%  Similarity=0.306  Sum_probs=46.7

Q ss_pred             CCccEEEeeccccccc-cchhcCCCCCcEEEccCCCCCC-h-hhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEec
Q 040303          135 TQVRVLDLTYMHLSLL-PSSLGLLTNLRTLCLYCSELQD-I-AVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDL  210 (552)
Q Consensus       135 ~~Lr~L~l~~~~~~~l-p~~i~~l~~L~~L~l~~~~~~~-~-~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l  210 (552)
                      +.|++|++++|.+..+ |..++++.+|++|++++|.+.. + ..+.++++|++|++++|+++.+|.. +.++++|++|++
T Consensus        30 ~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  109 (170)
T 3g39_A           30 TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQLKSIPRGAFDNLKSLTHIWL  109 (170)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCCccCEeCHHHhcCCCCCCEEEe
Confidence            4556666666655554 3345566666666666666555 2 3345666666666666666655553 556666666666


Q ss_pred             cCCC
Q 040303          211 RDCD  214 (552)
Q Consensus       211 ~~~~  214 (552)
                      ++|.
T Consensus       110 ~~N~  113 (170)
T 3g39_A          110 LNNP  113 (170)
T ss_dssp             CSSC
T ss_pred             CCCC
Confidence            6654

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=99.00  E-value=1.2e-09  Score=106.25  Aligned_cols=167  Identities=17%  Similarity=0.114  Sum_probs=111.3

Q ss_pred             CCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEEccCCCC-------C--------
Q 040303          108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSEL-------Q--------  171 (552)
Q Consensus       108 ~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~~~~~-------~--------  171 (552)
                      +++|+.+.+.. ...  .++...|.++.+|+.+++.++.+..++. .+.++.++.++.......       .        
T Consensus       100 ~~~L~~l~L~~-~i~--~I~~~aF~~~~~L~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~  176 (329)
T 3sb4_A          100 KQTLEKVILSE-KIK--NIEDAAFKGCDNLKICQIRKKTAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGE  176 (329)
T ss_dssp             CTTCCC-CBCT-TCC--EECTTTTTTCTTCCEEEBCCSSCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESC
T ss_pred             cCCCcEEECCc-ccc--chhHHHhhcCcccceEEcCCCCccccchhhhcCCCceEEecCcchhhhhcccccccccccccc
Confidence            77888887776 332  6777777888888888888776655433 355555555555433100       0        


Q ss_pred             ------------C----------------------------hhhh-cCCCCccEEEecCCcCcccchh-hccCCCCCEEe
Q 040303          172 ------------D----------------------------IAVI-GELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLD  209 (552)
Q Consensus       172 ------------~----------------------------~~~i-~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~  209 (552)
                                  .                            ...+ ..+.+|++++++++.++.+|.. +..+++|+.++
T Consensus       177 ~L~~~i~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~  256 (329)
T 3sb4_A          177 PLETTIQVGAMGKLEDEIMKAGLQPRDINFLTIEGKLDNADFKLIRDYMPNLVSLDISKTNATTIPDFTFAQKKYLLKIK  256 (329)
T ss_dssp             CCEEEEEECTTCCHHHHHHHTTCCGGGCSEEEEEECCCHHHHHHHHHHCTTCCEEECTTBCCCEECTTTTTTCTTCCEEE
T ss_pred             ccceeEEecCCCcHHHHHhhcccCccccceEEEeeeecHHHHHHHHHhcCCCeEEECCCCCcceecHhhhhCCCCCCEEE
Confidence                        0                            0000 1267888888888888888765 77788888888


Q ss_pred             ccCCCCCCccCcccccCCCCCc-EEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcc--cccCC
Q 040303          210 LRDCDRLQVIPPNVLSNLSHLE-ELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL--FFEKL  286 (552)
Q Consensus       210 l~~~~~~~~~~~~~l~~l~~L~-~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~--~l~~L  286 (552)
                      +..+  +..++...+..+++|+ .+.+.+...           .-....+.++++|+.+++..+.+..++...  .+++|
T Consensus       257 l~~n--i~~I~~~aF~~~~~L~~~l~l~~~l~-----------~I~~~aF~~c~~L~~l~l~~n~i~~I~~~aF~~~~~L  323 (329)
T 3sb4_A          257 LPHN--LKTIGQRVFSNCGRLAGTLELPASVT-----------AIEFGAFMGCDNLRYVLATGDKITTLGDELFGNGVPS  323 (329)
T ss_dssp             CCTT--CCEECTTTTTTCTTCCEEEEECTTCC-----------EECTTTTTTCTTEEEEEECSSCCCEECTTTTCTTCCC
T ss_pred             CCcc--cceehHHHhhCChhccEEEEEcccce-----------EEchhhhhCCccCCEEEeCCCccCccchhhhcCCcch
Confidence            8875  6778877788888888 888764211           113456788888888888888888887764  56677


Q ss_pred             ceEE
Q 040303          287 ERYR  290 (552)
Q Consensus       287 ~~L~  290 (552)
                      +.+.
T Consensus       324 ~~ly  327 (329)
T 3sb4_A          324 KLIY  327 (329)
T ss_dssp             CEEE
T ss_pred             hhhc
Confidence            6654

>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=98.93  E-value=7.4e-09  Score=100.58  Aligned_cols=103  Identities=16%  Similarity=0.151  Sum_probs=77.0

Q ss_pred             CCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccc-eEEEecCCchhhhhcccccc
Q 040303          409 LPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQ-HLEIDECPILEEIIVIDQQE  487 (552)
Q Consensus       409 ~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~-~L~i~~c~~l~~~~~~~~~~  487 (552)
                      +++|+.++|.+++++.+......    .+++|++|++.+  +++.++. ..+..+++|+ .+.+.+  +++.+.. .   
T Consensus       225 ~~~L~~l~L~~n~i~~I~~~aF~----~~~~L~~l~l~~--ni~~I~~-~aF~~~~~L~~~l~l~~--~l~~I~~-~---  291 (329)
T 3sb4_A          225 MPNLVSLDISKTNATTIPDFTFA----QKKYLLKIKLPH--NLKTIGQ-RVFSNCGRLAGTLELPA--SVTAIEF-G---  291 (329)
T ss_dssp             CTTCCEEECTTBCCCEECTTTTT----TCTTCCEEECCT--TCCEECT-TTTTTCTTCCEEEEECT--TCCEECT-T---
T ss_pred             cCCCeEEECCCCCcceecHhhhh----CCCCCCEEECCc--ccceehH-HHhhCChhccEEEEEcc--cceEEch-h---
Confidence            68899999999888888776655    788999999987  4888876 4578899999 999987  5666521 1   


Q ss_pred             ccccccCCccEEEeccccccccccCCcccccCCCccEEEe
Q 040303          488 RKNVVFPQLQFLKMVDLEKLTSFCTGDVHIEFPTLETLEV  527 (552)
Q Consensus       488 ~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i  527 (552)
                       .-..+++|+.+.+.+. +++.++...+. .+++|+.++.
T Consensus       292 -aF~~c~~L~~l~l~~n-~i~~I~~~aF~-~~~~L~~ly~  328 (329)
T 3sb4_A          292 -AFMGCDNLRYVLATGD-KITTLGDELFG-NGVPSKLIYK  328 (329)
T ss_dssp             -TTTTCTTEEEEEECSS-CCCEECTTTTC-TTCCCCEEEC
T ss_pred             -hhhCCccCCEEEeCCC-ccCccchhhhc-CCcchhhhcc
Confidence             2223788999988653 78888766553 6777777763

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.73  E-value=3.1e-09  Score=104.68  Aligned_cols=129  Identities=17%  Similarity=0.134  Sum_probs=60.9

Q ss_pred             cCcccEEEeecCCCcccCC----Ccc--CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccc-----ccch
Q 040303           85 LKFYTSIVLHDSKMNVLLP----EVL--ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSL-----LPSS  153 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~~~----~~~--~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~-----lp~~  153 (552)
                      .+.++.|++++|.+...-.    ...  ..++|+.|++++|.... .....+...+++|++|++++|.+..     +...
T Consensus        71 ~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~-~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~  149 (372)
T 3un9_A           71 LSSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDP-AGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDL  149 (372)
T ss_dssp             HTTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCH-HHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHH
T ss_pred             HhhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCH-HHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHH
Confidence            4556777777766543111    111  12456666666654321 1111222334456666666665542     1112


Q ss_pred             h-cCCCCCcEEEccCCCCCC------hhhhcCCCCccEEEecCCcCcc-----cchhhccCCCCCEEeccCCC
Q 040303          154 L-GLLTNLRTLCLYCSELQD------IAVIGELKNLEILCLRGSYIEQ-----LPVEIGQLTRLRSLDLRDCD  214 (552)
Q Consensus       154 i-~~l~~L~~L~l~~~~~~~------~~~i~~L~~L~~L~l~~~~l~~-----lp~~i~~l~~L~~L~l~~~~  214 (552)
                      + ....+|++|++++|.+..      ...+...++|++|++++|.+..     ++..+...++|++|++++|.
T Consensus       150 L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~  222 (372)
T 3un9_A          150 LLHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNG  222 (372)
T ss_dssp             HHSTTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSC
T ss_pred             HHhcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCC
Confidence            2 234556666666665543      1233455556666665555441     23334445555555555554

>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=98.73  E-value=3e-08  Score=97.13  Aligned_cols=97  Identities=23%  Similarity=0.128  Sum_probs=65.2

Q ss_pred             EEeecC-CCCCcccChhHhhCCCCccEEEeec-ccccccc-chhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEec
Q 040303          114 LSLWTE-KSSLITLPDNFFRKLTQVRVLDLTY-MHLSLLP-SSLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCLR  188 (552)
Q Consensus       114 L~l~~~-~~~~~~~~~~~~~~l~~Lr~L~l~~-~~~~~lp-~~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~  188 (552)
                      +++.++ ...  .+|.  +..+.+|++|+|++ |.+..+| ..+++|.+|++|+|++|.+..  |..|.+|++|++|+|+
T Consensus        13 v~~~~~n~l~--~ip~--l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~   88 (347)
T 2ifg_A           13 LRCTRDGALD--SLHH--LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLS   88 (347)
T ss_dssp             EECCSSCCCT--TTTT--SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECC
T ss_pred             EEcCCCCCCC--ccCC--CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCC
Confidence            344444 333  5666  46777777777775 7777665 457777777777777777766  4566777777777777


Q ss_pred             CCcCcccchhhccCCCCCEEeccCCC
Q 040303          189 GSYIEQLPVEIGQLTRLRSLDLRDCD  214 (552)
Q Consensus       189 ~~~l~~lp~~i~~l~~L~~L~l~~~~  214 (552)
                      +|++..+|..+.....|++|++.+|.
T Consensus        89 ~N~l~~~~~~~~~~~~L~~l~l~~N~  114 (347)
T 2ifg_A           89 FNALESLSWKTVQGLSLQELVLSGNP  114 (347)
T ss_dssp             SSCCSCCCSTTTCSCCCCEEECCSSC
T ss_pred             CCccceeCHHHcccCCceEEEeeCCC
Confidence            77777777665444447777777665

>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=98.72  E-value=2.8e-08  Score=97.27  Aligned_cols=99  Identities=18%  Similarity=0.215  Sum_probs=50.4

Q ss_pred             EEeecC-CCcccCCCccCCCCceEEEeec-CCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEEccC
Q 040303           91 IVLHDS-KMNVLLPEVLECPQLQLLSLWT-EKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYC  167 (552)
Q Consensus        91 L~l~~~-~~~~~~~~~~~~~~Lr~L~l~~-~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~~  167 (552)
                      ++.+++ .+.. +|.+..+++|+.|++++ |.+.  .++...|.++.+|++|+|++|.+..+|. .+++|++|++|+|++
T Consensus        13 v~~~~~n~l~~-ip~l~~~~~L~~L~l~~~n~l~--~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~   89 (347)
T 2ifg_A           13 LRCTRDGALDS-LHHLPGAENLTELYIENQQHLQ--HLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSF   89 (347)
T ss_dssp             EECCSSCCCTT-TTTSCSCSCCSEEECCSCSSCC--EECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCS
T ss_pred             EEcCCCCCCCc-cCCCCCCCCeeEEEccCCCCCC--CcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCC
Confidence            344444 4444 45422455556666553 4433  4554444555566666666655554433 345556666666665


Q ss_pred             CCCCC-hh-hhcCCCCccEEEecCCcCc
Q 040303          168 SELQD-IA-VIGELKNLEILCLRGSYIE  193 (552)
Q Consensus       168 ~~~~~-~~-~i~~L~~L~~L~l~~~~l~  193 (552)
                      |.+.. |. .+..+. |++|++.+|.+.
T Consensus        90 N~l~~~~~~~~~~~~-L~~l~l~~N~~~  116 (347)
T 2ifg_A           90 NALESLSWKTVQGLS-LQELVLSGNPLH  116 (347)
T ss_dssp             SCCSCCCSTTTCSCC-CCEEECCSSCCC
T ss_pred             CccceeCHHHcccCC-ceEEEeeCCCcc
Confidence            55554 32 223333 556665555444

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.72  E-value=6.3e-07  Score=89.04  Aligned_cols=163  Identities=16%  Similarity=0.160  Sum_probs=111.0

Q ss_pred             CCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEEccCCCCCC--hhhhcCCCCccE
Q 040303          108 CPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSELQD--IAVIGELKNLEI  184 (552)
Q Consensus       108 ~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~  184 (552)
                      +..++.+.+...   +..++...|.+. +|+.+.+..+ ++.++. .+.+ .+|+.+.+.. .++.  ...+.++.+|+.
T Consensus       112 ~~~l~~i~ip~~---i~~I~~~aF~~~-~L~~i~l~~~-i~~I~~~aF~~-~~L~~i~lp~-~l~~I~~~aF~~c~~L~~  184 (401)
T 4fdw_A          112 LKGYNEIILPNS---VKSIPKDAFRNS-QIAKVVLNEG-LKSIGDMAFFN-STVQEIVFPS-TLEQLKEDIFYYCYNLKK  184 (401)
T ss_dssp             CSSCSEEECCTT---CCEECTTTTTTC-CCSEEECCTT-CCEECTTTTTT-CCCCEEECCT-TCCEECSSTTTTCTTCCE
T ss_pred             cCCccEEEECCc---cCEehHhhcccC-CccEEEeCCC-ccEECHHhcCC-CCceEEEeCC-CccEehHHHhhCcccCCe
Confidence            456666666542   236677777775 6999998765 565554 3444 4799999876 4544  467889999999


Q ss_pred             EEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCC
Q 040303          185 LCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNL  264 (552)
Q Consensus       185 L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L  264 (552)
                      +++..+.++.+|.+.-...+|+.+.+..+  +..++...+.++++|+.+.+......           -....+.+ .+|
T Consensus       185 l~l~~n~l~~I~~~aF~~~~L~~l~lp~~--l~~I~~~aF~~~~~L~~l~l~~~l~~-----------I~~~aF~~-~~L  250 (401)
T 4fdw_A          185 ADLSKTKITKLPASTFVYAGIEEVLLPVT--LKEIGSQAFLKTSQLKTIEIPENVST-----------IGQEAFRE-SGI  250 (401)
T ss_dssp             EECTTSCCSEECTTTTTTCCCSEEECCTT--CCEECTTTTTTCTTCCCEECCTTCCE-----------ECTTTTTT-CCC
T ss_pred             eecCCCcceEechhhEeecccCEEEeCCc--hheehhhHhhCCCCCCEEecCCCccC-----------cccccccc-CCc
Confidence            99998889988887666789999998753  77888777888999999988632210           01233444 578


Q ss_pred             cEEEccCCCCCcCCCcc--cccCCceEEEE
Q 040303          265 TTLELCIPDVNTLPKGL--FFEKLERYRIC  292 (552)
Q Consensus       265 ~~L~l~~~~~~~~p~~~--~l~~L~~L~l~  292 (552)
                      +.+.+. +.+..++...  .+++|+.+.+.
T Consensus       251 ~~i~lp-~~i~~I~~~aF~~c~~L~~l~l~  279 (401)
T 4fdw_A          251 TTVKLP-NGVTNIASRAFYYCPELAEVTTY  279 (401)
T ss_dssp             SEEEEE-TTCCEECTTTTTTCTTCCEEEEE
T ss_pred             cEEEeC-CCccEEChhHhhCCCCCCEEEeC
Confidence            888873 4455555543  55566666553

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.67  E-value=6.9e-07  Score=88.75  Aligned_cols=143  Identities=13%  Similarity=0.151  Sum_probs=74.5

Q ss_pred             CceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccccc-chhcCCCCCcEEEccCCCCCC-h-hhhcCCCCccEEE
Q 040303          110 QLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLP-SSLGLLTNLRTLCLYCSELQD-I-AVIGELKNLEILC  186 (552)
Q Consensus       110 ~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp-~~i~~l~~L~~L~l~~~~~~~-~-~~i~~L~~L~~L~  186 (552)
                      +|+.+.+..+   +..++...|.+. .|+.+.+.. .+..++ ..+.++.+|+.+++..+.+.. + ..+. ..+|+.+.
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~  209 (401)
T 4fdw_A          136 QIAKVVLNEG---LKSIGDMAFFNS-TVQEIVFPS-TLEQLKEDIFYYCYNLKKADLSKTKITKLPASTFV-YAGIEEVL  209 (401)
T ss_dssp             CCSEEECCTT---CCEECTTTTTTC-CCCEEECCT-TCCEECSSTTTTCTTCCEEECTTSCCSEECTTTTT-TCCCSEEE
T ss_pred             CccEEEeCCC---ccEECHHhcCCC-CceEEEeCC-CccEehHHHhhCcccCCeeecCCCcceEechhhEe-ecccCEEE
Confidence            5666666543   224555555553 466666654 344443 345666666666666665554 2 2333 45666666


Q ss_pred             ecCCcCcccchh-hccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCc
Q 040303          187 LRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLT  265 (552)
Q Consensus       187 l~~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~  265 (552)
                      +..+ ++.++.. +..+++|+.+.+..+  +..++...+.. .+|+.+.+.+...           .-....+.++++|+
T Consensus       210 lp~~-l~~I~~~aF~~~~~L~~l~l~~~--l~~I~~~aF~~-~~L~~i~lp~~i~-----------~I~~~aF~~c~~L~  274 (401)
T 4fdw_A          210 LPVT-LKEIGSQAFLKTSQLKTIEIPEN--VSTIGQEAFRE-SGITTVKLPNGVT-----------NIASRAFYYCPELA  274 (401)
T ss_dssp             CCTT-CCEECTTTTTTCTTCCCEECCTT--CCEECTTTTTT-CCCSEEEEETTCC-----------EECTTTTTTCTTCC
T ss_pred             eCCc-hheehhhHhhCCCCCCEEecCCC--ccCcccccccc-CCccEEEeCCCcc-----------EEChhHhhCCCCCC
Confidence            6533 4444432 455666666666542  45555444444 5566666542211           01223455666666


Q ss_pred             EEEccCCC
Q 040303          266 TLELCIPD  273 (552)
Q Consensus       266 ~L~l~~~~  273 (552)
                      .+.+..+.
T Consensus       275 ~l~l~~~~  282 (401)
T 4fdw_A          275 EVTTYGST  282 (401)
T ss_dssp             EEEEESSC
T ss_pred             EEEeCCcc
Confidence            66665544

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.63  E-value=4.2e-09  Score=103.75  Aligned_cols=161  Identities=17%  Similarity=0.162  Sum_probs=111.7

Q ss_pred             CCCceEEEeecCCCCCcc---cChhHhhCCCCccEEEeecccccc--ccchhcCCCCCcEEEccCCCCCC--hhhh----
Q 040303          108 CPQLQLLSLWTEKSSLIT---LPDNFFRKLTQVRVLDLTYMHLSL--LPSSLGLLTNLRTLCLYCSELQD--IAVI----  176 (552)
Q Consensus       108 ~~~Lr~L~l~~~~~~~~~---~~~~~~~~l~~Lr~L~l~~~~~~~--lp~~i~~l~~L~~L~l~~~~~~~--~~~i----  176 (552)
                      .+.|+.|++++|......   +...+....++|++|++++|.+..  +..-...+.+|++|++++|.+.+  ...+    
T Consensus        71 ~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L  150 (372)
T 3un9_A           71 LSSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLL  150 (372)
T ss_dssp             HTTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHH
T ss_pred             HhhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHH
Confidence            568999999998764211   111111133799999999998863  22223456789999999999876  3333    


Q ss_pred             -cCCCCccEEEecCCcCcc-----cchhhccCCCCCEEeccCCCCCCc-----cCcccccCCCCCcEEEccccccchhhh
Q 040303          177 -GELKNLEILCLRGSYIEQ-----LPVEIGQLTRLRSLDLRDCDRLQV-----IPPNVLSNLSHLEELYIRSFNKWEVEV  245 (552)
Q Consensus       177 -~~L~~L~~L~l~~~~l~~-----lp~~i~~l~~L~~L~l~~~~~~~~-----~~~~~l~~l~~L~~L~l~~~~~~~~~~  245 (552)
                       ....+|++|++++|.++.     ++..+..+++|++|++++|. ++.     ++.. +...++|++|+++++...... 
T Consensus       151 ~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~-l~~~g~~~L~~~-L~~~~~L~~L~Ls~N~i~~~g-  227 (372)
T 3un9_A          151 LHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTG-LGDEGLELLAAQ-LDRNRQLQELNVAYNGAGDTA-  227 (372)
T ss_dssp             HSTTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSS-CHHHHHHHHHHH-GGGCSCCCEEECCSSCCCHHH-
T ss_pred             HhcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCC-CCcHHHHHHHHH-HhcCCCcCeEECCCCCCCHHH-
Confidence             356889999999998763     55566788999999999987 443     2333 567789999999865431110 


Q ss_pred             hhhcccccChhhhcCCCCCcEEEccCCCCCc
Q 040303          246 EAAGVKNASLEELKRLPNLTTLELCIPDVNT  276 (552)
Q Consensus       246 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  276 (552)
                           .......+...++|++|++++|.+..
T Consensus       228 -----~~~l~~~L~~~~~L~~L~Ls~N~i~~  253 (372)
T 3un9_A          228 -----ALALARAAREHPSLELLHLYFNELSS  253 (372)
T ss_dssp             -----HHHHHHHHHHCSSCCEEECTTSSCCH
T ss_pred             -----HHHHHHHHHhCCCCCEEeccCCCCCH
Confidence                 11234556778899999999998754

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.48  E-value=1.1e-07  Score=81.45  Aligned_cols=18  Identities=17%  Similarity=0.420  Sum_probs=9.3

Q ss_pred             ccCcceEEEEecCCCccc
Q 040303          436 GIQTLTRLIVYGCGELRC  453 (552)
Q Consensus       436 ~l~~L~~L~i~~C~~L~~  453 (552)
                      .+++|++|++++|..+++
T Consensus        83 ~~~~L~~L~L~~C~~ItD  100 (176)
T 3e4g_A           83 GLQYVEKIRLCKCHYIED  100 (176)
T ss_dssp             TCSCCCEEEEESCTTCCH
T ss_pred             CCCCCCEEEeCCCCccCH
Confidence            445555555555554444

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.45  E-value=6.8e-08  Score=82.72  Aligned_cols=91  Identities=11%  Similarity=0.110  Sum_probs=69.5

Q ss_pred             CcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccc----cCCccEEEeccccccccccCC
Q 040303          438 QTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVV----FPQLQFLKMVDLEKLTSFCTG  513 (552)
Q Consensus       438 ~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~----l~~L~~L~l~~c~~L~~~~~~  513 (552)
                      ..|++|++++|. +++.-- ..+..+++|++|++.+|..+++-.    +.. +..    .++|++|+|++|+++++-...
T Consensus        61 ~~L~~LDLs~~~-Itd~GL-~~L~~~~~L~~L~L~~C~~ItD~g----L~~-L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~  133 (176)
T 3e4g_A           61 YKIQAIDATDSC-IMSIGF-DHMEGLQYVEKIRLCKCHYIEDGC----LER-LSQLENLQKSMLEMEIISCGNVTDKGII  133 (176)
T ss_dssp             CCEEEEEEESCC-CCGGGG-GGGTTCSCCCEEEEESCTTCCHHH----HHH-HHTCHHHHHHCCEEEEESCTTCCHHHHH
T ss_pred             ceEeEEeCcCCC-ccHHHH-HHhcCCCCCCEEEeCCCCccCHHH----HHH-HHhcccccCCCCEEEcCCCCcCCHHHHH
Confidence            469999999997 655422 235789999999999999887641    111 111    357999999999999886555


Q ss_pred             cccccCCCccEEEeecCCCcchh
Q 040303          514 DVHIEFPTLETLEVIRCPEFLLT  536 (552)
Q Consensus       514 ~~~~~~~~L~~L~i~~C~~L~~l  536 (552)
                      .+. .+++|++|++++||+++..
T Consensus       134 ~L~-~~~~L~~L~L~~c~~Itd~  155 (176)
T 3e4g_A          134 ALH-HFRNLKYLFLSDLPGVKEK  155 (176)
T ss_dssp             HGG-GCTTCCEEEEESCTTCCCH
T ss_pred             HHh-cCCCCCEEECCCCCCCCch
Confidence            554 6899999999999999863

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.35  E-value=7.2e-07  Score=86.99  Aligned_cols=183  Identities=15%  Similarity=0.092  Sum_probs=106.3

Q ss_pred             ccCcccEEEeecCCCcc-cC-------CC-ccCCCCceEEEeecCCCC---C----cccChhHhhCCCCccEEEeecccc
Q 040303           84 ALKFYTSIVLHDSKMNV-LL-------PE-VLECPQLQLLSLWTEKSS---L----ITLPDNFFRKLTQVRVLDLTYMHL  147 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~-~~-------~~-~~~~~~Lr~L~l~~~~~~---~----~~~~~~~~~~l~~Lr~L~l~~~~~  147 (552)
                      ...+++.|.+....+.+ ..       .. ...+++|+.|.+......   .    ..-...++..+++|+.|+++++.-
T Consensus       105 ~~~~v~~L~lg~~~~~~~~~~~~~~~L~~s~~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~  184 (362)
T 2ra8_A          105 KLPSLKQITIGXWGYEGEDCSDIADGIVENKEKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNN  184 (362)
T ss_dssp             TGGGCSEEEECCCCSSSCCSHHHHHHHHTTHHHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBT
T ss_pred             CchhcceEEEcccccCCCcHHHHHHHHHHhhhhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCC
Confidence            34567788877544431 11       11 225789999988654221   0    011234567889999999988742


Q ss_pred             ccccchhcCCCCCcEEEccCCCCCC--hhhhc--CCCCccEEEecCC--c------Ccccchhh--ccCCCCCEEeccCC
Q 040303          148 SLLPSSLGLLTNLRTLCLYCSELQD--IAVIG--ELKNLEILCLRGS--Y------IEQLPVEI--GQLTRLRSLDLRDC  213 (552)
Q Consensus       148 ~~lp~~i~~l~~L~~L~l~~~~~~~--~~~i~--~L~~L~~L~l~~~--~------l~~lp~~i--~~l~~L~~L~l~~~  213 (552)
                      ..++. + .+.+|++|++..+.+..  ...+.  ++++|++|+|+.+  .      +..+...+  ..+++|++|++.+|
T Consensus       185 l~l~~-~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~~  262 (362)
T 2ra8_A          185 LSIGK-K-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDA  262 (362)
T ss_dssp             CBCCS-C-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEESC
T ss_pred             ceecc-c-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCCC
Confidence            34444 4 37899999998887754  44554  7899999988532  1      22222222  34678888888877


Q ss_pred             CCCCccCccc--ccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCC
Q 040303          214 DRLQVIPPNV--LSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDV  274 (552)
Q Consensus       214 ~~~~~~~~~~--l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  274 (552)
                      ......+..+  .+.+++|++|+++.+.. ...+     .......+..+++|+.|+++.|.+
T Consensus       263 ~i~~~~~~~la~a~~~~~L~~LdLs~n~L-~d~G-----~~~L~~~L~~l~~L~~L~L~~n~i  319 (362)
T 2ra8_A          263 EEQNVVVEMFLESDILPQLETMDISAGVL-TDEG-----ARLLLDHVDKIKHLKFINMKYNYL  319 (362)
T ss_dssp             TTHHHHHHHHHHCSSGGGCSEEECCSSCC-BHHH-----HHHHHTTHHHHTTCSEEECCSBBC
T ss_pred             CCchHHHHHHHhCccCCCCCEEECCCCCC-ChHH-----HHHHHhhcccCCcceEEECCCCcC
Confidence            6322222211  13567888888874332 1100     011223345677888888887654

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.20  E-value=6.4e-05  Score=74.59  Aligned_cols=34  Identities=15%  Similarity=0.279  Sum_probs=15.6

Q ss_pred             ccCcceEEEEecCCCccccccchhHhhhcccceEEEe
Q 040303          436 GIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEID  472 (552)
Q Consensus       436 ~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~  472 (552)
                      .+.+|+.+.+.+  +++.++. ..+..+++|+.++|.
T Consensus       295 ~~~~L~~i~l~~--~i~~I~~-~aF~~c~~L~~i~lp  328 (394)
T 4fs7_A          295 GCSSLTEVKLLD--SVKFIGE-EAFESCTSLVSIDLP  328 (394)
T ss_dssp             TCTTCCEEEECT--TCCEECT-TTTTTCTTCCEECCC
T ss_pred             cccccccccccc--ccceech-hhhcCCCCCCEEEeC
Confidence            344555555532  3444433 224445555555553

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.19  E-value=6e-05  Score=74.82  Aligned_cols=58  Identities=22%  Similarity=0.299  Sum_probs=36.3

Q ss_pred             cCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEec
Q 040303          408 GLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDE  473 (552)
Q Consensus       408 ~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~  473 (552)
                      .+.+|+.+.|.+. ++.+......    .+.+|+.+.+..  +++.+.. ..+..+++|+.+++..
T Consensus       318 ~c~~L~~i~lp~~-v~~I~~~aF~----~c~~L~~i~lp~--~l~~I~~-~aF~~C~~L~~i~lp~  375 (394)
T 4fs7_A          318 SCTSLVSIDLPYL-VEEIGKRSFR----GCTSLSNINFPL--SLRKIGA-NAFQGCINLKKVELPK  375 (394)
T ss_dssp             TCTTCCEECCCTT-CCEECTTTTT----TCTTCCEECCCT--TCCEECT-TTBTTCTTCCEEEEEG
T ss_pred             CCCCCCEEEeCCc-ccEEhHHhcc----CCCCCCEEEECc--cccEehH-HHhhCCCCCCEEEECC
Confidence            4566777777543 4444333332    667788887754  4677755 3467788888888864

>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=98.09  E-value=2.1e-07  Score=96.82  Aligned_cols=64  Identities=6%  Similarity=-0.084  Sum_probs=44.5

Q ss_pred             Cccccc--ccccCcchHHHHHHHHHHHHHHHHhhcccccccccccCeEeccHHHHHHHHHHhhcccc
Q 040303            1 MYGMGL--GLFQGINRMEEARARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIATREQN   65 (552)
Q Consensus         1 ~~Wiae--G~i~~~~~~e~~~~~~~~~~~~L~~~~~~~~~~~~~~~~~~mHdl~~dla~~i~~~e~~   65 (552)
                      ++|+|+  ||++........++.+. ++++|++++|++....+...+|+|||+||++|++++++++.
T Consensus       408 ~~w~a~~~G~i~~~~~~~~~~~~~~-~l~~L~~rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~~~~~  473 (549)
T 2a5y_B          408 KLWSCVIPVDICSNEEEQLDDEVAD-RLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQTI  473 (549)
T ss_dssp             HHHHHHSCC-------CCCTHHHHH-HHHHTTTBSSCSEEECSSSCEEECCHHHHHHHHTTSCTHHH
T ss_pred             eeeeeeccceeccCCCCCCHHHHHH-HHHHHHHcCCeeEecCCCceEEEeChHHHHHHHHHHHHHHH
Confidence            379999  99975431112455555 99999999999987644456799999999999999877653

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.04  E-value=7.2e-06  Score=79.91  Aligned_cols=149  Identities=16%  Similarity=0.225  Sum_probs=98.3

Q ss_pred             ccCcccEEEeecCCCcc---------cCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecccccc-ccc
Q 040303           84 ALKFYTSIVLHDSKMNV---------LLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSL-LPS  152 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~---------~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~-lp~  152 (552)
                      .+++++.|.+.......         .+.... .+|+|+.|.+.++...  .++. +  .+.+|+.|++..+.+.. -..
T Consensus       137 ~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l--~l~~-~--~~~~L~~L~L~~~~l~~~~l~  211 (362)
T 2ra8_A          137 KFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNL--SIGK-K--PRPNLKSLEIISGGLPDSVVE  211 (362)
T ss_dssp             HHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTC--BCCS-C--BCTTCSEEEEECSBCCHHHHH
T ss_pred             hcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCc--eecc-c--cCCCCcEEEEecCCCChHHHH
Confidence            46789999987543211         122222 6799999999987322  4444 2  37899999999887652 122


Q ss_pred             hhc--CCCCCcEEEccCC--C------CCCh-hhh--cCCCCccEEEecCCcCcc-cchhh---ccCCCCCEEeccCCCC
Q 040303          153 SLG--LLTNLRTLCLYCS--E------LQDI-AVI--GELKNLEILCLRGSYIEQ-LPVEI---GQLTRLRSLDLRDCDR  215 (552)
Q Consensus       153 ~i~--~l~~L~~L~l~~~--~------~~~~-~~i--~~L~~L~~L~l~~~~l~~-lp~~i---~~l~~L~~L~l~~~~~  215 (552)
                      .++  .+++|++|+|+.+  .      +... ..+  ..+++|++|++.+|.+.. .+..+   ..+++|++|+++.|. 
T Consensus       212 ~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~-  290 (362)
T 2ra8_A          212 DILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGV-  290 (362)
T ss_dssp             HHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSC-
T ss_pred             HHHHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCC-
Confidence            333  7999999998632  1      1111 122  358999999999987752 22222   357899999998876 


Q ss_pred             CCc-----cCcccccCCCCCcEEEccccc
Q 040303          216 LQV-----IPPNVLSNLSHLEELYIRSFN  239 (552)
Q Consensus       216 ~~~-----~~~~~l~~l~~L~~L~l~~~~  239 (552)
                      ++.     ++.. +..+++|+.|+++.+.
T Consensus       291 L~d~G~~~L~~~-L~~l~~L~~L~L~~n~  318 (362)
T 2ra8_A          291 LTDEGARLLLDH-VDKIKHLKFINMKYNY  318 (362)
T ss_dssp             CBHHHHHHHHTT-HHHHTTCSEEECCSBB
T ss_pred             CChHHHHHHHhh-cccCCcceEEECCCCc
Confidence            443     3333 4668999999998554

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.96  E-value=9.1e-06  Score=71.25  Aligned_cols=80  Identities=14%  Similarity=0.194  Sum_probs=42.6

Q ss_pred             hhCCCCccEEEeecc-ccc-----cccchhcCCCCCcEEEccCCCCCC--h----hhhcCCCCccEEEecCCcCcc----
Q 040303          131 FRKLTQVRVLDLTYM-HLS-----LLPSSLGLLTNLRTLCLYCSELQD--I----AVIGELKNLEILCLRGSYIEQ----  194 (552)
Q Consensus       131 ~~~l~~Lr~L~l~~~-~~~-----~lp~~i~~l~~L~~L~l~~~~~~~--~----~~i~~L~~L~~L~l~~~~l~~----  194 (552)
                      +...+.|++|++++| .+.     .+...+...++|++|++++|.+.+  .    ..+...++|++|++++|.+..    
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~~~g~~  111 (185)
T 1io0_A           32 QNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGIL  111 (185)
T ss_dssp             HTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHH
T ss_pred             HhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHH
Confidence            345556666666665 543     244445555666666666666543  1    233444556666666665542    


Q ss_pred             -cchhhccCCCCCEEec
Q 040303          195 -LPVEIGQLTRLRSLDL  210 (552)
Q Consensus       195 -lp~~i~~l~~L~~L~l  210 (552)
                       +...+...++|++|++
T Consensus       112 ~l~~~L~~n~~L~~L~L  128 (185)
T 1io0_A          112 ALVEALQSNTSLIELRI  128 (185)
T ss_dssp             HHHHGGGGCSSCCEEEC
T ss_pred             HHHHHHHhCCCceEEEe
Confidence             3334444555555555

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.93  E-value=1.1e-05  Score=70.83  Aligned_cols=107  Identities=12%  Similarity=0.127  Sum_probs=72.7

Q ss_pred             CCCCceEEEeecC-CCCCc---ccChhHhhCCCCccEEEeeccccc-----cccchhcCCCCCcEEEccCCCCCC-----
Q 040303          107 ECPQLQLLSLWTE-KSSLI---TLPDNFFRKLTQVRVLDLTYMHLS-----LLPSSLGLLTNLRTLCLYCSELQD-----  172 (552)
Q Consensus       107 ~~~~Lr~L~l~~~-~~~~~---~~~~~~~~~l~~Lr~L~l~~~~~~-----~lp~~i~~l~~L~~L~l~~~~~~~-----  172 (552)
                      ..+.|++|++++| .....   .+.. .+...+.|++|+|++|.+.     .+...+...++|++|++++|.+.+     
T Consensus        34 ~~~~L~~L~L~~n~~i~~~g~~~l~~-~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~~  112 (185)
T 1io0_A           34 NDPDLEEVNLNNIMNIPVPTLKACAE-ALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILA  112 (185)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHH-HHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHH
T ss_pred             cCCCCCEEEecCCCCCCHHHHHHHHH-HHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHHH
Confidence            4567777777766 44310   1222 2356678888888888775     255566677888888888888765     


Q ss_pred             -hhhhcCCCCccEEEe--cCCcCcc-----cchhhccCCCCCEEeccCCC
Q 040303          173 -IAVIGELKNLEILCL--RGSYIEQ-----LPVEIGQLTRLRSLDLRDCD  214 (552)
Q Consensus       173 -~~~i~~L~~L~~L~l--~~~~l~~-----lp~~i~~l~~L~~L~l~~~~  214 (552)
                       ...+....+|++|++  ++|.+..     +...+...++|++|++++|.
T Consensus       113 l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~  162 (185)
T 1io0_A          113 LVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQ  162 (185)
T ss_dssp             HHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSS
T ss_pred             HHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCC
Confidence             245667778889998  7777662     44455666788888887765

>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=97.86  E-value=1.6e-05  Score=73.49  Aligned_cols=78  Identities=21%  Similarity=0.278  Sum_probs=39.4

Q ss_pred             CCCCCcEEEccCCCCCCh----hhhcCCCCccEEEecCCcCcccchhhccCC--CCCEEeccCCCCCCccCc------cc
Q 040303          156 LLTNLRTLCLYCSELQDI----AVIGELKNLEILCLRGSYIEQLPVEIGQLT--RLRSLDLRDCDRLQVIPP------NV  223 (552)
Q Consensus       156 ~l~~L~~L~l~~~~~~~~----~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~--~L~~L~l~~~~~~~~~~~------~~  223 (552)
                      ++++|++|+|++|.+...    ..+.++++|++|+|++|.+..+ ..+..+.  +|++|++.+|.....+|.      .+
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~~~i  246 (267)
T 3rw6_A          168 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSE-RELDKIKGLKLEELWLDGNSLCDTFRDQSTYISAI  246 (267)
T ss_dssp             HCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSG-GGGGGGTTSCCSEEECTTSTTGGGCSSHHHHHHHH
T ss_pred             hCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCc-hhhhhcccCCcceEEccCCcCccccCcchhHHHHH
Confidence            455555566555555441    2334555666666665555544 2333333  566666665553333331      12


Q ss_pred             ccCCCCCcEEE
Q 040303          224 LSNLSHLEELY  234 (552)
Q Consensus       224 l~~l~~L~~L~  234 (552)
                      +..+++|+.|+
T Consensus       247 l~~~P~L~~LD  257 (267)
T 3rw6_A          247 RERFPKLLRLD  257 (267)
T ss_dssp             HHHCTTCCEES
T ss_pred             HHHCcccCeEC
Confidence            45556666665

>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=97.75  E-value=7.8e-06  Score=75.52  Aligned_cols=61  Identities=26%  Similarity=0.325  Sum_probs=28.4

Q ss_pred             CCCCccEEEeecccccc---ccchhcCCCCCcEEEccCCCCCChhhhcCCC--CccEEEecCCcCc
Q 040303          133 KLTQVRVLDLTYMHLSL---LPSSLGLLTNLRTLCLYCSELQDIAVIGELK--NLEILCLRGSYIE  193 (552)
Q Consensus       133 ~l~~Lr~L~l~~~~~~~---lp~~i~~l~~L~~L~l~~~~~~~~~~i~~L~--~L~~L~l~~~~l~  193 (552)
                      ++++|+.|+|++|.+..   +|..++.+++|++|+|++|.+.....+..+.  +|++|++++|.+.
T Consensus       168 ~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          168 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLC  233 (267)
T ss_dssp             HCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSGGGGGGGTTSCCSEEECTTSTTG
T ss_pred             hCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCchhhhhcccCCcceEEccCCcCc
Confidence            34455555555554433   2233445555555555555544433333333  5555555555443

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.68  E-value=0.0043  Score=61.29  Aligned_cols=119  Identities=11%  Similarity=0.175  Sum_probs=69.7

Q ss_pred             CceEEEeecCCCCCcccChhHhhCCCCccEEEeeccc---cccccc-hhcCCCCCcEEEccCCCCCC--hhhhcCCCCcc
Q 040303          110 QLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMH---LSLLPS-SLGLLTNLRTLCLYCSELQD--IAVIGELKNLE  183 (552)
Q Consensus       110 ~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~---~~~lp~-~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~  183 (552)
                      .|+++.+...   +..+....|.++.+|+.+.+..+.   ++.+.. .+.++.+|+.+.+..+ +..  ...+..+.+|+
T Consensus        65 ~L~sI~iP~s---vt~Ig~~AF~~C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~~-~~~I~~~aF~~c~~L~  140 (394)
T 4gt6_A           65 VLTSVQIPDT---VTEIGSNAFYNCTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILDS-VTEIDSEAFHHCEELD  140 (394)
T ss_dssp             CCCEEEECTT---CCEECTTTTTTCTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGTT-CSEECTTTTTTCTTCC
T ss_pred             cCEEEEECCC---eeEEhHHHhhCCccCceEeecCCCCCeeeEechhhchhcccceeeccCCc-cceehhhhhhhhcccc
Confidence            4777777542   236667777788888888876652   444433 4566677776665443 222  34566777777


Q ss_pred             EEEecCCcCcccch-hhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcc
Q 040303          184 ILCLRGSYIEQLPV-EIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       184 ~L~l~~~~l~~lp~-~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                      .+.+... +..++. .+..+.+|+.+.+...  +..+....+. ..+|+.+.+.
T Consensus       141 ~i~lp~~-~~~I~~~~F~~c~~L~~i~~~~~--~~~I~~~aF~-~~~l~~i~ip  190 (394)
T 4gt6_A          141 TVTIPEG-VTSVADGMFSYCYSLHTVTLPDS--VTAIEERAFT-GTALTQIHIP  190 (394)
T ss_dssp             EEECCTT-CCEECTTTTTTCTTCCEEECCTT--CCEECTTTTT-TCCCSEEEEC
T ss_pred             cccccce-eeeecccceecccccccccccce--eeEecccccc-ccceeEEEEC
Confidence            7777543 333333 3556677777776543  4455444333 3456766664

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=96.99  E-value=0.024  Score=55.50  Aligned_cols=120  Identities=8%  Similarity=0.117  Sum_probs=57.3

Q ss_pred             CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEEccCCCCCC--hhhhcCCCCcc
Q 040303          107 ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSELQD--IAVIGELKNLE  183 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~  183 (552)
                      ...+|+.+.+..   .+..++...|.++.+|+.+++..+ ++.++. .+.++ .|+.+.+..+ ++.  ...+.. .+|+
T Consensus        44 ~~~~i~~v~ip~---~vt~Ig~~aF~~C~~L~~I~lp~~-v~~Ig~~aF~~c-~l~~i~~~~~-l~~I~~~aF~~-~~L~  116 (379)
T 4h09_A           44 DRDRISEVRVNS---GITSIGEANFNSCYNMTKVTVAST-VTSIGDGAFADT-KLQSYTGMER-VKKFGDYVFQG-TDLD  116 (379)
T ss_dssp             GGGGCSEEEECT---TEEEECTTTTTTCTTCCEEEECTT-CCEECTTTTTTC-CCCEEEECTT-CCEECTTTTTT-CCCS
T ss_pred             cccCCEEEEeCC---CccChHHHHhhCCCCCCEEEeCCc-ceEechhhhcCC-CCceEECCce-eeEeccceecc-CCcc
Confidence            445666666643   223566666777777777777543 444433 23343 4555554322 222  122332 2566


Q ss_pred             EEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcc
Q 040303          184 ILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       184 ~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                      .+.+..+ +..+....-.-.+|....+...  +..+....+..+.+++...+.
T Consensus       117 ~i~lp~~-~~~i~~~~F~~~~l~~~~~~~~--v~~i~~~~f~~~~~l~~~~~~  166 (379)
T 4h09_A          117 DFEFPGA-TTEIGNYIFYNSSVKRIVIPKS--VTTIKDGIGYKAENLEKIEVS  166 (379)
T ss_dssp             EEECCTT-CCEECTTTTTTCCCCEEEECTT--CCEECSCTTTTCTTCCEEEEC
T ss_pred             cccCCCc-cccccccccccceeeeeeccce--eeccccchhcccccccccccc
Confidence            6666543 3333332222234555444332  334443334555666665544

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=96.06  E-value=0.021  Score=56.30  Aligned_cols=106  Identities=15%  Similarity=0.164  Sum_probs=59.8

Q ss_pred             hhcCCCCCcEEEccCCCCCC-hhhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEeccCCCCCCccCcccccCCCCC
Q 040303          153 SLGLLTNLRTLCLYCSELQD-IAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHL  230 (552)
Q Consensus       153 ~i~~l~~L~~L~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L  230 (552)
                      .+.++.+|+.+.+..+...- ...+.++.+|+.+.+.. .++.++.. +..+.+|+.+.+..+  +..+....+..+++|
T Consensus       260 aF~~c~~L~~i~lp~~~~~I~~~aF~~c~~L~~i~l~~-~i~~I~~~aF~~c~~L~~i~lp~~--v~~I~~~aF~~C~~L  336 (394)
T 4gt6_A          260 AFDSCAYLASVKMPDSVVSIGTGAFMNCPALQDIEFSS-RITELPESVFAGCISLKSIDIPEG--ITQILDDAFAGCEQL  336 (394)
T ss_dssp             TTTTCSSCCEEECCTTCCEECTTTTTTCTTCCEEECCT-TCCEECTTTTTTCTTCCEEECCTT--CCEECTTTTTTCTTC
T ss_pred             eeeecccccEEecccccceecCcccccccccccccCCC-cccccCceeecCCCCcCEEEeCCc--ccEehHhHhhCCCCC
Confidence            35566667766665433222 34556666777776643 35555443 555667777776542  455655556667777


Q ss_pred             cEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCC
Q 040303          231 EELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIP  272 (552)
Q Consensus       231 ~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~  272 (552)
                      +.+.+.....           .-....+.++.+|+.+++.++
T Consensus       337 ~~i~ip~sv~-----------~I~~~aF~~C~~L~~i~~~~~  367 (394)
T 4gt6_A          337 ERIAIPSSVT-----------KIPESAFSNCTALNNIEYSGS  367 (394)
T ss_dssp             CEEEECTTCC-----------BCCGGGGTTCTTCCEEEESSC
T ss_pred             CEEEECcccC-----------EEhHhHhhCCCCCCEEEECCc
Confidence            7776642211           012345666777777766654

>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=95.15  E-value=0.14  Score=50.00  Aligned_cols=128  Identities=12%  Similarity=0.175  Sum_probs=75.1

Q ss_pred             hhHhhCCCCccEEEeeccccccc-cchhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEecCCcCcccchh-hccCC
Q 040303          128 DNFFRKLTQVRVLDLTYMHLSLL-PSSLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQLPVE-IGQLT  203 (552)
Q Consensus       128 ~~~~~~l~~Lr~L~l~~~~~~~l-p~~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~  203 (552)
                      ...+.....|+.+.+..+ +..+ ...+.++..|+.+.+..+ ++.  ...+.++.+|+.+.+... +..++.. +..+.
T Consensus       210 ~~~f~~~~~l~~i~~~~~-~~~i~~~~f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~  286 (379)
T 4h09_A          210 AYGFSYGKNLKKITITSG-VTTLGDGAFYGMKALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCS  286 (379)
T ss_dssp             TTTTTTCSSCSEEECCTT-CCEECTTTTTTCSSCCEEEECTT-CCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCT
T ss_pred             ecccccccccceeeeccc-eeEEccccccCCccceEEEcCCC-ccEeCccccceeehhcccccccc-ceecccccccccc
Confidence            334456667777766543 2222 234556677777777544 332  355666777777777543 5555443 56677


Q ss_pred             CCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEcc
Q 040303          204 RLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELC  270 (552)
Q Consensus       204 ~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  270 (552)
                      +|+.+.+..+. +..++...+.++.+|+.+.+.....           .-....+.++.+|+.+.+.
T Consensus       287 ~L~~i~l~~~~-i~~I~~~aF~~c~~L~~i~lp~~l~-----------~I~~~aF~~C~~L~~i~ip  341 (379)
T 4h09_A          287 NLTKVVMDNSA-IETLEPRVFMDCVKLSSVTLPTALK-----------TIQVYAFKNCKALSTISYP  341 (379)
T ss_dssp             TCCEEEECCTT-CCEECTTTTTTCTTCCEEECCTTCC-----------EECTTTTTTCTTCCCCCCC
T ss_pred             ccccccccccc-cceehhhhhcCCCCCCEEEcCcccc-----------EEHHHHhhCCCCCCEEEEC
Confidence            77777776543 5666665567777777777752211           0122456677777777664

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.13  E-value=0.085  Score=42.53  Aligned_cols=31  Identities=19%  Similarity=0.210  Sum_probs=12.5

Q ss_pred             CcEEEccCCCCCC--hhhhcCCCCccEEEecCC
Q 040303          160 LRTLCLYCSELQD--IAVIGELKNLEILCLRGS  190 (552)
Q Consensus       160 L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~  190 (552)
                      |++|+|++|.++.  +..+..+.+|++|+|.+|
T Consensus        33 l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N   65 (130)
T 3rfe_A           33 TTELVLTGNNLTALPPGLLDALPALRTAHLGAN   65 (130)
T ss_dssp             CSEEECTTSCCSSCCTTTGGGCTTCCEEECCSS
T ss_pred             CCEEECCCCcCCccChhhhhhccccCEEEecCC
Confidence            4444444444333  123334444444444444

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=93.10  E-value=0.13  Score=41.32  Aligned_cols=32  Identities=25%  Similarity=0.403  Sum_probs=15.2

Q ss_pred             CCCEEeccCCCCCCccCcccccCCCCCcEEEcc
Q 040303          204 RLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       204 ~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                      +|++|++++|. +..++.+.+..+++|+.|++.
T Consensus        32 ~l~~L~Ls~N~-l~~l~~~~f~~l~~L~~L~L~   63 (130)
T 3rfe_A           32 DTTELVLTGNN-LTALPPGLLDALPALRTAHLG   63 (130)
T ss_dssp             TCSEEECTTSC-CSSCCTTTGGGCTTCCEEECC
T ss_pred             CCCEEECCCCc-CCccChhhhhhccccCEEEec
Confidence            34555555444 444444444444445555444

>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=92.91  E-value=0.16  Score=44.04  Aligned_cols=81  Identities=12%  Similarity=0.194  Sum_probs=42.6

Q ss_pred             hCCCCccEEEeecc-ccc-----cccchhcCCCCCcEEEccCCCCCC--h----hhhcCCCCccEEEecCCcCc-----c
Q 040303          132 RKLTQVRVLDLTYM-HLS-----LLPSSLGLLTNLRTLCLYCSELQD--I----AVIGELKNLEILCLRGSYIE-----Q  194 (552)
Q Consensus       132 ~~l~~Lr~L~l~~~-~~~-----~lp~~i~~l~~L~~L~l~~~~~~~--~----~~i~~L~~L~~L~l~~~~l~-----~  194 (552)
                      .+-..|+.|+|+++ .+.     .+-+.+..-++|+.|+|++|.+.+  -    ..+..=..|++|+|++|.|.     .
T Consensus        38 ~~n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~a  117 (197)
T 1pgv_A           38 EDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLAR  117 (197)
T ss_dssp             TTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHH
T ss_pred             hcCCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHH
Confidence            34455666666654 443     244455556667777776666654  1    23334455666666666554     1


Q ss_pred             cchhhccCCCCCEEeccC
Q 040303          195 LPVEIGQLTRLRSLDLRD  212 (552)
Q Consensus       195 lp~~i~~l~~L~~L~l~~  212 (552)
                      +-..+..-+.|++|++++
T Consensus       118 la~aL~~N~tL~~L~L~n  135 (197)
T 1pgv_A          118 LLRSTLVTQSIVEFKADN  135 (197)
T ss_dssp             HHHHTTTTCCCSEEECCC
T ss_pred             HHHHHhhCCceeEEECCC
Confidence            222233334466666554

>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=92.52  E-value=0.1  Score=45.20  Aligned_cols=82  Identities=11%  Similarity=0.035  Sum_probs=52.7

Q ss_pred             hCCCCccEEEeeccccc-----cccchhcCCCCCcEEEccCCCCCC--h----hhhcCCCCccEEEecCCcC---c----
Q 040303          132 RKLTQVRVLDLTYMHLS-----LLPSSLGLLTNLRTLCLYCSELQD--I----AVIGELKNLEILCLRGSYI---E----  193 (552)
Q Consensus       132 ~~l~~Lr~L~l~~~~~~-----~lp~~i~~l~~L~~L~l~~~~~~~--~----~~i~~L~~L~~L~l~~~~l---~----  193 (552)
                      ..-..|+.|+|++|.+.     .+.+.+..-+.|++|+|++|.+..  .    +.+..=..|++|+++++..   .    
T Consensus        67 ~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~ala~aL~~N~tL~~L~L~n~~~~~ig~~g~  146 (197)
T 1pgv_A           67 CNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQRQSVLGNQVE  146 (197)
T ss_dssp             TTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCCSSCCCCHHHH
T ss_pred             hhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHHHHHHHhhCCceeEEECCCCcCcCcCHHHH
Confidence            44567888888888775     355566677788888888888765  1    3444556688888876522   2    


Q ss_pred             -ccchhhccCCCCCEEeccCC
Q 040303          194 -QLPVEIGQLTRLRSLDLRDC  213 (552)
Q Consensus       194 -~lp~~i~~l~~L~~L~l~~~  213 (552)
                       .+-..+..-+.|+.|+++.+
T Consensus       147 ~~ia~aL~~N~tL~~L~l~~~  167 (197)
T 1pgv_A          147 MDMMMAIEENESLLRVGISFA  167 (197)
T ss_dssp             HHHHHHHHHCSSCCEEECCCC
T ss_pred             HHHHHHHHhCCCcCeEeccCC
Confidence             12223444456777766543

>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=92.01  E-value=0.096  Score=59.97  Aligned_cols=45  Identities=11%  Similarity=0.208  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHHHhhcccccccccccCeEeccHHHHHHHHHHhhcc
Q 040303           19 RARVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIATRE   63 (552)
Q Consensus        19 ~~~~~~~~~~L~~~~~~~~~~~~~~~~~~mHdl~~dla~~i~~~e   63 (552)
                      ++.+.+++++|++++|++....+...+|+|||+||++|+..+.++
T Consensus       408 ~~~~~~~l~~L~~~sl~~~~~~~~~~~~~~h~l~~~~~~~~~~~~  452 (1249)
T 3sfz_A          408 TEEVEDILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKNRSQ  452 (1249)
T ss_dssp             HHHHHHHHHHHHHTTSCEEEESSSSEEEECCHHHHHHHHHHTGGG
T ss_pred             HHHHHHHHHHHHhccceEEecCCCceEEEecHHHHHHHHhhhhHH
Confidence            455678899999999999765223336999999999999987765

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

Probab=90.65  E-value=0.13  Score=56.02  Aligned_cols=34  Identities=18%  Similarity=0.276  Sum_probs=28.3

Q ss_pred             HHHHHHHHHhhcccccccccccCeEeccHHHHHHHH
Q 040303           22 VYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAI   57 (552)
Q Consensus        22 ~~~~~~~L~~~~~~~~~~~~~~~~~~mHdl~~dla~   57 (552)
                      +.+++++|+++|||+...  ..++|+|||++++++.
T Consensus       404 Ae~~L~eLvdRSLLq~d~--~~~rYrMHDLllELr~  437 (1221)
T 1vt4_I          404 VMVVVNKLHKYSLVEKQP--KESTISIPSIYLELKV  437 (1221)
T ss_dssp             HHHHHHHHHTSSSSSBCS--SSSEEBCCCHHHHHHH
T ss_pred             HHHHHHHHHhhCCEEEeC--CCCEEEehHHHHHHhc
Confidence            567889999999999853  5678999999999763

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

Probab=81.87  E-value=1.1  Score=46.47  Aligned_cols=40  Identities=13%  Similarity=0.213  Sum_probs=31.9

Q ss_pred             HHHHHHHHHHhhcccccccccccCeEeccHHHHHHHHHHh
Q 040303           21 RVYTLVYKLKASCMLLEHGSKNEHWFSMHDVVRDVAIAIA   60 (552)
Q Consensus        21 ~~~~~~~~L~~~~~~~~~~~~~~~~~~mHdl~~dla~~i~   60 (552)
                      .+.+++++|+++++++....+...+|+|||++|+++....
T Consensus       410 ~~~~~l~~L~~~~Ll~~~~~~~~~~~~~H~lv~~~~~~~~  449 (591)
T 1z6t_A          410 EVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKN  449 (591)
T ss_dssp             HHHHHHHHHHHTTSSEEEEETTEEEEECCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCcCeEEecCCCccEEEEcHHHHHHHHhhh
Confidence            4678899999999998664233447999999999998774

---

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	552
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	2e-08
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	0.001
d1m9la_	198	c.10.3.1 (A:) Outer arm dynein light chain 1 {Gree	1e-06
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	2e-06
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	2e-05
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	3e-06
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	7e-06
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	3e-05
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	9e-05
d1a9na_	162	c.10.2.4 (A:) Splicesomal U2A' protein {Human (Hom	2e-04
d2ca6a1	344	c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal dom	3e-04

>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 = 54.2 bits (129), Expect = 2e-08
 Identities = 30/157 (19%), Positives = 56/157 (35%), Gaps = 29/157 (18%)

Query: 102 LPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGL----- 156
           +  +     L  L L    + +  L       LT++  L L    +S +    GL     
Sbjct: 234 IGTLASLTNLTDLDLA--NNQISNLAP--LSGLTKLTELKLGANQISNISPLAGLTALTN 289

Query: 157 ----------------LTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIG 200
                           L NL  L LY + + DI+ +  L  L+ L    + +  +   + 
Sbjct: 290 LELNENQLEDISPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFANNKVSDVS-SLA 348

Query: 201 QLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRS 237
            LT +  L      ++  + P  L+NL+ + +L +  
Sbjct: 349 NLTNINWLSAGHN-QISDLTP--LANLTRITQLGLND 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 = 44.6 bits (104), Expect = 2e-05
 Identities = 33/156 (21%), Positives = 54/156 (34%), Gaps = 37/156 (23%)

Query: 135 TQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQ 194
           T +  L L    L  + + L  LTNL  L L  +++ ++A +  L  L  L L  + I  
Sbjct: 219 TNLDELSLNGNQLKDIGT-LASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISN 277

Query: 195 LPVEIG---------------------QLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEEL 233
           +    G                      L  L  L L   +   + P   +S+L+ L+ L
Sbjct: 278 ISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDISP---VSSLTKLQRL 334

Query: 234 YIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL 269
           +  + NK              +  L  L N+  L  
Sbjct: 335 FF-ANNKVS-----------DVSSLANLTNINWLSA 358

>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 = 38.8 bits (89), Expect = 0.001
 Identities = 48/349 (13%), Positives = 96/349 (27%), Gaps = 34/349 (9%)

Query: 157 LTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRL 216
           L  + TL      ++ I  +  L NL  +    + +  +   +  LT+L  + + +    
Sbjct: 43  LDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDIT-PLKNLTKLVDILMNNNQIA 101

Query: 217 QVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNT 276
            + P   L+NL+ L     +  +   +                   NLT L       NT
Sbjct: 102 DITPLANLTNLTGLTLFNNQITDIDPL------------------KNLTNLNRLELSSNT 143

Query: 277 LPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLC 336
           +        L   +         D  P  + T    L   +        + +L  +E L 
Sbjct: 144 ISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLI 203

Query: 337 LSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDH 396
            +     DI  L         + L  L + G Q                  +N   L+  
Sbjct: 204 ATNNQISDITPLGIL------TNLDELSLNGNQLKDIGTLASL--------TNLTDLDLA 249

Query: 397 VNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFS 456
            N  +      GL  L  L+L    +  I           ++     +            
Sbjct: 250 NNQISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNL 309

Query: 457 SSIVNSFIRLQHL-EIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDL 504
           + +   F  +  +  +     L+ +   + +         L  +  +  
Sbjct: 310 TYLTLYFNNISDISPVSSLTKLQRLFFANNKVSDVSSLANLTNINWLSA 358

>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 = 47.0 bits (110), Expect = 1e-06
 Identities = 31/162 (19%), Positives = 59/162 (36%), Gaps = 2/162 (1%)

Query: 106 LECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCL 165
           +   + + + L      +  +       L   + L L+  ++  + S L  + NLR L L
Sbjct: 20  VVATEAEKVELHGMIPPIEKMDATL-STLKACKHLALSTNNIEKISS-LSGMENLRILSL 77

Query: 166 YCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLS 225
             + ++ I  +  + +                 I +L  LR L + +         + L+
Sbjct: 78  GRNLIKKIENLDAVADTLEELWISYNQIASLSGIEKLVNLRVLYMSNNKITNWGEIDKLA 137

Query: 226 NLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTL 267
            L  LE+L +     +    E        +E +KRLPNL  L
Sbjct: 138 ALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKL 179

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 47.3 bits (111), Expect = 2e-06
 Identities = 33/266 (12%), Positives = 72/266 (27%), Gaps = 22/266 (8%)

Query: 109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHL-SLLPSSLGLLTNLRTLCLYC 167
           P   LL L  + + +  + D  F+ L  +  L L    +  + P +   L  L  L L  
Sbjct: 31  PDTALLDL--QNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSK 88

Query: 168 SELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCD-RLQVIPPNVLSN 226
           ++L+++         E+        +        L ++  ++L     +   I       
Sbjct: 89  NQLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQG 148

Query: 227 LSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKL 286
           +  L  + I   N   +                  P+LT L L    +  +         
Sbjct: 149 MKKLSYIRIADTNITTIPQGL-------------PPSLTELHLDGNKITKVDAASLKGLN 195

Query: 287 ERYRICIGRWCWEDTSPTCSRTFRLLLGTDNC---ISFKSGHIVQLQRIEDLCLSGLPDQ 343
              ++ +                  L         +    G +   + I+ + L      
Sbjct: 196 NLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNIS 255

Query: 344 DIIELVNNKLGSYS--SQLKHLWVEG 367
            I        G  +  +    + +  
Sbjct: 256 AIGSNDFCPPGYNTKKASYSGVSLFS 281

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 44.3 bits (103), Expect = 2e-05
 Identities = 26/178 (14%), Positives = 55/178 (30%), Gaps = 17/178 (9%)

Query: 192 IEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVK 251
           +E++P ++        LDL++  ++  I      NL +L  L + +    ++   A    
Sbjct: 22  LEKVPKDLP--PDTALLDLQNN-KITEIKDGDFKNLKNLHTLILINNKISKISPGA---- 74

Query: 252 NASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRL 311
                    L  L  L L    +  LP+ +     E             +         +
Sbjct: 75  ------FAPLVKLERLYLSKNQLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIV 128

Query: 312 LLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ 369
           +    N +          Q ++ L    + D +I  +           L  L ++G +
Sbjct: 129 VELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLP----PSLTELHLDGNK 182

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 44.3 bits (104), Expect = 3e-06
 Identities = 28/131 (21%), Positives = 52/131 (39%), Gaps = 10/131 (7%)

Query: 138 RVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD-IAVIGELKNLEILCLRGSYIEQLP 196
           RVL L +  L++L   L  L  +  L L  + L+     +  L+ LE+L    + +E + 
Sbjct: 1   RVLHLAHKDLTVLC-HLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD 59

Query: 197 VEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLE 256
             +  L RL+ L L +    Q      L +   L  L +   N           +     
Sbjct: 60  -GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNL-QGNSL------CQEEGIQER 111

Query: 257 ELKRLPNLTTL 267
             + LP+++++
Sbjct: 112 LAEMLPSVSSI 122

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 43.2 bits (101), Expect = 7e-06
 Identities = 25/114 (21%), Positives = 49/114 (42%), Gaps = 5/114 (4%)

Query: 124 ITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLE 183
           +T+  +   +L  V  LDL++  L  LP +L  L  L  L    + L+++  +  L  L+
Sbjct: 10  LTVLCHL-EQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQ 68

Query: 184 ILCLRGSYIEQLPV--EIGQLTRLRSLDLRD--CDRLQVIPPNVLSNLSHLEEL 233
            L L  + ++Q      +    RL  L+L+     + + I   +   L  +  +
Sbjct: 69  ELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSI 122

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 44.0 bits (102), Expect = 3e-05
 Identities = 13/90 (14%), Positives = 31/90 (34%), Gaps = 5/90 (5%)

Query: 117 WTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVI 176
               ++      +       +  L+++   L  LP+       L  L    + L ++   
Sbjct: 266 LYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPALPP---RLERLIASFNHLAEV--P 320

Query: 177 GELKNLEILCLRGSYIEQLPVEIGQLTRLR 206
              +NL+ L +  + + + P     +  LR
Sbjct: 321 ELPQNLKQLHVEYNPLREFPDIPESVEDLR 350

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]} Length = 284

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.0 bits (97), Expect = 9e-05
 Identities = 34/196 (17%), Positives = 67/196 (34%), Gaps = 3/196 (1%)

Query: 175 VIGELKNLEILCLR--GSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEE 232
           V G L +  ++  R   S+++Q   E     R++ +DL +          +LS  S L+ 
Sbjct: 16  VTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQN 75

Query: 233 LYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRIC 292
           L +    +    +     KN++L  L         E  +  + +    L    L      
Sbjct: 76  LSL-EGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDF 134

Query: 293 IGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNK 352
             +      +       +L L        KS     ++R  +L    L D  +++    +
Sbjct: 135 TEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQ 194

Query: 353 LGSYSSQLKHLWVEGC 368
                + L+HL +  C
Sbjct: 195 EFFQLNYLQHLSLSRC 210

>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 = 40.3 bits (93), Expect = 2e-04
 Identities = 21/137 (15%), Positives = 51/137 (37%), Gaps = 6/137 (4%)

Query: 131 FRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGS 190
           +    + R LDL    + ++ +    L     +    +E++ +     L+ L+ L +  +
Sbjct: 14  YTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNN 73

Query: 191 YIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGV 250
            I ++   + Q     +  +   + L  +    L  L+ L+ L      +  V       
Sbjct: 74  RICRIGEGLDQALPDLTELILTNNSLVELGD--LDPLASLKSLTYLCILRNPVTN----K 127

Query: 251 KNASLEELKRLPNLTTL 267
           K+  L  + ++P +  L
Sbjct: 128 KHYRLYVIYKVPQVRVL 144

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 344

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

 Score = 40.6 bits (93), Expect = 3e-04
 Identities = 33/318 (10%), Positives = 76/318 (23%), Gaps = 10/318 (3%)

Query: 178 ELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDC---DRLQVIPPNVLSNLSHLEELY 234
           E K+L++  +     + +   + +   ++ + L                +++   LE   
Sbjct: 6   EGKSLKLDAITTEDEKSVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAE 65

Query: 235 IRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLEL----CIPDVNTLPKGLFFEKLERYR 290
                   V+ E        L+ L + P L T+ L      P           +      
Sbjct: 66  FSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEH 125

Query: 291 ICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVN 350
           + +        +          L  +            +     L    + +       +
Sbjct: 126 LYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSH 185

Query: 351 NKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLP 410
             L +       +  EG +    +    C+E       +        +            
Sbjct: 186 RLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNL 245

Query: 411 NLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGC---GELRCLFSSSIVNSFIRLQ 467
               L    ++                  L  L +       +      + I      L 
Sbjct: 246 RELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLL 305

Query: 468 HLEIDECPILEEIIVIDQ 485
            LE++     EE  V+D+
Sbjct: 306 FLELNGNRFSEEDDVVDE 323

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	552
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.85
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.84
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.75
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.74
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.72
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.71
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.7
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.69
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.68
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.64
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.63
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.63
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.63
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.63
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.61
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.59
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.55
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.54
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.47
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.45
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.43
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.43
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.43
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.41
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.38
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.27
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.24
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.22
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.21
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.17
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.08
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.87
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.77
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.74
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.5
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.32
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.87
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.57
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.98
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.96
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.33
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.29

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.85  E-value=5.2e-20  Score=181.92  Aligned_cols=332  Identities=19%  Similarity=0.239  Sum_probs=203.1

Q ss_pred             CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCChhhhcCCCCccEEE
Q 040303          107 ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILC  186 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~  186 (552)
                      .+.+|++|++.++...  ++. ++ ..+++|++|++++|.++.+|. ++++++|++|++++|.+.....++++++|++|+
T Consensus        42 ~l~~l~~L~l~~~~I~--~l~-gl-~~L~nL~~L~Ls~N~l~~l~~-l~~L~~L~~L~L~~n~i~~i~~l~~l~~L~~L~  116 (384)
T d2omza2          42 DLDQVTTLQADRLGIK--SID-GV-EYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIADITPLANLTNLTGLT  116 (384)
T ss_dssp             HHTTCCEEECCSSCCC--CCT-TG-GGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGGGTTCTTCCEEE
T ss_pred             HhCCCCEEECCCCCCC--Ccc-cc-ccCCCCCEEeCcCCcCCCCcc-ccCCccccccccccccccccccccccccccccc
Confidence            5678899999887654  443 33 788899999999998888874 888999999999999888755688899999999


Q ss_pred             ecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcc-ccccchh--------hhhhhcccccChhh
Q 040303          187 LRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR-SFNKWEV--------EVEAAGVKNASLEE  257 (552)
Q Consensus       187 l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~-~~~~~~~--------~~~~~~~~~~~~~~  257 (552)
                      ++++.+..++. ......+..+....+. +..+...  ......+..... .......        ..............
T Consensus       117 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~-l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  192 (384)
T d2omza2         117 LFNNQITDIDP-LKNLTNLNRLELSSNT-ISDISAL--SGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISV  192 (384)
T ss_dssp             CCSSCCCCCGG-GTTCTTCSEEEEEEEE-ECCCGGG--TTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGG
T ss_pred             ccccccccccc-cccccccccccccccc-ccccccc--cccccccccccccccchhhhhccccccccccccccccccccc
Confidence            98887776653 3344555555544432 2221111  111111111110 0000000        00000112223455


Q ss_pred             hcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeee
Q 040303          258 LKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCL  337 (552)
Q Consensus       258 l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l  337 (552)
                      ...+++++.+.++.+.+..++.....++|+.|.+.++...                      .  ......+++|+.|++
T Consensus       193 ~~~l~~~~~l~l~~n~i~~~~~~~~~~~L~~L~l~~n~l~----------------------~--~~~l~~l~~L~~L~l  248 (384)
T d2omza2         193 LAKLTNLESLIATNNQISDITPLGILTNLDELSLNGNQLK----------------------D--IGTLASLTNLTDLDL  248 (384)
T ss_dssp             GGGCTTCSEEECCSSCCCCCGGGGGCTTCCEEECCSSCCC----------------------C--CGGGGGCTTCSEEEC
T ss_pred             cccccccceeeccCCccCCCCcccccCCCCEEECCCCCCC----------------------C--cchhhcccccchhcc
Confidence            6777788888888877766655555667777765433210                      0  011224577777777


Q ss_pred             cCCCCCcceeeeccccCcccccccEEEeecCCCCCCcchhhhhhcccccccceeeeccCCCCCccccccccCCCcccccc
Q 040303          338 SGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLEL  417 (552)
Q Consensus       338 ~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l  417 (552)
                      .++.-   ...++   ...+++|+.|+++++.                  +..+            .....++.++.+.+
T Consensus       249 ~~n~l---~~~~~---~~~~~~L~~L~l~~~~------------------l~~~------------~~~~~~~~l~~l~~  292 (384)
T d2omza2         249 ANNQI---SNLAP---LSGLTKLTELKLGANQ------------------ISNI------------SPLAGLTALTNLEL  292 (384)
T ss_dssp             CSSCC---CCCGG---GTTCTTCSEEECCSSC------------------CCCC------------GGGTTCTTCSEEEC
T ss_pred             ccCcc---CCCCc---ccccccCCEeeccCcc------------------cCCC------------Cccccccccccccc
Confidence            76653   22221   3456788888887765                  1110            11235667777777


Q ss_pred             cceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCcc
Q 040303          418 YNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQ  497 (552)
Q Consensus       418 ~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~  497 (552)
                      ..+.+..+..  ..    .+++++.|+++++ +++.+++   +..+++|++|++.+| .++.+.       ....+++|+
T Consensus       293 ~~n~l~~~~~--~~----~~~~l~~L~ls~n-~l~~l~~---l~~l~~L~~L~L~~n-~l~~l~-------~l~~l~~L~  354 (384)
T d2omza2         293 NENQLEDISP--IS----NLKNLTYLTLYFN-NISDISP---VSSLTKLQRLFFANN-KVSDVS-------SLANLTNIN  354 (384)
T ss_dssp             CSSCCSCCGG--GG----GCTTCSEEECCSS-CCSCCGG---GGGCTTCCEEECCSS-CCCCCG-------GGGGCTTCC
T ss_pred             cccccccccc--cc----hhcccCeEECCCC-CCCCCcc---cccCCCCCEEECCCC-CCCCCh-------hHcCCCCCC
Confidence            7776554321  11    6788888888875 6777754   677888888888888 465542       133488888


Q ss_pred             EEEeccccccccccCCcccccCCCccEEEeec
Q 040303          498 FLKMVDLEKLTSFCTGDVHIEFPTLETLEVIR  529 (552)
Q Consensus       498 ~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~  529 (552)
                      +|++.++ +++.+++  + ..+++|+.|++++
T Consensus       355 ~L~l~~N-~l~~l~~--l-~~l~~L~~L~L~~  382 (384)
T d2omza2         355 WLSAGHN-QISDLTP--L-ANLTRITQLGLND  382 (384)
T ss_dssp             EEECCSS-CCCBCGG--G-TTCTTCSEEECCC
T ss_pred             EEECCCC-cCCCChh--h-ccCCCCCEeeCCC
Confidence            8888877 5666643  2 2678888888865

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.84  E-value=1.3e-19  Score=178.94  Aligned_cols=321  Identities=18%  Similarity=0.215  Sum_probs=220.9

Q ss_pred             ccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEE
Q 040303           84 ALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTL  163 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L  163 (552)
                      ...++++|+++++.+.. +.+...+++|++|++++|...  .++.  ++++++|++|++++|.+..+++ ++++++|++|
T Consensus        42 ~l~~l~~L~l~~~~I~~-l~gl~~L~nL~~L~Ls~N~l~--~l~~--l~~L~~L~~L~L~~n~i~~i~~-l~~l~~L~~L  115 (384)
T d2omza2          42 DLDQVTTLQADRLGIKS-IDGVEYLNNLTQINFSNNQLT--DITP--LKNLTKLVDILMNNNQIADITP-LANLTNLTGL  115 (384)
T ss_dssp             HHTTCCEEECCSSCCCC-CTTGGGCTTCCEEECCSSCCC--CCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEE
T ss_pred             HhCCCCEEECCCCCCCC-ccccccCCCCCEEeCcCCcCC--CCcc--ccCCcccccccccccccccccc-cccccccccc
Confidence            46689999999999887 666668999999999999765  6664  5899999999999999988764 8999999999


Q ss_pred             EccCCCCCChhhhcCCCCccEEEecCCcCcccch--------------------hhccCCCCCEEeccCCCCCCccCccc
Q 040303          164 CLYCSELQDIAVIGELKNLEILCLRGSYIEQLPV--------------------EIGQLTRLRSLDLRDCDRLQVIPPNV  223 (552)
Q Consensus       164 ~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~--------------------~i~~l~~L~~L~l~~~~~~~~~~~~~  223 (552)
                      +++++.+...........+..+....+.+..+..                    .+.............+.  ...... 
T Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~-  192 (384)
T d2omza2         116 TLFNNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNK--VSDISV-  192 (384)
T ss_dssp             ECCSSCCCCCGGGTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSC--CCCCGG-
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhccccccccccccccc--cccccc-
Confidence            9999988875555566666666665544332211                    11222222222222222  222222 


Q ss_pred             ccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecccccCCCCC
Q 040303          224 LSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSP  303 (552)
Q Consensus       224 l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~  303 (552)
                      ...+++++.+++.++..            .........++|++|++++|.+..++....+++|+.+.+..+.....    
T Consensus       193 ~~~l~~~~~l~l~~n~i------------~~~~~~~~~~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~----  256 (384)
T d2omza2         193 LAKLTNLESLIATNNQI------------SDITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNL----  256 (384)
T ss_dssp             GGGCTTCSEEECCSSCC------------CCCGGGGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCC----
T ss_pred             cccccccceeeccCCcc------------CCCCcccccCCCCEEECCCCCCCCcchhhcccccchhccccCccCCC----
Confidence            56778888888874432            12234566788999999988887776544778888887654431110    


Q ss_pred             CcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCCCCCCcchhhhhhcc
Q 040303          304 TCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKEST  383 (552)
Q Consensus       304 ~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li  383 (552)
                                        +  ....+++|+.|++.++.-   ..+++   ...++.++.+.+..+.-             
T Consensus       257 ------------------~--~~~~~~~L~~L~l~~~~l---~~~~~---~~~~~~l~~l~~~~n~l-------------  297 (384)
T d2omza2         257 ------------------A--PLSGLTKLTELKLGANQI---SNISP---LAGLTALTNLELNENQL-------------  297 (384)
T ss_dssp             ------------------G--GGTTCTTCSEEECCSSCC---CCCGG---GTTCTTCSEEECCSSCC-------------
T ss_pred             ------------------C--cccccccCCEeeccCccc---CCCCc---ccccccccccccccccc-------------
Confidence                              0  122357888888877654   22222   24678888888887761             


Q ss_pred             cccccceeeeccCCCCCccccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccchhHhhh
Q 040303          384 SEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSF  463 (552)
Q Consensus       384 ~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l  463 (552)
                           ..            ......+++++.|++++++++.+..  ..    .+++|++|++++| +++.++.   +..+
T Consensus       298 -----~~------------~~~~~~~~~l~~L~ls~n~l~~l~~--l~----~l~~L~~L~L~~n-~l~~l~~---l~~l  350 (384)
T d2omza2         298 -----ED------------ISPISNLKNLTYLTLYFNNISDISP--VS----SLTKLQRLFFANN-KVSDVSS---LANL  350 (384)
T ss_dssp             -----SC------------CGGGGGCTTCSEEECCSSCCSCCGG--GG----GCTTCCEEECCSS-CCCCCGG---GGGC
T ss_pred             -----cc------------ccccchhcccCeEECCCCCCCCCcc--cc----cCCCCCEEECCCC-CCCCChh---HcCC
Confidence                 10            1123467889999999997776432  22    7899999999997 7888753   7889


Q ss_pred             cccceEEEecCCchhhhhccccccccccccCCccEEEecc
Q 040303          464 IRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVD  503 (552)
Q Consensus       464 ~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~  503 (552)
                      ++|++|++.+| +++.++       ....+++|+.|+|++
T Consensus       351 ~~L~~L~l~~N-~l~~l~-------~l~~l~~L~~L~L~~  382 (384)
T d2omza2         351 TNINWLSAGHN-QISDLT-------PLANLTRITQLGLND  382 (384)
T ss_dssp             TTCCEEECCSS-CCCBCG-------GGTTCTTCSEEECCC
T ss_pred             CCCCEEECCCC-cCCCCh-------hhccCCCCCEeeCCC
Confidence            99999999887 466653       234489999999876

>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=99.75  E-value=1.1e-16  Score=152.44  Aligned_cols=264  Identities=15%  Similarity=0.182  Sum_probs=171.3

Q ss_pred             ceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEe
Q 040303          111 LQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCL  187 (552)
Q Consensus       111 Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l  187 (552)
                      .++++..+....  .+|.++   .+.+++|++++|+++.+|+ .+.++++|++|++++|.+..  |..+.++++|++|++
T Consensus        12 ~~~~~C~~~~L~--~lP~~l---~~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l   86 (305)
T d1xkua_          12 LRVVQCSDLGLE--KVPKDL---PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYL   86 (305)
T ss_dssp             TTEEECTTSCCC--SCCCSC---CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC
T ss_pred             CCEEEecCCCCC--ccCCCC---CCCCCEEECcCCcCCCcChhHhhccccccccccccccccccchhhhhCCCccCEecc
Confidence            445554443333  677755   3678999999999999886 58899999999999999776  567899999999999


Q ss_pred             cCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEE
Q 040303          188 RGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTL  267 (552)
Q Consensus       188 ~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L  267 (552)
                      ++|+++.+|..+  ...++.|++..+. +..++...+.....++.+....+...        ........+..+++|+.+
T Consensus        87 ~~n~l~~l~~~~--~~~l~~L~~~~n~-l~~l~~~~~~~~~~~~~l~~~~n~~~--------~~~~~~~~~~~l~~L~~l  155 (305)
T d1xkua_          87 SKNQLKELPEKM--PKTLQELRVHENE-ITKVRKSVFNGLNQMIVVELGTNPLK--------SSGIENGAFQGMKKLSYI  155 (305)
T ss_dssp             CSSCCSBCCSSC--CTTCCEEECCSSC-CCBBCHHHHTTCTTCCEEECCSSCCC--------GGGBCTTGGGGCTTCCEE
T ss_pred             cCCccCcCccch--hhhhhhhhccccc-hhhhhhhhhhcccccccccccccccc--------ccCCCccccccccccCcc
Confidence            999999988654  3578899988876 66777665667777888877633221        112244567888899999


Q ss_pred             EccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeeecCCCCCccee
Q 040303          268 ELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIE  347 (552)
Q Consensus       268 ~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~  347 (552)
                      ++..+.+..+|... ++                                              +|+.|++.++..   ..
T Consensus       156 ~l~~n~l~~l~~~~-~~----------------------------------------------~L~~L~l~~n~~---~~  185 (305)
T d1xkua_         156 RIADTNITTIPQGL-PP----------------------------------------------SLTELHLDGNKI---TK  185 (305)
T ss_dssp             ECCSSCCCSCCSSC-CT----------------------------------------------TCSEEECTTSCC---CE
T ss_pred             ccccCCccccCccc-CC----------------------------------------------ccCEEECCCCcC---CC
Confidence            99988877776543 23                                              444444444332   11


Q ss_pred             eeccccCcccccccEEEeecCCCCCCcchhhhhhcccccccceeeeccCCCCCccccccccCCCcccccccceeeeEecc
Q 040303          348 LVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWK  427 (552)
Q Consensus       348 ~~~~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~  427 (552)
                      ... ..+..++.++.|.+++|.                  +..+.          ......+++|+.|++++|+++.++.
T Consensus       186 ~~~-~~~~~~~~l~~L~~s~n~------------------l~~~~----------~~~~~~l~~L~~L~L~~N~L~~lp~  236 (305)
T d1xkua_         186 VDA-ASLKGLNNLAKLGLSFNS------------------ISAVD----------NGSLANTPHLRELHLNNNKLVKVPG  236 (305)
T ss_dssp             ECT-GGGTTCTTCCEEECCSSC------------------CCEEC----------TTTGGGSTTCCEEECCSSCCSSCCT
T ss_pred             CCh-hHhhcccccccccccccc------------------ccccc----------cccccccccceeeeccccccccccc
Confidence            111 122345666666666654                  11111          0112346677777777776665543


Q ss_pred             CCCCccccccCcceEEEEecCCCccccccc-----hhHhhhcccceEEEecCC
Q 040303          428 SQLPAMSCGIQTLTRLIVYGCGELRCLFSS-----SIVNSFIRLQHLEIDECP  475 (552)
Q Consensus       428 ~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~-----~~~~~l~~L~~L~i~~c~  475 (552)
                      .. .    .+++|+.|+++++ +++.++..     +.....++|+.|++.+++
T Consensus       237 ~l-~----~l~~L~~L~Ls~N-~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~  283 (305)
T d1xkua_         237 GL-A----DHKYIQVVYLHNN-NISAIGSNDFCPPGYNTKKASYSGVSLFSNP  283 (305)
T ss_dssp             TT-T----TCSSCCEEECCSS-CCCCCCTTSSSCSSCCTTSCCCSEEECCSSS
T ss_pred             cc-c----cccCCCEEECCCC-ccCccChhhccCcchhcccCCCCEEECCCCc
Confidence            22 1    5677777777774 56666431     123456778888888776

>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=99.74  E-value=3.4e-17  Score=152.38  Aligned_cols=195  Identities=25%  Similarity=0.264  Sum_probs=159.2

Q ss_pred             cccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEcc
Q 040303           87 FYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLY  166 (552)
Q Consensus        87 ~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~  166 (552)
                      ....++.+++.+.. +|... -+++++|++++|.+.  .+|.+.|.++++|++|++++|.++.+|. ++.+++|++|+++
T Consensus        11 ~~~~v~C~~~~L~~-iP~~l-p~~l~~L~Ls~N~i~--~l~~~~f~~l~~L~~L~L~~N~l~~l~~-~~~l~~L~~L~Ls   85 (266)
T d1p9ag_          11 SHLEVNCDKRNLTA-LPPDL-PKDTTILHLSENLLY--TFSLATLMPYTRLTQLNLDRAELTKLQV-DGTLPVLGTLDLS   85 (266)
T ss_dssp             TCCEEECTTSCCSS-CCSCC-CTTCCEEECTTSCCS--EEEGGGGTTCTTCCEEECTTSCCCEEEC-CSCCTTCCEEECC
T ss_pred             CCeEEEccCCCCCe-eCcCc-CcCCCEEECcCCcCC--CcCHHHhhcccccccccccccccccccc-ccccccccccccc
Confidence            34456777777776 66533 257999999998766  7887778999999999999999988874 5789999999999


Q ss_pred             CCCCCC-hhhhcCCCCccEEEecCCcCcccch-hhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhh
Q 040303          167 CSELQD-IAVIGELKNLEILCLRGSYIEQLPV-EIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVE  244 (552)
Q Consensus       167 ~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~-~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  244 (552)
                      +|.+.. +..+.++++|++|+++++.+..++. .+..+.++++|++.+|. +..++...+..+++|+.++++++..    
T Consensus        86 ~N~l~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~-l~~l~~~~~~~l~~l~~l~l~~N~l----  160 (266)
T d1p9ag_          86 HNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNE-LKTLPPGLLTPTPKLEKLSLANNNL----  160 (266)
T ss_dssp             SSCCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECTTSCC----
T ss_pred             cccccccccccccccccccccccccccceeeccccccccccccccccccc-cceeccccccccccchhcccccccc----
Confidence            999887 7888999999999999998877654 46678999999999986 7788887778899999999985543    


Q ss_pred             hhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcc-cccCCceEEEEecccc
Q 040303          245 VEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL-FFEKLERYRICIGRWC  297 (552)
Q Consensus       245 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~-~l~~L~~L~l~~~~~~  297 (552)
                            .......++.+++|++|++++|.+..+|.++ .+++|+.|.+.+++|.
T Consensus       161 ------~~~~~~~~~~l~~L~~L~Ls~N~L~~lp~~~~~~~~L~~L~L~~Np~~  208 (266)
T d1p9ag_         161 ------TELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPWL  208 (266)
T ss_dssp             ------SCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECCSCCBC
T ss_pred             ------cccCccccccccccceeecccCCCcccChhHCCCCCCCEEEecCCCCC
Confidence                  1223455788999999999999999999886 7889999998877653

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.72  E-value=9e-18  Score=160.58  Aligned_cols=126  Identities=19%  Similarity=0.258  Sum_probs=92.8

Q ss_pred             CCceEEEeecCCCCCc-ccChhHhhCCCCccEEEeec-cccc-cccchhcCCCCCcEEEccCCCCCC--hhhhcCCCCcc
Q 040303          109 PQLQLLSLWTEKSSLI-TLPDNFFRKLTQVRVLDLTY-MHLS-LLPSSLGLLTNLRTLCLYCSELQD--IAVIGELKNLE  183 (552)
Q Consensus       109 ~~Lr~L~l~~~~~~~~-~~~~~~~~~l~~Lr~L~l~~-~~~~-~lp~~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~  183 (552)
                      .+++.|+++++..... .+|.++ +++++|++|++++ +.+. .+|..|++|++|++|++++|.+..  +..+.++.+|+
T Consensus        50 ~~v~~L~L~~~~l~g~~~lp~~l-~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~  128 (313)
T d1ogqa_          50 YRVNNLDLSGLNLPKPYPIPSSL-ANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLV  128 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGG-GGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCC
T ss_pred             EEEEEEECCCCCCCCCCCCChHH-hcCccccccccccccccccccccccccccccchhhhccccccccccccccchhhhc
Confidence            3678888888765532 467766 7888888888876 4554 688888888888888888888765  56678888888


Q ss_pred             EEEecCCcCc-ccchhhccCCCCCEEeccCCCCCCccCcccccCCCCC-cEEEcc
Q 040303          184 ILCLRGSYIE-QLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHL-EELYIR  236 (552)
Q Consensus       184 ~L~l~~~~l~-~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L-~~L~l~  236 (552)
                      +++++++.+. .+|..++++++|+++++++|...+.+|.. ++.+.++ +.+++.
T Consensus       129 ~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~-~~~l~~l~~~l~~~  182 (313)
T d1ogqa_         129 TLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDS-YGSFSKLFTSMTIS  182 (313)
T ss_dssp             EEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGG-GGCCCTTCCEEECC
T ss_pred             ccccccccccccCchhhccCcccceeeccccccccccccc-cccccccccccccc
Confidence            8888887444 67778888888888888887755566765 5666655 555554

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.71  E-value=4.7e-16  Score=147.90  Aligned_cols=269  Identities=17%  Similarity=0.194  Sum_probs=175.4

Q ss_pred             CccEEEeeccccccccchhcCCCCCcEEEccCCCCCC-h-hhhcCCCCccEEEecCCcCccc-chhhccCCCCCEEeccC
Q 040303          136 QVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD-I-AVIGELKNLEILCLRGSYIEQL-PVEIGQLTRLRSLDLRD  212 (552)
Q Consensus       136 ~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~-~-~~i~~L~~L~~L~l~~~~l~~l-p~~i~~l~~L~~L~l~~  212 (552)
                      .++.+|-++.+++.+|..+.  +++++|++++|.++. + ..|.++++|++|+++++.+..+ |..+.++++|++|++++
T Consensus        11 ~~~~~~C~~~~L~~lP~~l~--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~   88 (305)
T d1xkua_          11 HLRVVQCSDLGLEKVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSK   88 (305)
T ss_dssp             ETTEEECTTSCCCSCCCSCC--TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             cCCEEEecCCCCCccCCCCC--CCCCEEECcCCcCCCcChhHhhccccccccccccccccccchhhhhCCCccCEecccC
Confidence            46788888888999998764  689999999999888 4 4789999999999999988877 45688999999999999


Q ss_pred             CCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEE
Q 040303          213 CDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRIC  292 (552)
Q Consensus       213 ~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~  292 (552)
                      |. ++.+|..   ....++.|+...+..          .......+.....+..+....+......              
T Consensus        89 n~-l~~l~~~---~~~~l~~L~~~~n~l----------~~l~~~~~~~~~~~~~l~~~~n~~~~~~--------------  140 (305)
T d1xkua_          89 NQ-LKELPEK---MPKTLQELRVHENEI----------TKVRKSVFNGLNQMIVVELGTNPLKSSG--------------  140 (305)
T ss_dssp             SC-CSBCCSS---CCTTCCEEECCSSCC----------CBBCHHHHTTCTTCCEEECCSSCCCGGG--------------
T ss_pred             Cc-cCcCccc---hhhhhhhhhccccch----------hhhhhhhhhccccccccccccccccccC--------------
Confidence            86 7788764   345677777653322          1112233444555555555543221110              


Q ss_pred             ecccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCCCCC
Q 040303          293 IGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQAPS  372 (552)
Q Consensus       293 ~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~~l  372 (552)
                                                  ........+++|+.+.+.++..   ..++.    ..+++|++|++.++..  
T Consensus       141 ----------------------------~~~~~~~~l~~L~~l~l~~n~l---~~l~~----~~~~~L~~L~l~~n~~--  183 (305)
T d1xkua_         141 ----------------------------IENGAFQGMKKLSYIRIADTNI---TTIPQ----GLPPSLTELHLDGNKI--  183 (305)
T ss_dssp             ----------------------------BCTTGGGGCTTCCEEECCSSCC---CSCCS----SCCTTCSEEECTTSCC--
T ss_pred             ----------------------------CCccccccccccCccccccCCc---cccCc----ccCCccCEEECCCCcC--
Confidence                                        0111122356777777776653   23221    2467888888887651  


Q ss_pred             CcchhhhhhcccccccceeeeccCCCCCccccccccCCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCcc
Q 040303          373 PKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGLPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELR  452 (552)
Q Consensus       373 p~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~  452 (552)
                                      ...          .......++.++.|.++++.+..+......    .+++|++|++++| +++
T Consensus       184 ----------------~~~----------~~~~~~~~~~l~~L~~s~n~l~~~~~~~~~----~l~~L~~L~L~~N-~L~  232 (305)
T d1xkua_         184 ----------------TKV----------DAASLKGLNNLAKLGLSFNSISAVDNGSLA----NTPHLRELHLNNN-KLV  232 (305)
T ss_dssp             ----------------CEE----------CTGGGTTCTTCCEEECCSSCCCEECTTTGG----GSTTCCEEECCSS-CCS
T ss_pred             ----------------CCC----------ChhHhhcccccccccccccccccccccccc----ccccceeeecccc-ccc
Confidence                            000          011224567788888888877776544333    6788888888886 788


Q ss_pred             ccccchhHhhhcccceEEEecCCchhhhhcccc-ccccccccCCccEEEecccc
Q 040303          453 CLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQ-QERKNVVFPQLQFLKMVDLE  505 (552)
Q Consensus       453 ~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~-~~~~~~~l~~L~~L~l~~c~  505 (552)
                      .+|.  .+..+++|++|+++++ +|+.+....- ..+.....++|+.|.|.+.|
T Consensus       233 ~lp~--~l~~l~~L~~L~Ls~N-~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~  283 (305)
T d1xkua_         233 KVPG--GLADHKYIQVVYLHNN-NISAIGSNDFCPPGYNTKKASYSGVSLFSNP  283 (305)
T ss_dssp             SCCT--TTTTCSSCCEEECCSS-CCCCCCTTSSSCSSCCTTSCCCSEEECCSSS
T ss_pred             cccc--ccccccCCCEEECCCC-ccCccChhhccCcchhcccCCCCEEECCCCc
Confidence            8865  4777888888888886 4666521110 00122345678888888876

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.70  E-value=6.5e-17  Score=154.53  Aligned_cols=222  Identities=19%  Similarity=0.155  Sum_probs=161.9

Q ss_pred             cCcccEEEeecCCCccc--CCCcc-CCCCceEEEeec-CCCCCcccChhHhhCCCCccEEEeeccccccc-cchhcCCCC
Q 040303           85 LKFYTSIVLHDSKMNVL--LPEVL-ECPQLQLLSLWT-EKSSLITLPDNFFRKLTQVRVLDLTYMHLSLL-PSSLGLLTN  159 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~--~~~~~-~~~~Lr~L~l~~-~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~l-p~~i~~l~~  159 (552)
                      ..+|+.|+++++.+.+.  +|... ++++|++|++++ |.... .+|.++ +++++|++|++++|.+..+ |..+..+.+
T Consensus        49 ~~~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g-~iP~~i-~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~  126 (313)
T d1ogqa_          49 TYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVG-PIPPAI-AKLTQLHYLYITHTNVSGAIPDFLSQIKT  126 (313)
T ss_dssp             CCCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEES-CCCGGG-GGCTTCSEEEEEEECCEEECCGGGGGCTT
T ss_pred             cEEEEEEECCCCCCCCCCCCChHHhcCcccccccccccccccc-cccccc-ccccccchhhhccccccccccccccchhh
Confidence            34689999999988752  55444 899999999987 44443 788886 8999999999999998754 566889999


Q ss_pred             CcEEEccCCCCCC--hhhhcCCCCccEEEecCCcCc-ccchhhccCCCC-CEEeccCCCCCCccCcccccCCCCCcEEEc
Q 040303          160 LRTLCLYCSELQD--IAVIGELKNLEILCLRGSYIE-QLPVEIGQLTRL-RSLDLRDCDRLQVIPPNVLSNLSHLEELYI  235 (552)
Q Consensus       160 L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~-~lp~~i~~l~~L-~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l  235 (552)
                      |+++++++|.+..  |..++++++|++++++++.+. .+|..++.+.++ +.++++.|...+..|.. ++.+..+ .+++
T Consensus       127 L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~-~~~l~~~-~l~l  204 (313)
T d1ogqa_         127 LVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPT-FANLNLA-FVDL  204 (313)
T ss_dssp             CCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGG-GGGCCCS-EEEC
T ss_pred             hcccccccccccccCchhhccCcccceeecccccccccccccccccccccccccccccccccccccc-ccccccc-cccc
Confidence            9999999998554  789999999999999999877 789999998886 78888887744444544 6666544 5776


Q ss_pred             cccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCc
Q 040303          236 RSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGT  315 (552)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~  315 (552)
                      ..+..          .......++.+++|+.+++..+.....+..+                                  
T Consensus       205 ~~~~~----------~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~~----------------------------------  240 (313)
T d1ogqa_         205 SRNML----------EGDASVLFGSDKNTQKIHLAKNSLAFDLGKV----------------------------------  240 (313)
T ss_dssp             CSSEE----------EECCGGGCCTTSCCSEEECCSSEECCBGGGC----------------------------------
T ss_pred             ccccc----------ccccccccccccccccccccccccccccccc----------------------------------
Confidence            53322          2235566778889999998877643322221                                  


Q ss_pred             ccccccchhHHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeecCC
Q 040303          316 DNCISFKSGHIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEGCQ  369 (552)
Q Consensus       316 ~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~  369 (552)
                                 ..+++|+.|+++++.-  ...+|..  +..+++|++|++++|.
T Consensus       241 -----------~~~~~L~~L~Ls~N~l--~g~iP~~--l~~L~~L~~L~Ls~N~  279 (313)
T d1ogqa_         241 -----------GLSKNLNGLDLRNNRI--YGTLPQG--LTQLKFLHSLNVSFNN  279 (313)
T ss_dssp             -----------CCCTTCCEEECCSSCC--EECCCGG--GGGCTTCCEEECCSSE
T ss_pred             -----------ccccccccccCccCee--cccCChH--HhCCCCCCEEECcCCc
Confidence                       0135666777766553  1133332  3567889999998876

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.69  E-value=3.9e-15  Score=144.44  Aligned_cols=132  Identities=20%  Similarity=0.286  Sum_probs=77.5

Q ss_pred             cccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEcc
Q 040303           87 FYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLY  166 (552)
Q Consensus        87 ~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~  166 (552)
                      ++++|+++++.+.. +|+.  .++|++|++++|...  .+|..    +.+|+.|++.++.++.++.-   ...|++|+++
T Consensus        39 ~l~~LdLs~~~L~~-lp~~--~~~L~~L~Ls~N~l~--~lp~~----~~~L~~L~l~~n~l~~l~~l---p~~L~~L~L~  106 (353)
T d1jl5a_          39 QAHELELNNLGLSS-LPEL--PPHLESLVASCNSLT--ELPEL----PQSLKSLLVDNNNLKALSDL---PPLLEYLGVS  106 (353)
T ss_dssp             TCSEEECTTSCCSC-CCSC--CTTCSEEECCSSCCS--SCCCC----CTTCCEEECCSSCCSCCCSC---CTTCCEEECC
T ss_pred             CCCEEEeCCCCCCC-CCCC--CCCCCEEECCCCCCc--ccccc----hhhhhhhhhhhcccchhhhh---cccccccccc
Confidence            46778888877765 6643  456777777766544  55542    35677777777766555421   1347777777


Q ss_pred             CCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcc
Q 040303          167 CSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       167 ~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                      +|.+...+.++++.+|++|+++++.+...|..+   ..+..+.+..+. .... .. ++.++.++.+.+.
T Consensus       107 ~n~l~~lp~~~~l~~L~~L~l~~~~~~~~~~~~---~~l~~l~~~~~~-~~~~-~~-l~~l~~l~~L~l~  170 (353)
T d1jl5a_         107 NNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLP---PSLEFIAAGNNQ-LEEL-PE-LQNLPFLTAIYAD  170 (353)
T ss_dssp             SSCCSSCCCCTTCTTCCEEECCSSCCSCCCCCC---TTCCEEECCSSC-CSSC-CC-CTTCTTCCEEECC
T ss_pred             ccccccccchhhhccceeecccccccccccccc---ccccchhhcccc-cccc-cc-ccccccceecccc
Confidence            777666334566777777777766665554332   344555554433 1111 12 4566666666655

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.68  E-value=2.3e-15  Score=146.10  Aligned_cols=313  Identities=20%  Similarity=0.173  Sum_probs=177.2

Q ss_pred             CCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCChhhhcCCCCccEEEec
Q 040303          109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLR  188 (552)
Q Consensus       109 ~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~l~  188 (552)
                      .+++.|+++++...  .+|+    ..++|++|++++|.++++|..+   .+|+.|+++++.++..+.+.  ++|++|+++
T Consensus        38 ~~l~~LdLs~~~L~--~lp~----~~~~L~~L~Ls~N~l~~lp~~~---~~L~~L~l~~n~l~~l~~lp--~~L~~L~L~  106 (353)
T d1jl5a_          38 RQAHELELNNLGLS--SLPE----LPPHLESLVASCNSLTELPELP---QSLKSLLVDNNNLKALSDLP--PLLEYLGVS  106 (353)
T ss_dssp             HTCSEEECTTSCCS--CCCS----CCTTCSEEECCSSCCSSCCCCC---TTCCEEECCSSCCSCCCSCC--TTCCEEECC
T ss_pred             cCCCEEEeCCCCCC--CCCC----CCCCCCEEECCCCCCcccccch---hhhhhhhhhhcccchhhhhc--ccccccccc
Confidence            36888999988654  6775    3578999999999999998754   57888899988877633221  469999999


Q ss_pred             CCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEE
Q 040303          189 GSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLE  268 (552)
Q Consensus       189 ~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~  268 (552)
                      +|.+..+|. ++++++|++|++.++. +...+..    ...+..+.+.....            .....++.++.++.+.
T Consensus       107 ~n~l~~lp~-~~~l~~L~~L~l~~~~-~~~~~~~----~~~l~~l~~~~~~~------------~~~~~l~~l~~l~~L~  168 (353)
T d1jl5a_         107 NNQLEKLPE-LQNSSFLKIIDVDNNS-LKKLPDL----PPSLEFIAAGNNQL------------EELPELQNLPFLTAIY  168 (353)
T ss_dssp             SSCCSSCCC-CTTCTTCCEEECCSSC-CSCCCCC----CTTCCEEECCSSCC------------SSCCCCTTCTTCCEEE
T ss_pred             ccccccccc-hhhhccceeecccccc-ccccccc----cccccchhhccccc------------cccccccccccceecc
Confidence            999998884 6789999999998876 4444442    34566666542221            1334567788899999


Q ss_pred             ccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcccccccchhHHHHhchheeeeecCCCCCcceee
Q 040303          269 LCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSGHIVQLQRIEDLCLSGLPDQDIIEL  348 (552)
Q Consensus       269 l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~  348 (552)
                      +..+....++....  ....+.......                      ...+  ....++.|+.+.+..+....+   
T Consensus       169 l~~n~~~~~~~~~~--~~~~l~~~~~~~----------------------~~~~--~~~~l~~L~~l~l~~n~~~~~---  219 (353)
T d1jl5a_         169 ADNNSLKKLPDLPL--SLESIVAGNNIL----------------------EELP--ELQNLPFLTTIYADNNLLKTL---  219 (353)
T ss_dssp             CCSSCCSSCCCCCT--TCCEEECCSSCC----------------------SSCC--CCTTCTTCCEEECCSSCCSSC---
T ss_pred             cccccccccccccc--cccccccccccc----------------------cccc--ccccccccccccccccccccc---
Confidence            98877665554321  111111100000                      0000  011346677777766544211   


Q ss_pred             eccccCcccccccEEEeecCC-CCCCcchhhhhhcccccccceeeeccCCCCCccccccccC-CCcccccccceeeeEec
Q 040303          349 VNNKLGSYSSQLKHLWVEGCQ-APSPKESKRCKESTSEMRSNEIILEDHVNVPNTFFLKGGL-PNLETLELYNVNVERIW  426 (552)
Q Consensus       349 ~~~~~~~~~~~L~~L~l~~c~-~~lp~~~~~~~~Li~~c~l~~l~~~~~~~~~~~~~~~~~~-~~L~~L~l~~~~l~~~~  426 (552)
                      +     ...+++..+.+.++. ...+.....+.         ..... ..    .......+ .......+..+.+..+.
T Consensus       220 ~-----~~~~~l~~~~~~~~~~~~~~~~~~~l~---------~~~~~-~~----~~~~l~~l~~~~~~~~~~~~~~~~~~  280 (353)
T d1jl5a_         220 P-----DLPPSLEALNVRDNYLTDLPELPQSLT---------FLDVS-EN----IFSGLSELPPNLYYLNASSNEIRSLC  280 (353)
T ss_dssp             C-----SCCTTCCEEECCSSCCSCCCCCCTTCC---------EEECC-SS----CCSEESCCCTTCCEEECCSSCCSEEC
T ss_pred             c-----ccccccccccccccccccccccccccc---------ccccc-cc----cccccccccchhcccccccCcccccc
Confidence            1     223556666666654 11111110000         00000 00    00000000 11122222222222221


Q ss_pred             cCCCCccccccCcceEEEEecCCCccccccchhHhhhcccceEEEecCCchhhhhccccccccccccCCccEEEeccccc
Q 040303          427 KSQLPAMSCGIQTLTRLIVYGCGELRCLFSSSIVNSFIRLQHLEIDECPILEEIIVIDQQERKNVVFPQLQFLKMVDLEK  506 (552)
Q Consensus       427 ~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~  506 (552)
                              ..+++|++|++++| +++.+|.     .+++|++|++.+| ++++++  +       .+++|++|++++|+ 
T Consensus       281 --------~~~~~L~~L~Ls~N-~l~~lp~-----~~~~L~~L~L~~N-~L~~l~--~-------~~~~L~~L~L~~N~-  335 (353)
T d1jl5a_         281 --------DLPPSLEELNVSNN-KLIELPA-----LPPRLERLIASFN-HLAEVP--E-------LPQNLKQLHVEYNP-  335 (353)
T ss_dssp             --------CCCTTCCEEECCSS-CCSCCCC-----CCTTCCEEECCSS-CCSCCC--C-------CCTTCCEEECCSSC-
T ss_pred             --------ccCCCCCEEECCCC-ccCcccc-----ccCCCCEEECCCC-cCCccc--c-------ccCCCCEEECcCCc-
Confidence                    14578888888876 5777764     3578888888776 466552  1       14578888888885 


Q ss_pred             cccccCCcccccCCCccEEEee
Q 040303          507 LTSFCTGDVHIEFPTLETLEVI  528 (552)
Q Consensus       507 L~~~~~~~~~~~~~~L~~L~i~  528 (552)
                      ++++|.  ++   ++|+.|++.
T Consensus       336 L~~lp~--~~---~~L~~L~~~  352 (353)
T d1jl5a_         336 LREFPD--IP---ESVEDLRMN  352 (353)
T ss_dssp             CSSCCC--CC---TTCCEEECC
T ss_pred             CCCCCc--cc---cccCeeECc
Confidence            777764  22   567777763

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=2e-15  Score=140.19  Aligned_cols=183  Identities=21%  Similarity=0.204  Sum_probs=151.7

Q ss_pred             ccccccCccccCcccEEEeecCCCcccCCCcc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccch
Q 040303           75 NSREWLDEGALKFYTSIVLHDSKMNVLLPEVL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSS  153 (552)
Q Consensus        75 ~~~~~~~~~~~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~  153 (552)
                      +....|. ..++++++|++++|.+....+..+ .+++|+.|++.+|...  .++.  +..+++|++|++++|.+...+..
T Consensus        21 ~L~~iP~-~lp~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~--~l~~--~~~l~~L~~L~Ls~N~l~~~~~~   95 (266)
T d1p9ag_          21 NLTALPP-DLPKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELT--KLQV--DGTLPVLGTLDLSHNQLQSLPLL   95 (266)
T ss_dssp             CCSSCCS-CCCTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCC--EEEC--CSCCTTCCEEECCSSCCSSCCCC
T ss_pred             CCCeeCc-CcCcCCCEEECcCCcCCCcCHHHhhcccccccccccccccc--cccc--ccccccccccccccccccccccc
Confidence            3444443 346789999999999988333444 8999999999999765  5654  46899999999999999999999


Q ss_pred             hcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEeccCCCCCCccCcccccCCCCC
Q 040303          154 LGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHL  230 (552)
Q Consensus       154 i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L  230 (552)
                      +.++++|++|+++++.+..  +..+..+.++++|+++++.+..+|.. +..+++|+.|++++|. +..++.+.++.+++|
T Consensus        96 ~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~-l~~~~~~~~~~l~~L  174 (266)
T d1p9ag_          96 GQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNN-LTELPAGLLNGLENL  174 (266)
T ss_dssp             TTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSC-CSCCCTTTTTTCTTC
T ss_pred             cccccccccccccccccceeeccccccccccccccccccccceeccccccccccchhccccccc-ccccCcccccccccc
Confidence            9999999999999999776  57788999999999999999988776 5668999999999987 778887768999999


Q ss_pred             cEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCC
Q 040303          231 EELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDV  274 (552)
Q Consensus       231 ~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  274 (552)
                      ++|+++++...           ..+..+..+++|+.|++++|..
T Consensus       175 ~~L~Ls~N~L~-----------~lp~~~~~~~~L~~L~L~~Np~  207 (266)
T d1p9ag_         175 DTLLLQENSLY-----------TIPKGFFGSHLLPFAFLHGNPW  207 (266)
T ss_dssp             CEEECCSSCCC-----------CCCTTTTTTCCCSEEECCSCCB
T ss_pred             ceeecccCCCc-----------ccChhHCCCCCCCEEEecCCCC
Confidence            99999865431           2455677889999999998864

>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=99.63  E-value=4.6e-15  Score=139.28  Aligned_cols=207  Identities=23%  Similarity=0.336  Sum_probs=167.3

Q ss_pred             ccccccCccccCcccEEEeecCCCcccCCC-cc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecc-ccccc-
Q 040303           75 NSREWLDEGALKFYTSIVLHDSKMNVLLPE-VL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYM-HLSLL-  150 (552)
Q Consensus        75 ~~~~~~~~~~~~~lr~L~l~~~~~~~~~~~-~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~-~~~~l-  150 (552)
                      +...+|. ..+..++.|++++|.+.. ++. .+ .+++|+.|+++++...  .++...+..+..++.++...+ .+..+ 
T Consensus        22 ~L~~iP~-~ip~~~~~L~Ls~N~i~~-i~~~~f~~l~~L~~L~ls~n~l~--~i~~~~~~~~~~~~~l~~~~~~~~~~l~   97 (284)
T d1ozna_          22 GLQAVPV-GIPAASQRIFLHGNRISH-VPAASFRACRNLTILWLHSNVLA--RIDAAAFTGLALLEQLDLSDNAQLRSVD   97 (284)
T ss_dssp             CCSSCCT-TCCTTCSEEECTTSCCCE-ECTTTTTTCTTCCEEECCSSCCC--EECTTTTTTCTTCCEEECCSCTTCCCCC
T ss_pred             CCCccCC-CCCCCCCEEECcCCcCCC-CCHHHhhcccccccccccccccc--cccccccccccccccccccccccccccc
Confidence            3445443 356789999999999987 553 34 8999999999988765  677777788899999987644 56666 


Q ss_pred             cchhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEeccCCCCCCccCcccccCC
Q 040303          151 PSSLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCDRLQVIPPNVLSNL  227 (552)
Q Consensus       151 p~~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~~~~~~~~~~l~~l  227 (552)
                      |..++++++|++|+++++.+..  +..+....+|++++++++.++.+|.. +..+++|++|++++|. +..++...+..+
T Consensus        98 ~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~-l~~l~~~~f~~l  176 (284)
T d1ozna_          98 PATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNR-ISSVPERAFRGL  176 (284)
T ss_dssp             TTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCEECTTTTTTC
T ss_pred             chhhcccccCCEEecCCcccccccccccchhcccchhhhccccccccChhHhccccchhhcccccCc-ccccchhhhccc
Confidence            5668999999999999999765  56788899999999999999988754 6778999999999987 788887778999


Q ss_pred             CCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcc--cccCCceEEEEeccc
Q 040303          228 SHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGL--FFEKLERYRICIGRW  296 (552)
Q Consensus       228 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~--~l~~L~~L~l~~~~~  296 (552)
                      ++|+.+++.++..          .......++.+++|+.|+++.|.+..++...  .+++|+.+.+.++.|
T Consensus       177 ~~L~~l~l~~N~l----------~~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~~N~l  237 (284)
T d1ozna_         177 HSLDRLLLHQNRV----------AHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPW  237 (284)
T ss_dssp             TTCCEEECCSSCC----------CEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCE
T ss_pred             cccchhhhhhccc----------cccChhHhhhhhhcccccccccccccccccccccccccCEEEecCCCC
Confidence            9999999985543          1224567899999999999999988888653  788899988876653

>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=99.63  E-value=2.5e-15  Score=134.06  Aligned_cols=164  Identities=28%  Similarity=0.373  Sum_probs=109.6

Q ss_pred             cCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEE
Q 040303           85 LKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLC  164 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~  164 (552)
                      ..++++|++.++.+.. ++....+++|++|++++|...  .++.  +..+++|++|++++|.++.+| .+.++++|++|+
T Consensus        45 L~~L~~L~l~~~~i~~-l~~l~~l~~L~~L~L~~n~i~--~l~~--~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~  118 (210)
T d1h6ta2          45 LNSIDQIIANNSDIKS-VQGIQYLPNVTKLFLNGNKLT--DIKP--LANLKNLGWLFLDENKVKDLS-SLKDLKKLKSLS  118 (210)
T ss_dssp             HHTCCEEECTTSCCCC-CTTGGGCTTCCEEECCSSCCC--CCGG--GTTCTTCCEEECCSSCCCCGG-GGTTCTTCCEEE
T ss_pred             hcCccEEECcCCCCCC-chhHhhCCCCCEEeCCCcccc--Cccc--cccCccccccccccccccccc-cccccccccccc
Confidence            4567778888777766 555556777777777777554  4443  366777777777777777665 467777777777


Q ss_pred             ccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhh
Q 040303          165 LYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVE  244 (552)
Q Consensus       165 l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  244 (552)
                      ++++.+..+..+..+++|+.++++++.+...+ .+.++++|+++++++|. +..++.  ++++++|++|+++++..    
T Consensus       119 l~~~~~~~~~~l~~l~~l~~l~~~~n~l~~~~-~~~~l~~L~~l~l~~n~-l~~i~~--l~~l~~L~~L~Ls~N~i----  190 (210)
T d1h6ta2         119 LEHNGISDINGLVHLPQLESLYLGNNKITDIT-VLSRLTKLDTLSLEDNQ-ISDIVP--LAGLTKLQNLYLSKNHI----  190 (210)
T ss_dssp             CTTSCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCC----
T ss_pred             cccccccccccccccccccccccccccccccc-ccccccccccccccccc-cccccc--ccCCCCCCEEECCCCCC----
Confidence            77777666666777777777777777666543 46667777777777765 455553  56777777777764432    


Q ss_pred             hhhhcccccChhhhcCCCCCcEEEcc
Q 040303          245 VEAAGVKNASLEELKRLPNLTTLELC  270 (552)
Q Consensus       245 ~~~~~~~~~~~~~l~~l~~L~~L~l~  270 (552)
                              ..+..+..+++|+.|+++
T Consensus       191 --------~~l~~l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         191 --------SDLRALAGLKNLDVLELF  208 (210)
T ss_dssp             --------CBCGGGTTCTTCSEEEEE
T ss_pred             --------CCChhhcCCCCCCEEEcc
Confidence                    012346666777777665

>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=99.63  E-value=2.5e-15  Score=132.91  Aligned_cols=142  Identities=23%  Similarity=0.341  Sum_probs=65.4

Q ss_pred             cCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEE
Q 040303           85 LKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLC  164 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~  164 (552)
                      ..+++.|+++++.+.. ++....+++|++|++++|...  .++.  ++++++|++|++++|.+..++ .++++.+|++|+
T Consensus        39 l~~l~~L~l~~~~i~~-l~~l~~l~nL~~L~Ls~N~l~--~~~~--l~~l~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~  112 (199)
T d2omxa2          39 LDQVTTLQADRLGIKS-IDGVEYLNNLTQINFSNNQLT--DITP--LKNLTKLVDILMNNNQIADIT-PLANLTNLTGLT  112 (199)
T ss_dssp             HTTCCEEECTTSCCCC-CTTGGGCTTCCEEECCSSCCC--CCGG--GTTCTTCCEEECCSSCCCCCG-GGTTCTTCSEEE
T ss_pred             hcCCCEEECCCCCCCC-ccccccCCCcCcCcccccccc--Cccc--ccCCccccccccccccccccc-cccccccccccc
Confidence            3455555555555544 333334455555555544332  2222  244555555555555444443 244455555555


Q ss_pred             ccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEcc
Q 040303          165 LYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       165 l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                      ++++.......+.++++|+.|++++|.+..+| .+..+++|+.|++.+|. +..+++  ++++++|++|+++
T Consensus       113 l~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~-~l~~~~~L~~L~l~~n~-l~~l~~--l~~l~~L~~L~ls  180 (199)
T d2omxa2         113 LFNNQITDIDPLKNLTNLNRLELSSNTISDIS-ALSGLTSLQQLNFSSNQ-VTDLKP--LANLTTLERLDIS  180 (199)
T ss_dssp             CCSSCCCCCGGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCSEEECCSSC-CCCCGG--GTTCTTCCEEECC
T ss_pred             ccccccccccccchhhhhHHhhhhhhhhcccc-ccccccccccccccccc-ccCCcc--ccCCCCCCEEECC
Confidence            54444444333444455555555544444432 34444455555554443 333332  3444444444444

>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=99.63  E-value=4.5e-15  Score=131.19  Aligned_cols=176  Identities=22%  Similarity=0.269  Sum_probs=140.2

Q ss_pred             EeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCC
Q 040303           92 VLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQ  171 (552)
Q Consensus        92 ~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~  171 (552)
                      .+..+.+.+ ......+++++.|++.++...  +++.  ++.+++|++|++++|.++.++. ++++++|++|++++|.+.
T Consensus        24 ~l~~~~~~~-~~~~~~l~~l~~L~l~~~~i~--~l~~--l~~l~nL~~L~Ls~N~l~~~~~-l~~l~~L~~L~l~~n~~~   97 (199)
T d2omxa2          24 VLGKTNVTD-TVSQTDLDQVTTLQADRLGIK--SIDG--VEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIA   97 (199)
T ss_dssp             HTTCSSTTS-EECHHHHTTCCEEECTTSCCC--CCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCC
T ss_pred             HhCCCCCCC-ccCHHHhcCCCEEECCCCCCC--Cccc--cccCCCcCcCccccccccCccc-ccCCcccccccccccccc
Confidence            344444444 222336789999999998765  4543  4789999999999999988865 899999999999999988


Q ss_pred             ChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhccc
Q 040303          172 DIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVK  251 (552)
Q Consensus       172 ~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~  251 (552)
                      ..+.+.++++|++|+++++.+..++ .+..+++|+.|++++|. +..++.  +..+++|+.|++.++..           
T Consensus        98 ~~~~l~~l~~L~~L~l~~~~~~~~~-~~~~l~~L~~L~l~~n~-l~~~~~--l~~~~~L~~L~l~~n~l-----------  162 (199)
T d2omxa2          98 DITPLANLTNLTGLTLFNNQITDID-PLKNLTNLNRLELSSNT-ISDISA--LSGLTSLQQLNFSSNQV-----------  162 (199)
T ss_dssp             CCGGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCSEEECCSSC-CCCCGG--GTTCTTCSEEECCSSCC-----------
T ss_pred             ccccccccccccccccccccccccc-ccchhhhhHHhhhhhhh-hccccc--ccccccccccccccccc-----------
Confidence            8667999999999999999877764 68889999999999987 666664  78999999999985433           


Q ss_pred             ccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceE
Q 040303          252 NASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERY  289 (552)
Q Consensus       252 ~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L  289 (552)
                       ..+..++++++|+.|++++|.+..++.-..+++|++|
T Consensus       163 -~~l~~l~~l~~L~~L~ls~N~i~~i~~l~~L~~L~~L  199 (199)
T d2omxa2         163 -TDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESL  199 (199)
T ss_dssp             -CCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEE
T ss_pred             -cCCccccCCCCCCEEECCCCCCCCCccccCCCCCCcC
Confidence             1345689999999999999998887654477777765

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.61  E-value=1.8e-14  Score=130.24  Aligned_cols=188  Identities=22%  Similarity=0.289  Sum_probs=156.2

Q ss_pred             cccCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcE
Q 040303           83 GALKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRT  162 (552)
Q Consensus        83 ~~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~  162 (552)
                      ....+++.|++.++.+.. ++....+++|++|++++|...  .++.  +.++++|++++++++.++.++ .+.++++|++
T Consensus        38 ~~l~~L~~L~l~~~~i~~-l~~l~~l~~L~~L~ls~n~i~--~~~~--l~~l~~l~~l~~~~n~~~~i~-~l~~l~~L~~  111 (227)
T d1h6ua2          38 ADLDGITTLSAFGTGVTT-IEGVQYLNNLIGLELKDNQIT--DLAP--LKNLTKITELELSGNPLKNVS-AIAGLQSIKT  111 (227)
T ss_dssp             HHHHTCCEEECTTSCCCC-CTTGGGCTTCCEEECCSSCCC--CCGG--GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCE
T ss_pred             HHcCCcCEEECCCCCCCc-chhHhcCCCCcEeecCCceee--cccc--ccccccccccccccccccccc-cccccccccc
Confidence            346789999999999987 777779999999999998765  4443  589999999999999888775 5889999999


Q ss_pred             EEccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccch
Q 040303          163 LCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWE  242 (552)
Q Consensus       163 L~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  242 (552)
                      ++++++.......+.....++.+.++++.+...+ .+..+++|++|++.+|. +...+.  ++++++|++|+++++..  
T Consensus       112 l~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~L~~L~l~~n~-~~~~~~--l~~l~~L~~L~Ls~n~l--  185 (227)
T d1h6ua2         112 LDLTSTQITDVTPLAGLSNLQVLYLDLNQITNIS-PLAGLTNLQYLSIGNAQ-VSDLTP--LANLSKLTTLKADDNKI--  185 (227)
T ss_dssp             EECTTSCCCCCGGGTTCTTCCEEECCSSCCCCCG-GGGGCTTCCEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCC--
T ss_pred             cccccccccccchhccccchhhhhchhhhhchhh-hhccccccccccccccc-cccchh--hcccccceecccCCCcc--
Confidence            9999998877777888999999999998877653 57788999999999886 555544  78999999999985533  


Q ss_pred             hhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEE
Q 040303          243 VEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRIC  292 (552)
Q Consensus       243 ~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~  292 (552)
                                ..+..++.+++|++|++++|.+..++.--.+++|+.|.++
T Consensus       186 ----------~~l~~l~~l~~L~~L~Ls~N~lt~i~~l~~l~~L~~L~ls  225 (227)
T d1h6ua2         186 ----------SDISPLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLT  225 (227)
T ss_dssp             ----------CCCGGGGGCTTCCEEECTTSCCCBCGGGTTCTTCCEEEEE
T ss_pred             ----------CCChhhcCCCCCCEEECcCCcCCCCcccccCCCCCEEEee
Confidence                      1245688999999999999998888764478889888875

>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=99.59  E-value=2.1e-14  Score=127.95  Aligned_cols=166  Identities=22%  Similarity=0.250  Sum_probs=139.0

Q ss_pred             CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCChhhhcCCCCccEEE
Q 040303          107 ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILC  186 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~  186 (552)
                      .+..|+.|++.++...  .++.  +..+++|++|++++|.++.++ .++.+++|++|++++|.++..+.+.++++|++|+
T Consensus        44 ~L~~L~~L~l~~~~i~--~l~~--l~~l~~L~~L~L~~n~i~~l~-~~~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~  118 (210)
T d1h6ta2          44 ELNSIDQIIANNSDIK--SVQG--IQYLPNVTKLFLNGNKLTDIK-PLANLKNLGWLFLDENKVKDLSSLKDLKKLKSLS  118 (210)
T ss_dssp             HHHTCCEEECTTSCCC--CCTT--GGGCTTCCEEECCSSCCCCCG-GGTTCTTCCEEECCSSCCCCGGGGTTCTTCCEEE
T ss_pred             HhcCccEEECcCCCCC--Cchh--HhhCCCCCEEeCCCccccCcc-ccccCccccccccccccccccccccccccccccc
Confidence            4678999999988764  4443  478999999999999999887 4789999999999999999877899999999999


Q ss_pred             ecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcE
Q 040303          187 LRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTT  266 (552)
Q Consensus       187 l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~  266 (552)
                      ++++.+..++ .+..+++++.++++++. +...+.  +..+++|+++++.++..            .....+.++++|++
T Consensus       119 l~~~~~~~~~-~l~~l~~l~~l~~~~n~-l~~~~~--~~~l~~L~~l~l~~n~l------------~~i~~l~~l~~L~~  182 (210)
T d1h6ta2         119 LEHNGISDIN-GLVHLPQLESLYLGNNK-ITDITV--LSRLTKLDTLSLEDNQI------------SDIVPLAGLTKLQN  182 (210)
T ss_dssp             CTTSCCCCCG-GGGGCTTCCEEECCSSC-CCCCGG--GGGCTTCSEEECCSSCC------------CCCGGGTTCTTCCE
T ss_pred             cccccccccc-ccccccccccccccccc-cccccc--ccccccccccccccccc------------cccccccCCCCCCE
Confidence            9999888775 68899999999999876 555554  68899999999985543            12446889999999


Q ss_pred             EEccCCCCCcCCCcccccCCceEEEEe
Q 040303          267 LELCIPDVNTLPKGLFFEKLERYRICI  293 (552)
Q Consensus       267 L~l~~~~~~~~p~~~~l~~L~~L~l~~  293 (552)
                      |++++|.+..+|.-..+++|+.|+++.
T Consensus       183 L~Ls~N~i~~l~~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         183 LYLSKNHISDLRALAGLKNLDVLELFS  209 (210)
T ss_dssp             EECCSSCCCBCGGGTTCTTCSEEEEEE
T ss_pred             EECCCCCCCCChhhcCCCCCCEEEccC
Confidence            999999998887544889999998853

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.55  E-value=9.4e-15  Score=132.18  Aligned_cols=209  Identities=21%  Similarity=0.248  Sum_probs=139.2

Q ss_pred             cCcccEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEE
Q 040303           85 LKFYTSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLC  164 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~  164 (552)
                      ..++..+++..+.+.+ ......+.+|+.|.+.++...  +++ . +.++++|++|++++|.+..++. +.++.+|++++
T Consensus        18 l~~~~~~~l~~~~~~d-~~~~~~l~~L~~L~l~~~~i~--~l~-~-l~~l~~L~~L~ls~n~i~~~~~-l~~l~~l~~l~   91 (227)
T d1h6ua2          18 LANAIKIAAGKSNVTD-TVTQADLDGITTLSAFGTGVT--TIE-G-VQYLNNLIGLELKDNQITDLAP-LKNLTKITELE   91 (227)
T ss_dssp             HHHHHHHHTTCSSTTS-EECHHHHHTCCEEECTTSCCC--CCT-T-GGGCTTCCEEECCSSCCCCCGG-GTTCCSCCEEE
T ss_pred             HHHHHHHHhCCCCcCC-cCCHHHcCCcCEEECCCCCCC--cch-h-HhcCCCCcEeecCCceeecccc-ccccccccccc
Confidence            3334444454455444 223335678888888877654  553 3 4778888888888888776643 77888888888


Q ss_pred             ccCCCCCChhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhh
Q 040303          165 LYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVE  244 (552)
Q Consensus       165 l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  244 (552)
                      +++|.++..+.+.++++|++++++++....++ .+.....++.+.+..+. +.....  +..+++|++|++.++..    
T Consensus        92 ~~~n~~~~i~~l~~l~~L~~l~l~~~~~~~~~-~~~~~~~~~~l~~~~~~-~~~~~~--~~~~~~L~~L~l~~n~~----  163 (227)
T d1h6ua2          92 LSGNPLKNVSAIAGLQSIKTLDLTSTQITDVT-PLAGLSNLQVLYLDLNQ-ITNISP--LAGLTNLQYLSIGNAQV----  163 (227)
T ss_dssp             CCSCCCSCCGGGTTCTTCCEEECTTSCCCCCG-GGTTCTTCCEEECCSSC-CCCCGG--GGGCTTCCEEECCSSCC----
T ss_pred             cccccccccccccccccccccccccccccccc-hhccccchhhhhchhhh-hchhhh--hcccccccccccccccc----
Confidence            88887777667788888888888887666553 45667778888877765 333332  56777888888764432    


Q ss_pred             hhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceEEEEecccccCCCCCCcccceeeecCcccccccchh
Q 040303          245 VEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCISFKSG  324 (552)
Q Consensus       245 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~  324 (552)
                              .....++++++|+.|++++|.+..++.                                             
T Consensus       164 --------~~~~~l~~l~~L~~L~Ls~n~l~~l~~---------------------------------------------  190 (227)
T d1h6ua2         164 --------SDLTPLANLSKLTTLKADDNKISDISP---------------------------------------------  190 (227)
T ss_dssp             --------CCCGGGTTCTTCCEEECCSSCCCCCGG---------------------------------------------
T ss_pred             --------ccchhhcccccceecccCCCccCCChh---------------------------------------------
Confidence                    123447778888888888776654432                                             


Q ss_pred             HHHHhchheeeeecCCCCCcceeeeccccCcccccccEEEeec
Q 040303          325 HIVQLQRIEDLCLSGLPDQDIIELVNNKLGSYSSQLKHLWVEG  367 (552)
Q Consensus       325 ~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~  367 (552)
                       ...+++|++|+++++.   +.++++   .+.+++|+.|+|++
T Consensus       191 -l~~l~~L~~L~Ls~N~---lt~i~~---l~~l~~L~~L~lsn  226 (227)
T d1h6ua2         191 -LASLPNLIEVHLKNNQ---ISDVSP---LANTSNLFIVTLTN  226 (227)
T ss_dssp             -GGGCTTCCEEECTTSC---CCBCGG---GTTCTTCCEEEEEE
T ss_pred             -hcCCCCCCEEECcCCc---CCCCcc---cccCCCCCEEEeeC
Confidence             1135778888887764   444442   35788999998874

>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=99.54  E-value=1.4e-13  Score=128.86  Aligned_cols=190  Identities=20%  Similarity=0.228  Sum_probs=145.2

Q ss_pred             EEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccc-hhcCCCCCcEEEccCC
Q 040303           90 SIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPS-SLGLLTNLRTLCLYCS  168 (552)
Q Consensus        90 ~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~-~i~~l~~L~~L~l~~~  168 (552)
                      .+..++..+.. +|... .+.+++|++++|.+.  .+|...|.+++.|++|+++++.+..++. .+..+..++.+....+
T Consensus        15 ~v~c~~~~L~~-iP~~i-p~~~~~L~Ls~N~i~--~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~   90 (284)
T d1ozna_          15 TTSCPQQGLQA-VPVGI-PAASQRIFLHGNRIS--HVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDN   90 (284)
T ss_dssp             EEECCSSCCSS-CCTTC-CTTCSEEECTTSCCC--EECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSC
T ss_pred             EEEcCCCCCCc-cCCCC-CCCCCEEECcCCcCC--CCCHHHhhccccccccccccccccccccccccccccccccccccc
Confidence            34555555555 55433 257899999998775  7888778999999999999999876544 4577889999987655


Q ss_pred             C-CCC--hhhhcCCCCccEEEecCCcCcccch-hhccCCCCCEEeccCCCCCCccCcccccCCCCCcEEEccccccchhh
Q 040303          169 E-LQD--IAVIGELKNLEILCLRGSYIEQLPV-EIGQLTRLRSLDLRDCDRLQVIPPNVLSNLSHLEELYIRSFNKWEVE  244 (552)
Q Consensus       169 ~-~~~--~~~i~~L~~L~~L~l~~~~l~~lp~-~i~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  244 (552)
                      . +..  +..+.++++|++|+++++.+..++. .+....+|+.++++++. ++.++...+..+++|++|++.++..    
T Consensus        91 ~~~~~l~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~-l~~i~~~~f~~~~~L~~L~l~~N~l----  165 (284)
T d1ozna_          91 AQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNA-LQALPDDTFRDLGNLTHLFLHGNRI----  165 (284)
T ss_dssp             TTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCC----
T ss_pred             cccccccchhhcccccCCEEecCCcccccccccccchhcccchhhhcccc-ccccChhHhccccchhhcccccCcc----
Confidence            4 655  6789999999999999998876655 46678899999999987 7888877688999999999985543    


Q ss_pred             hhhhcccccChhhhcCCCCCcEEEccCCCCCcCC-Ccc-cccCCceEEEEec
Q 040303          245 VEAAGVKNASLEELKRLPNLTTLELCIPDVNTLP-KGL-FFEKLERYRICIG  294 (552)
Q Consensus       245 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p-~~~-~l~~L~~L~l~~~  294 (552)
                            .......+.++++|+.+.++.|.+..++ ..+ .+++|+.|+++.+
T Consensus       166 ------~~l~~~~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N  211 (284)
T d1ozna_         166 ------SSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFAN  211 (284)
T ss_dssp             ------CEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS
T ss_pred             ------cccchhhhccccccchhhhhhccccccChhHhhhhhhccccccccc
Confidence                  1123456788999999999999877664 444 6677877776543

>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=99.47  E-value=1.5e-13  Score=110.51  Aligned_cols=99  Identities=25%  Similarity=0.300  Sum_probs=58.3

Q ss_pred             eEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCChhhhcCCCCccEEEecCCc
Q 040303          112 QLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSY  191 (552)
Q Consensus       112 r~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~l~~~~  191 (552)
                      |+|++++|...  .++.  +.++++|++|++++|.++.+|..++.+++|++|++++|.++..+.++++++|++|++++|+
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~~N~   76 (124)
T d1dcea3           1 RVLHLAHKDLT--VLCH--LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLCNNR   76 (124)
T ss_dssp             SEEECTTSCCS--SCCC--GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEECCSSC
T ss_pred             CEEEcCCCCCC--CCcc--cccCCCCCEEECCCCccCcchhhhhhhhcccccccccccccccCccccccccCeEECCCCc
Confidence            44555555443  3332  3556666666666666666666666666666666666666654456666666666666666


Q ss_pred             Ccccch--hhccCCCCCEEeccCCC
Q 040303          192 IEQLPV--EIGQLTRLRSLDLRDCD  214 (552)
Q Consensus       192 l~~lp~--~i~~l~~L~~L~l~~~~  214 (552)
                      +..+|.  .++.+++|++|++++|.
T Consensus        77 i~~~~~~~~l~~~~~L~~L~l~~N~  101 (124)
T d1dcea3          77 LQQSAAIQPLVSCPRLVLLNLQGNS  101 (124)
T ss_dssp             CCSSSTTGGGGGCTTCCEEECTTSG
T ss_pred             cCCCCCchhhcCCCCCCEEECCCCc
Confidence            655542  35556666666666654

>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=99.45  E-value=3e-13  Score=108.67  Aligned_cols=99  Identities=26%  Similarity=0.295  Sum_probs=81.3

Q ss_pred             cEEEeeccccccccchhcCCCCCcEEEccCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEEeccCCCCC
Q 040303          138 RVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSLDLRDCDRL  216 (552)
Q Consensus       138 r~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L~l~~~~~~  216 (552)
                      |+|++++|+++.++ .++++.+|++|++++|.++. |+.++.+++|++|++++|.++.+| +++++++|++|++++|. +
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~~N~-i   77 (124)
T d1dcea3           1 RVLHLAHKDLTVLC-HLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCNNR-L   77 (124)
T ss_dssp             SEEECTTSCCSSCC-CGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSSC-C
T ss_pred             CEEEcCCCCCCCCc-ccccCCCCCEEECCCCccCcchhhhhhhhcccccccccccccccC-ccccccccCeEECCCCc-c
Confidence            78999999998886 48899999999999999888 778899999999999999988886 58889999999998877 6


Q ss_pred             CccCc-ccccCCCCCcEEEccccc
Q 040303          217 QVIPP-NVLSNLSHLEELYIRSFN  239 (552)
Q Consensus       217 ~~~~~-~~l~~l~~L~~L~l~~~~  239 (552)
                      ..++. ..++.+++|+.|++.++.
T Consensus        78 ~~~~~~~~l~~~~~L~~L~l~~N~  101 (124)
T d1dcea3          78 QQSAAIQPLVSCPRLVLLNLQGNS  101 (124)
T ss_dssp             CSSSTTGGGGGCTTCCEEECTTSG
T ss_pred             CCCCCchhhcCCCCCCEEECCCCc
Confidence            65553 236777888888877443

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=1.6e-12  Score=118.46  Aligned_cols=73  Identities=16%  Similarity=0.245  Sum_probs=37.1

Q ss_pred             cEEEeeccccccccchhcCCCCCcEEEccCCCCCC-h-hhhcCCCCccEEEecCCcCcc-cch-hhccCCCCCEEeccC
Q 040303          138 RVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD-I-AVIGELKNLEILCLRGSYIEQ-LPV-EIGQLTRLRSLDLRD  212 (552)
Q Consensus       138 r~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~-~-~~i~~L~~L~~L~l~~~~l~~-lp~-~i~~l~~L~~L~l~~  212 (552)
                      ++++.++..++.+|..+-  .++++|++++|.++. | ..+.++++|++|++++|.+.. +|. .+..+++++++.+..
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~~~~   87 (242)
T d1xwdc1          11 RVFLCQESKVTEIPSDLP--RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEK   87 (242)
T ss_dssp             SEEEEESCSCSSCCSCSC--SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEEC
T ss_pred             CEEEEeCCCCCCcCCCCC--CCCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeeccccccccccccccccc
Confidence            566666666666665442  355666665555544 2 234555555555555554332 222 234445555554443

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=3.5e-14  Score=132.75  Aligned_cols=98  Identities=24%  Similarity=0.208  Sum_probs=51.6

Q ss_pred             cEEEeeccccccccchhcCC--CCCcEEEccCCCCCC-hhhhcCCCCccEEEecCCcCc--ccchhhccCCCCCEEeccC
Q 040303          138 RVLDLTYMHLSLLPSSLGLL--TNLRTLCLYCSELQD-IAVIGELKNLEILCLRGSYIE--QLPVEIGQLTRLRSLDLRD  212 (552)
Q Consensus       138 r~L~l~~~~~~~lp~~i~~l--~~L~~L~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~--~lp~~i~~l~~L~~L~l~~  212 (552)
                      +.||++++.+.  |..++.+  .....+.+..+.+.. ........+|++||+++|.+.  .++.-+.++++|++|++++
T Consensus         3 ~~lDLs~~~l~--~~~l~~l~~~~~~~lrl~~~~~~~~~~~~~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~   80 (284)
T d2astb2           3 QTLDLTGKNLH--PDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEG   80 (284)
T ss_dssp             SEEECTTCBCC--HHHHHHHHHTTCSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTT
T ss_pred             CEEECCCCCCC--chHHHHHHhccceEeeccccccccchhhhccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccc
Confidence            46777776553  2222211  134455555444333 233344556777777776554  3444456667777777776


Q ss_pred             CCCCCccCcccccCCCCCcEEEcccc
Q 040303          213 CDRLQVIPPNVLSNLSHLEELYIRSF  238 (552)
Q Consensus       213 ~~~~~~~~~~~l~~l~~L~~L~l~~~  238 (552)
                      |......+.. ++++++|++|+++++
T Consensus        81 ~~l~~~~~~~-l~~~~~L~~L~Ls~c  105 (284)
T d2astb2          81 LRLSDPIVNT-LAKNSNLVRLNLSGC  105 (284)
T ss_dssp             CBCCHHHHHH-HTTCTTCSEEECTTC
T ss_pred             cCCCcHHHHH-HhcCCCCcCcccccc
Confidence            6522223333 455666666666543

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=6.4e-14  Score=130.99  Aligned_cols=124  Identities=16%  Similarity=0.176  Sum_probs=81.3

Q ss_pred             eEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC---hhhhcCCCCccEEEec
Q 040303          112 QLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD---IAVIGELKNLEILCLR  188 (552)
Q Consensus       112 r~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~---~~~i~~L~~L~~L~l~  188 (552)
                      ++++++++.... .....++.  ..+..+.+..+.+............|++|++++|.+..   ...+.++++|++|+++
T Consensus         3 ~~lDLs~~~l~~-~~l~~l~~--~~~~~lrl~~~~~~~~~~~~~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~   79 (284)
T d2astb2           3 QTLDLTGKNLHP-DVTGRLLS--QGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLE   79 (284)
T ss_dssp             SEEECTTCBCCH-HHHHHHHH--TTCSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECT
T ss_pred             CEEECCCCCCCc-hHHHHHHh--ccceEeeccccccccchhhhccCCCCCEEECCCCccCHHHHHHHHHhCCCccccccc
Confidence            467777654321 22222322  24566666665544433444567799999999988765   3557889999999999


Q ss_pred             CCcCc-ccchhhccCCCCCEEeccCCCCCCccCc-ccccCCCCCcEEEcccc
Q 040303          189 GSYIE-QLPVEIGQLTRLRSLDLRDCDRLQVIPP-NVLSNLSHLEELYIRSF  238 (552)
Q Consensus       189 ~~~l~-~lp~~i~~l~~L~~L~l~~~~~~~~~~~-~~l~~l~~L~~L~l~~~  238 (552)
                      +|.+. ..+..+.++++|++|++++|..++.... .+...+++|++|+++++
T Consensus        80 ~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~~L~ls~c  131 (284)
T d2astb2          80 GLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWC  131 (284)
T ss_dssp             TCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCC
T ss_pred             ccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHhccccccccc
Confidence            99776 5566788899999999999865543211 11345677777777644

>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=99.41  E-value=1.7e-13  Score=115.98  Aligned_cols=127  Identities=17%  Similarity=0.157  Sum_probs=73.8

Q ss_pred             CccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC-h-hhhcCCCC
Q 040303          104 EVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD-I-AVIGELKN  181 (552)
Q Consensus       104 ~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~-~-~~i~~L~~  181 (552)
                      .+.+..++|.|++++|.+.  .++. ++..+++|++|++++|.+..++ .+..+++|++|++++|.+.. + ..+..+++
T Consensus        13 ~~~n~~~lr~L~L~~n~I~--~i~~-~~~~l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~   88 (162)
T d1a9na_          13 QYTNAVRDRELDLRGYKIP--VIEN-LGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNNNRICRIGEGLDQALPD   88 (162)
T ss_dssp             EEECTTSCEEEECTTSCCC--SCCC-GGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCSSCCCEECSCHHHHCTT
T ss_pred             hccCcCcCcEEECCCCCCC--ccCc-cccccccCCEEECCCCCCCccC-CcccCcchhhhhcccccccCCCccccccccc
Confidence            3345556666666666554  4442 3355666666666666666653 35666666666666666655 3 23455666


Q ss_pred             ccEEEecCCcCcccch--hhccCCCCCEEeccCCCCCCccCc---ccccCCCCCcEEEc
Q 040303          182 LEILCLRGSYIEQLPV--EIGQLTRLRSLDLRDCDRLQVIPP---NVLSNLSHLEELYI  235 (552)
Q Consensus       182 L~~L~l~~~~l~~lp~--~i~~l~~L~~L~l~~~~~~~~~~~---~~l~~l~~L~~L~l  235 (552)
                      |++|++++|++..++.  .+..+++|++|++++|. +...|.   ..+..+++|+.|+.
T Consensus        89 L~~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~-i~~~~~~r~~~i~~lp~L~~LD~  146 (162)
T d1a9na_          89 LTELILTNNSLVELGDLDPLASLKSLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLDF  146 (162)
T ss_dssp             CCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEETT
T ss_pred             cccceeccccccccccccccccccccchhhcCCCc-cccccchHHHHHHHCCCcCeeCC
Confidence            6666666666665543  45566666666666665 444442   12455666666653

>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=99.38  E-value=4.2e-13  Score=113.52  Aligned_cols=105  Identities=19%  Similarity=0.208  Sum_probs=53.7

Q ss_pred             CCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCChhhhcCCCCccEEEecCCcCcccchhh-ccCCCCCEEecc
Q 040303          133 KLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILCLRGSYIEQLPVEI-GQLTRLRSLDLR  211 (552)
Q Consensus       133 ~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~l~~~~l~~lp~~i-~~l~~L~~L~l~  211 (552)
                      +...+|.|++++|.++.+|..+..+.+|++|++++|.++..+.+..+++|++|++++|+++.+|.++ ..+++|++|+++
T Consensus        16 n~~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~L~   95 (162)
T d1a9na_          16 NAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILT   95 (162)
T ss_dssp             CTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEECCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECC
T ss_pred             CcCcCcEEECCCCCCCccCccccccccCCEEECCCCCCCccCCcccCcchhhhhcccccccCCCccccccccccccceec
Confidence            4445555555555555555444455555555555555554444555555555555555555554432 345555555555


Q ss_pred             CCCCCCccCc-ccccCCCCCcEEEcccc
Q 040303          212 DCDRLQVIPP-NVLSNLSHLEELYIRSF  238 (552)
Q Consensus       212 ~~~~~~~~~~-~~l~~l~~L~~L~l~~~  238 (552)
                      +|. +..++. ..+..+++|++|++.++
T Consensus        96 ~N~-i~~~~~l~~l~~l~~L~~L~l~~N  122 (162)
T d1a9na_          96 NNS-LVELGDLDPLASLKSLTYLCILRN  122 (162)
T ss_dssp             SCC-CCCGGGGGGGGGCTTCCEEECCSS
T ss_pred             ccc-ccccccccccccccccchhhcCCC
Confidence            554 333332 12445555555555533

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.27  E-value=5.8e-11  Score=107.90  Aligned_cols=191  Identities=15%  Similarity=0.185  Sum_probs=129.6

Q ss_pred             ccCcccEEEeecCCCcccCCC-cc-CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeecc-ccccc-cchhcCCCC
Q 040303           84 ALKFYTSIVLHDSKMNVLLPE-VL-ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYM-HLSLL-PSSLGLLTN  159 (552)
Q Consensus        84 ~~~~lr~L~l~~~~~~~~~~~-~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~-~~~~l-p~~i~~l~~  159 (552)
                      .++++++|++++|.+.. ++. .+ ++++|++|++++|.... .++...|.++..+++|.+..+ .+..+ +..+.++++
T Consensus        27 l~~~l~~L~Ls~n~i~~-l~~~~f~~l~~L~~L~ls~n~~~~-~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~  104 (242)
T d1xwdc1          27 LPRNAIELRFVLTKLRV-IQKGAFSGFGDLEKIEISQNDVLE-VIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPN  104 (242)
T ss_dssp             SCSCCSEEEEESCCCCE-ECTTTTTTCTTCCEEEEESCTTCC-EECSSSEESCTTCCEEEEECCTTCCEECTTSEECCTT
T ss_pred             CCCCCCEEECcCCcCCc-cChhHhhccchhhhhhhccccccc-eeecccccccccccccccccccccccccccccccccc
Confidence            45678999999988877 553 33 78999999999886543 456666788888999887654 55544 455788999


Q ss_pred             CcEEEccCCCCCCh---hhhcCCCCccEEEecCCcCcccchh-hccC-CCCCEEeccCCCCCCccCcccccCCCCCcEEE
Q 040303          160 LRTLCLYCSELQDI---AVIGELKNLEILCLRGSYIEQLPVE-IGQL-TRLRSLDLRDCDRLQVIPPNVLSNLSHLEELY  234 (552)
Q Consensus       160 L~~L~l~~~~~~~~---~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l-~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~  234 (552)
                      |++++++++.+..+   ..+..+..+..+...++.+..++.. +..+ ..++.|++.++. +..++.. .....+++++.
T Consensus       105 L~~l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~-l~~i~~~-~~~~~~l~~~~  182 (242)
T d1xwdc1         105 LQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNG-IQEIHNC-AFNGTQLDELN  182 (242)
T ss_dssp             CCEEEEESCCCCSCCCCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSC-CCEECTT-TTTTCCEEEEE
T ss_pred             ccccccchhhhcccccccccccccccccccccccccccccccccccccccceeeeccccc-ccccccc-cccchhhhccc
Confidence            99999999887663   3344555565556666667766543 4444 368888888766 6777766 35556666665


Q ss_pred             cc-ccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCCcCCCcccccCCceE
Q 040303          235 IR-SFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVNTLPKGLFFEKLERY  289 (552)
Q Consensus       235 l~-~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p~~~~l~~L~~L  289 (552)
                      .. ++..          ..-....+.++++|+.|++++|.+..+|.+. +.++..|
T Consensus       183 ~l~~n~l----------~~l~~~~f~~l~~L~~L~Ls~N~l~~l~~~~-~~~l~~L  227 (242)
T d1xwdc1         183 LSDNNNL----------EELPNDVFHGASGPVILDISRTRIHSLPSYG-LENLKKL  227 (242)
T ss_dssp             CTTCTTC----------CCCCTTTTTTSCCCSEEECTTSCCCCCCSSS-CTTCCEE
T ss_pred             ccccccc----------ccccHHHhcCCCCCCEEECCCCcCCccCHHH-HcCCccc
Confidence            43 2222          1112234788999999999999999888763 3444444

>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=99.24  E-value=1.6e-11  Score=107.14  Aligned_cols=100  Identities=21%  Similarity=0.258  Sum_probs=48.5

Q ss_pred             CccEEEeecccccc-c-cchhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEec
Q 040303          136 QVRVLDLTYMHLSL-L-PSSLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDL  210 (552)
Q Consensus       136 ~Lr~L~l~~~~~~~-l-p~~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l  210 (552)
                      ++++|+|++|.++. + +..++++++|++|++++|.+..  +..+..+++|++|++++|+++.+|.+ +.++++|++|++
T Consensus        30 ~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l~~l~~~~F~~l~~L~~L~L  109 (192)
T d1w8aa_          30 HTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNL  109 (192)
T ss_dssp             TCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEEC
T ss_pred             CCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeeccccccccCHHHHhCCCccccccc
Confidence            44555555555432 2 2233445555555555555443  34444555555555555555544433 444555555555


Q ss_pred             cCCCCCCccCcccccCCCCCcEEEcc
Q 040303          211 RDCDRLQVIPPNVLSNLSHLEELYIR  236 (552)
Q Consensus       211 ~~~~~~~~~~~~~l~~l~~L~~L~l~  236 (552)
                      ++|. +..++++.+..+++|++|++.
T Consensus       110 ~~N~-l~~i~~~~f~~l~~L~~l~L~  134 (192)
T d1w8aa_         110 YDNQ-ISCVMPGSFEHLNSLTSLNLA  134 (192)
T ss_dssp             CSSC-CCEECTTSSTTCTTCCEEECT
T ss_pred             CCcc-ccccCHHHhcCCccccccccc
Confidence            5544 444444444445555555544

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=99.22  E-value=1.9e-13  Score=119.94  Aligned_cols=103  Identities=17%  Similarity=0.254  Sum_probs=44.8

Q ss_pred             CCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCChhhhcCCCCccEEE
Q 040303          107 ECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQDIAVIGELKNLEILC  186 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~~~~i~~L~~L~~L~  186 (552)
                      .+++|+.|++++|...  .++.  +.++++|++|++++|.++.+|.....+.+|++|++++|.+..++.+.++++|++|+
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~~L~  121 (198)
T d1m9la_          46 TLKACKHLALSTNNIE--KISS--LSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLSGIEKLVNLRVLY  121 (198)
T ss_dssp             HTTTCCEEECSEEEES--CCCC--HHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEECCCHHHHHHHHHSSEEE
T ss_pred             cccccceeECcccCCC--Cccc--ccCCccccChhhcccccccccccccccccccccccccccccccccccccccccccc
Confidence            3444444444444332  2321  24444444444444444444433333344444444444444433344444444444


Q ss_pred             ecCCcCcccch--hhccCCCCCEEeccCC
Q 040303          187 LRGSYIEQLPV--EIGQLTRLRSLDLRDC  213 (552)
Q Consensus       187 l~~~~l~~lp~--~i~~l~~L~~L~l~~~  213 (552)
                      +++|+++.++.  .+..+++|++|++++|
T Consensus       122 L~~N~i~~~~~~~~l~~l~~L~~L~L~~N  150 (198)
T d1m9la_         122 MSNNKITNWGEIDKLAALDKLEDLLLAGN  150 (198)
T ss_dssp             ESEEECCCHHHHHHHTTTTTCSEEEECSS
T ss_pred             cccchhccccccccccCCCccceeecCCC
Confidence            44444444331  2344444444444444

>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=3e-11  Score=105.41  Aligned_cols=123  Identities=19%  Similarity=0.219  Sum_probs=95.9

Q ss_pred             cEEEeecCCCcccCCCccCCCCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccccc-cchhcCCCCCcEEEccC
Q 040303           89 TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLSLL-PSSLGLLTNLRTLCLYC  167 (552)
Q Consensus        89 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~l-p~~i~~l~~L~~L~l~~  167 (552)
                      ++++.+++.+.. +|... .+++++|++++|.+.. .++...|.++++|+.|++++|.+..+ +..+..+++|++|++++
T Consensus        11 ~~v~Cs~~~L~~-iP~~l-p~~l~~L~Ls~N~i~~-~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~   87 (192)
T d1w8aa_          11 TTVDCTGRGLKE-IPRDI-PLHTTELLLNDNELGR-ISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGE   87 (192)
T ss_dssp             TEEECTTSCCSS-CCSCC-CTTCSEEECCSCCCCS-BCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CEEEEeCCCcCc-cCCCC-CCCCCEEEeCCCCCcc-cccccccCCCceEeeeeccccccccccccccccccccceeeecc
Confidence            456777777766 66433 2678888888887653 45566678889999999998888755 45677888999999999


Q ss_pred             CCCCC--hhhhcCCCCccEEEecCCcCcccchh-hccCCCCCEEeccCCC
Q 040303          168 SELQD--IAVIGELKNLEILCLRGSYIEQLPVE-IGQLTRLRSLDLRDCD  214 (552)
Q Consensus       168 ~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~~-i~~l~~L~~L~l~~~~  214 (552)
                      |.+..  +..|.++++|++|++++|.++.+|.+ +..+++|++|++++|.
T Consensus        88 N~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N~  137 (192)
T d1w8aa_          88 NKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNP  137 (192)
T ss_dssp             CCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCC
T ss_pred             ccccccCHHHHhCCCcccccccCCccccccCHHHhcCCcccccccccccc
Confidence            98887  46688899999999999998888765 6788899999998876

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=99.17  E-value=5.1e-13  Score=117.13  Aligned_cols=142  Identities=24%  Similarity=0.288  Sum_probs=105.4

Q ss_pred             ccChhHhhCCCCccEEEeeccccccccchhcCCCCCcEEEccCCCCCC-hhhhcCCCCccEEEecCCcCcccchhhccCC
Q 040303          125 TLPDNFFRKLTQVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD-IAVIGELKNLEILCLRGSYIEQLPVEIGQLT  203 (552)
Q Consensus       125 ~~~~~~~~~l~~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~-~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~  203 (552)
                      .++.++ ..+++|++|++++|.++.++ .++.+++|++|++++|.++. +.....+++|++|++++|.++.++ .+.+++
T Consensus        39 ~l~~sl-~~L~~L~~L~Ls~n~I~~i~-~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N~i~~l~-~~~~l~  115 (198)
T d1m9la_          39 KMDATL-STLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLS-GIEKLV  115 (198)
T ss_dssp             CCHHHH-HHTTTCCEEECSEEEESCCC-CHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEECCCHH-HHHHHH
T ss_pred             hhhhHH-hcccccceeECcccCCCCcc-cccCCccccChhhcccccccccccccccccccccccccccccccc-cccccc
Confidence            455554 88999999999999999886 58999999999999999887 555556678999999999999874 688899


Q ss_pred             CCCEEeccCCCCCCccCc-ccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEcc
Q 040303          204 RLRSLDLRDCDRLQVIPP-NVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELC  270 (552)
Q Consensus       204 ~L~~L~l~~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  270 (552)
                      +|++|++++|. +..++. ..++.+++|+.|++.++...................+..+++|+.||-.
T Consensus       116 ~L~~L~L~~N~-i~~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~~~~r~~vi~~lp~L~~LD~~  182 (198)
T d1m9la_         116 NLRVLYMSNNK-ITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKLDGM  182 (198)
T ss_dssp             HSSEEEESEEE-CCCHHHHHHHTTTTTCSEEEECSSHHHHHHCTTTTHHHHHHHHHHHCSSCCEESSG
T ss_pred             cccccccccch-hccccccccccCCCccceeecCCCccccCcccccchhhHHHHHHHHCCCcCEeCCc
Confidence            99999999986 666653 2378999999999986543211100000000011236788999999744

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.08  E-value=3.7e-12  Score=127.57  Aligned_cols=121  Identities=14%  Similarity=-0.015  Sum_probs=56.6

Q ss_pred             CCCcccccccceeeeEeccCCCCccccccCcceEEEEecCCCccccccch---hH-hhhcccceEEEecCCchhhhhccc
Q 040303          409 LPNLETLELYNVNVERIWKSQLPAMSCGIQTLTRLIVYGCGELRCLFSSS---IV-NSFIRLQHLEIDECPILEEIIVID  484 (552)
Q Consensus       409 ~~~L~~L~l~~~~l~~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~lp~~~---~~-~~l~~L~~L~i~~c~~l~~~~~~~  484 (552)
                      .+.|+.+.+.++.+...............++|++|+++++ .+..-....   .+ ...+.|++|++.+|. ++.... .
T Consensus       311 ~~~L~~l~l~~~~l~~~~~~~l~~~~~~~~~L~~L~Ls~N-~i~~~g~~~l~~~l~~~~~~L~~L~Ls~n~-i~~~~~-~  387 (460)
T d1z7xw1         311 GCQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNN-RLEDAGVRELCQGLGQPGSVLRVLWLADCD-VSDSSC-S  387 (460)
T ss_dssp             TCCCCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSS-BCHHHHHHHHHHHHTSTTCCCCEEECTTSC-CCHHHH-H
T ss_pred             ccccccccccccchhhhhhhhcccccccccchhhhheeee-cccCcccchhhhhhhcccCCCCEEECCCCC-CChHHH-H
Confidence            3466777777664432111111100113456777777765 443311000   11 234567788888774 533100 0


Q ss_pred             cccccccccCCccEEEeccccccccccCCc----ccccCCCccEEEeecCCCc
Q 040303          485 QQERKNVVFPQLQFLKMVDLEKLTSFCTGD----VHIEFPTLETLEVIRCPEF  533 (552)
Q Consensus       485 ~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~----~~~~~~~L~~L~i~~C~~L  533 (552)
                      .....+...++|++|+|.+. .++.-....    +...-..|+.|.+.++.--
T Consensus       388 ~l~~~l~~~~~L~~L~Ls~N-~i~~~g~~~l~~~l~~~~~~L~~l~l~~~~~~  439 (460)
T d1z7xw1         388 SLAATLLANHSLRELDLSNN-CLGDAGILQLVESVRQPGCLLEQLVLYDIYWS  439 (460)
T ss_dssp             HHHHHHHHCCCCCEEECCSS-SCCHHHHHHHHHHHTSTTCCCCEEECTTCCCC
T ss_pred             HHHHHHhcCCCCCEEECCCC-cCCHHHHHHHHHHHHhCCCccCEEECCCCCCC
Confidence            00012334577888888776 333211100    1112246788888776543

>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=98.87  E-value=4.8e-09  Score=87.34  Aligned_cols=81  Identities=25%  Similarity=0.126  Sum_probs=37.5

Q ss_pred             CCCCccEEEeecc-ccccccc-hhcCCCCCcEEEccCCCCCC--hhhhcCCCCccEEEecCCcCcccchhhccCCCCCEE
Q 040303          133 KLTQVRVLDLTYM-HLSLLPS-SLGLLTNLRTLCLYCSELQD--IAVIGELKNLEILCLRGSYIEQLPVEIGQLTRLRSL  208 (552)
Q Consensus       133 ~l~~Lr~L~l~~~-~~~~lp~-~i~~l~~L~~L~l~~~~~~~--~~~i~~L~~L~~L~l~~~~l~~lp~~i~~l~~L~~L  208 (552)
                      .+++|+.|++.++ .++.++. .+.++.+|++|++++|.++.  +..+..+++|++|++++|+++.+|.++....+|++|
T Consensus        29 ~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~~~l~~L  108 (156)
T d2ifga3          29 GAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGLSLQEL  108 (156)
T ss_dssp             SCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCSCCCSTTTCSCCCCEE
T ss_pred             CccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceeccCCCCcccChhhhcccccccc
Confidence            3444444444433 2444432 24444455555555444443  233445555555555555555554444433345555


Q ss_pred             eccCC
Q 040303          209 DLRDC  213 (552)
Q Consensus       209 ~l~~~  213 (552)
                      ++++|
T Consensus       109 ~L~~N  113 (156)
T d2ifga3         109 VLSGN  113 (156)
T ss_dssp             ECCSS
T ss_pred             ccCCC
Confidence            55444

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.77  E-value=4.6e-10  Score=111.95  Aligned_cols=368  Identities=19%  Similarity=0.163  Sum_probs=196.2

Q ss_pred             CCceEEEeecCCCCCcccChhHhhCCCCccEEEeeccccc-----cccchhcCCCCCcEEEccCCCCCC--hhhhc----
Q 040303          109 PQLQLLSLWTEKSSLITLPDNFFRKLTQVRVLDLTYMHLS-----LLPSSLGLLTNLRTLCLYCSELQD--IAVIG----  177 (552)
Q Consensus       109 ~~Lr~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~~~-----~lp~~i~~l~~L~~L~l~~~~~~~--~~~i~----  177 (552)
                      .+|++|+++++......+ ..++..++++|+|+|.+|.++     .++..+..+++|++|++++|.+.+  ...+.    
T Consensus         2 ~~l~~ld~~~~~i~~~~~-~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~   80 (460)
T d1z7xw1           2 LDIQSLDIQCEELSDARW-AELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQ   80 (460)
T ss_dssp             EEEEEEEEESCCCCHHHH-HHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTC
T ss_pred             CCCCEEEeeCCcCChHHH-HHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHh
Confidence            468999999987653222 334577899999999999875     456677899999999999998864  23332    


Q ss_pred             -CCCCccEEEecCCcCcc-----cchhhccCCCCCEEeccCCCCCCcc-----CcccccCCCCCcEEEccccccchhhhh
Q 040303          178 -ELKNLEILCLRGSYIEQ-----LPVEIGQLTRLRSLDLRDCDRLQVI-----PPNVLSNLSHLEELYIRSFNKWEVEVE  246 (552)
Q Consensus       178 -~L~~L~~L~l~~~~l~~-----lp~~i~~l~~L~~L~l~~~~~~~~~-----~~~~l~~l~~L~~L~l~~~~~~~~~~~  246 (552)
                       ...+|++|++++|.++.     ++..+..+++|++|++++|. ++..     .......................    
T Consensus        81 ~~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~-i~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~----  155 (460)
T d1z7xw1          81 TPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNL-LGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSA----  155 (460)
T ss_dssp             STTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSB-CHHHHHHHHHHHHTSTTCCCCEEECTTSCCBG----
T ss_pred             cCCCCCCEEECCCCCccccccccccchhhcccccccccccccc-chhhhhhhhhhcccccccccccccccccccch----
Confidence             23579999999998763     45567788999999999876 3322     11101111222233332111100    


Q ss_pred             hhcccccChhhhcCCCCCcEEEccCCCCCcCC-----Ccc--cccCCceEEEEecccccCCCCCCcccceeeecCccccc
Q 040303          247 AAGVKNASLEELKRLPNLTTLELCIPDVNTLP-----KGL--FFEKLERYRICIGRWCWEDTSPTCSRTFRLLLGTDNCI  319 (552)
Q Consensus       247 ~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~p-----~~~--~l~~L~~L~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~  319 (552)
                        .........+.....++.+.++.+......     ..+  .......+....                    ......
T Consensus       156 --~~~~~~~~~l~~~~~~~~~~ls~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~--------------------~~~~~~  213 (460)
T d1z7xw1         156 --ASCEPLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLES--------------------CGVTSD  213 (460)
T ss_dssp             --GGHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTT--------------------SCCBTT
T ss_pred             --hhhccccccccccccccccccccccccccccccccccccccccccccccccc--------------------ccccch
Confidence              001112334556667788887765432110     000  000111111100                    000000


Q ss_pred             c--cchhHHHHhchheeeeecCCCCCcce-eeeccccCcccccccEEEeecCCCCCCcchhhhhhcccccccceeeeccC
Q 040303          320 S--FKSGHIVQLQRIEDLCLSGLPDQDII-ELVNNKLGSYSSQLKHLWVEGCQAPSPKESKRCKESTSEMRSNEIILEDH  396 (552)
Q Consensus       320 ~--~~~~~~~~l~~L~~L~l~~~~~~~~~-~~~~~~~~~~~~~L~~L~l~~c~~~lp~~~~~~~~Li~~c~l~~l~~~~~  396 (552)
                      .  .........+.++.+.+.+....... ...........+.++.+++++|.-.-...                     
T Consensus       214 ~~~~~~~~l~~~~~~~~l~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~l~~n~i~~~~~---------------------  272 (460)
T d1z7xw1         214 NCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGC---------------------  272 (460)
T ss_dssp             HHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHH---------------------
T ss_pred             hhhcccccccccccccccchhhccccccccchhhccccccccccccccccccccccccc---------------------
Confidence            0  01112234466777777665431100 00001122345788889888876100000                     


Q ss_pred             CCCCccccccccCCCcccccccceeeeEeccCCC-CccccccCcceEEEEecCCCccccccc---hhHhhhcccceEEEe
Q 040303          397 VNVPNTFFLKGGLPNLETLELYNVNVERIWKSQL-PAMSCGIQTLTRLIVYGCGELRCLFSS---SIVNSFIRLQHLEID  472 (552)
Q Consensus       397 ~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~-~~~~~~l~~L~~L~i~~C~~L~~lp~~---~~~~~l~~L~~L~i~  472 (552)
                         ..........+.++.++++++.+........ .......+.|+.+.+.+|. +......   ......++|++|+++
T Consensus       273 ---~~~~~~l~~~~~l~~l~l~~n~i~~~~~~~l~~~l~~~~~~L~~l~l~~~~-l~~~~~~~l~~~~~~~~~L~~L~Ls  348 (460)
T d1z7xw1         273 ---GDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCS-FTAACCSHFSSVLAQNRFLLELQIS  348 (460)
T ss_dssp             ---HHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEECTTSC-CBGGGHHHHHHHHHHCSSCCEEECC
T ss_pred             ---ccccccccccccccccccccccccccccchhhccccccccccccccccccc-hhhhhhhhcccccccccchhhhhee
Confidence               0011112346778888888775532110000 0000134689999999884 4332111   123455789999999


Q ss_pred             cCCchhhhhccccccccc-cccCCccEEEeccccccccccCC----cccccCCCccEEEeecCCCcc
Q 040303          473 ECPILEEIIVIDQQERKN-VVFPQLQFLKMVDLEKLTSFCTG----DVHIEFPTLETLEVIRCPEFL  534 (552)
Q Consensus       473 ~c~~l~~~~~~~~~~~~~-~~l~~L~~L~l~~c~~L~~~~~~----~~~~~~~~L~~L~i~~C~~L~  534 (552)
                      ++. +..... ......+ ...+.|++|++.+| .++.....    .+ ...++|++|++++. +++
T Consensus       349 ~N~-i~~~g~-~~l~~~l~~~~~~L~~L~Ls~n-~i~~~~~~~l~~~l-~~~~~L~~L~Ls~N-~i~  410 (460)
T d1z7xw1         349 NNR-LEDAGV-RELCQGLGQPGSVLRVLWLADC-DVSDSSCSSLAATL-LANHSLRELDLSNN-CLG  410 (460)
T ss_dssp             SSB-CHHHHH-HHHHHHHTSTTCCCCEEECTTS-CCCHHHHHHHHHHH-HHCCCCCEEECCSS-SCC
T ss_pred             eec-ccCccc-chhhhhhhcccCCCCEEECCCC-CCChHHHHHHHHHH-hcCCCCCEEECCCC-cCC
Confidence            985 543100 0000011 13567999999999 56542211    12 25699999999987 443

>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=98.74  E-value=3e-08  Score=82.41  Aligned_cols=103  Identities=17%  Similarity=0.125  Sum_probs=81.0

Q ss_pred             cEEEeecCCCcccCCCccCCCCceEEEeecCC-CCCcccChhHhhCCCCccEEEeecccccccc-chhcCCCCCcEEEcc
Q 040303           89 TSIVLHDSKMNVLLPEVLECPQLQLLSLWTEK-SSLITLPDNFFRKLTQVRVLDLTYMHLSLLP-SSLGLLTNLRTLCLY  166 (552)
Q Consensus        89 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~-~~~~~~~~~~~~~l~~Lr~L~l~~~~~~~lp-~~i~~l~~L~~L~l~  166 (552)
                      ..+...++...........+++|+.|.+.++. ..  .++...|.++++|++|++++|+++.++ ..+..+++|++|+|+
T Consensus        11 ~~l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~--~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls   88 (156)
T d2ifga3          11 SGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQ--HLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLS   88 (156)
T ss_dssp             SCEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCC--EECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECC
T ss_pred             CeEEecCCCCccCcccccCccccCeeecCCCcccc--ccCchhhccccccCcceeeccccCCcccccccccccccceecc
Confidence            34666666666523344478899999997654 33  788887899999999999999999884 568999999999999


Q ss_pred             CCCCCC-hhhhcCCCCccEEEecCCcCc
Q 040303          167 CSELQD-IAVIGELKNLEILCLRGSYIE  193 (552)
Q Consensus       167 ~~~~~~-~~~i~~L~~L~~L~l~~~~l~  193 (552)
                      +|.++. |..+-...+|++|+|++|.+.
T Consensus        89 ~N~l~~l~~~~~~~~~l~~L~L~~Np~~  116 (156)
T d2ifga3          89 FNALESLSWKTVQGLSLQELVLSGNPLH  116 (156)
T ss_dssp             SSCCSCCCSTTTCSCCCCEEECCSSCCC
T ss_pred             CCCCcccChhhhccccccccccCCCccc
Confidence            999988 555545557999999999764

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.50  E-value=5.4e-08  Score=92.76  Aligned_cols=184  Identities=16%  Similarity=0.092  Sum_probs=118.3

Q ss_pred             cCcccEEEeecCCCccc----CC-CccCCCCceEEEeecCCCCC--cccCh------hHhhCCCCccEEEeecccccc--
Q 040303           85 LKFYTSIVLHDSKMNVL----LP-EVLECPQLQLLSLWTEKSSL--ITLPD------NFFRKLTQVRVLDLTYMHLSL--  149 (552)
Q Consensus        85 ~~~lr~L~l~~~~~~~~----~~-~~~~~~~Lr~L~l~~~~~~~--~~~~~------~~~~~l~~Lr~L~l~~~~~~~--  149 (552)
                      ..+++.|++++|.+...    +. .....++|+.|.+.++....  ...+.      ..+...++|+.|++++|.+..  
T Consensus        30 ~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~  109 (344)
T d2ca6a1          30 DDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTA  109 (344)
T ss_dssp             CSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTTT
T ss_pred             CCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCccccccccccccccc
Confidence            56688899988876431    21 22367889999988664321  01111      123567889999999887653  


Q ss_pred             ---ccchhcCCCCCcEEEccCCCCCC--hh-------------hhcCCCCccEEEecCCcCc-----ccchhhccCCCCC
Q 040303          150 ---LPSSLGLLTNLRTLCLYCSELQD--IA-------------VIGELKNLEILCLRGSYIE-----QLPVEIGQLTRLR  206 (552)
Q Consensus       150 ---lp~~i~~l~~L~~L~l~~~~~~~--~~-------------~i~~L~~L~~L~l~~~~l~-----~lp~~i~~l~~L~  206 (552)
                         +...+...++|++|++++|.+..  ..             .....+.|+.++++++.+.     .+...+...++|+
T Consensus       110 ~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l~~~l~~~~~L~  189 (344)
T d2ca6a1         110 QEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLH  189 (344)
T ss_dssp             HHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCC
T ss_pred             ccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeecccccccccccccccchhhhhhhhc
Confidence               55566778899999999887642  11             1235678899998888664     3444566778899


Q ss_pred             EEeccCCCCCCc-----cCcccccCCCCCcEEEccccccchhhhhhhcccccChhhhcCCCCCcEEEccCCCCC
Q 040303          207 SLDLRDCDRLQV-----IPPNVLSNLSHLEELYIRSFNKWEVEVEAAGVKNASLEELKRLPNLTTLELCIPDVN  275 (552)
Q Consensus       207 ~L~l~~~~~~~~-----~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  275 (552)
                      .|+++.|. +..     +....+..+++|++|+++++.... .     ........+...++|++|++++|.+.
T Consensus       190 ~L~L~~n~-i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~-~-----g~~~L~~~l~~~~~L~~L~Ls~n~i~  256 (344)
T d2ca6a1         190 TVKMVQNG-IRPEGIEHLLLEGLAYCQELKVLDLQDNTFTH-L-----GSSALAIALKSWPNLRELGLNDCLLS  256 (344)
T ss_dssp             EEECCSSC-CCHHHHHHHHHTTGGGCTTCCEEECCSSCCHH-H-----HHHHHHHHGGGCTTCCEEECTTCCCC
T ss_pred             cccccccc-ccccccccchhhhhcchhhhcccccccccccc-c-----ccccccccccccccchhhhhhcCccC
Confidence            99998876 332     111225677889999987543211 0     01123355677888999999888754

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.32  E-value=3.3e-07  Score=87.14  Aligned_cols=58  Identities=19%  Similarity=0.198  Sum_probs=27.1

Q ss_pred             CCCCcEEEccCCCCCC------hhhhcCCCCccEEEecCCcCcc------cchhhccCCCCCEEeccCCC
Q 040303          157 LTNLRTLCLYCSELQD------IAVIGELKNLEILCLRGSYIEQ------LPVEIGQLTRLRSLDLRDCD  214 (552)
Q Consensus       157 l~~L~~L~l~~~~~~~------~~~i~~L~~L~~L~l~~~~l~~------lp~~i~~l~~L~~L~l~~~~  214 (552)
                      ...|++++++++.+..      ...+....+|++|++++|.+..      +...+..+++|++|++++|.
T Consensus       157 ~~~L~~l~l~~n~i~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~  226 (344)
T d2ca6a1         157 APPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNT  226 (344)
T ss_dssp             CCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSC
T ss_pred             Ccccceeecccccccccccccccchhhhhhhhcccccccccccccccccchhhhhcchhhhccccccccc
Confidence            4455555555554432      1223444555555555554431      12224445555555555543

>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=97.87  E-value=5.6e-07  Score=75.02  Aligned_cols=62  Identities=26%  Similarity=0.228  Sum_probs=29.0

Q ss_pred             hCCCCccEEEeeccccccc---cchhcCCCCCcEEEccCCCCCChhh--hcCCCCccEEEecCCcCc
Q 040303          132 RKLTQVRVLDLTYMHLSLL---PSSLGLLTNLRTLCLYCSELQDIAV--IGELKNLEILCLRGSYIE  193 (552)
Q Consensus       132 ~~l~~Lr~L~l~~~~~~~l---p~~i~~l~~L~~L~l~~~~~~~~~~--i~~L~~L~~L~l~~~~l~  193 (552)
                      ..++.|++|++++|+++.+   +..+..+++|++|++++|.+++.+.  ..+..+|+.|++++|.+.
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~  128 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLS  128 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTS
T ss_pred             HhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcC
Confidence            4455555555555555433   2334455555555555555554211  112223455555555443

>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=97.57  E-value=1e-05  Score=67.14  Aligned_cols=100  Identities=18%  Similarity=0.087  Sum_probs=69.2

Q ss_pred             CccEEEeeccccccccchhcCCCCCcEEEccCCCCCC----hhhhcCCCCccEEEecCCcCcccch-hhccCCCCCEEec
Q 040303          136 QVRVLDLTYMHLSLLPSSLGLLTNLRTLCLYCSELQD----IAVIGELKNLEILCLRGSYIEQLPV-EIGQLTRLRSLDL  210 (552)
Q Consensus       136 ~Lr~L~l~~~~~~~lp~~i~~l~~L~~L~l~~~~~~~----~~~i~~L~~L~~L~l~~~~l~~lp~-~i~~l~~L~~L~l  210 (552)
                      .+..+....+....++....++++|++|++++|.++.    +..+.++++|++|++++|.++.++. ...+..+|+.|++
T Consensus        43 ~~~~l~~~~~~~~~l~~~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L  122 (162)
T d1koha1          43 IDVVLNRRSSMAATLRIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWL  122 (162)
T ss_dssp             CCCCTTSHHHHHHHHHHHHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCC
T ss_pred             chhhcchhhhHhhhhHHHHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeec
Confidence            3343444343333444445678999999999999876    2456789999999999999998865 2334457899999


Q ss_pred             cCCCCCCccCc------ccccCCCCCcEEEc
Q 040303          211 RDCDRLQVIPP------NVLSNLSHLEELYI  235 (552)
Q Consensus       211 ~~~~~~~~~~~------~~l~~l~~L~~L~l  235 (552)
                      .+|........      .++..+++|+.||-
T Consensus       123 ~~Npl~~~~~~~~~y~~~i~~~~P~L~~LDg  153 (162)
T d1koha1         123 DGNSLSDTFRDQSTYISAIRERFPKLLRLDG  153 (162)
T ss_dssp             TTSTTSSSSSSHHHHHHHHHTTSTTCCEETT
T ss_pred             CCCCcCcCcccchhHHHHHHHHCCCCCEECc
Confidence            99873332221      22567899999984

>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=96.98  E-value=0.00097  Score=54.93  Aligned_cols=61  Identities=10%  Similarity=0.151  Sum_probs=30.2

Q ss_pred             hhcCCCCCcEEEccCCCCCC--h----hhhcCCCCccEEEecCCcCc-----ccchhhccCCCCCEEeccCC
Q 040303          153 SLGLLTNLRTLCLYCSELQD--I----AVIGELKNLEILCLRGSYIE-----QLPVEIGQLTRLRSLDLRDC  213 (552)
Q Consensus       153 ~i~~l~~L~~L~l~~~~~~~--~----~~i~~L~~L~~L~l~~~~l~-----~lp~~i~~l~~L~~L~l~~~  213 (552)
                      .+....+|++|++++|.+..  .    ..+...+.|++|++++|.+.     .+-..+..-++|++|+++++
T Consensus        39 ~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l~~aL~~n~sL~~L~l~~n  110 (167)
T d1pgva_          39 AACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQ  110 (167)
T ss_dssp             HHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCC
T ss_pred             HHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHHHHHHHhCCcCCEEECCCC
Confidence            34445555555555555442  1    23334455566666555444     12223444455666666554

>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=96.96  E-value=0.0007  Score=55.82  Aligned_cols=61  Identities=11%  Similarity=0.014  Sum_probs=33.6

Q ss_pred             hCCCCccEEEeeccccc-----cccchhcCCCCCcEEEccCCCCCC--h----hhhcCCCCccEEEecCCcC
Q 040303          132 RKLTQVRVLDLTYMHLS-----LLPSSLGLLTNLRTLCLYCSELQD--I----AVIGELKNLEILCLRGSYI  192 (552)
Q Consensus       132 ~~l~~Lr~L~l~~~~~~-----~lp~~i~~l~~L~~L~l~~~~~~~--~----~~i~~L~~L~~L~l~~~~l  192 (552)
                      ...+.|++|++++|.+.     .+...+...+.|++|++++|.+..  .    ..+..-+.|++|+++++.+
T Consensus        41 ~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l~~aL~~n~sL~~L~l~~n~~  112 (167)
T d1pgva_          41 CNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQRQ  112 (167)
T ss_dssp             TTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCCSS
T ss_pred             hhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHHHHHHHhCCcCCEEECCCCcC
Confidence            44555666666666553     233344555666666666666553  1    3344555566666665543

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=96.33  E-value=0.0016  Score=53.42  Aligned_cols=79  Identities=14%  Similarity=0.211  Sum_probs=37.4

Q ss_pred             hCCCCccEEEeecc-ccc-----cccchhcCCCCCcEEEccCCCCCC--h----hhhcCCCCccEEEecCCcCc-----c
Q 040303          132 RKLTQVRVLDLTYM-HLS-----LLPSSLGLLTNLRTLCLYCSELQD--I----AVIGELKNLEILCLRGSYIE-----Q  194 (552)
Q Consensus       132 ~~l~~Lr~L~l~~~-~~~-----~lp~~i~~l~~L~~L~l~~~~~~~--~----~~i~~L~~L~~L~l~~~~l~-----~  194 (552)
                      .+.+.|+.|+++++ .++     .+-..+...++|+.|++++|.+..  .    ..+.....++.++++++.+.     .
T Consensus        14 ~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~   93 (166)
T d1io0a_          14 NNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILA   93 (166)
T ss_dssp             TTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHH
T ss_pred             hcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHH
Confidence            34455666666552 332     233344455566666666665443  1    23344455555555555433     2


Q ss_pred             cchhhccCCCCCEEec
Q 040303          195 LPVEIGQLTRLRSLDL  210 (552)
Q Consensus       195 lp~~i~~l~~L~~L~l  210 (552)
                      +...+...++|+.+++
T Consensus        94 l~~~l~~~~~L~~l~L  109 (166)
T d1io0a_          94 LVEALQSNTSLIELRI  109 (166)
T ss_dssp             HHHGGGGCSSCCEEEC
T ss_pred             HHHHHHhCccccEEee
Confidence            2233444445554444

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=96.29  E-value=0.0032  Score=51.61  Aligned_cols=106  Identities=12%  Similarity=0.110  Sum_probs=67.4

Q ss_pred             CCCCceEEEeecCC-CCCc---ccChhHhhCCCCccEEEeeccccc-----cccchhcCCCCCcEEEccCCCCCC-----
Q 040303          107 ECPQLQLLSLWTEK-SSLI---TLPDNFFRKLTQVRVLDLTYMHLS-----LLPSSLGLLTNLRTLCLYCSELQD-----  172 (552)
Q Consensus       107 ~~~~Lr~L~l~~~~-~~~~---~~~~~~~~~l~~Lr~L~l~~~~~~-----~lp~~i~~l~~L~~L~l~~~~~~~-----  172 (552)
                      ..+.|+.|.+.+.. ....   .+- ..+...++|+.|++++|.+.     .+-..+.....++.++++++.+..     
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~~~~l~-~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~   93 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPTLKACA-EALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILA   93 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHH-HHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHH
T ss_pred             cCCCCcEEEcCCCCCCCHHHHHHHH-HHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHH
Confidence            34666667666532 2110   111 12356788888888888764     344556778889999998888764     


Q ss_pred             -hhhhcCCCCccEEEecCC--cCc-----ccchhhccCCCCCEEeccCC
Q 040303          173 -IAVIGELKNLEILCLRGS--YIE-----QLPVEIGQLTRLRSLDLRDC  213 (552)
Q Consensus       173 -~~~i~~L~~L~~L~l~~~--~l~-----~lp~~i~~l~~L~~L~l~~~  213 (552)
                       ...+...++|+.++|..+  .+.     .+...+.+.++|++|++..+
T Consensus        94 l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~l~~~  142 (166)
T d1io0a_          94 LVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFT  142 (166)
T ss_dssp             HHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCS
T ss_pred             HHHHHHhCccccEEeeccCCCcCcHHHHHHHHHHHHhCCCcCEEeCcCC
Confidence             256677888888777543  443     24445667778888877654