Citrus Sinensis ID: 041114

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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-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680
Protein Sequence
MCTIFQITCDDAFFNRCLDCFLGKAACTRNLQDNVAALAIELAKLIAAKNNLITRVLDAERQQLRRLDQVQVWLSRVEAVKTETDELIRRSSKEIDKLCPRAYCSKSCKSSYKFRKQVAKKLRDVRTLIGEGVFEVVAERPPQPVADEIPTEQIVEGLQSQLKQVWRCLVEESIGIIGLYGMGSVEKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERDSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNSALEHKIAIRGEAGWWGCLQWENEATQIAFLPCFKTIY
Secondary Structure (PSIPRED)
cccEEEEccHHHHHHHHHHHHcccccEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHccccEEEEEcccccccccccccHHHHHcccccccHHHHcccccccccccccccccccccccccccccccHHHHHHHHHHHccccHHHHHHHHHHHcccccHHHHHHHHHHHHHccccccccccccccccHHccccccccccHHHHHHHHccccccccccHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHcccccEEcccccccccHHHHHHHHHHHHHHcccccEEEEccccccccccccccccEEEEEEEcccccccccccccccccccccccccHHHcccccccEEEcccccccccccHHHcccccccEEccccccccccccHHHHcccccccEEEEccccccccccccccccccEEEEcccccccccccccccccccccEEEEEEccccccccccccccccccEEEEEEccccccEEcccccccccccccccccccccEEEEEccccccccccccccccccEEEEEccccccccccccccccccccEEcccccccccccccccccccccccEEEEccccccccccccccccccccccccEEcc
Secondary Structure Prediction (SSPRO)
cccEEEEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHcccccccccHHHHHHcHEHHEEHHHHHHHHHccccEEEEEcccccEEEEEccccEEEEccccHHHHHHHcHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHHHHcccHHccccccccccHHHEEcccccccHHHHHHHHHHHcccccccccHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHccccccEEEEHHHHHHHHHHHHHHHccccccEEEEcccccEcccccccHHHEEEEEcccccHHccccccccHHHHHHHHHccHHHHHcccccEEEEccccccHcccccHHcccccccEEEcccccccccccHHHHcccccccEEEEccccccccccccccccEEEEEEcccccHcccccccccccccEEEEEccccccccccHHcccccccccEEEEEccccHccccccccccHHHHcccccccccccEEEEEcccccccccHccccccccEEEEcccccHccccccccccccccccEEEEcccccccEccccccccHcccEEEcccHHHHHcccccHHHHHHHccccHHccc
Coil and Loop (DISEMBL)
mctifqitcddaffNRCLDCFLGKAACTRNLQDNVAALAIELAKLIAAKNNLITRVLDAERQQLRRLDQVQVWLSRVEAVKTETDELIRRSSKEidklcpraycskscksSYKFRKQVAKKLRDVRTLIGEGVFEvvaerppqpvadeiptEQIVEGLQSQLKQVWRCLVEESIGIIGlygmgsvekvgeetLDSHHDILELAQTVTkecggsplaLITIGRAMAYKKKPEEWRYAIEVLRKSSSSEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIdcwigegflderdsfsaqnqgYYIVGTLVHAWLLEevgddkvkLHGVLHDMALWISCEIEEEKENFLVCAgrglkeapevkeWETVRRLSLMQNQIKIlseaptcphlhyefkmitdgffqfmPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLirfkdsksIDVIALARLKHlstlhfskceeleewktdytsgtvlkspqpfvfcslhkvtitfcpklkgltflvfapnlkclslfdCTAMEEIISagkfvhtpemmgntmdpcaklrklpldsnsalEHKIAIRGEAGWWGCLQWENEatqiaflpcfktiy
Flexible Loop (DISEMBL)
MCTIFQITCDDAFFNRCLDCFLGKAACTRNLQDNVAALAIELAKLIAAKNNLITRVLDAERQQLrrldqvqvwlsrveavktetdelirrsskeidklcpraycsksckssykfRKQVAKKLRDVRTLIGegvfevvaerppqpvadEIPTEQIVEGLQSQLKQVWRCLVEESIGIIGLYGMGSVEKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVlrkssssefaGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERDSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCAGRglkeapevkewetVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTLRCVHSLQIlvssnklqscTRALVLirfkdsksiDVIALARLKHlstlhfskceELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAgkfvhtpemMGNTMDPCAKLRKLPLDSNSALEHKIAIRGEAGWWGCLQWENEATQIAFLPCFKTIY
Low Complexity Region (SEG)
MCTIFQITCDDAFFNRCLDCFLGKAACTRNLQDNVaalaielakliaakNNLITRVLDAErqqlrrldqvqvWLSRVEAVKTETDELIRRSSKEIDKLCPRAycsksckssykFRKQVAKKLRDVRTLIGEGVFEVVAERPPQPVADEIPTEQIVEGLQSQLKQVWRCLVEESIGIIGLYGMGSVEKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERDSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVlakellglkhleelDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNSALEHKIAIRGEAGWWGCLQWENEATQIAFLPCFKTIY
Disordered region (IsUnstruct)
*CTIFQITCDDAFFNRCLDCFLGKAACTRNLQDNVAALAIELAKLIAAKNNLITRVLDAERQQLRRLDQVQVWLSRVEAVKTETDELIRRSSKEIDKLCPRAYCSKSCKSSYKFRKQVAKKLRDVRTLIGEGVFEVVAE*********IPTEQIVEGLQSQLKQVWRCLVEESIGIIGLYGMGSVEKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERDSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNSALEHKIAIRGEAGWWGCLQWENEATQIAFLPCFKTI*
Disordered Region (DISOPRED)
***IFQITCDDAFFNRCLDCFLGKAACTRNLQDNVAALAIELAKLIAAKNNLIT*************DQVQVWLSRVEAVKTETDELIRRSSKEIDKLCPRAYCSKSCKSSYKFRKQVAKKLRDVRTLIGEGVFEVVAERPPQPVADEIP*********S****VWRCLVEESIGIIGLYGMGSVEKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSS*****G**KEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERDSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTLRCVHS***************ALVLIRFKDSKS****ALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSN**L****AIRGEAGWWGCLQWENEATQIAFLPCFKTIY
Disordered Region (DISEMBL)
MCTIFQITCDDAFFNRCLDCFLGKAACTRNLQDNVAALAIELAKLIAAKNNLITRVLDAERQQLRRLDQVQVWLSRVEAVKTETDELIRRSSKEIDKLCPRAYCSKSCKSSYKFRKQVAKKLRDVRTLIGEGVFEVVAERPPQPVADEIPTEQIVEGLQSQLKQVWRCLVEESIGIIGLYGMGSVEKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERDSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNSALEHKIAIRGEAGWWGCLQWENEATQIAFLPCFKTIY
Disordered Region (DISPRO)
*CTIFQITCDDAFFNRCLDCFLGKAACTRNLQDNVAALAIELAKLIAAKNNLITRVLDAERQQLRRLDQVQVWLSRVEAVKTETDELIRRSSKEIDKLCPRAYCSKSCKSSYKFRKQVAKKLRDVRTLIGEGVFEVVAERPPQPVADEIPTEQIVEGLQSQLKQVWRCLVEESIGIIGLYGMGSVEKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERDSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNSALEHKIAIRGEAGWWGCLQWENEATQIAFLPCFKTIY
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MCTIFQITCDDAFFNRCLDCFLGKAACTRNLQDNVAALAIExxxxxxxxxxxxxxxxxxxxxQLRRLDQVQVWLSRVEAVKTETDELIRRSSKEIDKLCPRAYCSKSCKSSYKFRKQVAKKLRDVRTLIGEGVFEVVAERPPQPVADEIPTEQIVEGLQSQLKQVWRCLVEESIGIIGLYGMGSVEKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERDSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNSALEHKIAIRGEAGWWGCLQWENEATQIAFLPCFKTIY
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	680	2.2.26 [Sep-21-2011]
Q8RXS5	888	Probable disease resistan	yes	no	0.719	0.550	0.355	6e-84
O64973	889	Disease resistance protei	no	no	0.713	0.545	0.368	1e-79
P60838	894	Probable disease resistan	no	no	0.711	0.541	0.357	8e-77
O82484	892	Putative disease resistan	no	no	0.704	0.536	0.347	4e-71
Q8L3R3	885	Disease resistance protei	no	no	0.702	0.540	0.352	9e-70
Q9SH22	884	Probable disease resistan	no	no	0.705	0.542	0.355	5e-69
P60839	884	Probable disease resistan	no	no	0.714	0.549	0.333	2e-68
Q9SI85	893	Probable disease resistan	no	no	0.701	0.534	0.353	2e-68
Q9LVT3	948	Probable disease resistan	no	no	0.682	0.489	0.326	7e-65
Q9C8T9	898	Putative disease resistan	no	no	0.7	0.530	0.343	9e-65

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

 Score =  312 bits (799), Expect = 6e-84,   Method: Compositional matrix adjust.
 Identities = 198/557 (35%), Positives = 309/557 (55%), Gaps = 68/557 (12%)

Query: 186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
           +KVGE TL SH +I  +A+TV K+C G PLAL  IG  MAYK+  +EWR AI+VL  SS+
Sbjct: 322 KKVGEITLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVL-TSSA 380

Query: 246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDER 305
           +EF+G+  E+ P+LK+SYD+L+++ ++ CF YC L+PED  I K DL+D WIGEGF+D R
Sbjct: 381 AEFSGMEDEILPILKYSYDNLKSEQLKLCFQYCALFPEDHNIEKNDLVDYWIGEGFID-R 439

Query: 306 DSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCAGR 365
           +   A+NQGY I+G LV + LL E   + VK+H V+ +MALWI+ +  ++KENF+V AG 
Sbjct: 440 NKGKAENQGYEIIGILVRSCLLMEENQETVKMHDVVREMALWIASDFGKQKENFIVQAGL 499

Query: 366 GLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL------HYEFKMITDGFFQFMPLL 419
             +  PE+++W+  RR+SLM N I+ + +AP  P L            I+  FF+ MP+L
Sbjct: 500 QSRNIPEIEKWKVARRVSLMFNNIESIRDAPESPQLITLLLRKNFLGHISSSFFRLMPML 559

Query: 420 KVLNMSRETNIKELLGELKALVNLKCVNLE------WA------RDLVTIPLEV------ 461
            VL++S   +++ L  E+   V+L+ ++L       W       R L+ + LE       
Sbjct: 560 VVLDLSMNRDLRHLPNEISECVSLQYLSLSRTRIRIWPAGLVELRKLLYLNLEYTRMVES 619

Query: 462 ---ISNFSKLRVLRLFGTVLAKE------LLGLKHLEELDFTLRCVHSLQILVSSNKLQS 512
              IS  + L+VLRLF +   ++      L  L++L+ L  TL     L+  +S+ +L S
Sbjct: 620 ICGISGLTSLKVLRLFVSGFPEDPCVLNELQLLENLQTLTITLGLASILEQFLSNQRLAS 679

Query: 513 CTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCE--ELEEWKTDYTSGTVLKSPQPFV 570
           CTRAL +       S+ +  +A +  L  LHF+  +  E++  + +      + +   F 
Sbjct: 680 CTRALRIENLNPQSSV-ISFVATMDSLQELHFADSDIWEIKVKRNETVLPLHIPTTTTF- 737

Query: 571 FCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGK-------------- 616
           F +L +V++ FC +L+ LT+L+FAPNL  L +   + ++E+I+  K              
Sbjct: 738 FPNLSQVSLEFCTRLRDLTWLIFAPNLTVLRVISASDLKEVINKEKAEQQNLIPFQELKE 797

Query: 617 ----------FVHT-----PEMMGNTMDPCAKLRKLPLDSNSALEHKIAIRGEAGWWGCL 661
                      +H      P +    ++ C++LRKLPL+  S     + I     W   L
Sbjct: 798 LRLENVQMLKHIHRGPLPFPCLQKILVNGCSELRKLPLNFTSVPRGDLVIEAHKKWIEIL 857

Query: 662 QWENEATQIAFLPCFKT 678
           +WE+EAT+  FLP  K 
Sbjct: 858 EWEDEATKARFLPTLKA 874

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

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

 Score =  298 bits (763), Expect = 1e-79,   Method: Compositional matrix adjust.
 Identities = 206/559 (36%), Positives = 300/559 (53%), Gaps = 74/559 (13%)

Query: 187 KVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSS 246
           KVG+ TL SH DI  LA+ V ++C G PLAL  IG AMA K+   EW +AI+VL  SS+ 
Sbjct: 325 KVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVL-TSSAI 383

Query: 247 EFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERD 306
           +F+G+  E+  +LK+SYD+L  ++++SCFLYC L+PED+ I K  L+D WI EGF++E++
Sbjct: 384 DFSGMEDEILHVLKYSYDNLNGELMKSCFLYCSLFPEDYLIDKEGLVDYWISEGFINEKE 443

Query: 307 SFSAQ-NQGYYIVGTLVHAWLL--EEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCA 363
                 NQGY I+GTLV A LL  EE     VK+H V+ +MALWIS ++ ++KE  +V A
Sbjct: 444 GRERNINQGYEIIGTLVRACLLLEEERNKSNVKMHDVVREMALWISSDLGKQKEKCIVRA 503

Query: 364 GRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKM------ITDGFFQFMP 417
           G GL+E P+VK+W TVR++SLM N+I+ + ++  C  L   F        I+  FF+ MP
Sbjct: 504 GVGLREVPKVKDWNTVRKISLMNNEIEEIFDSHECAALTTLFLQKNDVVKISAEFFRCMP 563

Query: 418 LLKVLNMSRETNIKELLGELKALVNLKCVNLEWA------------RDLVTIPLE----- 460
            L VL++S   ++ EL  E+  L +L+  NL +             + L+ + LE     
Sbjct: 564 HLVVLDLSENQSLNELPEEISELASLRYFNLSYTCIHQLPVGLWTLKKLIHLNLEHMSSL 623

Query: 461 ----VISNFSKLRVLR------LFGTVLAKELLGLKHLEELDFTLRCVHSLQILVSSNKL 510
                ISN   LR L       L    L KEL  L+HLE +   +      + L+ S +L
Sbjct: 624 GSILGISNLWNLRTLGLRDSRLLLDMSLVKELQLLEHLEVITLDISSSLVAEPLLCSQRL 683

Query: 511 QSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYT--SGTVLKSPQP 568
             C +  V  ++   +S+ V+ L  + +L  L   +C  + E K + T  S +  KSP  
Sbjct: 684 VECIKE-VDFKYLKEESVRVLTLPTMGNLRKLGIKRC-GMREIKIERTTSSSSRNKSPTT 741

Query: 569 FVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISA-------------- 614
             F +L +V I  C  LK LT+L+FAPNL  L +     +E+IIS               
Sbjct: 742 PCFSNLSRVFIAKCHGLKDLTWLLFAPNLTFLEVGFSKEVEDIISEEKAEEHSATIVPFR 801

Query: 615 -----------------GKFVHTPEMMGNTMDPCAKLRKLPLDSNSAL--EHKIAIRGEA 655
                             K +H P +    ++ C KLRKLPLDS S +  E  +   GE 
Sbjct: 802 KLETLHLFELRGLKRIYAKALHFPCLKVIHVEKCEKLRKLPLDSKSGIAGEELVIYYGER 861

Query: 656 GWWGCLQWENEATQIAFLP 674
            W   ++WE++ATQ+ FLP
Sbjct: 862 EWIERVEWEDQATQLRFLP 880

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

Arabidopsis thaliana (taxid: 3702)

>sp|P60838|DRL1_ARATH Probable disease resistance protein At1g12280 OS=Arabidopsis thaliana GN=At1g12280 PE=3 SV=1

 Score =  288 bits (738), Expect = 8e-77,   Method: Compositional matrix adjust.
 Identities = 202/565 (35%), Positives = 305/565 (53%), Gaps = 81/565 (14%)

Query: 187 KVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSS 246
           KVGE TL  H DI ELA+ V  +C G PLAL  IG  MA K+  +EWR AI+VL  S ++
Sbjct: 325 KVGENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWRNAIDVL-SSYAA 383

Query: 247 EFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERD 306
           EF G+ +++ P+LK+SYD+L  + ++ CFLYC L+PED+ + K  LID WI EGF+DE +
Sbjct: 384 EFPGM-EQILPILKYSYDNLNKEQVKPCFLYCSLFPEDYRMEKERLIDYWICEGFIDENE 442

Query: 307 SFS-AQNQGYYIVGTLVHAWLL--EEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCA 363
           S   A +QGY I+G LV A LL  E +  ++VK+H V+ +MALWI+ ++ E KE  +V  
Sbjct: 443 SRERALSQGYEIIGILVRACLLLEEAINKEQVKMHDVVREMALWIASDLGEHKERCIVQV 502

Query: 364 GRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKM-------ITDGFFQFM 416
           G GL+E P+VK W +VRR+SLM+N+I+ILS +P C  L   F         I+D FF+ +
Sbjct: 503 GVGLREVPKVKNWSSVRRMSLMENEIEILSGSPECLELTTLFLQKNDSLLHISDEFFRCI 562

Query: 417 PLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRL--- 473
           P+L VL++S  +++++L  ++  LV+L+ ++L W   +  +P+  +    KLR LRL   
Sbjct: 563 PMLVVLDLSGNSSLRKLPNQISKLVSLRYLDLSWTY-IKRLPVG-LQELKKLRYLRLDYM 620

Query: 474 ---------FGTVLAKELLGLKHLEELDF-----------------TLRCVHSLQILVSS 507
                          ++L  L+    LD                  +++    ++ L+++
Sbjct: 621 KRLKSISGISNISSLRKLQLLQSKMSLDMSLVEELQLLEHLEVLNISIKSSLVVEKLLNA 680

Query: 508 NKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELE---EWKTDYTSGTVLK 564
            +L  C + LVL R    +S  V+ L  + +L+ +   KC   E   E KT   S    +
Sbjct: 681 PRLVKCLQILVL-RGVQEESSGVLTLPDMDNLNKVIIRKCGMCEIKIERKTLSLSSN--R 737

Query: 565 SPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFV------ 618
           SP+     +L  V I+ C  LK LT+L+FAPNL  L + D   +E II+  K +      
Sbjct: 738 SPKTQFLHNLSTVHISSCDGLKDLTWLLFAPNLTSLEVLDSELVEGIINQEKAMTMSGII 797

Query: 619 ----------HTPEMMGNT--------------MDPCAKLRKLPLDSNSAL--EHKIAIR 652
                     H   M+ +               +  C +LRKLPLDS  A+  E  +   
Sbjct: 798 PFQKLESLRLHNLAMLRSIYWQPLSFPCLKTIHITKCPELRKLPLDSEIAIRDEELVIKY 857

Query: 653 GEAGWWGCLQWENEATQIAFLPCFK 677
            E  W   ++W+NEAT++ FLP FK
Sbjct: 858 QEEEWLERVEWDNEATRLRFLPFFK 882

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O82484|DRL23_ARATH Putative disease resistance protein At4g10780 OS=Arabidopsis thaliana GN=At4g10780 PE=2 SV=1

 Score =  270 bits (689), Expect = 4e-71,   Method: Compositional matrix adjust.
 Identities = 203/585 (34%), Positives = 293/585 (50%), Gaps = 106/585 (18%)

Query: 186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
           EKVG+ +L SH DILELA+ V  +C G PLAL  IG  MA K+  +EW +A++VL  S +
Sbjct: 321 EKVGQISLGSHPDILELAKKVAGKCRGLPLALNVIGETMAGKRAVQEWHHAVDVL-TSYA 379

Query: 246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDER 305
           +EF+G+   +  +LK+SYD+L +  +RSCF YC LYPED++I K  LID WI EGF+D  
Sbjct: 380 AEFSGMDDHILLILKYSYDNLNDKHVRSCFQYCALYPEDYSIKKYRLIDYWICEGFIDGN 439

Query: 306 -DSFSAQNQGYYIVGTLVHAWLLEEVGDDK--VKLHGVLHDMALWISCEIEEEKENFLVC 362
                A NQGY I+GTLV A LL E G +K  VK+H V+ +MALW   ++ + KE  +V 
Sbjct: 440 IGKERAVNQGYEILGTLVRACLLSEEGKNKLEVKMHDVVREMALWTLSDLGKNKERCIVQ 499

Query: 363 AGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKM-------ITDGFFQF 415
           AG GL++ P+V++W  VRRLSLM N I+ +S +P CP L   F         I+  FF+ 
Sbjct: 500 AGSGLRKVPKVEDWGAVRRLSLMNNGIEEISGSPECPELTTLFLQENKSLVHISGEFFRH 559

Query: 416 MPLLKVLNMSR-----------------------ETNIKELLGELKALVNLKCVNLEWAR 452
           M  L VL++S                         TNI+ L   L+ L  L  +NLE  R
Sbjct: 560 MRKLVVLDLSENHQLDGLPEQISELVALRYLDLSHTNIEGLPACLQDLKTLIHLNLECMR 619

Query: 453 DLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLK----HLEELDFTLRCVHS--LQILVS 506
            L +I    IS  S LR L L  + +  +++ +K           T+  V +  L+ ++ 
Sbjct: 620 RLGSIA--GISKLSSLRTLGLRNSNIMLDVMSVKELHLLEHLEILTIDIVSTMVLEQMID 677

Query: 507 SNKLQSCT-----RALVLIRFKDSKSIDVIALARLKHLSTLHFSKCE----ELEE--WKT 555
           +  L +C      R L+  + +D+K    + L  +  L +L    CE    E+E   W T
Sbjct: 678 AGTLMNCMQEVSIRCLIYDQEQDTK----LRLPTMDSLRSLTMWNCEISEIEIERLTWNT 733

Query: 556 DYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAG 615
           + TS           F +L +V I  C  LK LT+L+FAPN+  L +     ++E+IS  
Sbjct: 734 NPTSP---------CFFNLSQVIIHVCSSLKDLTWLLFAPNITYLMIEQLEQLQELISHA 784

Query: 616 KFVHTPE--------------------------------------MMGNTMDPCAKLRKL 637
           K     E                                      + G  ++ C KLRKL
Sbjct: 785 KATGVTEEEQQQLHKIIPFQKLQILHLSSLPELKSIYWISLSFPCLSGIYVERCPKLRKL 844

Query: 638 PLDSNSALEHK--IAIRGEAGWWGCLQWENEATQIAFLPCFKTIY 680
           PLDS +    K  +    E  W   ++W++EAT++ FLP  K +Y
Sbjct: 845 PLDSKTGTVGKKFVLQYKETEWIESVEWKDEATKLHFLPSTKLVY 889

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L3R3|RFL1_ARATH Disease resistance protein RFL1 OS=Arabidopsis thaliana GN=RFL1 PE=3 SV=2

 Score =  265 bits (677), Expect = 9e-70,   Method: Compositional matrix adjust.
 Identities = 200/568 (35%), Positives = 286/568 (50%), Gaps = 90/568 (15%)

Query: 186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
           +KVGE TL SH DI +LA+ V+++C G PLAL  IG  M++K+  +EWR+A EVL  +S+
Sbjct: 324 KKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHATEVL--TSA 381

Query: 246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDER 305
           ++F+G+  E+ P+LK+SYDSL  +  +SCFLYC L+PEDF I K  LI+ WI EGF+ E+
Sbjct: 382 TDFSGMEDEILPILKYSYDSLNGEDAKSCFLYCSLFPEDFEIRKEMLIEYWICEGFIKEK 441

Query: 306 DSF-SAQNQGYYIVGTLVHAWLLEEVGDDK--VKLHGVLHDMALWISCEIEEEKENFLVC 362
                A NQGY I+GTLV + LL E   DK  V +H ++ +MALWI  ++ + KE  +V 
Sbjct: 442 QGREKAFNQGYDILGTLVRSSLLLEGAKDKDVVSMHDMVREMALWIFSDLGKHKERCIVQ 501

Query: 363 AGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL-------HYEFKMITDGFFQF 415
           AG GL E PEV+ W  V+R+SLM N  + +  +P C  L       +Y+   I+  FF+ 
Sbjct: 502 AGIGLDELPEVENWRAVKRMSLMNNNFEKILGSPECVELITLFLQNNYKLVDISMEFFRC 561

Query: 416 MPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWA------------RDLVTIPLEV-- 461
           MP L VL++S   ++ EL  E+  LV+L+ ++L               R LV + LE   
Sbjct: 562 MPSLAVLDLSENHSLSELPEEISELVSLQYLDLSGTYIERLPHGLHELRKLVHLKLERTR 621

Query: 462 -------ISNFSKLRVLRLFG--TVLAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQS 512
                  IS  S LR LRL    T L   L+    L E    +    S  ++        
Sbjct: 622 RLESISGISYLSSLRTLRLRDSKTTLDTGLMKELQLLEHLELITTDISSGLVGELFCYPR 681

Query: 513 CTRALVLIRFKD-----SKSIDVIALARLKHLSTLHFSKCEELE------EWKTDYTSGT 561
             R +  I  +D      +S+ V+ L  + +L  +    C   E       WK + T+  
Sbjct: 682 VGRCIQHIYIRDHWERPEESVGVLVLPAIHNLCYISIWNCWMWEIMIEKTPWKKNLTNPN 741

Query: 562 VLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGK----- 616
                    F +L  V I  C  LK LT+L+FAPNL  L ++ C  +E+IIS  K     
Sbjct: 742 ---------FSNLSNVRIEGCDGLKDLTWLLFAPNLINLRVWGCKHLEDIISKEKAASVL 792

Query: 617 --------------FVHTPEMMG--------------NTMDPCAKLRKLPLDSNSA--LE 646
                              E+                + ++ C KLRKLPLDS S   +E
Sbjct: 793 EKEILPFQKLECLNLYQLSELKSIYWNALPFQRLRCLDILNNCPKLRKLPLDSKSVVKVE 852

Query: 647 HKIAIRGEAGWWGCLQWENEATQIAFLP 674
             +    E  W   ++WE+EATQ  FLP
Sbjct: 853 EFVIKYKEKKWIERVEWEDEATQYRFLP 880

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SH22|DRL20_ARATH Probable disease resistance protein At1g63360 OS=Arabidopsis thaliana GN=At1g63360 PE=2 SV=1

 Score =  263 bits (671), Expect = 5e-69,   Method: Compositional matrix adjust.
 Identities = 205/576 (35%), Positives = 298/576 (51%), Gaps = 96/576 (16%)

Query: 186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
           +KVG+ TL S   I +LA+ V K+C G PLAL  IG  M+ K+  +EWR+AI VL  S +
Sbjct: 320 KKVGQTTLGSDPGIPQLARIVAKKCCGLPLALNVIGETMSCKRTIQEWRHAIHVL-NSYA 378

Query: 246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDER 305
           +EF G+  +V PLLK+SYD+L+ + ++S  LYC LYPED  ILK DLI+ WI E  +D  
Sbjct: 379 AEFIGMEDKVLPLLKYSYDNLKGEQVKSSLLYCALYPEDAKILKEDLIEHWICEEIIDGS 438

Query: 306 DSF-SAQNQGYYIVGTLVHAWLLEEVGDDK----VKLHGVLHDMALWISCEIEEEKENFL 360
           +    A+++GY I+G LV A LL E  D      V +H V+ +MALWI+ E+  +KE F+
Sbjct: 439 EGIEKAEDKGYEIIGCLVRASLLMEWDDGDGRRAVCMHDVVREMALWIASELGIQKEAFI 498

Query: 361 VCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL-------------HYEFKM 407
           V AG G++E P++K W  VRR+SLM+N+I  L  +  C  L               + K 
Sbjct: 499 VRAGVGVREIPKIKNWNVVRRMSLMENKIHHLVGSYECMELTTLLLGKREYGSIRSQLKT 558

Query: 408 ITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKC---------------------- 445
           I+  FF  MP L VL++S   ++ EL  E+  LV+LK                       
Sbjct: 559 ISSEFFNCMPKLAVLDLSHNKSLFELPEEISNLVSLKYLNLLYTEISHLPKGIQELKKII 618

Query: 446 -VNLEWARDLVTIPLEVISNFSKLRVLRLFGTVL------AKELLGLKHLEELDFTLRCV 498
            +NLE+ R L +I    IS+   L+VL+LF + L       KEL  L+HLE L  T+   
Sbjct: 619 HLNLEYTRKLESIT--GISSLHNLKVLKLFRSRLPWDLNTVKELETLEHLEILTTTID-- 674

Query: 499 HSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYT 558
              +  +SS++L S +R L +          V +L R  HL +L  S  ++L E++    
Sbjct: 675 PRAKQFLSSHRLLSHSRLLEIY------GSSVSSLNR--HLESLSVS-TDKLREFQIKSC 725

Query: 559 SGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGK-- 616
           S + +K      F SL  V I  C  L+ LTFL+FAP ++ LS++    +E+II+  K  
Sbjct: 726 SISEIKMGGICNFLSLVDVNIFNCEGLRELTFLIFAPKIRSLSVWHAKDLEDIINEEKAC 785

Query: 617 ------FVHTPEMMGNTMDP------------------------CAKLRKLPLDSNSAL- 645
                  +  PE+   T+                          C  LRKLPLDS S   
Sbjct: 786 EGEESGILPFPELNFLTLHDLPKLKKIYWRPLPFLCLEEINIRECPNLRKLPLDSTSGKQ 845

Query: 646 -EHKIAIRG-EAGWWGCLQWENEATQIAFLPCFKTI 679
            E+   IR  ++ W+  ++W +EAT+  FLP  + I
Sbjct: 846 GENGCIIRNKDSRWFEGVKWADEATKKRFLPSCQLI 881

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  261 bits (666), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 189/566 (33%), Positives = 293/566 (51%), Gaps = 80/566 (14%)

Query: 186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
           +KVG+ TL SH DI E+A+ V + C G PLAL  IG  MA KK  +EW  A++V   + +
Sbjct: 323 KKVGDITLSSHPDIPEIARKVAQACCGLPLALNVIGETMACKKTTQEWDRAVDV-STTYA 381

Query: 246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLD-E 304
           + F  + + + P+LK+SYD+L+++ +++CFLYC L+PED  I K  LID WI EGF+D +
Sbjct: 382 ANFGAVKERILPILKYSYDNLESESVKTCFLYCSLFPEDDLIEKERLIDYWICEGFIDGD 441

Query: 305 RDSFSAQNQGYYIVGTLVHAWLLEEVGD----DKVKLHGVLHDMALWISCEIEEEKENFL 360
            +   A  +GY I+GTLV A LL E G       VK+H V+ +MALWI+ ++ + K+N +
Sbjct: 442 ENKKGAVGEGYEILGTLVCASLLVEGGKFNNKSYVKMHDVVREMALWIASDLRKHKDNCI 501

Query: 361 VCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKM-------ITDGFF 413
           V AG  L E P+VK+W+ V R+SL+ N+IK +  +P CP L   F         I+  FF
Sbjct: 502 VRAGFRLNEIPKVKDWKVVSRMSLVNNRIKEIHGSPECPKLTTLFLQDNRHLVNISGEFF 561

Query: 414 QFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWA---------------------R 452
           + MP L VL++S   N+  L  ++  LV+L+ ++L ++                      
Sbjct: 562 RSMPRLVVLDLSWNVNLSGLPDQISELVSLRYLDLSYSSIGRLPVGLLKLKKLMHLNLES 621

Query: 453 DLVTIPLEVISNFSKLRVLRLFG----TVLAKELLGLKHLEELDFTLRCVHS--LQILVS 506
            L    +  I + S L+ +RL        ++      +       T+  + S  L+ L+ 
Sbjct: 622 MLCLESVSGIDHLSNLKTVRLLNLRMWLTISLLEELERLENLEVLTIEIISSSALEQLLC 681

Query: 507 SNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSP 566
           S++L  C +  V +++ D +S+ ++ L  +  L  +    C   +         T L SP
Sbjct: 682 SHRLVRCLQK-VSVKYLDEESVRILTLPSIGDLREVFIGGCGMRD---IIIERNTSLTSP 737

Query: 567 QPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGK---------- 616
               F +L KV IT C  LK LT+L+FAPNL  L++++   +EEIIS  K          
Sbjct: 738 ---CFPNLSKVLITGCNGLKDLTWLLFAPNLTHLNVWNSRQIEEIISQEKASTADIVPFR 794

Query: 617 ---FVH---TPEMMG--------------NTMDPCAKLRKLPLDSNS---ALEHKIAIRG 653
              ++H    PE+                N  + C KL KLPLDS S   A E  +   G
Sbjct: 795 KLEYLHLWDLPELKSIYWNPLPFPCLNQINVQNKCRKLTKLPLDSQSCIVAGEELVIQYG 854

Query: 654 EAGWWGCLQWENEATQIAFLPCFKTI 679
           +  W   ++WE++AT++ FLP  K +
Sbjct: 855 DEEWKERVEWEDKATRLRFLPSCKLV 880

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SI85|DRL14_ARATH Probable disease resistance protein At1g62630 OS=Arabidopsis thaliana GN=At1g62630 PE=3 SV=2

 Score =  260 bits (665), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 202/571 (35%), Positives = 296/571 (51%), Gaps = 94/571 (16%)

Query: 186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
           +KVG++TL S   I +LA+ V K+C G PLAL  IG  M+ K+  +EWR AI VL  S +
Sbjct: 320 KKVGQKTLGSDPGIPQLARIVAKKCCGLPLALNVIGETMSCKRTIQEWRNAIHVL-NSYA 378

Query: 246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDER 305
           +EF G+  ++ PLLK+SYD+L+ + ++S  LYC LYPED  I K DLI+ WI E  +D  
Sbjct: 379 AEFIGMEDKILPLLKYSYDNLKGEHVKSSLLYCALYPEDAKIRKEDLIEHWICEEIIDGS 438

Query: 306 DSF-SAQNQGYYIVGTLVHAWLLEEV----GDDKVKLHGVLHDMALWISCEIEEEKENFL 360
           +    A+++GY I+G+LV A LL E     G   V +H V+ +MALWI+ E+  +KE F+
Sbjct: 439 EGIEKAEDKGYDIIGSLVRASLLMECVDLKGKSSVIMHDVVREMALWIASELGIQKEAFI 498

Query: 361 VCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHY---------------EF 405
           V AG G++E P+VK W  VRR+SLM N+I  L  +  C  L                 E 
Sbjct: 499 VRAGVGVREIPKVKNWNVVRRMSLMGNKIHHLVGSYECMELTTLLLGEGEYGSIWRWSEI 558

Query: 406 KMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWA------------RD 453
           K I+  FF  MP L VL++S   ++ EL  E+  LV+LK +NL               + 
Sbjct: 559 KTISSEFFNCMPKLAVLDLSHNQSLFELPEEISNLVSLKYLNLSHTGIRHLSKGIQELKK 618

Query: 454 LVTIPLE---------VISNFSKLRVLRLFGTVL------AKELLGLKHLEELDFTLRCV 498
           ++ + LE          IS+   L+VL+L+G+ L       KEL  L+HLE L  T+   
Sbjct: 619 IIHLNLEHTSKLESIDGISSLHNLKVLKLYGSRLPWDLNTVKELETLEHLEILTTTID-- 676

Query: 499 HSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYT 558
              +  +SS++L S +R L +         ++ +  R   L +L  S  ++L E++    
Sbjct: 677 PRAKQFLSSHRLMSRSRLLQIF------GSNIFSPDR--QLESLSVS-TDKLREFEIMCC 727

Query: 559 SGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGK-- 616
           S + +K      F SL  VTI  C  L+ LTFL+FAP L+ LS+ D   +E+II+  K  
Sbjct: 728 SISEIKMGGICNFLSLVDVTIYNCEGLRELTFLIFAPKLRSLSVVDAKDLEDIINEEKAC 787

Query: 617 ------FVHTPEM----------MGN--------------TMDPCAKLRKLPLDSNSALE 646
                  V  PE+          + N              T+  C  LRKLPLDS S  +
Sbjct: 788 EGEDSGIVPFPELKYLNLDDLPKLKNIYRRPLPFLCLEKITIGECPNLRKLPLDSRSGKQ 847

Query: 647 HK---IAIRGEAGWWGCLQWENEATQIAFLP 674
            +   I    ++ W   ++W +EAT+  FLP
Sbjct: 848 GENGCIIHYKDSRWLKGVKWADEATKKRFLP 878

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LVT3|DRL38_ARATH Probable disease resistance protein At5g47260 OS=Arabidopsis thaliana GN=At5g47260 PE=3 SV=2

 Score =  249 bits (635), Expect = 7e-65,   Method: Compositional matrix adjust.
 Identities = 185/566 (32%), Positives = 280/566 (49%), Gaps = 102/566 (18%)

Query: 186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
           E VGE TL SH DI +LA+ V   C G PLAL  IG AM+ K+   EWRY I VL  SS+
Sbjct: 312 ETVGENTLRSHQDIPKLARVVASTCRGLPLALNLIGEAMSGKRTVREWRYTIHVL-ASST 370

Query: 246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDER 305
           +EF  +     P+LK  YD++ +++IR CFLYC L+PE+  I K DL++ WI EG L + 
Sbjct: 371 AEFPDMEDGTLPILKSIYDNMSDEIIRLCFLYCALFPENLDIGKEDLVNYWICEGILAKE 430

Query: 306 DSFSAQNQGYYIVGTLVHAWLLEEVGDDK-VKLHGVLHDMALWISCEIEEEKENFLVCAG 364
           D   A+ QGY I+  LV   LL E G+   VK+HG++ +MALWI+       E+F+V  G
Sbjct: 431 DREEAEIQGYEIICDLVRMRLLMESGNGNCVKMHGMVREMALWIA------SEHFVVVGG 484

Query: 365 RGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL-------HYEFKMITDGFFQFMP 417
             + +   V +W  +RR+S+   QI+ +S++P C  L       +   K I+  FFQ+M 
Sbjct: 485 ERIHQMLNVNDWRMIRRMSVTSTQIQNISDSPQCSELTTLVFRRNRHLKWISGAFFQWMT 544

Query: 418 LLKVLNMSRETNIKELLGELKALVNLKCVNLEWA------------RDLVTIPLEVISNF 465
            L VL++S    + EL  E+ +LV L+ +NL W             + L+ + L+  SN 
Sbjct: 545 GLVVLDLSFNRELAELPEEVSSLVLLRFLNLSWTCIKGLPLGLKELKSLIHLDLDYTSNL 604

Query: 466 SK---------LRVLRLFGTVLAKELLGLKHLEELD---------FTLRCVHSLQILVSS 507
            +         L+VLRLF +V     + LK +E++           T+R    LQ L+S 
Sbjct: 605 QEVDVIASLLNLQVLRLFHSV----SMDLKLMEDIQLLKSLKELSLTVRGSSVLQRLLSI 660

Query: 508 NKLQSCTRALVLIRFKDSKSID--VIALARLKHLSTLHFSKCEELE---EWKTDYTSGTV 562
            +L S  R L      ++  +D  +++L  +  L  L    C  LE   +W+       +
Sbjct: 661 QRLASSIRRL---HLTETTIVDGGILSLNAIFSLCELDILGCNILEITIDWRCTIQREII 717

Query: 563 LKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPE 622
              PQ   F ++  +TI  C  L+ LT+L+ AP L  LS+ +C  MEE+IS  K +    
Sbjct: 718 ---PQ---FQNIRTMTIHRCEYLRDLTWLLLAPCLGELSVSECPQMEEVISKDKAMAK-- 769

Query: 623 MMGNTMDP------------------------------------CAKLRKLPLDSNSALE 646
            +GNT +                                     C +LR+LP +S S + 
Sbjct: 770 -LGNTSEQPFQNLTKLVLDGLPKLESIYWTPLPFPVLEYLVIRRCPELRRLPFNSESTIG 828

Query: 647 HKIAIRGEAGWWGCLQWENEATQIAF 672
           +++    E      ++WE+EAT+  F
Sbjct: 829 NQVETIIEEQVIKIVEWEDEATKQRF 854

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C8T9|DRL19_ARATH Putative disease resistance protein At1g63350 OS=Arabidopsis thaliana GN=At1g63350 PE=2 SV=1

 Score =  248 bits (634), Expect = 9e-65,   Method: Compositional matrix adjust.
 Identities = 194/564 (34%), Positives = 286/564 (50%), Gaps = 88/564 (15%)

Query: 186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
           +KVG+ TL S  +I EL++ V K+C G PLAL  +   M+ K+  +EWR+AI VL  S +
Sbjct: 320 KKVGQITLGSDPEIRELSRVVAKKCCGLPLALNVVSETMSCKRTVQEWRHAIYVL-NSYA 378

Query: 246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDER 305
           ++F+G+  ++ PLLK+SYDSL+ + ++ C LYC L+PED  I K +LI+ WI E  +D  
Sbjct: 379 AKFSGMDDKILPLLKYSYDSLKGEDVKMCLLYCALFPEDAKIRKENLIEYWICEEIIDGS 438

Query: 306 DSFS-AQNQGYYIVGTLVHAWLL-EEV---GDDKVKLHGVLHDMALWISCEIEEEKENFL 360
           +    A+NQGY I+G+LV A LL EEV   G + V LH V+ +MALWI+ ++ ++ E F+
Sbjct: 439 EGIDKAENQGYEIIGSLVRASLLMEEVELDGANIVCLHDVVREMALWIASDLGKQNEAFI 498

Query: 361 VCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL------HYEFKMITDGFFQ 414
           V A  GL+E  +V+ W  VRR+SLM+N I  L     C  L          + I+  FF 
Sbjct: 499 VRASVGLREILKVENWNVVRRMSLMKNNIAHLDGRLDCMELTTLLLQSTHLEKISSEFFN 558

Query: 415 FMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWA------------RDLVTIPLEV- 461
            MP L VL++S    + EL   +  LV+L+ +NL               + L+ + LE  
Sbjct: 559 SMPKLAVLDLSGNYYLSELPNGISELVSLQYLNLSSTGIRHLPKGLQELKKLIHLYLERT 618

Query: 462 --------ISNFSKLRVLRLFGTVLA------KELLGLKHLEELDFTL-RCVHSLQILVS 506
                   IS    L+VL+L G+  A      KEL  L+HLE L  T+  C       +S
Sbjct: 619 SQLGSMVGISCLHNLKVLKLSGSSYAWDLDTVKELEALEHLEVLTTTIDDCTLGTDQFLS 678

Query: 507 SNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSP 566
           S++L SC R L        K  +     R     +L  +  + L+E+  ++   + +K  
Sbjct: 679 SHRLMSCIRFL--------KISNNSNRNRNSSRISLPVT-MDRLQEFTIEHCHTSEIKMG 729

Query: 567 QPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGN 626
           +   F SL +V ++ C +L+ LTFL+FAPNLK L +     +E+II+  K  H  E  G 
Sbjct: 730 RICSFSSLIEVNLSNCRRLRELTFLMFAPNLKRLHVVSSNQLEDIINKEK-AHDGEKSGI 788

Query: 627 TMDP---------------------------------CAKLRKLPLDSNSALEHK----I 649
              P                                 C  L+KLPLDS S  +H     I
Sbjct: 789 VPFPKLNELHLYNLRELKNIYWSPLPFPCLEKINVMGCPNLKKLPLDSKSG-KHGGNGLI 847

Query: 650 AIRGEAGWWGCLQWENEATQIAFL 673
               E  W   ++WE+EAT+  FL
Sbjct: 848 ITHREMEWITRVEWEDEATKTRFL 871

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	680
24461863	889	NBS-LRR type disease resistance protein	0.714	0.546	0.554	1e-157
24461866	890	NBS-LRR type disease resistance protein	0.714	0.546	0.540	1e-155
24461865	892	NBS-LRR type disease resistance protein	0.716	0.545	0.527	1e-153
24461861	890	NBS-LRR type disease resistance protein	0.717	0.548	0.528	1e-148
24461864	899	NBS-LRR type disease resistance protein	0.711	0.538	0.483	1e-132
15080718	479	putative disease resistance gene protein	0.545	0.774	0.555	1e-114
225442867	893	PREDICTED: probable disease resistance p	0.722	0.549	0.441	1e-111
359482672	905	PREDICTED: probable disease resistance p	0.717	0.539	0.431	1e-109
225443158	903	PREDICTED: probable disease resistance p	0.717	0.540	0.420	1e-109
147852651	882	hypothetical protein VITISV_017542 [Viti	0.691	0.532	0.419	1e-105

>gi|24461863|gb|AAN62350.1|AF506028_17 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  561 bits (1447), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 320/577 (55%), Positives = 370/577 (64%), Gaps = 91/577 (15%)

Query: 186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
           + VGEETL S HDI ELAQ V +ECGG PLALITIG+AMAYKK  EEWR+AIEVLR+S+S
Sbjct: 316 QNVGEETLTSDHDIAELAQIVAEECGGLPLALITIGQAMAYKKTVEEWRHAIEVLRRSAS 375

Query: 246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDER 305
            EF G    V  + KFSYDSL +D  RSCFLYCCLYP+D+ ILK DLIDCWIGEGFL+E 
Sbjct: 376 -EFPGF-DNVLRVFKFSYDSLPDDTTRSCFLYCCLYPKDYGILKWDLIDCWIGEGFLEES 433

Query: 306 DSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCAGR 365
             F A+NQGY IVGTLV A LLEE+ DDKVK+H V+  MALWI CEIEEEK NFLV AG 
Sbjct: 434 ARFVAENQGYCIVGTLVDACLLEEIEDDKVKMHDVVRYMALWIVCEIEEEKRNFLVRAGA 493

Query: 366 GLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEF-------KMITDGFFQFMPL 418
           GL++AP VKEWE VRRLSLMQN IKILSE PTCP LH  F       + ITDGFF+FMP 
Sbjct: 494 GLEQAPAVKEWENVRRLSLMQNDIKILSEVPTCPDLHTLFLASNNNLQRITDGFFKFMPS 553

Query: 419 LKVLNMSR-------------------------ETNIKELLGELKALVNLKCVNLEWARD 453
           LKVL MS                          +T+I EL  ELK LVNLKC+NL WA  
Sbjct: 554 LKVLKMSHCGDLKVLKLPLGMSMLGSLELLDISQTSIGELPEELKLLVNLKCLNLRWATW 613

Query: 454 LVTIPLEVISNFSKLRVLRLF------------------GTVLAKELLGLKHLEELDFTL 495
           L  IP ++ISN S+L VLR+F                  G VL +ELLGLK+LE L+ TL
Sbjct: 614 LSKIPRQLISNSSRLHVLRMFATGCSHSEASEDSVLFGGGEVLIQELLGLKYLEVLELTL 673

Query: 496 RCVHSLQILVSSNKLQSCTRALVLIRFKDSKS-IDVIALARLKHLSTLHFSKCEELEEWK 554
           R  H+LQ+  SSNKL+SC R+L+L   + +KS ID  A A L HL+ L      E+EE K
Sbjct: 674 RSSHALQLFFSSNKLKSCIRSLLLDEVRGTKSIIDATAFADLNHLNELRIDSVAEVEELK 733

Query: 555 TDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISA 614
            DYT   V K  +PFVF SLH+VT+  C KLK LTFLVFAPNLK L L +C AMEEIIS 
Sbjct: 734 IDYTE-IVRKRREPFVFGSLHRVTLGQCLKLKDLTFLVFAPNLKSLQLLNCRAMEEIISV 792

Query: 615 GKFVHTPEMMGNT----------------------------------MDPCAKLRKLPLD 640
           GKF   PE+MG+                                   +  C +L+KLPLD
Sbjct: 793 GKFAEVPEVMGHISPFENLQRLHLFDLPRLKSIYWKPLPFTHLKEMRVHGCNQLKKLPLD 852

Query: 641 SNSALEHKIAIRGEAGWWGCLQWENEATQIAFLPCFK 677
           SNSA   K  IRGEA  W  LQWE++ATQIAF  CF+
Sbjct: 853 SNSA---KFVIRGEAEGWNRLQWEDDATQIAFRSCFQ 886

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461866|gb|AAN62353.1|AF506028_20 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  555 bits (1429), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 310/574 (54%), Positives = 370/574 (64%), Gaps = 88/574 (15%)

Query: 186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
           +KVGEETL S  DI +LAQT  KECGG PLALITIGRAMA KK PEEW YAIEVLR +SS
Sbjct: 324 QKVGEETLKSP-DIRQLAQTAAKECGGLPLALITIGRAMACKKTPEEWTYAIEVLR-TSS 381

Query: 246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDER 305
           S+F GL  EVYPLLKFSYDSL +D IRSC LYCCLYPED+ I K  LIDCWIGEGFL ER
Sbjct: 382 SQFPGLGNEVYPLLKFSYDSLPSDTIRSCLLYCCLYPEDYCISKEILIDCWIGEGFLTER 441

Query: 306 DSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCAGR 365
           D F  QNQGY+I+G L+HA LLEE GD +VK+H V+ DMALWI+C IE+EK+NFLV AG 
Sbjct: 442 DRFGEQNQGYHILGILLHACLLEEGGDGEVKMHDVVRDMALWIACAIEKEKDNFLVYAGV 501

Query: 366 GLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL------HYEFKMITDGFFQFMPLL 419
           GL EAP+V  WE  RRLSLM NQI  LSE  TCPHL        E +MI + FF+FMP L
Sbjct: 502 GLIEAPDVSGWEKARRLSLMHNQITNLSEVATCPHLLTLFLNENELQMIHNDFFRFMPSL 561

Query: 420 KVLNMS----------------------RETNIKELLGELKALVNLKCVNLEWARDLVTI 457
           KVLN++                       +++I+EL  ELKALVNLKC+NLE+   L TI
Sbjct: 562 KVLNLADSSLTNLPEGISKLVSLQHLDLSKSSIEELPLELKALVNLKCLNLEYTWSLTTI 621

Query: 458 PLEVISNFSKLRVLRLF-------------------GTVLAKELLGLKHLEELDFTLRCV 498
           P ++ISN S+L VLR+F                   G ++ +ELLGLK+LE + FTLR  
Sbjct: 622 PRQLISNLSRLHVLRMFAASHSAFDRASEDSILFGGGELIVEELLGLKYLEVISFTLRSS 681

Query: 499 HSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYT 558
           H LQ  +SS+KL+SCTRAL+L  F DS S++V ALA LK L+ L  ++C++LEE K DYT
Sbjct: 682 HGLQSFLSSHKLRSCTRALLLQCFNDSTSLEVSALADLKQLNRLWITECKKLEELKMDYT 741

Query: 559 SGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFV 618
                +  Q FVF SL KV I  C KLK LTFLVFAPNL+ + L  C AMEE++S GKF 
Sbjct: 742 -----REVQQFVFHSLKKVEILACSKLKDLTFLVFAPNLESIELMGCPAMEEMVSMGKFA 796

Query: 619 HTPEMMGN----------------------------------TMDPCAKLRKLPLDSNSA 644
             PE++ N                                  +   C KL+KLPLDSNSA
Sbjct: 797 EVPEVVANLNPFAKLQNLKLFGATNLKSIYWKPLPFPHLKSMSFSHCYKLKKLPLDSNSA 856

Query: 645 LEHKIAIRGEAGWWGCLQWENEATQIAFLPCFKT 678
            E  I I G   WW  L+W +EAT+ AFLPCF +
Sbjct: 857 RERNIVISGTRRWWEQLEWVDEATRNAFLPCFDS 890

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461865|gb|AAN62352.1|AF506028_19 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  547 bits (1409), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 304/576 (52%), Positives = 368/576 (63%), Gaps = 89/576 (15%)

Query: 186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
           + VGEET++SH DIL+LAQT  +ECGG PLALITIGRAMA KK PEEW YAIEVLR +SS
Sbjct: 324 QNVGEETMNSHPDILQLAQTAARECGGLPLALITIGRAMACKKTPEEWSYAIEVLR-TSS 382

Query: 246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDER 305
           S+F GL  EVYPLLKFSYDSL +D IRSC LYC LYPED+ I K  LIDCWIGE  L ER
Sbjct: 383 SQFPGLGNEVYPLLKFSYDSLPSDTIRSCHLYCSLYPEDYCISKEKLIDCWIGERLLTER 442

Query: 306 DSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCAGR 365
           D    Q +GY+I+G L+HA LLEE GD +VK+H V+ DMALWI+C+IE EKENF V AG 
Sbjct: 443 DRTGEQKEGYHILGILLHACLLEEGGDGEVKMHDVIRDMALWIACDIEREKENFFVYAGV 502

Query: 366 GLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPH------LHYEFKMITDGFFQFMPLL 419
           GL EAP+V+ WE  RRLSLMQNQI+ LSE PTCPH           + I + FFQFMP L
Sbjct: 503 GLVEAPDVRGWEKARRLSLMQNQIRNLSEIPTCPHLLTLLLNENNLRKIQNYFFQFMPSL 562

Query: 420 KVLNMSR----------------------ETNIKELLGELKALVNLKCVNLEWARDLVTI 457
           KVLN+S                       E++I+E  GELKALVNLKC++LE+ R+L+TI
Sbjct: 563 KVLNLSHCELTKLPVGISELVSLQHLDLSESDIEEFPGELKALVNLKCLDLEYTRNLITI 622

Query: 458 PLEVISNFSKLRVLRLFGT-------------------VLAKELLGLKHLEELDFTLRCV 498
           P ++ISN S+LRVLR+FG                    ++ +ELLGLKHLE +  TLR  
Sbjct: 623 PRQLISNLSRLRVLRMFGASHNAFDEASENSILFGGGELIVEELLGLKHLEVITLTLRSS 682

Query: 499 HSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYT 558
           + LQ  ++S+KL+SCT+AL+L  FKDS S++V ALA LK L+ L  +    LEE K DY 
Sbjct: 683 YGLQSFLNSHKLRSCTQALLLQHFKDSTSLEVSALADLKQLNRLQIANSVILEELKMDYA 742

Query: 559 SGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFV 618
                +  Q F F SL+ V I  C +LK LTFLVFAPNLK + +  C AMEEI S GKF 
Sbjct: 743 -----EEVQQFAFRSLNMVEICNCIQLKDLTFLVFAPNLKSIKVGICHAMEEIASEGKFA 797

Query: 619 HTPEMMGNTMDP-----------------------------------CAKLRKLPLDSNS 643
             PE+M N ++P                                   C KL+KLPLDSNS
Sbjct: 798 EVPEVMAN-LNPFEKLQNLEVAGARNLKSIYWKSLPFPHLKAMSFLHCKKLKKLPLDSNS 856

Query: 644 ALEHKIAIRGEAGWWGCLQWENEATQIAFLPCFKTI 679
           A E KI I GE  W   LQWE+EAT+ AFL CF+ +
Sbjct: 857 AKERKIVISGERNWREQLQWEDEATRNAFLRCFRDV 892

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461861|gb|AAN62348.1|AF506028_15 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  532 bits (1371), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 302/571 (52%), Positives = 364/571 (63%), Gaps = 83/571 (14%)

Query: 186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
           +KVGEETL+ HHDILELAQTVTKECGG PLALITIGRAMA KK PEEW YAI+VLR +SS
Sbjct: 325 QKVGEETLNCHHDILELAQTVTKECGGLPLALITIGRAMACKKTPEEWSYAIQVLR-TSS 383

Query: 246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDER 305
           S+F GL  EVYPLLKFSYD+L ND IRSC LYCCLYPED  I K +L+DCWIGEG L+  
Sbjct: 384 SQFPGLGNEVYPLLKFSYDNLPNDTIRSCLLYCCLYPEDCCISKENLVDCWIGEGLLNGS 443

Query: 306 DSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCAGR 365
            +  +  QGY++VG LVH+ LLEEV +D+VK+H V+ DMALW++C+ E+EKEN+LV AG 
Sbjct: 444 VTLGSHEQGYHVVGILVHSCLLEEVDEDEVKMHDVIRDMALWLACDAEKEKENYLVYAGA 503

Query: 366 GLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFK-------MITDGFFQFMPL 418
           GL+EAP+V EWE +RRLSLM+NQI+ LSE PTCPHL   F         I   F Q M  
Sbjct: 504 GLREAPDVIEWEKLRRLSLMENQIENLSEVPTCPHLLTLFLNSDDILWRINSDFLQSMLR 563

Query: 419 LKVLNMSRETN-----------------------IKELLGELKALVNLKCVNLEWARDLV 455
           LKVLN+SR                          I E+  ELKALVNLKC+NLE+   L+
Sbjct: 564 LKVLNLSRYMGLLVLPLGISKLVSLEYLDLSTSLISEIPEELKALVNLKCLNLEYTGRLL 623

Query: 456 TIPLEVISNFSKLRVLRLFGTVL-------------------AKELLGLKHLEELDFTLR 496
            IPL++ISNFS+L VLR+FG                       +ELLGLKHLE L  TL 
Sbjct: 624 KIPLQLISNFSRLHVLRMFGNAYFSYGNYPIESVLFGGGELLVEELLGLKHLEVLSLTLG 683

Query: 497 CVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTD 556
              +LQ  ++S+ L+SCTRA++L  F+ S S+DV  LA LK L  L  S C EL E K D
Sbjct: 684 SSRALQSFLTSHMLRSCTRAMLLQDFQGSTSVDVSGLADLKRLKRLRISDCYELVELKID 743

Query: 557 YTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGK 616
           Y +G V    Q + F SL    + +C KLK LT LV  PNLK + + DC AMEEIIS G+
Sbjct: 744 Y-AGEV----QRYGFHSLQSFEVNYCSKLKDLTLLVLIPNLKSIEVTDCEAMEEIISVGE 798

Query: 617 FVHTPEM--------MGN--------------------TMDPCAKLRKLPLDSNSALEHK 648
           F   P          +GN                    T+  C +L+KLPLDSNSA EHK
Sbjct: 799 FAGNPNAFAKLQYLGIGNLPNLKSIYWKPLPFPCLEELTVSDCYELKKLPLDSNSAKEHK 858

Query: 649 IAIRGEAGWWGCLQWENEATQIAFLPCFKTI 679
           I IRG A WW  LQWE+EATQ AFL CF+++
Sbjct: 859 IVIRGAANWWRNLQWEDEATQNAFLSCFQSL 889

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461864|gb|AAN62351.1|AF506028_18 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  480 bits (1235), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 282/583 (48%), Positives = 348/583 (59%), Gaps = 99/583 (16%)

Query: 186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
           + VGEETL+    ILELA+ V KECG  PLALI  GRAMA KK P EWR AI+VL ++S+
Sbjct: 326 QNVGEETLNGQPKILELAERVAKECGCLPLALIVTGRAMACKKTPAEWRDAIKVL-QTSA 384

Query: 246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDER 305
           SEF GL   V  +LKFSYDSL +D  RSC LYCCL+PED+ I K +LIDCWIGEGFL   
Sbjct: 385 SEFPGLENNVLRVLKFSYDSLPDDTTRSCLLYCCLFPEDYRIYKENLIDCWIGEGFLKVT 444

Query: 306 DSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISC------EIEEEKENF 359
             +  Q++G+ I+G +VHA LLEE GDD VK+H V+ DM LWI+C      + E++KEN+
Sbjct: 445 GKYELQDRGHTILGNIVHACLLEEEGDDVVKMHDVIRDMTLWIACDTEKTEDTEKKKENY 504

Query: 360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL-------HYEFKMITDGF 412
           LV  G GL EAP V+EWE  +RLSLM+ QI+ LSE PTC HL       + E +MIT  F
Sbjct: 505 LVYEGAGLTEAPNVREWENAKRLSLMETQIRNLSEVPTCLHLLTLFLVFNEELEMITGDF 564

Query: 413 FQFMPLLKVLNMS-----------------------RETNIKELLGELKALVNLKCVNLE 449
           F+ MP LKVLN+S                         T I+EL  EL AL NLK +NL+
Sbjct: 565 FKSMPCLKVLNLSGARRMSSFPLGVSVLVSLQHLDLSGTAIQELPKELNALENLKSLNLD 624

Query: 450 WARDLVTIPLEVISNFSKLRVLRLFGT-------------------VLAKELLGLKHLEE 490
               L+TIP ++IS FS L VLR+FG                    +L + L GLKHLE 
Sbjct: 625 QTHYLITIPRQLISRFSCLVVLRMFGVGDWSPNGKRNDSDLFSGGDLLVEALRGLKHLEV 684

Query: 491 LDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEEL 550
           L  TL     LQ +++S KL+SCT+AL L  FK S+ +DV ALA L+HL+ L   +CEEL
Sbjct: 685 LSLTLNNSQDLQCVLNSEKLRSCTQALYLHSFKRSEPLDVSALAGLEHLNRLWIHECEEL 744

Query: 551 EEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEE 610
           EE K          + QPFVF SL K+ I  C +LK LTFL+FAPNLK + +  C AMEE
Sbjct: 745 EELKM---------ARQPFVFQSLEKIQIYGCHRLKNLTFLLFAPNLKSIEVSSCFAMEE 795

Query: 611 IISAGKFVHTPEMM--------------GN--------------------TMDPCAKLRK 636
           IIS  KF   PE+M              G                     T++ C +LRK
Sbjct: 796 IISEVKFADFPEVMPIIKPFAQLYSLRLGGLTVLKSIYKRPLPFPCLRDLTVNSCDELRK 855

Query: 637 LPLDSNSALEHKIAIRGEAGWWGCLQWENEATQIAFLPCFKTI 679
           LPLDSNSA E KI IRG   WW  LQWE++ TQ AF PCF++I
Sbjct: 856 LPLDSNSAKERKIVIRGYTKWWEQLQWEDQDTQNAFRPCFRSI 898

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15080718|gb|AAK83559.1|AF278857_1 putative disease resistance gene protein [Citrus trifoliata]

 Score =  418 bits (1074), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 234/421 (55%), Positives = 281/421 (66%), Gaps = 50/421 (11%)

Query: 186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
           +KVGEETL+ HHDILELAQTVTKECGG PLALITIGRAMA KK PEEW YAI+VLR +SS
Sbjct: 60  QKVGEETLNCHHDILELAQTVTKECGGLPLALITIGRAMACKKTPEEWSYAIQVLR-TSS 118

Query: 246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDER 305
           S+F GL  EVYPLLKFSYD+L ND IRSC LYCCLYPED  I K +L+DCWIG G L+  
Sbjct: 119 SQFPGLGNEVYPLLKFSYDNLPNDTIRSCLLYCCLYPEDCCISKENLVDCWIGVGLLNGS 178

Query: 306 DSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCAGR 365
            +  +  QGY++VG LVH+ LLEEV +D+VK+H V+ DMALW++C+ E+EKEN+LV AG 
Sbjct: 179 VTLGSHEQGYHVVGILVHSCLLEEVDEDEVKMHDVIRDMALWLACDAEKEKENYLVYAGA 238

Query: 366 GLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFK-------MITDGFFQFMPL 418
           GL+EAP+V EWE +RRLSLM+NQI+ LSE PTCPHL   F         I   F Q M  
Sbjct: 239 GLREAPDVIEWEKLRRLSLMENQIENLSEVPTCPHLLTLFLNSDDILWRINSDFLQSMLR 298

Query: 419 LKVLNMSRETN-----------------------IKELLGELKALVNLKCVNLEWARDLV 455
           LKVLN+SR                          I E+  ELKALVNLKC+NLE+   L+
Sbjct: 299 LKVLNLSRYMGLLVLPLGISKLVSLEYLDLSTSLISEIPEELKALVNLKCLNLEYTGRLL 358

Query: 456 TIPLEVISNFSKLRVLRLFGTVL-------------------AKELLGLKHLEELDFTLR 496
            IPL++ISNFS+L VLR+FG                       +ELLGLKHLE L  TL 
Sbjct: 359 KIPLQLISNFSRLHVLRMFGNAYFSYGNYPIESVLFGGGELLVEELLGLKHLEVLSLTLG 418

Query: 497 CVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTD 556
              +LQ  ++S+ L+SCTRA++L  F+ S S+DV  LA LK L  L  S C EL E K D
Sbjct: 419 SSRALQSFLTSHMLRSCTRAMLLQDFQGSTSVDVSGLADLKRLKRLRISDCYELVELKID 478

Query: 557 Y 557
           Y
Sbjct: 479 Y 479

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225442867|ref|XP_002281592.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  407 bits (1046), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 253/573 (44%), Positives = 333/573 (58%), Gaps = 82/573 (14%)

Query: 187 KVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSS 246
           K+GE+TLD H +I ELAQ V +EC G PL L TIGRAMA KK P+EW+YA +VL +SS+S
Sbjct: 321 KLGEDTLDFHPEIPELAQAVAQECCGLPLVLTTIGRAMACKKTPQEWKYAFKVL-QSSAS 379

Query: 247 EFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERD 306
           +F G+   V+PLLK+SYD L  +V+RSCFLYC L+PED+ I K  +I  W  EG LDE D
Sbjct: 380 KFPGMSDRVFPLLKYSYDCLPTEVVRSCFLYCSLFPEDYQIPKIAMIKRWFCEGLLDEFD 439

Query: 307 SF-SAQNQGYYIVGTLVHAWLLEEVGDDK-VKLHGVLHDMALWISCEIEEEKENFLVCAG 364
               A+NQGY I+GTL+HA LLEE   D  VKLH V+ DMALWI+CE  +E++ FLV A 
Sbjct: 440 DMKGAENQGYNIIGTLIHACLLEEGDVDYVVKLHDVIRDMALWIACETGKEQDKFLVQAS 499

Query: 365 RGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEF------KMITDGFFQFMPL 418
            GL EAPEV  W   +R+SL+ NQI+ L+ +P CP+L   F      KMITD FFQFMP 
Sbjct: 500 SGLTEAPEVARWMGPKRISLIGNQIEKLTGSPNCPNLSTLFLQDNSLKMITDSFFQFMPN 559

Query: 419 LKVLNMSR----------------------ETNIKELLGELKALVNLKCVNLEWARDLVT 456
           L+VL++SR                      +TNIKEL  ELK L  LK + L   R L +
Sbjct: 560 LRVLDLSRNAMTELPQGISNLVSLQYLNLSQTNIKELPIELKNLGKLKFLLLHRMR-LSS 618

Query: 457 IPLEVISNFSKLRVLRLFG-------TVLAKELLGLKHLEELDFTLRCVHSLQILVSSNK 509
           IP ++IS+ S L+V+ +F          L +EL  LK+L +L  T+    + + L+SS+K
Sbjct: 619 IPEQLISSLSMLQVIDMFNCGICDGDEALVEELESLKYLHDLGVTITSASAFKRLLSSDK 678

Query: 510 LQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKC---EELE---EWKTDYTSGTVL 563
           L+SC   + L  F  S S+++ +L  +K L  L  S C   E+LE    W+   T+ +  
Sbjct: 679 LKSCISGVCLENFNGSSSLNLTSLCNVKRLRNLFISNCGSSEDLEIDWAWEGKETTESNY 738

Query: 564 KSPQPFVFCSLHKVT---ITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGK---- 616
            + +     S H ++   +  C +LK LT+LVFAPNLK L +  C  M+EII  GK    
Sbjct: 739 LNSKVSSHSSFHNLSWLRVKRCSRLKDLTWLVFAPNLKVLLITSCDQMQEIIGTGKCGES 798

Query: 617 ---------FVH-------------------TPEMMGNTM--DPCAKLRKLPLDSNSALE 646
                    FV                     P +  NT+  D C  L+KLPLD+NSA E
Sbjct: 799 TENGENLSPFVKLQVLTLEDLPQLKSIFWKALPFIYLNTIYVDSCPLLKKLPLDANSAKE 858

Query: 647 HKIAIRGEAGWWGCLQWENEATQIAFLPCFKTI 679
           H+I I G+  W+  L WENEAT  AFLPCF  I
Sbjct: 859 HRIVISGQTEWFNELDWENEATHNAFLPCFVPI 891

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482672|ref|XP_003632805.1| PREDICTED: probable disease resistance protein At1g12280-like [Vitis vinifera]

 Score =  402 bits (1034), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 251/582 (43%), Positives = 332/582 (57%), Gaps = 94/582 (16%)

Query: 187 KVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSS 246
           K+GE+TLD H +I ELAQ V +EC G PL L T+GRAMA KK PEEW+YAI+VLR SS+S
Sbjct: 321 KLGEDTLDFHPEIPELAQAVAQECCGLPLVLTTMGRAMACKKTPEEWKYAIKVLR-SSAS 379

Query: 247 EFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERD 306
           +F G+   V+PLLK+SYD L  +V RSCFLYC LYPED+ + K  LI+ WI EGFLDE D
Sbjct: 380 KFPGMGDRVFPLLKYSYDCLPTEVSRSCFLYCSLYPEDYQMPKLSLINRWICEGFLDEFD 439

Query: 307 SF-SAQNQGYYIVGTLVHAWLLEEVG-DDKVKLHGVLHDMALWISCEIEEEKENFLVCAG 364
               A+NQGY I+GTL+HA LLEE   D KVKLH V+ DMALWI CE  +E++ FLV AG
Sbjct: 440 DMEGAKNQGYNIIGTLIHACLLEEGDVDYKVKLHDVIRDMALWIGCETGKEQDKFLVKAG 499

Query: 365 RGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEF------KMITDGFFQFMPL 418
             L EAPEV EW   +R+SLM NQI+ L+ +P CP+L   F      KMI+D FFQFMP 
Sbjct: 500 STLTEAPEVAEWMGPKRISLMDNQIEELTGSPKCPNLSTLFLADNSLKMISDTFFQFMPS 559

Query: 419 LKVLNMSR----------------------ETNIKELLGELKALVNLKCVNLEWARDLVT 456
           L+VL++S+                      +TNIKEL  ELK L  LKC+ L     L +
Sbjct: 560 LRVLDLSKNSITELPRGISNLVSLQYLNLSQTNIKELPIELKNLDKLKCLVLVDMPQLSS 619

Query: 457 IPLEVISNFSKLRVLRLFGT------------------VLAKELLGLKHLEELDFTLRCV 498
           IP ++IS+ S L+V+ +F +                   L +EL  LK+L  L  +++  
Sbjct: 620 IPEQLISSLSMLQVIDMFNSGISERTVLKDGILSDDNEALVQELESLKYLHGLGVSVKSA 679

Query: 499 HSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYT 558
            + + L+SS KL+ C   L L  F  S S+++ +L+  K LS+L+ SKC  LE+ + D+ 
Sbjct: 680 SAFKRLLSSYKLRICISGLCLKNFNGSSSLNLTSLSNAKCLSSLYISKCGSLEDLEIDWA 739

Query: 559 SGTVLKSPQPFV---------FCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAME 609
                     ++         F SL  + I  C +LK LT+LVF PNLK L++ DC  M+
Sbjct: 740 GEGKETVESNYLNSKVSSHNSFHSLVWLGIERCSRLKDLTWLVFVPNLKVLTIIDCDQMQ 799

Query: 610 EIISAGKFVHTPEMMGNTMDP-----------------------------------CAKL 634
           E+I  GK   + E  G  + P                                   C  L
Sbjct: 800 EVIGTGKCGESAE-NGENLSPFVKLQVLELDDLPQLKSIFWKALPFIYLNTIHVRNCPLL 858

Query: 635 RKLPLDSNSALEHKIAIRGEAGWWGCLQWENEATQIAFLPCF 676
           +KLPL +NSA  ++I I G   WW  ++WE+EATQ  FLPCF
Sbjct: 859 KKLPLSANSAKGNRIVIAGHNKWWNEVEWEDEATQNVFLPCF 900

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225443158|ref|XP_002263674.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  402 bits (1033), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 245/582 (42%), Positives = 326/582 (56%), Gaps = 94/582 (16%)

Query: 188 VGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSE 247
           VGE+TL+SH +I +LA+T+ KEC G PLAL+T GR MA KK P+EW++AI++L +SSSS 
Sbjct: 324 VGEDTLNSHPEIPQLAETIVKECLGLPLALVTTGRTMACKKAPQEWKFAIKML-QSSSSS 382

Query: 248 FAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDE-RD 306
           F G+  EV+ LLKFSYD+L +D  RSCFLYC LYPED  I K DLIDCWI EGFLDE  D
Sbjct: 383 FPGMRDEVFSLLKFSYDNLPSDTARSCFLYCSLYPEDNDIFKEDLIDCWICEGFLDEFDD 442

Query: 307 SFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCAGRG 366
              A+NQG+ I+G+L+ A LLEE  +  VK+H V+ DMALWI+CE    K+ FLV AG G
Sbjct: 443 RDGARNQGFDIIGSLIRACLLEESREYFVKMHDVIRDMALWIACECGRVKDKFLVQAGAG 502

Query: 367 LKEAPEVKEWETVRRLSLMQNQIKILSEAPTCP------HLHYEFKMITDGFFQFMPLLK 420
           L E PE+ +W+ V R+SLM N I+ L++ PTCP        +   ++ITDGFFQ MP L+
Sbjct: 503 LTELPEIGKWKGVERMSLMSNHIEKLTQVPTCPNLLTLFLNNNSLEVITDGFFQLMPRLQ 562

Query: 421 VLNMSRE----------------------TNIKELLGELKALVNLKCVNLEWARDLVTIP 458
           VLN+S                        T I  L  E K LVNLK +NL++ + L  IP
Sbjct: 563 VLNLSWSRVSELPTEIFRLVSLRYLDLSWTCISHLPNEFKNLVNLKYLNLDYTQQLGIIP 622

Query: 459 LEVISNFSKLRVLRLF----------------GTVLAKELLGLKHLEELDFTLRCVHSLQ 502
             V+S+ S+L+VL++F                   L  EL  L +L +L+ T+R   +LQ
Sbjct: 623 RHVVSSMSRLQVLKMFHCGFYGVGEDNVLSDGNEALVNELECLNNLCDLNITIRSASALQ 682

Query: 503 ILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTS-GT 561
             + S K++ CT+ L L  F    S+D+  L  +K L TLH S C  L +   + T  G 
Sbjct: 683 RCLCSEKIEGCTQDLFLQFFNGLNSLDISFLENMKRLDTLHISDCATLADLNINGTDEGQ 742

Query: 562 VLKSPQPFV----------FCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEI 611
            + +   ++          F SL  V I  C  LK LT+LVFAPNL  L +  C  +E++
Sbjct: 743 EILTSDNYLDNSKITSLKNFHSLRSVRIERCLMLKDLTWLVFAPNLVNLWIVFCRNIEQV 802

Query: 612 ISAGKFVHTPEMMGNTMDP-----------------------------------CAKLRK 636
           I +GK+V   E  G  M P                                   C KL+K
Sbjct: 803 IDSGKWVEAAE--GRNMSPFAKLEDLILIDLPKLKSIYRNTLAFPCLKEVRVHCCPKLKK 860

Query: 637 LPLDSNSALEHKIAIRGEAGWWGCLQWENEATQIAFLPCFKT 678
           LPL+SNSA    + I GE  W   L+WE+EA   AFLPCF++
Sbjct: 861 LPLNSNSAKGRGMVIYGEKDWRNELEWEDEAAHNAFLPCFRS 902

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147852651|emb|CAN80649.1| hypothetical protein VITISV_017542 [Vitis vinifera]

 Score =  389 bits (998), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 241/574 (41%), Positives = 320/574 (55%), Gaps = 104/574 (18%)

Query: 187 KVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSS 246
           K+GE+TLD H +I ELAQ V +EC G PL L  +GRAMA KK PEEW+YAI+V  +SS+S
Sbjct: 321 KLGEDTLDFHPEIPELAQAVAQECCGLPLVLTIMGRAMACKKTPEEWKYAIKVF-QSSAS 379

Query: 247 EFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERD 306
           +  G+   V+PLLK+SYDSL  +V RSCFLYC LYPED  + K  LI+ WI EGFLDE D
Sbjct: 380 KLPGIGDRVFPLLKYSYDSLPTEVARSCFLYCSLYPEDDEMSKSSLINRWICEGFLDEFD 439

Query: 307 SF-SAQNQGYYIVGTLVHAWLLEEVG-DDKVKLHGVLHDMALWISCEIEEEKENFLVCAG 364
            +  A+NQGY I+GTL+HA LLEE   D +VKLH V+ DMALWI+ E  +E++ FLV AG
Sbjct: 440 DWEGAENQGYNIIGTLIHACLLEECDVDYQVKLHDVIRDMALWIARETGKEQDKFLVKAG 499

Query: 365 RGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEF------KMITDGFFQFMPL 418
             L EAPEV EW   +R+SLM NQI+ L+ +P CP+L   F      KMITD FFQFMP 
Sbjct: 500 STLTEAPEVAEWMGPKRISLMNNQIEKLTGSPICPNLSTLFLRENSLKMITDSFFQFMPN 559

Query: 419 LKVLNMS--------RE--------------TNIKELLGELKALVNLKCVNLEWARDLVT 456
           L+VL++S        RE              T IKEL  ELK L NLKC+ L +   L +
Sbjct: 560 LRVLDLSDNSITELPREISNLVSLRYLDLSFTEIKELPIELKNLGNLKCLLLSFMPQLSS 619

Query: 457 IPLEVISNFSKLRVLRLF-------GTVLAKELLGLKHLEELDFTLRCVHSLQILVSSNK 509
           +P ++IS+   L+V+ +F          L +EL  LK+L +L  T+    + + L+SS+K
Sbjct: 620 VPEQLISSLLMLQVIDMFDCGICDGDEALVEELESLKYLHDLSVTITSTSAFKRLLSSDK 679

Query: 510 LQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPF 569
           L+SC                       + L  L  S C  LE+ + D+           +
Sbjct: 680 LRSCIS---------------------RRLRNLFISNCGSLEDLEIDWVGEGKKTVESNY 718

Query: 570 V---------FCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHT 620
           +         F SL  +T+  C +LK LT++ FAPNLK L++ DC  M+E+I   K   +
Sbjct: 719 LNSKVSSHNSFHSLEALTVVSCSRLKDLTWVAFAPNLKVLTIIDCDQMQEVIGTRKSDES 778

Query: 621 PEMMGNTMDPCAK-----------------------------------LRKLPLDSNSAL 645
            E  G  + P AK                                   L+KLPL++NSA 
Sbjct: 779 AE-NGENLGPFAKLQVLHLVGLPQLKSIFWKALPLIYLNRIHVRNCPLLKKLPLNANSAK 837

Query: 646 EHKIAIRGEAGWWGCLQWENEATQIAFLPCFKTI 679
            H+I I G+  WW  ++WE+EAT  AFLPCF  I
Sbjct: 838 GHRIVISGQTEWWNEVEWEDEATHNAFLPCFVPI 871

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	680
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.389	0.298	0.454	1.3e-98
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.416	0.316	0.447	2.3e-87
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.386	0.295	0.454	6.7e-87
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.383	0.294	0.450	2.3e-85
TAIR|locus:2171589	948	AT5G47260 [Arabidopsis thalian	0.379	0.272	0.417	1.4e-83
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.383	0.290	0.420	5.7e-81
TAIR|locus:2036214	851	AT1G15890 [Arabidopsis thalian	0.383	0.306	0.419	1.9e-80
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.417	0.293	0.407	2e-79
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.605	0.466	0.341	2.6e-79
TAIR|locus:2031366	898	AT1G63350 "AT1G63350" [Arabido	0.385	0.291	0.419	5e-77

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

 Score = 613 (220.8 bits), Expect = 1.3e-98, Sum P(3) = 1.3e-98
 Identities = 124/273 (45%), Positives = 183/273 (67%)

Query:   186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
             +KVGE TL SH +I  +A+TV K+C G PLAL  IG  MAYK+  +EWR AI+VL  SS+
Sbjct:   322 KKVGEITLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVLT-SSA 380

Query:   246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDER 305
             +EF+G+  E+ P+LK+SYD+L+++ ++ CF YC L+PED  I K DL+D WIGEGF+D R
Sbjct:   381 AEFSGMEDEILPILKYSYDNLKSEQLKLCFQYCALFPEDHNIEKNDLVDYWIGEGFID-R 439

Query:   306 DSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCAGR 365
             +   A+NQGY I+G LV + LL E   + VK+H V+ +MALWI+ +  ++KENF+V AG 
Sbjct:   440 NKGKAENQGYEIIGILVRSCLLMEENQETVKMHDVVREMALWIASDFGKQKENFIVQAGL 499

Query:   366 GLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL-----HYEFK-MITDGFFQFMPLL 419
               +  PE+++W+  RR+SLM N I+ + +AP  P L        F   I+  FF+ MP+L
Sbjct:   500 QSRNIPEIEKWKVARRVSLMFNNIESIRDAPESPQLITLLLRKNFLGHISSSFFRLMPML 559

Query:   420 KVLNMSRETNIKELLGELKALVNLKCVNLEWAR 452
              VL++S   +++ L  E+   V+L+ ++L   R
Sbjct:   560 VVLDLSMNRDLRHLPNEISECVSLQYLSLSRTR 592

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 624 (224.7 bits), Expect = 2.3e-87, Sum P(3) = 2.3e-87
 Identities = 133/297 (44%), Positives = 196/297 (65%)

Query:   187 KVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSS 246
             KVGE TL  H DI ELA+ V  +C G PLAL  IG  MA K+  +EWR AI+VL  S ++
Sbjct:   325 KVGENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWRNAIDVL-SSYAA 383

Query:   247 EFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERD 306
             EF G+ +++ P+LK+SYD+L  + ++ CFLYC L+PED+ + K  LID WI EGF+DE +
Sbjct:   384 EFPGM-EQILPILKYSYDNLNKEQVKPCFLYCSLFPEDYRMEKERLIDYWICEGFIDENE 442

Query:   307 SFS-AQNQGYYIVGTLVHAWLL--EEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCA 363
             S   A +QGY I+G LV A LL  E +  ++VK+H V+ +MALWI+ ++ E KE  +V  
Sbjct:   443 SRERALSQGYEIIGILVRACLLLEEAINKEQVKMHDVVREMALWIASDLGEHKERCIVQV 502

Query:   364 GRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKM-------ITDGFFQFM 416
             G GL+E P+VK W +VRR+SLM+N+I+ILS +P C  L   F         I+D FF+ +
Sbjct:   503 GVGLREVPKVKNWSSVRRMSLMENEIEILSGSPECLELTTLFLQKNDSLLHISDEFFRCI 562

Query:   417 PLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRL 473
             P+L VL++S  +++++L  ++  LV+L+ ++L W   +  +P+  +    KLR LRL
Sbjct:   563 PMLVVLDLSGNSSLRKLPNQISKLVSLRYLDLSWTY-IKRLPVG-LQELKKLRYLRL 617

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 585 (211.0 bits), Expect = 6.7e-87, Sum P(3) = 6.7e-87
 Identities = 124/273 (45%), Positives = 178/273 (65%)

Query:   187 KVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSS 246
             KVG+ TL SH DI  LA+ V ++C G PLAL  IG AMA K+   EW +AI+VL  SS+ 
Sbjct:   325 KVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLT-SSAI 383

Query:   247 EFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERD 306
             +F+G+  E+  +LK+SYD+L  ++++SCFLYC L+PED+ I K  L+D WI EGF++E++
Sbjct:   384 DFSGMEDEILHVLKYSYDNLNGELMKSCFLYCSLFPEDYLIDKEGLVDYWISEGFINEKE 443

Query:   307 SFSAQ-NQGYYIVGTLVHAWLL--EEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCA 363
                   NQGY I+GTLV A LL  EE     VK+H V+ +MALWIS ++ ++KE  +V A
Sbjct:   444 GRERNINQGYEIIGTLVRACLLLEEERNKSNVKMHDVVREMALWISSDLGKQKEKCIVRA 503

Query:   364 GRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITD------GFFQFMP 417
             G GL+E P+VK+W TVR++SLM N+I+ + ++  C  L   F    D       FF+ MP
Sbjct:   504 GVGLREVPKVKDWNTVRKISLMNNEIEEIFDSHECAALTTLFLQKNDVVKISAEFFRCMP 563

Query:   418 LLKVLNMSRETNIKELLGELKALVNLKCVNLEW 450
              L VL++S   ++ EL  E+  L +L+  NL +
Sbjct:   564 HLVVLDLSENQSLNELPEEISELASLRYFNLSY 596

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

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

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

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

TAIR|locus:2201986 RFL1 "AT1G12210" [Arabidopsis thaliana (taxid:3702)]

 Score = 571 (206.1 bits), Expect = 2.3e-85, Sum P(3) = 2.3e-85
 Identities = 123/273 (45%), Positives = 178/273 (65%)

Query:   186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
             +KVGE TL SH DI +LA+ V+++C G PLAL  IG  M++K+  +EWR+A EVL  +S+
Sbjct:   324 KKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHATEVL--TSA 381

Query:   246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDER 305
             ++F+G+  E+ P+LK+SYDSL  +  +SCFLYC L+PEDF I K  LI+ WI EGF+ E+
Sbjct:   382 TDFSGMEDEILPILKYSYDSLNGEDAKSCFLYCSLFPEDFEIRKEMLIEYWICEGFIKEK 441

Query:   306 DSFS-AQNQGYYIVGTLVHAWLLEEVGDDK--VKLHGVLHDMALWISCEIEEEKENFLVC 362
                  A NQGY I+GTLV + LL E   DK  V +H ++ +MALWI  ++ + KE  +V 
Sbjct:   442 QGREKAFNQGYDILGTLVRSSLLLEGAKDKDVVSMHDMVREMALWIFSDLGKHKERCIVQ 501

Query:   363 AGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL-------HYEFKMITDGFFQF 415
             AG GL E PEV+ W  V+R+SLM N  + +  +P C  L       +Y+   I+  FF+ 
Sbjct:   502 AGIGLDELPEVENWRAVKRMSLMNNNFEKILGSPECVELITLFLQNNYKLVDISMEFFRC 561

Query:   416 MPLLKVLNMSRETNIKELLGELKALVNLKCVNL 448
             MP L VL++S   ++ EL  E+  LV+L+ ++L
Sbjct:   562 MPSLAVLDLSENHSLSELPEEISELVSLQYLDL 594

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

GO:0009617 "response to bacterium" evidence=ISS

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

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

 Score = 510 (184.6 bits), Expect = 1.4e-83, Sum P(4) = 1.4e-83
 Identities = 114/273 (41%), Positives = 162/273 (59%)

Query:   186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
             E VGE TL SH DI +LA+ V   C G PLAL  IG AM+ K+   EWRY I VL  SS+
Sbjct:   312 ETVGENTLRSHQDIPKLARVVASTCRGLPLALNLIGEAMSGKRTVREWRYTIHVLA-SST 370

Query:   246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDER 305
             +EF  +     P+LK  YD++ +++IR CFLYC L+PE+  I K DL++ WI EG L + 
Sbjct:   371 AEFPDMEDGTLPILKSIYDNMSDEIIRLCFLYCALFPENLDIGKEDLVNYWICEGILAKE 430

Query:   306 DSFSAQNQGYYIVGTLVHAWLLEEVGDDK-VKLHGVLHDMALWISCEIEEEKENFLVCAG 364
             D   A+ QGY I+  LV   LL E G+   VK+HG++ +MALWI+       E+F+V  G
Sbjct:   431 DREEAEIQGYEIICDLVRMRLLMESGNGNCVKMHGMVREMALWIA------SEHFVVVGG 484

Query:   365 RGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL-------HYEFKMITDGFFQFMP 417
               + +   V +W  +RR+S+   QI+ +S++P C  L       +   K I+  FFQ+M 
Sbjct:   485 ERIHQMLNVNDWRMIRRMSVTSTQIQNISDSPQCSELTTLVFRRNRHLKWISGAFFQWMT 544

Query:   418 LLKVLNMSRETNIKELLGELKALVNLKCVNLEW 450
              L VL++S    + EL  E+ +LV L+ +NL W
Sbjct:   545 GLVVLDLSFNRELAELPEEVSSLVLLRFLNLSW 577

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

TAIR|locus:2008440 AT1G61180 [Arabidopsis thaliana (taxid:3702)]

 Score = 522 (188.8 bits), Expect = 5.7e-81, Sum P(3) = 5.7e-81
 Identities = 113/269 (42%), Positives = 168/269 (62%)

Query:   187 KVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSS 246
             KVG+ TL S   I+ELA+ V ++C G PLAL  IG  M+ K   +EW +AI V   +S++
Sbjct:   321 KVGDNTLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHAIHVFN-TSAA 379

Query:   247 EFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERD 306
             EF+ +  ++ P+LK+SYDSL ++ I+SCFLYC L+PED  I    LID WI EGF+ E  
Sbjct:   380 EFSDMQNKILPILKYSYDSLGDEHIKSCFLYCALFPEDGEIYNEKLIDYWICEGFIGEDQ 439

Query:   307 SFS-AQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISCEIEEEKENFLVCAGR 365
                 A+N+GY ++GTL  A LL +VG     +H V+ +MALWI+ +  ++KENF+V AG 
Sbjct:   440 VIKRARNKGYAMLGTLTRANLLTKVGTYYCVMHDVVREMALWIASDFGKQKENFVVQAGV 499

Query:   366 GLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEF------KMITDGFFQFMPLL 419
             GL E P+VK+W  VR++SLM N I+ ++    C  L   F      K +   F ++M  L
Sbjct:   500 GLHEIPKVKDWGAVRKMSLMDNDIEEITCESKCSELTTLFLQSNKLKNLPGAFIRYMQKL 559

Query:   420 KVLNMSRETNIKELLGELKALVNLKCVNL 448
              VL++S   +  +L  ++  LV+L+ ++L
Sbjct:   560 VVLDLSYNRDFNKLPEQISGLVSLQFLDL 588

GO:0005886 "plasma membrane" evidence=ISM;IDA

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 526 (190.2 bits), Expect = 1.9e-80, Sum P(3) = 1.9e-80
 Identities = 114/272 (41%), Positives = 173/272 (63%)

Query:   186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
             +KVG   L SH DI  LA+ V ++C G PLAL  IG+AMA ++  +EW++ I VL  SSS
Sbjct:   321 KKVGPIPLQSHEDIPTLARKVAEKCCGLPLALSVIGKAMASRETVQEWQHVIHVLN-SSS 379

Query:   246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLD-E 304
              EF  + +++ P+LKFSYD L+++ ++ CFLYC L+PED+ + K +LI+ W+ EGF+D  
Sbjct:   380 HEFPSMEEKILPVLKFSYDDLKDEKVKLCFLYCSLFPEDYEVRKEELIEYWMCEGFIDGN 439

Query:   305 RDSFSAQNQGYYIVGTLVHAWLLEEVGD--DKVKLHGVLHDMALWISCEIEEEKENFLVC 362
              D   A N+G+ I+G+LV A LL + G+   KVK+H V+ +MALWI+    ++KE   V 
Sbjct:   440 EDEDGANNKGHDIIGSLVRAHLLMD-GELTTKVKMHDVIREMALWIASNFGKQKETLCVK 498

Query:   363 AGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL------HYEFKMITDGFFQFM 416
              G  L   P+   WE++RR+SLM NQI  +S +   P+L      + +   I+  FF+FM
Sbjct:   499 PGVQLCHIPKDINWESLRRMSLMCNQIANISSSSNSPNLSTLLLQNNKLVHISCDFFRFM 558

Query:   417 PLLKVLNMSRETNIKELLGELKALVNLKCVNL 448
             P L VL++SR +++  L   +  L +L+ +NL
Sbjct:   559 PALVVLDLSRNSSLSSLPEAISKLGSLQYINL 590

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2008510 AT1G61190 "AT1G61190" [Arabidopsis thaliana (taxid:3702)]

 Score = 526 (190.2 bits), Expect = 2.0e-79, Sum P(4) = 2.0e-79
 Identities = 121/297 (40%), Positives = 185/297 (62%)

Query:   187 KVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSS 246
             KVG+ TL S   I+ LA+ V ++C G PLAL  IG  MA K   +EW +AI+VL +S++ 
Sbjct:   322 KVGDNTLRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHAIDVLTRSAA- 380

Query:   247 EFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERD 306
             EF+ +  ++ P+LK+SYDSL+++ I+SCFLYC L+PED  I  + LI+ WI EGF+ E  
Sbjct:   381 EFSDMQNKILPILKYSYDSLEDEHIKSCFLYCALFPEDDKIDTKTLINKWICEGFIGEDQ 440

Query:   307 SFS-AQNQGYYIVGTLVHAWLL-EEVGDDK--VKLHGVLHDMALWISCEIEEEKENFLVC 362
                 A+N+GY ++GTL+ A LL  + G  K  V +H V+ +MALWI+ +  ++KEN++V 
Sbjct:   441 VIKRARNKGYEMLGTLIRANLLTNDRGFVKWHVVMHDVVREMALWIASDFGKQKENYVVR 500

Query:   363 AGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEF------KMITDGFFQFM 416
             A  GL E P+VK+W  VRR+SLM N+I+ ++    C  L   F      K ++  F ++M
Sbjct:   501 ARVGLHEIPKVKDWGAVRRMSLMMNEIEEITCESKCSELTTLFLQSNQLKNLSGEFIRYM 560

Query:   417 PLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRL 473
               L VL++S   +  EL  ++  LV+L+ ++L W R +  +P+  +    KL  L L
Sbjct:   561 QKLVVLDLSHNPDFNELPEQISGLVSLQYLDLSWTR-IEQLPVG-LKELKKLIFLNL 615

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2034765 AT1G12290 [Arabidopsis thaliana (taxid:3702)]

 Score = 543 (196.2 bits), Expect = 2.6e-79, Sum P(3) = 2.6e-79
 Identities = 153/448 (34%), Positives = 248/448 (55%)

Query:   186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
             +KVG+ TL SH DI E+A+ V + C G PLAL  IG  MA KK  +EW  A++V   + +
Sbjct:   323 KKVGDITLSSHPDIPEIARKVAQACCGLPLALNVIGETMACKKTTQEWDRAVDV-STTYA 381

Query:   246 SEFAGLVKE-VYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLD- 303
             + F G VKE + P+LK+SYD+L+++ +++CFLYC L+PED  I K  LID WI EGF+D 
Sbjct:   382 ANF-GAVKERILPILKYSYDNLESESVKTCFLYCSLFPEDDLIEKERLIDYWICEGFIDG 440

Query:   304 ERDSFSAQNQGYYIVGTLVHAWLLEEVG--DDK--VKLHGVLHDMALWISCEIEEEKENF 359
             + +   A  +GY I+GTLV A LL E G  ++K  VK+H V+ +MALWI+ ++ + K+N 
Sbjct:   441 DENKKGAVGEGYEILGTLVCASLLVEGGKFNNKSYVKMHDVVREMALWIASDLRKHKDNC 500

Query:   360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKM-------ITDGF 412
             +V AG  L E P+VK+W+ V R+SL+ N+IK +  +P CP L   F         I+  F
Sbjct:   501 IVRAGFRLNEIPKVKDWKVVSRMSLVNNRIKEIHGSPECPKLTTLFLQDNRHLVNISGEF 560

Query:   413 FQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLR 472
             F+ MP L VL++S   N+  L  ++  LV+L+ ++L ++  +  +P+ ++    KL  L 
Sbjct:   561 FRSMPRLVVLDLSWNVNLSGLPDQISELVSLRYLDLSYS-SIGRLPVGLLK-LKKLMHLN 618

Query:   473 LFGTVXXXXXXXXXXXXXXDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIA 532
             L   +                T+R ++ L++ ++ + L+   R   L    +  +I++I+
Sbjct:   619 LESMLCLESVSGIDHLSNLK-TVRLLN-LRMWLTISLLEELERLENL----EVLTIEIIS 672

Query:   533 LARLKHLSTLH-FSKCEELEEWK-TDYTSGTVLKSP------QPFVF-CSLHKVTITFCP 583
              + L+ L   H   +C +    K  D  S  +L  P      + F+  C +  + I    
Sbjct:   673 SSALEQLLCSHRLVRCLQKVSVKYLDEESVRILTLPSIGDLREVFIGGCGMRDIIIE--- 729

Query:   584 KLKGLTFLVFAPNLKCLSLFDCTAMEEI 611
             +   LT   F PNL  + +  C  ++++
Sbjct:   730 RNTSLTSPCF-PNLSKVLITGCNGLKDL 756

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

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

 Score = 502 (181.8 bits), Expect = 5.0e-77, Sum P(3) = 5.0e-77
 Identities = 115/274 (41%), Positives = 169/274 (61%)

Query:   186 EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSS 245
             +KVG+ TL S  +I EL++ V K+C G PLAL  +   M+ K+  +EWR+AI VL  S +
Sbjct:   320 KKVGQITLGSDPEIRELSRVVAKKCCGLPLALNVVSETMSCKRTVQEWRHAIYVLN-SYA 378

Query:   246 SEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDER 305
             ++F+G+  ++ PLLK+SYDSL+ + ++ C LYC L+PED  I K +LI+ WI E  +D  
Sbjct:   379 AKFSGMDDKILPLLKYSYDSLKGEDVKMCLLYCALFPEDAKIRKENLIEYWICEEIIDGS 438

Query:   306 DSFS-AQNQGYYIVGTLVHAWLL-EEV---GDDKVKLHGVLHDMALWISCEIEEEKENFL 360
             +    A+NQGY I+G+LV A LL EEV   G + V LH V+ +MALWI+ ++ ++ E F+
Sbjct:   439 EGIDKAENQGYEIIGSLVRASLLMEEVELDGANIVCLHDVVREMALWIASDLGKQNEAFI 498

Query:   361 VCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL------HYEFKMITDGFFQ 414
             V A  GL+E  +V+ W  VRR+SLM+N I  L     C  L          + I+  FF 
Sbjct:   499 VRASVGLREILKVENWNVVRRMSLMKNNIAHLDGRLDCMELTTLLLQSTHLEKISSEFFN 558

Query:   415 FMPLLKVLNMSRETNIKELLGELKALVNLKCVNL 448
              MP L VL++S    + EL   +  LV+L+ +NL
Sbjct:   559 SMPKLAVLDLSGNYYLSELPNGISELVSLQYLNL 592

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	680
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	6e-27

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

 Score =  110 bits (278), Expect = 6e-27
 Identities = 46/120 (38%), Positives = 68/120 (56%), Gaps = 3/120 (2%)

Query: 187 KVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSS 246
           KV E+ L    ++ E+A+ + ++C G PLAL  +G  +A+K   +EW + +E L     +
Sbjct: 168 KVFEKELPPCPELEEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNN-ELA 226

Query: 247 EFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERD 306
              GL  EV  +L  SYD+L    ++ CFLY  L+PED+ I K  LI  WI EGF+   D
Sbjct: 227 GRDGL-NEVLSILSLSYDNL-PMHLKRCFLYLALFPEDYNIRKEQLIKLWIAEGFVIPSD 284

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	680
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.8
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.69
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.67
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.62
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.58
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.52
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.5
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.42
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.41
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.24
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.19
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.17
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.13
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.1
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.04
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.02
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.01
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.97
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	98.96
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	98.77
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.6
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.59
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.55
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.44
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.44
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.43
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.4
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.4
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.38
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.34
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.33
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.22
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.11
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.11
PRK15386	426	type III secretion protein GogB; Provisional	98.06
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.04
KOG4341	483	consensus F-box protein containing LRR [General fu	98.01
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.97
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	97.96
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.92
KOG4341	483	consensus F-box protein containing LRR [General fu	97.72
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.68
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.58
PLN03150	623	hypothetical protein; Provisional	97.57
PRK15386	426	type III secretion protein GogB; Provisional	97.53
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.47
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.34
PLN03150	623	hypothetical protein; Provisional	97.31
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.29
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.27
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.25
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.24
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.19
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.06
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	96.95
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	96.79
KOG1947	482	consensus Leucine rich repeat proteins, some prote	95.88
KOG1947	482	consensus Leucine rich repeat proteins, some prote	95.66
KOG3864	221	consensus Uncharacterized conserved protein [Funct	95.61
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	95.24
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.23
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	94.81
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	94.6
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	94.56
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	94.11
KOG3864	221	consensus Uncharacterized conserved protein [Funct	93.8
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	93.79
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	93.29
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	92.86
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	92.77
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	91.65
KOG2123	388	consensus Uncharacterized conserved protein [Funct	90.26
smart00370	26	LRR Leucine-rich repeats, outliers.	90.15
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	90.15
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	89.68
KOG2123	388	consensus Uncharacterized conserved protein [Funct	88.91
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	86.02
KOG0473	326	consensus Leucine-rich repeat protein [Function un	83.71
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	83.6
PRK04841	903	transcriptional regulator MalT; Provisional	80.88

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=4.6e-76  Score=667.89  Aligned_cols=640  Identities=35%  Similarity=0.597  Sum_probs=508.5

Q ss_pred             hhhhhhhhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 041114           14 FNRCLDCFLGKAACTRNLQDNVAALAIELAKLIAAKNNLITRVLDAERQQLRRLDQVQVWLSRVEAVKTETDELIRRSSK   93 (680)
Q Consensus        14 ~~~l~~~~~~~~~~~~~~~~~~~~L~~~l~~l~a~~~~~~~~l~~ae~~~~~~~~~v~~Wl~~v~~~~~d~ed~ld~~~~   93 (680)
                      ++++++.+.+++..+.+.++++..|++.+..|+.+       ++||++++.. ...+..|.+.+++++|+++|+++.|..
T Consensus         9 ~~~~~~~l~~~~~~~~~~~~~i~~Lk~~L~~l~~~-------l~d~~a~~~~-~~~~~~~~e~~~~~~~~~e~~~~~~~v   80 (889)
T KOG4658|consen    9 VEKLDQLLNRESECLDGKDNYILELKENLKALQSA-------LEDLDAKRDD-LERRVNWEEDVGDLVYLAEDIIWLFLV   80 (889)
T ss_pred             hhhHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHH-------HHHHHhhcch-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            67788899999999999999999999999999999       9999999988 888999999999999999999998865


Q ss_pred             Hhc----------------ccCCCCccCCCchhhhhHHHHHHHHHHHHHHHHhcCCceeecc-CCCCCCcccccccccc-
Q 041114           94 EID----------------KLCPRAYCSKSCKSSYKFRKQVAKKLRDVRTLIGEGVFEVVAE-RPPQPVADEIPTEQIV-  155 (680)
Q Consensus        94 ~~~----------------~~~~~~~~~~~~~~~~~~~~~i~~~~~~v~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~v-  155 (680)
                      +..                +.|+.++|+..+...|.+++++-+++++++.+..++.|..++. ..|......+|..++. 
T Consensus        81 ~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~  160 (889)
T KOG4658|consen   81 EEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQSESD  160 (889)
T ss_pred             HHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCCcccc
Confidence            543                2377788888888899999999999999999999988887765 3444455666665554 


Q ss_pred             ccHHHHHHHHHHHhhhccccceeeeccccc--------------------------------------------------
Q 041114          156 EGLQSQLKQVWRCLVEESIGIIGLYGMGSV--------------------------------------------------  185 (680)
Q Consensus       156 ~gr~~~~~~i~~~L~~~~~~vi~i~GmgGi--------------------------------------------------  185 (680)
                      ||.+.+++++|+.|.+++.+|+|||||||+                                                  
T Consensus       161 VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~  240 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDE  240 (889)
T ss_pred             ccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCc
Confidence            799999999999999988899999999999                                                  


Q ss_pred             --------------------------------------------------------------------------------
Q 041114          186 --------------------------------------------------------------------------------  185 (680)
Q Consensus       186 --------------------------------------------------------------------------------  185 (680)
                                                                                                      
T Consensus       241 ~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~  320 (889)
T KOG4658|consen  241 EWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPE  320 (889)
T ss_pred             ccchhhHHHHHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCcc
Confidence                                                                                            


Q ss_pred             -------eecCccccCCCccHHHHHHHHHHHhCCChhHHHHHHHHhccCCCHHHHHHHHHHHhcCCCccccCChhhHHHH
Q 041114          186 -------EKVGEETLDSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSEFAGLVKEVYPL  258 (680)
Q Consensus       186 -------~~~~~~~~~~~~~l~~~~~~I~~kc~GlPLai~~lg~~L~~k~~~~~W~~~l~~l~~~~~~~~~~~~~~i~~~  258 (680)
                             ++++......+++++++|++||++|+|||||++++|++|+.|++.++|+++.+.+.++...+.+++.+.++++
T Consensus       321 eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~i  400 (889)
T KOG4658|consen  321 EAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPI  400 (889)
T ss_pred             ccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHh
Confidence                   4455554456677999999999999999999999999999999999999999999882256667778899999


Q ss_pred             HHHhHhcCCchhHHHHHHHhcccCCCcccChHHHHHHHHHcCCcCC-CChhhHHHHHHHHHHHHHHccccccc----Ccc
Q 041114          259 LKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDE-RDSFSAQNQGYYIVGTLVHAWLLEEV----GDD  333 (680)
Q Consensus       259 L~~Sy~~L~~~~lk~cfl~~s~Fp~~~~i~~~~Li~~Wiaeg~i~~-~~~~~~~~~g~~~~~~L~~~~ll~~~----~~~  333 (680)
                      |++|||+||+ ++|+||+|||+||+||.|++++||.+||||||+.. ..++.+++.|+.|+.+|++++|++..    ...
T Consensus       401 LklSyd~L~~-~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~  479 (889)
T KOG4658|consen  401 LKLSYDNLPE-ELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEGRKE  479 (889)
T ss_pred             hhccHhhhhH-HHHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhccccccee
Confidence            9999999996 99999999999999999999999999999999999 77899999999999999999999986    348


Q ss_pred             cEEechhHHHHHHHHHhhhhcccccEEEecCCCcccccccccccceEEEEeecccccccccCCCCccc------cc--cc
Q 041114          334 KVKLHGVLHDMALWISCEIEEEKENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL------HY--EF  405 (680)
Q Consensus       334 ~~~mhdl~~d~a~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L------~~--~l  405 (680)
                      +|+|||+|||||.++|++.+..++++++..+.+..+.|....|..+|++++.++.+..++....++++      .+  .+
T Consensus       480 ~~kmHDvvRe~al~ias~~~~~~e~~iv~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~~~~~~~~~~L~tLll~~n~~~l  559 (889)
T KOG4658|consen  480 TVKMHDVVREMALWIASDFGKQEENQIVSDGVGLSEIPQVKSWNSVRRMSLMNNKIEHIAGSSENPKLRTLLLQRNSDWL  559 (889)
T ss_pred             EEEeeHHHHHHHHHHhccccccccceEEECCcCccccccccchhheeEEEEeccchhhccCCCCCCccceEEEeecchhh
Confidence            99999999999999999888877888888877888899999999999999999999999888888876      33  37


Q ss_pred             cccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcc----hhh
Q 041114          406 KMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVL----AKE  481 (680)
Q Consensus       406 ~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~----~~~  481 (680)
                      ..++..||..|+.||||||++|..+.+||++|++|.|||||+++++ .++.+|.+ +++|..|++|++..+..    +.-
T Consensus       560 ~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t-~I~~LP~~-l~~Lk~L~~Lnl~~~~~l~~~~~i  637 (889)
T KOG4658|consen  560 LEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDT-GISHLPSG-LGNLKKLIYLNLEVTGRLESIPGI  637 (889)
T ss_pred             hhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCC-CccccchH-HHHHHhhheeccccccccccccch
Confidence            8899999999999999999999999999999999999999999999 89999998 99999999999986542    122


Q ss_pred             hcCCCCCceeEEEecc--------------------------chhhhhhhhchhhhccccEEEEeccCCCCccccccccc
Q 041114          482 LLGLKHLEELDFTLRC--------------------------VHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALAR  535 (680)
Q Consensus       482 l~~L~~L~~L~i~~~~--------------------------~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~  535 (680)
                      +..|++|+.|.+....                          ...+..+.....+.+..+.+.+.++. ..... +++..
T Consensus       638 ~~~L~~Lr~L~l~~s~~~~~~~~l~el~~Le~L~~ls~~~~s~~~~e~l~~~~~L~~~~~~l~~~~~~-~~~~~-~~~~~  715 (889)
T KOG4658|consen  638 LLELQSLRVLRLPRSALSNDKLLLKELENLEHLENLSITISSVLLLEDLLGMTRLRSLLQSLSIEGCS-KRTLI-SSLGS  715 (889)
T ss_pred             hhhcccccEEEeeccccccchhhHHhhhcccchhhheeecchhHhHhhhhhhHHHHHHhHhhhhcccc-cceee-ccccc
Confidence            2335666666554322                          11111222222222233333333322 12222 47788


Q ss_pred             CCCCCEEEEeccCCcceeecccCCCCccCCCCCC-CCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhc
Q 041114          536 LKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPF-VFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISA  614 (680)
Q Consensus       536 l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~-~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~  614 (680)
                      +.+|+.|.+.+|...+.. ..+....     ... .|+++.++.+.+|...+.+.|....|+|+.|.+..|..++++++.
T Consensus       716 l~~L~~L~i~~~~~~e~~-~~~~~~~-----~~~~~f~~l~~~~~~~~~~~r~l~~~~f~~~L~~l~l~~~~~~e~~i~~  789 (889)
T KOG4658|consen  716 LGNLEELSILDCGISEIV-IEWEESL-----IVLLCFPNLSKVSILNCHMLRDLTWLLFAPHLTSLSLVSCRLLEDIIPK  789 (889)
T ss_pred             ccCcceEEEEcCCCchhh-ccccccc-----chhhhHHHHHHHHhhccccccccchhhccCcccEEEEecccccccCCCH
Confidence            999999999999876532 2222110     001 255666666667766666666666777777777777666655332


Q ss_pred             CC-----------CC----------------------CCCcccccCccccccCCCCCCCCccccCc--ceEEecc-cccc
Q 041114          615 GK-----------FV----------------------HTPEMMGNTMDPCAKLRKLPLDSNSALEH--KIAIRGE-AGWW  658 (680)
Q Consensus       615 ~~-----------~~----------------------~lp~L~~L~i~~C~~L~~lP~~~~~~l~~--L~i~~~~-~~~~  658 (680)
                      ..           +.                      .+++|+.+.+..||+++.+|.........  -.+...+ .+|.
T Consensus       790 ~k~~~~l~~~i~~f~~~~~l~~~~~l~~l~~i~~~~l~~~~l~~~~ve~~p~l~~~P~~~~~~i~~~~~~~~~~~~~~~~  869 (889)
T KOG4658|consen  790 LKALLELKELILPFNKLEGLRMLCSLGGLPQLYWLPLSFLKLEELIVEECPKLGKLPLLSTLTIVGCEEKLKEYPDGEWL  869 (889)
T ss_pred             HHHhhhcccEEecccccccceeeecCCCCceeEecccCccchhheehhcCcccccCccccccceeccccceeecCCccce
Confidence            10           00                      13344555699999999999875542221  1233333 5678


Q ss_pred             ccCccCchhhhccc
Q 041114          659 GCLQWENEATQIAF  672 (680)
Q Consensus       659 ~~l~w~~~~~~~~~  672 (680)
                      +.++|++..++..|
T Consensus       870 ~~v~~~~~~~~~~~  883 (889)
T KOG4658|consen  870 EGVYWEDELTKLRF  883 (889)
T ss_pred             eeEEehhhhhhhhc
Confidence            88899998888777

>PLN03210 Resistant to P

Probab=100.00  E-value=5.7e-44  Score=427.75  Aligned_cols=415  Identities=22%  Similarity=0.273  Sum_probs=253.6

Q ss_pred             CCccHHHHHHHHHHHhCCChhHHHHHHHHhccCCCHHHHHHHHHHHhcCCCccccCChhhHHHHHHHhHhcCCchhHHHH
Q 041114          195 SHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSEFAGLVKEVYPLLKFSYDSLQNDVIRSC  274 (680)
Q Consensus       195 ~~~~l~~~~~~I~~kc~GlPLai~~lg~~L~~k~~~~~W~~~l~~l~~~~~~~~~~~~~~i~~~L~~Sy~~L~~~~lk~c  274 (680)
                      +++++++++++||++|+|+|||++++|+.|++ ++..+|+.+++.++. .+      +++|.++|++||++|+++..|.|
T Consensus       370 ~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~-k~~~~W~~~l~~L~~-~~------~~~I~~~L~~SYd~L~~~~~k~~  441 (1153)
T PLN03210        370 PPDGFMELASEVALRAGNLPLGLNVLGSYLRG-RDKEDWMDMLPRLRN-GL------DGKIEKTLRVSYDGLNNKKDKAI  441 (1153)
T ss_pred             CcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcC-CCHHHHHHHHHHHHh-Cc------cHHHHHHHHHhhhccCccchhhh
Confidence            45578999999999999999999999999998 689999999998887 43      34899999999999987359999


Q ss_pred             HHHhcccCCCcccChHHHHHHHHHcCCcCCCChhhHHHHHHHHHHHHHHcccccccCcccEEechhHHHHHHHHHhhh--
Q 041114          275 FLYCCLYPEDFAILKRDLIDCWIGEGFLDERDSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDMALWISCEI--  352 (680)
Q Consensus       275 fl~~s~Fp~~~~i~~~~Li~~Wiaeg~i~~~~~~~~~~~g~~~~~~L~~~~ll~~~~~~~~~mhdl~~d~a~~i~~~~--  352 (680)
                      |++||+||.++.++   .+..|+|.+.+..       +.   -++.|+++||++.. ...++|||++|+||+++++++  
T Consensus       442 Fl~ia~ff~~~~~~---~v~~~l~~~~~~~-------~~---~l~~L~~ksLi~~~-~~~~~MHdLl~~~~r~i~~~~~~  507 (1153)
T PLN03210        442 FRHIACLFNGEKVN---DIKLLLANSDLDV-------NI---GLKNLVDKSLIHVR-EDIVEMHSLLQEMGKEIVRAQSN  507 (1153)
T ss_pred             hheehhhcCCCCHH---HHHHHHHhcCCCc-------hh---ChHHHHhcCCEEEc-CCeEEhhhHHHHHHHHHHHhhcC
Confidence            99999999987553   4778888876543       11   28899999999886 568999999999999999774  


Q ss_pred             hcccccEEEecCC------------Ccc-------------------------------------------ccccc-c-c
Q 041114          353 EEEKENFLVCAGR------------GLK-------------------------------------------EAPEV-K-E  375 (680)
Q Consensus       353 ~~~~~~~~~~~~~------------~~~-------------------------------------------~~~~~-~-~  375 (680)
                      .+.++.+++....            ...                                           .+|.. . -
T Consensus       508 ~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~~~~~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~l  587 (1153)
T PLN03210        508 EPGEREFLVDAKDICDVLEDNTGTKKVLGITLDIDEIDELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYL  587 (1153)
T ss_pred             CCCcceeEeCHHHHHHHHHhCcccceeeEEEeccCccceeeecHHHHhcCccccEEEEecccccccccceeecCcchhhc
Confidence            2333334432100            000                                           00000 0 0


Q ss_pred             ccceEEEEeecccccccccCCCCccc------cccccccchhh----------------------hccCCcceEEEccCC
Q 041114          376 WETVRRLSLMQNQIKILSEAPTCPHL------HYEFKMITDGF----------------------FQFMPLLKVLNMSRE  427 (680)
Q Consensus       376 ~~~~r~lsl~~~~~~~l~~~~~~~~L------~~~l~~lp~~~----------------------~~~l~~Lr~LdL~~~  427 (680)
                      ..++|.+.+.++.+..+|......+|      .+.+..++.++                      ++.+++|+.|+|++|
T Consensus       588 p~~Lr~L~~~~~~l~~lP~~f~~~~L~~L~L~~s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~ls~l~~Le~L~L~~c  667 (1153)
T PLN03210        588 PPKLRLLRWDKYPLRCMPSNFRPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPDLSMATNLETLKLSDC  667 (1153)
T ss_pred             CcccEEEEecCCCCCCCCCcCCccCCcEEECcCccccccccccccCCCCCEEECCCCCCcCcCCccccCCcccEEEecCC
Confidence            12355555555544445443322233      33333343331                      444555555555555


Q ss_pred             CCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcC-CCCCceeEEEeccchhhhhhhh
Q 041114          428 TNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLG-LKHLEELDFTLRCVHSLQILVS  506 (680)
Q Consensus       428 ~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~-L~~L~~L~i~~~~~~~l~~l~~  506 (680)
                      ..+..+|.+|++|++|++|++++|..++.+|.. + ++++|++|++++|..+..++. ..+|+.|++..+..   ..+|.
T Consensus       668 ~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~-i-~l~sL~~L~Lsgc~~L~~~p~~~~nL~~L~L~~n~i---~~lP~  742 (1153)
T PLN03210        668 SSLVELPSSIQYLNKLEDLDMSRCENLEILPTG-I-NLKSLYRLNLSGCSRLKSFPDISTNISWLDLDETAI---EEFPS  742 (1153)
T ss_pred             CCccccchhhhccCCCCEEeCCCCCCcCccCCc-C-CCCCCCEEeCCCCCCccccccccCCcCeeecCCCcc---ccccc
Confidence            555555555555555555555555555555553 3 555555555555544333322 23444444432221   11111


Q ss_pred             c------------------------------hhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecc
Q 041114          507 S------------------------------NKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTD  556 (680)
Q Consensus       507 ~------------------------------~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~  556 (680)
                      .                              .....+|+.|++++|.....+|. +++++++|+.|++++|..++.++..
T Consensus       743 ~~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~-si~~L~~L~~L~Ls~C~~L~~LP~~  821 (1153)
T PLN03210        743 NLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPS-SIQNLHKLEHLEIENCINLETLPTG  821 (1153)
T ss_pred             cccccccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccCh-hhhCCCCCCEEECCCCCCcCeeCCC
Confidence            0                              01123566667766666666663 5677777777777777777655321


Q ss_pred             cCCCCccCCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCC
Q 041114          557 YTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRK  636 (680)
Q Consensus       557 ~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~  636 (680)
                                  ..+++|++|++++|..+..+|.  ..++|+.|++++ +.++++|..  .+.+++|+.|++.+|++|+.
T Consensus       822 ------------~~L~sL~~L~Ls~c~~L~~~p~--~~~nL~~L~Ls~-n~i~~iP~s--i~~l~~L~~L~L~~C~~L~~  884 (1153)
T PLN03210        822 ------------INLESLESLDLSGCSRLRTFPD--ISTNISDLNLSR-TGIEEVPWW--IEKFSNLSFLDMNGCNNLQR  884 (1153)
T ss_pred             ------------CCccccCEEECCCCCccccccc--cccccCEeECCC-CCCccChHH--HhcCCCCCEEECCCCCCcCc
Confidence                        2356667777777666655542  234555555555 344455432  25577777777777777777


Q ss_pred             CCCCCcc--ccCcceEEecc
Q 041114          637 LPLDSNS--ALEHKIAIRGE  654 (680)
Q Consensus       637 lP~~~~~--~l~~L~i~~~~  654 (680)
                      +|.....  .|+.|.+.+|.
T Consensus       885 l~~~~~~L~~L~~L~l~~C~  904 (1153)
T PLN03210        885 VSLNISKLKHLETVDFSDCG  904 (1153)
T ss_pred             cCcccccccCCCeeecCCCc
Confidence            7765443  34444555554

syringae 6; Provisional

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

Probab=99.80  E-value=2e-20  Score=192.52  Aligned_cols=107  Identities=37%  Similarity=0.725  Sum_probs=92.0

Q ss_pred             CccHHHHHHHHHHHhCCChhHHHHHHHHhccCCCHHHHHHHHHHHhcCCCccccCChhhHHHHHHHhHhcCCchhHHHHH
Q 041114          196 HHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSEFAGLVKEVYPLLKFSYDSLQNDVIRSCF  275 (680)
Q Consensus       196 ~~~l~~~~~~I~~kc~GlPLai~~lg~~L~~k~~~~~W~~~l~~l~~~~~~~~~~~~~~i~~~L~~Sy~~L~~~~lk~cf  275 (680)
                      ++.+.+++++|+++|+|+|||++++|++|+.+.+..+|+.+++.+.. ...+..+....+..++.+||+.||+ ++|.||
T Consensus       178 ~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~-~~~~~~~~~~~~~~~l~~s~~~L~~-~~~~~f  255 (287)
T PF00931_consen  178 PEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELEN-SLRESRDYDRSVFSALELSYDSLPD-ELRRCF  255 (287)
T ss_dssp             -TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHH-CHTCSSGSCHHHHHHHHHHHHSSHT-CCHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccceechhcCCc-cHHHHH
Confidence            45567889999999999999999999999776688999999998888 5544444456899999999999999 999999


Q ss_pred             HHhcccCCCcccChHHHHHHHHHcCCcCC
Q 041114          276 LYCCLYPEDFAILKRDLIDCWIGEGFLDE  304 (680)
Q Consensus       276 l~~s~Fp~~~~i~~~~Li~~Wiaeg~i~~  304 (680)
                      +|||+||+++.|+++.|+++|++||||+.
T Consensus       256 ~~L~~f~~~~~i~~~~li~lW~~e~~i~~  284 (287)
T PF00931_consen  256 LYLSIFPEGVPIPRERLIRLWVAEGFISS  284 (287)
T ss_dssp             HHGGGSGTTS-EEHHHHHHHHTT-HHTC-
T ss_pred             hhCcCCCCCceECHHHHHHHHHHCCCCcc
Confidence            99999999999999999999999999987

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

>PLN03210 Resistant to P

Probab=99.69  E-value=1.3e-16  Score=192.39  Aligned_cols=250  Identities=20%  Similarity=0.266  Sum_probs=180.8

Q ss_pred             cccceEEEEeeccccc-------ccccCC-C----Cccc---cccccccchhhhccCCcceEEEccCCCCccccchhhhc
Q 041114          375 EWETVRRLSLMQNQIK-------ILSEAP-T----CPHL---HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKA  439 (680)
Q Consensus       375 ~~~~~r~lsl~~~~~~-------~l~~~~-~----~~~L---~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~  439 (680)
                      ...+++.+.+..+...       .+|... .    +..|   .+.++.+|.. | .+.+|+.|+|++ +.+..+|.++..
T Consensus       556 ~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l~~lP~~-f-~~~~L~~L~L~~-s~l~~L~~~~~~  632 (1153)
T PLN03210        556 GMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLRCMPSN-F-RPENLVKLQMQG-SKLEKLWDGVHS  632 (1153)
T ss_pred             cCccccEEEEecccccccccceeecCcchhhcCcccEEEEecCCCCCCCCCc-C-CccCCcEEECcC-cccccccccccc
Confidence            4678888888655321       123221 1    1111   6778899987 4 579999999999 589999999999


Q ss_pred             cCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcc----hhhhcCCCCCceeEEEeccchhhhhhhhchhhhcccc
Q 041114          440 LVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVL----AKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTR  515 (680)
Q Consensus       440 L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~----~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~  515 (680)
                      +++|++|+|++|..++.+|.  ++.+++|++|++.+|..    +..+++|++|+.|++.  ++..+..++... .+++|+
T Consensus       633 l~~Lk~L~Ls~~~~l~~ip~--ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~--~c~~L~~Lp~~i-~l~sL~  707 (1153)
T PLN03210        633 LTGLRNIDLRGSKNLKEIPD--LSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMS--RCENLEILPTGI-NLKSLY  707 (1153)
T ss_pred             CCCCCEEECCCCCCcCcCCc--cccCCcccEEEecCCCCccccchhhhccCCCCEEeCC--CCCCcCccCCcC-CCCCCC
Confidence            99999999999878999996  89999999999999874    4566788999999887  444566666543 356899


Q ss_pred             EEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCc--------------------cCCCCCCCCCCcc
Q 041114          516 ALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTV--------------------LKSPQPFVFCSLH  575 (680)
Q Consensus       516 ~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~--------------------l~~~~~~~l~~L~  575 (680)
                      .|++++|..+..++.    ..++|+.|+++++. ++.++... ....                    +.+.....+++|+
T Consensus       708 ~L~Lsgc~~L~~~p~----~~~nL~~L~L~~n~-i~~lP~~~-~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~  781 (1153)
T PLN03210        708 RLNLSGCSRLKSFPD----ISTNISWLDLDETA-IEEFPSNL-RLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLT  781 (1153)
T ss_pred             EEeCCCCCCcccccc----ccCCcCeeecCCCc-cccccccc-cccccccccccccchhhccccccccchhhhhccccch
Confidence            999999877666552    23577777776543 34333211 0000                    0011112346889


Q ss_pred             EEeeeCCCCCCCCC-CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCC
Q 041114          576 KVTITFCPKLKGLT-FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDS  641 (680)
Q Consensus       576 ~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~  641 (680)
                      .|+|++|+.+..+| .++++++|+.|+|++|+.++.+|..   ..+++|+.|++++|.+|+.+|..+
T Consensus       782 ~L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~LP~~---~~L~sL~~L~Ls~c~~L~~~p~~~  845 (1153)
T PLN03210        782 RLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTG---INLESLESLDLSGCSRLRTFPDIS  845 (1153)
T ss_pred             heeCCCCCCccccChhhhCCCCCCEEECCCCCCcCeeCCC---CCccccCEEECCCCCccccccccc
Confidence            99999988887777 4788999999999999888888654   368899999999999888887543

syringae 6; Provisional

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

Probab=99.67  E-value=1.1e-18  Score=181.39  Aligned_cols=248  Identities=19%  Similarity=0.218  Sum_probs=148.6

Q ss_pred             ccEEEecCCCccccccc-ccccceEEEEeecccccccccC-CCCccc-------------------------------cc
Q 041114          357 ENFLVCAGRGLKEAPEV-KEWETVRRLSLMQNQIKILSEA-PTCPHL-------------------------------HY  403 (680)
Q Consensus       357 ~~~~~~~~~~~~~~~~~-~~~~~~r~lsl~~~~~~~l~~~-~~~~~L-------------------------------~~  403 (680)
                      -.|+.....++..+|.. ....++.||++.+|.+..+.+. ..++.|                               .+
T Consensus        34 ~~WLkLnrt~L~~vPeEL~~lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~LKnsGiP~diF~l~dLt~lDLShN  113 (1255)
T KOG0444|consen   34 MTWLKLNRTKLEQVPEELSRLQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNNLKNSGIPTDIFRLKDLTILDLSHN  113 (1255)
T ss_pred             eeEEEechhhhhhChHHHHHHhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhccccccCCCCchhcccccceeeecchh
Confidence            36777777777777743 4456888888888877654332 223333                               33


Q ss_pred             cccccchhhhccCCcceEEEccCCCCccccchh-hhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc----c
Q 041114          404 EFKMITDGFFQFMPLLKVLNMSRETNIKELLGE-LKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV----L  478 (680)
Q Consensus       404 ~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~-i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~----~  478 (680)
                      .++.+|.+ +...+++-||+||+ ++|+.+|.+ +-+|+-|-+|||++| .+..+|+. +..|.+||+|+++++.    -
T Consensus       114 qL~EvP~~-LE~AKn~iVLNLS~-N~IetIPn~lfinLtDLLfLDLS~N-rLe~LPPQ-~RRL~~LqtL~Ls~NPL~hfQ  189 (1255)
T KOG0444|consen  114 QLREVPTN-LEYAKNSIVLNLSY-NNIETIPNSLFINLTDLLFLDLSNN-RLEMLPPQ-IRRLSMLQTLKLSNNPLNHFQ  189 (1255)
T ss_pred             hhhhcchh-hhhhcCcEEEEccc-CccccCCchHHHhhHhHhhhccccc-hhhhcCHH-HHHHhhhhhhhcCCChhhHHH
Confidence            33444444 34444445555555 466666644 446677777777777 57777776 7777777777777765    2


Q ss_pred             hhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccC
Q 041114          479 AKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYT  558 (680)
Q Consensus       479 ~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~  558 (680)
                      +..+++++.|+.|+++.. ...+.++|.+..-+.+|+.++++.+. +..+|. .+-++++|+.|++++ +.++.+.... 
T Consensus       190 LrQLPsmtsL~vLhms~T-qRTl~N~Ptsld~l~NL~dvDlS~N~-Lp~vPe-cly~l~~LrrLNLS~-N~iteL~~~~-  264 (1255)
T KOG0444|consen  190 LRQLPSMTSLSVLHMSNT-QRTLDNIPTSLDDLHNLRDVDLSENN-LPIVPE-CLYKLRNLRRLNLSG-NKITELNMTE-  264 (1255)
T ss_pred             HhcCccchhhhhhhcccc-cchhhcCCCchhhhhhhhhccccccC-CCcchH-HHhhhhhhheeccCc-CceeeeeccH-
Confidence            344555566666666522 22355566555666788888888654 666664 778888999999987 3555442211 


Q ss_pred             CCCccCCCCCCCCCCccEEeeeCCCCCCCCC-CcCCCCCCCEEeEecCc-chhHhhhcCCCCCCCccccc
Q 041114          559 SGTVLKSPQPFVFCSLHKVTITFCPKLKGLT-FLVFAPNLKCLSLFDCT-AMEEIISAGKFVHTPEMMGN  626 (680)
Q Consensus       559 ~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~c~-~l~~i~~~~~~~~lp~L~~L  626 (680)
                                +...+|++|+++.+. ++.+| .+..++.|+.|.+.+.. ..+.||+..  |.+.+|+.+
T Consensus       265 ----------~~W~~lEtLNlSrNQ-Lt~LP~avcKL~kL~kLy~n~NkL~FeGiPSGI--GKL~~Levf  321 (1255)
T KOG0444|consen  265 ----------GEWENLETLNLSRNQ-LTVLPDAVCKLTKLTKLYANNNKLTFEGIPSGI--GKLIQLEVF  321 (1255)
T ss_pred             ----------HHHhhhhhhccccch-hccchHHHhhhHHHHHHHhccCcccccCCccch--hhhhhhHHH
Confidence                      334667777777743 55555 35667777776665532 133343322  444444443

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

Probab=99.62  E-value=1.4e-15  Score=182.99  Aligned_cols=168  Identities=22%  Similarity=0.230  Sum_probs=93.9

Q ss_pred             cccceEEEEeecccccccccCCCCccc------ccccc-ccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEe
Q 041114          375 EWETVRRLSLMQNQIKILSEAPTCPHL------HYEFK-MITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVN  447 (680)
Q Consensus       375 ~~~~~r~lsl~~~~~~~l~~~~~~~~L------~~~l~-~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~  447 (680)
                      ...++++|.+.+|.+....+...+++|      ++.+. .+|.. ++.+++|++|+|++|.-...+|..++++++|++|+
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~~L~  194 (968)
T PLN00113        116 TSSSLRYLNLSNNNFTGSIPRGSIPNLETLDLSNNMLSGEIPND-IGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLT  194 (968)
T ss_pred             cCCCCCEEECcCCccccccCccccCCCCEEECcCCcccccCChH-HhcCCCCCEEECccCcccccCChhhhhCcCCCeee
Confidence            345666676666665432222223333      33333 34444 66777777777777433346677777777777777


Q ss_pred             ccCCCCccccchhhhcCCCCCcEeeccCCc----chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccC
Q 041114          448 LEWARDLVTIPLEVISNFSKLRVLRLFGTV----LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFK  523 (680)
Q Consensus       448 L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~  523 (680)
                      +++|.....+|.+ ++++++|++|++++|.    .+..+.++++|+.|++..+...  ..++.....+++|+.|.++++.
T Consensus       195 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        195 LASNQLVGQIPRE-LGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLT--GPIPSSLGNLKNLQYLFLYQNK  271 (968)
T ss_pred             ccCCCCcCcCChH-HcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCceec--cccChhHhCCCCCCEEECcCCe
Confidence            7777333356665 7777777777777654    3445666677777766543322  1222222334466666666654


Q ss_pred             CCCcccccccccCCCCCEEEEecc
Q 041114          524 DSKSIDVIALARLKHLSTLHFSKC  547 (680)
Q Consensus       524 ~~~~~~~~~l~~l~~L~~L~l~~~  547 (680)
                      -....+ ..+.++++|++|++++|
T Consensus       272 l~~~~p-~~l~~l~~L~~L~Ls~n  294 (968)
T PLN00113        272 LSGPIP-PSIFSLQKLISLDLSDN  294 (968)
T ss_pred             eeccCc-hhHhhccCcCEEECcCC
Confidence            333333 24556666666666654

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

Probab=99.58  E-value=7.8e-15  Score=176.43  Aligned_cols=215  Identities=18%  Similarity=0.114  Sum_probs=134.5

Q ss_pred             cccceEEEEeecccccc-cccC-CCCccc------ccccc-ccchhhhccCCcceEEEccCCCCccccchhhhccCCCCE
Q 041114          375 EWETVRRLSLMQNQIKI-LSEA-PTCPHL------HYEFK-MITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKC  445 (680)
Q Consensus       375 ~~~~~r~lsl~~~~~~~-l~~~-~~~~~L------~~~l~-~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~  445 (680)
                      ...++++|.+.+|.+.. +|.. ..+++|      ++.+. .+|.. |.++++|++|+|++|.-...+|..++++++|++
T Consensus       138 ~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~-~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~  216 (968)
T PLN00113        138 SIPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNS-LTNLTSLEFLTLASNQLVGQIPRELGQMKSLKW  216 (968)
T ss_pred             ccCCCCEEECcCCcccccCChHHhcCCCCCEEECccCcccccCChh-hhhCcCCCeeeccCCCCcCcCChHHcCcCCccE
Confidence            35678888888887753 3332 333444      44443 45555 788899999999886444578888889999999


Q ss_pred             EeccCCCCccccchhhhcCCCCCcEeeccCCc----chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEec
Q 041114          446 VNLEWARDLVTIPLEVISNFSKLRVLRLFGTV----LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIR  521 (680)
Q Consensus       446 L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~  521 (680)
                      |++++|.....+|.. ++++++|++|++++|.    .+..+.++++|+.|.+..+....  .++.....+++|+.|++++
T Consensus       217 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~Ls~  293 (968)
T PLN00113        217 IYLGYNNLSGEIPYE-IGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSG--PIPPSIFSLQKLISLDLSD  293 (968)
T ss_pred             EECcCCccCCcCChh-HhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeeec--cCchhHhhccCcCEEECcC
Confidence            999888433467876 8889999999998875    44567788888888887443221  1232233345788888877


Q ss_pred             cCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC-CcCCCCCCCEE
Q 041114          522 FKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT-FLVFAPNLKCL  600 (680)
Q Consensus       522 ~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L  600 (680)
                      |.-....+ ..+..+++|+.|+++++.....+ +..+          ..+++|+.|++++|.....+| .++.+++|+.|
T Consensus       294 n~l~~~~p-~~~~~l~~L~~L~l~~n~~~~~~-~~~~----------~~l~~L~~L~L~~n~l~~~~p~~l~~~~~L~~L  361 (968)
T PLN00113        294 NSLSGEIP-ELVIQLQNLEILHLFSNNFTGKI-PVAL----------TSLPRLQVLQLWSNKFSGEIPKNLGKHNNLTVL  361 (968)
T ss_pred             CeeccCCC-hhHcCCCCCcEEECCCCccCCcC-ChhH----------hcCCCCCEEECcCCCCcCcCChHHhCCCCCcEE
Confidence            75433444 25677778888887765433222 1111          345555555555554333333 24445555555


Q ss_pred             eEecC
Q 041114          601 SLFDC  605 (680)
Q Consensus       601 ~l~~c  605 (680)
                      +++++
T Consensus       362 ~Ls~n  366 (968)
T PLN00113        362 DLSTN  366 (968)
T ss_pred             ECCCC
Confidence            55543

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

Probab=99.52  E-value=3.3e-16  Score=163.04  Aligned_cols=253  Identities=19%  Similarity=0.192  Sum_probs=155.6

Q ss_pred             ccccccceEEEEeecccccccccCCC-Cc-----cc-cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCC
Q 041114          372 EVKEWETVRRLSLMQNQIKILSEAPT-CP-----HL-HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLK  444 (680)
Q Consensus       372 ~~~~~~~~r~lsl~~~~~~~l~~~~~-~~-----~L-~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr  444 (680)
                      +...++.+..|.++.|.+.+.|.... ..     +| ++.+..||...|.++.-|-+||||+ +.++.||+.+..|.+|+
T Consensus        98 diF~l~dLt~lDLShNqL~EvP~~LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~-NrLe~LPPQ~RRL~~Lq  176 (1255)
T KOG0444|consen   98 DIFRLKDLTILDLSHNQLREVPTNLEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSN-NRLEMLPPQIRRLSMLQ  176 (1255)
T ss_pred             hhcccccceeeecchhhhhhcchhhhhhcCcEEEEcccCccccCCchHHHhhHhHhhhcccc-chhhhcCHHHHHHhhhh
Confidence            44566789999999999999887632 22     33 8889999999999999999999999 59999999999999999


Q ss_pred             EEeccCCCCccccchhhhcCCCCCcEeeccCCc-----chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEE
Q 041114          445 CVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV-----LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVL  519 (680)
Q Consensus       445 ~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~-----~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l  519 (680)
                      +|+|++|+ +....-.-+-.+++|++|.++++.     .+..+..|.+|+.++++-+   ++..+|.-.-.+.+|+.|++
T Consensus       177 tL~Ls~NP-L~hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvDlS~N---~Lp~vPecly~l~~LrrLNL  252 (1255)
T KOG0444|consen  177 TLKLSNNP-LNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVDLSEN---NLPIVPECLYKLRNLRRLNL  252 (1255)
T ss_pred             hhhcCCCh-hhHHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhhcccccc---CCCcchHHHhhhhhhheecc
Confidence            99999995 432211113456778888888753     4555666777777777643   33334433333446677777


Q ss_pred             eccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCC-C----------cc----CCCCCCCCCCccEEeeeCCCC
Q 041114          520 IRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSG-T----------VL----KSPQPFVFCSLHKVTITFCPK  584 (680)
Q Consensus       520 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~-~----------~l----~~~~~~~l~~L~~L~L~~c~~  584 (680)
                      ++++ +..+.. ..+...+|++|+++. +.+..+| +.++. +          .+    .|..++.+.+|+.+...++ +
T Consensus       253 S~N~-iteL~~-~~~~W~~lEtLNlSr-NQLt~LP-~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aanN-~  327 (1255)
T KOG0444|consen  253 SGNK-ITELNM-TEGEWENLETLNLSR-NQLTVLP-DAVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAANN-K  327 (1255)
T ss_pred             CcCc-eeeeec-cHHHHhhhhhhcccc-chhccch-HHHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhcc-c
Confidence            6655 333332 444555666666654 3333332 11110 0          00    1333455555555555543 2


Q ss_pred             CCCCC-CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCC
Q 041114          585 LKGLT-FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKL  637 (680)
Q Consensus       585 l~~l~-~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~l  637 (680)
                      +.-.| .++.++.|+.|.++. +.+-.+|...  --+|.|+.|+++..|+|..-
T Consensus       328 LElVPEglcRC~kL~kL~L~~-NrLiTLPeaI--HlL~~l~vLDlreNpnLVMP  378 (1255)
T KOG0444|consen  328 LELVPEGLCRCVKLQKLKLDH-NRLITLPEAI--HLLPDLKVLDLRENPNLVMP  378 (1255)
T ss_pred             cccCchhhhhhHHHHHhcccc-cceeechhhh--hhcCCcceeeccCCcCccCC
Confidence            44333 355566666666643 4444444322  23566666666666666543

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

Probab=99.50  E-value=2.4e-15  Score=155.90  Aligned_cols=242  Identities=19%  Similarity=0.258  Sum_probs=164.7

Q ss_pred             cceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCCCcccc-chhhhccCCCCEEe
Q 041114          377 ETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIKEL-LGELKALVNLKCVN  447 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~l-P~~i~~L~~Lr~L~  447 (680)
                      .++.+|.+.+|.|..+...  ..+.+|      .+++..+|...|+++++|+.|||.. +.|+.. .-.+..|..|+.|.
T Consensus       173 ~ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnr-N~irive~ltFqgL~Sl~nlk  251 (873)
T KOG4194|consen  173 VNIKKLNLASNRITTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNR-NRIRIVEGLTFQGLPSLQNLK  251 (873)
T ss_pred             CCceEEeeccccccccccccccccchheeeecccCcccccCHHHhhhcchhhhhhccc-cceeeehhhhhcCchhhhhhh
Confidence            4788888888888776432  223333      7777888887788888888888888 466655 35677788888888


Q ss_pred             ccCCCCccccchhhhcCCCCCcEeeccCCc----chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccC
Q 041114          448 LEWARDLVTIPLEVISNFSKLRVLRLFGTV----LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFK  523 (680)
Q Consensus       448 L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~  523 (680)
                      |..| ++..+.++++-.|.++++|++..+.    .-+.|-+|+.|+.|+++.+....+.  .+......+|..|+|+++.
T Consensus       252 lqrN-~I~kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih--~d~WsftqkL~~LdLs~N~  328 (873)
T KOG4194|consen  252 LQRN-DISKLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIH--IDSWSFTQKLKELDLSSNR  328 (873)
T ss_pred             hhhc-CcccccCcceeeecccceeecccchhhhhhcccccccchhhhhccchhhhheee--cchhhhcccceeEeccccc
Confidence            8887 6888888777788888888888765    2235667788888887754333222  2334555688888888776


Q ss_pred             CCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCC---CCC-CCcCCCCCCCE
Q 041114          524 DSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKL---KGL-TFLVFAPNLKC  599 (680)
Q Consensus       524 ~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l---~~l-~~l~~l~~L~~  599 (680)
                       +..++..++..+..|++|+++. +.+..+-...+          ..+++|++|+|+++..-   ++- -.+..+|+|+.
T Consensus       329 -i~~l~~~sf~~L~~Le~LnLs~-Nsi~~l~e~af----------~~lssL~~LdLr~N~ls~~IEDaa~~f~gl~~Lrk  396 (873)
T KOG4194|consen  329 -ITRLDEGSFRVLSQLEELNLSH-NSIDHLAEGAF----------VGLSSLHKLDLRSNELSWCIEDAAVAFNGLPSLRK  396 (873)
T ss_pred             -cccCChhHHHHHHHhhhhcccc-cchHHHHhhHH----------HHhhhhhhhcCcCCeEEEEEecchhhhccchhhhh
Confidence             6666666778888888888875 34444422222          35688888888875411   111 12345899999


Q ss_pred             EeEecCcchhHhhhcCCCCCCCcccccCccccccCCCC
Q 041114          600 LSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKL  637 (680)
Q Consensus       600 L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~l  637 (680)
                      |.+.+ ++++.|+.. .|..|++|+.|++.+.+ +.++
T Consensus       397 L~l~g-Nqlk~I~kr-Afsgl~~LE~LdL~~Na-iaSI  431 (873)
T KOG4194|consen  397 LRLTG-NQLKSIPKR-AFSGLEALEHLDLGDNA-IASI  431 (873)
T ss_pred             eeecC-ceeeecchh-hhccCcccceecCCCCc-ceee
Confidence            99988 778888553 55778888888877654 4443

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

Probab=99.42  E-value=8e-14  Score=144.78  Aligned_cols=244  Identities=19%  Similarity=0.203  Sum_probs=123.6

Q ss_pred             cceEEEEeecccccccccC-----CCCccc---cccccccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEe
Q 041114          377 ETVRRLSLMQNQIKILSEA-----PTCPHL---HYEFKMITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVN  447 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~-----~~~~~L---~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~  447 (680)
                      .++.+|++.+|.|..+...     +....+   .+.+..+|...|..=.++++|+|++ +.|+.+- ..+..|.+|-.|.
T Consensus       125 ghl~~L~L~~N~I~sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L~La~-N~It~l~~~~F~~lnsL~tlk  203 (873)
T KOG4194|consen  125 GHLEKLDLRHNLISSVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKLNLAS-NRITTLETGHFDSLNSLLTLK  203 (873)
T ss_pred             cceeEEeeeccccccccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEEeecc-ccccccccccccccchheeee
Confidence            3577777777776654322     111111   4445555555455555666666666 3565554 3455666666666


Q ss_pred             ccCCCCccccchhhhcCCCCCcEeeccCCc--ch--hhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccC
Q 041114          448 LEWARDLVTIPLEVISNFSKLRVLRLFGTV--LA--KELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFK  523 (680)
Q Consensus       448 L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~--~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~  523 (680)
                      |+.| .++.+|..++.+|.+|+.|++..+.  .+  -.+++|.+|+.|.+..++...+..  ....-+.+++.|+|..++
T Consensus       204 LsrN-rittLp~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~nlklqrN~I~kL~D--G~Fy~l~kme~l~L~~N~  280 (873)
T KOG4194|consen  204 LSRN-RITTLPQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRNDISKLDD--GAFYGLEKMEHLNLETNR  280 (873)
T ss_pred             cccC-cccccCHHHhhhcchhhhhhccccceeeehhhhhcCchhhhhhhhhhcCcccccC--cceeeecccceeecccch
Confidence            6666 5666666545556666666666554  11  123445555555544333322221  001113356666665544


Q ss_pred             CCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCCC-------------
Q 041114          524 DSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTF-------------  590 (680)
Q Consensus       524 ~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~-------------  590 (680)
                       +..+...++-+++.|+.|+++. +.++.+.++.          |...++|+.|+|+++. ++.++.             
T Consensus       281 -l~~vn~g~lfgLt~L~~L~lS~-NaI~rih~d~----------WsftqkL~~LdLs~N~-i~~l~~~sf~~L~~Le~Ln  347 (873)
T KOG4194|consen  281 -LQAVNEGWLFGLTSLEQLDLSY-NAIQRIHIDS----------WSFTQKLKELDLSSNR-ITRLDEGSFRVLSQLEELN  347 (873)
T ss_pred             -hhhhhcccccccchhhhhccch-hhhheeecch----------hhhcccceeEeccccc-cccCChhHHHHHHHhhhhc
Confidence             3444434566666666666664 3334332222          2344556666665533 333331             


Q ss_pred             -------------cCCCCCCCEEeEecCcchhHhhhc--CCCCCCCcccccCccccccCCCCCC
Q 041114          591 -------------LVFAPNLKCLSLFDCTAMEEIISA--GKFVHTPEMMGNTMDPCAKLRKLPL  639 (680)
Q Consensus       591 -------------l~~l~~L~~L~l~~c~~l~~i~~~--~~~~~lp~L~~L~i~~C~~L~~lP~  639 (680)
                                   +..+.+|+.|++++ +.+...+..  ..|..||+|+.|.+.+ .+||.+|-
T Consensus       348 Ls~Nsi~~l~e~af~~lssL~~LdLr~-N~ls~~IEDaa~~f~gl~~LrkL~l~g-Nqlk~I~k  409 (873)
T KOG4194|consen  348 LSHNSIDHLAEGAFVGLSSLHKLDLRS-NELSWCIEDAAVAFNGLPSLRKLRLTG-NQLKSIPK  409 (873)
T ss_pred             ccccchHHHHhhHHHHhhhhhhhcCcC-CeEEEEEecchhhhccchhhhheeecC-ceeeecch
Confidence                         23466777777766 333333221  1233478887777554 34555543

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

Probab=99.41  E-value=2.7e-14  Score=142.13  Aligned_cols=104  Identities=28%  Similarity=0.496  Sum_probs=92.8

Q ss_pred             cccc-ccccccceEEEEeecccccccccCCCCccc------cccccccchhhhccCCcceEEEccCCCCccccchhhhcc
Q 041114          368 KEAP-EVKEWETVRRLSLMQNQIKILSEAPTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKAL  440 (680)
Q Consensus       368 ~~~~-~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L  440 (680)
                      ..+| +....+++..+.+..|.+..+|+.+.|..|      .+.++.+|....+.+.+|.+|||.. +.++++|.+++.|
T Consensus       196 ~tlP~~lg~l~~L~~LyL~~Nki~~lPef~gcs~L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRd-Nklke~Pde~clL  274 (565)
T KOG0472|consen  196 ETLPPELGGLESLELLYLRRNKIRFLPEFPGCSLLKELHVGENQIEMLPAEHLKHLNSLLVLDLRD-NKLKEVPDEICLL  274 (565)
T ss_pred             hcCChhhcchhhhHHHHhhhcccccCCCCCccHHHHHHHhcccHHHhhHHHHhcccccceeeeccc-cccccCchHHHHh
Confidence            3444 445567888899999999999988999877      7788899999888999999999999 5999999999999


Q ss_pred             CCCCEEeccCCCCccccchhhhcCCCCCcEeeccC
Q 041114          441 VNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG  475 (680)
Q Consensus       441 ~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~  475 (680)
                      .+|.+||+++| .+..+|.+ +|+| +|+.|-+.|
T Consensus       275 rsL~rLDlSNN-~is~Lp~s-Lgnl-hL~~L~leG  306 (565)
T KOG0472|consen  275 RSLERLDLSNN-DISSLPYS-LGNL-HLKFLALEG  306 (565)
T ss_pred             hhhhhhcccCC-ccccCCcc-cccc-eeeehhhcC
Confidence            99999999999 79999998 9999 999998887

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.24  E-value=8.7e-11  Score=132.54  Aligned_cols=147  Identities=18%  Similarity=0.128  Sum_probs=83.8

Q ss_pred             cccEEEecCCCcccccccccccceEEEEeecccccccccC-CCCccc---cccccccchhhhccCCcceEEEccCCCCcc
Q 041114          356 KENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA-PTCPHL---HYEFKMITDGFFQFMPLLKVLNMSRETNIK  431 (680)
Q Consensus       356 ~~~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~-~~~~~L---~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~  431 (680)
                      +...+......+..+|... ..+++.|.+.+|.+..+|.. ..+..|   ++.+..+|..    .++|+.|++++| .+.
T Consensus       202 ~~~~LdLs~~~LtsLP~~l-~~~L~~L~L~~N~Lt~LP~lp~~Lk~LdLs~N~LtsLP~l----p~sL~~L~Ls~N-~L~  275 (788)
T PRK15387        202 GNAVLNVGESGLTTLPDCL-PAHITTLVIPDNNLTSLPALPPELRTLEVSGNQLTSLPVL----PPGLLELSIFSN-PLT  275 (788)
T ss_pred             CCcEEEcCCCCCCcCCcch-hcCCCEEEccCCcCCCCCCCCCCCcEEEecCCccCcccCc----ccccceeeccCC-chh
Confidence            3556666666777777533 24788888888888877654 222222   5666667642    356777777774 666


Q ss_pred             ccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCC-CCCceeEEEeccchhhhhhhhchhh
Q 041114          432 ELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGL-KHLEELDFTLRCVHSLQILVSSNKL  510 (680)
Q Consensus       432 ~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L-~~L~~L~i~~~~~~~l~~l~~~~~l  510 (680)
                      .+|..   ..+|+.|++++| .++.+|..    +.+|+.|++++|. +..++.+ .+|+.|.+..+....   ++.   +
T Consensus       276 ~Lp~l---p~~L~~L~Ls~N-~Lt~LP~~----p~~L~~LdLS~N~-L~~Lp~lp~~L~~L~Ls~N~L~~---LP~---l  340 (788)
T PRK15387        276 HLPAL---PSGLCKLWIFGN-QLTSLPVL----PPGLQELSVSDNQ-LASLPALPSELCKLWAYNNQLTS---LPT---L  340 (788)
T ss_pred             hhhhc---hhhcCEEECcCC-cccccccc----ccccceeECCCCc-cccCCCCcccccccccccCcccc---ccc---c
Confidence            66643   245666777777 57777652    3567777777653 2222221 234444444332222   222   2


Q ss_pred             hccccEEEEeccC
Q 041114          511 QSCTRALVLIRFK  523 (680)
Q Consensus       511 ~~~L~~L~l~~~~  523 (680)
                      ..+|+.|+++++.
T Consensus       341 p~~Lq~LdLS~N~  353 (788)
T PRK15387        341 PSGLQELSVSDNQ  353 (788)
T ss_pred             ccccceEecCCCc
Confidence            2356666666654

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

Probab=99.19  E-value=3.4e-13  Score=119.33  Aligned_cols=89  Identities=27%  Similarity=0.412  Sum_probs=69.4

Q ss_pred             cccccccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEec
Q 041114          369 EAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNL  448 (680)
Q Consensus       369 ~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L  448 (680)
                      +++.....+++.++.+++|.+.                .+|+. +..+.+|++|++++ +.|+++|.+|..|+.||+|++
T Consensus        25 ~~~gLf~~s~ITrLtLSHNKl~----------------~vppn-ia~l~nlevln~~n-nqie~lp~~issl~klr~lnv   86 (264)
T KOG0617|consen   25 ELPGLFNMSNITRLTLSHNKLT----------------VVPPN-IAELKNLEVLNLSN-NQIEELPTSISSLPKLRILNV   86 (264)
T ss_pred             hcccccchhhhhhhhcccCcee----------------ecCCc-HHHhhhhhhhhccc-chhhhcChhhhhchhhhheec
Confidence            3444455567777777777665                55666 77888889999988 588889988899999999988


Q ss_pred             cCCCCccccchhhhcCCCCCcEeeccCCc
Q 041114          449 EWARDLVTIPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       449 ~~~~~l~~lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      .-| .+..+|.+ +|.+.-|++||+..+.
T Consensus        87 gmn-rl~~lprg-fgs~p~levldltynn  113 (264)
T KOG0617|consen   87 GMN-RLNILPRG-FGSFPALEVLDLTYNN  113 (264)
T ss_pred             chh-hhhcCccc-cCCCchhhhhhccccc
Confidence            887 68888888 8888888888888653

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

Probab=99.17  E-value=2.8e-13  Score=134.99  Aligned_cols=226  Identities=17%  Similarity=0.190  Sum_probs=130.4

Q ss_pred             cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc---c
Q 041114          402 HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV---L  478 (680)
Q Consensus       402 ~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~---~  478 (680)
                      .+.+..+|+. ++.+..+..|+.++ +++.++|+.++.+..|+.|+.+++ .+.++|++ |+.+..|+.|+..++.   .
T Consensus        77 ~n~l~~lp~a-ig~l~~l~~l~vs~-n~ls~lp~~i~s~~~l~~l~~s~n-~~~el~~~-i~~~~~l~dl~~~~N~i~sl  152 (565)
T KOG0472|consen   77 DNKLSQLPAA-IGELEALKSLNVSH-NKLSELPEQIGSLISLVKLDCSSN-ELKELPDS-IGRLLDLEDLDATNNQISSL  152 (565)
T ss_pred             cchhhhCCHH-HHHHHHHHHhhccc-chHhhccHHHhhhhhhhhhhcccc-ceeecCch-HHHHhhhhhhhccccccccC
Confidence            4445555555 55556666666666 356666666666666666666665 45566665 6666666666555543   4


Q ss_pred             hhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccC
Q 041114          479 AKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYT  558 (680)
Q Consensus       479 ~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~  558 (680)
                      ++.+.++.+|..+.+..+   .+..++...-.++.|++|+...+- ++.+|. .++.+.+|+.|++.. +++..+     
T Consensus       153 p~~~~~~~~l~~l~~~~n---~l~~l~~~~i~m~~L~~ld~~~N~-L~tlP~-~lg~l~~L~~LyL~~-Nki~~l-----  221 (565)
T KOG0472|consen  153 PEDMVNLSKLSKLDLEGN---KLKALPENHIAMKRLKHLDCNSNL-LETLPP-ELGGLESLELLYLRR-NKIRFL-----  221 (565)
T ss_pred             chHHHHHHHHHHhhcccc---chhhCCHHHHHHHHHHhcccchhh-hhcCCh-hhcchhhhHHHHhhh-cccccC-----
Confidence            455555555555544422   222333222224455655554332 444552 566666666666654 233322     


Q ss_pred             CCCccCCCCCCCCCCccEEeeeCCCCCCCCCC--cCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCC
Q 041114          559 SGTVLKSPQPFVFCSLHKVTITFCPKLKGLTF--LVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRK  636 (680)
Q Consensus       559 ~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~  636 (680)
                             |+++.++.|..|++..+ +++.+|.  ...+++|..|++.+ ++++++|.+.  .-+.+|+.|++++ ..+..
T Consensus       222 -------Pef~gcs~L~Elh~g~N-~i~~lpae~~~~L~~l~vLDLRd-Nklke~Pde~--clLrsL~rLDlSN-N~is~  289 (565)
T KOG0472|consen  222 -------PEFPGCSLLKELHVGEN-QIEMLPAEHLKHLNSLLVLDLRD-NKLKEVPDEI--CLLRSLERLDLSN-NDISS  289 (565)
T ss_pred             -------CCCCccHHHHHHHhccc-HHHhhHHHHhcccccceeeeccc-cccccCchHH--HHhhhhhhhcccC-Ccccc
Confidence                   33356677777777663 3555653  45788888888887 6788887653  4577788888887 55788


Q ss_pred             CCCCCcc-ccCcceEEecc
Q 041114          637 LPLDSNS-ALEHKIAIRGE  654 (680)
Q Consensus       637 lP~~~~~-~l~~L~i~~~~  654 (680)
                      +|....+ .|..|.+.+.+
T Consensus       290 Lp~sLgnlhL~~L~leGNP  308 (565)
T KOG0472|consen  290 LPYSLGNLHLKFLALEGNP  308 (565)
T ss_pred             CCcccccceeeehhhcCCc
Confidence            8875554 34455554444

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

Probab=99.13  E-value=5.2e-12  Score=138.35  Aligned_cols=237  Identities=20%  Similarity=0.243  Sum_probs=156.7

Q ss_pred             cceEEEEeecccccccccCCCCccc------cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccC
Q 041114          377 ETVRRLSLMQNQIKILSEAPTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEW  450 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~  450 (680)
                      .++++|..++|.+..+...+.-.++      .+.+..+| +++..+.+|..|+..+ +.+..+|..|.....|++|.+..
T Consensus       219 ~~l~~L~a~~n~l~~~~~~p~p~nl~~~dis~n~l~~lp-~wi~~~~nle~l~~n~-N~l~~lp~ri~~~~~L~~l~~~~  296 (1081)
T KOG0618|consen  219 PSLTALYADHNPLTTLDVHPVPLNLQYLDISHNNLSNLP-EWIGACANLEALNANH-NRLVALPLRISRITSLVSLSAAY  296 (1081)
T ss_pred             cchheeeeccCcceeeccccccccceeeecchhhhhcch-HHHHhcccceEecccc-hhHHhhHHHHhhhhhHHHHHhhh
Confidence            4677777777776643322222233      66777888 5689999999999999 58899999999999999999999


Q ss_pred             CCCccccchhhhcCCCCCcEeeccCCcc---hhh-hcCCC-CCceeEEEecc-----------chhhhhhhhch------
Q 041114          451 ARDLVTIPLEVISNFSKLRVLRLFGTVL---AKE-LLGLK-HLEELDFTLRC-----------VHSLQILVSSN------  508 (680)
Q Consensus       451 ~~~l~~lP~~~i~~L~~L~~L~l~~~~~---~~~-l~~L~-~L~~L~i~~~~-----------~~~l~~l~~~~------  508 (680)
                      | .++.+|+. .+++++|++|++..+..   +.. +.-+. .|+.|+.+.+.           ...++.+.-..      
T Consensus       297 n-el~yip~~-le~~~sL~tLdL~~N~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~  374 (1081)
T KOG0618|consen  297 N-ELEYIPPF-LEGLKSLRTLDLQSNNLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDS  374 (1081)
T ss_pred             h-hhhhCCCc-ccccceeeeeeehhccccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCccccc
Confidence            9 79999996 78899999999987641   111 11111 12222222111           11111111111      


Q ss_pred             -----hhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCC
Q 041114          509 -----KLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCP  583 (680)
Q Consensus       509 -----~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~  583 (680)
                           ....+|+.|+++++. +..+|.+.+.+++.|++|+++| +.++.++...           ..+..|++|...++.
T Consensus       375 c~p~l~~~~hLKVLhLsyNr-L~~fpas~~~kle~LeeL~LSG-NkL~~Lp~tv-----------a~~~~L~tL~ahsN~  441 (1081)
T KOG0618|consen  375 CFPVLVNFKHLKVLHLSYNR-LNSFPASKLRKLEELEELNLSG-NKLTTLPDTV-----------ANLGRLHTLRAHSNQ  441 (1081)
T ss_pred             chhhhccccceeeeeecccc-cccCCHHHHhchHHhHHHhccc-chhhhhhHHH-----------HhhhhhHHHhhcCCc
Confidence                 113478888888876 6777777888888888888887 4666664222           356677777776633


Q ss_pred             CCCCCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCcccccc
Q 041114          584 KLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAK  633 (680)
Q Consensus       584 ~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~  633 (680)
                       +...|-+.++|.|+.++++ |+.++++..... -.-|+|+.|++++.++
T Consensus       442 -l~~fPe~~~l~qL~~lDlS-~N~L~~~~l~~~-~p~p~LkyLdlSGN~~  488 (1081)
T KOG0618|consen  442 -LLSFPELAQLPQLKVLDLS-CNNLSEVTLPEA-LPSPNLKYLDLSGNTR  488 (1081)
T ss_pred             -eeechhhhhcCcceEEecc-cchhhhhhhhhh-CCCcccceeeccCCcc
Confidence             5566677788888888886 477777754432 1126888888777664

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.10  E-value=2.1e-10  Score=130.17  Aligned_cols=107  Identities=22%  Similarity=0.297  Sum_probs=62.2

Q ss_pred             EEecCCCcccccccccccceEEEEeecccccccccCC--CCccc---cccccccchhhhccCCcceEEEccCCCCccccc
Q 041114          360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAP--TCPHL---HYEFKMITDGFFQFMPLLKVLNMSRETNIKELL  434 (680)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~--~~~~L---~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP  434 (680)
                      +...+.++..+|... ...++.|.+.+|.+..+|...  .+..|   ++.+..+|..+   ..+|+.|+|++| .+..+|
T Consensus       183 L~L~~~~LtsLP~~I-p~~L~~L~Ls~N~LtsLP~~l~~nL~~L~Ls~N~LtsLP~~l---~~~L~~L~Ls~N-~L~~LP  257 (754)
T PRK15370        183 LRLKILGLTTIPACI-PEQITTLILDNNELKSLPENLQGNIKTLYANSNQLTSIPATL---PDTIQEMELSIN-RITELP  257 (754)
T ss_pred             EEeCCCCcCcCCccc-ccCCcEEEecCCCCCcCChhhccCCCEEECCCCccccCChhh---hccccEEECcCC-ccCcCC
Confidence            334444555555422 257888999888888765431  11111   45555666542   235666777763 666666


Q ss_pred             hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc
Q 041114          435 GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       435 ~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      ..+.  .+|++|++++| ++..+|.+ +.  .+|++|++++|.
T Consensus       258 ~~l~--s~L~~L~Ls~N-~L~~LP~~-l~--~sL~~L~Ls~N~  294 (754)
T PRK15370        258 ERLP--SALQSLDLFHN-KISCLPEN-LP--EELRYLSVYDNS  294 (754)
T ss_pred             hhHh--CCCCEEECcCC-ccCccccc-cC--CCCcEEECCCCc
Confidence            6554  35667777666 56666664 43  366667666653

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

Probab=99.04  E-value=3.9e-11  Score=119.79  Aligned_cols=119  Identities=27%  Similarity=0.363  Sum_probs=86.7

Q ss_pred             cEEEecCCCcccccccccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCcccc-chh
Q 041114          358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKEL-LGE  436 (680)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~l-P~~  436 (680)
                      ..+...+.++.++|.. -......|.+..|.|                +.+|++.|+.+++||.||||+ +.|+.+ |..
T Consensus        49 ~~VdCr~~GL~eVP~~-LP~~tveirLdqN~I----------------~~iP~~aF~~l~~LRrLdLS~-N~Is~I~p~A  110 (498)
T KOG4237|consen   49 GIVDCRGKGLTEVPAN-LPPETVEIRLDQNQI----------------SSIPPGAFKTLHRLRRLDLSK-NNISFIAPDA  110 (498)
T ss_pred             ceEEccCCCcccCccc-CCCcceEEEeccCCc----------------ccCChhhccchhhhceecccc-cchhhcChHh
Confidence            4455556666666532 124555666665555                478888999999999999999 588876 577


Q ss_pred             hhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCC----cchhhhcCCCCCceeEEE
Q 041114          437 LKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGT----VLAKELLGLKHLEELDFT  494 (680)
Q Consensus       437 i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~----~~~~~l~~L~~L~~L~i~  494 (680)
                      +..|..|-.|-+.++.+|+.+|.+++++|..||.|.+.-+    .....+..|++|..|.+.
T Consensus       111 F~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrLllNan~i~Cir~~al~dL~~l~lLsly  172 (498)
T KOG4237|consen  111 FKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQRLLLNANHINCIRQDALRDLPSLSLLSLY  172 (498)
T ss_pred             hhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHHHHhcChhhhcchhHHHHHHhhhcchhccc
Confidence            8999998888777744899999999999999999988743    344455566666555554

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.02  E-value=4.3e-10  Score=127.73  Aligned_cols=223  Identities=16%  Similarity=0.155  Sum_probs=151.0

Q ss_pred             ceEEEEeecccccccccC--CCCccc---cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCC
Q 041114          378 TVRRLSLMQNQIKILSEA--PTCPHL---HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWAR  452 (680)
Q Consensus       378 ~~r~lsl~~~~~~~l~~~--~~~~~L---~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~  452 (680)
                      +...+.+.++.+..+|..  .....|   ++.+..+|..++   .+|++|++++| .++.+|.++.  .+|+.|+|++| 
T Consensus       179 ~~~~L~L~~~~LtsLP~~Ip~~L~~L~Ls~N~LtsLP~~l~---~nL~~L~Ls~N-~LtsLP~~l~--~~L~~L~Ls~N-  251 (754)
T PRK15370        179 NKTELRLKILGLTTIPACIPEQITTLILDNNELKSLPENLQ---GNIKTLYANSN-QLTSIPATLP--DTIQEMELSIN-  251 (754)
T ss_pred             CceEEEeCCCCcCcCCcccccCCcEEEecCCCCCcCChhhc---cCCCEEECCCC-ccccCChhhh--ccccEEECcCC-
Confidence            456788888888777653  222233   778888988743   58999999994 8889997765  47999999999 


Q ss_pred             CccccchhhhcCCCCCcEeeccCCcchhhhcC--CCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccc
Q 041114          453 DLVTIPLEVISNFSKLRVLRLFGTVLAKELLG--LKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDV  530 (680)
Q Consensus       453 ~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~--L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~  530 (680)
                      .+..+|.. +.  .+|++|++++|. +..++.  ..+|+.|+++.+...   .++.  .+..+|+.|+++++. +..+|.
T Consensus       252 ~L~~LP~~-l~--s~L~~L~Ls~N~-L~~LP~~l~~sL~~L~Ls~N~Lt---~LP~--~lp~sL~~L~Ls~N~-Lt~LP~  321 (754)
T PRK15370        252 RITELPER-LP--SALQSLDLFHNK-ISCLPENLPEELRYLSVYDNSIR---TLPA--HLPSGITHLNVQSNS-LTALPE  321 (754)
T ss_pred             ccCcCChh-Hh--CCCCEEECcCCc-cCccccccCCCCcEEECCCCccc---cCcc--cchhhHHHHHhcCCc-cccCCc
Confidence            79999986 54  589999998764 222221  147888888755433   3332  122467888888765 444442


Q ss_pred             cccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhH
Q 041114          531 IALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEE  610 (680)
Q Consensus       531 ~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~  610 (680)
                       .+  .++|+.|++++| .+..++.             .-.++|+.|++++|. +..+|. ...++|+.|+|++| .+..
T Consensus       322 -~l--~~sL~~L~Ls~N-~Lt~LP~-------------~l~~sL~~L~Ls~N~-L~~LP~-~lp~~L~~LdLs~N-~Lt~  381 (754)
T PRK15370        322 -TL--PPGLKTLEAGEN-ALTSLPA-------------SLPPELQVLDVSKNQ-ITVLPE-TLPPTITTLDVSRN-ALTN  381 (754)
T ss_pred             -cc--cccceeccccCC-ccccCCh-------------hhcCcccEEECCCCC-CCcCCh-hhcCCcCEEECCCC-cCCC
Confidence             22  368999999875 3444321             123689999999976 555663 23479999999986 4666


Q ss_pred             hhhcCCCCCCCcccccCccccccCCCCCCCCc
Q 041114          611 IISAGKFVHTPEMMGNTMDPCAKLRKLPLDSN  642 (680)
Q Consensus       611 i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~  642 (680)
                      +|...    .++|+.|++++| +|..+|..+.
T Consensus       382 LP~~l----~~sL~~LdLs~N-~L~~LP~sl~  408 (754)
T PRK15370        382 LPENL----PAALQIMQASRN-NLVRLPESLP  408 (754)
T ss_pred             CCHhH----HHHHHHHhhccC-CcccCchhHH
Confidence            75532    247889999985 5888886543

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

Probab=99.01  E-value=7.8e-12  Score=110.77  Aligned_cols=156  Identities=22%  Similarity=0.222  Sum_probs=114.1

Q ss_pred             cCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc---chhhhcCCCCCcee
Q 041114          415 FMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV---LAKELLGLKHLEEL  491 (680)
Q Consensus       415 ~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~---~~~~l~~L~~L~~L  491 (680)
                      .+.+...|-||+ +.+..+|..|..|.+|+.|++.+| +++++|.+ |++|++|+.|++.-+.   .+..+++++.|+.|
T Consensus        31 ~~s~ITrLtLSH-NKl~~vppnia~l~nlevln~~nn-qie~lp~~-issl~klr~lnvgmnrl~~lprgfgs~p~levl  107 (264)
T KOG0617|consen   31 NMSNITRLTLSH-NKLTVVPPNIAELKNLEVLNLSNN-QIEELPTS-ISSLPKLRILNVGMNRLNILPRGFGSFPALEVL  107 (264)
T ss_pred             chhhhhhhhccc-CceeecCCcHHHhhhhhhhhcccc-hhhhcChh-hhhchhhhheecchhhhhcCccccCCCchhhhh
Confidence            578888999999 599999999999999999999999 89999998 9999999999998654   67788889999988


Q ss_pred             EEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCC
Q 041114          492 DFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVF  571 (680)
Q Consensus       492 ~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l  571 (680)
                      ++.-++.. -..+|.-...++.|+.|.+.++. .+.+| ..++++++|+.|.+....-++ +           |..++.+
T Consensus       108 dltynnl~-e~~lpgnff~m~tlralyl~dnd-fe~lp-~dvg~lt~lqil~lrdndll~-l-----------pkeig~l  172 (264)
T KOG0617|consen  108 DLTYNNLN-ENSLPGNFFYMTTLRALYLGDND-FEILP-PDVGKLTNLQILSLRDNDLLS-L-----------PKEIGDL  172 (264)
T ss_pred             hccccccc-cccCCcchhHHHHHHHHHhcCCC-cccCC-hhhhhhcceeEEeeccCchhh-C-----------cHHHHHH
Confidence            88754432 12234333445566677776654 45555 367777788877777643332 2           1222567


Q ss_pred             CCccEEeeeCCCCCCCCC
Q 041114          572 CSLHKVTITFCPKLKGLT  589 (680)
Q Consensus       572 ~~L~~L~L~~c~~l~~l~  589 (680)
                      ..|+.|.+.++. ++.+|
T Consensus       173 t~lrelhiqgnr-l~vlp  189 (264)
T KOG0617|consen  173 TRLRELHIQGNR-LTVLP  189 (264)
T ss_pred             HHHHHHhcccce-eeecC
Confidence            777777777744 55554

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.97  E-value=5.5e-10  Score=128.81  Aligned_cols=239  Identities=23%  Similarity=0.253  Sum_probs=146.7

Q ss_pred             cccccccchhhhccCCcceEEEccCCCC-ccccchh-hhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--
Q 041114          402 HYEFKMITDGFFQFMPLLKVLNMSRETN-IKELLGE-LKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--  477 (680)
Q Consensus       402 ~~~l~~lp~~~~~~l~~Lr~LdL~~~~~-i~~lP~~-i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--  477 (680)
                      ++.+..++..  ...+.|+.|-+.+|.. +..++.. +..+++||+|||++|..+..+|.+ |+.|-+||+|+++++.  
T Consensus       532 ~~~~~~~~~~--~~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~-I~~Li~LryL~L~~t~I~  608 (889)
T KOG4658|consen  532 NNKIEHIAGS--SENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSS-IGELVHLRYLDLSDTGIS  608 (889)
T ss_pred             ccchhhccCC--CCCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChH-HhhhhhhhcccccCCCcc
Confidence            6666666664  3456899999998542 7777744 778999999999999999999998 9999999999999976  


Q ss_pred             -chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccC-CCCcccccccccCCCCCEEEEeccCCcceeec
Q 041114          478 -LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFK-DSKSIDVIALARLKHLSTLHFSKCEELEEWKT  555 (680)
Q Consensus       478 -~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~-~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~  555 (680)
                       .|..+++|+.|..|++...+  .+..++.....+.+|+.|.+.... .........+..+++|+.|.+..+.. . +..
T Consensus       609 ~LP~~l~~Lk~L~~Lnl~~~~--~l~~~~~i~~~L~~Lr~L~l~~s~~~~~~~~l~el~~Le~L~~ls~~~~s~-~-~~e  684 (889)
T KOG4658|consen  609 HLPSGLGNLKKLIYLNLEVTG--RLESIPGILLELQSLRVLRLPRSALSNDKLLLKELENLEHLENLSITISSV-L-LLE  684 (889)
T ss_pred             ccchHHHHHHhhheecccccc--ccccccchhhhcccccEEEeeccccccchhhHHhhhcccchhhheeecchh-H-hHh
Confidence             57888999999999987443  233334444546789999987654 22233334566777888777754433 1 101


Q ss_pred             ccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhc---CCCCC-CCcccccCcccc
Q 041114          556 DYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISA---GKFVH-TPEMMGNTMDPC  631 (680)
Q Consensus       556 ~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~---~~~~~-lp~L~~L~i~~C  631 (680)
                      +.....       .-.+..+.+.+.+|...+..+.++.+++|+.|.|.+|...+.....   ..... ||+|..+.+.+|
T Consensus       685 ~l~~~~-------~L~~~~~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~~~  757 (889)
T KOG4658|consen  685 DLLGMT-------RLRSLLQSLSIEGCSKRTLISSLGSLGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSILNC  757 (889)
T ss_pred             hhhhhH-------HHHHHhHhhhhcccccceeecccccccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhhcc
Confidence            111000       0011122333333443444445666777777777776654332211   00111 455666666666


Q ss_pred             ccCCCCCCC-CccccCcceEEecc
Q 041114          632 AKLRKLPLD-SNSALEHKIAIRGE  654 (680)
Q Consensus       632 ~~L~~lP~~-~~~~l~~L~i~~~~  654 (680)
                      ..++.+-.. +..+|+.|.+..|.
T Consensus       758 ~~~r~l~~~~f~~~L~~l~l~~~~  781 (889)
T KOG4658|consen  758 HMLRDLTWLLFAPHLTSLSLVSCR  781 (889)
T ss_pred             ccccccchhhccCcccEEEEeccc
Confidence            666654321 22235556665554

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=98.96  E-value=2.2e-09  Score=121.40  Aligned_cols=225  Identities=19%  Similarity=0.168  Sum_probs=135.8

Q ss_pred             EEecCCCcccccccccccceEEEEeecccccccccCC-CCccc---cccccccchhhhccCCcceEEEccCCCCccccch
Q 041114          360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAP-TCPHL---HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLG  435 (680)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~-~~~~L---~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~  435 (680)
                      +......+..+|..  .++++.|.+.+|.+..+|..+ .+..|   .+.+..+|..    +..|+.|++++| .+..+|.
T Consensus       227 L~L~~N~Lt~LP~l--p~~Lk~LdLs~N~LtsLP~lp~sL~~L~Ls~N~L~~Lp~l----p~~L~~L~Ls~N-~Lt~LP~  299 (788)
T PRK15387        227 LVIPDNNLTSLPAL--PPELRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPAL----PSGLCKLWIFGN-QLTSLPV  299 (788)
T ss_pred             EEccCCcCCCCCCC--CCCCcEEEecCCccCcccCcccccceeeccCCchhhhhhc----hhhcCEEECcCC-ccccccc
Confidence            34444555556532  468999999999998887542 22233   5667777753    356888999994 8888885


Q ss_pred             hhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCC-CCCceeEEEeccchhhhhhhhchhhhccc
Q 041114          436 ELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGL-KHLEELDFTLRCVHSLQILVSSNKLQSCT  514 (680)
Q Consensus       436 ~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L-~~L~~L~i~~~~~~~l~~l~~~~~l~~~L  514 (680)
                      .   +++|++|++++| .+..+|.. .   .+|+.|++++|. +..++.+ .+|+.|+++.+....   +|..   ..+|
T Consensus       300 ~---p~~L~~LdLS~N-~L~~Lp~l-p---~~L~~L~Ls~N~-L~~LP~lp~~Lq~LdLS~N~Ls~---LP~l---p~~L  364 (788)
T PRK15387        300 L---PPGLQELSVSDN-QLASLPAL-P---SELCKLWAYNNQ-LTSLPTLPSGLQELSVSDNQLAS---LPTL---PSEL  364 (788)
T ss_pred             c---ccccceeECCCC-ccccCCCC-c---ccccccccccCc-cccccccccccceEecCCCccCC---CCCC---Cccc
Confidence            3   467899999998 78888762 3   346667777654 2334333 367777776544333   3322   2366


Q ss_pred             cEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCCCcCCC
Q 041114          515 RALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFA  594 (680)
Q Consensus       515 ~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l  594 (680)
                      ..|.++++. +..+|.  +  ..+|+.|+++++ .+..++.              .+++|+.|+++++. +..+|.  .+
T Consensus       365 ~~L~Ls~N~-L~~LP~--l--~~~L~~LdLs~N-~Lt~LP~--------------l~s~L~~LdLS~N~-LssIP~--l~  421 (788)
T PRK15387        365 YKLWAYNNR-LTSLPA--L--PSGLKELIVSGN-RLTSLPV--------------LPSELKELMVSGNR-LTSLPM--LP  421 (788)
T ss_pred             ceehhhccc-cccCcc--c--ccccceEEecCC-cccCCCC--------------cccCCCEEEccCCc-CCCCCc--ch
Confidence            677776654 444431  1  246777777653 3443221              12467777777754 455553  23


Q ss_pred             CCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccc
Q 041114          595 PNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCA  632 (680)
Q Consensus       595 ~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~  632 (680)
                      .+|+.|++++ +.+..+|..  ++.+++|+.|++++++
T Consensus       422 ~~L~~L~Ls~-NqLt~LP~s--l~~L~~L~~LdLs~N~  456 (788)
T PRK15387        422 SGLLSLSVYR-NQLTRLPES--LIHLSSETTVNLEGNP  456 (788)
T ss_pred             hhhhhhhhcc-CcccccChH--HhhccCCCeEECCCCC
Confidence            4666677766 445666543  2556677766666654

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

Probab=98.77  E-value=2.3e-09  Score=118.12  Aligned_cols=104  Identities=22%  Similarity=0.288  Sum_probs=70.6

Q ss_pred             cceEEEEeecccccccccC-CCCccc------cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEecc
Q 041114          377 ETVRRLSLMQNQIKILSEA-PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLE  449 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~-~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~  449 (680)
                      -++.+|.+++|.+...|.. ...++|      ++.+..+|.+ .+++++|++|.|.+ +.+..+|.++..+++|++|+++
T Consensus        45 v~L~~l~lsnn~~~~fp~~it~l~~L~~ln~s~n~i~~vp~s-~~~~~~l~~lnL~~-n~l~~lP~~~~~lknl~~LdlS  122 (1081)
T KOG0618|consen   45 VKLKSLDLSNNQISSFPIQITLLSHLRQLNLSRNYIRSVPSS-CSNMRNLQYLNLKN-NRLQSLPASISELKNLQYLDLS  122 (1081)
T ss_pred             eeeEEeeccccccccCCchhhhHHHHhhcccchhhHhhCchh-hhhhhcchhheecc-chhhcCchhHHhhhcccccccc
Confidence            3588888888888776544 222222      6666677755 67777777777777 4777777777777777777777


Q ss_pred             CCCCccccchhhhcCCCCCcEeeccCCcchhhhcC
Q 041114          450 WARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLG  484 (680)
Q Consensus       450 ~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~  484 (680)
                      +| ....+|. +|..++.+..+.++++..+..++.
T Consensus       123 ~N-~f~~~Pl-~i~~lt~~~~~~~s~N~~~~~lg~  155 (1081)
T KOG0618|consen  123 FN-HFGPIPL-VIEVLTAEEELAASNNEKIQRLGQ  155 (1081)
T ss_pred             hh-ccCCCch-hHHhhhHHHHHhhhcchhhhhhcc
Confidence            77 5777777 377777777777776643333333

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

Probab=98.60  E-value=1.1e-08  Score=102.72  Aligned_cols=114  Identities=18%  Similarity=0.257  Sum_probs=91.6

Q ss_pred             EEecCCCccccccc--ccccceEEEEeecccccccccC--CCCccc-------cccccccchhhhccCCcceEEEccCCC
Q 041114          360 LVCAGRGLKEAPEV--KEWETVRRLSLMQNQIKILSEA--PTCPHL-------HYEFKMITDGFFQFMPLLKVLNMSRET  428 (680)
Q Consensus       360 ~~~~~~~~~~~~~~--~~~~~~r~lsl~~~~~~~l~~~--~~~~~L-------~~~l~~lp~~~~~~l~~Lr~LdL~~~~  428 (680)
                      +..+..++..+|+.  ...+++|+|++++|.|+.+.+.  ...+++       ++.++.+|.+.|.++..|+.|.+.-| 
T Consensus        72 irLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrLllNan-  150 (498)
T KOG4237|consen   72 IRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQRLLLNAN-  150 (498)
T ss_pred             EEeccCCcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHHHHhcChh-
Confidence            34455667777753  4568999999999999987544  333333       58999999999999999999999984 


Q ss_pred             Cccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccC
Q 041114          429 NIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG  475 (680)
Q Consensus       429 ~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~  475 (680)
                      .+..++ ..+..|++|+.|.+..| .+..++.+++..+.+++++.+-.
T Consensus       151 ~i~Cir~~al~dL~~l~lLslyDn-~~q~i~~~tf~~l~~i~tlhlA~  197 (498)
T KOG4237|consen  151 HINCIRQDALRDLPSLSLLSLYDN-KIQSICKGTFQGLAAIKTLHLAQ  197 (498)
T ss_pred             hhcchhHHHHHHhhhcchhcccch-hhhhhccccccchhccchHhhhc
Confidence            787776 66889999999999999 79999987688899999887764

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

Probab=98.59  E-value=3.3e-08  Score=103.27  Aligned_cols=185  Identities=20%  Similarity=0.132  Sum_probs=95.8

Q ss_pred             hccCCcceEEEccCCCCccccchhhhccCC---CCEEeccCCCCcc-----ccchhhhcCC-CCCcEeeccCCcc-----
Q 041114          413 FQFMPLLKVLNMSRETNIKELLGELKALVN---LKCVNLEWARDLV-----TIPLEVISNF-SKLRVLRLFGTVL-----  478 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~---Lr~L~L~~~~~l~-----~lP~~~i~~L-~~L~~L~l~~~~~-----  478 (680)
                      +..+++|+.|++++|......+..+..+.+   |++|++++| .+.     .++.. +..+ .+|+.|++++|..     
T Consensus        77 l~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~-~~~~~~~~~l~~~-l~~~~~~L~~L~L~~n~l~~~~~  154 (319)
T cd00116          77 LTKGCGLQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNN-GLGDRGLRLLAKG-LKDLPPALEKLVLGRNRLEGASC  154 (319)
T ss_pred             HHhcCceeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCC-ccchHHHHHHHHH-HHhCCCCceEEEcCCCcCCchHH
Confidence            566778888888875322345555665555   888888877 454     23333 5566 7788888887752     


Q ss_pred             ---hhhhcCCCCCceeEEEeccchh--hhhhhhchhhhccccEEEEeccCCCCcccc----cccccCCCCCEEEEeccCC
Q 041114          479 ---AKELLGLKHLEELDFTLRCVHS--LQILVSSNKLQSCTRALVLIRFKDSKSIDV----IALARLKHLSTLHFSKCEE  549 (680)
Q Consensus       479 ---~~~l~~L~~L~~L~i~~~~~~~--l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~----~~l~~l~~L~~L~l~~~~~  549 (680)
                         ...+..+++|+.|++..++...  +..+.......++|+.|++++|. +.....    ..+..+++|+.|++++|. 
T Consensus       155 ~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~-i~~~~~~~l~~~~~~~~~L~~L~ls~n~-  232 (319)
T cd00116         155 EALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNG-LTDEGASALAETLASLKSLEVLNLGDNN-  232 (319)
T ss_pred             HHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCc-cChHHHHHHHHHhcccCCCCEEecCCCc-
Confidence               2234555667777766443331  11222111122467777777664 221111    134556677777777653 


Q ss_pred             cceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCC----CC-CCcCCCCCCCEEeEecCc
Q 041114          550 LEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLK----GL-TFLVFAPNLKCLSLFDCT  606 (680)
Q Consensus       550 l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~----~l-~~l~~l~~L~~L~l~~c~  606 (680)
                      +.......+..   ..+  ...+.|++|++++|....    .+ ..+..+++|++|+++++.
T Consensus       233 l~~~~~~~l~~---~~~--~~~~~L~~L~l~~n~i~~~~~~~l~~~~~~~~~L~~l~l~~N~  289 (319)
T cd00116         233 LTDAGAAALAS---ALL--SPNISLLTLSLSCNDITDDGAKDLAEVLAEKESLLELDLRGNK  289 (319)
T ss_pred             CchHHHHHHHH---HHh--ccCCCceEEEccCCCCCcHHHHHHHHHHhcCCCccEEECCCCC
Confidence            22111111100   000  113567777777764210    00 123345677777776643

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

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

Probab=98.55  E-value=3e-08  Score=103.53  Aligned_cols=205  Identities=18%  Similarity=0.093  Sum_probs=104.8

Q ss_pred             hccCCcceEEEccCCCCcc-------ccchhhhccCCCCEEeccCCCCcc-ccchhhhcCCCC---CcEeeccCCcch--
Q 041114          413 FQFMPLLKVLNMSRETNIK-------ELLGELKALVNLKCVNLEWARDLV-TIPLEVISNFSK---LRVLRLFGTVLA--  479 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~-------~lP~~i~~L~~Lr~L~L~~~~~l~-~lP~~~i~~L~~---L~~L~l~~~~~~--  479 (680)
                      +...+.|+.|+++++ .+.       .++..+..+++|++|++++| .+. ..+.. +..+.+   |++|++++|..-  
T Consensus        47 l~~~~~l~~l~l~~~-~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~-~~~~~~~~~-~~~l~~~~~L~~L~ls~~~~~~~  123 (319)
T cd00116          47 LRPQPSLKELCLSLN-ETGRIPRGLQSLLQGLTKGCGLQELDLSDN-ALGPDGCGV-LESLLRSSSLQELKLNNNGLGDR  123 (319)
T ss_pred             HhhCCCceEEecccc-ccCCcchHHHHHHHHHHhcCceeEEEccCC-CCChhHHHH-HHHHhccCcccEEEeeCCccchH
Confidence            556667777877774 333       23455667778888888877 444 33332 544444   888888776522  


Q ss_pred             ------hhhcCC-CCCceeEEEeccch--hhhhhhhchhhhccccEEEEeccCCCCcccc----cccccCCCCCEEEEec
Q 041114          480 ------KELLGL-KHLEELDFTLRCVH--SLQILVSSNKLQSCTRALVLIRFKDSKSIDV----IALARLKHLSTLHFSK  546 (680)
Q Consensus       480 ------~~l~~L-~~L~~L~i~~~~~~--~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~----~~l~~l~~L~~L~l~~  546 (680)
                            ..+..+ ++|+.|++..+...  ....+......+.+|+.|+++++. +.....    ..+..+++|+.|++++
T Consensus       124 ~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~-l~~~~~~~l~~~l~~~~~L~~L~L~~  202 (319)
T cd00116         124 GLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNG-IGDAGIRALAEGLKANCNLEVLDLNN  202 (319)
T ss_pred             HHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCC-CchHHHHHHHHHHHhCCCCCEEeccC
Confidence                  234455 67777777644433  122222222333467777777654 221110    1334456777777776


Q ss_pred             cCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCC--CCc-----CCCCCCCEEeEecCcch----hHhhhcC
Q 041114          547 CEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGL--TFL-----VFAPNLKCLSLFDCTAM----EEIISAG  615 (680)
Q Consensus       547 ~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l--~~l-----~~l~~L~~L~l~~c~~l----~~i~~~~  615 (680)
                      |.. .......+.      ..+..+++|++|++++|. +...  ..+     ...+.|++|++++|..-    ..+..  
T Consensus       203 n~i-~~~~~~~l~------~~~~~~~~L~~L~ls~n~-l~~~~~~~l~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~--  272 (319)
T cd00116         203 NGL-TDEGASALA------ETLASLKSLEVLNLGDNN-LTDAGAAALASALLSPNISLLTLSLSCNDITDDGAKDLAE--  272 (319)
T ss_pred             Ccc-ChHHHHHHH------HHhcccCCCCEEecCCCc-CchHHHHHHHHHHhccCCCceEEEccCCCCCcHHHHHHHH--
Confidence            532 211111100      011345677777777764 2221  111     12467777777776421    11111  


Q ss_pred             CCCCCCcccccCcccc
Q 041114          616 KFVHTPEMMGNTMDPC  631 (680)
Q Consensus       616 ~~~~lp~L~~L~i~~C  631 (680)
                      ....+++|+.++++++
T Consensus       273 ~~~~~~~L~~l~l~~N  288 (319)
T cd00116         273 VLAEKESLLELDLRGN  288 (319)
T ss_pred             HHhcCCCccEEECCCC
Confidence            1133456666666553

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).

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

Probab=98.44  E-value=6.6e-08  Score=98.46  Aligned_cols=204  Identities=22%  Similarity=0.185  Sum_probs=130.4

Q ss_pred             ccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCC--CCccccchhhhccCCCCEEeccCCCC
Q 041114          376 WETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRE--TNIKELLGELKALVNLKCVNLEWARD  453 (680)
Q Consensus       376 ~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~--~~i~~lP~~i~~L~~Lr~L~L~~~~~  453 (680)
                      .+++|.+++.+..+...+..               +....|+++|.||||+|  ++...+-+-+..|++|+.|+|+.| .
T Consensus       120 ~kkL~~IsLdn~~V~~~~~~---------------~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~N-r  183 (505)
T KOG3207|consen  120 LKKLREISLDNYRVEDAGIE---------------EYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSN-R  183 (505)
T ss_pred             HHhhhheeecCccccccchh---------------hhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccc-c
Confidence            46889999988777644210               23567999999999995  233344455779999999999998 5


Q ss_pred             ccccchh-hhcCCCCCcEeeccCCcc-----hhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCc
Q 041114          454 LVTIPLE-VISNFSKLRVLRLFGTVL-----AKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKS  527 (680)
Q Consensus       454 l~~lP~~-~i~~L~~L~~L~l~~~~~-----~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~  527 (680)
                      +...-.+ .-..+.+|+.|.++.|..     ..-+...+.|..|.+..+.  .+-.-......+..|+.|+|+++.....
T Consensus       184 l~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~--~~~~~~~~~~i~~~L~~LdLs~N~li~~  261 (505)
T KOG3207|consen  184 LSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANE--IILIKATSTKILQTLQELDLSNNNLIDF  261 (505)
T ss_pred             ccCCccccchhhhhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhccc--ccceecchhhhhhHHhhccccCCccccc
Confidence            5543222 123577899999998862     2233456777777776543  1111112223455788999998876555


Q ss_pred             ccccccccCCCCCEEEEeccCCccee-ecccCCCCccCCCCCCCCCCccEEeeeCCCC--CCCCCCcCCCCCCCEEeEe
Q 041114          528 IDVIALARLKHLSTLHFSKCEELEEW-KTDYTSGTVLKSPQPFVFCSLHKVTITFCPK--LKGLTFLVFAPNLKCLSLF  603 (680)
Q Consensus       528 ~~~~~l~~l~~L~~L~l~~~~~l~~l-~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~--l~~l~~l~~l~~L~~L~l~  603 (680)
                      -....++.++.|+.|+++.| ++.++ .++...     ......|++|++|++..++.  +..+..+..+++|+.|.+.
T Consensus       262 ~~~~~~~~l~~L~~Lnls~t-gi~si~~~d~~s-----~~kt~~f~kL~~L~i~~N~I~~w~sl~~l~~l~nlk~l~~~  334 (505)
T KOG3207|consen  262 DQGYKVGTLPGLNQLNLSST-GIASIAEPDVES-----LDKTHTFPKLEYLNISENNIRDWRSLNHLRTLENLKHLRIT  334 (505)
T ss_pred             ccccccccccchhhhhcccc-CcchhcCCCccc-----hhhhcccccceeeecccCccccccccchhhccchhhhhhcc
Confidence            54447788899999998875 33333 111100     00125789999999998764  4444445567777777654

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

Probab=98.44  E-value=1.6e-07  Score=87.25  Aligned_cols=96  Identities=27%  Similarity=0.349  Sum_probs=32.1

Q ss_pred             cceEEEEeecccccccccCCCCccccccccccchhhhc-cCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCcc
Q 041114          377 ETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQ-FMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLV  455 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~-~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~  455 (680)
                      .+.|.|++.++.+..+..                  ++ .+.+|++|||++ +.|++++ ++..|++|+.|++++| .|+
T Consensus        19 ~~~~~L~L~~n~I~~Ie~------------------L~~~l~~L~~L~Ls~-N~I~~l~-~l~~L~~L~~L~L~~N-~I~   77 (175)
T PF14580_consen   19 VKLRELNLRGNQISTIEN------------------LGATLDKLEVLDLSN-NQITKLE-GLPGLPRLKTLDLSNN-RIS   77 (175)
T ss_dssp             -----------------S--------------------TT-TT--EEE-TT-S--S--T-T----TT--EEE--SS----
T ss_pred             cccccccccccccccccc------------------hhhhhcCCCEEECCC-CCCcccc-CccChhhhhhcccCCC-CCC
Confidence            467888888888765421                  33 467888899998 4888875 6778888999999988 788


Q ss_pred             ccchhhh-cCCCCCcEeeccCCc-----chhhhcCCCCCceeEEE
Q 041114          456 TIPLEVI-SNFSKLRVLRLFGTV-----LAKELLGLKHLEELDFT  494 (680)
Q Consensus       456 ~lP~~~i-~~L~~L~~L~l~~~~-----~~~~l~~L~~L~~L~i~  494 (680)
                      +++.. + ..+++|++|+++++.     .+..+..+++|+.|++.
T Consensus        78 ~i~~~-l~~~lp~L~~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~  121 (175)
T PF14580_consen   78 SISEG-LDKNLPNLQELYLSNNKISDLNELEPLSSLPKLRVLSLE  121 (175)
T ss_dssp             S-CHH-HHHH-TT--EEE-TTS---SCCCCGGGGG-TT--EEE-T
T ss_pred             ccccc-hHHhCCcCCEEECcCCcCCChHHhHHHHcCCCcceeecc
Confidence            88765 4 468888888888764     23334444555555544

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

Probab=98.43  E-value=7.2e-08  Score=93.32  Aligned_cols=138  Identities=20%  Similarity=0.191  Sum_probs=103.1

Q ss_pred             hhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCC
Q 041114          481 ELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSG  560 (680)
Q Consensus       481 ~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~  560 (680)
                      .+..-+.|..++++.+   .+..+-.+.++.+.++.|+++.+. +....  ++..+++|+.|++++. .+.++ ..|-  
T Consensus       279 ~~dTWq~LtelDLS~N---~I~~iDESvKL~Pkir~L~lS~N~-i~~v~--nLa~L~~L~~LDLS~N-~Ls~~-~Gwh--  348 (490)
T KOG1259|consen  279 SADTWQELTELDLSGN---LITQIDESVKLAPKLRRLILSQNR-IRTVQ--NLAELPQLQLLDLSGN-LLAEC-VGWH--  348 (490)
T ss_pred             ecchHhhhhhcccccc---chhhhhhhhhhccceeEEeccccc-eeeeh--hhhhcccceEeecccc-hhHhh-hhhH--
Confidence            3444566777777744   455556667778899999999876 33333  6889999999999973 45433 3333  


Q ss_pred             CccCCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCC
Q 041114          561 TVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPL  639 (680)
Q Consensus       561 ~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~  639 (680)
                              ..+-|+++|.|.++ .+..+..++.+-+|..|++++ ++++++-.-...|++|+|+.+.+.+.| |..+|.
T Consensus       349 --------~KLGNIKtL~La~N-~iE~LSGL~KLYSLvnLDl~~-N~Ie~ldeV~~IG~LPCLE~l~L~~NP-l~~~vd  416 (490)
T KOG1259|consen  349 --------LKLGNIKTLKLAQN-KIETLSGLRKLYSLVNLDLSS-NQIEELDEVNHIGNLPCLETLRLTGNP-LAGSVD  416 (490)
T ss_pred             --------hhhcCEeeeehhhh-hHhhhhhhHhhhhheeccccc-cchhhHHHhcccccccHHHHHhhcCCC-ccccch
Confidence                    46789999999984 478888899999999999998 667777555566999999999988877 555553

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

Probab=98.40  E-value=2.2e-08  Score=96.89  Aligned_cols=177  Identities=24%  Similarity=0.266  Sum_probs=121.6

Q ss_pred             CcceEEEccCCCCcc--ccchhhhccCCCCEEeccCCCCccc-cchhhhcCCCCCcEeeccCCcchhh------hcCCCC
Q 041114          417 PLLKVLNMSRETNIK--ELLGELKALVNLKCVNLEWARDLVT-IPLEVISNFSKLRVLRLFGTVLAKE------LLGLKH  487 (680)
Q Consensus       417 ~~Lr~LdL~~~~~i~--~lP~~i~~L~~Lr~L~L~~~~~l~~-lP~~~i~~L~~L~~L~l~~~~~~~~------l~~L~~  487 (680)
                      ..|++||||. +.|+  .+..-+..+.+|+.|.|.+. .+.. +-.. |.+=.+|+.|++++|+++.+      +.+++.
T Consensus       185 sRlq~lDLS~-s~it~stl~~iLs~C~kLk~lSlEg~-~LdD~I~~~-iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~  261 (419)
T KOG2120|consen  185 SRLQHLDLSN-SVITVSTLHGILSQCSKLKNLSLEGL-RLDDPIVNT-IAKNSNLVRLNLSMCSGFTENALQLLLSSCSR  261 (419)
T ss_pred             hhhHHhhcch-hheeHHHHHHHHHHHHhhhhcccccc-ccCcHHHHH-HhccccceeeccccccccchhHHHHHHHhhhh
Confidence            3588999998 6775  45555678888999999988 4543 3333 77778999999999986654      467888


Q ss_pred             CceeEEEeccchhhhhhhhchhhhccccEEEEeccCC-CCccccccc-ccCCCCCEEEEeccCCcceeecccCCCCccCC
Q 041114          488 LEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKD-SKSIDVIAL-ARLKHLSTLHFSKCEELEEWKTDYTSGTVLKS  565 (680)
Q Consensus       488 L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~-~~~~~~~~l-~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~  565 (680)
                      |..|++++++...-.--........+|..|+++++.. +....++.+ ..+++|.+|++++|..++.-....+       
T Consensus       262 L~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~-------  334 (419)
T KOG2120|consen  262 LDELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEF-------  334 (419)
T ss_pred             HhhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccCchHHHHH-------
Confidence            8888888776543221111223345788999998853 222222222 4688999999999888774222222       


Q ss_pred             CCCCCCCCccEEeeeCCCCCCC--CCCcCCCCCCCEEeEecCc
Q 041114          566 PQPFVFCSLHKVTITFCPKLKG--LTFLVFAPNLKCLSLFDCT  606 (680)
Q Consensus       566 ~~~~~l~~L~~L~L~~c~~l~~--l~~l~~l~~L~~L~l~~c~  606 (680)
                         ..|+.|++|.++.|..+.-  +-.+...|+|.+|++.+|-
T Consensus       335 ---~kf~~L~~lSlsRCY~i~p~~~~~l~s~psl~yLdv~g~v  374 (419)
T KOG2120|consen  335 ---FKFNYLQHLSLSRCYDIIPETLLELNSKPSLVYLDVFGCV  374 (419)
T ss_pred             ---HhcchheeeehhhhcCCChHHeeeeccCcceEEEEecccc
Confidence               5789999999999985421  1135778999999999873

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

Probab=98.40  E-value=2.8e-08  Score=104.12  Aligned_cols=185  Identities=19%  Similarity=0.179  Sum_probs=129.0

Q ss_pred             ceEEEEeecccccccccC-CCCccc------cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccC
Q 041114          378 TVRRLSLMQNQIKILSEA-PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEW  450 (680)
Q Consensus       378 ~~r~lsl~~~~~~~l~~~-~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~  450 (680)
                      ......++.|.+.++|.. ..|..|      .+.+..+|.. +..+..|.+|||+. +.+..+|..++.|+ |+.|-+++
T Consensus        76 dt~~aDlsrNR~~elp~~~~~f~~Le~liLy~n~~r~ip~~-i~~L~~lt~l~ls~-NqlS~lp~~lC~lp-Lkvli~sN  152 (722)
T KOG0532|consen   76 DTVFADLSRNRFSELPEEACAFVSLESLILYHNCIRTIPEA-ICNLEALTFLDLSS-NQLSHLPDGLCDLP-LKVLIVSN  152 (722)
T ss_pred             chhhhhccccccccCchHHHHHHHHHHHHHHhccceecchh-hhhhhHHHHhhhcc-chhhcCChhhhcCc-ceeEEEec
Confidence            445556666777766654 222222      7778888887 78899999999999 59999999999988 99999999


Q ss_pred             CCCccccchhhhcCCCCCcEeeccCCc---chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCc
Q 041114          451 ARDLVTIPLEVISNFSKLRVLRLFGTV---LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKS  527 (680)
Q Consensus       451 ~~~l~~lP~~~i~~L~~L~~L~l~~~~---~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~  527 (680)
                      | +++.+|.+ |+.+..|..||++.|.   .+..+..|..|+.|.+.-+...   .++.-..- -.|..|++++++ +..
T Consensus       153 N-kl~~lp~~-ig~~~tl~~ld~s~nei~slpsql~~l~slr~l~vrRn~l~---~lp~El~~-LpLi~lDfScNk-is~  225 (722)
T KOG0532|consen  153 N-KLTSLPEE-IGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVRRNHLE---DLPEELCS-LPLIRLDFSCNK-ISY  225 (722)
T ss_pred             C-ccccCCcc-cccchhHHHhhhhhhhhhhchHHhhhHHHHHHHHHhhhhhh---hCCHHHhC-CceeeeecccCc-eee
Confidence            9 89999998 9988899999999886   5667777888887777644322   22211111 157788887655 677


Q ss_pred             ccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCC
Q 041114          528 IDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFC  582 (680)
Q Consensus       528 ~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c  582 (680)
                      +|. .+.+|++|++|.|.+++ +.+ ++..++..       +...=-++|+..-|
T Consensus       226 iPv-~fr~m~~Lq~l~LenNP-LqS-PPAqIC~k-------GkVHIFKyL~~qA~  270 (722)
T KOG0532|consen  226 LPV-DFRKMRHLQVLQLENNP-LQS-PPAQICEK-------GKVHIFKYLSTQAC  270 (722)
T ss_pred             cch-hhhhhhhheeeeeccCC-CCC-ChHHHHhc-------cceeeeeeecchhc
Confidence            776 78888888888887543 332 22222211       33444566777766

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

Probab=98.38  E-value=3.2e-08  Score=103.72  Aligned_cols=113  Identities=23%  Similarity=0.298  Sum_probs=50.2

Q ss_pred             cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc---c
Q 041114          402 HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV---L  478 (680)
Q Consensus       402 ~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~---~  478 (680)
                      .+.+..+|.. +.. --|++|-+++ ++++.+|+.|+-+.+|..||.+.| ++..+|.. ++.|.+|+.|+++.+.   .
T Consensus       130 ~NqlS~lp~~-lC~-lpLkvli~sN-Nkl~~lp~~ig~~~tl~~ld~s~n-ei~slpsq-l~~l~slr~l~vrRn~l~~l  204 (722)
T KOG0532|consen  130 SNQLSHLPDG-LCD-LPLKVLIVSN-NKLTSLPEEIGLLPTLAHLDVSKN-EIQSLPSQ-LGYLTSLRDLNVRRNHLEDL  204 (722)
T ss_pred             cchhhcCChh-hhc-CcceeEEEec-CccccCCcccccchhHHHhhhhhh-hhhhchHH-hhhHHHHHHHHHhhhhhhhC
Confidence            3444444444 221 2245555554 355555555554455555555555 45555554 5555555555554443   3


Q ss_pred             hhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccC
Q 041114          479 AKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFK  523 (680)
Q Consensus       479 ~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~  523 (680)
                      +.++..|+ |..|+++   +..+..+|-....++.|+.|-|.+++
T Consensus       205 p~El~~Lp-Li~lDfS---cNkis~iPv~fr~m~~Lq~l~LenNP  245 (722)
T KOG0532|consen  205 PEELCSLP-LIRLDFS---CNKISYLPVDFRKMRHLQVLQLENNP  245 (722)
T ss_pred             CHHHhCCc-eeeeecc---cCceeecchhhhhhhhheeeeeccCC
Confidence            33333222 3334443   22233333333334455555554444

>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=98.34  E-value=5.3e-07  Score=68.59  Aligned_cols=59  Identities=31%  Similarity=0.494  Sum_probs=52.9

Q ss_pred             CcceEEEccCCCCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc
Q 041114          417 PLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       417 ~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      ++|++|++++| .+..+| ..+..+++|++|++++| .++.+|++++..+++|++|++++|.
T Consensus         1 p~L~~L~l~~n-~l~~i~~~~f~~l~~L~~L~l~~N-~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSNN-KLTEIPPDSFSNLPNLETLDLSNN-NLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSS-TESEECTTTTTTGTTESEEEETSS-SESEEETTTTTTSTTESEEEETSSS
T ss_pred             CcCcEEECCCC-CCCccCHHHHcCCCCCCEeEccCC-ccCccCHHHHcCCCCCCEEeCcCCc
Confidence            47899999995 999999 56889999999999999 7999998878999999999999874

...

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

Probab=98.33  E-value=1.8e-07  Score=95.31  Aligned_cols=199  Identities=13%  Similarity=0.071  Sum_probs=124.6

Q ss_pred             ccCCcceEEEccCCCCccccch--hhhccCCCCEEeccCCCCccccch--hhhcCCCCCcEeeccCCcchhhh-----cC
Q 041114          414 QFMPLLKVLNMSRETNIKELLG--ELKALVNLKCVNLEWARDLVTIPL--EVISNFSKLRVLRLFGTVLAKEL-----LG  484 (680)
Q Consensus       414 ~~l~~Lr~LdL~~~~~i~~lP~--~i~~L~~Lr~L~L~~~~~l~~lP~--~~i~~L~~L~~L~l~~~~~~~~l-----~~  484 (680)
                      +++++||...|.+ +.+...+.  -...|++++.|||++| -+...-+  +.+..|++|+.|+++.+...--.     ..
T Consensus       118 sn~kkL~~IsLdn-~~V~~~~~~~~~k~~~~v~~LdLS~N-L~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~  195 (505)
T KOG3207|consen  118 SNLKKLREISLDN-YRVEDAGIEEYSKILPNVRDLDLSRN-LFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLL  195 (505)
T ss_pred             hhHHhhhheeecC-ccccccchhhhhhhCCcceeecchhh-hHHhHHHHHHHHHhcccchhcccccccccCCccccchhh
Confidence            5688899999998 58877773  5778999999999998 4554322  13568999999999987522111     14


Q ss_pred             CCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccC
Q 041114          485 LKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLK  564 (680)
Q Consensus       485 L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~  564 (680)
                      +++|..|.+..++.+ -..+.......++|..|.+..+++.-... .+..-+..|++|+|++.+.+. ++.         
T Consensus       196 l~~lK~L~l~~CGls-~k~V~~~~~~fPsl~~L~L~~N~~~~~~~-~~~~i~~~L~~LdLs~N~li~-~~~---------  263 (505)
T KOG3207|consen  196 LSHLKQLVLNSCGLS-WKDVQWILLTFPSLEVLYLEANEIILIKA-TSTKILQTLQELDLSNNNLID-FDQ---------  263 (505)
T ss_pred             hhhhheEEeccCCCC-HHHHHHHHHhCCcHHHhhhhcccccceec-chhhhhhHHhhccccCCcccc-ccc---------
Confidence            677888888766655 33333333445688888888775322222 134456788888998765543 211         


Q ss_pred             CCCCCCCCCccEEeeeCCCC--CCCCCC-----cCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccC
Q 041114          565 SPQPFVFCSLHKVTITFCPK--LKGLTF-----LVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNT  627 (680)
Q Consensus       565 ~~~~~~l~~L~~L~L~~c~~--l~~l~~-----l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~  627 (680)
                      .+..+.|+.|..|+++.|..  +..++.     ...+|+|++|++.. +.+.++..-.....+++|+.|.
T Consensus       264 ~~~~~~l~~L~~Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~-N~I~~w~sl~~l~~l~nlk~l~  332 (505)
T KOG3207|consen  264 GYKVGTLPGLNQLNLSSTGIASIAEPDVESLDKTHTFPKLEYLNISE-NNIRDWRSLNHLRTLENLKHLR  332 (505)
T ss_pred             ccccccccchhhhhccccCcchhcCCCccchhhhcccccceeeeccc-Cccccccccchhhccchhhhhh
Confidence            12226788888888888652  222222     34689999999887 4444443322222345554443

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

Probab=98.22  E-value=4e-07  Score=88.30  Aligned_cols=128  Identities=21%  Similarity=0.219  Sum_probs=83.3

Q ss_pred             CCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCCCCCceeEEEe
Q 041114          416 MPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTL  495 (680)
Q Consensus       416 l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L~~L~~L~i~~  495 (680)
                      ...|..||||+ +.|+.+-+++.-++.+|.|++++| .+..+..  +..|++|+.||++++.                  
T Consensus       283 Wq~LtelDLS~-N~I~~iDESvKL~Pkir~L~lS~N-~i~~v~n--La~L~~L~~LDLS~N~------------------  340 (490)
T KOG1259|consen  283 WQELTELDLSG-NLITQIDESVKLAPKLRRLILSQN-RIRTVQN--LAELPQLQLLDLSGNL------------------  340 (490)
T ss_pred             Hhhhhhccccc-cchhhhhhhhhhccceeEEecccc-ceeeehh--hhhcccceEeecccch------------------
Confidence            46788899999 588888889888999999999998 6877765  7788888888888763                  


Q ss_pred             ccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCcc
Q 041114          496 RCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLH  575 (680)
Q Consensus       496 ~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~  575 (680)
                           +..+......+.|++.|.+..+. ++.+  +.+.++-+|..|++++. .++.+.  ..       -+++++|+|+
T Consensus       341 -----Ls~~~Gwh~KLGNIKtL~La~N~-iE~L--SGL~KLYSLvnLDl~~N-~Ie~ld--eV-------~~IG~LPCLE  402 (490)
T KOG1259|consen  341 -----LAECVGWHLKLGNIKTLKLAQNK-IETL--SGLRKLYSLVNLDLSSN-QIEELD--EV-------NHIGNLPCLE  402 (490)
T ss_pred             -----hHhhhhhHhhhcCEeeeehhhhh-Hhhh--hhhHhhhhheecccccc-chhhHH--Hh-------cccccccHHH
Confidence                 11111112223456666666543 3332  35666667777777653 333321  11       1126677777


Q ss_pred             EEeeeCCC
Q 041114          576 KVTITFCP  583 (680)
Q Consensus       576 ~L~L~~c~  583 (680)
                      .|.|.+++
T Consensus       403 ~l~L~~NP  410 (490)
T KOG1259|consen  403 TLRLTGNP  410 (490)
T ss_pred             HHhhcCCC
Confidence            77777766

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

Probab=98.11  E-value=3.1e-06  Score=78.67  Aligned_cols=118  Identities=27%  Similarity=0.312  Sum_probs=47.2

Q ss_pred             ccEEEecCCCcccccccc-cccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccch
Q 041114          357 ENFLVCAGRGLKEAPEVK-EWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLG  435 (680)
Q Consensus       357 ~~~~~~~~~~~~~~~~~~-~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~  435 (680)
                      ..-+...+..+..+.... ...+++.|++++|.+..++.                  +..+++|++|++++ +.|.++++
T Consensus        21 ~~~L~L~~n~I~~Ie~L~~~l~~L~~L~Ls~N~I~~l~~------------------l~~L~~L~~L~L~~-N~I~~i~~   81 (175)
T PF14580_consen   21 LRELNLRGNQISTIENLGATLDKLEVLDLSNNQITKLEG------------------LPGLPRLKTLDLSN-NRISSISE   81 (175)
T ss_dssp             ---------------S--TT-TT--EEE-TTS--S--TT----------------------TT--EEE--S-S---S-CH
T ss_pred             cccccccccccccccchhhhhcCCCEEECCCCCCccccC------------------ccChhhhhhcccCC-CCCCcccc
Confidence            344555566666565444 35789999999999875522                  66789999999999 59999977


Q ss_pred             hhh-ccCCCCEEeccCCCCccccch-hhhcCCCCCcEeeccCCcch-------hhhcCCCCCceeEEE
Q 041114          436 ELK-ALVNLKCVNLEWARDLVTIPL-EVISNFSKLRVLRLFGTVLA-------KELLGLKHLEELDFT  494 (680)
Q Consensus       436 ~i~-~L~~Lr~L~L~~~~~l~~lP~-~~i~~L~~L~~L~l~~~~~~-------~~l~~L~~L~~L~i~  494 (680)
                      .+. .+++|+.|++++| .|..+.. ..++.+++|++|++.+|..-       .-+..+++|+.|+-.
T Consensus        82 ~l~~~lp~L~~L~L~~N-~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~~  148 (175)
T PF14580_consen   82 GLDKNLPNLQELYLSNN-KISDLNELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDGQ  148 (175)
T ss_dssp             HHHHH-TT--EEE-TTS----SCCCCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEETTE
T ss_pred             chHHhCCcCCEEECcCC-cCCChHHhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeCCE
Confidence            664 6999999999999 6876543 12678899999999987521       223456667666644

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

Probab=98.11  E-value=2.7e-06  Score=91.66  Aligned_cols=171  Identities=24%  Similarity=0.252  Sum_probs=105.0

Q ss_pred             ccCCcceEEEccCCCCccccchhhhccC-CCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc---chhhhcCCCCCc
Q 041114          414 QFMPLLKVLNMSRETNIKELLGELKALV-NLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV---LAKELLGLKHLE  489 (680)
Q Consensus       414 ~~l~~Lr~LdL~~~~~i~~lP~~i~~L~-~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~---~~~~l~~L~~L~  489 (680)
                      ..+..+..|++.+ ..+.++|..++.+. +|+.|+++++ .+..+|.. ++.+++|+.|+++.|.   .+.....+..|+
T Consensus       113 ~~~~~l~~L~l~~-n~i~~i~~~~~~~~~nL~~L~l~~N-~i~~l~~~-~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~  189 (394)
T COG4886         113 LELTNLTSLDLDN-NNITDIPPLIGLLKSNLKELDLSDN-KIESLPSP-LRNLPNLKNLDLSFNDLSDLPKLLSNLSNLN  189 (394)
T ss_pred             hcccceeEEecCC-cccccCccccccchhhccccccccc-chhhhhhh-hhccccccccccCCchhhhhhhhhhhhhhhh
Confidence            3456677777777 47777777777774 7777777777 67777654 7777777777777764   222222566666


Q ss_pred             eeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCC
Q 041114          490 ELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPF  569 (680)
Q Consensus       490 ~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~  569 (680)
                      .|+++.+.   +..++........|..|.+.++.......  .+..++++..|.+.+. .+..+ +...          +
T Consensus       190 ~L~ls~N~---i~~l~~~~~~~~~L~~l~~~~N~~~~~~~--~~~~~~~l~~l~l~~n-~~~~~-~~~~----------~  252 (394)
T COG4886         190 NLDLSGNK---ISDLPPEIELLSALEELDLSNNSIIELLS--SLSNLKNLSGLELSNN-KLEDL-PESI----------G  252 (394)
T ss_pred             heeccCCc---cccCchhhhhhhhhhhhhhcCCcceecch--hhhhcccccccccCCc-eeeec-cchh----------c
Confidence            66666333   33333333344457777777664222222  5566666666665432 22211 2222          4


Q ss_pred             CCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecC
Q 041114          570 VFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDC  605 (680)
Q Consensus       570 ~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c  605 (680)
                      .+++|+.|+++++. +..++.++.+.+|+.|++++.
T Consensus       253 ~l~~l~~L~~s~n~-i~~i~~~~~~~~l~~L~~s~n  287 (394)
T COG4886         253 NLSNLETLDLSNNQ-ISSISSLGSLTNLRELDLSGN  287 (394)
T ss_pred             cccccceecccccc-ccccccccccCccCEEeccCc
Confidence            56778888888754 566666778888888888773

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.06  E-value=1.6e-05  Score=83.03  Aligned_cols=161  Identities=15%  Similarity=0.146  Sum_probs=99.9

Q ss_pred             hccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCCCCCceeE
Q 041114          413 FQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELD  492 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L~~L~~L~  492 (680)
                      +..+++++.|++++| .++.+|.   -..+|+.|.+++|..++.+|.. +  ..+|++|++++|..+..++  .+|+.|.
T Consensus        48 ~~~~~~l~~L~Is~c-~L~sLP~---LP~sLtsL~Lsnc~nLtsLP~~-L--P~nLe~L~Ls~Cs~L~sLP--~sLe~L~  118 (426)
T PRK15386         48 IEEARASGRLYIKDC-DIESLPV---LPNELTEITIENCNNLTTLPGS-I--PEGLEKLTVCHCPEISGLP--ESVRSLE  118 (426)
T ss_pred             HHHhcCCCEEEeCCC-CCcccCC---CCCCCcEEEccCCCCcccCCch-h--hhhhhheEccCcccccccc--cccceEE
Confidence            345688999999996 8999982   2346999999999889999875 5  3689999999986555443  4577777


Q ss_pred             EEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccc--cCCCCCEEEEeccCCcceeecccCCCCccCCCCCCC
Q 041114          493 FTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALA--RLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFV  570 (680)
Q Consensus       493 i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~--~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~  570 (680)
                      +..+.+..+..+      .++|+.|.+.++......   .+.  -.++|+.|.+++|..+. + +.            .-
T Consensus       119 L~~n~~~~L~~L------PssLk~L~I~~~n~~~~~---~lp~~LPsSLk~L~Is~c~~i~-L-P~------------~L  175 (426)
T PRK15386        119 IKGSATDSIKNV------PNGLTSLSINSYNPENQA---RIDNLISPSLKTLSLTGCSNII-L-PE------------KL  175 (426)
T ss_pred             eCCCCCcccccC------cchHhheecccccccccc---ccccccCCcccEEEecCCCccc-C-cc------------cc
Confidence            654333333333      336777777543211111   111  12689999998877543 1 11            12


Q ss_pred             CCCccEEeeeCCCCCCC--CCCcCCC-CCCCEEeEecCcch
Q 041114          571 FCSLHKVTITFCPKLKG--LTFLVFA-PNLKCLSLFDCTAM  608 (680)
Q Consensus       571 l~~L~~L~L~~c~~l~~--l~~l~~l-~~L~~L~l~~c~~l  608 (680)
                      ..+|+.|.++.+. +..  ++ ...+ +++ .|.+.+|-.+
T Consensus       176 P~SLk~L~ls~n~-~~sLeI~-~~sLP~nl-~L~f~n~lkL  213 (426)
T PRK15386        176 PESLQSITLHIEQ-KTTWNIS-FEGFPDGL-DIDLQNSVLL  213 (426)
T ss_pred             cccCcEEEecccc-cccccCc-cccccccc-Eechhhhccc
Confidence            2688888887643 111  11 1122 455 7777776443

>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=98.04  E-value=7e-06  Score=57.32  Aligned_cols=41  Identities=32%  Similarity=0.379  Sum_probs=34.2

Q ss_pred             CcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccch
Q 041114          417 PLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPL  459 (680)
Q Consensus       417 ~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~  459 (680)
                      ++|++|++++ +.|+++|..+++|++|++|++++| .++++|.
T Consensus         1 ~~L~~L~l~~-N~i~~l~~~l~~l~~L~~L~l~~N-~i~~i~~   41 (44)
T PF12799_consen    1 KNLEELDLSN-NQITDLPPELSNLPNLETLNLSNN-PISDISP   41 (44)
T ss_dssp             TT-SEEEETS-SS-SSHGGHGTTCTTSSEEEETSS-CCSBEGG
T ss_pred             CcceEEEccC-CCCcccCchHhCCCCCCEEEecCC-CCCCCcC
Confidence            4789999999 599999988999999999999999 7888775

...

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

Probab=98.01  E-value=4.9e-07  Score=91.78  Aligned_cols=255  Identities=17%  Similarity=0.169  Sum_probs=135.4

Q ss_pred             ccCCcceEEEccCCCCccccc-h-hhhccCCCCEEeccCCCCccc--cchhhhcCCCCCcEeeccCCcch--hhhcC---
Q 041114          414 QFMPLLKVLNMSRETNIKELL-G-ELKALVNLKCVNLEWARDLVT--IPLEVISNFSKLRVLRLFGTVLA--KELLG---  484 (680)
Q Consensus       414 ~~l~~Lr~LdL~~~~~i~~lP-~-~i~~L~~Lr~L~L~~~~~l~~--lP~~~i~~L~~L~~L~l~~~~~~--~~l~~---  484 (680)
                      ..+++|++|+|..|.+++..- + -...+++|+||+++.|+.++.  +-. ......+|+.+-..||...  +.+..   
T Consensus       187 ~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~kL~~lNlSwc~qi~~~gv~~-~~rG~~~l~~~~~kGC~e~~le~l~~~~~  265 (483)
T KOG4341|consen  187 RYCRKLRHLNLHSCSSITDVSLKYLAEGCRKLKYLNLSWCPQISGNGVQA-LQRGCKELEKLSLKGCLELELEALLKAAA  265 (483)
T ss_pred             HhcchhhhhhhcccchhHHHHHHHHHHhhhhHHHhhhccCchhhcCcchH-HhccchhhhhhhhcccccccHHHHHHHhc
Confidence            345666666666665555432 2 233556666666666655543  111 1233444555555554311  11110   


Q ss_pred             -CCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCccccccc-ccCCCCCEEEEeccCCcceeecccCCCCc
Q 041114          485 -LKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIAL-ARLKHLSTLHFSKCEELEEWKTDYTSGTV  562 (680)
Q Consensus       485 -L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l-~~l~~L~~L~l~~~~~l~~l~~~~~~~~~  562 (680)
                       ...+..+++.-.+.-.-..+.........|+.|..+++.+.....+..+ .+..+|+.|.+++|..+.......+.   
T Consensus       266 ~~~~i~~lnl~~c~~lTD~~~~~i~~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~---  342 (483)
T KOG4341|consen  266 YCLEILKLNLQHCNQLTDEDLWLIACGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLG---  342 (483)
T ss_pred             cChHhhccchhhhccccchHHHHHhhhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhh---
Confidence             1111111111000001111222223345677777777776555444333 34578888888888776654444333   


Q ss_pred             cCCCCCCCCCCccEEeeeCCCCCCCCC---CcCCCCCCCEEeEecCcchhHh---hhcCCCCCCCcccccCccccccCCC
Q 041114          563 LKSPQPFVFCSLHKVTITFCPKLKGLT---FLVFAPNLKCLSLFDCTAMEEI---ISAGKFVHTPEMMGNTMDPCAKLRK  636 (680)
Q Consensus       563 l~~~~~~~l~~L~~L~L~~c~~l~~l~---~l~~l~~L~~L~l~~c~~l~~i---~~~~~~~~lp~L~~L~i~~C~~L~~  636 (680)
                            .+.+.|+.+++..|.......   .-.++|.|+.|.++.|..+.+-   ........+..|+.+.+.+||.+.+
T Consensus       343 ------rn~~~Le~l~~e~~~~~~d~tL~sls~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d  416 (483)
T KOG4341|consen  343 ------RNCPHLERLDLEECGLITDGTLASLSRNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITD  416 (483)
T ss_pred             ------cCChhhhhhcccccceehhhhHhhhccCCchhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchH
Confidence                  456778888888877554431   1246899999999988765544   0111123477888899999998765


Q ss_pred             CCCC---CccccCcceEEeccccccc---cCccC--chhhhccccCcccc
Q 041114          637 LPLD---SNSALEHKIAIRGEAGWWG---CLQWE--NEATQIAFLPCFKT  678 (680)
Q Consensus       637 lP~~---~~~~l~~L~i~~~~~~~~~---~l~w~--~~~~~~~~~~~~~~  678 (680)
                      --+.   ..++|+.+.+++|..-.-+   ++.=.  +..+.++|-|.-++
T Consensus       417 ~~Le~l~~c~~Leri~l~~~q~vtk~~i~~~~~~lp~i~v~a~~a~~t~p  466 (483)
T KOG4341|consen  417 ATLEHLSICRNLERIELIDCQDVTKEAISRFATHLPNIKVHAYFAPVTPP  466 (483)
T ss_pred             HHHHHHhhCcccceeeeechhhhhhhhhHHHHhhCccceehhhccCCCCc
Confidence            3221   1126888999999743333   33222  22444555555544

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

Probab=97.97  E-value=7.2e-06  Score=62.28  Aligned_cols=57  Identities=25%  Similarity=0.420  Sum_probs=48.8

Q ss_pred             ceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCC
Q 041114          378 TVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWA  451 (680)
Q Consensus       378 ~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~  451 (680)
                      +++.+.+.+|.+.                .+|++.|..+++|++|++++ +.+..+| ..+..+++|++|++++|
T Consensus         2 ~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    2 NLESLDLSNNKLT----------------EIPPDSFSNLPNLETLDLSN-NNLTSIPPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TESEEEETSSTES----------------EECTTTTTTGTTESEEEETS-SSESEEETTTTTTSTTESEEEETSS
T ss_pred             cCcEEECCCCCCC----------------ccCHHHHcCCCCCCEeEccC-CccCccCHHHHcCCCCCCEEeCcCC
Confidence            5677777777665                66777799999999999999 5999998 56899999999999998

...

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

Probab=97.96  E-value=8.3e-06  Score=87.89  Aligned_cols=175  Identities=27%  Similarity=0.314  Sum_probs=97.3

Q ss_pred             cceEEEEeecccccccccCCCCccccccccccchhhhccCC-cceEEEccCCCCccccchhhhccCCCCEEeccCCCCcc
Q 041114          377 ETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMP-LLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLV  455 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~-~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~  455 (680)
                      ..+..+.+.++.+.++                |+. ...+. +|+.|++++ +.+..+|..++.+++|+.|++++| .+.
T Consensus       116 ~~l~~L~l~~n~i~~i----------------~~~-~~~~~~nL~~L~l~~-N~i~~l~~~~~~l~~L~~L~l~~N-~l~  176 (394)
T COG4886         116 TNLTSLDLDNNNITDI----------------PPL-IGLLKSNLKELDLSD-NKIESLPSPLRNLPNLKNLDLSFN-DLS  176 (394)
T ss_pred             cceeEEecCCcccccC----------------ccc-cccchhhcccccccc-cchhhhhhhhhccccccccccCCc-hhh
Confidence            4566666666666554                332 23332 677777777 467777666777777777777777 577


Q ss_pred             ccchhhhcCCCCCcEeeccCCc---chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccc
Q 041114          456 TIPLEVISNFSKLRVLRLFGTV---LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIA  532 (680)
Q Consensus       456 ~lP~~~i~~L~~L~~L~l~~~~---~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~  532 (680)
                      .+|.. .+.+.+|+.|+++++.   .+..+..+.+|+.+.+..+.   ............++..|.+.+++ ....+ ..
T Consensus       177 ~l~~~-~~~~~~L~~L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~---~~~~~~~~~~~~~l~~l~l~~n~-~~~~~-~~  250 (394)
T COG4886         177 DLPKL-LSNLSNLNNLDLSGNKISDLPPEIELLSALEELDLSNNS---IIELLSSLSNLKNLSGLELSNNK-LEDLP-ES  250 (394)
T ss_pred             hhhhh-hhhhhhhhheeccCCccccCchhhhhhhhhhhhhhcCCc---ceecchhhhhcccccccccCCce-eeecc-ch
Confidence            77764 4467777777777654   22222334445555555331   11111111222244444444433 12212 36


Q ss_pred             cccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC
Q 041114          533 LARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT  589 (680)
Q Consensus       533 l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~  589 (680)
                      +..+++|+.|+++++ .+.+++.  +          +.+.+|+.|++++......+|
T Consensus       251 ~~~l~~l~~L~~s~n-~i~~i~~--~----------~~~~~l~~L~~s~n~~~~~~~  294 (394)
T COG4886         251 IGNLSNLETLDLSNN-QISSISS--L----------GSLTNLRELDLSGNSLSNALP  294 (394)
T ss_pred             hccccccceeccccc-ccccccc--c----------cccCccCEEeccCccccccch
Confidence            677777888888753 4443322  2          567888888888765444444

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

Probab=97.92  E-value=3.3e-07  Score=88.92  Aligned_cols=178  Identities=17%  Similarity=0.084  Sum_probs=95.3

Q ss_pred             CCCEEeccCCCCccc--cchhhhcCCCCCcEeeccCCc----chhhhcCCCCCceeEEEeccchhhhhhhhchhhhcccc
Q 041114          442 NLKCVNLEWARDLVT--IPLEVISNFSKLRVLRLFGTV----LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTR  515 (680)
Q Consensus       442 ~Lr~L~L~~~~~l~~--lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~  515 (680)
                      .|++|||+.+ .++.  +-. +++.+.+|+.|.+.|..    ....+..=.+|+.|+++..++-.-..+..+...++.|.
T Consensus       186 Rlq~lDLS~s-~it~stl~~-iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~  263 (419)
T KOG2120|consen  186 RLQHLDLSNS-VITVSTLHG-ILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLD  263 (419)
T ss_pred             hhHHhhcchh-heeHHHHHH-HHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHh
Confidence            4899999987 5653  222 35666777777777654    23344555666666666443332222333334455666


Q ss_pred             EEEEeccCCCCccccccccc-CCCCCEEEEeccCCccee-ecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCC--CCc
Q 041114          516 ALVLIRFKDSKSIDVIALAR-LKHLSTLHFSKCEELEEW-KTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGL--TFL  591 (680)
Q Consensus       516 ~L~l~~~~~~~~~~~~~l~~-l~~L~~L~l~~~~~l~~l-~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l--~~l  591 (680)
                      .|++++|......--..+.+ -++|..|+++||..--.. ...-+.         ...++|..|+|++|..++.-  ..+
T Consensus       264 ~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL~---------~rcp~l~~LDLSD~v~l~~~~~~~~  334 (419)
T KOG2120|consen  264 ELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTLV---------RRCPNLVHLDLSDSVMLKNDCFQEF  334 (419)
T ss_pred             hcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHHH---------HhCCceeeeccccccccCchHHHHH
Confidence            77777765332221111111 236666777665432100 000000         34577777777777766541  124


Q ss_pred             CCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCcccc
Q 041114          592 VFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPC  631 (680)
Q Consensus       592 ~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C  631 (680)
                      -+|+.|++|.++.|-.+..-... .++.+|+|..|++.+|
T Consensus       335 ~kf~~L~~lSlsRCY~i~p~~~~-~l~s~psl~yLdv~g~  373 (419)
T KOG2120|consen  335 FKFNYLQHLSLSRCYDIIPETLL-ELNSKPSLVYLDVFGC  373 (419)
T ss_pred             HhcchheeeehhhhcCCChHHee-eeccCcceEEEEeccc
Confidence            56777777777777643322111 2356777777776655

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

Probab=97.72  E-value=2.6e-06  Score=86.63  Aligned_cols=216  Identities=18%  Similarity=0.188  Sum_probs=121.3

Q ss_pred             hccCCcceEEEccCCCCccccc-hhh-hccCCCCEEeccCCCCccccchh-hhcCCCCCcEeeccCCcchhh------hc
Q 041114          413 FQFMPLLKVLNMSRETNIKELL-GEL-KALVNLKCVNLEWARDLVTIPLE-VISNFSKLRVLRLFGTVLAKE------LL  483 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~lP-~~i-~~L~~Lr~L~L~~~~~l~~lP~~-~i~~L~~L~~L~l~~~~~~~~------l~  483 (680)
                      -..++++..|++.+|..+++-- .++ ..+.+|++|++..|..++..--. ......+|++|++++|..+.+      ..
T Consensus       160 ~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~kL~~lNlSwc~qi~~~gv~~~~r  239 (483)
T KOG4341|consen  160 ASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRKLKYLNLSWCPQISGNGVQALQR  239 (483)
T ss_pred             hhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhhHHHhhhccCchhhcCcchHHhc
Confidence            4567777777777776665322 233 36677888888777666653321 234567777888877764443      12


Q ss_pred             CCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCccccccc-ccCCCCCEEEEeccCCcceeecccCCCCc
Q 041114          484 GLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIAL-ARLKHLSTLHFSKCEELEEWKTDYTSGTV  562 (680)
Q Consensus       484 ~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l-~~l~~L~~L~l~~~~~l~~l~~~~~~~~~  562 (680)
                      +...++.+.........++.+........-+.++++..|..+.....-.+ ..+..||.|..++|..+.......++   
T Consensus       240 G~~~l~~~~~kGC~e~~le~l~~~~~~~~~i~~lnl~~c~~lTD~~~~~i~~~c~~lq~l~~s~~t~~~d~~l~aLg---  316 (483)
T KOG4341|consen  240 GCKELEKLSLKGCLELELEALLKAAAYCLEILKLNLQHCNQLTDEDLWLIACGCHALQVLCYSSCTDITDEVLWALG---  316 (483)
T ss_pred             cchhhhhhhhcccccccHHHHHHHhccChHhhccchhhhccccchHHHHHhhhhhHhhhhcccCCCCCchHHHHHHh---
Confidence            23334444333222223333433333333455566666654443332111 23567777888777776655444443   


Q ss_pred             cCCCCCCCCCCccEEeeeCCCCCCCCCC--c-CCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCC
Q 041114          563 LKSPQPFVFCSLHKVTITFCPKLKGLTF--L-VFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKL  637 (680)
Q Consensus       563 l~~~~~~~l~~L~~L~L~~c~~l~~l~~--l-~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~l  637 (680)
                            ...++|+.|.+++|..+.+.-+  + .+.+.|+.|++.+|....+-.-.....+.|.|+.|.+++|......
T Consensus       317 ------~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~sls~~C~~lr~lslshce~itD~  388 (483)
T KOG4341|consen  317 ------QHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDGTLASLSRNCPRLRVLSLSHCELITDE  388 (483)
T ss_pred             ------cCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhhhHhhhccCCchhccCChhhhhhhhhh
Confidence                  3557788888888776655332  2 3577788888877765444322222345777777777777655443

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

Probab=97.68  E-value=5.5e-06  Score=89.58  Aligned_cols=115  Identities=23%  Similarity=0.302  Sum_probs=82.6

Q ss_pred             cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCC-CCCcEeeccCCc--c
Q 041114          402 HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNF-SKLRVLRLFGTV--L  478 (680)
Q Consensus       402 ~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L-~~L~~L~l~~~~--~  478 (680)
                      +|.+..+..+ +.-++.|+.|||++| .+.+.- .+..|++|++|||+.| .+..+|.  ++.- ..|+.|.+++|.  .
T Consensus       173 yN~L~~mD~S-Lqll~ale~LnLshN-k~~~v~-~Lr~l~~LkhLDlsyN-~L~~vp~--l~~~gc~L~~L~lrnN~l~t  246 (1096)
T KOG1859|consen  173 YNRLVLMDES-LQLLPALESLNLSHN-KFTKVD-NLRRLPKLKHLDLSYN-CLRHVPQ--LSMVGCKLQLLNLRNNALTT  246 (1096)
T ss_pred             hhhHHhHHHH-HHHHHHhhhhccchh-hhhhhH-HHHhcccccccccccc-hhccccc--cchhhhhheeeeecccHHHh
Confidence            4555555555 777899999999994 777764 8889999999999999 7999987  4332 249999999886  5


Q ss_pred             hhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccC
Q 041114          479 AKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFK  523 (680)
Q Consensus       479 ~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~  523 (680)
                      +..+.+|++|+.|+++.+-.....+|..+.. +..|+.|.|.+++
T Consensus       247 L~gie~LksL~~LDlsyNll~~hseL~pLws-Ls~L~~L~LeGNP  290 (1096)
T KOG1859|consen  247 LRGIENLKSLYGLDLSYNLLSEHSELEPLWS-LSSLIVLWLEGNP  290 (1096)
T ss_pred             hhhHHhhhhhhccchhHhhhhcchhhhHHHH-HHHHHHHhhcCCc
Confidence            6677788888888887543333333333322 2367777777765

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

Probab=97.58  E-value=3.6e-05  Score=87.18  Aligned_cols=129  Identities=17%  Similarity=0.172  Sum_probs=69.9

Q ss_pred             hccCCcceEEEccCCCCcc--ccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCC-----cchhhhcCC
Q 041114          413 FQFMPLLKVLNMSRETNIK--ELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGT-----VLAKELLGL  485 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~--~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~-----~~~~~l~~L  485 (680)
                      -..||.|+.|.+++ ..+.  ++-.-..++++|+.||+++| +++.+ .+ |++|+|||+|.+++-     ..+.++-+|
T Consensus       144 g~~LPsL~sL~i~~-~~~~~~dF~~lc~sFpNL~sLDIS~T-nI~nl-~G-IS~LknLq~L~mrnLe~e~~~~l~~LF~L  219 (699)
T KOG3665|consen  144 GTMLPSLRSLVISG-RQFDNDDFSQLCASFPNLRSLDISGT-NISNL-SG-ISRLKNLQVLSMRNLEFESYQDLIDLFNL  219 (699)
T ss_pred             hhhCcccceEEecC-ceecchhHHHHhhccCccceeecCCC-CccCc-HH-HhccccHHHHhccCCCCCchhhHHHHhcc
Confidence            34567777777776 3332  22233456777777777777 67777 33 777777777766642     345567777


Q ss_pred             CCCceeEEEeccchh----hhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEe
Q 041114          486 KHLEELDFTLRCVHS----LQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFS  545 (680)
Q Consensus       486 ~~L~~L~i~~~~~~~----l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~  545 (680)
                      ++|+.|+++......    +...-+....+++|+.|+.++..-....-...+...++|+....-
T Consensus       220 ~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi~~~~le~ll~sH~~L~~i~~~  283 (699)
T KOG3665|consen  220 KKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDINEEILEELLNSHPNLQQIAAL  283 (699)
T ss_pred             cCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcchhHHHHHHHHHhCccHhhhhhh
Confidence            777777776432221    222222223345666666665432222222233344555544443

>PLN03150 hypothetical protein; Provisional

Probab=97.57  E-value=0.0002  Score=81.43  Aligned_cols=62  Identities=23%  Similarity=0.453  Sum_probs=35.2

Q ss_pred             hccCCcceEEEccCCCCc-cccchhhhccCCCCEEeccCCCCcc-ccchhhhcCCCCCcEeeccCCc
Q 041114          413 FQFMPLLKVLNMSRETNI-KELLGELKALVNLKCVNLEWARDLV-TIPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i-~~lP~~i~~L~~Lr~L~L~~~~~l~-~lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      +..+++|+.|+|++| .+ ..+|..++.|++|++|+|++| .+. .+|.. +++|++|++|++++|.
T Consensus       438 i~~L~~L~~L~Ls~N-~l~g~iP~~~~~l~~L~~LdLs~N-~lsg~iP~~-l~~L~~L~~L~Ls~N~  501 (623)
T PLN03150        438 ISKLRHLQSINLSGN-SIRGNIPPSLGSITSLEVLDLSYN-SFNGSIPES-LGQLTSLRILNLNGNS  501 (623)
T ss_pred             HhCCCCCCEEECCCC-cccCcCChHHhCCCCCCEEECCCC-CCCCCCchH-HhcCCCCCEEECcCCc
Confidence            555666666666663 33 255555666666666666666 333 45554 5666666666665543

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.53  E-value=0.00016  Score=75.61  Aligned_cols=64  Identities=11%  Similarity=0.154  Sum_probs=43.3

Q ss_pred             hhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCccee
Q 041114          481 ELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEW  553 (680)
Q Consensus       481 ~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l  553 (680)
                      .+..++++..|++..+   .+..+|   .+..+|+.|.+.+|..+..+|. .+  .++|+.|.+++|..+..+
T Consensus        47 r~~~~~~l~~L~Is~c---~L~sLP---~LP~sLtsL~Lsnc~nLtsLP~-~L--P~nLe~L~Ls~Cs~L~sL  110 (426)
T PRK15386         47 QIEEARASGRLYIKDC---DIESLP---VLPNELTEITIENCNNLTTLPG-SI--PEGLEKLTVCHCPEISGL  110 (426)
T ss_pred             HHHHhcCCCEEEeCCC---CCcccC---CCCCCCcEEEccCCCCcccCCc-hh--hhhhhheEccCccccccc
Confidence            3455677888888743   344444   3445789999988888777663 33  358899999888766543

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

Probab=97.47  E-value=0.00012  Score=51.15  Aligned_cols=35  Identities=29%  Similarity=0.430  Sum_probs=30.6

Q ss_pred             CCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc
Q 041114          441 VNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       441 ~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      ++|++|++++| +++.+|+. +++|++|++|++++|.
T Consensus         1 ~~L~~L~l~~N-~i~~l~~~-l~~l~~L~~L~l~~N~   35 (44)
T PF12799_consen    1 KNLEELDLSNN-QITDLPPE-LSNLPNLETLNLSNNP   35 (44)
T ss_dssp             TT-SEEEETSS-S-SSHGGH-GTTCTTSSEEEETSSC
T ss_pred             CcceEEEccCC-CCcccCch-HhCCCCCCEEEecCCC
Confidence            57999999999 89999997 9999999999999984

...

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.34  E-value=0.00012  Score=71.53  Aligned_cols=175  Identities=15%  Similarity=0.140  Sum_probs=81.9

Q ss_pred             hccCCcceEEEccCC---CCccccchhhhccCCCCEEeccCCCCcc--ccchhhhcCCCCCcEeeccCCcc----h--hh
Q 041114          413 FQFMPLLKVLNMSRE---TNIKELLGELKALVNLKCVNLEWARDLV--TIPLEVISNFSKLRVLRLFGTVL----A--KE  481 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~---~~i~~lP~~i~~L~~Lr~L~L~~~~~l~--~lP~~~i~~L~~L~~L~l~~~~~----~--~~  481 (680)
                      +.+|++|++|+|+.|   +.|.++|   -.+++|+.|-|.++ .+.  .... .+..|+.++.|.++.++.    +  ..
T Consensus        93 le~lP~l~~LNls~N~L~s~I~~lp---~p~~nl~~lVLNgT-~L~w~~~~s-~l~~lP~vtelHmS~N~~rq~n~Dd~c  167 (418)
T KOG2982|consen   93 LEQLPALTTLNLSCNSLSSDIKSLP---LPLKNLRVLVLNGT-GLSWTQSTS-SLDDLPKVTELHMSDNSLRQLNLDDNC  167 (418)
T ss_pred             HhcCccceEeeccCCcCCCccccCc---ccccceEEEEEcCC-CCChhhhhh-hhhcchhhhhhhhccchhhhhcccccc
Confidence            456677777777764   2334444   34556666666665 332  1112 134455555555554320    0  00


Q ss_pred             hcCC-CCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCccee-ecccCC
Q 041114          482 LLGL-KHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEW-KTDYTS  559 (680)
Q Consensus       482 l~~L-~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l-~~~~~~  559 (680)
                      .... +.+.+++...+......+...+.+..+++..+-+..|+-...........++.+--|+++. +.+.++ ..+.+ 
T Consensus       168 ~e~~s~~v~tlh~~~c~~~~w~~~~~l~r~Fpnv~sv~v~e~PlK~~s~ek~se~~p~~~~LnL~~-~~idswasvD~L-  245 (418)
T KOG2982|consen  168 IEDWSTEVLTLHQLPCLEQLWLNKNKLSRIFPNVNSVFVCEGPLKTESSEKGSEPFPSLSCLNLGA-NNIDSWASVDAL-  245 (418)
T ss_pred             ccccchhhhhhhcCCcHHHHHHHHHhHHhhcccchheeeecCcccchhhcccCCCCCcchhhhhcc-cccccHHHHHHH-
Confidence            0000 0111111111111111122223344456666666655422222222455566666666654 233322 12222 


Q ss_pred             CCccCCCCCCCCCCccEEeeeCCCCCCCCCC-------cCCCCCCCEEeEe
Q 041114          560 GTVLKSPQPFVFCSLHKVTITFCPKLKGLTF-------LVFAPNLKCLSLF  603 (680)
Q Consensus       560 ~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~-------l~~l~~L~~L~l~  603 (680)
                               ..|+.|+-|.+++.|.+..+..       ++.+++++.|+=+
T Consensus       246 ---------n~f~~l~dlRv~~~Pl~d~l~~~err~llIaRL~~v~vLNGs  287 (418)
T KOG2982|consen  246 ---------NGFPQLVDLRVSENPLSDPLRGGERRFLLIARLTKVQVLNGS  287 (418)
T ss_pred             ---------cCCchhheeeccCCcccccccCCcceEEEEeeccceEEecCc
Confidence                     5678888888888775544432       4567887777533

>PLN03150 hypothetical protein; Provisional

Probab=97.31  E-value=0.00059  Score=77.56  Aligned_cols=76  Identities=20%  Similarity=0.313  Sum_probs=62.3

Q ss_pred             cceEEEccCCCCc-cccchhhhccCCCCEEeccCCCCcc-ccchhhhcCCCCCcEeeccCCc----chhhhcCCCCCcee
Q 041114          418 LLKVLNMSRETNI-KELLGELKALVNLKCVNLEWARDLV-TIPLEVISNFSKLRVLRLFGTV----LAKELLGLKHLEEL  491 (680)
Q Consensus       418 ~Lr~LdL~~~~~i-~~lP~~i~~L~~Lr~L~L~~~~~l~-~lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~~L~~L  491 (680)
                      .++.|+|++| .+ ..+|..+++|++|++|+|++| .+. .+|.. ++.|++|++|++++|.    .+..+.+|++|+.|
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  495 (623)
T PLN03150        419 FIDGLGLDNQ-GLRGFIPNDISKLRHLQSINLSGN-SIRGNIPPS-LGSITSLEVLDLSYNSFNGSIPESLGQLTSLRIL  495 (623)
T ss_pred             EEEEEECCCC-CccccCCHHHhCCCCCCEEECCCC-cccCcCChH-HhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEE
Confidence            4788999995 55 478999999999999999999 565 88987 9999999999999885    34566777777777


Q ss_pred             EEEec
Q 041114          492 DFTLR  496 (680)
Q Consensus       492 ~i~~~  496 (680)
                      ++..+
T Consensus       496 ~Ls~N  500 (623)
T PLN03150        496 NLNGN  500 (623)
T ss_pred             ECcCC
Confidence            77643

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

Probab=97.29  E-value=0.00018  Score=71.91  Aligned_cols=241  Identities=16%  Similarity=0.106  Sum_probs=131.0

Q ss_pred             cccccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCC---CCccccchh-------hhcc
Q 041114          371 PEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRE---TNIKELLGE-------LKAL  440 (680)
Q Consensus       371 ~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~---~~i~~lP~~-------i~~L  440 (680)
                      +.......+..|.+++|.+..-..           +.+. ..+.+.+.||.-++|.-   ....++|+.       +-..
T Consensus        24 ~~~~~~~s~~~l~lsgnt~G~EAa-----------~~i~-~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~   91 (382)
T KOG1909|consen   24 EELEPMDSLTKLDLSGNTFGTEAA-----------RAIA-KVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGC   91 (382)
T ss_pred             HHhcccCceEEEeccCCchhHHHH-----------HHHH-HHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcC
Confidence            344566788999999888743100           0111 12555667777777752   112234433       2345


Q ss_pred             CCCCEEeccCCCCccc-cch---hhhcCCCCCcEeeccCCcc-----------------hhhhcCCCCCceeEEEeccch
Q 041114          441 VNLKCVNLEWARDLVT-IPL---EVISNFSKLRVLRLFGTVL-----------------AKELLGLKHLEELDFTLRCVH  499 (680)
Q Consensus       441 ~~Lr~L~L~~~~~l~~-lP~---~~i~~L~~L~~L~l~~~~~-----------------~~~l~~L~~L~~L~i~~~~~~  499 (680)
                      ++|++||||.| -+.. -+.   +.|++.++|++|++.+|-.                 -...++-+.|+.+....+...
T Consensus        92 ~~L~~ldLSDN-A~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrle  170 (382)
T KOG1909|consen   92 PKLQKLDLSDN-AFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLE  170 (382)
T ss_pred             CceeEeecccc-ccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccc
Confidence            57888888877 3431 111   1366778888888877641                 111233456666666543322


Q ss_pred             h--hhhhhhchhhhccccEEEEeccCCCCc---ccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCc
Q 041114          500 S--LQILVSSNKLQSCTRALVLIRFKDSKS---IDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSL  574 (680)
Q Consensus       500 ~--l~~l~~~~~l~~~L~~L~l~~~~~~~~---~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L  574 (680)
                      +  ...+.......+.|+.+.+..+.-...   .-...+.++++|+.|+|.++.-... ....+.      ...+.+++|
T Consensus       171 n~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~e-gs~~La------kaL~s~~~L  243 (382)
T KOG1909|consen  171 NGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLE-GSVALA------KALSSWPHL  243 (382)
T ss_pred             cccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhH-HHHHHH------HHhcccchh
Confidence            1  112222223335677777766542111   1112677889999999976422111 111110      001456889


Q ss_pred             cEEeeeCCCCCCCCC-------CcCCCCCCCEEeEecCcchhHhh--hcCCCCCCCcccccCccccc
Q 041114          575 HKVTITFCPKLKGLT-------FLVFAPNLKCLSLFDCTAMEEII--SAGKFVHTPEMMGNTMDPCA  632 (680)
Q Consensus       575 ~~L~L~~c~~l~~l~-------~l~~l~~L~~L~l~~c~~l~~i~--~~~~~~~lp~L~~L~i~~C~  632 (680)
                      +.|++++|. ++.=-       .-...|+|+.|.+.+|..-.+-.  ........|.|+.|++.+|.
T Consensus       244 ~El~l~dcl-l~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~da~~~la~~~~ek~dL~kLnLngN~  309 (382)
T KOG1909|consen  244 RELNLGDCL-LENEGAIAFVDALKESAPSLEVLELAGNEITRDAALALAACMAEKPDLEKLNLNGNR  309 (382)
T ss_pred             eeecccccc-cccccHHHHHHHHhccCCCCceeccCcchhHHHHHHHHHHHHhcchhhHHhcCCccc
Confidence            999999986 22211       12348999999999875322211  11112458888888888876

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

Probab=97.27  E-value=0.00011  Score=79.63  Aligned_cols=105  Identities=26%  Similarity=0.304  Sum_probs=76.3

Q ss_pred             cccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCc
Q 041114          375 EWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDL  454 (680)
Q Consensus       375 ~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l  454 (680)
                      ...++..+.+.+|.+..+.                .. +..+.+|++|++++ +.|.++. ++..|+.|+.|++.+| .+
T Consensus        93 ~~~~l~~l~l~~n~i~~i~----------------~~-l~~~~~L~~L~ls~-N~I~~i~-~l~~l~~L~~L~l~~N-~i  152 (414)
T KOG0531|consen   93 KLKSLEALDLYDNKIEKIE----------------NL-LSSLVNLQVLDLSF-NKITKLE-GLSTLTLLKELNLSGN-LI  152 (414)
T ss_pred             cccceeeeeccccchhhcc----------------cc-hhhhhcchheeccc-ccccccc-chhhccchhhheeccC-cc
Confidence            3467788888888776542                21 45688899999999 5888885 6778888999999999 68


Q ss_pred             cccchhhhcCCCCCcEeeccCCc--chhh--hcCCCCCceeEEEeccchhh
Q 041114          455 VTIPLEVISNFSKLRVLRLFGTV--LAKE--LLGLKHLEELDFTLRCVHSL  501 (680)
Q Consensus       455 ~~lP~~~i~~L~~L~~L~l~~~~--~~~~--l~~L~~L~~L~i~~~~~~~l  501 (680)
                      ..++.  +..+.+|+.++++++.  .+..  +..+..|+.+.+..+....+
T Consensus       153 ~~~~~--~~~l~~L~~l~l~~n~i~~ie~~~~~~~~~l~~l~l~~n~i~~i  201 (414)
T KOG0531|consen  153 SDISG--LESLKSLKLLDLSYNRIVDIENDELSELISLEELDLGGNSIREI  201 (414)
T ss_pred             hhccC--CccchhhhcccCCcchhhhhhhhhhhhccchHHHhccCCchhcc
Confidence            88876  7778899999998875  3344  46677777777664443333

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

Probab=97.25  E-value=7.2e-05  Score=74.76  Aligned_cols=185  Identities=20%  Similarity=0.118  Sum_probs=120.5

Q ss_pred             hccCCcceEEEccCCCC----ccccchhhhccCCCCEEeccCCCCccccchhh-------------hcCCCCCcEeeccC
Q 041114          413 FQFMPLLKVLNMSRETN----IKELLGELKALVNLKCVNLEWARDLVTIPLEV-------------ISNFSKLRVLRLFG  475 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~----i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~-------------i~~L~~L~~L~l~~  475 (680)
                      +.++++|++||||.|.-    +..+-.-|..+..|++|.|.+| .+...-.+.             +++-..|+++...+
T Consensus        88 L~~~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~-Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~r  166 (382)
T KOG1909|consen   88 LLGCPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNC-GLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGR  166 (382)
T ss_pred             HhcCCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcC-CCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeec
Confidence            56778999999999722    2223344667899999999999 776432221             34557899998887


Q ss_pred             Cc--------chhhhcCCCCCceeEEEeccch--hhhhhhhchhhhccccEEEEeccCCCCcccc---cccccCCCCCEE
Q 041114          476 TV--------LAKELLGLKHLEELDFTLRCVH--SLQILVSSNKLQSCTRALVLIRFKDSKSIDV---IALARLKHLSTL  542 (680)
Q Consensus       476 ~~--------~~~~l~~L~~L~~L~i~~~~~~--~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~---~~l~~l~~L~~L  542 (680)
                      |.        .-..++..+.|+.+.+.-++..  ...-+......+++|+.|+|+++.-...-..   ..++.+++|++|
T Consensus       167 Nrlen~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El  246 (382)
T KOG1909|consen  167 NRLENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLREL  246 (382)
T ss_pred             cccccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheee
Confidence            65        2234566678888887754432  2223334445577999999998753222111   267788999999


Q ss_pred             EEeccCCccee---ecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCC-----CCcCCCCCCCEEeEecCcc
Q 041114          543 HFSKCEELEEW---KTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGL-----TFLVFAPNLKCLSLFDCTA  607 (680)
Q Consensus       543 ~l~~~~~l~~l---~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l-----~~l~~l~~L~~L~l~~c~~  607 (680)
                      ++++|.--..-   ..+.+.         ...++|+.|.+.+|..-..-     -+....|.|+.|.|++|..
T Consensus       247 ~l~dcll~~~Ga~a~~~al~---------~~~p~L~vl~l~gNeIt~da~~~la~~~~ek~dL~kLnLngN~l  310 (382)
T KOG1909|consen  247 NLGDCLLENEGAIAFVDALK---------ESAPSLEVLELAGNEITRDAALALAACMAEKPDLEKLNLNGNRL  310 (382)
T ss_pred             cccccccccccHHHHHHHHh---------ccCCCCceeccCcchhHHHHHHHHHHHHhcchhhHHhcCCcccc
Confidence            99988533211   111111         34789999999997632221     1245689999999998653

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

Probab=97.24  E-value=1.5e-05  Score=86.40  Aligned_cols=110  Identities=16%  Similarity=0.158  Sum_probs=72.9

Q ss_pred             ecCCCcccccccccccceEEEEeecccccccccCC---------CCccc--------cccccccchhhhccCCcceEEEc
Q 041114          362 CAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAP---------TCPHL--------HYEFKMITDGFFQFMPLLKVLNM  424 (680)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~---------~~~~L--------~~~l~~lp~~~~~~l~~Lr~LdL  424 (680)
                      ..+.+-.+.-+...++.+|+|-+.+.++....+..         -|.+-        ......+..++  -...|.+-+.
T Consensus        94 ~pa~~pt~pi~ifpF~sLr~LElrg~~L~~~~GL~~lr~qLe~LIC~~Sl~Al~~v~ascggd~~ns~--~Wn~L~~a~f  171 (1096)
T KOG1859|consen   94 SPARDPTEPISIFPFRSLRVLELRGCDLSTAKGLQELRHQLEKLICHNSLDALRHVFASCGGDISNSP--VWNKLATASF  171 (1096)
T ss_pred             cCCCCCCCCceeccccceeeEEecCcchhhhhhhHHHHHhhhhhhhhccHHHHHHHHHHhccccccch--hhhhHhhhhc
Confidence            34444444445677889999999999887643321         11111        11111122211  1245777788


Q ss_pred             cCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc
Q 041114          425 SRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       425 ~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      ++ +.+..+-+++.-|++|++|||++| ++.....  +..|.+|++||++.|.
T Consensus       172 sy-N~L~~mD~SLqll~ale~LnLshN-k~~~v~~--Lr~l~~LkhLDlsyN~  220 (1096)
T KOG1859|consen  172 SY-NRLVLMDESLQLLPALESLNLSHN-KFTKVDN--LRRLPKLKHLDLSYNC  220 (1096)
T ss_pred             ch-hhHHhHHHHHHHHHHhhhhccchh-hhhhhHH--HHhcccccccccccch
Confidence            88 588888888999999999999999 7887763  8889999999998763

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

Probab=97.19  E-value=7.6e-05  Score=80.77  Aligned_cols=105  Identities=21%  Similarity=0.246  Sum_probs=79.5

Q ss_pred             hccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCce
Q 041114          413 FQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEE  490 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~  490 (680)
                      +..+.+|.+|++.. +.|+.+...+..+++|++|++++| .|+.+..  +..|..|+.|++.+|.  .+..+..+..|+.
T Consensus        91 l~~~~~l~~l~l~~-n~i~~i~~~l~~~~~L~~L~ls~N-~I~~i~~--l~~l~~L~~L~l~~N~i~~~~~~~~l~~L~~  166 (414)
T KOG0531|consen   91 LSKLKSLEALDLYD-NKIEKIENLLSSLVNLQVLDLSFN-KITKLEG--LSTLTLLKELNLSGNLISDISGLESLKSLKL  166 (414)
T ss_pred             cccccceeeeeccc-cchhhcccchhhhhcchheecccc-ccccccc--hhhccchhhheeccCcchhccCCccchhhhc
Confidence            56789999999999 589888766899999999999999 7999987  8999999999999975  5666777788888


Q ss_pred             eEEEeccchhhhhhhhchhhhccccEEEEeccC
Q 041114          491 LDFTLRCVHSLQILVSSNKLQSCTRALVLIRFK  523 (680)
Q Consensus       491 L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~  523 (680)
                      +++..+....+...+  ...+.+++.+.+.++.
T Consensus       167 l~l~~n~i~~ie~~~--~~~~~~l~~l~l~~n~  197 (414)
T KOG0531|consen  167 LDLSYNRIVDIENDE--LSELISLEELDLGGNS  197 (414)
T ss_pred             ccCCcchhhhhhhhh--hhhccchHHHhccCCc
Confidence            887755555444410  1222355555555543

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.06  E-value=0.00028  Score=69.01  Aligned_cols=78  Identities=27%  Similarity=0.286  Sum_probs=48.3

Q ss_pred             ccCCcceEEEccCCCCccc---cchhhhccCCCCEEeccCCCCccccchhhh-cCCCCCcEeeccCCcchh-----hhcC
Q 041114          414 QFMPLLKVLNMSRETNIKE---LLGELKALVNLKCVNLEWARDLVTIPLEVI-SNFSKLRVLRLFGTVLAK-----ELLG  484 (680)
Q Consensus       414 ~~l~~Lr~LdL~~~~~i~~---lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i-~~L~~L~~L~l~~~~~~~-----~l~~  484 (680)
                      .....++-|||.+| .|..   +-.-+.+|++|++|+|+.| .+..--.+ . -.+.+|++|-+.|....+     -+..
T Consensus        68 ~~~~~v~elDL~~N-~iSdWseI~~ile~lP~l~~LNls~N-~L~s~I~~-lp~p~~nl~~lVLNgT~L~w~~~~s~l~~  144 (418)
T KOG2982|consen   68 SSVTDVKELDLTGN-LISDWSEIGAILEQLPALTTLNLSCN-SLSSDIKS-LPLPLKNLRVLVLNGTGLSWTQSTSSLDD  144 (418)
T ss_pred             HHhhhhhhhhcccc-hhccHHHHHHHHhcCccceEeeccCC-cCCCcccc-CcccccceEEEEEcCCCCChhhhhhhhhc
Confidence            45778899999994 5543   3333558999999999988 45421111 1 134688888888765332     2334


Q ss_pred             CCCCceeEEE
Q 041114          485 LKHLEELDFT  494 (680)
Q Consensus       485 L~~L~~L~i~  494 (680)
                      ++.++.|+++
T Consensus       145 lP~vtelHmS  154 (418)
T KOG2982|consen  145 LPKVTELHMS  154 (418)
T ss_pred             chhhhhhhhc
Confidence            4555555544

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

Probab=96.95  E-value=0.0003  Score=60.98  Aligned_cols=82  Identities=27%  Similarity=0.368  Sum_probs=67.7

Q ss_pred             cceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccc
Q 041114          377 ETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVT  456 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~  456 (680)
                      ..+..+++++|.+.                .+|+.|-.+++.++.|+|++ +.|.++|.++..++.||.|+++.| .+..
T Consensus        53 ~el~~i~ls~N~fk----------------~fp~kft~kf~t~t~lNl~~-neisdvPeE~Aam~aLr~lNl~~N-~l~~  114 (177)
T KOG4579|consen   53 YELTKISLSDNGFK----------------KFPKKFTIKFPTATTLNLAN-NEISDVPEELAAMPALRSLNLRFN-PLNA  114 (177)
T ss_pred             ceEEEEecccchhh----------------hCCHHHhhccchhhhhhcch-hhhhhchHHHhhhHHhhhcccccC-cccc
Confidence            35667788877665                66777777788899999999 599999999999999999999999 6888


Q ss_pred             cchhhhcCCCCCcEeeccCCc
Q 041114          457 IPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       457 lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      .|. +|-.|.+|-.|+..++.
T Consensus       115 ~p~-vi~~L~~l~~Lds~~na  134 (177)
T KOG4579|consen  115 EPR-VIAPLIKLDMLDSPENA  134 (177)
T ss_pred             chH-HHHHHHhHHHhcCCCCc
Confidence            888 48888888888887654

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

Probab=96.79  E-value=0.0011  Score=75.46  Aligned_cols=128  Identities=20%  Similarity=0.168  Sum_probs=82.1

Q ss_pred             CCcceEEEccCCCCccc-cchhhh-ccCCCCEEeccCCCCccc--cchhhhcCCCCCcEeeccCCc--chhhhcCCCCCc
Q 041114          416 MPLLKVLNMSRETNIKE-LLGELK-ALVNLKCVNLEWARDLVT--IPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLE  489 (680)
Q Consensus       416 l~~Lr~LdL~~~~~i~~-lP~~i~-~L~~Lr~L~L~~~~~l~~--lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~  489 (680)
                      -.+|+.||+++...+.. -|..+| .||+|+.|.+.+- .+..  +-. ...+++||..||++++.  .+.++++|++|+
T Consensus       121 r~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~-~~~~~dF~~-lc~sFpNL~sLDIS~TnI~nl~GIS~LknLq  198 (699)
T KOG3665|consen  121 RQNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGR-QFDNDDFSQ-LCASFPNLRSLDISGTNISNLSGISRLKNLQ  198 (699)
T ss_pred             HHhhhhcCccccchhhccHHHHHhhhCcccceEEecCc-eecchhHHH-HhhccCccceeecCCCCccCcHHHhccccHH
Confidence            46789999988544433 345666 6799999999885 2321  222 25678999999999875  667888888888


Q ss_pred             eeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCccc-----ccccccCCCCCEEEEec
Q 041114          490 ELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSID-----VIALARLKHLSTLHFSK  546 (680)
Q Consensus       490 ~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~-----~~~l~~l~~L~~L~l~~  546 (680)
                      .|.+..-.......+..+.. +++|+.|+++.........     ...-..+|+|+.|+.++
T Consensus       199 ~L~mrnLe~e~~~~l~~LF~-L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSg  259 (699)
T KOG3665|consen  199 VLSMRNLEFESYQDLIDLFN-LKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSG  259 (699)
T ss_pred             HHhccCCCCCchhhHHHHhc-ccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCC
Confidence            88776332222223333332 3488888888765433321     11334477888888876

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

Probab=95.88  E-value=0.0013  Score=72.65  Aligned_cols=117  Identities=25%  Similarity=0.231  Sum_probs=61.2

Q ss_pred             ccCCcceEEEccCCCCccc--cchhhhccCCCCEEeccCC-CCccccc---hhhhcCCCCCcEeeccCCcchhhhcCCCC
Q 041114          414 QFMPLLKVLNMSRETNIKE--LLGELKALVNLKCVNLEWA-RDLVTIP---LEVISNFSKLRVLRLFGTVLAKELLGLKH  487 (680)
Q Consensus       414 ~~l~~Lr~LdL~~~~~i~~--lP~~i~~L~~Lr~L~L~~~-~~l~~lP---~~~i~~L~~L~~L~l~~~~~~~~l~~L~~  487 (680)
                      ..+++|+.|.+.+|..+..  +-......++|+.|++++| ......|   ......+.+|+.|+++.|..+.       
T Consensus       185 ~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~is-------  257 (482)
T KOG1947|consen  185 SSCPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVT-------  257 (482)
T ss_pred             hhCchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccC-------
Confidence            3467777777777766665  3345567777888887762 2222222   1113344566666666554211       


Q ss_pred             CceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCccccc-ccccCCCCCEEEEeccCCc
Q 041114          488 LEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVI-ALARLKHLSTLHFSKCEEL  550 (680)
Q Consensus       488 L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~-~l~~l~~L~~L~l~~~~~l  550 (680)
                                ...+..   ....+++|+.|.+.+|..+....+. ....+++|++|++++|..+
T Consensus       258 ----------d~~l~~---l~~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~  308 (482)
T KOG1947|consen  258 ----------DIGLSA---LASRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGL  308 (482)
T ss_pred             ----------chhHHH---HHhhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccc
Confidence                      011111   1122446666666666543333222 2334666777777777665

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

Probab=95.66  E-value=0.0042  Score=68.71  Aligned_cols=83  Identities=23%  Similarity=0.128  Sum_probs=39.3

Q ss_pred             hccCCcceEEEccCC-CCccccc----hhhhccCCCCEEeccCCCCccccchhhhc-CCCCCcEeeccCCcch--hhh--
Q 041114          413 FQFMPLLKVLNMSRE-TNIKELL----GELKALVNLKCVNLEWARDLVTIPLEVIS-NFSKLRVLRLFGTVLA--KEL--  482 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~-~~i~~lP----~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~-~L~~L~~L~l~~~~~~--~~l--  482 (680)
                      ...+++|+.|++++| ..+...|    .....+.+|+.|++++|..+...--..+. .+.+|++|.+.+|..+  ..+  
T Consensus       210 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~gl~~  289 (482)
T KOG1947|consen  210 ALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALASRCPNLETLSLSNCSNLTDEGLVS  289 (482)
T ss_pred             HhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHHhhCCCcceEccCCCCccchhHHHH
Confidence            455666777777652 1211111    22334566667777766333332211122 2556666666555421  111  


Q ss_pred             --cCCCCCceeEEEe
Q 041114          483 --LGLKHLEELDFTL  495 (680)
Q Consensus       483 --~~L~~L~~L~i~~  495 (680)
                        ..+++|+.|++..
T Consensus       290 i~~~~~~L~~L~l~~  304 (482)
T KOG1947|consen  290 IAERCPSLRELDLSG  304 (482)
T ss_pred             HHHhcCcccEEeeec
Confidence              2345566666653

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.61  E-value=0.0011  Score=61.67  Aligned_cols=70  Identities=23%  Similarity=0.489  Sum_probs=51.4

Q ss_pred             ccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCC--CCCcCCCCCCCEEeEecCcchh
Q 041114          532 ALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKG--LTFLVFAPNLKCLSLFDCTAME  609 (680)
Q Consensus       532 ~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~--l~~l~~l~~L~~L~l~~c~~l~  609 (680)
                      .+..++.++.|.+.+|..+.+...+.+.         +-+++|+.|+|++|+.+++  +-++..+++|+.|.|.+.+.+.
T Consensus       120 ~L~~l~~i~~l~l~~ck~~dD~~L~~l~---------~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~l~~l~~v~  190 (221)
T KOG3864|consen  120 HLRDLRSIKSLSLANCKYFDDWCLERLG---------GLAPSLQDLDLSGCPRITDGGLACLLKLKNLRRLHLYDLPYVA  190 (221)
T ss_pred             HHhccchhhhheeccccchhhHHHHHhc---------ccccchheeeccCCCeechhHHHHHHHhhhhHHHHhcCchhhh
Confidence            5556677788888888777766666654         3468888888888887765  5567788888888888866544


Q ss_pred             H
Q 041114          610 E  610 (680)
Q Consensus       610 ~  610 (680)
                      .
T Consensus       191 ~  191 (221)
T KOG3864|consen  191 N  191 (221)
T ss_pred             c
Confidence            3

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

Probab=95.24  E-value=0.023  Score=53.07  Aligned_cols=80  Identities=26%  Similarity=0.360  Sum_probs=45.6

Q ss_pred             hccCCcceEEEccCCCCccccchhhhc-cCCCCEEeccCCCCccccch-hhhcCCCCCcEeeccCCc-------chhhhc
Q 041114          413 FQFMPLLKVLNMSRETNIKELLGELKA-LVNLKCVNLEWARDLVTIPL-EVISNFSKLRVLRLFGTV-------LAKELL  483 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~lP~~i~~-L~~Lr~L~L~~~~~l~~lP~-~~i~~L~~L~~L~l~~~~-------~~~~l~  483 (680)
                      |..++.|.+|.|++ +.|..+-..++. +++|..|.|.+| +|.++-+ .-+..++.|++|.+-++.       ..--+-
T Consensus        60 lp~l~rL~tLll~n-NrIt~I~p~L~~~~p~l~~L~LtnN-si~~l~dl~pLa~~p~L~~Ltll~Npv~~k~~YR~yvl~  137 (233)
T KOG1644|consen   60 LPHLPRLHTLLLNN-NRITRIDPDLDTFLPNLKTLILTNN-SIQELGDLDPLASCPKLEYLTLLGNPVEHKKNYRLYVLY  137 (233)
T ss_pred             CCCccccceEEecC-CcceeeccchhhhccccceEEecCc-chhhhhhcchhccCCccceeeecCCchhcccCceeEEEE
Confidence            55667777777777 467666655553 345777777776 4555432 003455666666666543       111234


Q ss_pred             CCCCCceeEEE
Q 041114          484 GLKHLEELDFT  494 (680)
Q Consensus       484 ~L~~L~~L~i~  494 (680)
                      .+++|+.|+..
T Consensus       138 klp~l~~LDF~  148 (233)
T KOG1644|consen  138 KLPSLRTLDFQ  148 (233)
T ss_pred             ecCcceEeehh
Confidence            45666666654

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

Probab=95.23  E-value=0.01  Score=34.46  Aligned_cols=21  Identities=38%  Similarity=0.585  Sum_probs=11.9

Q ss_pred             CCCEEeccCCCCccccchhhhcC
Q 041114          442 NLKCVNLEWARDLVTIPLEVISN  464 (680)
Q Consensus       442 ~Lr~L~L~~~~~l~~lP~~~i~~  464 (680)
                      +|++|+|++| +++.+|.+ +++
T Consensus         1 ~L~~Ldls~n-~l~~ip~~-~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGN-NLTSIPSS-FSN   21 (22)
T ss_dssp             TESEEEETSS-EESEEGTT-TTT
T ss_pred             CccEEECCCC-cCEeCChh-hcC
Confidence            3556666666 56666654 443

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

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

Probab=94.81  E-value=0.037  Score=51.70  Aligned_cols=57  Identities=16%  Similarity=0.303  Sum_probs=43.0

Q ss_pred             CcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcC-CCCCcEeeccCCc
Q 041114          417 PLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISN-FSKLRVLRLFGTV  477 (680)
Q Consensus       417 ~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~-L~~L~~L~l~~~~  477 (680)
                      ...-.+||+. +.+..++ .+..+..|.+|.|.+| .|..+.+. +.. +.+|++|.+.+++
T Consensus        42 d~~d~iDLtd-Ndl~~l~-~lp~l~rL~tLll~nN-rIt~I~p~-L~~~~p~l~~L~LtnNs   99 (233)
T KOG1644|consen   42 DQFDAIDLTD-NDLRKLD-NLPHLPRLHTLLLNNN-RITRIDPD-LDTFLPNLKTLILTNNS   99 (233)
T ss_pred             cccceecccc-cchhhcc-cCCCccccceEEecCC-cceeeccc-hhhhccccceEEecCcc
Confidence            4456788888 4776664 5567888999999988 78888876 544 5678888888765

>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots

Probab=94.60  E-value=0.1  Score=47.07  Aligned_cols=106  Identities=12%  Similarity=0.201  Sum_probs=78.4

Q ss_pred             eeecchhhhhhhhhhhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHH
Q 041114            6 QITCDDAFFNRCLDCFLGKAACTRNLQDNVAALAIELAKLIAAKNNLITRVLDAERQQLRRLDQVQVWLSRVEAVKTETD   85 (680)
Q Consensus         6 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~L~~~l~~l~a~~~~~~~~l~~ae~~~~~~~~~v~~Wl~~v~~~~~d~e   85 (680)
                      ++++. ++++.|...+.+.......++.-++.|..+++.|.-+       +++-+.-+..-+..-+.=++++.+...++.
T Consensus         8 gaalG-~~~~eLlk~v~~~~~k~~~fk~~l~~L~sTl~~i~P~-------i~eI~~~~~eld~~~~ee~e~L~~~L~~g~   79 (147)
T PF05659_consen    8 GAALG-AVFGELLKAVIDASKKSLSFKSILKRLESTLESIIPI-------IKEIDKLNVELDRPRQEEIERLKELLEKGK   79 (147)
T ss_pred             HHHHH-HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhH-------HHHHHHHhhhcCCchhHHHHHHHHHHHHHH
Confidence            34444 4489999999999999999999999999999999999       555555554434444778899999999999


Q ss_pred             HHHHHhHHHhcccCCCCccCCCchhhhhHHHHHHHHHHHHHHH
Q 041114           86 ELIRRSSKEIDKLCPRAYCSKSCKSSYKFRKQVAKKLRDVRTL  128 (680)
Q Consensus        86 d~ld~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~v~~~  128 (680)
                      ++++.|..-. +        -++...++..++|++.-+.+...
T Consensus        80 ~LV~k~sk~~-r--------~n~~kk~~y~~Ki~~le~~l~~f  113 (147)
T PF05659_consen   80 ELVEKCSKVR-R--------WNLYKKPRYARKIEELEESLRRF  113 (147)
T ss_pred             HHHHHhcccc-H--------HHHHhhHhHHHHHHHHHHHHHHH
Confidence            9999974311 1        14455677777777766655443

Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].

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

Probab=94.56  E-value=0.023  Score=55.24  Aligned_cols=63  Identities=27%  Similarity=0.327  Sum_probs=46.7

Q ss_pred             hccCCcceEEEccCC--CCccccchhhhccCCCCEEeccCCCCcc---ccchhhhcCCCCCcEeeccCCcc
Q 041114          413 FQFMPLLKVLNMSRE--TNIKELLGELKALVNLKCVNLEWARDLV---TIPLEVISNFSKLRVLRLFGTVL  478 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~--~~i~~lP~~i~~L~~Lr~L~L~~~~~l~---~lP~~~i~~L~~L~~L~l~~~~~  478 (680)
                      |..|++|+.|++|.|  .-...++-....+++|++|++++| +++   ++++  +.+|.+|..|+++.|+.
T Consensus        61 ~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~N-ki~~lstl~p--l~~l~nL~~Ldl~n~~~  128 (260)
T KOG2739|consen   61 FPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGN-KIKDLSTLRP--LKELENLKSLDLFNCSV  128 (260)
T ss_pred             CCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCC-ccccccccch--hhhhcchhhhhcccCCc
Confidence            446889999999986  333466666667799999999999 565   3444  56777888888888753

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

Probab=94.11  E-value=0.024  Score=32.88  Aligned_cols=22  Identities=23%  Similarity=0.395  Sum_probs=18.4

Q ss_pred             cceEEEccCCCCccccchhhhcc
Q 041114          418 LLKVLNMSRETNIKELLGELKAL  440 (680)
Q Consensus       418 ~Lr~LdL~~~~~i~~lP~~i~~L  440 (680)
                      +|++|||++| .++.+|+++++|
T Consensus         1 ~L~~Ldls~n-~l~~ip~~~~~l   22 (22)
T PF00560_consen    1 NLEYLDLSGN-NLTSIPSSFSNL   22 (22)
T ss_dssp             TESEEEETSS-EESEEGTTTTT-
T ss_pred             CccEEECCCC-cCEeCChhhcCC
Confidence            5899999996 999999887764

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 ....

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.80  E-value=0.016  Score=54.00  Aligned_cols=36  Identities=22%  Similarity=0.231  Sum_probs=18.3

Q ss_pred             hccccEEEEeccCCCCcccccccccCCCCCEEEEec
Q 041114          511 QSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSK  546 (680)
Q Consensus       511 ~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~  546 (680)
                      .++|+.|++++|..+++..+..+.++++|+.|.+.+
T Consensus       150 ~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~l~~  185 (221)
T KOG3864|consen  150 APSLQDLDLSGCPRITDGGLACLLKLKNLRRLHLYD  185 (221)
T ss_pred             ccchheeeccCCCeechhHHHHHHHhhhhHHHHhcC
Confidence            335555555555555544444555555555555544

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

Probab=93.79  E-value=0.038  Score=53.76  Aligned_cols=106  Identities=21%  Similarity=0.152  Sum_probs=56.4

Q ss_pred             cCCcceEEEccCCCCccccchhhhccCCCCEEeccCC--CCccccchhhhcCCCCCcEeeccCCc-----chhhhcCCCC
Q 041114          415 FMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWA--RDLVTIPLEVISNFSKLRVLRLFGTV-----LAKELLGLKH  487 (680)
Q Consensus       415 ~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~--~~l~~lP~~~i~~L~~L~~L~l~~~~-----~~~~l~~L~~  487 (680)
                      .+..|..|++.++ .+.++ ..+-.|++|++|+++.|  .-...++.- ..++.+|++|++++|.     .+..++.|.+
T Consensus        41 ~~~~le~ls~~n~-gltt~-~~~P~Lp~LkkL~lsdn~~~~~~~l~vl-~e~~P~l~~l~ls~Nki~~lstl~pl~~l~n  117 (260)
T KOG2739|consen   41 EFVELELLSVINV-GLTTL-TNFPKLPKLKKLELSDNYRRVSGGLEVL-AEKAPNLKVLNLSGNKIKDLSTLRPLKELEN  117 (260)
T ss_pred             cccchhhhhhhcc-ceeec-ccCCCcchhhhhcccCCcccccccceeh-hhhCCceeEEeecCCccccccccchhhhhcc
Confidence            3455555555552 33322 23337889999999988  333345543 5667999999999875     3334444555


Q ss_pred             CceeEEEeccchhhhhhh-hchhhhccccEEEEeccC
Q 041114          488 LEELDFTLRCVHSLQILV-SSNKLQSCTRALVLIRFK  523 (680)
Q Consensus       488 L~~L~i~~~~~~~l~~l~-~~~~l~~~L~~L~l~~~~  523 (680)
                      |..|++..+..+.+..-. ....++++|.+|+-..+.
T Consensus       118 L~~Ldl~n~~~~~l~dyre~vf~ll~~L~~LD~~dv~  154 (260)
T KOG2739|consen  118 LKSLDLFNCSVTNLDDYREKVFLLLPSLKYLDGCDVD  154 (260)
T ss_pred             hhhhhcccCCccccccHHHHHHHHhhhhccccccccC
Confidence            555555543333222111 112334455555444443

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

Probab=93.29  E-value=0.22  Score=43.76  Aligned_cols=65  Identities=20%  Similarity=0.242  Sum_probs=40.3

Q ss_pred             ccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccC
Q 041114          407 MITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG  475 (680)
Q Consensus       407 ~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~  475 (680)
                      .++...|.++.+|+.+.+..  .+..++ ..+..+.+|+.+.+.++  +..++...+..+.+|+.+.+..
T Consensus         2 ~i~~~~F~~~~~l~~i~~~~--~~~~I~~~~F~~~~~l~~i~~~~~--~~~i~~~~F~~~~~l~~i~~~~   67 (129)
T PF13306_consen    2 SIGNNAFYNCSNLESITFPN--TIKKIGENAFSNCTSLKSINFPNN--LTSIGDNAFSNCKSLESITFPN   67 (129)
T ss_dssp             EE-TTTTTT-TT--EEEETS--T--EE-TTTTTT-TT-SEEEESST--TSCE-TTTTTT-TT-EEEEETS
T ss_pred             EECHHHHhCCCCCCEEEECC--CeeEeChhhccccccccccccccc--ccccceeeeecccccccccccc
Confidence            45666788888999998875  577777 44777878999988774  7888887677877888888854

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

Probab=92.86  E-value=0.072  Score=28.65  Aligned_cols=16  Identities=31%  Similarity=0.623  Sum_probs=6.6

Q ss_pred             CCCEEeccCCCCccccc
Q 041114          442 NLKCVNLEWARDLVTIP  458 (680)
Q Consensus       442 ~Lr~L~L~~~~~l~~lP  458 (680)
                      +|+.|+|++| .++++|
T Consensus         2 ~L~~L~l~~n-~L~~lP   17 (17)
T PF13504_consen    2 NLRTLDLSNN-RLTSLP   17 (17)
T ss_dssp             T-SEEEETSS---SSE-
T ss_pred             ccCEEECCCC-CCCCCc
Confidence            4555555555 355544

...

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

Probab=92.77  E-value=0.027  Score=49.24  Aligned_cols=62  Identities=18%  Similarity=0.195  Sum_probs=50.7

Q ss_pred             hccCCcceEEEccCCCCccccchhhhcc-CCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc
Q 041114          413 FQFMPLLKVLNMSRETNIKELLGELKAL-VNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~lP~~i~~L-~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      +.+..+|...+|++ +.++++|+.+... +.+..|++.+| .+.++|.+ +..++.|+.|+++.+.
T Consensus        49 l~~~~el~~i~ls~-N~fk~fp~kft~kf~t~t~lNl~~n-eisdvPeE-~Aam~aLr~lNl~~N~  111 (177)
T KOG4579|consen   49 LSKGYELTKISLSD-NGFKKFPKKFTIKFPTATTLNLANN-EISDVPEE-LAAMPALRSLNLRFNP  111 (177)
T ss_pred             HhCCceEEEEeccc-chhhhCCHHHhhccchhhhhhcchh-hhhhchHH-HhhhHHhhhcccccCc
Confidence            45667788889998 5888899877754 47889999998 79999998 8888888888888765

>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=91.65  E-value=0.11  Score=27.86  Aligned_cols=17  Identities=29%  Similarity=0.565  Sum_probs=11.2

Q ss_pred             CcceEEEccCCCCccccc
Q 041114          417 PLLKVLNMSRETNIKELL  434 (680)
Q Consensus       417 ~~Lr~LdL~~~~~i~~lP  434 (680)
                      ++|++|+|++| .++++|
T Consensus         1 ~~L~~L~l~~n-~L~~lP   17 (17)
T PF13504_consen    1 PNLRTLDLSNN-RLTSLP   17 (17)
T ss_dssp             TT-SEEEETSS---SSE-
T ss_pred             CccCEEECCCC-CCCCCc
Confidence            47999999996 688887

...

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.26  E-value=0.024  Score=55.34  Aligned_cols=78  Identities=15%  Similarity=0.126  Sum_probs=60.2

Q ss_pred             cCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--chh---hhcCCCCCc
Q 041114          415 FMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--LAK---ELLGLKHLE  489 (680)
Q Consensus       415 ~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~~---~l~~L~~L~  489 (680)
                      .+.+.+.|+..+| .+..+ .-+.+++.|+.|.|+-| +|++|-+  +..+++|++|+++.|.  .+.   -|.+|++|+
T Consensus        17 dl~~vkKLNcwg~-~L~DI-sic~kMp~lEVLsLSvN-kIssL~p--l~rCtrLkElYLRkN~I~sldEL~YLknlpsLr   91 (388)
T KOG2123|consen   17 DLENVKKLNCWGC-GLDDI-SICEKMPLLEVLSLSVN-KISSLAP--LQRCTRLKELYLRKNCIESLDELEYLKNLPSLR   91 (388)
T ss_pred             HHHHhhhhcccCC-CccHH-HHHHhcccceeEEeecc-ccccchh--HHHHHHHHHHHHHhcccccHHHHHHHhcCchhh
Confidence            3567788899885 77766 34568999999999999 7999987  8999999999999775  333   456777777


Q ss_pred             eeEEEecc
Q 041114          490 ELDFTLRC  497 (680)
Q Consensus       490 ~L~i~~~~  497 (680)
                      .|.+.-+.
T Consensus        92 ~LWL~ENP   99 (388)
T KOG2123|consen   92 TLWLDENP   99 (388)
T ss_pred             hHhhccCC
Confidence            77776443

>smart00370 LRR Leucine-rich repeats, outliers

Probab=90.15  E-value=0.24  Score=29.84  Aligned_cols=20  Identities=30%  Similarity=0.446  Sum_probs=14.6

Q ss_pred             cCCCCEEeccCCCCccccchh
Q 041114          440 LVNLKCVNLEWARDLVTIPLE  460 (680)
Q Consensus       440 L~~Lr~L~L~~~~~l~~lP~~  460 (680)
                      |++|++|+|++| .++.+|.+
T Consensus         1 L~~L~~L~L~~N-~l~~lp~~   20 (26)
T smart00370        1 LPNLRELDLSNN-QLSSLPPG   20 (26)
T ss_pred             CCCCCEEECCCC-cCCcCCHH
Confidence            456777777777 67777776

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

Probab=90.15  E-value=0.24  Score=29.84  Aligned_cols=20  Identities=30%  Similarity=0.446  Sum_probs=14.6

Q ss_pred             cCCCCEEeccCCCCccccchh
Q 041114          440 LVNLKCVNLEWARDLVTIPLE  460 (680)
Q Consensus       440 L~~Lr~L~L~~~~~l~~lP~~  460 (680)
                      |++|++|+|++| .++.+|.+
T Consensus         1 L~~L~~L~L~~N-~l~~lp~~   20 (26)
T smart00369        1 LPNLRELDLSNN-QLSSLPPG   20 (26)
T ss_pred             CCCCCEEECCCC-cCCcCCHH
Confidence            456777777777 67777776

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

Probab=89.68  E-value=0.26  Score=48.27  Aligned_cols=242  Identities=15%  Similarity=0.080  Sum_probs=117.1

Q ss_pred             cccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCC--C-Cccccch-------hhhccCCCC
Q 041114          375 EWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRE--T-NIKELLG-------ELKALVNLK  444 (680)
Q Consensus       375 ~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~--~-~i~~lP~-------~i~~L~~Lr  444 (680)
                      ....+..+.+++|.+..-...           .+.. .+.+-++|++-+++.-  . ...++|+       .+-++++|+
T Consensus        28 ~~d~~~evdLSGNtigtEA~e-----------~l~~-~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~   95 (388)
T COG5238          28 MMDELVEVDLSGNTIGTEAME-----------ELCN-VIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQ   95 (388)
T ss_pred             hhcceeEEeccCCcccHHHHH-----------HHHH-HHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcce
Confidence            467888999999887532110           1111 1344566777666642  0 0112332       344667777


Q ss_pred             EEeccCCCCccccchh---hhcCCCCCcEeeccCCc-------chh----------hhcCCCCCceeEEEeccchhhh--
Q 041114          445 CVNLEWARDLVTIPLE---VISNFSKLRVLRLFGTV-------LAK----------ELLGLKHLEELDFTLRCVHSLQ--  502 (680)
Q Consensus       445 ~L~L~~~~~l~~lP~~---~i~~L~~L~~L~l~~~~-------~~~----------~l~~L~~L~~L~i~~~~~~~l~--  502 (680)
                      ..+|+.|..-.+.|+.   .|++-+.|.+|.+++|.       .++          ...+-+.|+...+.-+...+..  
T Consensus        96 ~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRlengs~~  175 (388)
T COG5238          96 KVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENGSKE  175 (388)
T ss_pred             eeeccccccCcccchHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhccCcHH
Confidence            7777777433333332   35666777777777653       111          1123345555555433222111  


Q ss_pred             hhhhchhhhccccEEEEeccCCCCcc-----cccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEE
Q 041114          503 ILVSSNKLQSCTRALVLIRFKDSKSI-----DVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKV  577 (680)
Q Consensus       503 ~l~~~~~l~~~L~~L~l~~~~~~~~~-----~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L  577 (680)
                      ........-.+|..+.+..+. ++.-     ..-.+..+.+|+.|++....-.. .....+.   .-.   ...+.|+.|
T Consensus       176 ~~a~~l~sh~~lk~vki~qNg-Irpegv~~L~~~gl~y~~~LevLDlqDNtft~-~gS~~La---~al---~~W~~lrEL  247 (388)
T COG5238         176 LSAALLESHENLKEVKIQQNG-IRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTL-EGSRYLA---DAL---CEWNLLREL  247 (388)
T ss_pred             HHHHHHHhhcCceeEEeeecC-cCcchhHHHHHHHHHHhCcceeeeccccchhh-hhHHHHH---HHh---cccchhhhc
Confidence            111111112367777776653 2221     11245567788888887632111 1110000   001   123568888


Q ss_pred             eeeCCCCCCC-C-CC-----cCCCCCCCEEeEecCcchhHhhhc-----CCCCCCCcccccCccccccCCCC
Q 041114          578 TITFCPKLKG-L-TF-----LVFAPNLKCLSLFDCTAMEEIISA-----GKFVHTPEMMGNTMDPCAKLRKL  637 (680)
Q Consensus       578 ~L~~c~~l~~-l-~~-----l~~l~~L~~L~l~~c~~l~~i~~~-----~~~~~lp~L~~L~i~~C~~L~~l  637 (680)
                      .+.+|-.-.. . ..     -...|+|..|...+...-..++..     ..-+++|-|..|.+.+ .+++++
T Consensus       248 ~lnDClls~~G~~~v~~~f~e~~~p~l~~L~~~Yne~~~~~i~~~~l~~~e~~~~p~L~~le~ng-Nr~~E~  318 (388)
T COG5238         248 RLNDCLLSNEGVKSVLRRFNEKFVPNLMPLPGDYNERRGGIILDISLNEFEQDAVPLLVDLERNG-NRIKEL  318 (388)
T ss_pred             cccchhhccccHHHHHHHhhhhcCCCccccccchhhhcCceeeeechhhhhhcccHHHHHHHHcc-CcchhH
Confidence            8888851110 0 00     124677777776664332222111     1115678887777665 334443

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.91  E-value=0.095  Score=51.37  Aligned_cols=79  Identities=28%  Similarity=0.357  Sum_probs=56.7

Q ss_pred             cceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccc
Q 041114          377 ETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVT  456 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~  456 (680)
                      .+++.|...++.+.++                  ++..+|+.|.||.||- +.|.+| +.+..+++|+.|.|+.| .|..
T Consensus        19 ~~vkKLNcwg~~L~DI------------------sic~kMp~lEVLsLSv-NkIssL-~pl~rCtrLkElYLRkN-~I~s   77 (388)
T KOG2123|consen   19 ENVKKLNCWGCGLDDI------------------SICEKMPLLEVLSLSV-NKISSL-APLQRCTRLKELYLRKN-CIES   77 (388)
T ss_pred             HHhhhhcccCCCccHH------------------HHHHhcccceeEEeec-cccccc-hhHHHHHHHHHHHHHhc-cccc
Confidence            4566666666666544                  2367889999999998 488877 46788888999999988 6777


Q ss_pred             cch-hhhcCCCCCcEeeccCC
Q 041114          457 IPL-EVISNFSKLRVLRLFGT  476 (680)
Q Consensus       457 lP~-~~i~~L~~L~~L~l~~~  476 (680)
                      +.+ ..+.+|++|++|-+..|
T Consensus        78 ldEL~YLknlpsLr~LWL~EN   98 (388)
T KOG2123|consen   78 LDELEYLKNLPSLRTLWLDEN   98 (388)
T ss_pred             HHHHHHHhcCchhhhHhhccC
Confidence            654 11467778888877653

>PF12061 DUF3542: Protein of unknown function (DUF3542); InterPro: IPR021929 R1 is a gene for resistance to late blight, the most destructive disease in potato cultivation worldwide

Probab=86.02  E-value=1.6  Score=43.57  Aligned_cols=71  Identities=10%  Similarity=0.070  Sum_probs=59.5

Q ss_pred             hhhhhhhhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHHHh
Q 041114           14 FNRCLDCFLGKAACTRNLQDNVAALAIELAKLIAAKNNLITRVLDAERQQLRRLDQVQVWLSRVEAVKTETDELIRRS   91 (680)
Q Consensus        14 ~~~l~~~~~~~~~~~~~~~~~~~~L~~~l~~l~a~~~~~~~~l~~ae~~~~~~~~~v~~Wl~~v~~~~~d~ed~ld~~   91 (680)
                      +.+|-....+....+-.++.+++-++.++++++.+...|      +|+...+++. .+....++...||++|-++|-+
T Consensus       302 L~NLkdfq~rysdSlaflKnQiqvIQ~elesLqpFLk~V------~ee~~nkh~~-~ed~a~~ii~kAyevEYVVDaC  372 (402)
T PF12061_consen  302 LKNLKDFQGRYSDSLAFLKNQIQVIQTELESLQPFLKHV------VEEPHNKHDT-NEDCATQIIRKAYEVEYVVDAC  372 (402)
T ss_pred             HhhHHHHhccccchHHHHHHHHHHHHHHHHHhhHHHHHH------Hhccchhhhh-hhhHHHHHHHHHhheeeeeehh
Confidence            778888888888889999999999999999999995543      3554555455 8899999999999999999884

The R1 gene belongs to the class of plant genes for pathogen resistance that have a leucine zipper motif, a putative nucleotide binding domain and a leucine-rich repeat domain []. Most proteins matching this entry are found associated with PF00931 from PFAM.

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

Probab=83.71  E-value=0.21  Score=47.70  Aligned_cols=67  Identities=16%  Similarity=0.087  Sum_probs=55.0

Q ss_pred             hccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhh
Q 041114          413 FQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKEL  482 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l  482 (680)
                      |+.+..|..||++. +.+..+|+..+.+..++.+++..| +.+.+|.+ .+++.++++++..++.....+
T Consensus        61 ~s~~t~~~rl~~sk-nq~~~~~~d~~q~~e~~~~~~~~n-~~~~~p~s-~~k~~~~k~~e~k~~~~~~~~  127 (326)
T KOG0473|consen   61 FSILTRLVRLDLSK-NQIKFLPKDAKQQRETVNAASHKN-NHSQQPKS-QKKEPHPKKNEQKKTEFFRKL  127 (326)
T ss_pred             hHHHHHHHHHhccH-hhHhhChhhHHHHHHHHHHHhhcc-chhhCCcc-ccccCCcchhhhccCcchHHH
Confidence            56677788888888 588889999999999999999888 78999997 899999999988877644433

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

Probab=83.60  E-value=2.3  Score=41.96  Aligned_cols=191  Identities=17%  Similarity=0.093  Sum_probs=108.5

Q ss_pred             hccCCcceEEEccCCCCccccchh----hhccCCCCEEeccCCCCccccchhhhc-------------CCCCCcEeeccC
Q 041114          413 FQFMPLLKVLNMSRETNIKELLGE----LKALVNLKCVNLEWARDLVTIPLEVIS-------------NFSKLRVLRLFG  475 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~lP~~----i~~L~~Lr~L~L~~~~~l~~lP~~~i~-------------~L~~L~~L~l~~  475 (680)
                      +-+|++|+..+||.|..-.+.|+.    |..-+.|.+|.+++| .+..+..+-|+             .-+.|++.....
T Consensus        88 Llkcp~l~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~Nn-GlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgr  166 (388)
T COG5238          88 LLKCPRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNN-GLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGR  166 (388)
T ss_pred             HhcCCcceeeeccccccCcccchHHHHHHhcCCCceeEEeecC-CCCccchhHHHHHHHHHHHHhhhccCCCceEEEecc
Confidence            678999999999997333445544    567788999999999 78765433232             345677777765


Q ss_pred             Ccc---hh-----hhcCCCCCceeEEEeccchh--hhhhhhc-hhhhccccEEEEeccCCCC----cccccccccCCCCC
Q 041114          476 TVL---AK-----ELLGLKHLEELDFTLRCVHS--LQILVSS-NKLQSCTRALVLIRFKDSK----SIDVIALARLKHLS  540 (680)
Q Consensus       476 ~~~---~~-----~l~~L~~L~~L~i~~~~~~~--l~~l~~~-~~l~~~L~~L~l~~~~~~~----~~~~~~l~~l~~L~  540 (680)
                      +..   ..     .+..-..|+.+.+.-++...  +..+... ...+.+|+.|+++.+.-..    .+. ..++..+.|+
T Consensus       167 NRlengs~~~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La-~al~~W~~lr  245 (388)
T COG5238         167 NRLENGSKELSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLA-DALCEWNLLR  245 (388)
T ss_pred             chhccCcHHHHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHH-HHhcccchhh
Confidence            541   11     22333577777776554331  1211111 1234589999998875211    111 1567788899


Q ss_pred             EEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCC------CCCC--cCCCCCCCEEeEecCcchhHh
Q 041114          541 TLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLK------GLTF--LVFAPNLKCLSLFDCTAMEEI  611 (680)
Q Consensus       541 ~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~------~l~~--l~~l~~L~~L~l~~c~~l~~i  611 (680)
                      +|.+..|--...-....+.     -..--.+++|..|....+..-.      .++.  -..+|-|..|.+.+ +.+++.
T Consensus       246 EL~lnDClls~~G~~~v~~-----~f~e~~~p~l~~L~~~Yne~~~~~i~~~~l~~~e~~~~p~L~~le~ng-Nr~~E~  318 (388)
T COG5238         246 ELRLNDCLLSNEGVKSVLR-----RFNEKFVPNLMPLPGDYNERRGGIILDISLNEFEQDAVPLLVDLERNG-NRIKEL  318 (388)
T ss_pred             hccccchhhccccHHHHHH-----HhhhhcCCCccccccchhhhcCceeeeechhhhhhcccHHHHHHHHcc-CcchhH
Confidence            9999887432210000000     0000245777777766643211      1222  24688888888876 444443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=80.88  E-value=10  Score=45.75  Aligned_cols=122  Identities=16%  Similarity=0.166  Sum_probs=78.5

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHhccCCCHHHHHHHHHHHhcCCCccccCC-hhhHHHHHHHh-HhcCCchhHHHHHHHh
Q 041114          201 ELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSEFAGL-VKEVYPLLKFS-YDSLQNDVIRSCFLYC  278 (680)
Q Consensus       201 ~~~~~I~~kc~GlPLai~~lg~~L~~k~~~~~W~~~l~~l~~~~~~~~~~~-~~~i~~~L~~S-y~~L~~~~lk~cfl~~  278 (680)
                      +....+.+.|+|.|+++..++..+.......  ......+        .+. ...+...+.-. ++.||+ ..+..++..
T Consensus       206 ~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~~--~~~~~~~--------~~~~~~~~~~~l~~~v~~~l~~-~~~~~l~~~  274 (903)
T PRK04841        206 AESSRLCDDVEGWATALQLIALSARQNNSSL--HDSARRL--------AGINASHLSDYLVEEVLDNVDL-ETRHFLLRC  274 (903)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCCch--hhhhHhh--------cCCCchhHHHHHHHHHHhcCCH-HHHHHHHHh
Confidence            4457899999999999999988875522100  1111111        110 12455554444 789999 899999999


Q ss_pred             cccCCCcccChHHHHHHHHHcCCcCCCChhhHHHHHHHHHHHHHHccccccc---CcccEEechhHHHHHHHHH
Q 041114          279 CLYPEDFAILKRDLIDCWIGEGFLDERDSFSAQNQGYYIVGTLVHAWLLEEV---GDDKVKLHGVLHDMALWIS  349 (680)
Q Consensus       279 s~Fp~~~~i~~~~Li~~Wiaeg~i~~~~~~~~~~~g~~~~~~L~~~~ll~~~---~~~~~~mhdl~~d~a~~i~  349 (680)
                      |+++   .++.+ +..     .+.+.       +.+...+++|...+++...   ....|+.|++++++.....
T Consensus       275 a~~~---~~~~~-l~~-----~l~~~-------~~~~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~r~~l~~~l  332 (903)
T PRK04841        275 SVLR---SMNDA-LIV-----RVTGE-------ENGQMRLEELERQGLFIQRMDDSGEWFRYHPLFASFLRHRC  332 (903)
T ss_pred             cccc---cCCHH-HHH-----HHcCC-------CcHHHHHHHHHHCCCeeEeecCCCCEEehhHHHHHHHHHHH
Confidence            9987   33422 222     11111       2345779999999997642   2347899999999998765

---

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	680
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	7e-24
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-21
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-16
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-14
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-09
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	4e-07
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-08
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-07
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-04
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	3e-08
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-08
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-06
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	5e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-07
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-07
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	7e-05
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	3e-07
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	5e-06
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-05
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	3e-07
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	8e-07
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	4e-07
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	8e-07
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-05
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	4e-04
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	5e-07
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	5e-07
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	5e-07
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	8e-07
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	5e-06
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	1e-06
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	4e-06
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	5e-06
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-04
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	5e-06
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	6e-06
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	4e-05
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	6e-06
1o6v_A	466	Internalin A; bacterial infection, extracellular r	6e-06
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-05
1o6v_A	466	Internalin A; bacterial infection, extracellular r	3e-04
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	6e-06
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	1e-05
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-05
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	9e-05
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-05
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-05
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	4e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	7e-05
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-05
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-04
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	3e-05
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	4e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-04
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	6e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	6e-05
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-04
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	2e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-04
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	6e-04

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

 Score =  105 bits (262), Expect = 7e-24
 Identities = 30/232 (12%), Positives = 66/232 (28%), Gaps = 19/232 (8%)

Query: 201 ELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSS----EFAGLVKEVY 256
           ++     +   G+P  L+   ++    K  E+       L                K + 
Sbjct: 317 DVLNKTIELSSGNPATLMMFFKSCE-PKTFEKMAQLNNKLESRGLVGVECITPYSYKSLA 375

Query: 257 PLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERDSFSAQNQGYY 316
             L+   + L ++  RS   +  + P    I  +        +   +E +     ++   
Sbjct: 376 MALQRCVEVLSDED-RSALAFAVVMPPGVDIPVKLWSCVIPVDICSNEEE--QLDDEVAD 432

Query: 317 IVGTLVHAWLLEEVGDDKV---KLHGVLHDMAL------WISCEIEEEKENFLVCAGRGL 367
            +  L     L       V   K+  ++H           I+  I   ++  L      +
Sbjct: 433 RLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQTIANGISILEQRLLEIGNNNV 492

Query: 368 KEAPE--VKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMP 417
                     ++  RR S  +   K   E    P    +F  +   F+  + 
Sbjct: 493 SVPERHIPSHFQKFRRSSASEMYPKTTEETVIRPEDFPKFMQLHQKFYDSLK 544

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

 Score = 98.0 bits (244), Expect = 2e-21
 Identities = 34/180 (18%), Positives = 63/180 (35%), Gaps = 32/180 (17%)

Query: 194 DSHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSEFAGL-- 251
               D+ E A ++ KEC GSPL +  IG  +     P  W Y ++ L+            
Sbjct: 301 MKKADLPEQAHSIIKECKGSPLVVSLIGALLR--DFPNRWEYYLKQLQNKQFKRIRKSSS 358

Query: 252 --VKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWI-----GEGFLDE 304
              + +   +  S + L+ D I+  +    +  +D  +  + L   W       E  L E
Sbjct: 359 YDYEALDEAMSISVEMLRED-IKDYYTDLSILQKDVKVPTKVLCILWDMETEEVEDILQE 417

Query: 305 RDSFSAQNQGYYIVGTLVHAWLLEEVGDDKV---KLHGVLHDMALWISC-EIEEEKENFL 360
                            V+  LL    + K     LH +  D     +C ++++  +  +
Sbjct: 418 ----------------FVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKNCSQLQDLHKKII 461

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

 Score = 82.2 bits (202), Expect = 3e-16
 Identities = 74/570 (12%), Positives = 142/570 (24%), Gaps = 204/570 (35%)

Query: 16  RCLDCFLGKAACTRNLQDNVAALAIE---------LAKLIAAKNN---LITRVLDAERQQ 63
           R     L K       Q+ +    +E         L   I  +     ++TR+   +R +
Sbjct: 66  RLFWTLLSK-------QEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDR 118

Query: 64  LRRLDQV----QVWLSRVEAVKTETDELIRRSSKEIDKLCPRAY--------CSKSCKSS 111
           L   +QV     V   R++         +R++  E+    P             K+    
Sbjct: 119 LYNDNQVFAKYNVS--RLQPYLK-----LRQALLELR---PAKNVLIDGVLGSGKTW--- 165

Query: 112 YKFRKQVAKKLRD--VRTLIGEGVF-------------------------EVVAERPPQP 144
                          V+  +   +F                              R    
Sbjct: 166 -----VALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS 220

Query: 145 VADEIPTEQIVEGLQSQLKQ------------VW----------RC--LV-EESIGIIGL 179
              ++    I   L+  LK             V            C  L+      +   
Sbjct: 221 SNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTD- 279

Query: 180 YGMGSVEKVGEETLDSHHDILELAQTVT--------------KE-CGGSPLALITIGRAM 224
               S       +LD H   L   +  +              +E    +P  L  I  ++
Sbjct: 280 --FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESI 337

Query: 225 AYKKKPEEWRYAIEVLRKSSSSEFAGLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPED 284
             +     W       +  +  +   +++        S + L+    R  F    ++P  
Sbjct: 338 --RDGLATWDN----WKHVNCDKLTTIIES-------SLNVLEPAEYRKMFDRLSVFPPS 384

Query: 285 FAILKRDLIDCWIGEGFLDERDSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKLHGVLHDM 344
             I    L   W      D             +V  L    L+E+    K      +  +
Sbjct: 385 AHIPTILLSLIWFDVIKSDVMV----------VVNKLHKYSLVEK--QPKESTIS-IPSI 431

Query: 345 ALWISCEIEEEKE---------NFLVCA------------------GRGLKEAPEVKEWE 377
            L +  ++E E           N                       G  LK     +   
Sbjct: 432 YLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMT 491

Query: 378 TVRRLSL----MQNQIKILSEAPTCP--------------------HLHYEFKMITDGFF 413
             R + L    ++ +I+  S A                           YE +++     
Sbjct: 492 LFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYE-RLVNA-IL 549

Query: 414 QFMPLL-KVLNMSRETNIKELLGELKALVN 442
            F+P + + L  S+ T++  +     AL+ 
Sbjct: 550 DFLPKIEENLICSKYTDLLRI-----ALMA 574

>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 = 77.2 bits (189), Expect = 1e-14
 Identities = 75/566 (13%), Positives = 169/566 (29%), Gaps = 151/566 (26%)

Query: 57  LDAE--RQQLRRLDQVQVWLSRVEAVKTETD-----ELIRR--SSKEIDKLC--P----R 101
           +D E    Q +  D + V+    +A     D     ++ +   S +EID +         
Sbjct: 7   MDFETGEHQYQYKDILSVFE---DAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSG 63

Query: 102 AY------CSKSCKSSYKFRKQVAKKLRDVRTLIGEGVFEVVAERPPQPVADEIPTEQIV 155
                    SK  +   KF ++V +   + + L+       +     QP        +  
Sbjct: 64  TLRLFWTLLSKQEEMVQKFVEEVLRI--NYKFLM-----SPIKTEQRQPSMMTRMYIEQR 116

Query: 156 EGLQSQLK-----QVWR---------CLVE-ESIGIIGLYGM-GSVEKVGEETLDSHHDI 199
           + L +  +      V R          L+E      + + G+ GS    G+  +      
Sbjct: 117 DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGS----GKTWV-----A 167

Query: 200 LELAQTVTKECG-GSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSEFAGLVKEVYPL 258
           L++  +   +C     +  + +         PE     ++ L       +          
Sbjct: 168 LDVCLSYKVQCKMDFKIFWLNLKN----CNSPETVLEMLQKLLYQIDPNWTSRSDHSSN- 222

Query: 259 LKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDLIDCWIGEGF-------LDERDS--FS 309
           +K    S+Q ++ R   L    Y     +L  ++ +      F       L  R      
Sbjct: 223 IKLRIHSIQAELRR--LLKSKPYENCLLVL-LNVQNAKAWNAFNLSCKILLTTRFKQVTD 279

Query: 310 AQNQGYYIVGTLVH-AWLLEEVGDDKVKLHGVLHDMALWISCEIEEEKE-----NFLVCA 363
             +       +L H +  L    D+   L      +  ++ C  ++        N    +
Sbjct: 280 FLSAATTTHISLDHHSMTLTP--DEVKSL------LLKYLDCRPQDLPREVLTTNPRRLS 331

Query: 364 --GRGLKEAPEVKEWETVRRL------SLMQNQIKILSEAPTCPHLHYEFKMITDGFFQF 415
                +++      W+  + +      +++++ + +L  A        E++ + D    F
Sbjct: 332 IIAESIRDGLA--TWDNWKHVNCDKLTTIIESSLNVLEPA--------EYRKMFDRLSVF 381

Query: 416 MPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG 475
            P           +I         L  +      W   + +  + V++   K  ++    
Sbjct: 382 PP---------SAHIPT-----ILLSLI------WFDVIKSDVMVVVNKLHKYSLVE--- 418

Query: 476 TVLAKELLGLKHLEELDFTLRCVHSLQ--ILVSSNKLQSCTRALV----LIRFKDSKSID 529
                     K  +E   ++    S+   + V      +  R++V    + +  DS  + 
Sbjct: 419 ----------KQPKESTISI---PSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLI 465

Query: 530 VIALAR--LKHLSTLHFSKCEELEEW 553
              L +    H+   H    E  E  
Sbjct: 466 PPYLDQYFYSHIG-HHLKNIEHPERM 490

>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 = 59.7 bits (145), Expect = 1e-09
 Identities = 54/313 (17%), Positives = 103/313 (32%), Gaps = 57/313 (18%)

Query: 349 SCEIEEEKENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA--PTCPHLHY--- 403
            C  ++     ++C  +     PE    ET R L L +N+IK L++    + PHL     
Sbjct: 8   ECSAQD---RAVLCHRKRFVAVPEGIPTET-RLLDLGKNRIKTLNQDEFASFPHLEELEL 63

Query: 404 ---EFKMITDGFFQFMPLLKVLNMSRETNIKEL-LGELKALVNLKCVNLEWARDLVTIPL 459
                  +  G F  +  L+ L +     +K + LG    L NL  +++   + +V +  
Sbjct: 64  NENIVSAVEPGAFNNLFNLRTLGLRS-NRLKLIPLGVFTGLSNLTKLDISENK-IVILLD 121

Query: 460 EVISNFSKLRVLRLFG---TVLAKELL-GLKHLEELDFTLRCVHSLQILVSSNKLQSCTR 515
            +  +   L+ L +       ++     GL  LE+L                  L S   
Sbjct: 122 YMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTL------------EKCNLTSIPT 169

Query: 516 ALVLIRFKDSKSIDVIALA--RLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCS 573
                       + V+ L    +  +    F +   L+  +  +       +P      +
Sbjct: 170 EA----LSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLN 225

Query: 574 LHKVTITFCPKLKGLTFLVFA--PNLKCLSLFDCTAMEEI--ISAGKFVHTPEMMGNTMD 629
           L  ++IT C  L  + +L       L+ L+L        I  I                 
Sbjct: 226 LTSLSITHC-NLTAVPYLAVRHLVYLRFLNLSYN----PISTIEGSML-----------H 269

Query: 630 PCAKLRKLPLDSN 642
              +L+++ L   
Sbjct: 270 ELLRLQEIQLVGG 282

>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 = 52.0 bits (125), Expect = 4e-07
 Identities = 49/293 (16%), Positives = 97/293 (33%), Gaps = 75/293 (25%)

Query: 380 RRLSLMQNQIKILSEA--PTCPHLHY------EFKMITDGFFQFMPLLKVLNMSRETNIK 431
           R L L  N++K++         +L        +  ++ D  FQ +  LK L +    ++ 
Sbjct: 83  RTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGD-NDLV 141

Query: 432 EL-LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG----TVLAKELLGLK 486
            +       L +L+ + LE    L +IP E +S+   L VLRL       +       L 
Sbjct: 142 YISHRAFSGLNSLEQLTLEKCN-LTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLY 200

Query: 487 HLEELDFT----LRCVH-------SLQIL-VSSNKLQSCTRALVLIRFKDSKSIDVIALA 534
            L+ L+ +    L  +        +L  L ++   L                ++  +A+ 
Sbjct: 201 RLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNL---------------TAVPYLAVR 245

Query: 535 RLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVT---ITFCPKLKGLTFL 591
            L +L  L+ S                 + + +  +   L ++    +    +L  +   
Sbjct: 246 HLVYLRFLNLSYNP--------------ISTIEGSMLHELLRLQEIQLVGG-QLAVVEPY 290

Query: 592 VFA--PNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSN 642
            F     L+ L++     +  +              +       L  L LDSN
Sbjct: 291 AFRGLNYLRVLNVSGN-QLTTL------------EESVFHSVGNLETLILDSN 330

>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 = 56.5 bits (137), Expect = 2e-08
 Identities = 38/211 (18%), Positives = 66/211 (31%), Gaps = 45/211 (21%)

Query: 362 CAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAP--TCPHLHY------EFKMITDGFF 413
           C+   L + P+      +  L+L  NQ++ L  A       L            +     
Sbjct: 11  CSHLKLTQVPDDLP-TNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELC 69

Query: 414 QFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLR 472
           Q +P+LKVLN+     + +L         NL  ++L     +  I          L  L 
Sbjct: 70  QKLPMLKVLNLQH-NELSQLSDKTFAFCTNLTELHLMSNS-IQKIKNNPFVKQKNLITLD 127

Query: 473 LFG----TVLAKELLGLKHLEELD-------------FTLRCVHSLQIL-VSSNKLQSCT 514
           L      +      + L++L+EL                +    SL+ L +SSN++    
Sbjct: 128 LSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQI---- 183

Query: 515 RALVLIRFKDSKSIDVIALARLKHLSTLHFS 545
                      K         +  L  L  +
Sbjct: 184 -----------KEFSPGCFHAIGRLFGLFLN 203

>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 = 53.9 bits (130), Expect = 1e-07
 Identities = 32/202 (15%), Positives = 60/202 (29%), Gaps = 51/202 (25%)

Query: 380 RRLSLMQNQIKILSEAPT---CPHLHY------EFKMITDGFFQFMPLLKVLNMS--RET 428
             L L  N+I             ++        ++  +T   F  +P L+ L +      
Sbjct: 408 EVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALK 467

Query: 429 NIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRL------------FGT 476
           N+       + L NL  ++L     +  I  +++    KL +L L               
Sbjct: 468 NVDSSPSPFQPLRNLTILDLSNNN-IANINDDMLEGLEKLEILDLQHNNLARLWKHANPG 526

Query: 477 VLAKELLGLKHLEELDF-----------TLRCVHSLQIL-VSSNKLQSCTRALVLIRFKD 524
                L GL HL  L+              + +  L+I+ +  N L              
Sbjct: 527 GPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLN------------- 573

Query: 525 SKSIDVIALARLKHLSTLHFSK 546
             ++          L +L+  K
Sbjct: 574 --TLPASVFNNQVSLKSLNLQK 593

>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 = 44.2 bits (105), Expect = 1e-04
 Identities = 29/182 (15%), Positives = 59/182 (32%), Gaps = 34/182 (18%)

Query: 380 RRLSLMQNQI-----KILSEAPTCPHLHY------EFKMITDGFFQFMPL--LKVLNMSR 426
             L L   Q+     + L        +        +    ++  F  +    L +L++S 
Sbjct: 198 FGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSY 257

Query: 427 ETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGL 485
             N+  +       L  L+   LE+   +  +    +     +R L L  +   K+ + L
Sbjct: 258 -NNLNVVGNDSFAWLPQLEYFFLEYNN-IQHLFSHSLHGLFNVRYLNLKRS-FTKQSISL 314

Query: 486 KHLEELD-FTLRCVHSLQIL-VSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLH 543
             L ++D F+ + +  L+ L +  N +                 I       L +L  L 
Sbjct: 315 ASLPKIDDFSFQWLKCLEHLNMEDNDIP---------------GIKSNMFTGLINLKYLS 359

Query: 544 FS 545
            S
Sbjct: 360 LS 361

>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 = 56.0 bits (135), Expect = 3e-08
 Identities = 32/241 (13%), Positives = 73/241 (30%), Gaps = 38/241 (15%)

Query: 380 RRLSLMQNQIKILSEA--PTCPHLHY------EFKMITDG-FFQFMPLLKVLNMSRETNI 430
           + + L  N+I +L +        + Y      E   +           L+ LN+     I
Sbjct: 123 KNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQY-NFI 181

Query: 431 KELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG---TVLAKELLGLKH 487
            ++ G++     LK ++L   + L  +      + + +  + L      ++ K L   ++
Sbjct: 182 YDVKGQVV-FAKLKTLDLSSNK-LAFMG-PEFQSAAGVTWISLRNNKLVLIEKALRFSQN 238

Query: 488 LEELDFTLRCVHSLQILVSSNKLQS-CTRALVLIRFKDSKSIDVIALARLKHLSTLHFSK 546
           LE  D            +  N       R      F  ++ +  +A   +K L+  +  +
Sbjct: 239 LEHFD------------LRGNGFHCGTLRDF----FSKNQRVQTVAKQTVKKLTGQNEEE 282

Query: 547 CEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCP----KLKGLTFLVFA-PNLKCLS 601
           C               L +P      +L +           + + L          + + 
Sbjct: 283 CTVPTLGHYGAYCCEDLPAPFADRLIALKRKEHALLSGQGSETERLECERENQARQREID 342

Query: 602 L 602
            
Sbjct: 343 A 343

>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 = 55.8 bits (135), Expect = 3e-08
 Identities = 30/193 (15%), Positives = 54/193 (27%), Gaps = 41/193 (21%)

Query: 378 TVRRLSLMQNQIKILSEAPTCPHLHY--------EFKMITDGFFQFMPLLKVLNMSRETN 429
           +++RL+   N+          P L +         FK            LK L++S    
Sbjct: 326 SLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSF-NG 384

Query: 430 IKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRL----FGTVLAKELLGL 485
           +  +      L  L+ ++ + +         V  +   L  L +              GL
Sbjct: 385 VITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGL 444

Query: 486 KHLEELDF------------TLRCVHSLQIL-VSSNKLQSCTRALVLIRFKDSKSIDVIA 532
             LE L                  + +L  L +S  +L+                +   A
Sbjct: 445 SSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLE---------------QLSPTA 489

Query: 533 LARLKHLSTLHFS 545
              L  L  L+ S
Sbjct: 490 FNSLSSLQVLNMS 502

>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 = 49.3 bits (118), Expect = 3e-06
 Identities = 34/165 (20%), Positives = 61/165 (36%), Gaps = 35/165 (21%)

Query: 380 RRLSLMQNQIKILSEAPT---CPHLHY------EFKMITDGFFQFMPLLKVLNMSR---- 426
             L    + +K +SE        +L Y        ++  +G F  +  L+VL M+     
Sbjct: 399 EHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQ 458

Query: 427 ETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRL----FGTVLAKEL 482
           E  + ++  EL+ L  L   +L   + L  +     ++ S L+VL +    F ++     
Sbjct: 459 ENFLPDIFTELRNLTFL---DLSQCQ-LEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPY 514

Query: 483 LGLKHLEELD------------FTLRCVHSLQIL-VSSNKLQSCT 514
             L  L+ LD                   SL  L ++ N   +CT
Sbjct: 515 KCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDF-ACT 558

>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 = 45.4 bits (108), Expect = 5e-05
 Identities = 45/251 (17%), Positives = 82/251 (32%), Gaps = 39/251 (15%)

Query: 405 FKMITDGFFQFMPLLKVLNMSR---ETNIKELLGELKALVNLKCVNLEWARDLVTIPLEV 461
            + +    F   P L+VL++SR   +T        L  L  L    L     + ++ L  
Sbjct: 40  LRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTL---ILTGNP-IQSLALGA 95

Query: 462 ISNFSKLRVLRLFGTVLAK----ELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRAL 517
            S  S L+ L    T LA      +  LK L+EL+            V+ N +QS     
Sbjct: 96  FSGLSSLQKLVAVETNLASLENFPIGHLKTLKELN------------VAHNLIQSFKLPE 143

Query: 518 VLIRFKDSKSIDVIALA--RLKHLSTLHFSKCEELEEWKTD-YTSGTVLKSPQPFVF--C 572
               F +  +++ + L+  +++ +         ++         S   +   QP  F   
Sbjct: 144 Y---FSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEI 200

Query: 573 SLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCA 632
            LHK+T+                 L  L +         +  G+F +   +         
Sbjct: 201 RLHKLTLRNN-FDSLNVMKTCIQGLAGLEVHR-------LVLGEFRNEGNLEKFDKSALE 252

Query: 633 KLRKLPLDSNS 643
            L  L ++   
Sbjct: 253 GLCNLTIEEFR 263

>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 = 53.9 bits (130), Expect = 1e-07
 Identities = 34/196 (17%), Positives = 64/196 (32%), Gaps = 41/196 (20%)

Query: 380 RRLSLMQNQIKILSEA--PTCPHLHY-------EFKMITDGFFQFMPLLKVLNMS--RET 428
           ++L L  N+ + L +      P L +       +   +  G  + +  L+ L++S     
Sbjct: 304 KKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIE 363

Query: 429 NIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAK-----ELL 483
                  +L+ L +L+ +NL +    +++  E      +L +L L  T L          
Sbjct: 364 TSDCCNLQLRNLSHLQSLNLSYNE-PLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQ 422

Query: 484 GLKHLEELDF-----------TLRCVHSLQIL-VSSNKLQSCTRALVLIRFKDSKSIDVI 531
            L  L+ L+                + +LQ L +  N                       
Sbjct: 423 NLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKGN------------IQKTN 470

Query: 532 ALARLKHLSTLHFSKC 547
           +L  L  L  L  S C
Sbjct: 471 SLQTLGRLEILVLSFC 486

>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 = 51.9 bits (125), Expect = 6e-07
 Identities = 46/293 (15%), Positives = 82/293 (27%), Gaps = 69/293 (23%)

Query: 380 RRLSLMQNQIKILSEA--PTCPHLHY------EFKMITDGFFQFMPLLKVLNMSRETNIK 431
             L L + QI  + E    +   L            + +        LK L    +T I 
Sbjct: 60  TFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKALKHLFFI-QTGIS 118

Query: 432 EL-LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG---TVLAKELL-GLK 486
            +    L     L+ + L     + +I L       KL+VL         L+KE +  L+
Sbjct: 119 SIDFIPLHNQKTLESLYLGS-NHISSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSSLQ 177

Query: 487 HLEELDFTLRCVHSLQILVSSNKLQS-CTRALVLIRFKD---------SKSIDVIALARL 536
               L   L          + N +      A     F+                +  + +
Sbjct: 178 QATNLSLNL----------NGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTI 227

Query: 537 KHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCP----KLKGLTFLV 592
           + L    F   +               +   P VF  L ++++            ++   
Sbjct: 228 QSLWLGTFEDMD--------------DEDISPAVFEGLCEMSVESINLQKHYFFNISSNT 273

Query: 593 FA--PNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNS 643
           F     L+ L L          +A      P  +       + L+KL L +N 
Sbjct: 274 FHCFSGLQELDL----------TATHLSELPSGLVG----LSTLKKLVLSANK 312

>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 = 45.0 bits (107), Expect = 7e-05
 Identities = 24/179 (13%), Positives = 51/179 (28%), Gaps = 39/179 (21%)

Query: 380 RRLSLMQNQIKILSEAPT---CPHLHY------EFKMITDGFFQFMPLLKVLNMSR---E 427
             L L   ++K+            L           + ++  F  +P L+ LN+      
Sbjct: 403 ELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFP 462

Query: 428 TNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKH 487
               +    L+ L  L+ + L +   L +I     ++   +  + L              
Sbjct: 463 KGNIQKTNSLQTLGRLEILVLSFCD-LSSIDQHAFTSLKMMNHVDLSHN----------R 511

Query: 488 LEELDF-TLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFS 545
           L       L  +  + + ++SN +                 I    L  L    T++  
Sbjct: 512 LTSSSIEALSHLKGIYLNLASNHI---------------SIILPSLLPILSQQRTINLR 555

>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 = 52.9 bits (127), Expect = 3e-07
 Identities = 49/260 (18%), Positives = 91/260 (35%), Gaps = 54/260 (20%)

Query: 379 VRRLSLMQNQIKILSEA--PTCPHLHY------EFKMITDGFFQFMPLLKVLNMSRETNI 430
           ++ L+L  N+I  +++       +L            +    F  +P +  +++ +  +I
Sbjct: 292 LKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQK-NHI 350

Query: 431 KEL-LGELKALVNLKCVNLEWARDLVTIP----LEVIS----NFSKLRVLRLFGTVLAKE 481
             +     K L  L+ ++L     L TI     +  I         L  + L   ++   
Sbjct: 351 AIIQDQTFKFLEKLQTLDLRDNA-LTTIHFIPSIPDIFLSGNKLVTLPKINLTANLIHLS 409

Query: 482 LLGLKHLEELDFTLRCVHSLQIL-VSSNKLQSCT-----------RALVL----IRFKDS 525
              L++L+ L F LR V  LQIL ++ N+  SC+             L L    ++    
Sbjct: 410 ENRLENLDILYFLLR-VPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWE 468

Query: 526 KSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVT---ITFC 582
             +       L HL  L+ +                 L S  P VF  L  +    +   
Sbjct: 469 TELCWDVFEGLSHLQVLYLNHNY--------------LNSLPPGVFSHLTALRGLSLNSN 514

Query: 583 PKLKGLTFLVFAPNLKCLSL 602
            +L  L+      NL+ L +
Sbjct: 515 -RLTVLSHNDLPANLEILDI 533

>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 = 48.6 bits (116), Expect = 5e-06
 Identities = 33/152 (21%), Positives = 53/152 (34%), Gaps = 34/152 (22%)

Query: 413 FQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVL 471
            Q +   + L +S    I+ +       L  L+ + L      +TI  E   N   LR+L
Sbjct: 20  PQVLNTTERLLLSF-NYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRIL 78

Query: 472 RLFG---TVLAKELL-GLKHLEELD-------------FTLRCVHSLQIL-VSSNKLQSC 513
            L       L  +   GL HL EL                 R + +L  L +S N+++S 
Sbjct: 79  DLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRS- 137

Query: 514 TRALVLIRFKDSKSIDVIALARLKHLSTLHFS 545
                 +    S         +L  L ++ FS
Sbjct: 138 ------LYLHPS-------FGKLNSLKSIDFS 156

>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 = 46.7 bits (111), Expect = 2e-05
 Identities = 48/290 (16%), Positives = 88/290 (30%), Gaps = 53/290 (18%)

Query: 349 SCEIEEEKENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA--PTCPHLHY--- 403
           SC  +             L + P+V    T  RL L  N I+ ++ +  P    L     
Sbjct: 1   SCSFDGRIAF---YRFCNLTQVPQVLN--TTERLLLSFNYIRTVTASSFPFLEQLQLLEL 55

Query: 404 ----EFKMITDGFFQFMPLLKVLNMSRETNIKEL-LGELKALVNLKCVNLEWAR-DLVTI 457
                   I    F+ +P L++L++   + I  L     + L +L  + L +       +
Sbjct: 56  GSQYTPLTIDKEAFRNLPNLRILDLGS-SKIYFLHPDAFQGLFHLFELRLYFCGLSDAVL 114

Query: 458 PLEVISNFSKLRVLRL----FGTV-LAKELLGLKHLEELDFT--------------LRCV 498
                 N   L  L L      ++ L      L  L+ +DF+              L+  
Sbjct: 115 KDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGK 174

Query: 499 HSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYT 558
                 +++N L S                  +   R   L  L  S      +   +++
Sbjct: 175 TLSFFSLAANSLYS---------RVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFS 225

Query: 559 SGTVLKSPQPFVFCSLHKVTITFC--PKLKGLTFLVFAP----NLKCLSL 602
           +   +   Q F     H +         +K      FA     +++ L L
Sbjct: 226 NA--ISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDL 273

>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 = 51.6 bits (124), Expect = 3e-07
 Identities = 39/226 (17%), Positives = 67/226 (29%), Gaps = 40/226 (17%)

Query: 358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA--PTCPHLHY--------EFKM 407
             + C  +GL   P         RL L  N+++ L          L           FK 
Sbjct: 10  TEIRCNSKGLTSVPTGIPSSA-TRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKG 68

Query: 408 ITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIP-LEVISNFS 466
                      LK L++S    +  +      L  L+ ++ + +  L  +    V  +  
Sbjct: 69  CCSQSDFGTTSLKYLDLSF-NGVITMSSNFLGLEQLEHLDFQHSN-LKQMSEFSVFLSLR 126

Query: 467 KLRVLRLFG---TVLAKELL-GLKHLEELDF------------TLRCVHSLQILV-SSNK 509
            L  L +      V    +  GL  LE L                  + +L  L  S  +
Sbjct: 127 NLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ 186

Query: 510 LQS-------CTRALVLIRFKDSK--SIDVIALARLKHLSTLHFSK 546
           L+           +L ++    +   S+D      L  L  L +S 
Sbjct: 187 LEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSL 232

>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 = 50.4 bits (121), Expect = 8e-07
 Identities = 27/150 (18%), Positives = 51/150 (34%), Gaps = 33/150 (22%)

Query: 380 RRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKEL-LGELK 438
             L    + +K +SE                  F  +  L  L++S  T+ +    G   
Sbjct: 104 EHLDFQHSNLKQMSE---------------FSVFLSLRNLIYLDISH-THTRVAFNGIFN 147

Query: 439 ALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG---TVLAKELL-GLKHLEELD-- 492
            L +L+ + +           ++ +    L  L L       L+      L  L+ L+  
Sbjct: 148 GLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMS 207

Query: 493 ---------FTLRCVHSLQIL-VSSNKLQS 512
                    F  +C++SLQ+L  S N + +
Sbjct: 208 HNNFFSLDTFPYKCLNSLQVLDYSLNHIMT 237

>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 = 52.0 bits (125), Expect = 4e-07
 Identities = 40/238 (16%), Positives = 74/238 (31%), Gaps = 48/238 (20%)

Query: 380 RRLSLMQNQIKILSEAPTCPHL---------HYEFKMITDGFFQFM----PLLKVLNMSR 426
           ++L++  N I          +L         +   + IT    QF+     +   L+MS 
Sbjct: 131 KKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSL 190

Query: 427 ETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLK 486
              I  +  +    + L  + L    +   I    + N + L V RL      K+   L+
Sbjct: 191 -NPIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEF-KDERNLE 248

Query: 487 HLEELDFT-LRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFS 545
             E      L  V   +  ++                    S D++    L ++S +  +
Sbjct: 249 IFEPSIMEGLCDVTIDEFRLTYTNDF---------------SDDIVKFHCLANVSAMSLA 293

Query: 546 KCEELEEWKTDYTSGTVLKSPQPFVFC-SLHKVTITFCPKLKGLTFLVFAPNLKCLSL 602
                            +K  +          ++I  C +LK    L   P LK L+L
Sbjct: 294 GVS--------------IKYLEDVPKHFKWQSLSIIRC-QLKQFPTLDL-PFLKSLTL 335

>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 = 51.2 bits (123), Expect = 8e-07
 Identities = 30/183 (16%), Positives = 54/183 (29%), Gaps = 48/183 (26%)

Query: 380 RRLSLMQNQIKILSEAPT---CPHLHY------EFKMITDGFFQFMPLLKVLNMSR---- 426
           + L    + +K ++E         L Y        K+  DG F  +  L  L M+     
Sbjct: 402 QHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFK 461

Query: 427 ETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG---TVLAKELL 483
           +  +  +      L  L   +L   + L  I   V     +L++L +       L     
Sbjct: 462 DNTLSNVFANTTNLTFL---DLSKCQ-LEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHY 517

Query: 484 -GLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTL 542
             L  L  LD             S N+++               +   I     K L+  
Sbjct: 518 NQLYSLSTLD------------CSFNRIE---------------TSKGILQHFPKSLAFF 550

Query: 543 HFS 545
           + +
Sbjct: 551 NLT 553

>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 = 45.8 bits (109), Expect = 3e-05
 Identities = 38/199 (19%), Positives = 66/199 (33%), Gaps = 34/199 (17%)

Query: 380 RRLSLMQNQIKILSEAPTCPHLHY---EFKMITDGFFQFMPLLKVLNMSRETNIKELLGE 436
             +SL    IK L + P              +       +P LK L ++   N   +  +
Sbjct: 288 SAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQLKQFPTLDLPFLKSLTLTM--NKGSISFK 345

Query: 437 LKALVNLKCVNLEWARDLVTIPLEVISNF--SKLRVLRLFG---TVLAKELLGLKHLEEL 491
             AL +L  ++L     L        S+   + LR L L      +++   +GL+ L+ L
Sbjct: 346 KVALPSLSYLDLSRNA-LSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHL 404

Query: 492 DF------------TLRCVHSLQIL-VSSNKLQSC-------TRALVLIRFKDSKSIDVI 531
           DF                +  L  L +S    +           +L  ++   +   D  
Sbjct: 405 DFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNT 464

Query: 532 ---ALARLKHLSTLHFSKC 547
                A   +L+ L  SKC
Sbjct: 465 LSNVFANTTNLTFLDLSKC 483

>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 = 42.3 bits (100), Expect = 4e-04
 Identities = 28/156 (17%), Positives = 51/156 (32%), Gaps = 40/156 (25%)

Query: 377 ETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSR---ETNIKEL 433
            + + + L  N +K                ++    F     L+ L++SR   ET   + 
Sbjct: 32  SSTKNIDLSFNPLK----------------ILKSYSFSNFSELQWLDLSRCEIETIEDKA 75

Query: 434 LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAK----ELLGLKHLE 489
              L  L NL    L     + +      S  + L  L    T LA      +  L  L+
Sbjct: 76  WHGLHHLSNL---ILTGNP-IQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLK 131

Query: 490 ELDF------------TLRCVHSLQIL-VSSNKLQS 512
           +L+                 + +L  + +S N +Q+
Sbjct: 132 KLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQT 167

>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 = 5e-07
 Identities = 39/192 (20%), Positives = 69/192 (35%), Gaps = 18/192 (9%)

Query: 360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHY---EFKMITD-GFFQF 415
                + + +A    E  ++ ++    + IK +      P++         +TD      
Sbjct: 26  DNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKPLTN 85

Query: 416 MPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG 475
           +  L  L +     IK+L   LK L  LK ++LE    +  I    + +  +L  L L  
Sbjct: 86  LKNLGWLFLDE-NKIKDLSS-LKDLKKLKSLSLEHNG-ISDI--NGLVHLPQLESLYLGN 140

Query: 476 TVLAK--ELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIAL 533
             +     L  L  L+ L      +  +  L    KLQ+       +    +   D+ AL
Sbjct: 141 NKITDITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQN-------LYLSKNHISDLRAL 193

Query: 534 ARLKHLSTLHFS 545
           A LK+L  L   
Sbjct: 194 AGLKNLDVLELF 205

>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 = 51.8 bits (124), Expect = 5e-07
 Identities = 46/266 (17%), Positives = 96/266 (36%), Gaps = 25/266 (9%)

Query: 357 ENFLVCAGRGLKEAPEVKEWE---TVRRLSLMQNQIKILSEA--PTCPHLHY------EF 405
           E  +  +  GL   P+    +       L++ QN I  L  +   +   L          
Sbjct: 2   EFLVDRSKNGLIHVPK----DLSQKTTILNISQNYISELWTSDILSLSKLRILIISHNRI 57

Query: 406 KMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPL-EVISN 464
           + +    F+F   L+ L++S    + ++       VNLK ++L +      +P+ +   N
Sbjct: 58  QYLDISVFKFNQELEYLDLSH-NKLVKI--SCHPTVNLKHLDLSF-NAFDALPICKEFGN 113

Query: 465 FSKLRVLRLFGTVLAK-ELLGLKHLEELDFTLRCVHSLQILVSSNKLQSC---TRALVLI 520
            S+L+ L L  T L K  +L + HL      L    +         LQ     +  +V  
Sbjct: 114 MSQLKFLGLSTTHLEKSSVLPIAHLNISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFP 173

Query: 521 RFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTIT 580
             K+   I  +++  + +L   +     E  +     +    L++       +L+ +  T
Sbjct: 174 TNKEFHFILDVSVKTVANLELSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETT 233

Query: 581 FCPKLKGLTFLVFAPNLKCLSLFDCT 606
           +      +  LV+   +   S+ +  
Sbjct: 234 W-NSFIRILQLVWHTTVWYFSISNVK 258

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

 Score = 51.1 bits (123), Expect = 5e-07
 Identities = 32/203 (15%), Positives = 67/203 (33%), Gaps = 35/203 (17%)

Query: 380 RRLSLMQNQIKILSEA--PTCPHLHY------EFKMITDG-FFQFMPLLKVLNMSRETNI 430
           + + L  N+I +L +        + Y      E   +           L+ LN+     I
Sbjct: 123 KNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQY-NFI 181

Query: 431 KELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG---TVLAKELLGLKH 487
            ++ G++     LK ++L   + L  +      + + +  + L      ++ K L   ++
Sbjct: 182 YDVKGQVV-FAKLKTLDLSSNK-LAFMG-PEFQSAAGVTWISLRNNKLVLIEKALRFSQN 238

Query: 488 LEELDFTLRCVHSLQILVSSNKLQS-CTRALVLIRFKDSKSIDVIALARLKHLSTLHFSK 546
           LE  D            +  N       R      F  ++ +  +A   +K L+  +  +
Sbjct: 239 LEHFD------------LRGNGFHCGTLRDF----FSKNQRVQTVAKQTVKKLTGQNEEE 282

Query: 547 CEELEEWKTDYTSGTVLKSPQPF 569
           C         Y +      P PF
Sbjct: 283 CTVPTL--GHYGAYCCEDLPAPF 303

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

 Score = 42.7 bits (101), Expect = 2e-04
 Identities = 25/111 (22%), Positives = 48/111 (43%), Gaps = 12/111 (10%)

Query: 412 FFQFMPLLKVLNMSRETNIKELLGE-LKALVNLKCVNLEWARDLVTIPLEVISNFSKLRV 470
             Q     K+  ++  +++K+ L    ++  N+K ++L     L  I    ++ F+KL +
Sbjct: 5   IKQNGNRYKIEKVTD-SSLKQALASLRQSAWNVKELDLSGNP-LSQISAADLAPFTKLEL 62

Query: 471 LRLFGTVLAK--ELLGLKHLEELDF------TLRCVHSLQIL-VSSNKLQS 512
           L L   VL +  +L  L  L  LD        L    S++ L  ++N +  
Sbjct: 63  LNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISR 113

>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 = 51.3 bits (123), Expect = 8e-07
 Identities = 30/249 (12%), Positives = 75/249 (30%), Gaps = 34/249 (13%)

Query: 380 RRLSLMQNQIKILSEAPTCPHLHY---------EFKMITDGFFQFMPLLKVLNMSRETNI 430
           + L L  ++I  + E      L               ++  +F  +  LK LN+      
Sbjct: 53  QVLILKSSRINTI-EGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLM-GNPY 110

Query: 431 KELL--GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRL----FGTVLAKELLG 484
           + L        L NL+ + +        I     +  + L  L +         ++ L  
Sbjct: 111 QTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKS 170

Query: 485 LKHLEELD-----------FTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIAL 533
           ++ +  L                 + S++ L   +   +  +   L   + S  +  +A 
Sbjct: 171 IRDIHHLTLHLSESAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAF 230

Query: 534 ARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVF 593
            R   L+   F++  +L  +  + +           +    +        +L  +  +  
Sbjct: 231 -RGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLG-DFNPSESDVVSELGKVETV-- 286

Query: 594 APNLKCLSL 602
              ++ L +
Sbjct: 287 --TIRRLHI 293

>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 = 50.9 bits (122), Expect = 1e-06
 Identities = 26/160 (16%), Positives = 55/160 (34%), Gaps = 26/160 (16%)

Query: 378 TVRRLSLMQNQIK-ILSEAPT-CPHLHY------EFKMITDGFFQFMPLLKVLNMSR--- 426
           T+RRL + Q  +   LS   +    +        +  ++   F Q +  L+ L++S    
Sbjct: 287 TIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLM 346

Query: 427 ETNIKELLGELKALVNLKCVNLEWARDLVTIPLE--VISNFSKLRVLRLFG---TVLAKE 481
                +      A  +L+ + L     L ++     ++     L  L +       +   
Sbjct: 347 VEEYLKNSACKGAWPSLQTLVLSQNH-LRSMQKTGEILLTLKNLTSLDISRNTFHPMPDS 405

Query: 482 LLGLKHLEELD--------FTLRCVHSLQIL-VSSNKLQS 512
               + +  L+               +L++L VS+N L S
Sbjct: 406 CQWPEKMRFLNLSSTGIRVVKTCIPQTLEVLDVSNNNLDS 445

>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 = 48.6 bits (116), Expect = 5e-06
 Identities = 40/318 (12%), Positives = 82/318 (25%), Gaps = 79/318 (24%)

Query: 348 ISCEIEEEKENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKM 407
           +SC+             R     P       ++ L L  N+I                  
Sbjct: 2   LSCD----ASGVCDGRSRSFTSIPSGLT-AAMKSLDLSFNKIT----------------Y 40

Query: 408 ITDGFFQFMPLLKVLNMSRETN-IKEL-LGELKALVNLKCVNLEWARDLVTIPLEVISNF 465
           I  G  +    L+VL +    + I  +      +L +L+ ++L     L ++        
Sbjct: 41  IGHGDLRACANLQVLILKS--SRINTIEGDAFYSLGSLEHLDLSDNH-LSSLSSSWFGPL 97

Query: 466 SKLRVLRLFGTVL-----AKELLGLKHLEELDF------------TLRCVHSLQIL-VSS 507
           S L+ L L G              L +L+ L                  + SL  L + +
Sbjct: 98  SSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKA 157

Query: 508 NKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQ 567
             L+               +    +L  ++ +  L     E                   
Sbjct: 158 LSLR---------------NYQSQSLKSIRDIHHLTLHLSE--------------SAFLL 188

Query: 568 PFVFCSLHKVTIT--FCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMG 625
                 L  V         L    F     +     +        +++   F    +++ 
Sbjct: 189 EIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLR 248

Query: 626 NTMDPCAKLRKLPLDSNS 643
             ++    L ++  D  +
Sbjct: 249 YILE----LSEVEFDDCT 262

>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 = 50.8 bits (122), Expect = 1e-06
 Identities = 44/316 (13%), Positives = 91/316 (28%), Gaps = 68/316 (21%)

Query: 360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKIL--SEAPTCPHLHYEFKMITDGFFQFMP 417
           L C    + +   +++   + +L    N I  L  S+     +L  +   +T+     + 
Sbjct: 47  LDCHNSSITDMTGIEKLTGLTKLICTSNNITTLDLSQNTNLTYLACDSNKLTNLDVTPLT 106

Query: 418 LLKVLNMSRETNIKEL-LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGT 476
            L  LN      + +L + +   L  L C        L  I    +S+ ++L  L     
Sbjct: 107 KLTYLNCDT-NKLTKLDVSQNPLLTYLNCARNT----LTEID---VSHNTQLTELDCHLN 158

Query: 477 VL--AKELLGLKHLEELD--------FTLRCVHSLQIL-VSSNKLQSCTRALVLIRFKDS 525
                 ++     L  LD          +     L  L   +N +               
Sbjct: 159 KKITKLDVTPQTQLTTLDCSFNKITELDVSQNKLLNRLNCDTNNI--------------- 203

Query: 526 KSIDVIALARLKHL-------STLHFSKCEELEEWKTDYTSGTVLKSPQP----FVFCS- 573
             +D+    +L  L       + +  +   +L  +       T L          + C  
Sbjct: 204 TKLDLNQNIQLTFLDCSSNKLTEIDVTPLTQLTYFDCSVNPLTELDVSTLSKLTTLHCIQ 263

Query: 574 --LHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPC 631
             L ++ +T   +L           +K L +   T +  +          +         
Sbjct: 264 TDLLEIDLTHNTQLIYFQAE-GCRKIKELDVTHNTQLYLL----------DCQAA----- 307

Query: 632 AKLRKLPLDSNSALEH 647
             + +L L  N  L +
Sbjct: 308 -GITELDLSQNPKLVY 322

>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 = 48.6 bits (116), Expect = 4e-06
 Identities = 46/306 (15%), Positives = 86/306 (28%), Gaps = 60/306 (19%)

Query: 362 CAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKV 421
           C  RGL + PE+     V  + L  N I  L+E                  F  +  L+ 
Sbjct: 17  CINRGLHQVPELPAH--VNYVDLSLNSIAELNE----------------TSFSRLQDLQF 58

Query: 422 LNMSRETNIKEL-LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAK 480
           L + ++T    +     + L +L  + L++ +  + +     +  + L VL L    L  
Sbjct: 59  LKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQ-FLQLETGAFNGLANLEVLTLTQCNLDG 117

Query: 481 ELL------GLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALA 534
            +L       L  LE L                N ++    A     F + +   V+ L 
Sbjct: 118 AVLSGNFFKPLTSLEMLVL------------RDNNIKKIQPASF---FLNMRRFHVLDLT 162

Query: 535 R----------LKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITF--- 581
                      L +    HF+    L        +   L   +         +T      
Sbjct: 163 FNKVKSICEEDLLNFQGKHFTLL-RLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSG 221

Query: 582 ----CPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKL 637
                   K     +    ++ L L +   M        F          +   + ++  
Sbjct: 222 NGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGL-EASGVKTC 280

Query: 638 PLDSNS 643
            L  + 
Sbjct: 281 DLSKSK 286

>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 = 48.8 bits (116), Expect = 5e-06
 Identities = 32/220 (14%), Positives = 58/220 (26%), Gaps = 39/220 (17%)

Query: 379 VRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELK 438
           +   ++  N +  L+       L      I          L +L +    N+ +    L 
Sbjct: 194 LFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQH-NNLTDT-AWLL 251

Query: 439 ALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG---TVLAKELLGLKHLEELDFT- 494
               L  V+L +   L  I         +L  L +       L      +  L+ LD + 
Sbjct: 252 NYPGLVEVDLSYNE-LEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSH 310

Query: 495 --LRCVH-------SLQIL-VSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHF 544
             L  V         L+ L +  N + +                  + L+    L  L  
Sbjct: 311 NHLLHVERNQPQFDRLENLYLDHNSIVT------------------LKLSTHHTLKNLTL 352

Query: 545 SK----CEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTIT 580
           S     C  L     +     V  + Q        +  + 
Sbjct: 353 SHNDWDCNSLRALFRNVARPAVDDADQHCKIDYQLEHGLC 392

>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 = 43.8 bits (103), Expect = 2e-04
 Identities = 40/193 (20%), Positives = 69/193 (35%), Gaps = 32/193 (16%)

Query: 380 RRLSLMQNQIKILSEAP--TCPHLHY------EFKMITDGFFQFMPLLKVLNMSRETNIK 431
           ++L +  N I+ L        P L        +   +  G F   P L  L+MS   N++
Sbjct: 102 QKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSN-NNLE 160

Query: 432 ELLGE-LKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEE 490
            +  +  +A  +L+ + L   R L  + L   S    L    +   +L   L     +EE
Sbjct: 161 RIEDDTFQATTSLQNLQLSSNR-LTHVDL---SLIPSLFHANVSYNLL-STLAIPIAVEE 215

Query: 491 LDFT---LRCVH-----SLQIL-VSSNKLQSCTRALVLIRFKDSKSIDVIALA--RLKHL 539
           LD +   +  V       L IL +  N L             +   +  + L+   L+ +
Sbjct: 216 LDASHNSINVVRGPVNVELTILKLQHNNLTD------TAWLLNYPGLVEVDLSYNELEKI 269

Query: 540 STLHFSKCEELEE 552
               F K + LE 
Sbjct: 270 MYHPFVKMQRLER 282

>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 = 48.7 bits (116), Expect = 5e-06
 Identities = 50/279 (17%), Positives = 100/279 (35%), Gaps = 27/279 (9%)

Query: 344 MALWISCEIEEEKENFLVCAGRGL----KEAPEVKEWETVRRLSLMQNQIKILSEA--PT 397
           + +        E E+ +  + R L    K+ P        + LSL QN I  L       
Sbjct: 20  LIVGSMTPFSNELESMVDYSNRNLTHVPKDLPP-----RTKALSLSQNSISELRMPDISF 74

Query: 398 CPHLHY------EFKMITDGFFQFMPLLKVLNMSRETN-IKELLGELKALVNLKCVNLEW 450
              L          + +    F F   L+ L++S   N ++ +      + +L+ ++L +
Sbjct: 75  LSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVS--HNRLQNI--SCCPMASLRHLDLSF 130

Query: 451 ARDLVTIPL-EVISNFSKLRVLRLFGTVLAK-ELLGLKHLEELDFTLRCVHSLQILVSSN 508
             D   +P+ +   N +KL  L L      + +LL + HL      L  V        + 
Sbjct: 131 -NDFDVLPVCKEFGNLTKLTFLGLSAAKFRQLDLLPVAHLHLSCILLDLVSYHIKGGETE 189

Query: 509 KLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQP 568
            LQ     ++ + F  +    V     +  L  L  S  +  +E      +     +  P
Sbjct: 190 SLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQRLMTFLSELTRGP 249

Query: 569 -FVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCT 606
             +  +L  +  T+   +K   F  +   ++ L++++ T
Sbjct: 250 TLLNVTLQHIETTWKCSVKLFQFF-WPRPVEYLNIYNLT 287

>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 = 48.1 bits (115), Expect = 6e-06
 Identities = 54/296 (18%), Positives = 99/296 (33%), Gaps = 88/296 (29%)

Query: 358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMP 417
             + C+  GL++ P+    +T   L L  N+I                  I DG F+ + 
Sbjct: 34  RVVQCSDLGLEKVPKDLPPDT-ALLDLQNNKI----------------TEIKDGDFKNLK 76

Query: 418 LLKVLNMS--RETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG 475
            L  L +   + + I    G    LV L+ + L   + L  +P ++      L+ LR+  
Sbjct: 77  NLHTLILINNKISKISP--GAFAPLVKLERLYLSKNQ-LKELPEKM---PKTLQELRVHE 130

Query: 476 ---TVLAKELL-GLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVI 531
              T + K +  GL  +  ++            + +N L+             S  I+  
Sbjct: 131 NEITKVRKSVFNGLNQMIVVE------------LGTNPLK-------------SSGIENG 165

Query: 532 ALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFL 591
           A   +K LS +  +                 + +    +  SL ++ +    K+  +   
Sbjct: 166 AFQGMKKLSYIRIADTN--------------ITTIPQGLPPSLTELHLDGN-KITKVDAA 210

Query: 592 VFA--PNLKCLSLFDCTAMEEI--ISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNS 643
                 NL  L L        I  +  G   +TP            LR+L L++N 
Sbjct: 211 SLKGLNNLAKLGLSFN----SISAVDNGSLANTP-----------HLRELHLNNNK 251

>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 = 45.4 bits (108), Expect = 4e-05
 Identities = 25/158 (15%), Positives = 57/158 (36%), Gaps = 29/158 (18%)

Query: 380 RRLSLMQNQIKILSEA--PTCPHL--------HYEFKMITDGFFQFMPLLKVLNMSRETN 429
           + L + +N+I  + ++       +          +   I +G FQ M  L  + ++  TN
Sbjct: 124 QELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIAD-TN 182

Query: 430 IKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG---TVLAKELL-GL 485
           I  +        +L  ++L+  + +  +    +   + L  L L     + +    L   
Sbjct: 183 ITTI--PQGLPPSLTELHLDGNK-ITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANT 239

Query: 486 KHLEELDF----------TLRCVHSLQIL-VSSNKLQS 512
            HL EL             L     +Q++ + +N + +
Sbjct: 240 PHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISA 277

>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 = 47.3 bits (113), Expect = 6e-06
 Identities = 30/201 (14%), Positives = 71/201 (35%), Gaps = 37/201 (18%)

Query: 360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLL 419
                + ++  P +    + + L L++  ++ +                    F  +P +
Sbjct: 16  FRVTCKDIQRIPSLPP--STQTLKLIETHLRTIP----------------SHAFSNLPNI 57

Query: 420 KVLNMSRETNIKEL-LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVL 478
             + +S +  +++L       L  +  + +   R+L  I  + +     L+ L +F T L
Sbjct: 58  SRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGL 117

Query: 479 AK--ELLGLKHLEELDFTLRCVHSLQI-LVSSN---KLQSCTRALVL----IR------F 522
               +L  +   +   F L    +  +  +  N    L + T  L L            F
Sbjct: 118 KMFPDLTKVYSTDIF-FILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAF 176

Query: 523 KDSKSIDVIALARLKHLSTLH 543
             +K +D + L + K+L+ + 
Sbjct: 177 NGTK-LDAVYLNKNKYLTVID 196

>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 = 48.4 bits (116), Expect = 6e-06
 Identities = 41/242 (16%), Positives = 77/242 (31%), Gaps = 49/242 (20%)

Query: 367 LKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSR 426
           + +     + + V  L   +  IK +                     +++  L  +N S 
Sbjct: 36  VTDTVSQTDLDQVTTLQADRLGIKSIDG------------------VEYLNNLTQINFS- 76

Query: 427 ETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAK--ELLG 484
              + + +  LK L  L  + +   + +  I    ++N + L  L LF   +     L  
Sbjct: 77  NNQLTD-ITPLKNLTKLVDILMNNNQ-IADIT--PLANLTNLTGLTLFNNQITDIDPLKN 132

Query: 485 LKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHF 544
           L +L  L+ +   +  +  L     LQ     L       ++  D+  LA L  L  L  
Sbjct: 133 LTNLNRLELSSNTISDISALSGLTSLQQ----LSF----GNQVTDLKPLANLTTLERLDI 184

Query: 545 SKCEELEEWKTDYTSGTVLKSPQPFVFC-SLHKVTITFCPKLKGLTFLVFAPNLKCLSLF 603
           S  +              +          +L  +  T   ++  +T L    NL  LSL 
Sbjct: 185 SSNK--------------VSDISVLAKLTNLESLIATNN-QISDITPLGILTNLDELSLN 229

Query: 604 DC 605
             
Sbjct: 230 GN 231

>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 = 46.9 bits (112), Expect = 2e-05
 Identities = 35/184 (19%), Positives = 61/184 (33%), Gaps = 38/184 (20%)

Query: 380 RRLSLMQNQIKILSEAPTCPHLHY---EFKMITD-GFFQFMPLLKVLNMSRETNIKELLG 435
             LSL  NQ+K +    +  +L         I++      +  L  L +     I  +  
Sbjct: 224 DELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGA-NQISNISP 282

Query: 436 ELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAK--ELLGLKHLEELDF 493
            L  L  L  + L   + L  I    ISN   L  L L+   ++    +  L  L+ L F
Sbjct: 283 -LAGLTALTNLELNENQ-LEDIS--PISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFF 338

Query: 494 ---------TLRCVHSLQIL-VSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLH 543
                    +L  + ++  L    N++                  D+  LA L  ++ L 
Sbjct: 339 YNNKVSDVSSLANLTNINWLSAGHNQIS-----------------DLTPLANLTRITQLG 381

Query: 544 FSKC 547
            +  
Sbjct: 382 LNDQ 385

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

 Score = 42.6 bits (101), Expect = 3e-04
 Identities = 46/260 (17%), Positives = 89/260 (34%), Gaps = 55/260 (21%)

Query: 360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLL 419
           L     G+K    V+    + +++   NQ+  ++                    + +  L
Sbjct: 51  LQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP------------------LKNLTKL 92

Query: 420 KVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLA 479
             + M+    I ++   L  L NL  + L   + +  I    + N + L  L L    ++
Sbjct: 93  VDILMN-NNQIADIT-PLANLTNLTGLTLFNNQ-ITDID--PLKNLTNLNRLELSSNTIS 147

Query: 480 K--ELLGLKHLEELDF--------TLRCVHSLQIL-VSSNKLQSCT-----RALVLIRFK 523
               L GL  L++L F         L  + +L+ L +SSNK+   +       L  +   
Sbjct: 148 DISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIAT 207

Query: 524 DSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFC-SLHKVTITFC 582
           +++  D+  L  L +L  L  +  +              LK         +L  + +   
Sbjct: 208 NNQISDITPLGILTNLDELSLNGNQ--------------LKDIGTLASLTNLTDLDLANN 253

Query: 583 PKLKGLTFLVFAPNLKCLSL 602
            ++  L  L     L  L L
Sbjct: 254 -QISNLAPLSGLTKLTELKL 272

>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 = 47.7 bits (114), Expect = 6e-06
 Identities = 40/222 (18%), Positives = 69/222 (31%), Gaps = 41/222 (18%)

Query: 350 CEIEEEKENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMIT 409
           C    E +    C  +GL+  P      + +R+ L  N+I                  + 
Sbjct: 6   CVCYNEPKVTTSCPQQGLQAVPVGIPAAS-QRIFLHGNRIS----------------HVP 48

Query: 410 DGFFQFMPLLKVLNMSRETNIKEL-LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKL 468
              F+    L +L +     +  +       L  L+ ++L     L ++         +L
Sbjct: 49  AASFRACRNLTILWLHS-NVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRL 107

Query: 469 RVLRLFG---TVLAKELL-GLKHLEELDF-----------TLRCVHSLQILV-SSNKLQS 512
             L L       L   L  GL  L+ L             T R + +L  L    N++ S
Sbjct: 108 HTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISS 167

Query: 513 CTRALVLIRFKDSKSIDVIALA--RLKHLSTLHFSKCEELEE 552
                    F+   S+D + L   R+ H+    F     L  
Sbjct: 168 VPERA----FRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMT 205

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

 Score = 47.1 bits (112), Expect = 1e-05
 Identities = 44/193 (22%), Positives = 70/193 (36%), Gaps = 50/193 (25%)

Query: 360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLL 419
           ++C  + L+E P+     T R L+L +NQI+I+                    F+ +  L
Sbjct: 48  VICVRKNLREVPDGISTNT-RLLNLHENQIQIIKV----------------NSFKHLRHL 90

Query: 420 KVLNMSRETNIKEL-LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG--- 475
           ++L +SR  +I+ + +G    L NL  + L   R L TIP       SKL+ L L     
Sbjct: 91  EILQLSR-NHIRTIEIGAFNGLANLNTLELFDNR-LTTIPNGAFVYLSKLKELWLRNNPI 148

Query: 476 TVLAKELL-GLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALA 534
             +       +  L  LD           L    +L                 I   A  
Sbjct: 149 ESIPSYAFNRIPSLRRLD-----------LGELKRLSY---------------ISEGAFE 182

Query: 535 RLKHLSTLHFSKC 547
            L +L  L+ + C
Sbjct: 183 GLSNLRYLNLAMC 195

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

 Score = 46.5 bits (111), Expect = 2e-05
 Identities = 47/323 (14%), Positives = 84/323 (26%), Gaps = 100/323 (30%)

Query: 346 LWISCEIEEEKENFLVCAGRGLKEAPEVKE---WETVRRLSLMQNQIKILSEA-PTCPHL 401
            W        +        R LK   ++ E         L L    +    +      HL
Sbjct: 49  AWRQANSNNPQIETRTG--RALKATADLLEDATQPGRVALELRSVPLPQFPDQAFRLSHL 106

Query: 402 HY------EFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLV 455
            +          + D   Q    L+ L ++    ++ L   + +L  L+ +++    +L 
Sbjct: 107 QHMTIDAAGLMELPDTMQQ-FAGLETLTLA-RNPLRALPASIASLNRLRELSIRACPELT 164

Query: 456 TIP--------LEVISNFSKLRVLRLFG---TVLAKELLGLKHLEELDFTLRCVHSLQIL 504
            +P                 L+ LRL       L   +  L++L+ L             
Sbjct: 165 ELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLK------------ 212

Query: 505 VSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLK 564
           + ++ L +              +I       L  L  L    C  L  +           
Sbjct: 213 IRNSPLSAL-----------GPAI-----HHLPKLEELDLRGCTALRNY----------- 245

Query: 565 SPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMM 624
              P +F                         LK L L DC+ +  +         P  +
Sbjct: 246 ---PPIFGGR--------------------APLKRLILKDCSNLLTL---------PLDI 273

Query: 625 GNTMDPCAKLRKLPLDSNSALEH 647
                   +L KL L     L  
Sbjct: 274 HR----LTQLEKLDLRGCVNLSR 292

>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 = 44.2 bits (105), Expect = 9e-05
 Identities = 21/117 (17%), Positives = 42/117 (35%), Gaps = 22/117 (18%)

Query: 380 RRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKA 439
           + L +  + +  L  A                    +P L+ L++   T ++        
Sbjct: 209 KSLKIRNSPLSALGPA-----------------IHHLPKLEELDLRGCTALRNYPPIFGG 251

Query: 440 LVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG----TVLAKELLGLKHLEELD 492
              LK + L+   +L+T+PL+ I   ++L  L L G    + L   +  L     + 
Sbjct: 252 RAPLKRLILKDCSNLLTLPLD-IHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIIL 307

>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 = 46.2 bits (110), Expect = 2e-05
 Identities = 41/205 (20%), Positives = 70/205 (34%), Gaps = 38/205 (18%)

Query: 360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHY---EFKMITD-GFFQF 415
                + + +A    E  ++ ++    + IK +      P++         +TD      
Sbjct: 29  DNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKPLAN 88

Query: 416 MPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG 475
           +  L  L +     +K+L   LK L  LK ++LE    +  I    + +  +L  L L  
Sbjct: 89  LKNLGWLFLDE-NKVKDLSS-LKDLKKLKSLSLEHNG-ISDI--NGLVHLPQLESLYLGN 143

Query: 476 TVLAK--ELLGLKHLEELDFT---------LRCVHSLQIL-VSSNKLQSCTRALVLIRFK 523
             +     L  L  L+ L            L  +  LQ L +S N +             
Sbjct: 144 NKITDITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHIS------------ 191

Query: 524 DSKSIDVIALARLKHLSTLHFSKCE 548
                D+ ALA LK+L  L     E
Sbjct: 192 -----DLRALAGLKNLDVLELFSQE 211

>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 = 46.4 bits (111), Expect = 2e-05
 Identities = 28/124 (22%), Positives = 46/124 (37%), Gaps = 17/124 (13%)

Query: 380 RRLSLMQNQIKILSEAPTCPHLHY---EFKMITD-GFFQFMPLLKVLNMSRETNIKEL-- 433
             L +  N+I  LS       L +       I+D    + +  LK+LN+     I ++  
Sbjct: 224 NSLKIGNNKITDLSPLANLSQLTWLEIGTNQISDINAVKDLTKLKMLNVGS-NQISDISV 282

Query: 434 LGELKALVNLKCVNLEWARD--LVTIPLEVISNFSKLRVLRLFGTVLAK--ELLGLKHLE 489
           L  L  L +L      +  +  L    +EVI   + L  L L    +     L  L  ++
Sbjct: 283 LNNLSQLNSL------FLNNNQLGNEDMEVIGGLTNLTTLFLSQNHITDIRPLASLSKMD 336

Query: 490 ELDF 493
             DF
Sbjct: 337 SADF 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 = 46.0 bits (110), Expect = 2e-05
 Identities = 38/256 (14%), Positives = 79/256 (30%), Gaps = 59/256 (23%)

Query: 367 LKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHY------EFKMITDGFFQFMPLLK 420
           + +    +E E++ +L +   ++  +       +L Y      +   I+      +  L 
Sbjct: 34  VTDVVTQEELESITKLVVAGEKVASIQGIEYLTNLEYLNLNGNQITDISP--LSNLVKLT 91

Query: 421 VLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG---TV 477
            L +     I ++   L+ L NL+ + L     +  I    ++N +K+  L L       
Sbjct: 92  NLYIG-TNKITDI-SALQNLTNLRELYLNEDN-ISDIS--PLANLTKMYSLNLGANHNLS 146

Query: 478 LAKELLGLKHLEELDF---------TLRCVHSLQIL-VSSNKLQSCTRALVLIRFKDSKS 527
               L  +  L  L            +  +  L  L ++ N+++                
Sbjct: 147 DLSPLSNMTGLNYLTVTESKVKDVTPIANLTDLYSLSLNYNQIE---------------- 190

Query: 528 IDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFC-SLHKVTITFCPKLK 586
            D+  LA L  L        +              +    P      L+ + I    K+ 
Sbjct: 191 -DISPLASLTSLHYFTAYVNQ--------------ITDITPVANMTRLNSLKIGNN-KIT 234

Query: 587 GLTFLVFAPNLKCLSL 602
            L+ L     L  L +
Sbjct: 235 DLSPLANLSQLTWLEI 250

>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 = 46.6 bits (111), Expect = 2e-05
 Identities = 51/300 (17%), Positives = 101/300 (33%), Gaps = 48/300 (16%)

Query: 354 EEKENFLV-CAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGF 412
           E   N    C      + P+     + + L L  N ++ L                    
Sbjct: 5   EVVPNITYQCMELNFYKIPDNLP-FSTKNLDLSFNPLRHLGSYS---------------- 47

Query: 413 FQFMPLLKVLNMSRETNIKEL-LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVL 471
           F   P L+VL++SR   I+ +  G  ++L +L  + L     + ++ L   S  S L+ L
Sbjct: 48  FFSFPELQVLDLSR-CEIQTIEDGAYQSLSHLSTLILTGNP-IQSLALGAFSGLSSLQKL 105

Query: 472 RLFGTVLAKELLGLKHLEELDFTLRCVHSLQIL-VSSNKLQSCTRALVLIRFKDSKSIDV 530
               T        L  LE  +F +  + +L+ L V+ N +QS         F +  +++ 
Sbjct: 106 VAVET-------NLASLE--NFPIGHLKTLKELNVAHNLIQSFKLPEY---FSNLTNLEH 153

Query: 531 IALA--RLKHLSTLHFSKCEELE-EWKTDYTSGTVLKSPQPFVF--CSLHKVTITFCPKL 585
           + L+  +++ +         ++     +   S   +   QP  F    LHK+T+      
Sbjct: 154 LDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDS 213

Query: 586 KGLTFLVFA--PNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNS 643
             +          L+   L     + E  + G      +   + ++    L         
Sbjct: 214 LNVMKTCIQGLAGLEVHRL----VLGEFRNEGNLEKFDK---SALEGLCNLTIEEFRLAY 266

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

 Score = 45.9 bits (109), Expect = 4e-05
 Identities = 35/215 (16%), Positives = 61/215 (28%), Gaps = 65/215 (30%)

Query: 380 RRLSLMQNQIKILSEAPTCPHLHY--------EFKMITDGFFQFMPLLKVLNMSRETNIK 431
           +RL+   N+          P L +         FK            LK L++S    + 
Sbjct: 328 KRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSF-NGVI 386

Query: 432 ELLGELKALVNLKCVNLEWAR------------------------DLVTIPLEVISNFSK 467
            +      L  L+ ++ + +                                 + +  S 
Sbjct: 387 TMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSS 446

Query: 468 LRVLRLFG-----TVLAKELLGLKHLEELDF-----------TLRCVHSLQIL-VSSNKL 510
           L VL++ G       L      L++L  LD                + SLQ+L ++SN+L
Sbjct: 447 LEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQL 506

Query: 511 QSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFS 545
                          KS+      RL  L  +   
Sbjct: 507 ---------------KSVPDGIFDRLTSLQKIWLH 526

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

 Score = 45.1 bits (107), Expect = 7e-05
 Identities = 45/286 (15%), Positives = 91/286 (31%), Gaps = 71/286 (24%)

Query: 355 EKENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGF-F 413
              + +      +K+      W+ +  ++    Q   L    +   L +      + F  
Sbjct: 285 SSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLK-LKSLKRLTFTSNKGGNAFSE 343

Query: 414 QFMPLLKVLNMSR--ETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVL 471
             +P L+ L++SR   +             +LK ++L +   ++T+         +L  L
Sbjct: 344 VDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNG-VITMS-SNFLGLEQLEHL 401

Query: 472 RLFGTVL-----AKELLGLKHLEELDF-----------TLRCVHSLQIL-VSSNKLQSCT 514
               + L         L L++L  LD                + SL++L ++ N  Q   
Sbjct: 402 DFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQE-- 459

Query: 515 RALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSL 574
                       +        L++L+ L  S+C+              L+   P  F SL
Sbjct: 460 ------------NFLPDIFTELRNLTFLDLSQCQ--------------LEQLSPTAFNSL 493

Query: 575 HKVT--------ITFCPK--LKGLTFLVFAPNLKCLSL----FDCT 606
             +         +   P      LT      +L+ + L    +DC+
Sbjct: 494 SSLQVLNMASNQLKSVPDGIFDRLT------SLQKIWLHTNPWDCS 533

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

 Score = 46.2 bits (110), Expect = 2e-05
 Identities = 21/151 (13%), Positives = 42/151 (27%), Gaps = 23/151 (15%)

Query: 379 VRRLSLMQNQIKILSEAPTCPHLHYEF---KMITDGFFQFMPLLKVLNMSRETNIKELLG 435
           +   ++  N +  L+       L        ++          L +L +    N+ +   
Sbjct: 188 LFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVE---LTILKLQH-NNLTDT-A 242

Query: 436 ELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG---TVLAKELLGLKHLEELD 492
            L     L  V+L +   L  I         +L  L +       L      +  L+ LD
Sbjct: 243 WLLNYPGLVEVDLSYNE-LEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLD 301

Query: 493 F----------TLRCVHSLQIL-VSSNKLQS 512
                             L+ L +  N + +
Sbjct: 302 LSHNHLLHVERNQPQFDRLENLYLDHNSIVT 332

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

 Score = 43.9 bits (104), Expect = 1e-04
 Identities = 40/193 (20%), Positives = 69/193 (35%), Gaps = 32/193 (16%)

Query: 380 RRLSLMQNQIKILSEA--PTCPHLHY------EFKMITDGFFQFMPLLKVLNMSRETNIK 431
           ++L +  N I+ L        P L        +   +  G F   P L  L+MS   N++
Sbjct: 96  QKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSN-NNLE 154

Query: 432 ELLGE-LKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEE 490
            +  +  +A  +L+ + L   R L  + L   S    L    +   +L   L     +EE
Sbjct: 155 RIEDDTFQATTSLQNLQLSSNR-LTHVDL---SLIPSLFHANVSYNLL-STLAIPIAVEE 209

Query: 491 LDFT---LRCVH-----SLQIL-VSSNKLQSCTRALVLIRFKDSKSIDVIALA--RLKHL 539
           LD +   +  V       L IL +  N L             +   +  + L+   L+ +
Sbjct: 210 LDASHNSINVVRGPVNVELTILKLQHNNLTD------TAWLLNYPGLVEVDLSYNELEKI 263

Query: 540 STLHFSKCEELEE 552
               F K + LE 
Sbjct: 264 MYHPFVKMQRLER 276

>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 = 45.9 bits (109), Expect = 3e-05
 Identities = 64/304 (21%), Positives = 100/304 (32%), Gaps = 83/304 (27%)

Query: 360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLL 419
           +VC  RGL E P+     T R L+LM+N I+++                    F+ +  L
Sbjct: 59  VVCTRRGLSEVPQGIPSNT-RYLNLMENNIQMIQA----------------DTFRHLHHL 101

Query: 420 KVLNMSRETNIKEL-LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG--- 475
           +VL + R  +I+++ +G    L +L  + L     L  IP       SKLR L L     
Sbjct: 102 EVLQLGR-NSIRQIEVGAFNGLASLNTLELFDNW-LTVIPSGAFEYLSKLRELWLRNNPI 159

Query: 476 TVLAKELL-GLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALA 534
             +       +  L  LD           L    KL+                I   A  
Sbjct: 160 ESIPSYAFNRVPSLMRLD-----------LGELKKLEY---------------ISEGAFE 193

Query: 535 RLKHLSTLH-----------FSKCEELEEWKTDYTSGTVLKSPQPFVF---CSLHKVTIT 580
            L +L  L+            +    LEE      SG      +P  F    SL K+ + 
Sbjct: 194 GLFNLKYLNLGMCNIKDMPNLTPLVGLEEL---EMSGNHFPEIRPGSFHGLSSLKKLWVM 250

Query: 581 FCPKLKGLTFLVFA--PNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLP 638
              ++  +    F    +L  L+L     +  +         P    +   P   L +L 
Sbjct: 251 NS-QVSLIERNAFDGLASLVELNLAHN-NLSSL---------PH---DLFTPLRYLVELH 296

Query: 639 LDSN 642
           L  N
Sbjct: 297 LHHN 300

>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 = 45.2 bits (107), Expect = 4e-05
 Identities = 49/321 (15%), Positives = 91/321 (28%), Gaps = 66/321 (20%)

Query: 360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLL 419
            +C    + E P          L  +  +++                +I  G F     L
Sbjct: 14  FLCQESKVTEIPSDLPRNA-IELRFVLTKLR----------------VIQKGAFSGFGDL 56

Query: 420 KVLNMSRETNIKELL--GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV 477
           + + +S + ++ E++       L  L  + +E A +L+ I  E   N   L+ L +  T 
Sbjct: 57  EKIEIS-QNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTG 115

Query: 478 LAK-------ELLGLKHLEELD-----------FTLRCVHSLQILVSSNKLQS------- 512
           +           L    L+  D           F      S+ + ++ N +Q        
Sbjct: 116 IKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFN 175

Query: 513 CTRALVLIRFKDSKSIDVI---ALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPF 569
            T+   L    D+ +++ +             L                S T + S   +
Sbjct: 176 GTQLDEL-NLSDNNNLEELPNDVFHGASGPVILDI--------------SRTRIHSLPSY 220

Query: 570 VFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSL---FDCTAMEEIISAGKFVHTPEMMGN 626
              +L K+       LK L  L     L   SL     C A          +H       
Sbjct: 221 GLENLKKLRARSTYNLKKLPTLEKLVALMEASLTYPSHCCAFANWRRQISELHPICNKSI 280

Query: 627 TMDPCAKLRKLPLDSNSALEH 647
                  + +     +S  E 
Sbjct: 281 LRQEVDYMTQARGQRSSLAED 301

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

 Score = 45.6 bits (108), Expect = 5e-05
 Identities = 31/213 (14%), Positives = 55/213 (25%), Gaps = 74/213 (34%)

Query: 380 RRLSLMQNQIKILSEAPTCPHLHY------EFKMITDGFFQFMPLLKVLNMS-------- 425
             L  + N+++ L    T   L        + + I + F  F   ++ L  S        
Sbjct: 576 GLLDCVHNKVRHLEAFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNKLKYIP 635

Query: 426 RETNIKEL--LGEL--------------------KALVNLKCVNLEWARDLVTIPLEVIS 463
              N K +  +G +                       +N   V L +   +   P E+ +
Sbjct: 636 NIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNE-IQKFPTELFA 694

Query: 464 NFSKLRVLRL-----------FGTVLAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQS 512
             S +  + L                         L  +D            +  NKL S
Sbjct: 695 TGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTID------------LRFNKLTS 742

Query: 513 CTRALVLIRFKDSKSIDVIALARLKHLSTLHFS 545
                  +        D      L +LS +  S
Sbjct: 743 -------L-------SDDFRATTLPYLSNMDVS 761

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

 Score = 41.8 bits (98), Expect = 7e-04
 Identities = 19/154 (12%), Positives = 42/154 (27%), Gaps = 44/154 (28%)

Query: 418 LLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG-- 475
             +  N       +        L +L  V L    ++  +P + + +  +L+ L +    
Sbjct: 468 DWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLP-DFLYDLPELQSLNIACNR 526

Query: 476 -----------TVLAKELLGLKHLEELDF------------TLRCVHSLQIL-VSSNKLQ 511
                      T LA +      ++                +L+ +  L +L    NK++
Sbjct: 527 GISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHNKVR 586

Query: 512 SCTRALVLIRFKDSKSIDVIALARLKHLSTLHFS 545
                             + A      L+ L   
Sbjct: 587 H-----------------LEAFGTNVKLTDLKLD 603

>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 = 44.7 bits (106), Expect = 6e-05
 Identities = 34/209 (16%), Positives = 74/209 (35%), Gaps = 26/209 (12%)

Query: 360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHY---EFKMITD-GFFQF 415
           +      + +     + + +  LS     +  +       +L     +   ITD    + 
Sbjct: 24  IAAGKSNVTDTVTQADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITDLAPLKN 83

Query: 416 MPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG 475
           +  +  L +S    +K +   +  L ++K ++L   + +  +    ++  S L+VL L  
Sbjct: 84  LTKITELELSG-NPLKNVSA-IAGLQSIKTLDLTSTQ-ITDV--TPLAGLSNLQVLYLDL 138

Query: 476 TVLAK--ELLGLKHLEELDF---------TLRCVHSLQIL-VSSNKLQS-----CTRALV 518
             +     L GL +L+ L            L  +  L  L    NK+           L+
Sbjct: 139 NQITNISPLAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLKADDNKISDISPLASLPNLI 198

Query: 519 LIRFKDSKSIDVIALARLKHLSTLHFSKC 547
            +  K+++  DV  LA   +L  +  +  
Sbjct: 199 EVHLKNNQISDVSPLANTSNLFIVTLTNQ 227

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

 Score = 45.0 bits (107), Expect = 6e-05
 Identities = 25/186 (13%), Positives = 46/186 (24%), Gaps = 60/186 (32%)

Query: 380 RRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSR-------ETNIKE 432
             LS   N++K +                     + + ++  ++ S          N   
Sbjct: 380 ENLSFAHNKLKYIPN---------------IFDAKSVSVMSAIDFSYNEIGSVDGKNFDP 424

Query: 433 LLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRL-----------FGTVLAKE 481
           L       +N+  +NL   + +   P E+ S  S L  + L                 + 
Sbjct: 425 LDPTPFKGINVSSINLSNNQ-ISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENEN 483

Query: 482 LLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLST 541
                 L  +D            +  NKL                  D      L +L  
Sbjct: 484 FKNTYLLTSID------------LRFNKLTK--------------LSDDFRATTLPYLVG 517

Query: 542 LHFSKC 547
           +  S  
Sbjct: 518 IDLSYN 523

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 43.5 bits (103), Expect = 1e-04
 Identities = 40/213 (18%), Positives = 68/213 (31%), Gaps = 48/213 (22%)

Query: 358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMP 417
             + C+  GLK  P+    +T   L L  N I                  +    F+ + 
Sbjct: 36  RVVQCSDLGLKAVPKEISPDT-TLLDLQNNDI----------------SELRKDDFKGLQ 78

Query: 418 LLKVLNMS--RETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG 475
            L  L +   + + I E       L  L+ + +     LV IP  +    S L  LR+  
Sbjct: 79  HLYALVLVNNKISKIHE--KAFSPLRKLQKLYISKNH-LVEIPPNL---PSSLVELRIHD 132

Query: 476 ---TVLAKELL-GLKHLEELD-----FTLRCVH-------SLQIL-VSSNKLQS----CT 514
                + K +  GL+++  ++                    L  L +S  KL        
Sbjct: 133 NRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKLNYLRISEAKLTGIPKDLP 192

Query: 515 RALVLIRFKDSK--SIDVIALARLKHLSTLHFS 545
             L  +    +K  +I++  L R   L  L   
Sbjct: 193 ETLNELHLDHNKIQAIELEDLLRYSKLYRLGLG 225

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 42.7 bits (101), Expect = 2e-04
 Identities = 28/158 (17%), Positives = 55/158 (34%), Gaps = 30/158 (18%)

Query: 380 RRLSLMQNQIKILSEA--PTCPHLHY--------EFKMITDGFFQFMPLLKVLNMSRETN 429
             L +  N+I+ + +       +++         E      G F  + L   L +S    
Sbjct: 126 VELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKL-NYLRISE-AK 183

Query: 430 IKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG---TVLAKELL-GL 485
           +  +         L  ++L+  + +  I LE +  +SKL  L L      ++    L  L
Sbjct: 184 LTGI--PKDLPETLNELHLDHNK-IQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFL 240

Query: 486 KHLEELDF----------TLRCVHSLQIL-VSSNKLQS 512
             L EL             L  +  LQ++ + +N +  
Sbjct: 241 PTLRELHLDNNKLSRVPAGLPDLKLLQVVYLHTNNITK 278

>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 = 42.3 bits (100), Expect = 2e-04
 Identities = 19/177 (10%), Positives = 51/177 (28%), Gaps = 39/177 (22%)

Query: 377 ETVRRLSLMQNQIKILSEAPTCPHLHY---EFKMITD-GFFQFMPLLKVLNMSRETNIK- 431
            ++  ++L    +  L+      ++          T+      +  L+ L +    ++  
Sbjct: 44  NSLTYITLANINVTDLTGIEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMG-KDVTS 102

Query: 432 ELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVL---AKELLGLKHL 488
           + +  L  L +L  +++  +       L  I+   K+  + L           L  L  L
Sbjct: 103 DKIPNLSGLTSLTLLDISHSA-HDDSILTKINTLPKVNSIDLSYNGAITDIMPLKTLPEL 161

Query: 489 EELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFS 545
           + L+            +  + +                  D   +     L+ L+  
Sbjct: 162 KSLN------------IQFDGVH-----------------DYRGIEDFPKLNQLYAF 189

>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 = 41.6 bits (98), Expect = 6e-04
 Identities = 25/177 (14%), Positives = 53/177 (29%), Gaps = 28/177 (15%)

Query: 380 RRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELL--GEL 437
             L L  N +  LS                  +F+ +  L  LN+      K L      
Sbjct: 103 EHLDLSYNYLSNLSS----------------SWFKPLSSLTFLNLLG-NPYKTLGETSLF 145

Query: 438 KALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG----TVLAKELLGLKHLEELDF 493
             L  L+ + +        I  +  +  + L  L +      +   K L  ++++  L  
Sbjct: 146 SHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLIL 205

Query: 494 TLRCVHSL-----QILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFS 545
            ++    L      +  S   L+     L    F +  + +  +L +      +  +
Sbjct: 206 HMKQHILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKIT 262

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	680
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.9
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.81
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.8
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.79
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.76
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.76
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.75
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.75
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.73
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.72
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.71
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.71
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.7
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.7
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.7
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.69
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.69
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.69
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.69
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.68
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.68
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.68
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.68
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.67
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.67
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.67
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.67
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.67
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.67
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.66
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.66
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.65
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.65
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.65
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.64
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.64
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.64
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.64
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.64
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.63
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.63
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.63
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.63
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.62
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.62
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.62
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.61
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.61
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.61
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.61
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.61
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.6
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.59
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.59
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.58
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.58
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.58
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.58
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.58
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.57
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.56
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.56
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.55
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.55
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.55
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.55
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.53
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.53
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.52
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.52
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.52
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.51
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.51
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.51
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.51
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.51
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.5
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.5
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.5
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.49
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.49
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.47
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.47
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.46
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.45
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.44
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.44
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.4
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.4
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.37
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.36
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.33
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.32
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.32
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.29
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.28
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.26
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.26
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.24
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.21
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.2
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.19
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.18
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.18
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.14
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.14
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.14
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.13
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.11
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.11
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.1
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.07
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.07
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.06
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.06
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.05
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.05
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.03
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.02
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.02
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.01
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	98.99
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.93
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	98.92
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.87
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.84
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.79
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.77
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.77
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.76
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.76
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.75
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.74
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.71
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.71
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.69
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.69
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.69
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.68
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.67
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.63
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.59
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.54
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.5
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.46
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.43
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.26
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.25
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.23
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.18
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.07
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	97.88
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.87
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.57
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.56
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	97.4
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.36
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.15
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.08
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.08
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.02
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	96.68
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	96.59
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.17
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.96
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	90.53
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	89.28
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	87.84
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	81.07

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

Probab=99.90  E-value=6.2e-25  Score=244.68  Aligned_cols=143  Identities=13%  Similarity=0.134  Sum_probs=114.9

Q ss_pred             ccHHHHHHHHHHHhCCChhHHHHHHHHhccCCCHHHHHHHHHHHhcCCCccccCChhhHHHHHHHhHhcCCchhHHHHHH
Q 041114          197 HDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSEFAGLVKEVYPLLKFSYDSLQNDVIRSCFL  276 (680)
Q Consensus       197 ~~l~~~~~~I~~kc~GlPLai~~lg~~L~~k~~~~~W~~~l~~l~~~~~~~~~~~~~~i~~~L~~Sy~~L~~~~lk~cfl  276 (680)
                      +++++++++|+++|+|+||||+++|+.|+.+ +   |+.+ +.+.. ..+...  .+++.+++.+||++||+ ++|.||+
T Consensus       313 ~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~-~---w~~~-~~l~~-~l~~~~--~~~i~~~l~~Sy~~L~~-~lk~~f~  383 (549)
T 2a5y_B          313 EKEEDVLNKTIELSSGNPATLMMFFKSCEPK-T---FEKM-AQLNN-KLESRG--LVGVECITPYSYKSLAM-ALQRCVE  383 (549)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSS-S---HHHH-HHHHH-HHHHHC--SSTTCCCSSSSSSSHHH-HHHHHHH
T ss_pred             hhHHHHHHHHHHHhCCChHHHHHHHHHhccc-h---HHHH-HHhHH-Hhhccc--HHHHHHHHhcccccccH-HHHHHHh
Confidence            6678899999999999999999999999874 3   4443 44544 333221  23688999999999999 9999999


Q ss_pred             -----------HhcccCCCcccChHHHHHHHHHc--CCcCCCC-hhhHHHHHHHHHHHHHHccccccc---CcccEEech
Q 041114          277 -----------YCCLYPEDFAILKRDLIDCWIGE--GFLDERD-SFSAQNQGYYIVGTLVHAWLLEEV---GDDKVKLHG  339 (680)
Q Consensus       277 -----------~~s~Fp~~~~i~~~~Li~~Wiae--g~i~~~~-~~~~~~~g~~~~~~L~~~~ll~~~---~~~~~~mhd  339 (680)
                                 |||+||+++.|+    +++|+|+  ||+...+ ....++.++ ||++|+++||+++.   ....|+|||
T Consensus       384 ~Ls~~er~l~~~ls~fp~~~~i~----i~~w~a~~~G~i~~~~~~~~~~~~~~-~l~~L~~rsLl~~~~~~~~~~~~mHd  458 (549)
T 2a5y_B          384 VLSDEDRSALAFAVVMPPGVDIP----VKLWSCVIPVDICSNEEEQLDDEVAD-RLKRLSKRGALLSGKRMPVLTFKIDH  458 (549)
T ss_dssp             TSCHHHHHHTTGGGSSCTTCCEE----HHHHHHHSCC-------CCCTHHHHH-HHHHTTTBSSCSEEECSSSCEEECCH
T ss_pred             ccchhhhhHhhheeeeCCCCeee----eeeeeeeccceeccCCCCCCHHHHHH-HHHHHHHcCCeeEecCCCceEEEeCh
Confidence                       999999999999    8999999  9998844 666788888 99999999999986   345799999


Q ss_pred             hHHHHHHHHHhhhh
Q 041114          340 VLHDMALWISCEIE  353 (680)
Q Consensus       340 l~~d~a~~i~~~~~  353 (680)
                      ++|++|++++.+++
T Consensus       459 lv~~~a~~~~~~~~  472 (549)
T 2a5y_B          459 IIHMFLKHVVDAQT  472 (549)
T ss_dssp             HHHHHHHTTSCTHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999987743

>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=99.81  E-value=1.2e-19  Score=188.91  Aligned_cols=228  Identities=18%  Similarity=0.207  Sum_probs=156.1

Q ss_pred             ccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhh
Q 041114          403 YEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKEL  482 (680)
Q Consensus       403 ~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l  482 (680)
                      +.+..+|+. +.++++|++|+|++| .+..+|..++++++|++|+|++| .+..+|.. ++++++|++|++++|.....+
T Consensus        91 n~l~~lp~~-l~~l~~L~~L~L~~n-~l~~lp~~~~~l~~L~~L~Ls~n-~l~~lp~~-l~~l~~L~~L~L~~n~~~~~~  166 (328)
T 4fcg_A           91 VPLPQFPDQ-AFRLSHLQHMTIDAA-GLMELPDTMQQFAGLETLTLARN-PLRALPAS-IASLNRLRELSIRACPELTEL  166 (328)
T ss_dssp             SCCSSCCSC-GGGGTTCSEEEEESS-CCCCCCSCGGGGTTCSEEEEESC-CCCCCCGG-GGGCTTCCEEEEEEETTCCCC
T ss_pred             CCchhcChh-hhhCCCCCEEECCCC-CccchhHHHhccCCCCEEECCCC-ccccCcHH-HhcCcCCCEEECCCCCCcccc
Confidence            344456655 444666666666663 55566666666666666666666 56666665 666666666666665433322


Q ss_pred             cCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCc
Q 041114          483 LGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTV  562 (680)
Q Consensus       483 ~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~  562 (680)
                      +.  .+....+           ......+++|+.|+++++. +..++. .+..+++|++|+++++. +..++..      
T Consensus       167 p~--~~~~~~~-----------~~~~~~l~~L~~L~L~~n~-l~~lp~-~l~~l~~L~~L~L~~N~-l~~l~~~------  224 (328)
T 4fcg_A          167 PE--PLASTDA-----------SGEHQGLVNLQSLRLEWTG-IRSLPA-SIANLQNLKSLKIRNSP-LSALGPA------  224 (328)
T ss_dssp             CS--CSEEEC------------CCCEEESTTCCEEEEEEEC-CCCCCG-GGGGCTTCCEEEEESSC-CCCCCGG------
T ss_pred             Ch--hHhhccc-----------hhhhccCCCCCEEECcCCC-cCcchH-hhcCCCCCCEEEccCCC-CCcCchh------
Confidence            21  0000000           0001124588899998886 556664 68899999999999864 4444332      


Q ss_pred             cCCCCCCCCCCccEEeeeCCCCCCCCC-CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCC
Q 041114          563 LKSPQPFVFCSLHKVTITFCPKLKGLT-FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDS  641 (680)
Q Consensus       563 l~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~  641 (680)
                           +..+++|+.|++++|.....+| .++.+++|++|++++|+....+|..  ++.+++|+.|++++|+.+..+|..+
T Consensus       225 -----l~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~~p~~--~~~l~~L~~L~L~~n~~~~~iP~~l  297 (328)
T 4fcg_A          225 -----IHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLD--IHRLTQLEKLDLRGCVNLSRLPSLI  297 (328)
T ss_dssp             -----GGGCTTCCEEECTTCTTCCBCCCCTTCCCCCCEEECTTCTTCCBCCTT--GGGCTTCCEEECTTCTTCCCCCGGG
T ss_pred             -----hccCCCCCEEECcCCcchhhhHHHhcCCCCCCEEECCCCCchhhcchh--hhcCCCCCEEeCCCCCchhhccHHH
Confidence                 2678999999999998887776 4789999999999999888777653  4789999999999999999999887


Q ss_pred             ccccCcceEEeccccccccCccC
Q 041114          642 NSALEHKIAIRGEAGWWGCLQWE  664 (680)
Q Consensus       642 ~~~l~~L~i~~~~~~~~~~l~w~  664 (680)
                      .. +..|.+...+..+...+.+.
T Consensus       298 ~~-L~~L~~l~l~~~~~~~l~~~  319 (328)
T 4fcg_A          298 AQ-LPANCIILVPPHLQAQLDQH  319 (328)
T ss_dssp             GG-SCTTCEEECCGGGSCC----
T ss_pred             hh-ccCceEEeCCHHHHHHHhhh
Confidence            76 89999999988877766654

>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=99.80  E-value=2.5e-19  Score=186.44  Aligned_cols=212  Identities=18%  Similarity=0.216  Sum_probs=145.8

Q ss_pred             cceEEEEeecccccccccC-CCCccc------cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEecc
Q 041114          377 ETVRRLSLMQNQIKILSEA-PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLE  449 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~-~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~  449 (680)
                      ..++.|.+.++.+..+|.. ..+++|      ++.+..+|.. |.++++|++|+|++| .+..+|..+++|++|++|+++
T Consensus        81 ~~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           81 PGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDT-MQQFAGLETLTLARN-PLRALPASIASLNRLRELSIR  158 (328)
T ss_dssp             TTCCEEEEESSCCSSCCSCGGGGTTCSEEEEESSCCCCCCSC-GGGGTTCSEEEEESC-CCCCCCGGGGGCTTCCEEEEE
T ss_pred             cceeEEEccCCCchhcChhhhhCCCCCEEECCCCCccchhHH-HhccCCCCEEECCCC-ccccCcHHHhcCcCCCEEECC
Confidence            3556666666666655543 223333      4555577776 789999999999995 888999999999999999999


Q ss_pred             CCCCccccchhhhcC---------CCCCcEeeccCCcchhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEe
Q 041114          450 WARDLVTIPLEVISN---------FSKLRVLRLFGTVLAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLI  520 (680)
Q Consensus       450 ~~~~l~~lP~~~i~~---------L~~L~~L~l~~~~~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~  520 (680)
                      +|..+..+|.. ++.         +++|++|++++|.                    ..   .++.....+++|+.|+++
T Consensus       159 ~n~~~~~~p~~-~~~~~~~~~~~~l~~L~~L~L~~n~--------------------l~---~lp~~l~~l~~L~~L~L~  214 (328)
T 4fcg_A          159 ACPELTELPEP-LASTDASGEHQGLVNLQSLRLEWTG--------------------IR---SLPASIANLQNLKSLKIR  214 (328)
T ss_dssp             EETTCCCCCSC-SEEEC-CCCEEESTTCCEEEEEEEC--------------------CC---CCCGGGGGCTTCCEEEEE
T ss_pred             CCCCccccChh-HhhccchhhhccCCCCCEEECcCCC--------------------cC---cchHhhcCCCCCCEEEcc
Confidence            98778889986 654         5666666665542                    21   222222333467777777


Q ss_pred             ccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC-CcCCCCCCCE
Q 041114          521 RFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT-FLVFAPNLKC  599 (680)
Q Consensus       521 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~  599 (680)
                      ++. +..++. .+..+++|+.|++++|.....++ ..          +..+++|++|+|++|...+.+| .++.+++|++
T Consensus       215 ~N~-l~~l~~-~l~~l~~L~~L~Ls~n~~~~~~p-~~----------~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~  281 (328)
T 4fcg_A          215 NSP-LSALGP-AIHHLPKLEELDLRGCTALRNYP-PI----------FGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEK  281 (328)
T ss_dssp             SSC-CCCCCG-GGGGCTTCCEEECTTCTTCCBCC-CC----------TTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCE
T ss_pred             CCC-CCcCch-hhccCCCCCEEECcCCcchhhhH-HH----------hcCCCCCCEEECCCCCchhhcchhhhcCCCCCE
Confidence            765 334443 57778888888888776655432 22          2567888888888888777766 5778888888


Q ss_pred             EeEecCcchhHhhhcCCCCCCCcccccCcc
Q 041114          600 LSLFDCTAMEEIISAGKFVHTPEMMGNTMD  629 (680)
Q Consensus       600 L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~  629 (680)
                      |+|++|+.+..+|..  ++.+++|+.+.+.
T Consensus       282 L~L~~n~~~~~iP~~--l~~L~~L~~l~l~  309 (328)
T 4fcg_A          282 LDLRGCVNLSRLPSL--IAQLPANCIILVP  309 (328)
T ss_dssp             EECTTCTTCCCCCGG--GGGSCTTCEEECC
T ss_pred             EeCCCCCchhhccHH--HhhccCceEEeCC
Confidence            888888877777653  3666666665544

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

Probab=99.79  E-value=1.1e-19  Score=223.25  Aligned_cols=140  Identities=20%  Similarity=0.217  Sum_probs=119.3

Q ss_pred             cHHHHHHHHHHHhCCChhHHHHHHHHhccCCCHHHHHHHHHHHhcCCCccc-c----CChhhHHHHHHHhHhcCCchhHH
Q 041114          198 DILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSEF-A----GLVKEVYPLLKFSYDSLQNDVIR  272 (680)
Q Consensus       198 ~l~~~~~~I~~kc~GlPLai~~lg~~L~~k~~~~~W~~~l~~l~~~~~~~~-~----~~~~~i~~~L~~Sy~~L~~~~lk  272 (680)
                      ++.+++++|+++|+|+||||+++|+.|+.+.  ..|..+++.+.. ..+.. .    ...+.+..++.+||+.||+ ++|
T Consensus       305 ~~~~~~~~i~~~~~glPLal~~~~~~l~~~~--~~~~~~l~~l~~-~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~-~~~  380 (1249)
T 3sfz_A          305 DLPAEAHSIIKECKGSPLVVSLIGALLRDFP--NRWAYYLRQLQN-KQFKRIRKSSSYDYEALDEAMSISVEMLRE-DIK  380 (1249)
T ss_dssp             TCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS--SCHHHHHHHHHS-CCCCCSSCTTCTTHHHHHHHHHHHHHTSCT-TTH
T ss_pred             hCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh--hHHHHHHHHHhh-hhhhhcccccccchHHHHHHHHHHHHhCCH-HHH
Confidence            4456799999999999999999999998843  579999999987 54432 1    1224699999999999999 899


Q ss_pred             HHHHHhcccCCCcccChHHHHHHHHHcCCcCCCChhhHHHHHHHHHHHHHHcccccccCc---ccEEechhHHHHHHHHH
Q 041114          273 SCFLYCCLYPEDFAILKRDLIDCWIGEGFLDERDSFSAQNQGYYIVGTLVHAWLLEEVGD---DKVKLHGVLHDMALWIS  349 (680)
Q Consensus       273 ~cfl~~s~Fp~~~~i~~~~Li~~Wiaeg~i~~~~~~~~~~~g~~~~~~L~~~~ll~~~~~---~~~~mhdl~~d~a~~i~  349 (680)
                      .||+|||+||+++.|+++.++.+|.++           ++.++.++++|+++||++....   ..|+|||++|++++..+
T Consensus       381 ~~~~~l~~f~~~~~i~~~~~~~~~~~~-----------~~~~~~~l~~L~~~sl~~~~~~~~~~~~~~h~l~~~~~~~~~  449 (1249)
T 3sfz_A          381 DYYTDLSILQKDVKVPTKVLCVLWDLE-----------TEEVEDILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKN  449 (1249)
T ss_dssp             HHHHHGGGSCTTCCEEHHHHHHHHTCC-----------HHHHHHHHHHHHHTTSCEEEESSSSEEEECCHHHHHHHHHHT
T ss_pred             HHHHHhCccCCCCeeCHHHHHHHhCCC-----------HHHHHHHHHHHHhccceEEecCCCceEEEecHHHHHHHHhhh
Confidence            999999999999999999999999765           4678899999999999998733   35999999999999987


Q ss_pred             hhh
Q 041114          350 CEI  352 (680)
Q Consensus       350 ~~~  352 (680)
                      .++
T Consensus       450 ~~~  452 (1249)
T 3sfz_A          450 RSQ  452 (1249)
T ss_dssp             GGG
T ss_pred             hHH
Confidence            663

>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=99.76  E-value=1.2e-17  Score=183.42  Aligned_cols=274  Identities=18%  Similarity=0.212  Sum_probs=188.1

Q ss_pred             cEEEecCCCcccccccccccceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCCC
Q 041114          358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETN  429 (680)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~  429 (680)
                      ..+...+..+..+|... ..+++.|++.+|.+..++..  ..+++|      ++.+..+++..|.++++|++|+|++ +.
T Consensus        14 ~~v~c~~~~l~~ip~~~-~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~-n~   91 (477)
T 2id5_A           14 RAVLCHRKRFVAVPEGI-PTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRS-NR   91 (477)
T ss_dssp             TEEECCSCCCSSCCSCC-CTTCSEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCS-SC
T ss_pred             CEEEeCCCCcCcCCCCC-CCCCcEEECCCCccceECHhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCC-Cc
Confidence            45566666777777532 36899999999999887542  445555      6677777666689999999999999 48


Q ss_pred             ccccchh-hhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc----chhhhcCCCCCceeEEEeccchhhhhh
Q 041114          430 IKELLGE-LKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV----LAKELLGLKHLEELDFTLRCVHSLQIL  504 (680)
Q Consensus       430 i~~lP~~-i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~~L~~L~i~~~~~~~l~~l  504 (680)
                      +..+|.. ++++++|++|+|++| .+..++...+.++++|++|+++++.    .+..+.++++|+.|++..+....+.. 
T Consensus        92 l~~~~~~~~~~l~~L~~L~Ls~n-~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~-  169 (477)
T 2id5_A           92 LKLIPLGVFTGLSNLTKLDISEN-KIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPT-  169 (477)
T ss_dssp             CCSCCTTSSTTCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCCCSSCCH-
T ss_pred             CCccCcccccCCCCCCEEECCCC-ccccCChhHccccccCCEEECCCCccceeChhhccCCCCCCEEECCCCcCcccCh-
Confidence            8888854 788999999999999 6877765558899999999998875    34467788899999988654443221 


Q ss_pred             hhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCcc----------C-CC--CCCCC
Q 041114          505 VSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVL----------K-SP--QPFVF  571 (680)
Q Consensus       505 ~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l----------~-~~--~~~~l  571 (680)
                       .....+++|+.|+++++. +...+...+..+++|+.|+++++..+..++........+          . .|  .+..+
T Consensus       170 -~~l~~l~~L~~L~l~~n~-i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l  247 (477)
T 2id5_A          170 -EALSHLHGLIVLRLRHLN-INAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHL  247 (477)
T ss_dssp             -HHHTTCTTCCEEEEESCC-CCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESSCCCSCCHHHHTTC
T ss_pred             -hHhcccCCCcEEeCCCCc-CcEeChhhcccCcccceeeCCCCccccccCcccccCccccEEECcCCcccccCHHHhcCc
Confidence             112234588888888876 444444477788888888888877666554333221100          0 11  12456


Q ss_pred             CCccEEeeeCCCCCCCCC--CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCC
Q 041114          572 CSLHKVTITFCPKLKGLT--FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDS  641 (680)
Q Consensus       572 ~~L~~L~L~~c~~l~~l~--~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~  641 (680)
                      ++|+.|+|++|. +..++  .+..+++|+.|+++++ .+..++. ..+..+++|+.|+++++ +++.+|...
T Consensus       248 ~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~-~~~~~l~~L~~L~L~~N-~l~~~~~~~  315 (477)
T 2id5_A          248 VYLRFLNLSYNP-ISTIEGSMLHELLRLQEIQLVGG-QLAVVEP-YAFRGLNYLRVLNVSGN-QLTTLEESV  315 (477)
T ss_dssp             TTCCEEECCSSC-CCEECTTSCTTCTTCCEEECCSS-CCSEECT-TTBTTCTTCCEEECCSS-CCSCCCGGG
T ss_pred             cccCeeECCCCc-CCccChhhccccccCCEEECCCC-ccceECH-HHhcCcccCCEEECCCC-cCceeCHhH
Confidence            777777777765 33333  3567788888888774 3454432 24567888888888886 577777643

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

Probab=99.76  E-value=4.6e-18  Score=181.53  Aligned_cols=257  Identities=16%  Similarity=0.164  Sum_probs=151.9

Q ss_pred             ccceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEE
Q 041114          376 WETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCV  446 (680)
Q Consensus       376 ~~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L  446 (680)
                      ..+++++++.++.+..+|..  ..+++|      ++.+..+++..|..+++|++|+|++| .+..+| ..++.+++|++|
T Consensus        44 l~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L  122 (390)
T 3o6n_A           44 LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFN-AIRYLPPHVFQNVPLLTVL  122 (390)
T ss_dssp             GCCCSEEEEESCEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEE
T ss_pred             cCCceEEEecCCchhhCChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCC-CCCcCCHHHhcCCCCCCEE
Confidence            35566666666666555542  223333      44555555544666666666666663 555554 335666666666


Q ss_pred             eccCCCCccccchhhhcCCCCCcEeeccCCc----chhhhcCCCCCceeEEEeccchhh--hhhhhch------------
Q 041114          447 NLEWARDLVTIPLEVISNFSKLRVLRLFGTV----LAKELLGLKHLEELDFTLRCVHSL--QILVSSN------------  508 (680)
Q Consensus       447 ~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~~L~~L~i~~~~~~~l--~~l~~~~------------  508 (680)
                      ++++| .++.+|.+.++++++|++|++++|.    .+..+..+++|+.|++..+....+  ..++.+.            
T Consensus       123 ~L~~n-~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~L~~L~l~~n~l~~~  201 (390)
T 3o6n_A          123 VLERN-DLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTL  201 (390)
T ss_dssp             ECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCCSBCCGGGCTTCSEEECCSSCCSEE
T ss_pred             ECCCC-ccCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCcCCccccccccccceeeccccccccc
Confidence            66666 5666665534566666666666553    122345555666665553332211  1111100            


Q ss_pred             ---------------------hhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCC
Q 041114          509 ---------------------KLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQ  567 (680)
Q Consensus       509 ---------------------~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~  567 (680)
                                           ....+|+.|+++++. +...  ..+..+++|+.|+++++ .+..+.+..+         
T Consensus       202 ~~~~~L~~L~l~~n~l~~~~~~~~~~L~~L~l~~n~-l~~~--~~l~~l~~L~~L~Ls~n-~l~~~~~~~~---------  268 (390)
T 3o6n_A          202 AIPIAVEELDASHNSINVVRGPVNVELTILKLQHNN-LTDT--AWLLNYPGLVEVDLSYN-ELEKIMYHPF---------  268 (390)
T ss_dssp             ECCSSCSEEECCSSCCCEEECCCCSSCCEEECCSSC-CCCC--GGGGGCTTCSEEECCSS-CCCEEESGGG---------
T ss_pred             CCCCcceEEECCCCeeeeccccccccccEEECCCCC-Cccc--HHHcCCCCccEEECCCC-cCCCcChhHc---------
Confidence                                 011245556665554 2222  25677888888888875 4444444443         


Q ss_pred             CCCCCCccEEeeeCCCCCCCCC-CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCCccccC
Q 041114          568 PFVFCSLHKVTITFCPKLKGLT-FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNSALE  646 (680)
Q Consensus       568 ~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~~~l~  646 (680)
                       ..+++|++|++++|. ++.+| ....+|+|++|++++| .+..++..  .+.+++|+.|++++|+ +..+|......|+
T Consensus       269 -~~l~~L~~L~L~~n~-l~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~--~~~l~~L~~L~L~~N~-i~~~~~~~~~~L~  342 (390)
T 3o6n_A          269 -VKMQRLERLYISNNR-LVALNLYGQPIPTLKVLDLSHN-HLLHVERN--QPQFDRLENLYLDHNS-IVTLKLSTHHTLK  342 (390)
T ss_dssp             -TTCSSCCEEECCSSC-CCEEECSSSCCTTCCEEECCSS-CCCCCGGG--HHHHTTCSEEECCSSC-CCCCCCCTTCCCS
T ss_pred             -cccccCCEEECCCCc-CcccCcccCCCCCCCEEECCCC-cceecCcc--ccccCcCCEEECCCCc-cceeCchhhccCC
Confidence             568899999999976 44444 4567999999999996 46666543  3678999999999976 8888865544566


Q ss_pred             cceEEec
Q 041114          647 HKIAIRG  653 (680)
Q Consensus       647 ~L~i~~~  653 (680)
                      .|.+.++
T Consensus       343 ~L~l~~N  349 (390)
T 3o6n_A          343 NLTLSHN  349 (390)
T ss_dssp             EEECCSS
T ss_pred             EEEcCCC
Confidence            6666554

>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=99.75  E-value=2.2e-17  Score=173.30  Aligned_cols=261  Identities=15%  Similarity=0.165  Sum_probs=135.3

Q ss_pred             cEEEecCCCcccccccccccceEEEEeecccccccccCCCCccc------cccccccchhhhccCCcceEEEccCCCCcc
Q 041114          358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIK  431 (680)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~  431 (680)
                      ..+...+..+..++.....++++++++.++.+..++....+++|      ++.+..+|.  |..+++|++|++++ +.+.
T Consensus        47 ~~L~l~~~~i~~~~~~~~~~~L~~L~l~~n~i~~~~~~~~l~~L~~L~L~~n~i~~~~~--~~~l~~L~~L~l~~-n~i~  123 (347)
T 4fmz_A           47 TKLVVAGEKVASIQGIEYLTNLEYLNLNGNQITDISPLSNLVKLTNLYIGTNKITDISA--LQNLTNLRELYLNE-DNIS  123 (347)
T ss_dssp             SEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG--GTTCTTCSEEECTT-SCCC
T ss_pred             cEEEEeCCccccchhhhhcCCccEEEccCCccccchhhhcCCcCCEEEccCCcccCchH--HcCCCcCCEEECcC-Cccc
Confidence            34445555555566555667788888877777766554444444      455555543  66777777777777 3666


Q ss_pred             ccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCceeEEEeccchhhhhhhhchh
Q 041114          432 ELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEELDFTLRCVHSLQILVSSNK  509 (680)
Q Consensus       432 ~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~  509 (680)
                      .+|. +..+++|++|++++|..+..+|.  ++.+++|++|++++|.  .+..+..+++|+.|++..+....+..+.    
T Consensus       124 ~~~~-~~~l~~L~~L~l~~n~~~~~~~~--~~~l~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~----  196 (347)
T 4fmz_A          124 DISP-LANLTKMYSLNLGANHNLSDLSP--LSNMTGLNYLTVTESKVKDVTPIANLTDLYSLSLNYNQIEDISPLA----  196 (347)
T ss_dssp             CCGG-GTTCTTCCEEECTTCTTCCCCGG--GTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECTTSCCCCCGGGG----
T ss_pred             Cchh-hccCCceeEEECCCCCCcccccc--hhhCCCCcEEEecCCCcCCchhhccCCCCCEEEccCCccccccccc----
Confidence            6665 66777777777777754554443  6777777777777664  2233566666666666544333322211    


Q ss_pred             hhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCcc-----------CCCCCCCCCCccEEe
Q 041114          510 LQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVL-----------KSPQPFVFCSLHKVT  578 (680)
Q Consensus       510 l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l-----------~~~~~~~l~~L~~L~  578 (680)
                      .+++|+.|+++++. +...+  .+..+++|++|++++|. +..++. ......+           ..+.+..+++|++|+
T Consensus       197 ~l~~L~~L~l~~n~-l~~~~--~~~~~~~L~~L~l~~n~-l~~~~~-~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~  271 (347)
T 4fmz_A          197 SLTSLHYFTAYVNQ-ITDIT--PVANMTRLNSLKIGNNK-ITDLSP-LANLSQLTWLEIGTNQISDINAVKDLTKLKMLN  271 (347)
T ss_dssp             GCTTCCEEECCSSC-CCCCG--GGGGCTTCCEEECCSSC-CCCCGG-GTTCTTCCEEECCSSCCCCCGGGTTCTTCCEEE
T ss_pred             CCCccceeecccCC-CCCCc--hhhcCCcCCEEEccCCc-cCCCcc-hhcCCCCCEEECCCCccCCChhHhcCCCcCEEE
Confidence            12345555555443 22222  24455555555555432 222111 0000000           001113445555555


Q ss_pred             eeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCC
Q 041114          579 ITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKL  637 (680)
Q Consensus       579 L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~l  637 (680)
                      +++|. +..++.+..+++|++|++++|.. ...+.. .++.+|+|+.|++++|+ +..+
T Consensus       272 l~~n~-l~~~~~~~~l~~L~~L~L~~n~l-~~~~~~-~l~~l~~L~~L~L~~n~-l~~~  326 (347)
T 4fmz_A          272 VGSNQ-ISDISVLNNLSQLNSLFLNNNQL-GNEDME-VIGGLTNLTTLFLSQNH-ITDI  326 (347)
T ss_dssp             CCSSC-CCCCGGGGGCTTCSEEECCSSCC-CGGGHH-HHHTCTTCSEEECCSSS-CCCC
T ss_pred             ccCCc-cCCChhhcCCCCCCEEECcCCcC-CCcChh-HhhccccCCEEEccCCc-cccc
Confidence            55543 44445555555555555555432 222111 12445566666665554 4443

>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=99.75  E-value=7.2e-18  Score=190.29  Aligned_cols=258  Identities=18%  Similarity=0.185  Sum_probs=155.5

Q ss_pred             ccceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCCCccccchh-hhccCCCCEE
Q 041114          376 WETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGE-LKALVNLKCV  446 (680)
Q Consensus       376 ~~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~-i~~L~~Lr~L  446 (680)
                      +++++.|.+.+|.+..++..  ..+++|      ++.+..+|+..|+++++|++|+|++| .+..+|.. ++++++|++|
T Consensus        74 l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~~~l~~L~~L  152 (597)
T 3oja_B           74 FRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERN-DLSSLPRGIFHNTPKLTTL  152 (597)
T ss_dssp             CCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEE
T ss_pred             CCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEEEeeCC-CCCCCCHHHhccCCCCCEE
Confidence            45666666666666555431  233333      45556666655666666666666663 66666654 3666666666


Q ss_pred             eccCCCCccccchhhhcCCCCCcEeeccCCcch-hhhcCCCCCceeEEEeccchhhhhhhhc--------------hhhh
Q 041114          447 NLEWARDLVTIPLEVISNFSKLRVLRLFGTVLA-KELLGLKHLEELDFTLRCVHSLQILVSS--------------NKLQ  511 (680)
Q Consensus       447 ~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~-~~l~~L~~L~~L~i~~~~~~~l~~l~~~--------------~~l~  511 (680)
                      +|++| .+..+|+..++++++|++|++++|..- ..+..+++|+.|++..+....+.....+              ....
T Consensus       153 ~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~l~~L~~L~l~~n~l~~l~~~~~L~~L~ls~n~l~~~~~~~~  231 (597)
T 3oja_B          153 SMSNN-NLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVN  231 (597)
T ss_dssp             ECCSS-CCCBCCTTTTTTCTTCCEEECTTSCCSBCCGGGCTTCSEEECCSSCCSEEECCTTCSEEECCSSCCCEEECSCC
T ss_pred             EeeCC-cCCCCChhhhhcCCcCcEEECcCCCCCCcChhhhhhhhhhhcccCccccccCCchhheeeccCCcccccccccC
Confidence            66666 465555544666666666666665411 1233344444444432221111100000              0112


Q ss_pred             ccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC-C
Q 041114          512 SCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT-F  590 (680)
Q Consensus       512 ~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~-~  590 (680)
                      .+|+.|+++++. +...  ..+..+++|+.|+++++ .+..+.+..+          ..+++|+.|+|++|. +..+| .
T Consensus       232 ~~L~~L~L~~n~-l~~~--~~l~~l~~L~~L~Ls~N-~l~~~~~~~~----------~~l~~L~~L~Ls~N~-l~~l~~~  296 (597)
T 3oja_B          232 VELTILKLQHNN-LTDT--AWLLNYPGLVEVDLSYN-ELEKIMYHPF----------VKMQRLERLYISNNR-LVALNLY  296 (597)
T ss_dssp             SCCCEEECCSSC-CCCC--GGGGGCTTCSEEECCSS-CCCEEESGGG----------TTCSSCCEEECTTSC-CCEEECS
T ss_pred             CCCCEEECCCCC-CCCC--hhhccCCCCCEEECCCC-ccCCCCHHHh----------cCccCCCEEECCCCC-CCCCCcc
Confidence            356777777665 3322  36778889999999875 4454444444          578999999999976 44444 4


Q ss_pred             cCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCCccccCcceEEecc
Q 041114          591 LVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNSALEHKIAIRGE  654 (680)
Q Consensus       591 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~~~l~~L~i~~~~  654 (680)
                      .+.+|+|+.|++++|. +..+|..  ++.+++|+.|++++|+ +..+|+.....|+.|.+.+++
T Consensus       297 ~~~l~~L~~L~Ls~N~-l~~i~~~--~~~l~~L~~L~L~~N~-l~~~~~~~~~~L~~L~l~~N~  356 (597)
T 3oja_B          297 GQPIPTLKVLDLSHNH-LLHVERN--QPQFDRLENLYLDHNS-IVTLKLSTHHTLKNLTLSHND  356 (597)
T ss_dssp             SSCCTTCCEEECCSSC-CCCCGGG--HHHHTTCSEEECCSSC-CCCCCCCTTCCCSEEECCSSC
T ss_pred             cccCCCCcEEECCCCC-CCccCcc--cccCCCCCEEECCCCC-CCCcChhhcCCCCEEEeeCCC
Confidence            5679999999999964 5566543  3679999999999976 788886554457777765543

>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=99.73  E-value=4.4e-17  Score=170.99  Aligned_cols=163  Identities=18%  Similarity=0.180  Sum_probs=129.4

Q ss_pred             cccccccceEEEEeecccccccccCCCCccc------cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCC
Q 041114          371 PEVKEWETVRRLSLMQNQIKILSEAPTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLK  444 (680)
Q Consensus       371 ~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr  444 (680)
                      .....+++++++.+.++.+..++....+++|      ++.+..+|+  |..+++|++|++++| .+..+| .++.+++|+
T Consensus        38 ~~~~~l~~L~~L~l~~~~i~~~~~~~~~~~L~~L~l~~n~i~~~~~--~~~l~~L~~L~L~~n-~i~~~~-~~~~l~~L~  113 (347)
T 4fmz_A           38 VTQEELESITKLVVAGEKVASIQGIEYLTNLEYLNLNGNQITDISP--LSNLVKLTNLYIGTN-KITDIS-ALQNLTNLR  113 (347)
T ss_dssp             ECHHHHTTCSEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSS-CCCCCG-GGTTCTTCS
T ss_pred             ccchhcccccEEEEeCCccccchhhhhcCCccEEEccCCccccchh--hhcCCcCCEEEccCC-cccCch-HHcCCCcCC
Confidence            3344567999999999999888766666666      667778877  889999999999995 888876 689999999


Q ss_pred             EEeccCCCCccccchhhhcCCCCCcEeeccCCc---chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEec
Q 041114          445 CVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV---LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIR  521 (680)
Q Consensus       445 ~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~---~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~  521 (680)
                      +|++++| .+..+|.  +..+++|++|++++|.   .+..+..+++|+.|++..+....+..+    ..+++|+.|++++
T Consensus       114 ~L~l~~n-~i~~~~~--~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~----~~l~~L~~L~l~~  186 (347)
T 4fmz_A          114 ELYLNED-NISDISP--LANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTPI----ANLTDLYSLSLNY  186 (347)
T ss_dssp             EEECTTS-CCCCCGG--GTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSSCCCCCGGG----GGCTTCSEEECTT
T ss_pred             EEECcCC-cccCchh--hccCCceeEEECCCCCCcccccchhhCCCCcEEEecCCCcCCchhh----ccCCCCCEEEccC
Confidence            9999999 7999887  8899999999999885   445577888999999886554444332    2345899999998


Q ss_pred             cCCCCcccccccccCCCCCEEEEecc
Q 041114          522 FKDSKSIDVIALARLKHLSTLHFSKC  547 (680)
Q Consensus       522 ~~~~~~~~~~~l~~l~~L~~L~l~~~  547 (680)
                      +. +...+  .+..+++|+.|+++++
T Consensus       187 n~-l~~~~--~~~~l~~L~~L~l~~n  209 (347)
T 4fmz_A          187 NQ-IEDIS--PLASLTSLHYFTAYVN  209 (347)
T ss_dssp             SC-CCCCG--GGGGCTTCCEEECCSS
T ss_pred             Cc-ccccc--cccCCCccceeecccC
Confidence            86 44444  4788999999999875

>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=99.72  E-value=9.4e-17  Score=167.23  Aligned_cols=215  Identities=16%  Similarity=0.170  Sum_probs=139.5

Q ss_pred             cccccccchhhhccCCcceEEEccCCCCcccc-chhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc---
Q 041114          402 HYEFKMITDGFFQFMPLLKVLNMSRETNIKEL-LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV---  477 (680)
Q Consensus       402 ~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~l-P~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~---  477 (680)
                      ++.+..+++..|.++++|++|+|++| .+..+ |..++.+++|++|++++| .++.+|.. +.  ++|++|++++|.   
T Consensus        61 ~n~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~l~~~-~~--~~L~~L~l~~n~l~~  135 (330)
T 1xku_A           61 NNKITEIKDGDFKNLKNLHTLILINN-KISKISPGAFAPLVKLERLYLSKN-QLKELPEK-MP--KTLQELRVHENEITK  135 (330)
T ss_dssp             SSCCCCBCTTTTTTCTTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSS-CCSBCCSS-CC--TTCCEEECCSSCCCB
T ss_pred             CCcCCEeChhhhccCCCCCEEECCCC-cCCeeCHHHhcCCCCCCEEECCCC-cCCccChh-hc--ccccEEECCCCcccc
Confidence            33444566655778888888888884 67666 677888888888888888 68888875 43  688888888765   


Q ss_pred             -chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecc
Q 041114          478 -LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTD  556 (680)
Q Consensus       478 -~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~  556 (680)
                       ....+.++++|+.|++..+........+.....+++|+.|+++++. +..++. .+  .++|+.|+++++ .+..+.+.
T Consensus       136 ~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~-l~~l~~-~~--~~~L~~L~l~~n-~l~~~~~~  210 (330)
T 1xku_A          136 VRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTN-ITTIPQ-GL--PPSLTELHLDGN-KITKVDAA  210 (330)
T ss_dssp             BCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSC-CCSCCS-SC--CTTCSEEECTTS-CCCEECTG
T ss_pred             cCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCc-cccCCc-cc--cccCCEEECCCC-cCCccCHH
Confidence             2334677788888877754443222222223334578888887765 444442 22  267888888765 34444333


Q ss_pred             cCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC-CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCC
Q 041114          557 YTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT-FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLR  635 (680)
Q Consensus       557 ~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~  635 (680)
                      .+          ..+++|++|++++|......+ .+..+++|++|+++++ .+..++..  +..+++|+.|++++|+ ++
T Consensus       211 ~~----------~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N-~l~~lp~~--l~~l~~L~~L~l~~N~-i~  276 (330)
T 1xku_A          211 SL----------KGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNN-KLVKVPGG--LADHKYIQVVYLHNNN-IS  276 (330)
T ss_dssp             GG----------TTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSS-CCSSCCTT--TTTCSSCCEEECCSSC-CC
T ss_pred             Hh----------cCCCCCCEEECCCCcCceeChhhccCCCCCCEEECCCC-cCccCChh--hccCCCcCEEECCCCc-CC
Confidence            33          466788888888765332222 4677888888888875 45555442  3667888888888764 77


Q ss_pred             CCCCC
Q 041114          636 KLPLD  640 (680)
Q Consensus       636 ~lP~~  640 (680)
                      .+|..
T Consensus       277 ~~~~~  281 (330)
T 1xku_A          277 AIGSN  281 (330)
T ss_dssp             CCCTT
T ss_pred             ccChh
Confidence            77654

>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=99.71  E-value=1.8e-16  Score=173.37  Aligned_cols=263  Identities=19%  Similarity=0.217  Sum_probs=138.8

Q ss_pred             cEEEecCCCcccccccccccceEEEEeecccccccccCCCCccc------cccccccchhhhccCCcceEEEccCCCCcc
Q 041114          358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIK  431 (680)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~  431 (680)
                      ..+...+..+..++.....+++++|.+.+|.+..++....+++|      ++.+..+++  +.++++|++|++++| .+.
T Consensus        49 ~~L~l~~~~i~~l~~~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~L~~n-~l~  125 (466)
T 1o6v_A           49 TTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITP--LANLTNLTGLTLFNN-QIT  125 (466)
T ss_dssp             CEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSS-CCC
T ss_pred             cEEecCCCCCccCcchhhhcCCCEEECCCCccCCchhhhccccCCEEECCCCccccChh--hcCCCCCCEEECCCC-CCC
Confidence            34444555555666666667888888888887776654444544      556666665  677888888888874 777


Q ss_pred             ccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc-chhhhcCCCCCceeEEEeccchhhhhhhhc---
Q 041114          432 ELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV-LAKELLGLKHLEELDFTLRCVHSLQILVSS---  507 (680)
Q Consensus       432 ~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~-~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~---  507 (680)
                      .+|. ++++++|++|++++| .+..+|.  ++.+++|++|++.++. .+..+.++++|+.|++..+....+..+...   
T Consensus       126 ~~~~-~~~l~~L~~L~l~~n-~l~~~~~--~~~l~~L~~L~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~l~~l~~L  201 (466)
T 1o6v_A          126 DIDP-LKNLTNLNRLELSSN-TISDISA--LSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNL  201 (466)
T ss_dssp             CCGG-GTTCTTCSEEEEEEE-EECCCGG--GTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTC
T ss_pred             CChH-HcCCCCCCEEECCCC-ccCCChh--hccCCcccEeecCCcccCchhhccCCCCCEEECcCCcCCCChhhccCCCC
Confidence            7765 777888888888877 5776664  5556555555554221 222344455555555543322222111111   


Q ss_pred             ---------------hhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCcc---------
Q 041114          508 ---------------NKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVL---------  563 (680)
Q Consensus       508 ---------------~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l---------  563 (680)
                                     ...+++|+.|+++++. +...+  .+..+++|+.|+++++.. ..+++ ......+         
T Consensus       202 ~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~-l~~~~--~l~~l~~L~~L~l~~n~l-~~~~~-~~~l~~L~~L~l~~n~  276 (466)
T 1o6v_A          202 ESLIATNNQISDITPLGILTNLDELSLNGNQ-LKDIG--TLASLTNLTDLDLANNQI-SNLAP-LSGLTKLTELKLGANQ  276 (466)
T ss_dssp             SEEECCSSCCCCCGGGGGCTTCCEEECCSSC-CCCCG--GGGGCTTCSEEECCSSCC-CCCGG-GTTCTTCSEEECCSSC
T ss_pred             CEEEecCCcccccccccccCCCCEEECCCCC-cccch--hhhcCCCCCEEECCCCcc-ccchh-hhcCCCCCEEECCCCc
Confidence                           1123345555555543 22222  455556666666655422 21111 0000000         


Q ss_pred             --CCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCC
Q 041114          564 --KSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLP  638 (680)
Q Consensus       564 --~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP  638 (680)
                        ..+.+..+++|+.|++++|. +..++.++.+++|+.|++++|. +..++.   ++.+++|+.|++++| ++..+|
T Consensus       277 l~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~l~~L~~L~L~~n~-l~~~~~---~~~l~~L~~L~l~~n-~l~~~~  347 (466)
T 1o6v_A          277 ISNISPLAGLTALTNLELNENQ-LEDISPISNLKNLTYLTLYFNN-ISDISP---VSSLTKLQRLFFYNN-KVSDVS  347 (466)
T ss_dssp             CCCCGGGTTCTTCSEEECCSSC-CSCCGGGGGCTTCSEEECCSSC-CSCCGG---GGGCTTCCEEECCSS-CCCCCG
T ss_pred             cCccccccCCCccCeEEcCCCc-ccCchhhcCCCCCCEEECcCCc-CCCchh---hccCccCCEeECCCC-ccCCch
Confidence              00112345555555555543 3444445566666666666643 333322   245666666666665 355543

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

Probab=99.71  E-value=5.7e-17  Score=173.07  Aligned_cols=227  Identities=13%  Similarity=0.125  Sum_probs=142.7

Q ss_pred             cccccccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc---
Q 041114          402 HYEFKMITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV---  477 (680)
Q Consensus       402 ~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~---  477 (680)
                      ++.+..+|..+|..+++|++|+|++| .+..+| ..++.+++|++|++++| .+..+|++.++++++|++|++++|.   
T Consensus        54 ~~~l~~l~~~~~~~l~~L~~L~L~~n-~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~~  131 (390)
T 3o6n_A           54 NSTMRKLPAALLDSFRQVELLNLNDL-QIEEIDTYAFAYAHTIQKLYMGFN-AIRYLPPHVFQNVPLLTVLVLERNDLSS  131 (390)
T ss_dssp             SCEESEECTHHHHHCCCCSEEECTTS-CCCEECTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCC
T ss_pred             CCchhhCChhHhcccccCcEEECCCC-cccccChhhccCCCCcCEEECCCC-CCCcCCHHHhcCCCCCCEEECCCCccCc
Confidence            67788999998999999999999994 888887 48999999999999999 7999887668999999999999986   


Q ss_pred             chhh-hcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccC--------
Q 041114          478 LAKE-LLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCE--------  548 (680)
Q Consensus       478 ~~~~-l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~--------  548 (680)
                      .+.. +.++++|+.|++..+....+.  +.....+++|+.|+++++. +...+   +..+++|+.|+++++.        
T Consensus       132 l~~~~~~~l~~L~~L~L~~n~l~~~~--~~~~~~l~~L~~L~l~~n~-l~~~~---~~~l~~L~~L~l~~n~l~~~~~~~  205 (390)
T 3o6n_A          132 LPRGIFHNTPKLTTLSMSNNNLERIE--DDTFQATTSLQNLQLSSNR-LTHVD---LSLIPSLFHANVSYNLLSTLAIPI  205 (390)
T ss_dssp             CCTTTTTTCTTCCEEECCSSCCCBCC--TTTTSSCTTCCEEECCSSC-CSBCC---GGGCTTCSEEECCSSCCSEEECCS
T ss_pred             CCHHHhcCCCCCcEEECCCCccCccC--hhhccCCCCCCEEECCCCc-CCccc---cccccccceeecccccccccCCCC
Confidence            2333 578999999999865443321  1222334689999998875 33332   3344555555554321        


Q ss_pred             ----------CcceeecccCCC-C-------cc-CCCCCCCCCCccEEeeeCCCCCCCCC-CcCCCCCCCEEeEecCcch
Q 041114          549 ----------ELEEWKTDYTSG-T-------VL-KSPQPFVFCSLHKVTITFCPKLKGLT-FLVFAPNLKCLSLFDCTAM  608 (680)
Q Consensus       549 ----------~l~~l~~~~~~~-~-------~l-~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~c~~l  608 (680)
                                .+..++...... .       .+ .++.+..+++|++|++++|......| .+..+++|++|+++++ .+
T Consensus       206 ~L~~L~l~~n~l~~~~~~~~~~L~~L~l~~n~l~~~~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n-~l  284 (390)
T 3o6n_A          206 AVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNN-RL  284 (390)
T ss_dssp             SCSEEECCSSCCCEEECCCCSSCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECCSS-CC
T ss_pred             cceEEECCCCeeeeccccccccccEEECCCCCCcccHHHcCCCCccEEECCCCcCCCcChhHccccccCCEEECCCC-cC
Confidence                      111111100000 0       00 01222445566666666654222222 3555666666666663 34


Q ss_pred             hHhhhcCCCCCCCcccccCccccccCCCCCCC
Q 041114          609 EEIISAGKFVHTPEMMGNTMDPCAKLRKLPLD  640 (680)
Q Consensus       609 ~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~  640 (680)
                      ..++..  .+.+|+|+.|++++| ++..+|..
T Consensus       285 ~~~~~~--~~~l~~L~~L~L~~n-~l~~~~~~  313 (390)
T 3o6n_A          285 VALNLY--GQPIPTLKVLDLSHN-HLLHVERN  313 (390)
T ss_dssp             CEEECS--SSCCTTCCEEECCSS-CCCCCGGG
T ss_pred             cccCcc--cCCCCCCCEEECCCC-cceecCcc
Confidence            444322  245667777777665 35566543

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

Probab=99.70  E-value=9.5e-17  Score=167.37  Aligned_cols=209  Identities=15%  Similarity=0.180  Sum_probs=109.6

Q ss_pred             ccccchhhhccCCcceEEEccCCCCcccc-chhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc----ch
Q 041114          405 FKMITDGFFQFMPLLKVLNMSRETNIKEL-LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV----LA  479 (680)
Q Consensus       405 l~~lp~~~~~~l~~Lr~LdL~~~~~i~~l-P~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~----~~  479 (680)
                      +..+++..|.++++|++|+|++| .+..+ |..++++++|++|++++| .+..+|.. +.  ++|++|++++|.    ..
T Consensus        66 i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n-~l~~l~~~-~~--~~L~~L~l~~n~i~~~~~  140 (332)
T 2ft3_A           66 ISELRKDDFKGLQHLYALVLVNN-KISKIHEKAFSPLRKLQKLYISKN-HLVEIPPN-LP--SSLVELRIHDNRIRKVPK  140 (332)
T ss_dssp             CCEECTTTTTTCTTCCEEECCSS-CCCEECGGGSTTCTTCCEEECCSS-CCCSCCSS-CC--TTCCEEECCSSCCCCCCS
T ss_pred             CCccCHhHhhCCCCCcEEECCCC-ccCccCHhHhhCcCCCCEEECCCC-cCCccCcc-cc--ccCCEEECCCCccCccCH
Confidence            33454444666677777777763 56555 456666777777777766 56666664 33  666777776654    11


Q ss_pred             hhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCC
Q 041114          480 KELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTS  559 (680)
Q Consensus       480 ~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~  559 (680)
                      ..+..+++|+.|++..+........+.....+ +|+.|+++++. +..++. .+  .++|++|+++++ .+..+++..+ 
T Consensus       141 ~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n~-l~~l~~-~~--~~~L~~L~l~~n-~i~~~~~~~l-  213 (332)
T 2ft3_A          141 GVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRISEAK-LTGIPK-DL--PETLNELHLDHN-KIQAIELEDL-  213 (332)
T ss_dssp             GGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCSSB-CSSCCS-SS--CSSCSCCBCCSS-CCCCCCTTSS-
T ss_pred             hHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEECcCCC-CCccCc-cc--cCCCCEEECCCC-cCCccCHHHh-
Confidence            23556666666666544332221112111112 56666666554 333332 11  146666666553 3333322222 


Q ss_pred             CCccCCCCCCCCCCccEEeeeCCCCCCCCC--CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCC
Q 041114          560 GTVLKSPQPFVFCSLHKVTITFCPKLKGLT--FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKL  637 (680)
Q Consensus       560 ~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~--~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~l  637 (680)
                               ..+++|+.|++++|. +..++  .+..+++|++|+++++ .+..+|..  ++.+++|+.|++++++ +..+
T Consensus       214 ---------~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N-~l~~lp~~--l~~l~~L~~L~l~~N~-l~~~  279 (332)
T 2ft3_A          214 ---------LRYSKLYRLGLGHNQ-IRMIENGSLSFLPTLRELHLDNN-KLSRVPAG--LPDLKLLQVVYLHTNN-ITKV  279 (332)
T ss_dssp             ---------TTCTTCSCCBCCSSC-CCCCCTTGGGGCTTCCEEECCSS-CCCBCCTT--GGGCTTCCEEECCSSC-CCBC
T ss_pred             ---------cCCCCCCEEECCCCc-CCcCChhHhhCCCCCCEEECCCC-cCeecChh--hhcCccCCEEECCCCC-CCcc
Confidence                     445666666666654 33332  3556666666666654 34444332  3456666666666643 5555


Q ss_pred             CC
Q 041114          638 PL  639 (680)
Q Consensus       638 P~  639 (680)
                      |.
T Consensus       280 ~~  281 (332)
T 2ft3_A          280 GV  281 (332)
T ss_dssp             CT
T ss_pred             Ch
Confidence            44

>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=99.70  E-value=2.7e-16  Score=178.02  Aligned_cols=138  Identities=19%  Similarity=0.261  Sum_probs=112.7

Q ss_pred             cEEEecCCCcccccccccccceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCCC
Q 041114          358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETN  429 (680)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~  429 (680)
                      ..+...+.++..+|... ..++++|.+++|.+..++..  ..+++|      ++.+..+++..|.++++|++|+|++| .
T Consensus        14 ~~~~c~~~~l~~ip~~~-~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~n-~   91 (606)
T 3vq2_A           14 ITYQCMDQKLSKVPDDI-PSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGN-P   91 (606)
T ss_dssp             TEEECTTSCCSSCCTTS-CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTC-C
T ss_pred             CceEccCCCcccCCCCC-CCCcCEEECCCCCcCEeChhhccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCCC-c
Confidence            35666777788887533 37899999999999887653  455555      67788887777999999999999995 7


Q ss_pred             cccc-chhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc-----chhhhcCCCCCceeEEEeccc
Q 041114          430 IKEL-LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV-----LAKELLGLKHLEELDFTLRCV  498 (680)
Q Consensus       430 i~~l-P~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~-----~~~~l~~L~~L~~L~i~~~~~  498 (680)
                      +..+ |..+++|++|++|++++| .+..+|...++++++|++|++++|.     .+..++++++|+.|++..+..
T Consensus        92 l~~~~p~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls~n~l  165 (606)
T 3vq2_A           92 IQSFSPGSFSGLTSLENLVAVET-KLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYI  165 (606)
T ss_dssp             CCCCCTTSSTTCTTCCEEECTTS-CCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGGGGTCTTCCEEECCSSCC
T ss_pred             ccccChhhcCCcccCCEEEccCC-ccccccccccCCCCCCCEEeCCCCcccceechHhHhhcCCCCEEEccCCcc
Confidence            8777 788999999999999999 7988885449999999999999876     356788999999999886543

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

Probab=99.70  E-value=2.1e-16  Score=171.42  Aligned_cols=227  Identities=20%  Similarity=0.220  Sum_probs=125.7

Q ss_pred             EEEecCCCcccccccccccceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCCCc
Q 041114          359 FLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNI  430 (680)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i  430 (680)
                      .+...+..+..+|... ..+++.|.+.+|.+..++..  ..+++|      ++.+..+++..|.++++|++|+|++| .+
T Consensus        47 ~v~c~~~~l~~iP~~~-~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n-~l  124 (440)
T 3zyj_A           47 KVICVRKNLREVPDGI-STNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDN-RL  124 (440)
T ss_dssp             EEECCSCCCSSCCSCC-CTTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSS-CC
T ss_pred             EEEeCCCCcCcCCCCC-CCCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCC-cC
Confidence            4555566666676432 26788888888888765432  233333      45555566555666666666666663 56


Q ss_pred             cccch-hhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchh-----hhcCCCCCceeEEEeccchhhhhh
Q 041114          431 KELLG-ELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAK-----ELLGLKHLEELDFTLRCVHSLQIL  504 (680)
Q Consensus       431 ~~lP~-~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~-----~l~~L~~L~~L~i~~~~~~~l~~l  504 (680)
                      ..+|. .+..+++|++|+|++| .+..+|...+.++++|++|+++++..+.     .+.++++|+.|++..+....+.  
T Consensus       125 ~~~~~~~~~~l~~L~~L~L~~N-~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~--  201 (440)
T 3zyj_A          125 TTIPNGAFVYLSKLKELWLRNN-PIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIP--  201 (440)
T ss_dssp             SSCCTTTSCSCSSCCEEECCSC-CCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCSSCC--
T ss_pred             CeeCHhHhhccccCceeeCCCC-cccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCcccc--
Confidence            66653 3666666666666666 5666665446666666666666544221     3445566666666544333222  


Q ss_pred             hhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCC
Q 041114          505 VSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPK  584 (680)
Q Consensus       505 ~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~  584 (680)
                       .+ ..+++|+.|+++++. +...+...+..+++|+.|+++++ .+..+....+          ..+++|+.|+|++|. 
T Consensus       202 -~~-~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~----------~~l~~L~~L~L~~N~-  266 (440)
T 3zyj_A          202 -NL-TPLIKLDELDLSGNH-LSAIRPGSFQGLMHLQKLWMIQS-QIQVIERNAF----------DNLQSLVEINLAHNN-  266 (440)
T ss_dssp             -CC-TTCSSCCEEECTTSC-CCEECTTTTTTCTTCCEEECTTC-CCCEECTTSS----------TTCTTCCEEECTTSC-
T ss_pred             -cc-CCCcccCEEECCCCc-cCccChhhhccCccCCEEECCCC-ceeEEChhhh----------cCCCCCCEEECCCCC-
Confidence             21 122356666666654 33333235566666666666553 3443333332          445666666666653 


Q ss_pred             CCCCCC--cCCCCCCCEEeEecC
Q 041114          585 LKGLTF--LVFAPNLKCLSLFDC  605 (680)
Q Consensus       585 l~~l~~--l~~l~~L~~L~l~~c  605 (680)
                      ++.+|.  +..+++|+.|+++++
T Consensus       267 l~~~~~~~~~~l~~L~~L~L~~N  289 (440)
T 3zyj_A          267 LTLLPHDLFTPLHHLERIHLHHN  289 (440)
T ss_dssp             CCCCCTTTTSSCTTCCEEECCSS
T ss_pred             CCccChhHhccccCCCEEEcCCC
Confidence            344432  455666666666553

>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=99.69  E-value=5.3e-16  Score=161.54  Aligned_cols=251  Identities=17%  Similarity=0.200  Sum_probs=188.7

Q ss_pred             cEEEecCCCcccccccccccceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCCC
Q 041114          358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETN  429 (680)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~  429 (680)
                      ..+...+..+..+|... .+.++.+.+.+|.+..++..  ..+++|      ++.+..+++..|..+++|++|+|++ +.
T Consensus        34 ~~l~~~~~~l~~lp~~~-~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~-n~  111 (330)
T 1xku_A           34 RVVQCSDLGLEKVPKDL-PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSK-NQ  111 (330)
T ss_dssp             TEEECTTSCCCSCCCSC-CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS-SC
T ss_pred             eEEEecCCCccccCccC-CCCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEECCC-Cc
Confidence            34555555666666432 36899999999999887652  445555      6778888665699999999999999 58


Q ss_pred             ccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcc------hhhhcCCCCCceeEEEeccchhhhh
Q 041114          430 IKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVL------AKELLGLKHLEELDFTLRCVHSLQI  503 (680)
Q Consensus       430 i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~------~~~l~~L~~L~~L~i~~~~~~~l~~  503 (680)
                      +..+|..+.  ++|++|++++| .+..+|...++++++|++|+++++..      +..+.++++|+.|++..+....   
T Consensus       112 l~~l~~~~~--~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~---  185 (330)
T 1xku_A          112 LKELPEKMP--KTLQELRVHEN-EITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITT---  185 (330)
T ss_dssp             CSBCCSSCC--TTCCEEECCSS-CCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCS---
T ss_pred             CCccChhhc--ccccEEECCCC-cccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCcccc---
Confidence            999998765  79999999999 79999887689999999999998753      4567889999999998554443   


Q ss_pred             hhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCC
Q 041114          504 LVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCP  583 (680)
Q Consensus       504 l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~  583 (680)
                      ++..  ..++|+.|+++++. +...+...+..+++|+.|+++++ .+..++...+          ..+++|+.|++++|.
T Consensus       186 l~~~--~~~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~----------~~l~~L~~L~L~~N~  251 (330)
T 1xku_A          186 IPQG--LPPSLTELHLDGNK-ITKVDAASLKGLNNLAKLGLSFN-SISAVDNGSL----------ANTPHLRELHLNNNK  251 (330)
T ss_dssp             CCSS--CCTTCSEEECTTSC-CCEECTGGGTTCTTCCEEECCSS-CCCEECTTTG----------GGSTTCCEEECCSSC
T ss_pred             CCcc--ccccCCEEECCCCc-CCccCHHHhcCCCCCCEEECCCC-cCceeChhhc----------cCCCCCCEEECCCCc
Confidence            3322  22689999999987 55554457889999999999975 4555544333          578999999999986


Q ss_pred             CCCCCC-CcCCCCCCCEEeEecCcchhHhhhcCCCC-----CCCcccccCccccc
Q 041114          584 KLKGLT-FLVFAPNLKCLSLFDCTAMEEIISAGKFV-----HTPEMMGNTMDPCA  632 (680)
Q Consensus       584 ~l~~l~-~l~~l~~L~~L~l~~c~~l~~i~~~~~~~-----~lp~L~~L~i~~C~  632 (680)
                       +..+| ++..+++|++|+++++ .+..++...+.+     ..+.|+.+++.+.|
T Consensus       252 -l~~lp~~l~~l~~L~~L~l~~N-~i~~~~~~~f~~~~~~~~~~~l~~l~l~~N~  304 (330)
T 1xku_A          252 -LVKVPGGLADHKYIQVVYLHNN-NISAIGSNDFCPPGYNTKKASYSGVSLFSNP  304 (330)
T ss_dssp             -CSSCCTTTTTCSSCCEEECCSS-CCCCCCTTSSSCSSCCTTSCCCSEEECCSSS
T ss_pred             -CccCChhhccCCCcCEEECCCC-cCCccChhhcCCcccccccccccceEeecCc
Confidence             44554 6889999999999985 467665443211     24666777777765

>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=99.69  E-value=2.9e-16  Score=172.33  Aligned_cols=248  Identities=18%  Similarity=0.193  Sum_probs=170.2

Q ss_pred             EEEEeecccccccccC--CCCccc---cccccccchhhhccCCcceEEEccCCCCcccc-chhhhccCCCCEEeccCCCC
Q 041114          380 RRLSLMQNQIKILSEA--PTCPHL---HYEFKMITDGFFQFMPLLKVLNMSRETNIKEL-LGELKALVNLKCVNLEWARD  453 (680)
Q Consensus       380 r~lsl~~~~~~~l~~~--~~~~~L---~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~l-P~~i~~L~~Lr~L~L~~~~~  453 (680)
                      +.+...++.+..+|..  .....|   ++.+..+++..|.++++|++|+|++| .+..+ |..+++|++|++|+|++| .
T Consensus        14 ~~v~c~~~~l~~ip~~~~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~i~~~~~~~~~~l~~L~~L~L~~n-~   91 (477)
T 2id5_A           14 RAVLCHRKRFVAVPEGIPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNEN-IVSAVEPGAFNNLFNLRTLGLRSN-R   91 (477)
T ss_dssp             TEEECCSCCCSSCCSCCCTTCSEEECCSSCCCEECTTTTTTCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECCSS-C
T ss_pred             CEEEeCCCCcCcCCCCCCCCCcEEECCCCccceECHhHccCCCCCCEEECCCC-ccCEeChhhhhCCccCCEEECCCC-c
Confidence            4566667777777654  222333   77888888777999999999999995 88777 688999999999999999 7


Q ss_pred             ccccchhhhcCCCCCcEeeccCCc----chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCccc
Q 041114          454 LVTIPLEVISNFSKLRVLRLFGTV----LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSID  529 (680)
Q Consensus       454 l~~lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~  529 (680)
                      ++.+|.+.++++++|++|++++|.    ....+..+++|+.|++..+....+.  +.....+++|+.|+++++. +...+
T Consensus        92 l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~--~~~~~~l~~L~~L~l~~n~-l~~~~  168 (477)
T 2id5_A           92 LKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYIS--HRAFSGLNSLEQLTLEKCN-LTSIP  168 (477)
T ss_dssp             CCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEEC--TTSSTTCTTCCEEEEESCC-CSSCC
T ss_pred             CCccCcccccCCCCCCEEECCCCccccCChhHccccccCCEEECCCCccceeC--hhhccCCCCCCEEECCCCc-CcccC
Confidence            999998767999999999999986    3456788999999999855443321  1122334689999999986 55555


Q ss_pred             ccccccCCCCCEEEEeccCCcceeecccCCC-C-------------ccCCCCCCCCCCccEEeeeCCCCCCCCC--CcCC
Q 041114          530 VIALARLKHLSTLHFSKCEELEEWKTDYTSG-T-------------VLKSPQPFVFCSLHKVTITFCPKLKGLT--FLVF  593 (680)
Q Consensus       530 ~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~-~-------------~l~~~~~~~l~~L~~L~L~~c~~l~~l~--~l~~  593 (680)
                      ...+..+++|+.|+++++ .+..++...+.. .             +..++......+|++|++++|. ++.+|  .+..
T Consensus       169 ~~~l~~l~~L~~L~l~~n-~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~-l~~~~~~~~~~  246 (477)
T 2id5_A          169 TEALSHLHGLIVLRLRHL-NINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCN-LTAVPYLAVRH  246 (477)
T ss_dssp             HHHHTTCTTCCEEEEESC-CCCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESSC-CCSCCHHHHTT
T ss_pred             hhHhcccCCCcEEeCCCC-cCcEeChhhcccCcccceeeCCCCccccccCcccccCccccEEECcCCc-ccccCHHHhcC
Confidence            557889999999999975 344443322210 0             0001112222355666666543 44444  3567


Q ss_pred             CCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCC
Q 041114          594 APNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKL  637 (680)
Q Consensus       594 l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~l  637 (680)
                      +++|++|+++++. +..++. ..+..+++|+.|+++++. +..+
T Consensus       247 l~~L~~L~Ls~n~-l~~~~~-~~~~~l~~L~~L~L~~n~-l~~~  287 (477)
T 2id5_A          247 LVYLRFLNLSYNP-ISTIEG-SMLHELLRLQEIQLVGGQ-LAVV  287 (477)
T ss_dssp             CTTCCEEECCSSC-CCEECT-TSCTTCTTCCEEECCSSC-CSEE
T ss_pred             ccccCeeECCCCc-CCccCh-hhccccccCCEEECCCCc-cceE
Confidence            7777777777743 454433 234667788888777753 4444

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

Probab=99.69  E-value=1.4e-15  Score=178.56  Aligned_cols=138  Identities=22%  Similarity=0.292  Sum_probs=104.6

Q ss_pred             ccEEEecCCCcccccccccccceEEEEeecccccccccC--CCCccc-------cccccccchhhhccCCcceEEEccCC
Q 041114          357 ENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA--PTCPHL-------HYEFKMITDGFFQFMPLLKVLNMSRE  427 (680)
Q Consensus       357 ~~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~--~~~~~L-------~~~l~~lp~~~~~~l~~Lr~LdL~~~  427 (680)
                      ...+...+.++..+|.  -..++++|.+++|.+..+...  ..+++|       +.....+++..|.++++|++|+|++|
T Consensus         6 ~~~~dcs~~~L~~vP~--lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N   83 (844)
T 3j0a_A            6 GRIAFYRFCNLTQVPQ--VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSS   83 (844)
T ss_dssp             TEEEEESCCCSSCCCS--SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTC
T ss_pred             ceEEEccCCCCCCCCC--CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCC
Confidence            3456667778888887  568999999999999876432  444555       33456776666899999999999994


Q ss_pred             CCcccc-chhhhccCCCCEEeccCCCCccc-cch-hhhcCCCCCcEeeccCCcc-----hhhhcCCCCCceeEEEeccc
Q 041114          428 TNIKEL-LGELKALVNLKCVNLEWARDLVT-IPL-EVISNFSKLRVLRLFGTVL-----AKELLGLKHLEELDFTLRCV  498 (680)
Q Consensus       428 ~~i~~l-P~~i~~L~~Lr~L~L~~~~~l~~-lP~-~~i~~L~~L~~L~l~~~~~-----~~~l~~L~~L~~L~i~~~~~  498 (680)
                       .+..+ |..+++|++|++|+|++| .+.. +|. ..+++|++|++|++++|..     ...+++|++|+.|++..+..
T Consensus        84 -~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           84 -KIYFLHPDAFQGLFHLFELRLYFC-GLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQI  160 (844)
T ss_dssp             -CCCEECTTSSCSCSSCCCEECTTC-CCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCC
T ss_pred             -cCcccCHhHccCCcccCEeeCcCC-CCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcC
Confidence             77766 788999999999999999 6765 443 2378899999999998752     24678899999999886543

>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=99.69  E-value=4.8e-16  Score=169.37  Aligned_cols=276  Identities=18%  Similarity=0.237  Sum_probs=176.4

Q ss_pred             ccEEEecCCCcccccccccccceEEEEeecccccccccC--CCCccc------ccccc-ccchhhhccCCcceEEEccCC
Q 041114          357 ENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA--PTCPHL------HYEFK-MITDGFFQFMPLLKVLNMSRE  427 (680)
Q Consensus       357 ~~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~-~lp~~~~~~l~~Lr~LdL~~~  427 (680)
                      ...+...+.++..+|.  -.+++++|++++|.+..++..  ..+++|      ++.+. .+++..|.++++|++|+|++|
T Consensus        12 ~~~~~c~~~~l~~lp~--l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n   89 (455)
T 3v47_A           12 GYNAICINRGLHQVPE--LPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYN   89 (455)
T ss_dssp             TTEEECCSSCCSSCCC--CCTTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTC
T ss_pred             ccccCcCCCCcccCCC--CCCccCEEEecCCccCcCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCCC
Confidence            3456666777777776  347899999999999886432  445555      44443 676767899999999999995


Q ss_pred             CCcccc-chhhhccCCCCEEeccCCCCccc-cc-hhhhcCCCCCcEeeccCCcc----hhh-hcCCCCCceeEEEeccch
Q 041114          428 TNIKEL-LGELKALVNLKCVNLEWARDLVT-IP-LEVISNFSKLRVLRLFGTVL----AKE-LLGLKHLEELDFTLRCVH  499 (680)
Q Consensus       428 ~~i~~l-P~~i~~L~~Lr~L~L~~~~~l~~-lP-~~~i~~L~~L~~L~l~~~~~----~~~-l~~L~~L~~L~i~~~~~~  499 (680)
                       .+..+ |..++++++|++|++++| .+.. +| ...++++++|++|++++|..    +.. +.++++|+.|++..+...
T Consensus        90 -~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~  167 (455)
T 3v47_A           90 -QFLQLETGAFNGLANLEVLTLTQC-NLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVK  167 (455)
T ss_dssp             -TTCEECTTTTTTCTTCCEEECTTS-CCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCCBS
T ss_pred             -ccCccChhhccCcccCCEEeCCCC-CCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCccc
Confidence             77665 688999999999999999 6775 23 23378899999999998862    233 778899999998754432


Q ss_pred             hhh--hhhhc------------------------------hhhhccccEEEEeccCCCCccc------------------
Q 041114          500 SLQ--ILVSS------------------------------NKLQSCTRALVLIRFKDSKSID------------------  529 (680)
Q Consensus       500 ~l~--~l~~~------------------------------~~l~~~L~~L~l~~~~~~~~~~------------------  529 (680)
                      ...  .+...                              ....++|+.|+++++.-....+                  
T Consensus       168 ~~~~~~l~~l~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~L~~L~l~  247 (455)
T 3v47_A          168 SICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILS  247 (455)
T ss_dssp             CCCTTTSGGGTTCEEEEEECTTCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHHHHTTTCCEEEEECT
T ss_pred             ccChhhhhccccccccccccccCcccccchhhccccccccccccceeeeEecCCCcccccchhhhhccccccceeeEeec
Confidence            211  11110                              0011356666666553211000                  


Q ss_pred             --------------------------------------------ccccccCCCCCEEEEeccCCcceeecccCCCCccCC
Q 041114          530 --------------------------------------------VIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKS  565 (680)
Q Consensus       530 --------------------------------------------~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~  565 (680)
                                                                  ...+..+++|+.|+++++ .+..++          +
T Consensus       248 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~----------~  316 (455)
T 3v47_A          248 NSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQN-EINKID----------D  316 (455)
T ss_dssp             TCTTTSCCTTCCSSCCCCTTTTGGGTTSCCCEEECCSSCCCEECTTTTTTCTTCCEEECTTS-CCCEEC----------T
T ss_pred             cccccccccchhhhccCcccccccccccCceEEEecCccccccchhhcccCCCCCEEECCCC-cccccC----------h
Confidence                                                        012233334444444332 122221          2


Q ss_pred             CCCCCCCCccEEeeeCCCCCCCC-C-CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCCcc
Q 041114          566 PQPFVFCSLHKVTITFCPKLKGL-T-FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNS  643 (680)
Q Consensus       566 ~~~~~l~~L~~L~L~~c~~l~~l-~-~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~~  643 (680)
                      ..+..+++|++|+|++|.. +.+ | .++.+++|++|+++++. +..++. ..++.+++|+.|+++++ +++.+|.....
T Consensus       317 ~~~~~l~~L~~L~Ls~N~l-~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~-~~~~~l~~L~~L~L~~N-~l~~~~~~~~~  392 (455)
T 3v47_A          317 NAFWGLTHLLKLNLSQNFL-GSIDSRMFENLDKLEVLDLSYNH-IRALGD-QSFLGLPNLKELALDTN-QLKSVPDGIFD  392 (455)
T ss_dssp             TTTTTCTTCCEEECCSSCC-CEECGGGGTTCTTCCEEECCSSC-CCEECT-TTTTTCTTCCEEECCSS-CCSCCCTTTTT
T ss_pred             hHhcCcccCCEEECCCCcc-CCcChhHhcCcccCCEEECCCCc-ccccCh-hhccccccccEEECCCC-ccccCCHhHhc
Confidence            2336778888888888753 443 2 46788999999999864 555533 34577999999999985 58888875433


Q ss_pred             ---ccCcceEE
Q 041114          644 ---ALEHKIAI  651 (680)
Q Consensus       644 ---~l~~L~i~  651 (680)
                         .|+.|.+.
T Consensus       393 ~l~~L~~L~l~  403 (455)
T 3v47_A          393 RLTSLQKIWLH  403 (455)
T ss_dssp             TCTTCCEEECC
T ss_pred             cCCcccEEEcc
Confidence               34444443

>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=99.68  E-value=1.1e-16  Score=180.60  Aligned_cols=261  Identities=14%  Similarity=0.103  Sum_probs=170.3

Q ss_pred             cccceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCCCccccch-hhhccCCCCE
Q 041114          375 EWETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLG-ELKALVNLKC  445 (680)
Q Consensus       375 ~~~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~-~i~~L~~Lr~  445 (680)
                      ...+++.+.+.++.+..+|..  ..+++|      ++.+..+|+..|..+++|++|+|++| .+..+|. .++++++|++
T Consensus        49 ~l~~l~~l~l~~~~l~~lp~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~  127 (597)
T 3oja_B           49 TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFN-AIRYLPPHVFQNVPLLTV  127 (597)
T ss_dssp             GGCCCSEEEESSCEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCE
T ss_pred             cCCCceEEEeeCCCCCCcCHHHHccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCC-cCCCCCHHHHcCCCCCCE
Confidence            456889999999998888764  334444      66777888766888999999999984 7877764 4689999999


Q ss_pred             EeccCCCCccccchhhhcCCCCCcEeeccCCc----chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEec
Q 041114          446 VNLEWARDLVTIPLEVISNFSKLRVLRLFGTV----LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIR  521 (680)
Q Consensus       446 L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~  521 (680)
                      |+|++| .+..+|.+.++++++|++|++++|.    .+..+..+++|+.|++..+....+.     ...+++|+.|++++
T Consensus       128 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          128 LVLERN-DLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVD-----LSLIPSLFHANVSY  201 (597)
T ss_dssp             EECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSCCSBCC-----GGGCTTCSEEECCS
T ss_pred             EEeeCC-CCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCCCCCcC-----hhhhhhhhhhhccc
Confidence            999998 7888988756889999999998875    2345778888888888755443321     12234666666665


Q ss_pred             cCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCC--------cc-CCCCCCCCCCccEEeeeCCCCCCCCC-Cc
Q 041114          522 FKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGT--------VL-KSPQPFVFCSLHKVTITFCPKLKGLT-FL  591 (680)
Q Consensus       522 ~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~--------~l-~~~~~~~l~~L~~L~L~~c~~l~~l~-~l  591 (680)
                      +. +.     .+...++|+.|+++++. +..++......-        .+ .++.+..+++|+.|+|++|.....+| .+
T Consensus       202 n~-l~-----~l~~~~~L~~L~ls~n~-l~~~~~~~~~~L~~L~L~~n~l~~~~~l~~l~~L~~L~Ls~N~l~~~~~~~~  274 (597)
T 3oja_B          202 NL-LS-----TLAIPIAVEELDASHNS-INVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPF  274 (597)
T ss_dssp             SC-CS-----EEECCTTCSEEECCSSC-CCEEECSCCSCCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCEEESGGG
T ss_pred             Cc-cc-----cccCCchhheeeccCCc-ccccccccCCCCCEEECCCCCCCCChhhccCCCCCEEECCCCccCCCCHHHh
Confidence            43 11     22334455555555432 222211110000        00 12233677888888888876443333 47


Q ss_pred             CCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCCcc--ccCcceEEec
Q 041114          592 VFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNS--ALEHKIAIRG  653 (680)
Q Consensus       592 ~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~~--~l~~L~i~~~  653 (680)
                      +.+++|+.|+++++ .+..++..  .+.+|+|+.|++++|+ +..+|..+..  .|+.|.+.++
T Consensus       275 ~~l~~L~~L~Ls~N-~l~~l~~~--~~~l~~L~~L~Ls~N~-l~~i~~~~~~l~~L~~L~L~~N  334 (597)
T 3oja_B          275 VKMQRLERLYISNN-RLVALNLY--GQPIPTLKVLDLSHNH-LLHVERNQPQFDRLENLYLDHN  334 (597)
T ss_dssp             TTCSSCCEEECTTS-CCCEEECS--SSCCTTCCEEECCSSC-CCCCGGGHHHHTTCSEEECCSS
T ss_pred             cCccCCCEEECCCC-CCCCCCcc--cccCCCCcEEECCCCC-CCccCcccccCCCCCEEECCCC
Confidence            78888888888884 45555432  3668899999888874 6677765432  3444444444

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

Probab=99.68  E-value=7.7e-17  Score=182.91  Aligned_cols=113  Identities=14%  Similarity=0.221  Sum_probs=99.3

Q ss_pred             HHhCCChhHHHHHHHHhccC-CCHHHHHHHHHHHhcCCCccccCChhhHHHHHHHhHhcCCchhH-HHHHHHhcccCCCc
Q 041114          208 KECGGSPLALITIGRAMAYK-KKPEEWRYAIEVLRKSSSSEFAGLVKEVYPLLKFSYDSLQNDVI-RSCFLYCCLYPEDF  285 (680)
Q Consensus       208 ~kc~GlPLai~~lg~~L~~k-~~~~~W~~~l~~l~~~~~~~~~~~~~~i~~~L~~Sy~~L~~~~l-k~cfl~~s~Fp~~~  285 (680)
                      +.|+|+||||+++|+.|+.+ .+.++|...     .         ...+..+|.+||+.||+ +. |.||+|||+||+++
T Consensus       321 eICgGLPLALkLaGs~Lr~k~~s~eeW~~~-----~---------~~~I~aaLelSYd~Lp~-eelK~cFL~LAIFPed~  385 (1221)
T 1vt4_I          321 EVLTTNPRRLSIIAESIRDGLATWDNWKHV-----N---------CDKLTTIIESSLNVLEP-AEYRKMFDRLSVFPPSA  385 (1221)
T ss_dssp             HHCCCCHHHHHHHHHHHHHSCSSHHHHHHC-----S---------CHHHHHHHHHHHHHSCT-THHHHHHHHTTSSCTTS
T ss_pred             HHhCCCHHHHHHHHHHHhCCCCCHHHHhcC-----C---------hhHHHHHHHHHHHhCCH-HHHHHHHHHHhCCCCCC
Confidence            45999999999999999986 378889762     1         24799999999999999 78 99999999999999


Q ss_pred             ccChHHHHHHHHHcCCcCCCChhhHHHHHHHHHHHHHHccccccc-CcccEEechhHHHHH
Q 041114          286 AILKRDLIDCWIGEGFLDERDSFSAQNQGYYIVGTLVHAWLLEEV-GDDKVKLHGVLHDMA  345 (680)
Q Consensus       286 ~i~~~~Li~~Wiaeg~i~~~~~~~~~~~g~~~~~~L~~~~ll~~~-~~~~~~mhdl~~d~a  345 (680)
                      .|+++.++.+|+++|          ++.++.++++|+++||++.. ....|+|||++++++
T Consensus       386 ~I~~elLa~LW~aeG----------eedAe~~L~eLvdRSLLq~d~~~~rYrMHDLllELr  436 (1221)
T 1vt4_I          386 HIPTILLSLIWFDVI----------KSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELK  436 (1221)
T ss_dssp             CEEHHHHHHHHCSSC----------SHHHHHHHHHHHTSSSSSBCSSSSEEBCCCHHHHHH
T ss_pred             CCCHHHHHHHhcCCC----------HHHHHHHHHHHHhhCCEEEeCCCCEEEehHHHHHHh
Confidence            999999999999987          13588899999999999986 467899999999966

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

Probab=99.68  E-value=1.9e-16  Score=163.47  Aligned_cols=240  Identities=14%  Similarity=0.077  Sum_probs=133.4

Q ss_pred             cceEEEEeecccccc---cccC-CCCccc-----c--cccc-ccchhhhccCCcceEEEccCCCCcc-ccchhhhccCCC
Q 041114          377 ETVRRLSLMQNQIKI---LSEA-PTCPHL-----H--YEFK-MITDGFFQFMPLLKVLNMSRETNIK-ELLGELKALVNL  443 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~---l~~~-~~~~~L-----~--~~l~-~lp~~~~~~l~~Lr~LdL~~~~~i~-~lP~~i~~L~~L  443 (680)
                      .+++++.+.++.+..   +|.. ..+++|     .  +.+. .+|.. |.++++|++|+|++| .+. .+|..++++++|
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 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPA-IAKLTQLHYLYITHT-NVSGAIPDFLSQIKTL  127 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGG-GGGCTTCSEEEEEEE-CCEEECCGGGGGCTTC
T ss_pred             ceEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCcccccCChh-HhcCCCCCEEECcCC-eeCCcCCHHHhCCCCC
Confidence            478889998888763   3322 222333     1  3333 34444 666677777777663 554 566666677777


Q ss_pred             CEEeccCCCCcc-ccchhhhcCCCCCcEeeccCCc----chhhhcCCC-CCceeEEEeccchhhhhhhhchhhhccccEE
Q 041114          444 KCVNLEWARDLV-TIPLEVISNFSKLRVLRLFGTV----LAKELLGLK-HLEELDFTLRCVHSLQILVSSNKLQSCTRAL  517 (680)
Q Consensus       444 r~L~L~~~~~l~-~lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~-~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L  517 (680)
                      ++|++++| .+. .+|.. ++++++|++|++++|.    .+..+..+. +|+.|++..+....  .++.....+ .|+.|
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  202 (313)
T 1ogq_A          128 VTLDFSYN-ALSGTLPPS-ISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTG--KIPPTFANL-NLAFV  202 (313)
T ss_dssp             CEEECCSS-EEESCCCGG-GGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEE--ECCGGGGGC-CCSEE
T ss_pred             CEEeCCCC-ccCCcCChH-HhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeec--cCChHHhCC-cccEE
Confidence            77777766 455 55654 6667777777776654    334555665 66666665433221  111111222 26666


Q ss_pred             EEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC-CcCCCCC
Q 041114          518 VLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT-FLVFAPN  596 (680)
Q Consensus       518 ~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~  596 (680)
                      +++++.-....+ ..+..+++|+.|+++++.. ....+.           ...+++|++|++++|.....+| ++..+++
T Consensus       203 ~Ls~N~l~~~~~-~~~~~l~~L~~L~L~~N~l-~~~~~~-----------~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~  269 (313)
T 1ogq_A          203 DLSRNMLEGDAS-VLFGSDKNTQKIHLAKNSL-AFDLGK-----------VGLSKNLNGLDLRNNRIYGTLPQGLTQLKF  269 (313)
T ss_dssp             ECCSSEEEECCG-GGCCTTSCCSEEECCSSEE-CCBGGG-----------CCCCTTCCEEECCSSCCEECCCGGGGGCTT
T ss_pred             ECcCCcccCcCC-HHHhcCCCCCEEECCCCce-eeecCc-----------ccccCCCCEEECcCCcccCcCChHHhcCcC
Confidence            666654222222 3566667777777765432 211111           1445677777777765433444 4666777


Q ss_pred             CCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCC
Q 041114          597 LKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPL  639 (680)
Q Consensus       597 L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~  639 (680)
                      |++|+++++.....+|..   +.+++|+.+++.++|.|-..|.
T Consensus       270 L~~L~Ls~N~l~~~ip~~---~~l~~L~~l~l~~N~~lc~~p~  309 (313)
T 1ogq_A          270 LHSLNVSFNNLCGEIPQG---GNLQRFDVSAYANNKCLCGSPL  309 (313)
T ss_dssp             CCEEECCSSEEEEECCCS---TTGGGSCGGGTCSSSEEESTTS
T ss_pred             CCEEECcCCcccccCCCC---ccccccChHHhcCCCCccCCCC
Confidence            777777775433333332   5677777777777666655544

>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=99.68  E-value=2.8e-16  Score=161.76  Aligned_cols=237  Identities=17%  Similarity=0.203  Sum_probs=155.0

Q ss_pred             EEEecCCCcccccccccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCcccc---ch
Q 041114          359 FLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKEL---LG  435 (680)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~l---P~  435 (680)
                      .+...+.++..+|... ..++++|.+.++.+.                .+|..+|.++++|++|+|++| .+..+   |.
T Consensus        11 ~l~c~~~~l~~ip~~~-~~~l~~L~L~~n~l~----------------~i~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~   72 (306)
T 2z66_A           11 EIRCNSKGLTSVPTGI-PSSATRLELESNKLQ----------------SLPHGVFDKLTQLTKLSLSSN-GLSFKGCCSQ   72 (306)
T ss_dssp             EEECCSSCCSSCCSCC-CTTCCEEECCSSCCC----------------CCCTTTTTTCTTCSEEECCSS-CCCEEEEEEH
T ss_pred             EEEcCCCCcccCCCCC-CCCCCEEECCCCccC----------------ccCHhHhhccccCCEEECCCC-ccCcccCccc
Confidence            3445555566666422 257788888777665                566666888999999999994 66654   67


Q ss_pred             hhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcc-----hhhhcCCCCCceeEEEeccchhhhhhhhchhh
Q 041114          436 ELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVL-----AKELLGLKHLEELDFTLRCVHSLQILVSSNKL  510 (680)
Q Consensus       436 ~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~-----~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l  510 (680)
                      .+..+++|++|++++| .+..+|.. +..+++|++|+++++..     ...+..+++|+.|++..+.....  .+.....
T Consensus        73 ~~~~~~~L~~L~Ls~n-~i~~l~~~-~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~--~~~~~~~  148 (306)
T 2z66_A           73 SDFGTTSLKYLDLSFN-GVITMSSN-FLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVA--FNGIFNG  148 (306)
T ss_dssp             HHHSCSCCCEEECCSC-SEEEEEEE-EETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEEC--STTTTTT
T ss_pred             ccccccccCEEECCCC-ccccChhh-cCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCCCcCCcc--chhhccc
Confidence            7888999999999999 78889987 88999999999998751     13566777888877764332211  1122223


Q ss_pred             hccccEEEEeccCCCC-cccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC
Q 041114          511 QSCTRALVLIRFKDSK-SIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT  589 (680)
Q Consensus       511 ~~~L~~L~l~~~~~~~-~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~  589 (680)
                      +++|+.|+++++.-.. ..+ ..+..+++|+.|+++++ .+..+++..+          ..+++|++|++++|. +..++
T Consensus       149 l~~L~~L~l~~n~l~~~~~~-~~~~~l~~L~~L~Ls~n-~l~~~~~~~~----------~~l~~L~~L~L~~N~-l~~~~  215 (306)
T 2z66_A          149 LSSLEVLKMAGNSFQENFLP-DIFTELRNLTFLDLSQC-QLEQLSPTAF----------NSLSSLQVLNMSHNN-FFSLD  215 (306)
T ss_dssp             CTTCCEEECTTCEEGGGEEC-SCCTTCTTCCEEECTTS-CCCEECTTTT----------TTCTTCCEEECTTSC-CSBCC
T ss_pred             CcCCCEEECCCCccccccch-hHHhhCcCCCEEECCCC-CcCCcCHHHh----------cCCCCCCEEECCCCc-cCccC
Confidence            4577788877765222 123 36677788888888765 4444433333          466778888888765 33333


Q ss_pred             --CcCCCCCCCEEeEecCcchhHhhhcCCCCCCC-cccccCccccc
Q 041114          590 --FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTP-EMMGNTMDPCA  632 (680)
Q Consensus       590 --~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp-~L~~L~i~~C~  632 (680)
                        .+..+++|++|+++++. +...+.. .+..+| +|+.|++++++
T Consensus       216 ~~~~~~l~~L~~L~L~~N~-l~~~~~~-~~~~~~~~L~~L~L~~N~  259 (306)
T 2z66_A          216 TFPYKCLNSLQVLDYSLNH-IMTSKKQ-ELQHFPSSLAFLNLTQND  259 (306)
T ss_dssp             SGGGTTCTTCCEEECTTSC-CCBCSSS-SCCCCCTTCCEEECTTCC
T ss_pred             hhhccCcccCCEeECCCCC-CcccCHH-HHHhhhccCCEEEccCCC
Confidence              35677888888888754 4333222 234453 67777666654

>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=99.67  E-value=4.7e-16  Score=178.47  Aligned_cols=163  Identities=20%  Similarity=0.214  Sum_probs=122.3

Q ss_pred             cEEEecCCCcccccccccccceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCCC
Q 041114          358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETN  429 (680)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~  429 (680)
                      ..+...+..+..+|... ..++++|.+.+|.+..++..  ..+++|      ++.+..+++..|.++++|++|+|++| .
T Consensus         7 ~~~~cs~~~L~~ip~~~-~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n-~   84 (680)
T 1ziw_A            7 EVADCSHLKLTQVPDDL-PTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHN-E   84 (680)
T ss_dssp             SEEECCSSCCSSCCSCS-CTTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSS-C
T ss_pred             CeeECCCCCcccccccc-CCCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCC-c
Confidence            45666677777777533 37899999999999887653  445555      67788887777999999999999994 8


Q ss_pred             ccccch-hhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc----chhhhcCCCCCceeEEEeccchhhhhh
Q 041114          430 IKELLG-ELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV----LAKELLGLKHLEELDFTLRCVHSLQIL  504 (680)
Q Consensus       430 i~~lP~-~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~~L~~L~i~~~~~~~l~~l  504 (680)
                      +..+|. .++++++|++|++++| .+..+|+..++++++|++|++++|.    .+..+.++++|+.|++..+....+..-
T Consensus        85 l~~l~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~  163 (680)
T 1ziw_A           85 LSQLSDKTFAFCTNLTELHLMSN-SIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSE  163 (680)
T ss_dssp             CCCCCTTTTTTCTTCSEEECCSS-CCCCCCSCTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECCSSCCCCBCHH
T ss_pred             cCccChhhhccCCCCCEEECCCC-ccCccChhHccccCCCCEEECCCCcccccCchhhcccccCCEEEccCCcccccCHH
Confidence            999996 5999999999999999 7888886559999999999999885    344567889999999875543322110


Q ss_pred             hhchhhhccccEEEEeccC
Q 041114          505 VSSNKLQSCTRALVLIRFK  523 (680)
Q Consensus       505 ~~~~~l~~~L~~L~l~~~~  523 (680)
                      .-.....++|+.|+++++.
T Consensus       164 ~~~~~~~~~L~~L~L~~n~  182 (680)
T 1ziw_A          164 ELDIFANSSLKKLELSSNQ  182 (680)
T ss_dssp             HHGGGTTCEESEEECTTCC
T ss_pred             HhhccccccccEEECCCCc
Confidence            0000112578888887764

>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=99.67  E-value=1e-15  Score=167.40  Aligned_cols=257  Identities=18%  Similarity=0.195  Sum_probs=136.9

Q ss_pred             EEEecCCCcccccccccccceEEEEeecccccccccCCCCccc-----cccccccchhhhccCCcceEEEccCCCCcccc
Q 041114          359 FLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL-----HYEFKMITDGFFQFMPLLKVLNMSRETNIKEL  433 (680)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L-----~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~l  433 (680)
                      .+...+..+..++.....+++++|.+.+|.+..++....+++|     .+.+..+++  +.++++|++|++++| .+..+
T Consensus       116 ~L~L~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~~~~~~~~--~~~l~~L~~L~l~~n-~l~~~  192 (466)
T 1o6v_A          116 GLTLFNNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKP--LANLTTLERLDISSN-KVSDI  192 (466)
T ss_dssp             EEECCSSCCCCCGGGTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGG--GTTCTTCCEEECCSS-CCCCC
T ss_pred             EEECCCCCCCCChHHcCCCCCCEEECCCCccCCChhhccCCcccEeecCCcccCchh--hccCCCCCEEECcCC-cCCCC
Confidence            3444444455555555667777777777777766554444444     333334443  667777777777774 56666


Q ss_pred             chhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCceeEEEeccchhhhhhhhchhhh
Q 041114          434 LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQ  511 (680)
Q Consensus       434 P~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~  511 (680)
                      + .++.+++|++|++++| .+..++.  ++.+++|++|++++|.  .+..+..+++|+.|++..+....+..+    ..+
T Consensus       193 ~-~l~~l~~L~~L~l~~n-~l~~~~~--~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~~----~~l  264 (466)
T 1o6v_A          193 S-VLAKLTNLESLIATNN-QISDITP--LGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPL----SGL  264 (466)
T ss_dssp             G-GGGGCTTCSEEECCSS-CCCCCGG--GGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCCGGG----TTC
T ss_pred             h-hhccCCCCCEEEecCC-ccccccc--ccccCCCCEEECCCCCcccchhhhcCCCCCEEECCCCccccchhh----hcC
Confidence            4 4677777777777777 5666665  5667777777777664  334556666777777664443332221    122


Q ss_pred             ccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCC-CCcc-----------CCCCCCCCCCccEEee
Q 041114          512 SCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTS-GTVL-----------KSPQPFVFCSLHKVTI  579 (680)
Q Consensus       512 ~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~-~~~l-----------~~~~~~~l~~L~~L~L  579 (680)
                      ++|+.|+++++. +...+  .+..+++|+.|+++++. +..+++  .. ...+           ..+....+++|+.|++
T Consensus       265 ~~L~~L~l~~n~-l~~~~--~~~~l~~L~~L~L~~n~-l~~~~~--~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~l  338 (466)
T 1o6v_A          265 TKLTELKLGANQ-ISNIS--PLAGLTALTNLELNENQ-LEDISP--ISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFF  338 (466)
T ss_dssp             TTCSEEECCSSC-CCCCG--GGTTCTTCSEEECCSSC-CSCCGG--GGGCTTCSEEECCSSCCSCCGGGGGCTTCCEEEC
T ss_pred             CCCCEEECCCCc-cCccc--cccCCCccCeEEcCCCc-ccCchh--hcCCCCCCEEECcCCcCCCchhhccCccCCEeEC
Confidence            356666666554 22222  24555566666665532 222211  00 0000           0000134555555555


Q ss_pred             eCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCC
Q 041114          580 TFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLP  638 (680)
Q Consensus       580 ~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP  638 (680)
                      ++|. +..++.+..+++|+.|++++|. +..+++   .+.+++|+.|++++|+ +..+|
T Consensus       339 ~~n~-l~~~~~l~~l~~L~~L~l~~n~-l~~~~~---~~~l~~L~~L~l~~n~-~~~~p  391 (466)
T 1o6v_A          339 YNNK-VSDVSSLANLTNINWLSAGHNQ-ISDLTP---LANLTRITQLGLNDQA-WTNAP  391 (466)
T ss_dssp             CSSC-CCCCGGGTTCTTCCEEECCSSC-CCBCGG---GTTCTTCCEEECCCEE-EECCC
T ss_pred             CCCc-cCCchhhccCCCCCEEeCCCCc-cCccch---hhcCCCCCEEeccCCc-ccCCc
Confidence            5543 4444555555666666665543 222222   2455666666655543 33344

>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=99.67  E-value=8.3e-16  Score=167.39  Aligned_cols=229  Identities=20%  Similarity=0.202  Sum_probs=170.4

Q ss_pred             cEEEecCCCcccccccccccceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCCC
Q 041114          358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETN  429 (680)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~  429 (680)
                      ..+...+.++..+|... ..++++|.+.+|.+..++..  ..+++|      ++.+..+++..|.++++|++|+|++ +.
T Consensus        57 ~~v~c~~~~l~~iP~~~-~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~-n~  134 (452)
T 3zyi_A           57 SKVVCTRRGLSEVPQGI-PSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFD-NW  134 (452)
T ss_dssp             CEEECCSSCCSSCCSCC-CTTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS-SC
T ss_pred             cEEEECCCCcCccCCCC-CCCccEEECcCCcCceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCC-Cc
Confidence            34556666777777432 36899999999999877433  344555      6778888877788999999999999 48


Q ss_pred             ccccchh-hhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchh-----hhcCCCCCceeEEEeccchhhhh
Q 041114          430 IKELLGE-LKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAK-----ELLGLKHLEELDFTLRCVHSLQI  503 (680)
Q Consensus       430 i~~lP~~-i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~-----~l~~L~~L~~L~i~~~~~~~l~~  503 (680)
                      +..+|.. ++.+++|++|+|++| .+..+|...+.++++|++|++++|..+.     .+.++++|+.|++..+....+..
T Consensus       135 l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~  213 (452)
T 3zyi_A          135 LTVIPSGAFEYLSKLRELWLRNN-PIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPN  213 (452)
T ss_dssp             CSBCCTTTSSSCTTCCEEECCSC-CCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSCCC
T ss_pred             CCccChhhhcccCCCCEEECCCC-CcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCccccccc
Confidence            8888854 888999999999999 7888888668899999999998865333     45678888888887655444432


Q ss_pred             hhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCC
Q 041114          504 LVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCP  583 (680)
Q Consensus       504 l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~  583 (680)
                      +    ..+.+|+.|+++++. +...+...+..+++|+.|+++++ .+..+.+..+          ..+++|+.|+|++|.
T Consensus       214 ~----~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~----------~~l~~L~~L~L~~N~  277 (452)
T 3zyi_A          214 L----TPLVGLEELEMSGNH-FPEIRPGSFHGLSSLKKLWVMNS-QVSLIERNAF----------DGLASLVELNLAHNN  277 (452)
T ss_dssp             C----TTCTTCCEEECTTSC-CSEECGGGGTTCTTCCEEECTTS-CCCEECTTTT----------TTCTTCCEEECCSSC
T ss_pred             c----cccccccEEECcCCc-CcccCcccccCccCCCEEEeCCC-cCceECHHHh----------cCCCCCCEEECCCCc
Confidence            2    233489999999886 44444357888999999999875 4555544443          578899999999975


Q ss_pred             CCCCCCC--cCCCCCCCEEeEecCc
Q 041114          584 KLKGLTF--LVFAPNLKCLSLFDCT  606 (680)
Q Consensus       584 ~l~~l~~--l~~l~~L~~L~l~~c~  606 (680)
                       ++.+|.  +..+++|+.|++++++
T Consensus       278 -l~~~~~~~~~~l~~L~~L~L~~Np  301 (452)
T 3zyi_A          278 -LSSLPHDLFTPLRYLVELHLHHNP  301 (452)
T ss_dssp             -CSCCCTTSSTTCTTCCEEECCSSC
T ss_pred             -CCccChHHhccccCCCEEEccCCC
Confidence             556653  6788999999998754

>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=99.67  E-value=5.5e-16  Score=172.01  Aligned_cols=133  Identities=25%  Similarity=0.332  Sum_probs=96.7

Q ss_pred             cEEEecCCCcccccccccccceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCCC
Q 041114          358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETN  429 (680)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~  429 (680)
                      +.+...+..+..+|.... +++++|++++|.+..++..  ..+++|      ++.+..+++..|.++++|++|||++ +.
T Consensus         3 ~~l~ls~n~l~~ip~~~~-~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~-N~   80 (520)
T 2z7x_B            3 FLVDRSKNGLIHVPKDLS-QKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSH-NK   80 (520)
T ss_dssp             CEEECTTSCCSSCCCSCC-TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCS-SC
T ss_pred             ceEecCCCCccccccccc-ccccEEECCCCcccccChhhccccccccEEecCCCccCCcChHHhhcccCCCEEecCC-Cc
Confidence            455666667777775433 7999999999998876532  444444      6677777666688899999999998 48


Q ss_pred             ccccchhhhccCCCCEEeccCCCCccc--cchhhhcCCCCCcEeeccCCcch-hhhcCCCCC--ceeEEEec
Q 041114          430 IKELLGELKALVNLKCVNLEWARDLVT--IPLEVISNFSKLRVLRLFGTVLA-KELLGLKHL--EELDFTLR  496 (680)
Q Consensus       430 i~~lP~~i~~L~~Lr~L~L~~~~~l~~--lP~~~i~~L~~L~~L~l~~~~~~-~~l~~L~~L--~~L~i~~~  496 (680)
                      +..+|..  .+++|++|++++| .+..  +|.. ++++++|++|++++|..- ..+..+++|  +.|++..+
T Consensus        81 l~~lp~~--~l~~L~~L~L~~N-~l~~~~~p~~-~~~l~~L~~L~L~~n~l~~~~~~~l~~L~L~~L~l~~n  148 (520)
T 2z7x_B           81 LVKISCH--PTVNLKHLDLSFN-AFDALPICKE-FGNMSQLKFLGLSTTHLEKSSVLPIAHLNISKVLLVLG  148 (520)
T ss_dssp             CCEEECC--CCCCCSEEECCSS-CCSSCCCCGG-GGGCTTCCEEEEEESSCCGGGGGGGTTSCEEEEEEEEC
T ss_pred             eeecCcc--ccCCccEEeccCC-ccccccchhh-hccCCcceEEEecCcccchhhccccccceeeEEEeecc
Confidence            8888876  7889999999988 6775  4565 888999999988877522 334455555  66666543

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

Probab=99.67  E-value=3.1e-16  Score=163.49  Aligned_cols=251  Identities=18%  Similarity=0.186  Sum_probs=189.2

Q ss_pred             cEEEecCCCcccccccccccceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCCC
Q 041114          358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETN  429 (680)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~  429 (680)
                      ..+...+..+..+|... .++++.|.+.+|.+..++..  ..+++|      ++.+..+++..|.++++|++|+|++ +.
T Consensus        36 ~~l~~~~~~l~~ip~~~-~~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~-n~  113 (332)
T 2ft3_A           36 RVVQCSDLGLKAVPKEI-SPDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISK-NH  113 (332)
T ss_dssp             TEEECCSSCCSSCCSCC-CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECCS-SC
T ss_pred             CEEECCCCCccccCCCC-CCCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECCC-Cc
Confidence            44556666677776533 36899999999999887542  455555      6778888666699999999999999 58


Q ss_pred             ccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcc------hhhhcCCCCCceeEEEeccchhhhh
Q 041114          430 IKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVL------AKELLGLKHLEELDFTLRCVHSLQI  503 (680)
Q Consensus       430 i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~------~~~l~~L~~L~~L~i~~~~~~~l~~  503 (680)
                      +..+|..+.  ++|++|++++| .+..+|...++++++|++|+++++..      +..+..+ +|+.|++..+....   
T Consensus       114 l~~l~~~~~--~~L~~L~l~~n-~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n~l~~---  186 (332)
T 2ft3_A          114 LVEIPPNLP--SSLVELRIHDN-RIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRISEAKLTG---  186 (332)
T ss_dssp             CCSCCSSCC--TTCCEEECCSS-CCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCSSBCSS---
T ss_pred             CCccCcccc--ccCCEEECCCC-ccCccCHhHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEECcCCCCCc---
Confidence            999998776  89999999999 79999987689999999999998763      3445566 88888887554443   


Q ss_pred             hhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCC
Q 041114          504 LVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCP  583 (680)
Q Consensus       504 l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~  583 (680)
                      ++..  ..++|+.|+++++. +...+...+..+++|+.|+++++ .+..+++..+          ..+++|+.|++++|.
T Consensus       187 l~~~--~~~~L~~L~l~~n~-i~~~~~~~l~~l~~L~~L~L~~N-~l~~~~~~~~----------~~l~~L~~L~L~~N~  252 (332)
T 2ft3_A          187 IPKD--LPETLNELHLDHNK-IQAIELEDLLRYSKLYRLGLGHN-QIRMIENGSL----------SFLPTLRELHLDNNK  252 (332)
T ss_dssp             CCSS--SCSSCSCCBCCSSC-CCCCCTTSSTTCTTCSCCBCCSS-CCCCCCTTGG----------GGCTTCCEEECCSSC
T ss_pred             cCcc--ccCCCCEEECCCCc-CCccCHHHhcCCCCCCEEECCCC-cCCcCChhHh----------hCCCCCCEEECCCCc
Confidence            3322  22589999999886 44444457889999999999975 4554444333          578999999999986


Q ss_pred             CCCCCC-CcCCCCCCCEEeEecCcchhHhhhcCCCCC-----CCcccccCcccccc
Q 041114          584 KLKGLT-FLVFAPNLKCLSLFDCTAMEEIISAGKFVH-----TPEMMGNTMDPCAK  633 (680)
Q Consensus       584 ~l~~l~-~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~-----lp~L~~L~i~~C~~  633 (680)
                       +..+| .+..+++|++|+++++ .+..++...+.+.     +++|+.|++.++|-
T Consensus       253 -l~~lp~~l~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~~  306 (332)
T 2ft3_A          253 -LSRVPAGLPDLKLLQVVYLHTN-NITKVGVNDFCPVGFGVKRAYYNGISLFNNPV  306 (332)
T ss_dssp             -CCBCCTTGGGCTTCCEEECCSS-CCCBCCTTSSSCSSCCSSSCCBSEEECCSSSS
T ss_pred             -CeecChhhhcCccCCEEECCCC-CCCccChhHccccccccccccccceEeecCcc
Confidence             44555 5889999999999985 5676654432222     57788899998873

>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=99.67  E-value=5.8e-16  Score=168.62  Aligned_cols=233  Identities=18%  Similarity=0.160  Sum_probs=123.4

Q ss_pred             eEEEEeecccccccccC--CCCccc---cccccccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCCC
Q 041114          379 VRRLSLMQNQIKILSEA--PTCPHL---HYEFKMITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWAR  452 (680)
Q Consensus       379 ~r~lsl~~~~~~~l~~~--~~~~~L---~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~  452 (680)
                      .+.+...+..+..+|..  .....|   ++.+..+++..|.++++|++|+|++| .+..++ ..+..+++|++|+|++| 
T Consensus        56 ~~~v~c~~~~l~~iP~~~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n-~i~~~~~~~~~~l~~L~~L~L~~n-  133 (452)
T 3zyi_A           56 FSKVVCTRRGLSEVPQGIPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRN-SIRQIEVGAFNGLASLNTLELFDN-  133 (452)
T ss_dssp             SCEEECCSSCCSSCCSCCCTTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSS-
T ss_pred             CcEEEECCCCcCccCCCCCCCccEEECcCCcCceECHHHcCCCCCCCEEECCCC-ccCCcChhhccCcccCCEEECCCC-
Confidence            34566666666666543  112222   55566665555667777777777773 666555 55667777777777776 


Q ss_pred             CccccchhhhcCCCCCcEeeccCCcc----hhhhcCCCCCceeEEEeccchhhhhhhh-chhhhccccEEEEeccCCCCc
Q 041114          453 DLVTIPLEVISNFSKLRVLRLFGTVL----AKELLGLKHLEELDFTLRCVHSLQILVS-SNKLQSCTRALVLIRFKDSKS  527 (680)
Q Consensus       453 ~l~~lP~~~i~~L~~L~~L~l~~~~~----~~~l~~L~~L~~L~i~~~~~~~l~~l~~-~~~l~~~L~~L~l~~~~~~~~  527 (680)
                      .+..+|.+.++.+++|++|++++|..    ...+.++++|+.|++..+  ..+..++. ....+++|+.|+++++. +..
T Consensus       134 ~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~--~~l~~i~~~~~~~l~~L~~L~L~~n~-l~~  210 (452)
T 3zyi_A          134 WLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGEL--KKLEYISEGAFEGLFNLKYLNLGMCN-IKD  210 (452)
T ss_dssp             CCSBCCTTTSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCC--TTCCEECTTTTTTCTTCCEEECTTSC-CSS
T ss_pred             cCCccChhhhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCC--CCccccChhhccCCCCCCEEECCCCc-ccc
Confidence            56666665566677777777776641    123455566666655421  11222211 11223356666666554 333


Q ss_pred             ccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC-CcCCCCCCCEEeEecCc
Q 041114          528 IDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT-FLVFAPNLKCLSLFDCT  606 (680)
Q Consensus       528 ~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~c~  606 (680)
                      ++  .+..+++|+.|+++++ .+..+.+..+          ..+++|+.|+|++|......+ .+..+++|++|+++++ 
T Consensus       211 ~~--~~~~l~~L~~L~Ls~N-~l~~~~~~~~----------~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N-  276 (452)
T 3zyi_A          211 MP--NLTPLVGLEELEMSGN-HFPEIRPGSF----------HGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHN-  276 (452)
T ss_dssp             CC--CCTTCTTCCEEECTTS-CCSEECGGGG----------TTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS-
T ss_pred             cc--cccccccccEEECcCC-cCcccCcccc----------cCccCCCEEEeCCCcCceECHHHhcCCCCCCEEECCCC-
Confidence            33  4555666666666553 3333333333          345666666666654222212 3455666666666653 


Q ss_pred             chhHhhhcCCCCCCCcccccCcccc
Q 041114          607 AMEEIISAGKFVHTPEMMGNTMDPC  631 (680)
Q Consensus       607 ~l~~i~~~~~~~~lp~L~~L~i~~C  631 (680)
                      .+..++. ..+..+++|+.|+++++
T Consensus       277 ~l~~~~~-~~~~~l~~L~~L~L~~N  300 (452)
T 3zyi_A          277 NLSSLPH-DLFTPLRYLVELHLHHN  300 (452)
T ss_dssp             CCSCCCT-TSSTTCTTCCEEECCSS
T ss_pred             cCCccCh-HHhccccCCCEEEccCC
Confidence            3444432 22345556655555443

>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=99.66  E-value=1.5e-15  Score=171.77  Aligned_cols=137  Identities=18%  Similarity=0.182  Sum_probs=96.1

Q ss_pred             cEEEecCCCcccccccccccceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCCC
Q 041114          358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETN  429 (680)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~  429 (680)
                      ..+...+.++..+|... ...+++|++++|.+..++..  ..+++|      ++.+..+++..|.++++|++|+|++| .
T Consensus        15 ~~~~c~~~~l~~iP~~l-~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n-~   92 (606)
T 3t6q_A           15 KTYNCENLGLNEIPGTL-PNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTAN-P   92 (606)
T ss_dssp             TEEECTTSCCSSCCTTS-CTTCCEEECTTCCCSEECTTTSTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTC-C
T ss_pred             ceEECCCCCcccCcCCC-CCcCcEEEccCCccCcCChhHhccCccceEEECCCCccceeChhhccCccccCeeeCCCC-c
Confidence            45566666777777432 35899999999999877432  444544      56666776666888888888888884 6


Q ss_pred             cccc-chhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcc----hhhhcCCCCCceeEEEecc
Q 041114          430 IKEL-LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVL----AKELLGLKHLEELDFTLRC  497 (680)
Q Consensus       430 i~~l-P~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~----~~~l~~L~~L~~L~i~~~~  497 (680)
                      +..+ |..++.+++|++|++++| .+..++...++++++|++|++++|..    +..+..+++|+.|++..+.
T Consensus        93 l~~~~~~~~~~l~~L~~L~L~~n-~i~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~  164 (606)
T 3t6q_A           93 LIFMAETALSGPKALKHLFFIQT-GISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNA  164 (606)
T ss_dssp             CSEECTTTTSSCTTCCEEECTTS-CCSCGGGSCCTTCTTCCEEECCSSCCCCCCCCTTCCCTTCCEEECCSSC
T ss_pred             ccccChhhhcccccccEeecccc-CcccCCcchhccCCcccEEECCCCcccccCcccccCCcccCEEEcccCc
Confidence            6555 567888888888888888 67777443478888888888887652    2344457777777776543

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

Probab=99.66  E-value=4.5e-16  Score=180.43  Aligned_cols=271  Identities=14%  Similarity=0.140  Sum_probs=144.2

Q ss_pred             ccccceEEEEeeccc-ccc--cccC--------CCCccc------cccccccch-hhhccCCcceEEEccCCCCccccch
Q 041114          374 KEWETVRRLSLMQNQ-IKI--LSEA--------PTCPHL------HYEFKMITD-GFFQFMPLLKVLNMSRETNIKELLG  435 (680)
Q Consensus       374 ~~~~~~r~lsl~~~~-~~~--l~~~--------~~~~~L------~~~l~~lp~-~~~~~l~~Lr~LdL~~~~~i~~lP~  435 (680)
                      ...+++++|.+.+|. +..  +|..        ..+++|      ++.+..+|. ..|.++++|++|+|++| .+..+| 
T Consensus       512 ~~L~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N-~l~~lp-  589 (876)
T 4ecn_A          512 YDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHN-KVRHLE-  589 (876)
T ss_dssp             GGCSSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCCBCCCHHHHTTCTTCCEEECTTS-CCCBCC-
T ss_pred             hCCCCCCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcCCccCChhhhhcCCCCCEEECCCC-Ccccch-
Confidence            445677777777776 543  3321        111233      555666776 22677777777777774 666777 


Q ss_pred             hhhccCCCCEEeccCCCCccccchhhhcCCCC-CcEeeccCCcc---hhhhcCC--CCCceeEEEeccchhh-hhhhhch
Q 041114          436 ELKALVNLKCVNLEWARDLVTIPLEVISNFSK-LRVLRLFGTVL---AKELLGL--KHLEELDFTLRCVHSL-QILVSSN  508 (680)
Q Consensus       436 ~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~-L~~L~l~~~~~---~~~l~~L--~~L~~L~i~~~~~~~l-~~l~~~~  508 (680)
                      .++.+++|++|+|++| .+..+|.. ++++++ |++|++++|..   +..+..+  ++|+.|+++.+..... ..++...
T Consensus       590 ~~~~L~~L~~L~Ls~N-~l~~lp~~-l~~l~~~L~~L~Ls~N~L~~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l  667 (876)
T 4ecn_A          590 AFGTNVKLTDLKLDYN-QIEEIPED-FCAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSM  667 (876)
T ss_dssp             CCCTTSEESEEECCSS-CCSCCCTT-SCEECTTCCEEECCSSCCCSCCSCCCTTCSSCEEEEECCSSCTTTTSSSCSSCT
T ss_pred             hhcCCCcceEEECcCC-ccccchHH-HhhccccCCEEECcCCCCCcCchhhhccccCCCCEEECcCCcCCCccccchhhh
Confidence            6777777777777777 56677765 777776 77777776641   2222222  2255555554332211 1111000


Q ss_pred             h--hhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCC--------cc------------CCC
Q 041114          509 K--LQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGT--------VL------------KSP  566 (680)
Q Consensus       509 ~--l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~--------~l------------~~~  566 (680)
                      .  ...+|+.|+++++. +..++...+..+++|+.|+++++ .+..++.......        .+            .|.
T Consensus       668 ~~~~~~~L~~L~Ls~N~-L~~lp~~~~~~l~~L~~L~Ls~N-~L~~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~L~~lp~  745 (876)
T 4ecn_A          668 DDYKGINASTVTLSYNE-IQKFPTELFATGSPISTIILSNN-LMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSD  745 (876)
T ss_dssp             TTCCCCCEEEEECCSSC-CCSCCHHHHHTTCCCSEEECCSC-CCSCCCTTSSSCTTSCCTTGGGCCEEECCSSCCCCCCG
T ss_pred             ccccCCCcCEEEccCCc-CCccCHHHHccCCCCCEEECCCC-cCCccChHHhccccccccccCCccEEECCCCCCccchH
Confidence            0  01244555555443 22333222234444555555443 2222222111100        00            011


Q ss_pred             CCC--CCCCccEEeeeCCCCCCCCC-CcCCCCCCCEEeEecC------cchhHhhhcCCCCCCCcccccCccccccCCCC
Q 041114          567 QPF--VFCSLHKVTITFCPKLKGLT-FLVFAPNLKCLSLFDC------TAMEEIISAGKFVHTPEMMGNTMDPCAKLRKL  637 (680)
Q Consensus       567 ~~~--~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~c------~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~l  637 (680)
                      .+.  .+++|+.|+|++|..- .+| .++.+++|+.|+++++      .....+|.  .++.+++|+.|++++|. +..+
T Consensus       746 ~l~~~~l~~L~~L~Ls~N~L~-~lp~~l~~L~~L~~L~Ls~N~~ls~N~l~~~ip~--~l~~L~~L~~L~Ls~N~-L~~I  821 (876)
T 4ecn_A          746 DFRATTLPYLSNMDVSYNCFS-SFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPT--GITTCPSLIQLQIGSND-IRKV  821 (876)
T ss_dssp             GGSTTTCTTCCEEECCSSCCS-SCCCGGGGCTTCCEEECCCCBCTTCCBCCCCCCT--TGGGCSSCCEEECCSSC-CCBC
T ss_pred             HhhhccCCCcCEEEeCCCCCC-ccchhhhcCCCCCEEECCCCCCcccccccccChH--HHhcCCCCCEEECCCCC-CCcc
Confidence            112  5677888888876533 344 4677888888888662      22223322  33668888888888875 5888


Q ss_pred             CCCCccccCcceEEecc
Q 041114          638 PLDSNSALEHKIAIRGE  654 (680)
Q Consensus       638 P~~~~~~l~~L~i~~~~  654 (680)
                      |......|+.|.+.+++
T Consensus       822 p~~l~~~L~~LdLs~N~  838 (876)
T 4ecn_A          822 DEKLTPQLYILDIADNP  838 (876)
T ss_dssp             CSCCCSSSCEEECCSCT
T ss_pred             CHhhcCCCCEEECCCCC
Confidence            87655556666666664

>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=99.65  E-value=5.2e-16  Score=173.39  Aligned_cols=134  Identities=22%  Similarity=0.292  Sum_probs=98.6

Q ss_pred             EEecCCCcccccccccccceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCCCcc
Q 041114          360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIK  431 (680)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~  431 (680)
                      +...+.++..+|... .+++++|++++|.+..++..  ..+++|      ++.+..+++..|.++++|++|||++| .+.
T Consensus        10 c~~~~~~l~~ip~~~-~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n-~l~   87 (549)
T 2z81_A           10 CDGRSRSFTSIPSGL-TAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDN-HLS   87 (549)
T ss_dssp             EECTTSCCSSCCSCC-CTTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTS-CCC
T ss_pred             EECCCCccccccccC-CCCccEEECcCCccCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCC-ccC
Confidence            334455666777533 36899999999988876432  445555      67777888777889999999999994 787


Q ss_pred             ccchh-hhccCCCCEEeccCCCCcccc--chhhhcCCCCCcEeeccCCcch-----hhhcCCCCCceeEEEecc
Q 041114          432 ELLGE-LKALVNLKCVNLEWARDLVTI--PLEVISNFSKLRVLRLFGTVLA-----KELLGLKHLEELDFTLRC  497 (680)
Q Consensus       432 ~lP~~-i~~L~~Lr~L~L~~~~~l~~l--P~~~i~~L~~L~~L~l~~~~~~-----~~l~~L~~L~~L~i~~~~  497 (680)
                      .+|.. ++.+++|++|++++| .+..+  |.. ++++++|++|++++|..+     ..+.++++|+.|++..+.
T Consensus        88 ~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~-~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~  159 (549)
T 2z81_A           88 SLSSSWFGPLSSLKYLNLMGN-PYQTLGVTSL-FPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALS  159 (549)
T ss_dssp             SCCHHHHTTCTTCCEEECTTC-CCSSSCSSCS-CTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETT
T ss_pred             ccCHHHhccCCCCcEEECCCC-cccccchhhh-hhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCc
Confidence            77754 899999999999998 67744  554 888999999999877522     356677777777776443

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

Probab=99.65  E-value=1.4e-15  Score=165.07  Aligned_cols=216  Identities=20%  Similarity=0.262  Sum_probs=104.0

Q ss_pred             eEEEEeecccccccccCC--CCccc---cccccccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCCC
Q 041114          379 VRRLSLMQNQIKILSEAP--TCPHL---HYEFKMITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWAR  452 (680)
Q Consensus       379 ~r~lsl~~~~~~~l~~~~--~~~~L---~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~  452 (680)
                      .+.+...+..+..+|...  ....|   ++.+..++...|.++++|++|+|++| .+..++ ..+..+++|++|+|++| 
T Consensus        45 ~~~v~c~~~~l~~iP~~~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n-~i~~i~~~~~~~l~~L~~L~L~~n-  122 (440)
T 3zyj_A           45 FSKVICVRKNLREVPDGISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRN-HIRTIEIGAFNGLANLNTLELFDN-  122 (440)
T ss_dssp             SCEEECCSCCCSSCCSCCCTTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSS-CCCEECGGGGTTCSSCCEEECCSS-
T ss_pred             CCEEEeCCCCcCcCCCCCCCCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCC-cCCccChhhccCCccCCEEECCCC-
Confidence            345666666666555431  11111   44555555444556666666666663 555544 44555666666666665 


Q ss_pred             CccccchhhhcCCCCCcEeeccCCcc----hhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcc
Q 041114          453 DLVTIPLEVISNFSKLRVLRLFGTVL----AKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSI  528 (680)
Q Consensus       453 ~l~~lP~~~i~~L~~L~~L~l~~~~~----~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~  528 (680)
                      .++.+|.+.+..+++|++|++++|..    ...+.+++                          +|+.|+++++..+..+
T Consensus       123 ~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~--------------------------~L~~L~l~~~~~l~~i  176 (440)
T 3zyj_A          123 RLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIP--------------------------SLRRLDLGELKRLSYI  176 (440)
T ss_dssp             CCSSCCTTTSCSCSSCCEEECCSCCCCEECTTTTTTCT--------------------------TCCEEECCCCTTCCEE
T ss_pred             cCCeeCHhHhhccccCceeeCCCCcccccCHHHhhhCc--------------------------ccCEeCCCCCCCccee
Confidence            45555554455566666666655531    11233344                          4555555544444444


Q ss_pred             cccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCC-C-CcCCCCCCCEEeEecCc
Q 041114          529 DVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGL-T-FLVFAPNLKCLSLFDCT  606 (680)
Q Consensus       529 ~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l-~-~l~~l~~L~~L~l~~c~  606 (680)
                      +...+..+++|+.|+++++ .+..++            .+..+++|+.|+|++|. +..+ | .+..+++|++|+++++ 
T Consensus       177 ~~~~~~~l~~L~~L~L~~n-~l~~~~------------~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~n-  241 (440)
T 3zyj_A          177 SEGAFEGLSNLRYLNLAMC-NLREIP------------NLTPLIKLDELDLSGNH-LSAIRPGSFQGLMHLQKLWMIQS-  241 (440)
T ss_dssp             CTTTTTTCSSCCEEECTTS-CCSSCC------------CCTTCSSCCEEECTTSC-CCEECTTTTTTCTTCCEEECTTC-
T ss_pred             CcchhhcccccCeecCCCC-cCcccc------------ccCCCcccCEEECCCCc-cCccChhhhccCccCCEEECCCC-
Confidence            4334455555555555543 222221            11344555555555543 2222 1 2445555555555553 


Q ss_pred             chhHhhhcCCCCCCCcccccCccccccCCCCCC
Q 041114          607 AMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPL  639 (680)
Q Consensus       607 ~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~  639 (680)
                      .+..++. ..+..+++|+.|+++++ +|..+|.
T Consensus       242 ~l~~~~~-~~~~~l~~L~~L~L~~N-~l~~~~~  272 (440)
T 3zyj_A          242 QIQVIER-NAFDNLQSLVEINLAHN-NLTLLPH  272 (440)
T ss_dssp             CCCEECT-TSSTTCTTCCEEECTTS-CCCCCCT
T ss_pred             ceeEECh-hhhcCCCCCCEEECCCC-CCCccCh
Confidence            2333322 22344555555555553 3445444

>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=99.65  E-value=2.5e-15  Score=163.64  Aligned_cols=259  Identities=18%  Similarity=0.179  Sum_probs=168.8

Q ss_pred             EEEecCCCccccc--ccccccceEEEEeeccccc-cccc--CCCCccc------cccccccchhhhccCCcceEEEccCC
Q 041114          359 FLVCAGRGLKEAP--EVKEWETVRRLSLMQNQIK-ILSE--APTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRE  427 (680)
Q Consensus       359 ~~~~~~~~~~~~~--~~~~~~~~r~lsl~~~~~~-~l~~--~~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~  427 (680)
                      .+...+..+..++  ......++++|.+.++.+. .++.  ...+++|      ++.+..+++..|.++++|++|+|++|
T Consensus        34 ~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n  113 (455)
T 3v47_A           34 YVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQC  113 (455)
T ss_dssp             EEECCSSCCCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCTTCEECTTTTTTCTTCCEEECTTS
T ss_pred             EEEecCCccCcCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCCCccCccChhhccCcccCCEEeCCCC
Confidence            3444444444432  2345578888888888764 3322  1334444      56666765555888888888888885


Q ss_pred             CCccc-cchh--hhccCCCCEEeccCCCCcccc-chhhhcCCCCCcEeeccCCcc----hhhhc----------------
Q 041114          428 TNIKE-LLGE--LKALVNLKCVNLEWARDLVTI-PLEVISNFSKLRVLRLFGTVL----AKELL----------------  483 (680)
Q Consensus       428 ~~i~~-lP~~--i~~L~~Lr~L~L~~~~~l~~l-P~~~i~~L~~L~~L~l~~~~~----~~~l~----------------  483 (680)
                       .+.. .|..  ++.+++|++|++++| .+..+ |...++++++|++|++++|..    +..+.                
T Consensus       114 -~l~~~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~~~L~~L~l~~n~  191 (455)
T 3v47_A          114 -NLDGAVLSGNFFKPLTSLEMLVLRDN-NIKKIQPASFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLSSIT  191 (455)
T ss_dssp             -CCBTHHHHSSTTTTCTTCCEEECCSS-BCCSCCCCGGGGGCTTCCEEECTTCCBSCCCTTTSGGGTTCEEEEEECTTCB
T ss_pred             -CCCccccCcccccCcccCCEEECCCC-ccCccCcccccCCCCcccEEeCCCCcccccChhhhhccccccccccccccCc
Confidence             6654 4544  788888888888888 67766 443367888888888887641    11111                


Q ss_pred             ------------------CCCCCceeEEEeccchh---------------------------------------------
Q 041114          484 ------------------GLKHLEELDFTLRCVHS---------------------------------------------  500 (680)
Q Consensus       484 ------------------~L~~L~~L~i~~~~~~~---------------------------------------------  500 (680)
                                        .+++|+.|+++.+....                                             
T Consensus       192 l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~  271 (455)
T 3v47_A          192 LQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKG  271 (455)
T ss_dssp             CTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHHHHTTTCCEEEEECTTCTTTSCCTTCCSSCCCCTTTTGG
T ss_pred             ccccchhhccccccccccccceeeeEecCCCcccccchhhhhccccccceeeEeeccccccccccchhhhccCccccccc
Confidence                              22455555554332110                                             


Q ss_pred             -----hh----------h-hhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccC
Q 041114          501 -----LQ----------I-LVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLK  564 (680)
Q Consensus       501 -----l~----------~-l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~  564 (680)
                           ++          . .+.....+++|+.|+++++. +...+...+..+++|+.|+++++ .+..+.+..+      
T Consensus       272 ~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~------  343 (455)
T 3v47_A          272 LEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNE-INKIDDNAFWGLTHLLKLNLSQN-FLGSIDSRMF------  343 (455)
T ss_dssp             GTTSCCCEEECCSSCCCEECTTTTTTCTTCCEEECTTSC-CCEECTTTTTTCTTCCEEECCSS-CCCEECGGGG------
T ss_pred             ccccCceEEEecCccccccchhhcccCCCCCEEECCCCc-ccccChhHhcCcccCCEEECCCC-ccCCcChhHh------
Confidence                 00          0 01112234578888888776 44443347889999999999986 5565555554      


Q ss_pred             CCCCCCCCCccEEeeeCCCCCCCCC-CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCcccccc
Q 041114          565 SPQPFVFCSLHKVTITFCPKLKGLT-FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAK  633 (680)
Q Consensus       565 ~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~  633 (680)
                          ..+++|++|+|++|......| .+..+++|++|+++++ .+..++.. .++.+++|+.|+++++|-
T Consensus       344 ----~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~-~~~~l~~L~~L~l~~N~l  407 (455)
T 3v47_A          344 ----ENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDTN-QLKSVPDG-IFDRLTSLQKIWLHTNPW  407 (455)
T ss_dssp             ----TTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCSCCCTT-TTTTCTTCCEEECCSSCB
T ss_pred             ----cCcccCCEEECCCCcccccChhhccccccccEEECCCC-ccccCCHh-HhccCCcccEEEccCCCc
Confidence                578999999999987443333 5789999999999995 57776543 457899999999988763

>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=99.64  E-value=1.1e-15  Score=172.93  Aligned_cols=237  Identities=17%  Similarity=0.116  Sum_probs=100.0

Q ss_pred             ceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCCCcccc-chhhhccCCCCEEec
Q 041114          378 TVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIKEL-LGELKALVNLKCVNL  448 (680)
Q Consensus       378 ~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~l-P~~i~~L~~Lr~L~L  448 (680)
                      +++.+.+.++.+..++..  ..+++|      ++.+..+|.. +..+++|++|++++| .+..+ |..++.+++|++|++
T Consensus       255 ~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~lp~~-l~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l  332 (606)
T 3t6q_A          255 SVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSG-LVGLSTLKKLVLSAN-KFENLCQISASNFPSLTHLSI  332 (606)
T ss_dssp             EEEEEECTTCCCSSCCTTTTTTCTTCSEEECTTSCCSCCCSS-CCSCTTCCEEECTTC-CCSBGGGGCGGGCTTCSEEEC
T ss_pred             ceeEEEeecCccCccCHHHhccccCCCEEeccCCccCCCChh-hcccccCCEEECccC-CcCcCchhhhhccCcCCEEEC
Confidence            677788777776654332  122222      3334444443 344444444444442 33333 234444444444444


Q ss_pred             cCCCCccccchhhhcCCCCCcEeeccCCcc------hhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEecc
Q 041114          449 EWARDLVTIPLEVISNFSKLRVLRLFGTVL------AKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRF  522 (680)
Q Consensus       449 ~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~------~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~  522 (680)
                      ++|.....+|.+.++++++|++|++++|..      +..+..+++|+.|++..+....+  .+.....+++|+.|+++++
T Consensus       333 ~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~--~~~~~~~l~~L~~L~l~~n  410 (606)
T 3t6q_A          333 KGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSL--KTEAFKECPQLELLDLAFT  410 (606)
T ss_dssp             CSCSSCCBCCSSTTTTCTTCCEEECCSSCCCEEEESTTTTTTCTTCCEEECCSCSCEEE--CTTTTTTCTTCSEEECTTC
T ss_pred             CCCCcccccchhhhhccCcCCEEECCCCccccccCcchhcccCCCCCEEECCCCcCCcC--CHHHhcCCccCCeEECCCC
Confidence            444211134333344444444444444431      22334444444444442221111  0111112234445554444


Q ss_pred             CCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCC----CCCCcCCCCCCC
Q 041114          523 KDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLK----GLTFLVFAPNLK  598 (680)
Q Consensus       523 ~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~----~l~~l~~l~~L~  598 (680)
                      .-....+...+..+++|+.|+++++. +....+..          +..+++|++|++++|....    ....+..+++|+
T Consensus       411 ~l~~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~----------~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~l~~L~  479 (606)
T 3t6q_A          411 RLKVKDAQSPFQNLHLLKVLNLSHSL-LDISSEQL----------FDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLE  479 (606)
T ss_dssp             CEECCTTCCTTTTCTTCCEEECTTCC-CBTTCTTT----------TTTCTTCCEEECTTCBCGGGEECSSCGGGGCTTCC
T ss_pred             cCCCcccchhhhCcccCCEEECCCCc-cCCcCHHH----------HhCCCCCCEEECCCCCCCccccccchhhccCCCcc
Confidence            32111111124444555555554432 11111111          1345556666665554221    112244555666


Q ss_pred             EEeEecCcchhHhhhcCCCCCCCcccccCcccc
Q 041114          599 CLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPC  631 (680)
Q Consensus       599 ~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C  631 (680)
                      +|++++|. +..++. ..++.+++|+.|++++|
T Consensus       480 ~L~Ls~n~-l~~~~~-~~~~~l~~L~~L~Ls~N  510 (606)
T 3t6q_A          480 ILVLSFCD-LSSIDQ-HAFTSLKMMNHVDLSHN  510 (606)
T ss_dssp             EEECTTSC-CCEECT-TTTTTCTTCCEEECCSS
T ss_pred             EEECCCCc-cCccCh-hhhccccCCCEEECCCC
Confidence            66665543 333322 12345566666666555

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

Probab=99.64  E-value=1.7e-15  Score=164.74  Aligned_cols=170  Identities=16%  Similarity=0.162  Sum_probs=113.2

Q ss_pred             cEEEecCCCcccccccccccceEEEEeecccccccccCCCCccc------cccccccchhhhccCCcceEEEccCCCCcc
Q 041114          358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIK  431 (680)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~  431 (680)
                      ..+...+..+..+|......+++++.+.+|.+..++ ...+++|      ++.+..+|   ++.+++|++|++++| .+.
T Consensus        45 ~~L~Ls~n~l~~~~~l~~l~~L~~L~Ls~n~l~~~~-~~~l~~L~~L~Ls~N~l~~~~---~~~l~~L~~L~L~~N-~l~  119 (457)
T 3bz5_A           45 TSLDCHNSSITDMTGIEKLTGLTKLICTSNNITTLD-LSQNTNLTYLACDSNKLTNLD---VTPLTKLTYLNCDTN-KLT  119 (457)
T ss_dssp             CEEECCSSCCCCCTTGGGCTTCSEEECCSSCCSCCC-CTTCTTCSEEECCSSCCSCCC---CTTCTTCCEEECCSS-CCS
T ss_pred             CEEEccCCCcccChhhcccCCCCEEEccCCcCCeEc-cccCCCCCEEECcCCCCceee---cCCCCcCCEEECCCC-cCC
Confidence            344555555555665566678888888888887764 3334444      55666664   677888888888884 777


Q ss_pred             ccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchh--hhcCCCCCceeEEEeccchhhhhhhhchh
Q 041114          432 ELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAK--ELLGLKHLEELDFTLRCVHSLQILVSSNK  509 (680)
Q Consensus       432 ~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~--~l~~L~~L~~L~i~~~~~~~l~~l~~~~~  509 (680)
                      .+|  ++.+++|++|++++| .++.+|   ++.+++|++|++++|..+.  .+..+++|+.|++..+....+.     ..
T Consensus       120 ~l~--~~~l~~L~~L~l~~N-~l~~l~---l~~l~~L~~L~l~~n~~~~~~~~~~l~~L~~L~ls~n~l~~l~-----l~  188 (457)
T 3bz5_A          120 KLD--VSQNPLLTYLNCARN-TLTEID---VSHNTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELD-----VS  188 (457)
T ss_dssp             CCC--CTTCTTCCEEECTTS-CCSCCC---CTTCTTCCEEECTTCSCCCCCCCTTCTTCCEEECCSSCCCCCC-----CT
T ss_pred             eec--CCCCCcCCEEECCCC-ccceec---cccCCcCCEEECCCCCcccccccccCCcCCEEECCCCccceec-----cc
Confidence            776  778888888888888 677774   6788888888888775333  3566777888887755444332     12


Q ss_pred             hhccccEEEEeccCCCCcccccccccCCCCCEEEEecc
Q 041114          510 LQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKC  547 (680)
Q Consensus       510 l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~  547 (680)
                      .+++|+.|+++++. +...   .+..+++|+.|+++++
T Consensus       189 ~l~~L~~L~l~~N~-l~~~---~l~~l~~L~~L~Ls~N  222 (457)
T 3bz5_A          189 QNKLLNRLNCDTNN-ITKL---DLNQNIQLTFLDCSSN  222 (457)
T ss_dssp             TCTTCCEEECCSSC-CSCC---CCTTCTTCSEEECCSS
T ss_pred             cCCCCCEEECcCCc-CCee---ccccCCCCCEEECcCC
Confidence            23467777777664 3332   3566677777777654

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

Probab=99.64  E-value=2.5e-16  Score=162.60  Aligned_cols=219  Identities=15%  Similarity=0.122  Sum_probs=165.0

Q ss_pred             ccccc---ccchhhhccCCcceEEEccCCCCc-cccchhhhccCCCCEEeccCCCCcc-ccchhhhcCCCCCcEeeccCC
Q 041114          402 HYEFK---MITDGFFQFMPLLKVLNMSRETNI-KELLGELKALVNLKCVNLEWARDLV-TIPLEVISNFSKLRVLRLFGT  476 (680)
Q Consensus       402 ~~~l~---~lp~~~~~~l~~Lr~LdL~~~~~i-~~lP~~i~~L~~Lr~L~L~~~~~l~-~lP~~~i~~L~~L~~L~l~~~  476 (680)
                      ++.+.   .+|+. |.++++|++|+|++++.+ ..+|..++++++|++|++++| .+. .+|.. ++++++|++|++++|
T Consensus        59 ~~~l~~~~~~~~~-l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n-~l~~~~p~~-~~~l~~L~~L~Ls~N  135 (313)
T 1ogq_A           59 GLNLPKPYPIPSS-LANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHT-NVSGAIPDF-LSQIKTLVTLDFSYN  135 (313)
T ss_dssp             CCCCSSCEECCGG-GGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEE-CCEEECCGG-GGGCTTCCEEECCSS
T ss_pred             CCCccCCcccChh-HhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCC-eeCCcCCHH-HhCCCCCCEEeCCCC
Confidence            44554   46766 899999999999952355 478999999999999999999 676 78886 999999999999998


Q ss_pred             c----chhhhcCCCCCceeEEEeccchhhhhhhhchhhh-ccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcc
Q 041114          477 V----LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQ-SCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELE  551 (680)
Q Consensus       477 ~----~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~-~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~  551 (680)
                      .    .+..+..+++|+.|++..+....  .++.....+ ++|+.|+++++.-....+ ..+..++ |+.|+++++ .+.
T Consensus       136 ~l~~~~p~~~~~l~~L~~L~L~~N~l~~--~~p~~l~~l~~~L~~L~L~~N~l~~~~~-~~~~~l~-L~~L~Ls~N-~l~  210 (313)
T 1ogq_A          136 ALSGTLPPSISSLPNLVGITFDGNRISG--AIPDSYGSFSKLFTSMTISRNRLTGKIP-PTFANLN-LAFVDLSRN-MLE  210 (313)
T ss_dssp             EEESCCCGGGGGCTTCCEEECCSSCCEE--ECCGGGGCCCTTCCEEECCSSEEEEECC-GGGGGCC-CSEEECCSS-EEE
T ss_pred             ccCCcCChHHhcCCCCCeEECcCCcccC--cCCHHHhhhhhcCcEEECcCCeeeccCC-hHHhCCc-ccEEECcCC-ccc
Confidence            5    45678899999999998554331  223222223 389999999886333444 3677776 999999975 444


Q ss_pred             eeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCcccc
Q 041114          552 EWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPC  631 (680)
Q Consensus       552 ~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C  631 (680)
                      ...+..+          ..+++|+.|++++|.....+|.+..+++|++|+++++.....+|.  .++.+++|+.|+++++
T Consensus       211 ~~~~~~~----------~~l~~L~~L~L~~N~l~~~~~~~~~l~~L~~L~Ls~N~l~~~~p~--~l~~l~~L~~L~Ls~N  278 (313)
T 1ogq_A          211 GDASVLF----------GSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQ--GLTQLKFLHSLNVSFN  278 (313)
T ss_dssp             ECCGGGC----------CTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSSCCEECCCG--GGGGCTTCCEEECCSS
T ss_pred             CcCCHHH----------hcCCCCCEEECCCCceeeecCcccccCCCCEEECcCCcccCcCCh--HHhcCcCCCEEECcCC
Confidence            3334333          578999999999988666677788999999999999654334443  3478999999999998


Q ss_pred             ccCCCCCCC
Q 041114          632 AKLRKLPLD  640 (680)
Q Consensus       632 ~~L~~lP~~  640 (680)
                      +--..+|..
T Consensus       279 ~l~~~ip~~  287 (313)
T 1ogq_A          279 NLCGEIPQG  287 (313)
T ss_dssp             EEEEECCCS
T ss_pred             cccccCCCC
Confidence            644477765

>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=99.64  E-value=7.4e-16  Score=162.05  Aligned_cols=245  Identities=15%  Similarity=0.128  Sum_probs=150.4

Q ss_pred             EEecCCCcccccccccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccc-hhhh
Q 041114          360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELL-GELK  438 (680)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~  438 (680)
                      +...+..+..+|... .+++++|.+.+|.+.                .+|...|.++++|++|+|++| .+..++ ..++
T Consensus        36 c~~~~~~l~~iP~~~-~~~L~~L~l~~n~i~----------------~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~   97 (353)
T 2z80_A           36 CKGSSGSLNSIPSGL-TEAVKSLDLSNNRIT----------------YISNSDLQRCVNLQALVLTSN-GINTIEEDSFS   97 (353)
T ss_dssp             EECCSTTCSSCCTTC-CTTCCEEECTTSCCC----------------EECTTTTTTCTTCCEEECTTS-CCCEECTTTTT
T ss_pred             eeCCCCCcccccccc-cccCcEEECCCCcCc----------------ccCHHHhccCCCCCEEECCCC-ccCccCHhhcC
Confidence            444455566666422 247888888877766                445544677788888888874 676664 4577


Q ss_pred             ccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--ch---hhhcCCCCCceeEEEeccchhhhhh-hhchhhhc
Q 041114          439 ALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--LA---KELLGLKHLEELDFTLRCVHSLQIL-VSSNKLQS  512 (680)
Q Consensus       439 ~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~---~~l~~L~~L~~L~i~~~~~~~l~~l-~~~~~l~~  512 (680)
                      ++++|++|++++| .++.+|.+.++++++|++|++++|.  .+   ..+..+++|+.|++..+.  .+..+ +.....++
T Consensus        98 ~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~--~~~~~~~~~~~~l~  174 (353)
T 2z80_A           98 SLGSLEHLDLSYN-YLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMD--TFTKIQRKDFAGLT  174 (353)
T ss_dssp             TCTTCCEEECCSS-CCSSCCHHHHTTCTTCSEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESS--SCCEECTTTTTTCC
T ss_pred             CCCCCCEEECCCC-cCCcCCHhHhCCCccCCEEECCCCCCcccCchhhhccCCCCcEEECCCCc--cccccCHHHccCCC
Confidence            7888888888877 6777777656778888888887764  11   235667777777777442  11111 11222345


Q ss_pred             cccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC---
Q 041114          513 CTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT---  589 (680)
Q Consensus       513 ~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~---  589 (680)
                      +|+.|+++++. +.......+..+++|++|+++++. +..++....          ..+++|+.|++++|. +...+   
T Consensus       175 ~L~~L~l~~n~-l~~~~~~~l~~l~~L~~L~l~~n~-l~~~~~~~~----------~~~~~L~~L~L~~n~-l~~~~~~~  241 (353)
T 2z80_A          175 FLEELEIDASD-LQSYEPKSLKSIQNVSHLILHMKQ-HILLLEIFV----------DVTSSVECLELRDTD-LDTFHFSE  241 (353)
T ss_dssp             EEEEEEEEETT-CCEECTTTTTTCSEEEEEEEECSC-STTHHHHHH----------HHTTTEEEEEEESCB-CTTCCCC-
T ss_pred             CCCEEECCCCC-cCccCHHHHhccccCCeecCCCCc-cccchhhhh----------hhcccccEEECCCCc-cccccccc
Confidence            77888888776 333322467777888888887654 343333222          346788888888765 33322   


Q ss_pred             --CcCCCCCCCEEeEecCcc----hhHhhhcCCCCCCCcccccCccccccCCCCCCCC
Q 041114          590 --FLVFAPNLKCLSLFDCTA----MEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDS  641 (680)
Q Consensus       590 --~l~~l~~L~~L~l~~c~~----l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~  641 (680)
                        .....+.++.++++++..    +..++.  .++.+++|+.|++++| +++.+|...
T Consensus       242 l~~~~~~~~l~~l~L~~~~l~~~~l~~l~~--~l~~l~~L~~L~Ls~N-~l~~i~~~~  296 (353)
T 2z80_A          242 LSTGETNSLIKKFTFRNVKITDESLFQVMK--LLNQISGLLELEFSRN-QLKSVPDGI  296 (353)
T ss_dssp             -----CCCCCCEEEEESCBCCHHHHHHHHH--HHHTCTTCCEEECCSS-CCCCCCTTT
T ss_pred             cccccccchhhccccccccccCcchhhhHH--HHhcccCCCEEECCCC-CCCccCHHH
Confidence              223456677777776532    222332  2356778888888876 477777654

>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=99.64  E-value=4.6e-15  Score=164.55  Aligned_cols=133  Identities=15%  Similarity=0.152  Sum_probs=104.5

Q ss_pred             EEEEeecccccccccCCCCccc------cccccccchhhhccCCcceEEEccCCCCcccc-chhhhccCCCCEEeccCCC
Q 041114          380 RRLSLMQNQIKILSEAPTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIKEL-LGELKALVNLKCVNLEWAR  452 (680)
Q Consensus       380 r~lsl~~~~~~~l~~~~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~l-P~~i~~L~~Lr~L~L~~~~  452 (680)
                      +++.++++.+..+|.... +++      ++.+..+++..|.++++|++|+|++| .+..+ |..++++++|++|+|++| 
T Consensus         3 ~~l~ls~n~l~~ip~~~~-~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~Ls~N-   79 (520)
T 2z7x_B            3 FLVDRSKNGLIHVPKDLS-QKTTILNISQNYISELWTSDILSLSKLRILIISHN-RIQYLDISVFKFNQELEYLDLSHN-   79 (520)
T ss_dssp             CEEECTTSCCSSCCCSCC-TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSS-CCCEEEGGGGTTCTTCCEEECCSS-
T ss_pred             ceEecCCCCccccccccc-ccccEEECCCCcccccChhhccccccccEEecCCC-ccCCcChHHhhcccCCCEEecCCC-
Confidence            678899999998886532 343      77788888777999999999999995 88777 688999999999999999 


Q ss_pred             CccccchhhhcCCCCCcEeeccCCc-----chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccc--cEEEEeccC
Q 041114          453 DLVTIPLEVISNFSKLRVLRLFGTV-----LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCT--RALVLIRFK  523 (680)
Q Consensus       453 ~l~~lP~~~i~~L~~L~~L~l~~~~-----~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L--~~L~l~~~~  523 (680)
                      .++.+|..   .+++|++|++++|.     .+..++++++|+.|++..+.... ..+..    +++|  +.|+++++.
T Consensus        80 ~l~~lp~~---~l~~L~~L~L~~N~l~~~~~p~~~~~l~~L~~L~L~~n~l~~-~~~~~----l~~L~L~~L~l~~n~  149 (520)
T 2z7x_B           80 KLVKISCH---PTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEK-SSVLP----IAHLNISKVLLVLGE  149 (520)
T ss_dssp             CCCEEECC---CCCCCSEEECCSSCCSSCCCCGGGGGCTTCCEEEEEESSCCG-GGGGG----GTTSCEEEEEEEECT
T ss_pred             ceeecCcc---ccCCccEEeccCCccccccchhhhccCCcceEEEecCcccch-hhccc----cccceeeEEEeeccc
Confidence            79999983   89999999999986     23678999999999998765443 11222    2233  666666553

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

Probab=99.63  E-value=5.9e-16  Score=175.74  Aligned_cols=82  Identities=11%  Similarity=0.051  Sum_probs=56.1

Q ss_pred             CCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecC------cchhHhhhcCCCCCCCcccccCccccccCCCCCCCCcc
Q 041114          570 VFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDC------TAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNS  643 (680)
Q Consensus       570 ~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c------~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~~  643 (680)
                      .+++|+.|+|++|.....++.++.+++|+.|+++++      .....+|.  .++.+++|+.|++++|. +..+|.....
T Consensus       511 ~l~~L~~L~Ls~N~l~~ip~~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~--~l~~l~~L~~L~Ls~N~-l~~ip~~~~~  587 (636)
T 4eco_A          511 TLPYLVGIDLSYNSFSKFPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPE--GITLCPSLTQLQIGSND-IRKVNEKITP  587 (636)
T ss_dssp             TCTTCCEEECCSSCCSSCCCGGGGCSSCCEEECCSCBCTTCCBCCCCCCT--TGGGCSSCCEEECCSSC-CCBCCSCCCT
T ss_pred             cCCCcCEEECCCCCCCCcChhhhcCCCCCEEECCCCcccccCcccccChH--HHhcCCCCCEEECCCCc-CCccCHhHhC
Confidence            678888888888764442335778888898888643      22333332  34678889999998876 5888876555


Q ss_pred             ccCcceEEecc
Q 041114          644 ALEHKIAIRGE  654 (680)
Q Consensus       644 ~l~~L~i~~~~  654 (680)
                      .|+.|.+.+++
T Consensus       588 ~L~~L~Ls~N~  598 (636)
T 4eco_A          588 NISVLDIKDNP  598 (636)
T ss_dssp             TCCEEECCSCT
T ss_pred             cCCEEECcCCC
Confidence            56666666664

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

Probab=99.63  E-value=1.1e-15  Score=172.42  Aligned_cols=135  Identities=21%  Similarity=0.270  Sum_probs=113.0

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHhccCCCHHHHHHHHHHHhcCCCcc-cc----CChhhHHHHHHHhHhcCCchhHHHH
Q 041114          200 LELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSE-FA----GLVKEVYPLLKFSYDSLQNDVIRSC  274 (680)
Q Consensus       200 ~~~~~~I~~kc~GlPLai~~lg~~L~~k~~~~~W~~~l~~l~~~~~~~-~~----~~~~~i~~~L~~Sy~~L~~~~lk~c  274 (680)
                      .+.+.+|+++|+|+||||..+|+.|+.+  ...|..+++.+.. ..+. +.    .....+..++..||+.||+ +.|.|
T Consensus       307 ~~~~~~i~~~~~G~PLal~~~a~~l~~~--~~~w~~~l~~l~~-~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~-~~~~~  382 (591)
T 1z6t_A          307 PEQAHSIIKECKGSPLVVSLIGALLRDF--PNRWEYYLKQLQN-KQFKRIRKSSSYDYEALDEAMSISVEMLRE-DIKDY  382 (591)
T ss_dssp             CTHHHHHHHHHTTCHHHHHHHHHHHHHS--TTCHHHHHHHHHS-CCCCCSSCCCSSCCHHHHHHHHHHHHTSCT-TTHHH
T ss_pred             cHHHHHHHHHhCCCcHHHHHHHHHHhcC--chhHHHHHHHHHH-hHHHHhhhccccchHHHHHHHHHHHHhCCH-HHHHH
Confidence            4678899999999999999999999884  2479999988887 4332 11    1234799999999999999 89999


Q ss_pred             HHHhcccCCCcccChHHHHHHHHHcCCcCCCChhhHHHHHHHHHHHHHHccccccc---CcccEEechhHHHHHHHHH
Q 041114          275 FLYCCLYPEDFAILKRDLIDCWIGEGFLDERDSFSAQNQGYYIVGTLVHAWLLEEV---GDDKVKLHGVLHDMALWIS  349 (680)
Q Consensus       275 fl~~s~Fp~~~~i~~~~Li~~Wiaeg~i~~~~~~~~~~~g~~~~~~L~~~~ll~~~---~~~~~~mhdl~~d~a~~i~  349 (680)
                      |++||+||+++.|+.+.++.+|.++           .+.+..++++|+++||++..   ....|+||+++|+++....
T Consensus       383 l~~la~f~~~~~i~~~~l~~l~~~~-----------~~~~~~~l~~L~~~~Ll~~~~~~~~~~~~~H~lv~~~~~~~~  449 (591)
T 1z6t_A          383 YTDLSILQKDVKVPTKVLCILWDME-----------TEEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKN  449 (591)
T ss_dssp             HHHGGGCCTTCCEEHHHHHHHHTCC-----------HHHHHHHHHHHHHTTSSEEEEETTEEEEECCHHHHHHHHHHT
T ss_pred             HHHccccCCCCccCHHHHHHHhccC-----------HHHHHHHHHHHHhCcCeEEecCCCccEEEEcHHHHHHHHhhh
Confidence            9999999999999999999999654           24567899999999999865   2357999999999998873

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

Probab=99.63  E-value=3.2e-15  Score=167.77  Aligned_cols=71  Identities=24%  Similarity=0.272  Sum_probs=36.2

Q ss_pred             ccccccchhhhccCCcceEEEccCCCCccccch-hhhccCCCCEEeccCCCCccc--cchhhhcCCCCCcEeeccCC
Q 041114          403 YEFKMITDGFFQFMPLLKVLNMSRETNIKELLG-ELKALVNLKCVNLEWARDLVT--IPLEVISNFSKLRVLRLFGT  476 (680)
Q Consensus       403 ~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~-~i~~L~~Lr~L~L~~~~~l~~--lP~~~i~~L~~L~~L~l~~~  476 (680)
                      +.+..+|+..|.++++|++|++++ +.+..+|. .++++++|++|++++| .+..  +|.. ++++++|++|++++|
T Consensus        86 n~l~~~~~~~~~~l~~L~~L~L~~-n~l~~l~~~~~~~l~~L~~L~L~~n-~l~~~~lp~~-~~~l~~L~~L~l~~n  159 (570)
T 2z63_A           86 NPIQSLALGAFSGLSSLQKLVAVE-TNLASLENFPIGHLKTLKELNVAHN-LIQSFKLPEY-FSNLTNLEHLDLSSN  159 (570)
T ss_dssp             CCCCEECTTTTTTCTTCCEEECTT-SCCCCSTTCSCTTCTTCCEEECCSS-CCCCCCCCGG-GGGCTTCCEEECTTS
T ss_pred             CcCCccCHhhhcCccccccccccc-cccccCCCccccccccccEEecCCC-ccceecChhh-hcccCCCCEEeCcCC
Confidence            334444444445555555555555 24444443 3555555555555555 3443  4554 555666666665554

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

Probab=99.63  E-value=1.3e-15  Score=176.61  Aligned_cols=145  Identities=13%  Similarity=0.176  Sum_probs=100.7

Q ss_pred             cccccceEEEEeecccccc------------------cccCC---CCccc------cc-cccccchhhhccCCcceEEEc
Q 041114          373 VKEWETVRRLSLMQNQIKI------------------LSEAP---TCPHL------HY-EFKMITDGFFQFMPLLKVLNM  424 (680)
Q Consensus       373 ~~~~~~~r~lsl~~~~~~~------------------l~~~~---~~~~L------~~-~l~~lp~~~~~~l~~Lr~LdL  424 (680)
                      ...+.+++.|.+.+|.+..                  +|...   .+++|      ++ ....+|.. |.++++|++|+|
T Consensus       444 l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~-l~~L~~L~~L~L  522 (876)
T 4ecn_A          444 IQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDF-LYDLPELQSLNI  522 (876)
T ss_dssp             GGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGG-GGGCSSCCEEEC
T ss_pred             HhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHH-HhCCCCCCEEEC
Confidence            3455788999999988887                  66653   35555      33 34566755 788888999999


Q ss_pred             cCCCCcc--ccchhhhccC-------CCCEEeccCCCCccccch--hhhcCCCCCcEeeccCCc--chhhhcCCCCCcee
Q 041114          425 SRETNIK--ELLGELKALV-------NLKCVNLEWARDLVTIPL--EVISNFSKLRVLRLFGTV--LAKELLGLKHLEEL  491 (680)
Q Consensus       425 ~~~~~i~--~lP~~i~~L~-------~Lr~L~L~~~~~l~~lP~--~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~L  491 (680)
                      ++|..+.  .+|.++++|.       +|++|+|++| .+..+|.  . ++++++|++|++++|.  .+..+..+++|+.|
T Consensus       523 s~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N-~L~~ip~~~~-l~~L~~L~~L~Ls~N~l~~lp~~~~L~~L~~L  600 (876)
T 4ecn_A          523 ACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYN-NLEEFPASAS-LQKMVKLGLLDCVHNKVRHLEAFGTNVKLTDL  600 (876)
T ss_dssp             TTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSS-CCCBCCCHHH-HTTCTTCCEEECTTSCCCBCCCCCTTSEESEE
T ss_pred             cCCCCcccccchHHHHhhhhcccccCCccEEEeeCC-cCCccCChhh-hhcCCCCCEEECCCCCcccchhhcCCCcceEE
Confidence            8853265  4888888776       8888888888 6888887  6 8888888888888775  22256677777777


Q ss_pred             EEEeccchhhhhhhhchhhhcc-ccEEEEeccC
Q 041114          492 DFTLRCVHSLQILVSSNKLQSC-TRALVLIRFK  523 (680)
Q Consensus       492 ~i~~~~~~~l~~l~~~~~l~~~-L~~L~l~~~~  523 (680)
                      ++..+...   .++.....+++ |+.|+++++.
T Consensus       601 ~Ls~N~l~---~lp~~l~~l~~~L~~L~Ls~N~  630 (876)
T 4ecn_A          601 KLDYNQIE---EIPEDFCAFTDQVEGLGFSHNK  630 (876)
T ss_dssp             ECCSSCCS---CCCTTSCEECTTCCEEECCSSC
T ss_pred             ECcCCccc---cchHHHhhccccCCEEECcCCC
Confidence            77754433   33332333345 7777777665

>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=99.62  E-value=1.6e-15  Score=171.52  Aligned_cols=249  Identities=16%  Similarity=0.101  Sum_probs=162.3

Q ss_pred             cccccceEEEEeecccccccccCCCCccc------cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEE
Q 041114          373 VKEWETVRRLSLMQNQIKILSEAPTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCV  446 (680)
Q Consensus       373 ~~~~~~~r~lsl~~~~~~~l~~~~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L  446 (680)
                      .....+++.+.+.++.+..++....+++|      ++.+..+|.  + .+++|++|++++|..+...  .++.+++|++|
T Consensus       281 ~~~l~~L~~L~l~~~~~~~l~~l~~~~~L~~L~l~~n~l~~lp~--~-~l~~L~~L~l~~n~~~~~~--~~~~l~~L~~L  355 (606)
T 3vq2_A          281 FHCLANVSAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQLKQFPT--L-DLPFLKSLTLTMNKGSISF--KKVALPSLSYL  355 (606)
T ss_dssp             CGGGTTCSEEEEESCCCCCCCCCCTTCCCSEEEEESCCCSSCCC--C-CCSSCCEEEEESCSSCEEC--CCCCCTTCCEE
T ss_pred             cccCCCCCEEEecCccchhhhhccccccCCEEEcccccCccccc--C-CCCccceeeccCCcCccch--hhccCCCCCEE
Confidence            44456778888888877777644444444      555667773  4 7788888888876444433  45677888888


Q ss_pred             eccCCCCcccc---chhhhcCCCCCcEeeccCCc---chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEe
Q 041114          447 NLEWARDLVTI---PLEVISNFSKLRVLRLFGTV---LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLI  520 (680)
Q Consensus       447 ~L~~~~~l~~l---P~~~i~~L~~L~~L~l~~~~---~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~  520 (680)
                      ++++| .+..+   |.. ++.+++|++|++++|.   .+..+..+++|+.|++..+........ .....+++|+.|+++
T Consensus       356 ~ls~n-~l~~~~~~~~~-~~~~~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~-~~~~~l~~L~~L~l~  432 (606)
T 3vq2_A          356 DLSRN-ALSFSGCCSYS-DLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEF-SAFLSLEKLLYLDIS  432 (606)
T ss_dssp             ECCSS-CEEEEEECCHH-HHCCSCCCEEECCSCSEEEECCCCTTCTTCCEEECTTSEEESTTTT-TTTTTCTTCCEEECT
T ss_pred             ECcCC-ccCCCcchhhh-hccCCcccEeECCCCccccchhhccCCCCCCeeECCCCccCCccCh-hhhhccccCCEEECc
Confidence            88887 56665   554 7788888888888775   234566777777777764433322111 122234578888888


Q ss_pred             ccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC-CcCCCCCCCE
Q 041114          521 RFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT-FLVFAPNLKC  599 (680)
Q Consensus       521 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~  599 (680)
                      ++.-....+ ..+..+++|+.|+++++.......+..+          ..+++|+.|++++|.....+| .++.+++|++
T Consensus       433 ~n~l~~~~~-~~~~~l~~L~~L~l~~n~l~~~~~~~~~----------~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~  501 (606)
T 3vq2_A          433 YTNTKIDFD-GIFLGLTSLNTLKMAGNSFKDNTLSNVF----------ANTTNLTFLDLSKCQLEQISWGVFDTLHRLQL  501 (606)
T ss_dssp             TSCCEECCT-TTTTTCTTCCEEECTTCEEGGGEECSCC----------TTCTTCCEEECTTSCCCEECTTTTTTCTTCCE
T ss_pred             CCCCCccch-hhhcCCCCCCEEECCCCcCCCcchHHhh----------ccCCCCCEEECCCCcCCccChhhhcccccCCE
Confidence            876333333 3677888888888887643332223332          567888888888876444333 4678888888


Q ss_pred             EeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCCcc
Q 041114          600 LSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNS  643 (680)
Q Consensus       600 L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~~  643 (680)
                      |++++|. +..+++ ..++.+++|+.|++++|. ++.+|..+..
T Consensus       502 L~Ls~N~-l~~~~~-~~~~~l~~L~~L~l~~N~-l~~~p~~~~~  542 (606)
T 3vq2_A          502 LNMSHNN-LLFLDS-SHYNQLYSLSTLDCSFNR-IETSKGILQH  542 (606)
T ss_dssp             EECCSSC-CSCEEG-GGTTTCTTCCEEECTTSC-CCCEESCGGG
T ss_pred             EECCCCc-CCCcCH-HHccCCCcCCEEECCCCc-CcccCHhHhh
Confidence            8888864 444422 234678888888888875 7788876433

>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=99.62  E-value=6.2e-15  Score=165.14  Aligned_cols=133  Identities=24%  Similarity=0.341  Sum_probs=101.2

Q ss_pred             cEEEecCCCcccccccccccceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCCC
Q 041114          358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETN  429 (680)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~  429 (680)
                      ..+...+..+..+|... .+++++|++++|.+..++..  ..+++|      ++.+..++++.|.++++|++|||++ +.
T Consensus        34 ~~l~ls~~~L~~ip~~~-~~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~-N~  111 (562)
T 3a79_B           34 SMVDYSNRNLTHVPKDL-PPRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSH-NR  111 (562)
T ss_dssp             CEEECTTSCCCSCCTTS-CTTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECTT-SC
T ss_pred             cEEEcCCCCCccCCCCC-CCCcCEEECCCCCccccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECCC-Cc
Confidence            56777777788777533 37999999999999887642  445555      7788888777789999999999999 48


Q ss_pred             ccccchhhhccCCCCEEeccCCCCccccc--hhhhcCCCCCcEeeccCCcch-hhhcCCCCC--ceeEEEec
Q 041114          430 IKELLGELKALVNLKCVNLEWARDLVTIP--LEVISNFSKLRVLRLFGTVLA-KELLGLKHL--EELDFTLR  496 (680)
Q Consensus       430 i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP--~~~i~~L~~L~~L~l~~~~~~-~~l~~L~~L--~~L~i~~~  496 (680)
                      +..+|..  .+++|++|++++| .+..+|  .. ++++++|++|+++++..- ..+..+++|  +.|++..+
T Consensus       112 l~~lp~~--~l~~L~~L~Ls~N-~l~~l~~p~~-~~~l~~L~~L~L~~n~l~~~~~~~l~~L~L~~L~L~~n  179 (562)
T 3a79_B          112 LQNISCC--PMASLRHLDLSFN-DFDVLPVCKE-FGNLTKLTFLGLSAAKFRQLDLLPVAHLHLSCILLDLV  179 (562)
T ss_dssp             CCEECSC--CCTTCSEEECCSS-CCSBCCCCGG-GGGCTTCCEEEEECSBCCTTTTGGGTTSCEEEEEEEES
T ss_pred             CCccCcc--ccccCCEEECCCC-CccccCchHh-hcccCcccEEecCCCccccCchhhhhhceeeEEEeecc
Confidence            8899977  8999999999999 688765  55 899999999999987521 223333444  66666544

>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=99.62  E-value=2.1e-15  Score=158.53  Aligned_cols=187  Identities=18%  Similarity=0.192  Sum_probs=140.7

Q ss_pred             cccccchhhhccCCcceEEEccCCCCccccch-hhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc---ch
Q 041114          404 EFKMITDGFFQFMPLLKVLNMSRETNIKELLG-ELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV---LA  479 (680)
Q Consensus       404 ~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~-~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~---~~  479 (680)
                      .+..+|.++   .++|++|++++ +.+..+|. .++++++|++|++++| .++.++.+.++++++|++|++++|.   .+
T Consensus        42 ~l~~iP~~~---~~~L~~L~l~~-n~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~  116 (353)
T 2z80_A           42 SLNSIPSGL---TEAVKSLDLSN-NRITYISNSDLQRCVNLQALVLTSN-GINTIEEDSFSSLGSLEHLDLSYNYLSNLS  116 (353)
T ss_dssp             TCSSCCTTC---CTTCCEEECTT-SCCCEECTTTTTTCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECCSSCCSSCC
T ss_pred             Ccccccccc---cccCcEEECCC-CcCcccCHHHhccCCCCCEEECCCC-ccCccCHhhcCCCCCCCEEECCCCcCCcCC
Confidence            445677653   35899999999 58998885 7999999999999999 7998876559999999999999886   22


Q ss_pred             h-hhcCCCCCceeEEEeccchhhhhhhh--chhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecc
Q 041114          480 K-ELLGLKHLEELDFTLRCVHSLQILVS--SNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTD  556 (680)
Q Consensus       480 ~-~l~~L~~L~~L~i~~~~~~~l~~l~~--~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~  556 (680)
                      . .+.++++|+.|++..+...   .++.  ....+++|+.|+++++......+...+..+++|++|+++++. +..+.+.
T Consensus       117 ~~~~~~l~~L~~L~L~~n~l~---~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~  192 (353)
T 2z80_A          117 SSWFKPLSSLTFLNLLGNPYK---TLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASD-LQSYEPK  192 (353)
T ss_dssp             HHHHTTCTTCSEEECTTCCCS---SSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETT-CCEECTT
T ss_pred             HhHhCCCccCCEEECCCCCCc---ccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCC-cCccCHH
Confidence            3 3788999999998755433   3333  233456899999999865666654578889999999998764 4444344


Q ss_pred             cCCCCccCCCCCCCCCCccEEeeeCCCCCCCCCC--cCCCCCCCEEeEecCcchhHh
Q 041114          557 YTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTF--LVFAPNLKCLSLFDCTAMEEI  611 (680)
Q Consensus       557 ~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~--l~~l~~L~~L~l~~c~~l~~i  611 (680)
                      .+          ..+++|++|+++++. +..+|.  +..+++|++|+++++. +..+
T Consensus       193 ~l----------~~l~~L~~L~l~~n~-l~~~~~~~~~~~~~L~~L~L~~n~-l~~~  237 (353)
T 2z80_A          193 SL----------KSIQNVSHLILHMKQ-HILLLEIFVDVTSSVECLELRDTD-LDTF  237 (353)
T ss_dssp             TT----------TTCSEEEEEEEECSC-STTHHHHHHHHTTTEEEEEEESCB-CTTC
T ss_pred             HH----------hccccCCeecCCCCc-cccchhhhhhhcccccEEECCCCc-cccc
Confidence            33          578899999999876 455542  3468999999999864 4443

>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=99.61  E-value=7.6e-15  Score=149.34  Aligned_cols=213  Identities=18%  Similarity=0.167  Sum_probs=119.2

Q ss_pred             EEecCCCcccccccccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCcccc-chhhh
Q 041114          360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKEL-LGELK  438 (680)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~l-P~~i~  438 (680)
                      +...+.++..+|.. ...++++|.+.++.+.                .+++..|..+++|++|+|++| .+..+ |..++
T Consensus        16 ~~c~~~~l~~ip~~-~~~~l~~L~l~~n~i~----------------~~~~~~~~~~~~L~~L~l~~n-~l~~~~~~~~~   77 (285)
T 1ozn_A           16 TSCPQQGLQAVPVG-IPAASQRIFLHGNRIS----------------HVPAASFRACRNLTILWLHSN-VLARIDAAAFT   77 (285)
T ss_dssp             EECCSSCCSSCCTT-CCTTCSEEECTTSCCC----------------EECTTTTTTCTTCCEEECCSS-CCCEECTTTTT
T ss_pred             EEcCcCCcccCCcC-CCCCceEEEeeCCcCC----------------ccCHHHcccCCCCCEEECCCC-ccceeCHhhcC
Confidence            33444455555432 2356677777666654                445445777888888888884 67666 56788


Q ss_pred             ccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcc----hhhhcCCCCCceeEEEeccchhhhhhhhchhhhccc
Q 041114          439 ALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVL----AKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCT  514 (680)
Q Consensus       439 ~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~----~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L  514 (680)
                      .+++|++|++++|..++.++...+..+++|++|++++|..    +..+..+++|+.|++..+....+.  +.....+++|
T Consensus        78 ~l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~--~~~~~~l~~L  155 (285)
T 1ozn_A           78 GLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALP--DDTFRDLGNL  155 (285)
T ss_dssp             TCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC--TTTTTTCTTC
T ss_pred             CccCCCEEeCCCCCCccccCHHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCcccccC--HhHhccCCCc
Confidence            8888888888888337777444478888888888887651    233555666666666533222111  0111223355


Q ss_pred             cEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCCC--cC
Q 041114          515 RALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTF--LV  592 (680)
Q Consensus       515 ~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~--l~  592 (680)
                      +.|+++++. +...+...+..+++|+.|+++++ .+..+.+..+          ..+++|+.|++++|. +..++.  +.
T Consensus       156 ~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~----------~~l~~L~~L~l~~n~-l~~~~~~~~~  222 (285)
T 1ozn_A          156 THLFLHGNR-ISSVPERAFRGLHSLDRLLLHQN-RVAHVHPHAF----------RDLGRLMTLYLFANN-LSALPTEALA  222 (285)
T ss_dssp             CEEECCSSC-CCEECTTTTTTCTTCCEEECCSS-CCCEECTTTT----------TTCTTCCEEECCSSC-CSCCCHHHHT
T ss_pred             cEEECCCCc-ccccCHHHhcCccccCEEECCCC-cccccCHhHc----------cCcccccEeeCCCCc-CCcCCHHHcc
Confidence            555555553 33333334555556666666543 2333322222          345556666665543 333332  45


Q ss_pred             CCCCCCEEeEecC
Q 041114          593 FAPNLKCLSLFDC  605 (680)
Q Consensus       593 ~l~~L~~L~l~~c  605 (680)
                      .+++|++|+++++
T Consensus       223 ~l~~L~~L~l~~N  235 (285)
T 1ozn_A          223 PLRALQYLRLNDN  235 (285)
T ss_dssp             TCTTCCEEECCSS
T ss_pred             cCcccCEEeccCC
Confidence            5555666655554

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

Probab=99.61  E-value=9.3e-16  Score=158.69  Aligned_cols=220  Identities=15%  Similarity=0.082  Sum_probs=156.2

Q ss_pred             ccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCC
Q 041114          407 MITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGL  485 (680)
Q Consensus       407 ~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L  485 (680)
                      ..+...+..+++|++|+|++| .+..+| ..++.+++|++|++++| .+..+++  ++.+++|++|++++|. +.++...
T Consensus        24 ~~~~~~~~~~~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~--~~~l~~L~~L~Ls~n~-l~~l~~~   98 (317)
T 3o53_A           24 QALASLRQSAWNVKELDLSGN-PLSQISAADLAPFTKLELLNLSSN-VLYETLD--LESLSTLRTLDLNNNY-VQELLVG   98 (317)
T ss_dssp             HHHHHHHTTGGGCSEEECTTS-CCCCCCHHHHTTCTTCCEEECTTS-CCEEEEE--ETTCTTCCEEECCSSE-EEEEEEC
T ss_pred             hhHHHHhccCCCCCEEECcCC-ccCcCCHHHhhCCCcCCEEECCCC-cCCcchh--hhhcCCCCEEECcCCc-cccccCC
Confidence            455555777888999999994 777766 67899999999999998 6887776  8899999999998875 4455566


Q ss_pred             CCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCC
Q 041114          486 KHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKS  565 (680)
Q Consensus       486 ~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~  565 (680)
                      ++|+.|++..+....+.   .  ...++|+.|+++++. +...+...+..+++|+.|+++++ .+..+.+....      
T Consensus        99 ~~L~~L~l~~n~l~~~~---~--~~~~~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~------  165 (317)
T 3o53_A           99 PSIETLHAANNNISRVS---C--SRGQGKKNIYLANNK-ITMLRDLDEGCRSRVQYLDLKLN-EIDTVNFAELA------  165 (317)
T ss_dssp             TTCCEEECCSSCCSEEE---E--CCCSSCEEEECCSSC-CCSGGGBCTGGGSSEEEEECTTS-CCCEEEGGGGG------
T ss_pred             CCcCEEECCCCccCCcC---c--cccCCCCEEECCCCC-CCCccchhhhccCCCCEEECCCC-CCCcccHHHHh------
Confidence            88888888754433322   1  124578899998876 44444346778889999999875 45555444331      


Q ss_pred             CCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCCcccc
Q 041114          566 PQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNSAL  645 (680)
Q Consensus       566 ~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~~~l  645 (680)
                         ..+++|++|++++|. ++.++....+++|++|+++++ .+..++..  +..+++|+.|++++| +++.+|..+.. +
T Consensus       166 ---~~l~~L~~L~L~~N~-l~~~~~~~~l~~L~~L~Ls~N-~l~~l~~~--~~~l~~L~~L~L~~N-~l~~l~~~~~~-l  236 (317)
T 3o53_A          166 ---ASSDTLEHLNLQYNF-IYDVKGQVVFAKLKTLDLSSN-KLAFMGPE--FQSAAGVTWISLRNN-KLVLIEKALRF-S  236 (317)
T ss_dssp             ---GGTTTCCEEECTTSC-CCEEECCCCCTTCCEEECCSS-CCCEECGG--GGGGTTCSEEECTTS-CCCEECTTCCC-C
T ss_pred             ---hccCcCCEEECCCCc-CcccccccccccCCEEECCCC-cCCcchhh--hcccCcccEEECcCC-cccchhhHhhc-C
Confidence               356888999998876 555566667888999999885 46666443  467888888888886 57788866544 4


Q ss_pred             CcceEEec
Q 041114          646 EHKIAIRG  653 (680)
Q Consensus       646 ~~L~i~~~  653 (680)
                      ..|+..+.
T Consensus       237 ~~L~~L~l  244 (317)
T 3o53_A          237 QNLEHFDL  244 (317)
T ss_dssp             TTCCEEEC
T ss_pred             CCCCEEEc
Confidence            44444443

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

Probab=99.61  E-value=4.4e-15  Score=161.38  Aligned_cols=157  Identities=18%  Similarity=0.163  Sum_probs=106.7

Q ss_pred             cccccceEEEEeecccccccccCCCCccc------cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEE
Q 041114          373 VKEWETVRRLSLMQNQIKILSEAPTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCV  446 (680)
Q Consensus       373 ~~~~~~~r~lsl~~~~~~~l~~~~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L  446 (680)
                      ....++++++++.++.+..+|....+++|      ++.+..+|   ++.+++|++|++++| .+..+|  ++.+++|++|
T Consensus        38 ~~~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           38 EEQLATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNNITTLD---LSQNTNLTYLACDSN-KLTNLD--VTPLTKLTYL  111 (457)
T ss_dssp             HHHHTTCCEEECCSSCCCCCTTGGGCTTCSEEECCSSCCSCCC---CTTCTTCSEEECCSS-CCSCCC--CTTCTTCCEE
T ss_pred             hhHcCCCCEEEccCCCcccChhhcccCCCCEEEccCCcCCeEc---cccCCCCCEEECcCC-CCceee--cCCCCcCCEE
Confidence            34457999999999999877644445554      55666665   677888888888884 677775  7788888888


Q ss_pred             eccCCCCccccchhhhcCCCCCcEeeccCCcch-hhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCC
Q 041114          447 NLEWARDLVTIPLEVISNFSKLRVLRLFGTVLA-KELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDS  525 (680)
Q Consensus       447 ~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~-~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~  525 (680)
                      ++++| .++.+|   ++.+++|++|++++|..- -.+..+++|+.|++..+.  .+..+ . ...+++|+.|+++++. +
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 NCDTN-KLTKLD---VSQNPLLTYLNCARNTLTEIDVSHNTQLTELDCHLNK--KITKL-D-VTPQTQLTTLDCSFNK-I  182 (457)
T ss_dssp             ECCSS-CCSCCC---CTTCTTCCEEECTTSCCSCCCCTTCTTCCEEECTTCS--CCCCC-C-CTTCTTCCEEECCSSC-C
T ss_pred             ECCCC-cCCeec---CCCCCcCCEEECCCCccceeccccCCcCCEEECCCCC--ccccc-c-cccCCcCCEEECCCCc-c
Confidence            88888 677775   677888888888876521 135667777777776432  11111 1 1234578888888775 4


Q ss_pred             CcccccccccCCCCCEEEEecc
Q 041114          526 KSIDVIALARLKHLSTLHFSKC  547 (680)
Q Consensus       526 ~~~~~~~l~~l~~L~~L~l~~~  547 (680)
                      ..++   +..+++|+.|+++++
T Consensus       183 ~~l~---l~~l~~L~~L~l~~N  201 (457)
T 3bz5_A          183 TELD---VSQNKLLNRLNCDTN  201 (457)
T ss_dssp             CCCC---CTTCTTCCEEECCSS
T ss_pred             ceec---cccCCCCCEEECcCC
Confidence            4443   667788888888764

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

Probab=99.61  E-value=7.2e-15  Score=164.85  Aligned_cols=138  Identities=22%  Similarity=0.291  Sum_probs=112.2

Q ss_pred             ccEEEecCCCcccccccccccceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCC
Q 041114          357 ENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRET  428 (680)
Q Consensus       357 ~~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~  428 (680)
                      ...+...+.++..+|.. -..++++|++++|.+..++..  ..+++|      ++.+..+++..|.++++|++|+|++| 
T Consensus         9 ~~~~~c~~~~l~~ip~~-l~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n-   86 (570)
T 2z63_A            9 NITYQCMELNFYKIPDN-LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-   86 (570)
T ss_dssp             TTEEECCSSCCSSCCSS-SCSSCCEEECCSCCCCEECTTTTTTCSSCCEEECTTCCCCEECTTTTTTCTTCCEEECTTC-
T ss_pred             CcEEEeCCCCccccCCC-ccccccEEEccCCccCccChhHhhCCCCceEEECCCCcCCccCcccccCchhCCEEeCcCC-
Confidence            34566667777778753 236899999999999887643  455555      66788888888999999999999994 


Q ss_pred             Cccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc-----chhhhcCCCCCceeEEEecc
Q 041114          429 NIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV-----LAKELLGLKHLEELDFTLRC  497 (680)
Q Consensus       429 ~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~-----~~~~l~~L~~L~~L~i~~~~  497 (680)
                      .+..+| ..++.+++|++|++++| .+..+|...++++++|++|++++|.     .+..++++++|+.|++..+.
T Consensus        87 ~l~~~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~~n~  160 (570)
T 2z63_A           87 PIQSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNK  160 (570)
T ss_dssp             CCCEECTTTTTTCTTCCEEECTTS-CCCCSTTCSCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECTTSC
T ss_pred             cCCccCHhhhcCcccccccccccc-ccccCCCccccccccccEEecCCCccceecChhhhcccCCCCEEeCcCCc
Confidence            788777 67999999999999999 7999987448999999999999885     36678899999999987544

>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=99.61  E-value=2.5e-15  Score=174.56  Aligned_cols=243  Identities=14%  Similarity=0.003  Sum_probs=162.5

Q ss_pred             ccccc-ccchhhhccCCcceEEEccCCCCcc-ccchhhhccCCCCEEeccCCCCcc-ccchhhhcCCCCCcEeeccCCc-
Q 041114          402 HYEFK-MITDGFFQFMPLLKVLNMSRETNIK-ELLGELKALVNLKCVNLEWARDLV-TIPLEVISNFSKLRVLRLFGTV-  477 (680)
Q Consensus       402 ~~~l~-~lp~~~~~~l~~Lr~LdL~~~~~i~-~lP~~i~~L~~Lr~L~L~~~~~l~-~lP~~~i~~L~~L~~L~l~~~~-  477 (680)
                      ++.+. .+|.. |..+++|++|+|++| .+. .+|..++.+++|++|++++| .+. .+|.. ++.+++|++|++++|. 
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~L~~N~l  478 (768)
T 3rgz_A          403 NNGFTGKIPPT-LSNCSELVSLHLSFN-YLSGTIPSSLGSLSKLRDLKLWLN-MLEGEIPQE-LMYVKTLETLILDFNDL  478 (768)
T ss_dssp             SSEEEEECCGG-GGGCTTCCEEECCSS-EEESCCCGGGGGCTTCCEEECCSS-CCCSCCCGG-GGGCTTCCEEECCSSCC
T ss_pred             CCccccccCHH-HhcCCCCCEEECcCC-cccCcccHHHhcCCCCCEEECCCC-cccCcCCHH-HcCCCCceEEEecCCcc
Confidence            44444 34544 788899999999985 554 67888899999999999988 455 67776 8889999999998875 


Q ss_pred             ---chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceee
Q 041114          478 ---LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWK  554 (680)
Q Consensus       478 ---~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~  554 (680)
                         .+..+.++++|+.|++..+...  ..++.....+++|+.|+++++.-....| ..+..+++|+.|+++++.....++
T Consensus       479 ~~~~p~~l~~l~~L~~L~L~~N~l~--~~~p~~~~~l~~L~~L~L~~N~l~~~~p-~~l~~l~~L~~L~Ls~N~l~g~ip  555 (768)
T 3rgz_A          479 TGEIPSGLSNCTNLNWISLSNNRLT--GEIPKWIGRLENLAILKLSNNSFSGNIP-AELGDCRSLIWLDLNTNLFNGTIP  555 (768)
T ss_dssp             CSCCCGGGGGCTTCCEEECCSSCCC--SCCCGGGGGCTTCCEEECCSSCCEEECC-GGGGGCTTCCEEECCSSEEESBCC
T ss_pred             cCcCCHHHhcCCCCCEEEccCCccC--CcCChHHhcCCCCCEEECCCCcccCcCC-HHHcCCCCCCEEECCCCccCCcCC
Confidence               4556788888988888755433  1233334445689999999887544555 378889999999998765433333


Q ss_pred             cccCCC-----------------------------------------------------------CccCCCCCCCCCCcc
Q 041114          555 TDYTSG-----------------------------------------------------------TVLKSPQPFVFCSLH  575 (680)
Q Consensus       555 ~~~~~~-----------------------------------------------------------~~l~~~~~~~l~~L~  575 (680)
                      ......                                                           .+..|+.+..+++|+
T Consensus       556 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~  635 (768)
T 3rgz_A          556 AAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMM  635 (768)
T ss_dssp             GGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCC
T ss_pred             hHHhcccchhhhhccccccccccccccccccccccccccccccccchhhhccccccccccccceecccCchhhhcccccc
Confidence            221110                                                           011233445677888


Q ss_pred             EEeeeCCCCCCCCC-CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCCcc--ccCcceEEe
Q 041114          576 KVTITFCPKLKGLT-FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNS--ALEHKIAIR  652 (680)
Q Consensus       576 ~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~~--~l~~L~i~~  652 (680)
                      .|+|++|.....+| .++.+++|+.|+++++.....+|..  ++.+++|+.|+++++.--..+|..+..  .|+.|.+.+
T Consensus       636 ~LdLs~N~l~g~ip~~l~~l~~L~~L~Ls~N~l~g~ip~~--l~~L~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~ls~  713 (768)
T 3rgz_A          636 FLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDE--VGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSN  713 (768)
T ss_dssp             EEECCSSCCBSCCCGGGGGCTTCCEEECCSSCCCSCCCGG--GGGCTTCCEEECCSSCCEECCCGGGGGCCCCSEEECCS
T ss_pred             EEECcCCcccccCCHHHhccccCCEEeCcCCccCCCCChH--HhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECcC
Confidence            88888876555555 4778888888888875543345442  367888888888876543466655443  244444443


Q ss_pred             c
Q 041114          653 G  653 (680)
Q Consensus       653 ~  653 (680)
                      +
T Consensus       714 N  714 (768)
T 3rgz_A          714 N  714 (768)
T ss_dssp             S
T ss_pred             C
Confidence            3

>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=99.60  E-value=3.8e-15  Score=173.00  Aligned_cols=257  Identities=19%  Similarity=0.152  Sum_probs=113.2

Q ss_pred             cccceEEEEeeccccc-ccccCC--CCccc------cccccccchhhhccCCcceEEEccCCCCcc-ccchh-hhccCCC
Q 041114          375 EWETVRRLSLMQNQIK-ILSEAP--TCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIK-ELLGE-LKALVNL  443 (680)
Q Consensus       375 ~~~~~r~lsl~~~~~~-~l~~~~--~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~-~lP~~-i~~L~~L  443 (680)
                      ...+++++.+.+|.+. .+|...  .+++|      ++.+....+..|..+++|++|+|++| .+. .+|.. ++.+++|
T Consensus       267 ~l~~L~~L~L~~n~l~~~ip~~~~~~~~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~L~~n-~l~~~ip~~~l~~l~~L  345 (768)
T 3rgz_A          267 PLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSN-NFSGELPMDTLLKMRGL  345 (768)
T ss_dssp             CCTTCCEEECCSSEEEESCCCCSCTTCTTCSEEECCSSEEEECCCGGGGGCTTCCEEECCSS-EEEEECCHHHHTTCTTC
T ss_pred             ccCCCCEEECcCCccCCccCHHHHhhcCcCCEEECcCCcCCCccchHHhcCCCccEEECCCC-cccCcCCHHHHhcCCCC
Confidence            3455666666666554 333321  12333      33343222223566666666666663 443 55544 6666666


Q ss_pred             CEEeccCCCCcc-ccchhhhcCCC-CCcEeeccCCcc----hhhhcC--CCCCceeEEEeccchhhhhhhhchhhhcccc
Q 041114          444 KCVNLEWARDLV-TIPLEVISNFS-KLRVLRLFGTVL----AKELLG--LKHLEELDFTLRCVHSLQILVSSNKLQSCTR  515 (680)
Q Consensus       444 r~L~L~~~~~l~-~lP~~~i~~L~-~L~~L~l~~~~~----~~~l~~--L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~  515 (680)
                      ++|++++| .+. .+|.. ++++. +|++|++++|..    +..+..  +++|+.|++..+....  .++.....+++|+
T Consensus       346 ~~L~Ls~n-~l~~~~p~~-l~~l~~~L~~L~Ls~N~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~--~~p~~l~~l~~L~  421 (768)
T 3rgz_A          346 KVLDLSFN-EFSGELPES-LTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTG--KIPPTLSNCSELV  421 (768)
T ss_dssp             CEEECCSS-EEEECCCTT-HHHHTTTCSEEECCSSEEEEECCTTTTCSTTCCCCEEECCSSEEEE--ECCGGGGGCTTCC
T ss_pred             CEEeCcCC-ccCccccHH-HHhhhcCCcEEEccCCCcCCCcChhhhhcccCCccEEECCCCcccc--ccCHHHhcCCCCC
Confidence            66666666 343 55554 55554 555555555431    222222  4445555544222110  1122222233555


Q ss_pred             EEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCC-------------CccCCCCCCCCCCccEEeeeCC
Q 041114          516 ALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSG-------------TVLKSPQPFVFCSLHKVTITFC  582 (680)
Q Consensus       516 ~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~-------------~~l~~~~~~~l~~L~~L~L~~c  582 (680)
                      .|+++++.-....+ ..+..+++|+.|+++++.....++......             .+..|..+..+++|+.|+|++|
T Consensus       422 ~L~Ls~N~l~~~~p-~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~L~~N  500 (768)
T 3rgz_A          422 SLHLSFNYLSGTIP-SSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNN  500 (768)
T ss_dssp             EEECCSSEEESCCC-GGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSS
T ss_pred             EEECcCCcccCccc-HHHhcCCCCCEEECCCCcccCcCCHHHcCCCCceEEEecCCcccCcCCHHHhcCCCCCEEEccCC
Confidence            55555553222222 245555555555555443222211111000             0001111234455555555555


Q ss_pred             CCCCCCC-CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCC
Q 041114          583 PKLKGLT-FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPL  639 (680)
Q Consensus       583 ~~l~~l~-~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~  639 (680)
                      .....+| +++.+++|++|++++|.....+|.  .++.+++|+.|++++|+--..+|.
T Consensus       501 ~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~--~l~~l~~L~~L~Ls~N~l~g~ip~  556 (768)
T 3rgz_A          501 RLTGEIPKWIGRLENLAILKLSNNSFSGNIPA--ELGDCRSLIWLDLNTNLFNGTIPA  556 (768)
T ss_dssp             CCCSCCCGGGGGCTTCCEEECCSSCCEEECCG--GGGGCTTCCEEECCSSEEESBCCG
T ss_pred             ccCCcCChHHhcCCCCCEEECCCCcccCcCCH--HHcCCCCCCEEECCCCccCCcCCh
Confidence            4333333 345555555555555433223322  124455555555555543334444

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

Probab=99.59  E-value=2.8e-15  Score=170.16  Aligned_cols=263  Identities=14%  Similarity=0.152  Sum_probs=151.8

Q ss_pred             cccceEEEEeecccccc-cccC-CCCccc------ccc-cc--ccchhhhccC------CcceEEEccCCCCccccch--
Q 041114          375 EWETVRRLSLMQNQIKI-LSEA-PTCPHL------HYE-FK--MITDGFFQFM------PLLKVLNMSRETNIKELLG--  435 (680)
Q Consensus       375 ~~~~~r~lsl~~~~~~~-l~~~-~~~~~L------~~~-l~--~lp~~~~~~l------~~Lr~LdL~~~~~i~~lP~--  435 (680)
                      ...++++|.+.+|.+.. +|.. ..+++|      ++. +.  .+|.. +..+      ++|++|++++| .+..+|.  
T Consensus       247 ~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~~l~~~~lp~~-~~~L~~~~~l~~L~~L~L~~n-~l~~ip~~~  324 (636)
T 4eco_A          247 NLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDD-WQALADAPVGEKIQIIYIGYN-NLKTFPVET  324 (636)
T ss_dssp             GCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECTTCTTSCHHHHHHH-HHHHHHSGGGGTCCEEECCSS-CCSSCCCHH
T ss_pred             ccCCCCEEEecCCcCCccChHHHhcCCCCCEEECcCCCCCccccchHH-HHhhhccccCCCCCEEECCCC-cCCccCchh
Confidence            46788888888887543 4432 334444      343 54  36665 4444      77888888874 6777777  


Q ss_pred             hhhccCCCCEEeccCCCCcc-ccchhhhcCCCCCcEeeccCCc---chhhhcCCCC-CceeEEEeccchhhhhhhhchhh
Q 041114          436 ELKALVNLKCVNLEWARDLV-TIPLEVISNFSKLRVLRLFGTV---LAKELLGLKH-LEELDFTLRCVHSLQILVSSNKL  510 (680)
Q Consensus       436 ~i~~L~~Lr~L~L~~~~~l~-~lP~~~i~~L~~L~~L~l~~~~---~~~~l~~L~~-L~~L~i~~~~~~~l~~l~~~~~l  510 (680)
                      .++++++|++|++++| .+. .+| . ++.+++|++|++++|.   .+..+.++++ |+.|++..+...   .++.....
T Consensus       325 ~l~~l~~L~~L~L~~N-~l~g~ip-~-~~~l~~L~~L~L~~N~l~~lp~~l~~l~~~L~~L~Ls~N~l~---~lp~~~~~  398 (636)
T 4eco_A          325 SLQKMKKLGMLECLYN-QLEGKLP-A-FGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLK---YIPNIFDA  398 (636)
T ss_dssp             HHTTCTTCCEEECCSC-CCEEECC-C-CEEEEEESEEECCSSEEEECCTTSEEECTTCCEEECCSSCCS---SCCSCCCT
T ss_pred             hhccCCCCCEEeCcCC-cCccchh-h-hCCCCCCCEEECCCCccccccHhhhhhcccCcEEEccCCcCc---ccchhhhh
Confidence            7888888888888887 566 777 4 7777788888877764   3445666666 777777644433   22322221


Q ss_pred             h--ccccEEEEeccCCC------------------------------CcccccccccCCCCCEEEEeccCCcceeecccC
Q 041114          511 Q--SCTRALVLIRFKDS------------------------------KSIDVIALARLKHLSTLHFSKCEELEEWKTDYT  558 (680)
Q Consensus       511 ~--~~L~~L~l~~~~~~------------------------------~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~  558 (680)
                      .  .+|+.|+++++.-.                              ..++...+..+++|+.|+++++. +..++....
T Consensus       399 ~~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~~~l~~L~~L~Ls~N~-l~~i~~~~~  477 (636)
T 4eco_A          399 KSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLMGNM-LTEIPKNSL  477 (636)
T ss_dssp             TCSSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEEEECCSSCCCSCCTHHHHTTCCCSEEECCSSC-CSBCCSSSS
T ss_pred             cccCccCEEECcCCcCCCcchhhhcccccccccCCCCCEEECcCCccCcCCHHHHccCCCCCEEECCCCC-CCCcCHHHh
Confidence            1  14555555544322                              22222222334555555554432 223322221


Q ss_pred             CCCccCCCCCCCCCCccEEeeeCCCCCCCCC-CcC--CCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccc-----
Q 041114          559 SGTVLKSPQPFVFCSLHKVTITFCPKLKGLT-FLV--FAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDP-----  630 (680)
Q Consensus       559 ~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~--~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~-----  630 (680)
                      ..   ..+....+++|+.|+|++|. ++.+| .+.  .+++|++|+++++. +..+|..  ++.+++|+.|++++     
T Consensus       478 ~~---~~~~~~~l~~L~~L~Ls~N~-l~~lp~~~~~~~l~~L~~L~Ls~N~-l~~ip~~--~~~l~~L~~L~Ls~N~~ls  550 (636)
T 4eco_A          478 KD---ENENFKNTYLLTSIDLRFNK-LTKLSDDFRATTLPYLVGIDLSYNS-FSKFPTQ--PLNSSTLKGFGIRNQRDAQ  550 (636)
T ss_dssp             EE---TTEECTTGGGCCEEECCSSC-CCBCCGGGSTTTCTTCCEEECCSSC-CSSCCCG--GGGCSSCCEEECCSCBCTT
T ss_pred             cc---ccccccccCCccEEECcCCc-CCccChhhhhccCCCcCEEECCCCC-CCCcChh--hhcCCCCCEEECCCCcccc
Confidence            10   00001123388999998876 44555 344  88999999998854 5555443  36789999998854     


Q ss_pred             -cccCCCCCCCCcc--ccCcceEEec
Q 041114          631 -CAKLRKLPLDSNS--ALEHKIAIRG  653 (680)
Q Consensus       631 -C~~L~~lP~~~~~--~l~~L~i~~~  653 (680)
                       +.-...+|..+..  .|+.|.+.++
T Consensus       551 ~N~l~~~~p~~l~~l~~L~~L~Ls~N  576 (636)
T 4eco_A          551 GNRTLREWPEGITLCPSLTQLQIGSN  576 (636)
T ss_dssp             CCBCCCCCCTTGGGCSSCCEEECCSS
T ss_pred             cCcccccChHHHhcCCCCCEEECCCC
Confidence             4445567766544  3444444444

>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=99.59  E-value=1.2e-14  Score=149.63  Aligned_cols=188  Identities=20%  Similarity=0.254  Sum_probs=135.8

Q ss_pred             cccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCc
Q 041114          375 EWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDL  454 (680)
Q Consensus       375 ~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l  454 (680)
                      ..++++++++.++.+..                +|.  +..+++|++|+|++| .+..+|. ++.+++|++|++++| .+
T Consensus        39 ~l~~L~~L~l~~~~i~~----------------l~~--~~~l~~L~~L~L~~n-~i~~~~~-~~~l~~L~~L~L~~n-~l   97 (308)
T 1h6u_A           39 DLDGITTLSAFGTGVTT----------------IEG--VQYLNNLIGLELKDN-QITDLAP-LKNLTKITELELSGN-PL   97 (308)
T ss_dssp             HHHTCCEEECTTSCCCC----------------CTT--GGGCTTCCEEECCSS-CCCCCGG-GTTCCSCCEEECCSC-CC
T ss_pred             HcCCcCEEEeeCCCccC----------------chh--hhccCCCCEEEccCC-cCCCChh-HccCCCCCEEEccCC-cC
Confidence            45688999988887663                332  678999999999994 8888887 899999999999999 69


Q ss_pred             cccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccc
Q 041114          455 VTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIA  532 (680)
Q Consensus       455 ~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~  532 (680)
                      +.+|.  ++.+++|++|++++|.  .+..+..+++|+.|++..+....+..+    ..+++|+.|+++++. +...+  .
T Consensus        98 ~~~~~--~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~l----~~l~~L~~L~l~~n~-l~~~~--~  168 (308)
T 1h6u_A           98 KNVSA--IAGLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISPL----AGLTNLQYLSIGNAQ-VSDLT--P  168 (308)
T ss_dssp             SCCGG--GTTCTTCCEEECTTSCCCCCGGGTTCTTCCEEECCSSCCCCCGGG----GGCTTCCEEECCSSC-CCCCG--G
T ss_pred             CCchh--hcCCCCCCEEECCCCCCCCchhhcCCCCCCEEECCCCccCcCccc----cCCCCccEEEccCCc-CCCCh--h
Confidence            88875  8999999999999886  344577778888888775544443332    223477888887775 44443  3


Q ss_pred             cccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCc
Q 041114          533 LARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCT  606 (680)
Q Consensus       533 l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~  606 (680)
                      +..+++|+.|+++++ .+..++.  +          ..+++|++|++++|. +..++.+..+++|+.|++++++
T Consensus       169 l~~l~~L~~L~l~~n-~l~~~~~--l----------~~l~~L~~L~L~~N~-l~~~~~l~~l~~L~~L~l~~N~  228 (308)
T 1h6u_A          169 LANLSKLTTLKADDN-KISDISP--L----------ASLPNLIEVHLKNNQ-ISDVSPLANTSNLFIVTLTNQT  228 (308)
T ss_dssp             GTTCTTCCEEECCSS-CCCCCGG--G----------GGCTTCCEEECTTSC-CCBCGGGTTCTTCCEEEEEEEE
T ss_pred             hcCCCCCCEEECCCC-ccCcChh--h----------cCCCCCCEEEccCCc-cCccccccCCCCCCEEEccCCe
Confidence            677778888888765 3343321  1          466778888888765 4555567778888888887743

>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=99.58  E-value=4.8e-15  Score=146.65  Aligned_cols=195  Identities=15%  Similarity=0.045  Sum_probs=114.4

Q ss_pred             cceEEEccCCCCccccch-hhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccC-Cc----chhhhcCCCCCcee
Q 041114          418 LLKVLNMSRETNIKELLG-ELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG-TV----LAKELLGLKHLEEL  491 (680)
Q Consensus       418 ~Lr~LdL~~~~~i~~lP~-~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~-~~----~~~~l~~L~~L~~L  491 (680)
                      +|++|++++ +.++.+|. .++.+++|++|++++|..++.+|...++++++|++|++++ +.    ....+.++++|+.|
T Consensus        32 ~l~~L~l~~-n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L  110 (239)
T 2xwt_C           32 STQTLKLIE-THLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFL  110 (239)
T ss_dssp             TCCEEEEES-CCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTCCEE
T ss_pred             cccEEEEeC-CcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCCEE
Confidence            677777777 46777664 5667777777777777227777664467777777777776 32    11234455666666


Q ss_pred             EEEeccchhhhhhhhchhhhcccc---EEEEeccCCCCcccccccccCCCCC-EEEEeccCCcceeecccCCCCccCCCC
Q 041114          492 DFTLRCVHSLQILVSSNKLQSCTR---ALVLIRFKDSKSIDVIALARLKHLS-TLHFSKCEELEEWKTDYTSGTVLKSPQ  567 (680)
Q Consensus       492 ~i~~~~~~~l~~l~~~~~l~~~L~---~L~l~~~~~~~~~~~~~l~~l~~L~-~L~l~~~~~l~~l~~~~~~~~~l~~~~  567 (680)
                      ++..+....+..+    ..+.+|+   .|+++++..+..++...+..+++|+ .|+++++ .++.++....         
T Consensus       111 ~l~~n~l~~lp~~----~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n-~l~~i~~~~~---------  176 (239)
T 2xwt_C          111 GIFNTGLKMFPDL----TKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNN-GFTSVQGYAF---------  176 (239)
T ss_dssp             EEEEECCCSCCCC----TTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSC-CCCEECTTTT---------
T ss_pred             eCCCCCCcccccc----ccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCC-CCcccCHhhc---------
Confidence            6654433332221    1122444   7777776445555544567777777 7777654 4444443322         


Q ss_pred             CCCCCCccEEeeeCCCCCCCCC--CcCCC-CCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccC
Q 041114          568 PFVFCSLHKVTITFCPKLKGLT--FLVFA-PNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKL  634 (680)
Q Consensus       568 ~~~l~~L~~L~L~~c~~l~~l~--~l~~l-~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L  634 (680)
                        ..++|+.|++++|..++.+|  .+..+ ++|+.|++++ +.++.++.    ..+++|+.|.+.+++.|
T Consensus       177 --~~~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~~-N~l~~l~~----~~~~~L~~L~l~~~~~l  239 (239)
T 2xwt_C          177 --NGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQ-TSVTALPS----KGLEHLKELIARNTWTL  239 (239)
T ss_dssp             --TTCEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECTT-CCCCCCCC----TTCTTCSEEECTTC---
T ss_pred             --CCCCCCEEEcCCCCCcccCCHHHhhccccCCcEEECCC-CccccCCh----hHhccCceeeccCccCC
Confidence              12577777777765455554  25566 7777777777 44555543    24677777777666543

>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=99.58  E-value=5.5e-15  Score=152.11  Aligned_cols=198  Identities=18%  Similarity=0.204  Sum_probs=159.1

Q ss_pred             hccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCce
Q 041114          413 FQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEE  490 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~  490 (680)
                      +..+++|++|++++ ..+..+| .+..+++|++|++++| .+..+|.  ++.+++|++|++++|.  .+..+..+++|+.
T Consensus        37 ~~~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           37 QADLDGITTLSAFG-TGVTTIE-GVQYLNNLIGLELKDN-QITDLAP--LKNLTKITELELSGNPLKNVSAIAGLQSIKT  111 (308)
T ss_dssp             HHHHHTCCEEECTT-SCCCCCT-TGGGCTTCCEEECCSS-CCCCCGG--GTTCCSCCEEECCSCCCSCCGGGTTCTTCCE
T ss_pred             HHHcCCcCEEEeeC-CCccCch-hhhccCCCCEEEccCC-cCCCChh--HccCCCCCEEEccCCcCCCchhhcCCCCCCE
Confidence            45688999999999 4898888 7999999999999999 7999998  8999999999999986  4567888999999


Q ss_pred             eEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCC
Q 041114          491 LDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFV  570 (680)
Q Consensus       491 L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~  570 (680)
                      |++..+....+..+    ..+++|+.|+++++. +...+  .+..+++|+.|+++++ .+..++.  +          ..
T Consensus       112 L~l~~n~l~~~~~l----~~l~~L~~L~l~~n~-l~~~~--~l~~l~~L~~L~l~~n-~l~~~~~--l----------~~  171 (308)
T 1h6u_A          112 LDLTSTQITDVTPL----AGLSNLQVLYLDLNQ-ITNIS--PLAGLTNLQYLSIGNA-QVSDLTP--L----------AN  171 (308)
T ss_dssp             EECTTSCCCCCGGG----TTCTTCCEEECCSSC-CCCCG--GGGGCTTCCEEECCSS-CCCCCGG--G----------TT
T ss_pred             EECCCCCCCCchhh----cCCCCCCEEECCCCc-cCcCc--cccCCCCccEEEccCC-cCCCChh--h----------cC
Confidence            99986655544332    334589999999986 44444  4889999999999986 4454322  2          57


Q ss_pred             CCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCC
Q 041114          571 FCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDS  641 (680)
Q Consensus       571 l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~  641 (680)
                      +++|+.|++++|. +..++.+..+++|++|++++|. +..++.   +..+++|+.|++++++ +...|...
T Consensus       172 l~~L~~L~l~~n~-l~~~~~l~~l~~L~~L~L~~N~-l~~~~~---l~~l~~L~~L~l~~N~-i~~~~~~~  236 (308)
T 1h6u_A          172 LSKLTTLKADDNK-ISDISPLASLPNLIEVHLKNNQ-ISDVSP---LANTSNLFIVTLTNQT-ITNQPVFY  236 (308)
T ss_dssp             CTTCCEEECCSSC-CCCCGGGGGCTTCCEEECTTSC-CCBCGG---GTTCTTCCEEEEEEEE-EECCCEEC
T ss_pred             CCCCCEEECCCCc-cCcChhhcCCCCCCEEEccCCc-cCcccc---ccCCCCCCEEEccCCe-eecCCeee
Confidence            8999999999976 6777778999999999999964 555543   4789999999998876 66666533

>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=99.58  E-value=8.3e-15  Score=149.06  Aligned_cols=206  Identities=13%  Similarity=0.078  Sum_probs=149.5

Q ss_pred             cccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcc-----h
Q 041114          406 KMITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVL-----A  479 (680)
Q Consensus       406 ~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~-----~  479 (680)
                      ..+|.+   -.++|++|++++ +.+..+| ..++.+++|++|++++| .+..++...++.+++|++|++++|..     +
T Consensus        24 ~~ip~~---~~~~l~~L~l~~-n~i~~~~~~~~~~~~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~~   98 (285)
T 1ozn_A           24 QAVPVG---IPAASQRIFLHG-NRISHVPAASFRACRNLTILWLHSN-VLARIDAAAFTGLALLEQLDLSDNAQLRSVDP   98 (285)
T ss_dssp             SSCCTT---CCTTCSEEECTT-SCCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSCTTCCCCCT
T ss_pred             ccCCcC---CCCCceEEEeeC-CcCCccCHHHcccCCCCCEEECCCC-ccceeCHhhcCCccCCCEEeCCCCCCccccCH
Confidence            355654   247899999999 5888888 56999999999999999 78888544499999999999999852     3


Q ss_pred             hhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCC
Q 041114          480 KELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTS  559 (680)
Q Consensus       480 ~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~  559 (680)
                      ..+..+++|+.|++..+....+.  +.....+++|+.|+++++. +...+...+..+++|+.|+++++ .+..++...+ 
T Consensus        99 ~~~~~l~~L~~L~l~~n~l~~~~--~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~-  173 (285)
T 1ozn_A           99 ATFHGLGRLHTLHLDRCGLQELG--PGLFRGLAALQYLYLQDNA-LQALPDDTFRDLGNLTHLFLHGN-RISSVPERAF-  173 (285)
T ss_dssp             TTTTTCTTCCEEECTTSCCCCCC--TTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCCEECTTTT-
T ss_pred             HHhcCCcCCCEEECCCCcCCEEC--HhHhhCCcCCCEEECCCCc-ccccCHhHhccCCCccEEECCCC-cccccCHHHh-
Confidence            45677889999988754433221  2222335588999998876 44555446788899999999875 5555544433 


Q ss_pred             CCccCCCCCCCCCCccEEeeeCCCCCCCC-CCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccc
Q 041114          560 GTVLKSPQPFVFCSLHKVTITFCPKLKGL-TFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCA  632 (680)
Q Consensus       560 ~~~l~~~~~~~l~~L~~L~L~~c~~l~~l-~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~  632 (680)
                               ..+++|+.|++++|...... ..+..+++|+.|+++++ .+..++.. .++.+++|+.|+++++|
T Consensus       174 ---------~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~-~~~~l~~L~~L~l~~N~  236 (285)
T 1ozn_A          174 ---------RGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFAN-NLSALPTE-ALAPLRALQYLRLNDNP  236 (285)
T ss_dssp             ---------TTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCSCCCHH-HHTTCTTCCEEECCSSC
T ss_pred             ---------cCccccCEEECCCCcccccCHhHccCcccccEeeCCCC-cCCcCCHH-HcccCcccCEEeccCCC
Confidence                     56789999999987643332 35778899999999885 45555432 23668888888877765

>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=99.58  E-value=6.1e-14  Score=157.05  Aligned_cols=138  Identities=17%  Similarity=0.163  Sum_probs=105.8

Q ss_pred             ceEEEEeecccccccccCC--CCccc---cccccccchhhhccCCcceEEEccCCCCcccc-chhhhccCCCCEEeccCC
Q 041114          378 TVRRLSLMQNQIKILSEAP--TCPHL---HYEFKMITDGFFQFMPLLKVLNMSRETNIKEL-LGELKALVNLKCVNLEWA  451 (680)
Q Consensus       378 ~~r~lsl~~~~~~~l~~~~--~~~~L---~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~l-P~~i~~L~~Lr~L~L~~~  451 (680)
                      ..+++.+.++.+..+|...  ....|   ++.+..+++..|.++++|++|+|++| .+..+ |..++.+++|++|+|++|
T Consensus        32 ~~~~l~ls~~~L~~ip~~~~~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~N  110 (562)
T 3a79_B           32 LESMVDYSNRNLTHVPKDLPPRTKALSLSQNSISELRMPDISFLSELRVLRLSHN-RIRSLDFHVFLFNQDLEYLDVSHN  110 (562)
T ss_dssp             -CCEEECTTSCCCSCCTTSCTTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSC-CCCEECTTTTTTCTTCCEEECTTS
T ss_pred             CCcEEEcCCCCCccCCCCCCCCcCEEECCCCCccccChhhhccCCCccEEECCCC-CCCcCCHHHhCCCCCCCEEECCCC
Confidence            4489999999999888642  22233   77888999877999999999999995 88887 577999999999999999


Q ss_pred             CCccccchhhhcCCCCCcEeeccCCcc-----hhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccC
Q 041114          452 RDLVTIPLEVISNFSKLRVLRLFGTVL-----AKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFK  523 (680)
Q Consensus       452 ~~l~~lP~~~i~~L~~L~~L~l~~~~~-----~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~  523 (680)
                       .++.+|..   .+++|++|++++|..     +..+.++++|+.|+++.+.... ..+.....+  +|+.|+++++.
T Consensus       111 -~l~~lp~~---~l~~L~~L~Ls~N~l~~l~~p~~~~~l~~L~~L~L~~n~l~~-~~~~~l~~L--~L~~L~L~~n~  180 (562)
T 3a79_B          111 -RLQNISCC---PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQ-LDLLPVAHL--HLSCILLDLVS  180 (562)
T ss_dssp             -CCCEECSC---CCTTCSEEECCSSCCSBCCCCGGGGGCTTCCEEEEECSBCCT-TTTGGGTTS--CEEEEEEEESS
T ss_pred             -cCCccCcc---ccccCCEEECCCCCccccCchHhhcccCcccEEecCCCcccc-Cchhhhhhc--eeeEEEeeccc
Confidence             79999983   899999999999862     3578899999999998655432 112222211  33667666654

>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=99.58  E-value=9e-15  Score=150.42  Aligned_cols=212  Identities=13%  Similarity=0.080  Sum_probs=155.4

Q ss_pred             ccccchhhhccCCcceEEEccCCCCccccchh-hhccCCCCEEeccCCCCcccc---chhhhcCCCCCcEeeccCCc---
Q 041114          405 FKMITDGFFQFMPLLKVLNMSRETNIKELLGE-LKALVNLKCVNLEWARDLVTI---PLEVISNFSKLRVLRLFGTV---  477 (680)
Q Consensus       405 l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~-i~~L~~Lr~L~L~~~~~l~~l---P~~~i~~L~~L~~L~l~~~~---  477 (680)
                      +..+|..+   .++|++|+|++ +.+..+|.. ++++++|++|++++| .+..+   |.. +..+++|++|++++|.   
T Consensus        19 l~~ip~~~---~~~l~~L~L~~-n~l~~i~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~-~~~~~~L~~L~Ls~n~i~~   92 (306)
T 2z66_A           19 LTSVPTGI---PSSATRLELES-NKLQSLPHGVFDKLTQLTKLSLSSN-GLSFKGCCSQS-DFGTTSLKYLDLSFNGVIT   92 (306)
T ss_dssp             CSSCCSCC---CTTCCEEECCS-SCCCCCCTTTTTTCTTCSEEECCSS-CCCEEEEEEHH-HHSCSCCCEEECCSCSEEE
T ss_pred             cccCCCCC---CCCCCEEECCC-CccCccCHhHhhccccCCEEECCCC-ccCcccCcccc-cccccccCEEECCCCcccc
Confidence            34566542   36899999999 589999966 689999999999999 68766   565 7789999999999986   


Q ss_pred             chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeeccc
Q 041114          478 LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDY  557 (680)
Q Consensus       478 ~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~  557 (680)
                      .+..+..+++|+.|++..+....+.... ....+++|+.|+++++.- .......+..+++|++|+++++.......+..
T Consensus        93 l~~~~~~l~~L~~L~l~~n~l~~~~~~~-~~~~l~~L~~L~l~~n~l-~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~  170 (306)
T 2z66_A           93 MSSNFLGLEQLEHLDFQHSNLKQMSEFS-VFLSLRNLIYLDISHTHT-RVAFNGIFNGLSSLEVLKMAGNSFQENFLPDI  170 (306)
T ss_dssp             EEEEEETCTTCCEEECTTSEEESSTTTT-TTTTCTTCCEEECTTSCC-EECSTTTTTTCTTCCEEECTTCEEGGGEECSC
T ss_pred             ChhhcCCCCCCCEEECCCCcccccccch-hhhhccCCCEEECCCCcC-CccchhhcccCcCCCEEECCCCccccccchhH
Confidence            3445778999999998755443332211 223345899999998863 33333468889999999999864333222333


Q ss_pred             CCCCccCCCCCCCCCCccEEeeeCCCCCCCCC-CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCC
Q 041114          558 TSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT-FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRK  636 (680)
Q Consensus       558 ~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~  636 (680)
                      +          ..+++|++|++++|......| .+..+++|++|+++++. +..++.. .++.+++|+.|++++|+ +..
T Consensus       171 ~----------~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~-~~~~l~~L~~L~L~~N~-l~~  237 (306)
T 2z66_A          171 F----------TELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNN-FFSLDTF-PYKCLNSLQVLDYSLNH-IMT  237 (306)
T ss_dssp             C----------TTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSC-CSBCCSG-GGTTCTTCCEEECTTSC-CCB
T ss_pred             H----------hhCcCCCEEECCCCCcCCcCHHHhcCCCCCCEEECCCCc-cCccChh-hccCcccCCEeECCCCC-Ccc
Confidence            3          678999999999986433333 57889999999999954 5555332 34779999999999986 444


Q ss_pred             C
Q 041114          637 L  637 (680)
Q Consensus       637 l  637 (680)
                      .
T Consensus       238 ~  238 (306)
T 2z66_A          238 S  238 (306)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=99.57  E-value=6.5e-14  Score=157.01  Aligned_cols=243  Identities=17%  Similarity=0.136  Sum_probs=150.2

Q ss_pred             ccEEEecCCCcccccccccccceEEEEeecccccccccCCCCccc------cccccccchhhhccCCcceEEEccCCCCc
Q 041114          357 ENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNI  430 (680)
Q Consensus       357 ~~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i  430 (680)
                      ...+...+..+..+|.... ++++.|.+.+|.+..+|.  .+++|      ++.+..+|.    .+++|++|+|++ +.+
T Consensus        42 l~~L~ls~n~L~~lp~~l~-~~L~~L~L~~N~l~~lp~--~l~~L~~L~Ls~N~l~~lp~----~l~~L~~L~Ls~-N~l  113 (622)
T 3g06_A           42 NAVLNVGESGLTTLPDCLP-AHITTLVIPDNNLTSLPA--LPPELRTLEVSGNQLTSLPV----LPPGLLELSIFS-NPL  113 (622)
T ss_dssp             CCEEECCSSCCSCCCSCCC-TTCSEEEECSCCCSCCCC--CCTTCCEEEECSCCCSCCCC----CCTTCCEEEECS-CCC
T ss_pred             CcEEEecCCCcCccChhhC-CCCcEEEecCCCCCCCCC--cCCCCCEEEcCCCcCCcCCC----CCCCCCEEECcC-CcC
Confidence            3566667777777775433 789999999999988776  33444      666777776    578888888888 478


Q ss_pred             cccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhh-cCCCCCceeEEEeccchhhhhhhhchh
Q 041114          431 KELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKEL-LGLKHLEELDFTLRCVHSLQILVSSNK  509 (680)
Q Consensus       431 ~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l-~~L~~L~~L~i~~~~~~~l~~l~~~~~  509 (680)
                      ..+|.   .+.+|++|++++| .++.+|..    +++|++|++++|.. ..+ ..+.+|+.|.+..+....+   +   .
T Consensus       114 ~~l~~---~l~~L~~L~L~~N-~l~~lp~~----l~~L~~L~Ls~N~l-~~l~~~~~~L~~L~L~~N~l~~l---~---~  178 (622)
T 3g06_A          114 THLPA---LPSGLCKLWIFGN-QLTSLPVL----PPGLQELSVSDNQL-ASLPALPSELCKLWAYNNQLTSL---P---M  178 (622)
T ss_dssp             CCCCC---CCTTCCEEECCSS-CCSCCCCC----CTTCCEEECCSSCC-SCCCCCCTTCCEEECCSSCCSCC---C---C
T ss_pred             CCCCC---CCCCcCEEECCCC-CCCcCCCC----CCCCCEEECcCCcC-CCcCCccCCCCEEECCCCCCCCC---c---c
Confidence            88876   6678888888888 68888863    37888888887742 222 2345666666654433332   2   2


Q ss_pred             hhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC
Q 041114          510 LQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT  589 (680)
Q Consensus       510 l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~  589 (680)
                      ..++|+.|+++++. +..++.    .+++|+.|+++++ .+..++              ..+++|+.|++++|. ++.+|
T Consensus       179 ~~~~L~~L~Ls~N~-l~~l~~----~~~~L~~L~L~~N-~l~~l~--------------~~~~~L~~L~Ls~N~-L~~lp  237 (622)
T 3g06_A          179 LPSGLQELSVSDNQ-LASLPT----LPSELYKLWAYNN-RLTSLP--------------ALPSGLKELIVSGNR-LTSLP  237 (622)
T ss_dssp             CCTTCCEEECCSSC-CSCCCC----CCTTCCEEECCSS-CCSSCC--------------CCCTTCCEEECCSSC-CSCCC
T ss_pred             cCCCCcEEECCCCC-CCCCCC----ccchhhEEECcCC-cccccC--------------CCCCCCCEEEccCCc-cCcCC
Confidence            34577777777765 333331    2356777777654 233221              123566777776653 45555


Q ss_pred             CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCCccccCcceEEec
Q 041114          590 FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNSALEHKIAIRG  653 (680)
Q Consensus       590 ~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~~~l~~L~i~~~  653 (680)
                        ..+++|++|+++++ .+..++.     .+++|+.|++++| +|+.+|..+.. +.+|...+.
T Consensus       238 --~~l~~L~~L~Ls~N-~L~~lp~-----~~~~L~~L~Ls~N-~L~~lp~~l~~-l~~L~~L~L  291 (622)
T 3g06_A          238 --VLPSELKELMVSGN-RLTSLPM-----LPSGLLSLSVYRN-QLTRLPESLIH-LSSETTVNL  291 (622)
T ss_dssp             --CCCTTCCEEECCSS-CCSCCCC-----CCTTCCEEECCSS-CCCSCCGGGGG-SCTTCEEEC
T ss_pred             --CCCCcCcEEECCCC-CCCcCCc-----ccccCcEEeCCCC-CCCcCCHHHhh-ccccCEEEe
Confidence              45566777777664 3444433     3566666666665 46666654433 444444433

>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=99.56  E-value=3.1e-14  Score=161.69  Aligned_cols=115  Identities=20%  Similarity=0.249  Sum_probs=81.6

Q ss_pred             EEEecCCCcccccccccccceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCCCc
Q 041114          359 FLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNI  430 (680)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i  430 (680)
                      .+.+.+.++..+|... ..++++|.+++|.+..++..  ..+++|      ++.+..+|++.|.++++|++|+|++| .+
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-~l  112 (635)
T 4g8a_A           35 TYQCMELNFYKIPDNL-PFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PI  112 (635)
T ss_dssp             EEECTTSCCSSCCSSS-CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTC-CC
T ss_pred             EEECCCCCcCccCCCC-CcCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCC-cC
Confidence            3445566677776432 25788888888888887643  445555      66777887777888888888888884 77


Q ss_pred             cccch-hhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCC
Q 041114          431 KELLG-ELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGT  476 (680)
Q Consensus       431 ~~lP~-~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~  476 (680)
                      +.+|. .+++|++|++|+|++| .++.+|...+++|++|++|++++|
T Consensus       113 ~~l~~~~f~~L~~L~~L~Ls~N-~l~~l~~~~~~~L~~L~~L~Ls~N  158 (635)
T 4g8a_A          113 QSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAHN  158 (635)
T ss_dssp             CEECGGGGTTCTTCCEEECTTS-CCCCSTTCCCTTCTTCCEEECCSS
T ss_pred             CCCCHHHhcCCCCCCEEECCCC-cCCCCChhhhhcCcccCeeccccC
Confidence            77774 4677888888888887 677777655677777777777653

>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=99.56  E-value=1.5e-14  Score=143.01  Aligned_cols=206  Identities=15%  Similarity=0.149  Sum_probs=150.8

Q ss_pred             cccccccccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccch-hhhccCCCCE
Q 041114          367 LKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLG-ELKALVNLKC  445 (680)
Q Consensus       367 ~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~-~i~~L~~Lr~  445 (680)
                      +..+|.  -..+++++.+.+|.+.                .+|+..|..+++|++|++++|..+..+|. .++.+++|++
T Consensus        23 l~~ip~--~~~~l~~L~l~~n~l~----------------~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~   84 (239)
T 2xwt_C           23 IQRIPS--LPPSTQTLKLIETHLR----------------TIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTH   84 (239)
T ss_dssp             CSSCCC--CCTTCCEEEEESCCCS----------------EECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCE
T ss_pred             ccccCC--CCCcccEEEEeCCcce----------------EECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcE
Confidence            455555  3357888888888776                45665588899999999999534888885 6889999999


Q ss_pred             EeccC-CCCccccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCc---eeEEEeccchhhhhhhh-chhhhcccc-EE
Q 041114          446 VNLEW-ARDLVTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLE---ELDFTLRCVHSLQILVS-SNKLQSCTR-AL  517 (680)
Q Consensus       446 L~L~~-~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~---~L~i~~~~~~~l~~l~~-~~~l~~~L~-~L  517 (680)
                      |++++ + .++.+|...++.+++|++|++++|.  .+..+..+++|+   .|++..+  ..+..++. ....+++|+ .|
T Consensus        85 L~l~~~n-~l~~i~~~~f~~l~~L~~L~l~~n~l~~lp~~~~l~~L~~L~~L~l~~N--~~l~~i~~~~~~~l~~L~~~L  161 (239)
T 2xwt_C           85 IEIRNTR-NLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDN--PYMTSIPVNAFQGLCNETLTL  161 (239)
T ss_dssp             EEEEEET-TCCEECTTSEECCTTCCEEEEEEECCCSCCCCTTCCBCCSEEEEEEESC--TTCCEECTTTTTTTBSSEEEE
T ss_pred             EECCCCC-CeeEcCHHHhCCCCCCCEEeCCCCCCccccccccccccccccEEECCCC--cchhhcCcccccchhcceeEE
Confidence            99998 6 7999987668899999999999875  223355666666   8888754  12222222 123456899 99


Q ss_pred             EEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCC-CCccEEeeeCCCCCCCCCCcCCCCC
Q 041114          518 VLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVF-CSLHKVTITFCPKLKGLTFLVFAPN  596 (680)
Q Consensus       518 ~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l-~~L~~L~L~~c~~l~~l~~l~~l~~  596 (680)
                      +++++. +..++...+.. ++|+.|+++++..++.++...+          ..+ ++|+.|+++++. ++.+|.- .+++
T Consensus       162 ~l~~n~-l~~i~~~~~~~-~~L~~L~L~~n~~l~~i~~~~~----------~~l~~~L~~L~l~~N~-l~~l~~~-~~~~  227 (239)
T 2xwt_C          162 KLYNNG-FTSVQGYAFNG-TKLDAVYLNKNKYLTVIDKDAF----------GGVYSGPSLLDVSQTS-VTALPSK-GLEH  227 (239)
T ss_dssp             ECCSCC-CCEECTTTTTT-CEEEEEECTTCTTCCEECTTTT----------TTCSBCCSEEECTTCC-CCCCCCT-TCTT
T ss_pred             EcCCCC-CcccCHhhcCC-CCCCEEEcCCCCCcccCCHHHh----------hccccCCcEEECCCCc-cccCChh-Hhcc
Confidence            998876 55666434444 8999999998766777755554          567 899999999965 6666643 8999


Q ss_pred             CCEEeEecCcc
Q 041114          597 LKCLSLFDCTA  607 (680)
Q Consensus       597 L~~L~l~~c~~  607 (680)
                      |+.|++.++..
T Consensus       228 L~~L~l~~~~~  238 (239)
T 2xwt_C          228 LKELIARNTWT  238 (239)
T ss_dssp             CSEEECTTC--
T ss_pred             CceeeccCccC
Confidence            99999988653

>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=99.55  E-value=2.2e-14  Score=160.11  Aligned_cols=118  Identities=14%  Similarity=0.164  Sum_probs=88.6

Q ss_pred             EEEecCCCccccc--ccccccceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCC
Q 041114          359 FLVCAGRGLKEAP--EVKEWETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRET  428 (680)
Q Consensus       359 ~~~~~~~~~~~~~--~~~~~~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~  428 (680)
                      .+...+..+..++  ......++++|.+.+|.+..++..  ..+++|      ++.+..+|+..|+++++|++|+|++| 
T Consensus        30 ~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n-  108 (549)
T 2z81_A           30 SLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGN-  108 (549)
T ss_dssp             EEECCSSCCCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCCEEECTTC-
T ss_pred             EEECcCCccCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCccCccCHHHhccCCCCcEEECCCC-
Confidence            3444444444442  234567899999999998887642  444555      77788888888899999999999995 


Q ss_pred             Cccc--cchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc
Q 041114          429 NIKE--LLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       429 ~i~~--lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      .+..  .|..++++++|++|++++|..+..+|...++++++|++|++++|.
T Consensus       109 ~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~  159 (549)
T 2z81_A          109 PYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALS  159 (549)
T ss_dssp             CCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETT
T ss_pred             cccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCc
Confidence            7774  467889999999999999854788875448889999999988764

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

Probab=99.55  E-value=7.2e-14  Score=163.98  Aligned_cols=269  Identities=17%  Similarity=0.118  Sum_probs=167.8

Q ss_pred             EEEEeecccccccccC-CCCccc---cccccccchhhhccCCcceEEEccCCCCcccc-chhhhccCCCCEEeccCCCCc
Q 041114          380 RRLSLMQNQIKILSEA-PTCPHL---HYEFKMITDGFFQFMPLLKVLNMSRETNIKEL-LGELKALVNLKCVNLEWARDL  454 (680)
Q Consensus       380 r~lsl~~~~~~~l~~~-~~~~~L---~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~l-P~~i~~L~~Lr~L~L~~~~~l  454 (680)
                      +.+..+++++..+|.. .....|   ++.+..+++..|.++++|++|||++|..+..+ |..+++|++|++|+|++| .+
T Consensus         7 ~~~dcs~~~L~~vP~lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N-~l   85 (844)
T 3j0a_A            7 RIAFYRFCNLTQVPQVLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSS-KI   85 (844)
T ss_dssp             EEEEESCCCSSCCCSSCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTC-CC
T ss_pred             eEEEccCCCCCCCCCCCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCC-cC
Confidence            4566667778877762 112222   77788887666999999999999997667777 688999999999999999 78


Q ss_pred             cccchhhhcCCCCCcEeeccCCcc----hhh--hcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcc
Q 041114          455 VTIPLEVISNFSKLRVLRLFGTVL----AKE--LLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSI  528 (680)
Q Consensus       455 ~~lP~~~i~~L~~L~~L~l~~~~~----~~~--l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~  528 (680)
                      ..++++.+++|++|++|++++|..    +..  +.+|++|+.|+++.+....+. .+.....+++|+.|+++++.-....
T Consensus        86 ~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~-~~~~~~~L~~L~~L~Ls~N~i~~~~  164 (844)
T 3j0a_A           86 YFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLY-LHPSFGKLNSLKSIDFSSNQIFLVC  164 (844)
T ss_dssp             CEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCC-CCGGGGTCSSCCEEEEESSCCCCCC
T ss_pred             cccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCcccccc-cchhHhhCCCCCEEECCCCcCCeeC
Confidence            888444499999999999999863    333  788999999999866544331 1112233457888888776421111


Q ss_pred             cccccccC--CC------------------------------CCEEEEeccCCcc----------------eee------
Q 041114          529 DVIALARL--KH------------------------------LSTLHFSKCEELE----------------EWK------  554 (680)
Q Consensus       529 ~~~~l~~l--~~------------------------------L~~L~l~~~~~l~----------------~l~------  554 (680)
                      + ..+..+  ++                              |+.|+++++....                .+.      
T Consensus       165 ~-~~l~~l~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~~l~~L~l~~~~~  243 (844)
T 3j0a_A          165 E-HELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIM  243 (844)
T ss_dssp             S-GGGHHHHHCSSCCCEECCSBSCCCCCCCCCSSSCTTTTCCBSEEBCSSCCSSTTTTSGGGGTSCSCCBSEEECCSSCC
T ss_pred             H-HHcccccCCccceEECCCCccccccccchhhcCCccccCceeEEecCCCcCchhHHHHHHhhcCcccccceecccccc
Confidence            1 122211  22                              6666666541110                000      


Q ss_pred             -----------------------------cccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC-CcCCCCCCCEEeEec
Q 041114          555 -----------------------------TDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT-FLVFAPNLKCLSLFD  604 (680)
Q Consensus       555 -----------------------------~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~  604 (680)
                                                   ...-...++.+..+..+++|+.|+|++|..-...| .+..+++|++|++++
T Consensus       244 ~~~~~~~~l~~~~~~~f~~l~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~  323 (844)
T 3j0a_A          244 GAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSY  323 (844)
T ss_dssp             BCSSSCSSSTTGGGTTTTTTTTSCCCEEECTTCCCCEECSCCSSSCCCCCEEEEESCCCCEECTTTTTTCSSCCEEEEES
T ss_pred             cccccccccCCCChhhhhccccCCccEEECCCCcccccChhhhhcCCCCCEEECCCCcCCCCChHHhcCCCCCCEEECCC
Confidence                                         00000001112233556777777777765333222 366777888888877


Q ss_pred             CcchhHhhhcCCCCCCCcccccCccccccCCCCCCCCcc---ccCcceEEecc
Q 041114          605 CTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNS---ALEHKIAIRGE  654 (680)
Q Consensus       605 c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~~---~l~~L~i~~~~  654 (680)
                      +. +..++. ..++.+++|+.|+++++ ++..+|.....   .|+.|.+.++.
T Consensus       324 N~-l~~~~~-~~~~~l~~L~~L~L~~N-~i~~~~~~~~~~l~~L~~L~Ls~N~  373 (844)
T 3j0a_A          324 NL-LGELYS-SNFYGLPKVAYIDLQKN-HIAIIQDQTFKFLEKLQTLDLRDNA  373 (844)
T ss_dssp             CC-CSCCCS-CSCSSCTTCCEEECCSC-CCCCCCSSCSCSCCCCCEEEEETCC
T ss_pred             CC-CCccCH-HHhcCCCCCCEEECCCC-CCCccChhhhcCCCCCCEEECCCCC
Confidence            53 444422 24467888888888876 46776653222   35555555554

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

Probab=99.55  E-value=2.7e-14  Score=147.32  Aligned_cols=197  Identities=16%  Similarity=0.109  Sum_probs=123.6

Q ss_pred             ccceEEEEeecccccccccCCCCccccccccccchhhh-ccCCcceEEEccCCCCccccchhhhcc-----CCCCEEecc
Q 041114          376 WETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFF-QFMPLLKVLNMSRETNIKELLGELKAL-----VNLKCVNLE  449 (680)
Q Consensus       376 ~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~-~~l~~Lr~LdL~~~~~i~~lP~~i~~L-----~~Lr~L~L~  449 (680)
                      ..++++|.+.+|.+..               .+|..+| ..+++|++|+|++| .+..+|..++.+     ++|++|+++
T Consensus        94 l~~L~~L~L~~n~l~~---------------~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~l~~~~~~~L~~L~L~  157 (312)
T 1wwl_A           94 ISGLQELTLENLEVTG---------------TAPPPLLEATGPDLNILNLRNV-SWATRDAWLAELQQWLKPGLKVLSIA  157 (312)
T ss_dssp             TSCCCEEEEEEEBCBS---------------CCCCCSSSCCSCCCSEEEEESC-BCSSSSSHHHHHHTTCCTTCCEEEEE
T ss_pred             cCCccEEEccCCcccc---------------hhHHHHHHhcCCCccEEEccCC-CCcchhHHHHHHHHhhcCCCcEEEee
Confidence            4577788887777652               2444433 78899999999994 787778888887     899999999


Q ss_pred             CCCCccccchhhhcCCCCCcEeeccCCcc------hhhh--cCCCCCceeEEEeccchhhhhhh-hchhhhccccEEEEe
Q 041114          450 WARDLVTIPLEVISNFSKLRVLRLFGTVL------AKEL--LGLKHLEELDFTLRCVHSLQILV-SSNKLQSCTRALVLI  520 (680)
Q Consensus       450 ~~~~l~~lP~~~i~~L~~L~~L~l~~~~~------~~~l--~~L~~L~~L~i~~~~~~~l~~l~-~~~~l~~~L~~L~l~  520 (680)
                      +| .+..+|...++++++|++|++++|..      +..+  ..+++|+.|++..+....+..++ .....+++|+.|+++
T Consensus       158 ~N-~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls  236 (312)
T 1wwl_A          158 QA-HSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLS  236 (312)
T ss_dssp             SC-SCCCCCTTTCCCCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECT
T ss_pred             CC-CCccchHHHhccCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECC
Confidence            98 68888854588999999999998863      2233  66777777777655444333322 111233466666666


Q ss_pred             ccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEE
Q 041114          521 RFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCL  600 (680)
Q Consensus       521 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L  600 (680)
                      ++.-....+...+..+++|+.|+++++ .++.++. .            .+++|++|+++++. ++.+|.+..+++|++|
T Consensus       237 ~N~l~~~~~~~~~~~l~~L~~L~Ls~N-~l~~ip~-~------------~~~~L~~L~Ls~N~-l~~~p~~~~l~~L~~L  301 (312)
T 1wwl_A          237 HNSLRDAAGAPSCDWPSQLNSLNLSFT-GLKQVPK-G------------LPAKLSVLDLSYNR-LDRNPSPDELPQVGNL  301 (312)
T ss_dssp             TSCCCSSCCCSCCCCCTTCCEEECTTS-CCSSCCS-S------------CCSEEEEEECCSSC-CCSCCCTTTSCEEEEE
T ss_pred             CCcCCcccchhhhhhcCCCCEEECCCC-ccChhhh-h------------ccCCceEEECCCCC-CCCChhHhhCCCCCEE
Confidence            665322222234445566666666654 2332211 1            11566666666654 4444556666666666


Q ss_pred             eEec
Q 041114          601 SLFD  604 (680)
Q Consensus       601 ~l~~  604 (680)
                      ++++
T Consensus       302 ~L~~  305 (312)
T 1wwl_A          302 SLKG  305 (312)
T ss_dssp             ECTT
T ss_pred             eccC
Confidence            6665

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

Probab=99.55  E-value=1.1e-14  Score=159.60  Aligned_cols=201  Identities=15%  Similarity=0.106  Sum_probs=125.7

Q ss_pred             CcceEEEccCCCCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCCCCCceeEEEe
Q 041114          417 PLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTL  495 (680)
Q Consensus       417 ~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L~~L~~L~i~~  495 (680)
                      ++|++|+|++| .+..+| ..++.+++|++|+|++| .+..+++  ++.+++|++|++++|. +..+...++|+.|++..
T Consensus        34 ~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~--l~~l~~L~~L~Ls~N~-l~~l~~~~~L~~L~L~~  108 (487)
T 3oja_A           34 WNVKELDLSGN-PLSQISAADLAPFTKLELLNLSSN-VLYETLD--LESLSTLRTLDLNNNY-VQELLVGPSIETLHAAN  108 (487)
T ss_dssp             GGCCEEECCSS-CCCCCCGGGGTTCTTCCEEECTTS-CCEEEEE--CTTCTTCCEEECCSSE-EEEEEECTTCCEEECCS
T ss_pred             CCccEEEeeCC-cCCCCCHHHHhCCCCCCEEEeeCC-CCCCCcc--cccCCCCCEEEecCCc-CCCCCCCCCcCEEECcC
Confidence            37777777774 666654 56777777777777777 5766665  6777777777777763 34444556777777764


Q ss_pred             ccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCcc
Q 041114          496 RCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLH  575 (680)
Q Consensus       496 ~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~  575 (680)
                      +....+.   .  ..+++|+.|+++++. +...+...+..+++|+.|+++++ .+....+..+.         ..+++|+
T Consensus       109 N~l~~~~---~--~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~l~---------~~l~~L~  172 (487)
T 3oja_A          109 NNISRVS---C--SRGQGKKNIYLANNK-ITMLRDLDEGCRSRVQYLDLKLN-EIDTVNFAELA---------ASSDTLE  172 (487)
T ss_dssp             SCCCCEE---E--CCCSSCEEEECCSSC-CCSGGGBCGGGGSSEEEEECTTS-CCCEEEGGGGG---------GGTTTCC
T ss_pred             CcCCCCC---c--cccCCCCEEECCCCC-CCCCCchhhcCCCCCCEEECCCC-CCCCcChHHHh---------hhCCccc
Confidence            4333221   1  113467777777766 33333236677777788877764 44444333331         2567777


Q ss_pred             EEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCCcc
Q 041114          576 KVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNS  643 (680)
Q Consensus       576 ~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~~  643 (680)
                      .|+|++|. ++.+|....+++|++|+++++ .+..++..  ++.+++|+.|++++|. |..+|..+..
T Consensus       173 ~L~Ls~N~-l~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~--~~~l~~L~~L~Ls~N~-l~~lp~~l~~  235 (487)
T 3oja_A          173 HLNLQYNF-IYDVKGQVVFAKLKTLDLSSN-KLAFMGPE--FQSAAGVTWISLRNNK-LVLIEKALRF  235 (487)
T ss_dssp             EEECTTSC-CCEEECCCCCTTCCEEECCSS-CCCEECGG--GGGGTTCSEEECTTSC-CCEECTTCCC
T ss_pred             EEecCCCc-cccccccccCCCCCEEECCCC-CCCCCCHh--HcCCCCccEEEecCCc-Ccccchhhcc
Confidence            77777765 455555566777777777774 35555443  3567777777777753 6666665433

>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=99.53  E-value=3.8e-14  Score=148.70  Aligned_cols=214  Identities=15%  Similarity=0.110  Sum_probs=128.6

Q ss_pred             CcceEEEccCCCCccccch-hhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccC-Cc----chhhhcCCCCCce
Q 041114          417 PLLKVLNMSRETNIKELLG-ELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG-TV----LAKELLGLKHLEE  490 (680)
Q Consensus       417 ~~Lr~LdL~~~~~i~~lP~-~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~-~~----~~~~l~~L~~L~~  490 (680)
                      ++++.|+|++ +.|+.+|. .+.+|++|++|+|++|..++.+|.+++.+|++|+++...+ +.    .+..+..|++|+.
T Consensus        30 ~~l~~L~Ls~-N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~~l~~~~f~~l~~L~~  108 (350)
T 4ay9_X           30 RNAIELRFVL-TKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQY  108 (350)
T ss_dssp             TTCSEEEEES-CCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTCCEECTTSBCCCTTCCE
T ss_pred             CCCCEEEccC-CcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCcccccCchhhhhcccccc
Confidence            4567777777 47777774 3677777777777777323556665566777666544333 22    1234566777777


Q ss_pred             eEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCC-CCCEEEEeccCCcceeecccCCCCccCCCCCC
Q 041114          491 LDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLK-HLSTLHFSKCEELEEWKTDYTSGTVLKSPQPF  569 (680)
Q Consensus       491 L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~-~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~  569 (680)
                      |++..+....+......  ...++..|++.++..+..++...+..+. .|+.|++++ +.++.++....           
T Consensus       109 L~l~~n~l~~~~~~~~~--~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~-N~i~~i~~~~f-----------  174 (350)
T 4ay9_X          109 LLISNTGIKHLPDVHKI--HSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNK-NGIQEIHNSAF-----------  174 (350)
T ss_dssp             EEEEEECCSSCCCCTTC--CBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCS-SCCCEECTTSS-----------
T ss_pred             ccccccccccCCchhhc--ccchhhhhhhccccccccccccchhhcchhhhhhcccc-ccccCCChhhc-----------
Confidence            77765443332211111  1224566777666556665544455543 577788875 45565544332           


Q ss_pred             CCCCccEEeeeCCCCCCCCCC--cCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCCccccCc
Q 041114          570 VFCSLHKVTITFCPKLKGLTF--LVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNSALEH  647 (680)
Q Consensus       570 ~l~~L~~L~L~~c~~l~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~~~l~~  647 (680)
                      ...+|++|.+.++..++.+|.  +..+++|++|++++ +.++.+|.    +.+.+|+.|.+.+|.+|+.+|. ... +.+
T Consensus       175 ~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~-N~l~~lp~----~~~~~L~~L~~l~~~~l~~lP~-l~~-l~~  247 (350)
T 4ay9_X          175 NGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISR-TRIHSLPS----YGLENLKKLRARSTYNLKKLPT-LEK-LVA  247 (350)
T ss_dssp             TTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTT-SCCCCCCS----SSCTTCCEEECTTCTTCCCCCC-TTT-CCS
T ss_pred             cccchhHHhhccCCcccCCCHHHhccCcccchhhcCC-CCcCccCh----hhhccchHhhhccCCCcCcCCC-chh-CcC
Confidence            345788888887777777774  57788888888887 45776654    3366666676777777888874 222 455


Q ss_pred             ceEEe
Q 041114          648 KIAIR  652 (680)
Q Consensus       648 L~i~~  652 (680)
                      |....
T Consensus       248 L~~l~  252 (350)
T 4ay9_X          248 LMEAS  252 (350)
T ss_dssp             CCEEE
T ss_pred             hhhCc
Confidence            55544

>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=99.53  E-value=9.2e-14  Score=159.37  Aligned_cols=213  Identities=12%  Similarity=0.084  Sum_probs=135.3

Q ss_pred             cceEEEccCCCCcccc-chhhhccCCCCEEeccCCCCcc-ccchhhhcCCCCCcEeeccCCc----chhhhcCCCCCcee
Q 041114          418 LLKVLNMSRETNIKEL-LGELKALVNLKCVNLEWARDLV-TIPLEVISNFSKLRVLRLFGTV----LAKELLGLKHLEEL  491 (680)
Q Consensus       418 ~Lr~LdL~~~~~i~~l-P~~i~~L~~Lr~L~L~~~~~l~-~lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~~L~~L  491 (680)
                      .|++|++++| .+..+ |..++.+++|++|++++| .+. .+|...++.+++|++|++++|.    ....+..+++|+.|
T Consensus       382 ~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~L~~L  459 (680)
T 1ziw_A          382 PLHILNLTKN-KISKIESDAFSWLGHLEVLDLGLN-EIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRL  459 (680)
T ss_dssp             CCCEEECTTS-CCCEECTTTTTTCTTCCEEECCSS-CCEEECCSGGGTTCTTCCEEECCSCSEEECCTTTTTTCTTCCEE
T ss_pred             cCceEECCCC-CCCeEChhhhhCCCCCCEEeCCCC-cCccccCcccccCcccccEEecCCCCcceeChhhhhcCcccccc
Confidence            4555555553 44433 355666677777777766 443 3553336667777777776664    22345556666666


Q ss_pred             EEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCC
Q 041114          492 DFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVF  571 (680)
Q Consensus       492 ~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l  571 (680)
                      ++..+....+..++.....+++|+.|+++++. +...+...+..+++|+.|+++++ .+..++......  ..+..+..+
T Consensus       460 ~l~~n~l~~~~~~p~~~~~l~~L~~L~Ls~N~-l~~i~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~--~~~~~~~~l  535 (680)
T 1ziw_A          460 MLRRVALKNVDSSPSPFQPLRNLTILDLSNNN-IANINDDMLEGLEKLEILDLQHN-NLARLWKHANPG--GPIYFLKGL  535 (680)
T ss_dssp             ECTTSCCBCTTCSSCTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCGGGGSTTSTT--SCCCTTTTC
T ss_pred             hhccccccccccCCcccccCCCCCEEECCCCC-CCcCChhhhccccccCEEeCCCC-CccccchhhccC--CcchhhcCC
Confidence            66544433333344444455688888888876 44555446788888888888875 344332221110  011123678


Q ss_pred             CCccEEeeeCCCCCCCCCC--cCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCC
Q 041114          572 CSLHKVTITFCPKLKGLTF--LVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLD  640 (680)
Q Consensus       572 ~~L~~L~L~~c~~l~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~  640 (680)
                      ++|+.|+|+++. +..+|.  +..+++|+.|++++ +.++.++.. .++.+++|+.|+++++ +|+.+|..
T Consensus       536 ~~L~~L~L~~N~-l~~i~~~~~~~l~~L~~L~Ls~-N~l~~l~~~-~~~~l~~L~~L~L~~N-~l~~~~~~  602 (680)
T 1ziw_A          536 SHLHILNLESNG-FDEIPVEVFKDLFELKIIDLGL-NNLNTLPAS-VFNNQVSLKSLNLQKN-LITSVEKK  602 (680)
T ss_dssp             TTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCS-SCCCCCCTT-TTTTCTTCCEEECTTS-CCCBCCHH
T ss_pred             CCCCEEECCCCC-CCCCCHHHcccccCcceeECCC-CCCCcCCHh-HhCCCCCCCEEECCCC-cCCccChh
Confidence            999999999975 556663  78899999999987 567777543 4577899999999997 58887754

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.52  E-value=3.5e-14  Score=121.64  Aligned_cols=81  Identities=12%  Similarity=0.223  Sum_probs=74.6

Q ss_pred             ecchhhhhhhhhhhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cccchHHHHHHHHHHHHHHHHHH
Q 041114            8 TCDDAFFNRCLDCFLGKAACTRNLQDNVAALAIELAKLIAAKNNLITRVLDAERQ--QLRRLDQVQVWLSRVEAVKTETD   85 (680)
Q Consensus         8 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~L~~~l~~l~a~~~~~~~~l~~ae~~--~~~~~~~v~~Wl~~v~~~~~d~e   85 (680)
                      +++.+ ++||.+.+.+|+.++.+++++++.|+++|++|+++       +.||+++  +.. ++.|+.|+++|++++||+|
T Consensus         2 ~v~~l-l~KL~~ll~~E~~l~~gv~~~i~~Lk~eL~~m~a~-------L~da~~~~~~~~-d~~vk~W~~~vrdlaYD~E   72 (115)
T 3qfl_A            2 AISNL-IPKLGELLTEEFKLHKGVKKNIEDLGKELESMNAA-------LIKIGEVPREQL-DSQDKLWADEVRELSYVIE   72 (115)
T ss_dssp             TTCSH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHTTSCGGGC-CHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHH-HHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHH-------HHHHHHhccccC-CHHHHHHHHHHHHHHHHHH
Confidence            45666 99999999999999999999999999999999999       9999988  444 8999999999999999999


Q ss_pred             HHHHHhHHHhcc
Q 041114           86 ELIRRSSKEIDK   97 (680)
Q Consensus        86 d~ld~~~~~~~~   97 (680)
                      |++|+|.++...
T Consensus        73 D~iD~f~~~~~~   84 (115)
T 3qfl_A           73 DVVDKFLVQVDG   84 (115)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcc
Confidence            999999998863

>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=99.52  E-value=5.4e-14  Score=143.32  Aligned_cols=68  Identities=16%  Similarity=0.206  Sum_probs=38.3

Q ss_pred             ccccccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc
Q 041114          403 YEFKMITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       403 ~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      +.+..+|.++   .++|++|+|++| .+..++ ..+..+++|++|+|++| .++.+|.  .+.+++|++|+++++.
T Consensus        20 ~~l~~ip~~~---~~~l~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~--~~~l~~L~~L~Ls~N~   88 (290)
T 1p9a_G           20 RNLTALPPDL---PKDTTILHLSEN-LLYTFSLATLMPYTRLTQLNLDRA-ELTKLQV--DGTLPVLGTLDLSHNQ   88 (290)
T ss_dssp             SCCSSCCSCC---CTTCCEEECTTS-CCSEEEGGGGTTCTTCCEEECTTS-CCCEEEC--CSCCTTCCEEECCSSC
T ss_pred             CCCCcCCCCC---CCCCCEEEcCCC-cCCccCHHHhhcCCCCCEEECCCC-ccCcccC--CCCCCcCCEEECCCCc
Confidence            3444555542   245666666663 555443 45666666666666666 5666655  3566666666666553

>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=99.52  E-value=1.6e-13  Score=138.71  Aligned_cols=213  Identities=21%  Similarity=0.188  Sum_probs=136.5

Q ss_pred             EEEecCCCcccccccccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccch-hh
Q 041114          359 FLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLG-EL  437 (680)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~-~i  437 (680)
                      .+...+..+..+|... ..++++|.+.+|.+.                .++...|.++++|++|+|++| .+..+|. .+
T Consensus        11 ~~~c~~~~l~~ip~~l-~~~l~~L~ls~n~l~----------------~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~   72 (276)
T 2z62_A           11 TYQCMELNFYKIPDNL-PFSTKNLDLSFNPLR----------------HLGSYSFFSFPELQVLDLSRC-EIQTIEDGAY   72 (276)
T ss_dssp             EEECTTSCCSSCCSSS-CTTCCEEECTTCCCC----------------EECTTTTTTCTTCSEEECTTC-CCCEECTTTT
T ss_pred             eEEecCCCccccCCCC-CCCccEEECCCCccc----------------ccCHhHhccccCCcEEECCCC-cCCccCHHHc
Confidence            3444455555565422 256888888877765                344444788899999999984 7877774 68


Q ss_pred             hccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcc----hhhhcCCCCCceeEEEeccchhhhhhhhchhhhcc
Q 041114          438 KALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVL----AKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSC  513 (680)
Q Consensus       438 ~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~----~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~  513 (680)
                      +.+++|++|++++| .+..+|.+.++++++|++|+++++..    ...+..+++|+.|++..+....+. ++.....+++
T Consensus        73 ~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~-l~~~~~~l~~  150 (276)
T 2z62_A           73 QSLSHLSTLILTGN-PIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFK-LPEYFSNLTN  150 (276)
T ss_dssp             TTCTTCCEEECTTC-CCCEECTTTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCC-CCGGGGGCTT
T ss_pred             cCCcCCCEEECCCC-ccCccChhhhcCCccccEEECCCCCccccCchhcccCCCCCEEECcCCccceec-CchhhccCCC
Confidence            88999999999998 68888755588899999999988752    113667777777777644333211 2222333457


Q ss_pred             ccEEEEeccCCCCcccccccccCCCCC----EEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC
Q 041114          514 TRALVLIRFKDSKSIDVIALARLKHLS----TLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT  589 (680)
Q Consensus       514 L~~L~l~~~~~~~~~~~~~l~~l~~L~----~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~  589 (680)
                      |+.|+++++. +...+...+..+++|+    .|+++++ .+..++....           ...+|+.|++++|. ++.+|
T Consensus       151 L~~L~Ls~N~-l~~~~~~~~~~l~~L~~l~l~L~ls~n-~l~~~~~~~~-----------~~~~L~~L~L~~n~-l~~~~  216 (276)
T 2z62_A          151 LEHLDLSSNK-IQSIYCTDLRVLHQMPLLNLSLDLSLN-PMNFIQPGAF-----------KEIRLKELALDTNQ-LKSVP  216 (276)
T ss_dssp             CCEEECCSSC-CCEECGGGGHHHHTCTTCCEEEECCSS-CCCEECTTSS-----------CSCCEEEEECCSSC-CSCCC
T ss_pred             CCEEECCCCC-CCcCCHHHhhhhhhccccceeeecCCC-cccccCcccc-----------CCCcccEEECCCCc-eeecC
Confidence            7777777765 3433333455555555    6777653 4444433322           23468888888765 44544


Q ss_pred             C--cCCCCCCCEEeEecC
Q 041114          590 F--LVFAPNLKCLSLFDC  605 (680)
Q Consensus       590 ~--l~~l~~L~~L~l~~c  605 (680)
                      .  +..+++|++|+++++
T Consensus       217 ~~~~~~l~~L~~L~l~~N  234 (276)
T 2z62_A          217 DGIFDRLTSLQKIWLHTN  234 (276)
T ss_dssp             TTTTTTCCSCCEEECCSS
T ss_pred             HhHhcccccccEEEccCC
Confidence            3  467778888887754

>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=99.51  E-value=4.5e-14  Score=148.15  Aligned_cols=233  Identities=16%  Similarity=0.147  Sum_probs=117.0

Q ss_pred             cEEEecCCCcccccccccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccch-h
Q 041114          358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLG-E  436 (680)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~-~  436 (680)
                      ..+...+.++.++|... ..++++|.+++|.+..                +|++.|.++++|++|+|++|.-.+.+|. .
T Consensus        12 ~~v~C~~~~Lt~iP~~l-~~~l~~L~Ls~N~i~~----------------i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~   74 (350)
T 4ay9_X           12 RVFLCQESKVTEIPSDL-PRNAIELRFVLTKLRV----------------IQKGAFSGFGDLEKIEISQNDVLEVIEADV   74 (350)
T ss_dssp             TEEEEESTTCCSCCTTC-CTTCSEEEEESCCCSE----------------ECTTSSTTCTTCCEEEEECCTTCCEECTTS
T ss_pred             CEEEecCCCCCccCcCc-CCCCCEEEccCCcCCC----------------cCHHHHcCCCCCCEEECcCCCCCCccChhH
Confidence            34555666677777532 3578888888887764                4555566777777777777422344553 3


Q ss_pred             hhccCCCCEE-eccCCCCccccchhhhcCCCCCcEeeccCCcc--hhhh--cCCCCCceeEEEeccchhhhhhhh--chh
Q 041114          437 LKALVNLKCV-NLEWARDLVTIPLEVISNFSKLRVLRLFGTVL--AKEL--LGLKHLEELDFTLRCVHSLQILVS--SNK  509 (680)
Q Consensus       437 i~~L~~Lr~L-~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~--~~~l--~~L~~L~~L~i~~~~~~~l~~l~~--~~~  509 (680)
                      +.+|++|+.+ .+.++ ++..+|++.+..|++|++|+++++..  +...  ....++..+.+.  +...+..++.  +..
T Consensus        75 f~~L~~l~~~l~~~~N-~l~~l~~~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~--~~~~i~~l~~~~f~~  151 (350)
T 4ay9_X           75 FSNLPKLHEIRIEKAN-NLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQ--DNINIHTIERNSFVG  151 (350)
T ss_dssp             BCSCTTCCEEEEEEET-TCCEECTTSBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEE--SCTTCCEECTTSSTT
T ss_pred             hhcchhhhhhhcccCC-cccccCchhhhhccccccccccccccccCCchhhcccchhhhhhhc--cccccccccccchhh
Confidence            5666666543 33344 67777655566777777777766531  1111  112223333332  2222222221  112


Q ss_pred             hhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC
Q 041114          510 LQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT  589 (680)
Q Consensus       510 l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~  589 (680)
                      ....++.|+++++. +..++. ......+|+.|.+.+++.++.++.+.+          ..+++|+.|+|+++. ++.+|
T Consensus       152 ~~~~l~~L~L~~N~-i~~i~~-~~f~~~~L~~l~l~~~n~l~~i~~~~f----------~~l~~L~~LdLs~N~-l~~lp  218 (350)
T 4ay9_X          152 LSFESVILWLNKNG-IQEIHN-SAFNGTQLDELNLSDNNNLEELPNDVF----------HGASGPVILDISRTR-IHSLP  218 (350)
T ss_dssp             SBSSCEEEECCSSC-CCEECT-TSSTTEEEEEEECTTCTTCCCCCTTTT----------TTEECCSEEECTTSC-CCCCC
T ss_pred             cchhhhhhcccccc-ccCCCh-hhccccchhHHhhccCCcccCCCHHHh----------ccCcccchhhcCCCC-cCccC
Confidence            22345555555543 333332 222334555555555555555443333          344555555555542 44444


Q ss_pred             CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccC
Q 041114          590 FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNT  627 (680)
Q Consensus       590 ~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~  627 (680)
                      . ..+.+|+.|.+.++..++.+|.   ...+++|+.++
T Consensus       219 ~-~~~~~L~~L~~l~~~~l~~lP~---l~~l~~L~~l~  252 (350)
T 4ay9_X          219 S-YGLENLKKLRARSTYNLKKLPT---LEKLVALMEAS  252 (350)
T ss_dssp             S-SSCTTCCEEECTTCTTCCCCCC---TTTCCSCCEEE
T ss_pred             h-hhhccchHhhhccCCCcCcCCC---chhCcChhhCc
Confidence            2 3345555555555555555542   13344444443

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

Probab=99.51  E-value=7.3e-15  Score=151.57  Aligned_cols=198  Identities=16%  Similarity=0.076  Sum_probs=117.7

Q ss_pred             cCCcceEEEccCCCCcc-ccchhh--hccCCCCEEeccCCCCccccchhhhcCC-----CCCcEeeccCCc----chhhh
Q 041114          415 FMPLLKVLNMSRETNIK-ELLGEL--KALVNLKCVNLEWARDLVTIPLEVISNF-----SKLRVLRLFGTV----LAKEL  482 (680)
Q Consensus       415 ~l~~Lr~LdL~~~~~i~-~lP~~i--~~L~~Lr~L~L~~~~~l~~lP~~~i~~L-----~~L~~L~l~~~~----~~~~l  482 (680)
                      .+++|++|+|++| .+. .+|..+  +.+++|++|++++| .+..+|.. ++.+     ++|++|++++|.    .+..+
T Consensus        93 ~l~~L~~L~L~~n-~l~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~-~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~  169 (312)
T 1wwl_A           93 GISGLQELTLENL-EVTGTAPPPLLEATGPDLNILNLRNV-SWATRDAW-LAELQQWLKPGLKVLSIAQAHSLNFSCEQV  169 (312)
T ss_dssp             TTSCCCEEEEEEE-BCBSCCCCCSSSCCSCCCSEEEEESC-BCSSSSSH-HHHHHTTCCTTCCEEEEESCSCCCCCTTTC
T ss_pred             CcCCccEEEccCC-cccchhHHHHHHhcCCCccEEEccCC-CCcchhHH-HHHHHHhhcCCCcEEEeeCCCCccchHHHh
Confidence            5788888888884 565 677765  78888888888888 67777764 6666     788888888765    22456


Q ss_pred             cCCCCCceeEEEeccchhhhhhhhch--hhhccccEEEEeccCCCCcc---cccccccCCCCCEEEEeccCCcceeeccc
Q 041114          483 LGLKHLEELDFTLRCVHSLQILVSSN--KLQSCTRALVLIRFKDSKSI---DVIALARLKHLSTLHFSKCEELEEWKTDY  557 (680)
Q Consensus       483 ~~L~~L~~L~i~~~~~~~l~~l~~~~--~l~~~L~~L~l~~~~~~~~~---~~~~l~~l~~L~~L~l~~~~~l~~l~~~~  557 (680)
                      ..+++|+.|+++.+.......++...  ..+++|+.|+++++. +...   +...+..+++|+.|+++++. +....+. 
T Consensus       170 ~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~-  246 (312)
T 1wwl_A          170 RVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAG-METPSGVCSALAAARVQLQGLDLSHNS-LRDAAGA-  246 (312)
T ss_dssp             CCCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSC-CCCHHHHHHHHHHTTCCCSEEECTTSC-CCSSCCC-
T ss_pred             ccCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCc-CcchHHHHHHHHhcCCCCCEEECCCCc-CCcccch-
Confidence            67777777777754432211111111  334577777777765 3321   11133456777777777643 3322110 


Q ss_pred             CCCCccCCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccc
Q 041114          558 TSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCA  632 (680)
Q Consensus       558 ~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~  632 (680)
                              +....+++|++|++++|. ++.+|.-.. ++|++|+++++ .++.++.   ++.+++|+.|++++.+
T Consensus       247 --------~~~~~l~~L~~L~Ls~N~-l~~ip~~~~-~~L~~L~Ls~N-~l~~~p~---~~~l~~L~~L~L~~N~  307 (312)
T 1wwl_A          247 --------PSCDWPSQLNSLNLSFTG-LKQVPKGLP-AKLSVLDLSYN-RLDRNPS---PDELPQVGNLSLKGNP  307 (312)
T ss_dssp             --------SCCCCCTTCCEEECTTSC-CSSCCSSCC-SEEEEEECCSS-CCCSCCC---TTTSCEEEEEECTTCT
T ss_pred             --------hhhhhcCCCCEEECCCCc-cChhhhhcc-CCceEEECCCC-CCCCChh---HhhCCCCCEEeccCCC
Confidence                    111345677777777765 344443111 67777777763 4555532   3566777777666643

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

Probab=99.51  E-value=1.7e-13  Score=138.08  Aligned_cols=163  Identities=19%  Similarity=0.177  Sum_probs=100.7

Q ss_pred             ccchhhhccCCcceEEEccCCCCccccchh-hhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCC
Q 041114          407 MITDGFFQFMPLLKVLNMSRETNIKELLGE-LKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGL  485 (680)
Q Consensus       407 ~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~-i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L  485 (680)
                      .+|+..|.++++|++|+|++ +.+..+|.. +..+++|++|++++| .+..+|.+.+..+++|++|+++++.        
T Consensus        51 ~~~~~~~~~l~~L~~L~l~~-n~l~~i~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~--------  120 (270)
T 2o6q_A           51 SLPSKAFHRLTKLRLLYLND-NKLQTLPAGIFKELKNLETLWVTDN-KLQALPIGVFDQLVNLAELRLDRNQ--------  120 (270)
T ss_dssp             CCCTTSSSSCTTCCEEECCS-SCCSCCCTTTTSSCTTCCEEECCSS-CCCCCCTTTTTTCSSCCEEECCSSC--------
T ss_pred             eeCHHHhcCCCCCCEEECCC-CccCeeChhhhcCCCCCCEEECCCC-cCCcCCHhHcccccCCCEEECCCCc--------
Confidence            34443455666666666666 355566544 355666666666666 4666665445566666666666543        


Q ss_pred             CCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCC
Q 041114          486 KHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKS  565 (680)
Q Consensus       486 ~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~  565 (680)
                                  ...+.  +.....+++|+.|+++++. +...+...+..+++|+.|+++++ .+..++...+       
T Consensus       121 ------------l~~~~--~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~-------  177 (270)
T 2o6q_A          121 ------------LKSLP--PRVFDSLTKLTYLSLGYNE-LQSLPKGVFDKLTSLKELRLYNN-QLKRVPEGAF-------  177 (270)
T ss_dssp             ------------CCCCC--TTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCSCCCTTTT-------
T ss_pred             ------------cCeeC--HHHhCcCcCCCEEECCCCc-CCccCHhHccCCcccceeEecCC-cCcEeChhHh-------
Confidence                        11111  0111223477777877765 45555445788899999999875 4454443333       


Q ss_pred             CCCCCCCCccEEeeeCCCCCCCCCC--cCCCCCCCEEeEecCc
Q 041114          566 PQPFVFCSLHKVTITFCPKLKGLTF--LVFAPNLKCLSLFDCT  606 (680)
Q Consensus       566 ~~~~~l~~L~~L~L~~c~~l~~l~~--l~~l~~L~~L~l~~c~  606 (680)
                         ..+++|++|+|++|. ++.+|.  +..+++|+.|++++++
T Consensus       178 ---~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~N~  216 (270)
T 2o6q_A          178 ---DKLTELKTLKLDNNQ-LKRVPEGAFDSLEKLKMLQLQENP  216 (270)
T ss_dssp             ---TTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             ---ccCCCcCEEECCCCc-CCcCCHHHhccccCCCEEEecCCC
Confidence               567899999999975 555553  6788999999998754

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

Probab=99.51  E-value=6.6e-14  Score=141.32  Aligned_cols=200  Identities=18%  Similarity=0.184  Sum_probs=133.6

Q ss_pred             ccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCC
Q 041114          374 KEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARD  453 (680)
Q Consensus       374 ~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~  453 (680)
                      ....+++.+.+.++.+..+                +.  +..+++|++|++++| .+..+| .++.+++|++|++++| .
T Consensus        38 ~~l~~L~~L~l~~~~i~~~----------------~~--l~~l~~L~~L~l~~n-~l~~~~-~l~~l~~L~~L~L~~n-~   96 (272)
T 3rfs_A           38 NELNSIDQIIANNSDIKSV----------------QG--IQYLPNVRYLALGGN-KLHDIS-ALKELTNLTYLILTGN-Q   96 (272)
T ss_dssp             HHHTTCCEEECTTSCCCCC----------------TT--GGGCTTCCEEECTTS-CCCCCG-GGTTCTTCCEEECTTS-C
T ss_pred             ccccceeeeeeCCCCcccc----------------cc--cccCCCCcEEECCCC-CCCCch-hhcCCCCCCEEECCCC-c
Confidence            3446788888887766533                22  677888999999984 777765 7888999999999998 7


Q ss_pred             ccccchhhhcCCCCCcEeeccCCcch----hhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCccc
Q 041114          454 LVTIPLEVISNFSKLRVLRLFGTVLA----KELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSID  529 (680)
Q Consensus       454 l~~lP~~~i~~L~~L~~L~l~~~~~~----~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~  529 (680)
                      ++.+|...++++++|++|++++|..-    ..+..+                          ++|+.|+++++. +...+
T Consensus        97 l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l--------------------------~~L~~L~L~~n~-l~~~~  149 (272)
T 3rfs_A           97 LQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKL--------------------------TNLTYLNLAHNQ-LQSLP  149 (272)
T ss_dssp             CCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTC--------------------------TTCCEEECCSSC-CCCCC
T ss_pred             cCccChhHhcCCcCCCEEECCCCcCCccCHHHhccC--------------------------CCCCEEECCCCc-cCccC
Confidence            88888765688899999999887411    012222                          356666666664 44444


Q ss_pred             ccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCCC--cCCCCCCCEEeEecCcc
Q 041114          530 VIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTF--LVFAPNLKCLSLFDCTA  607 (680)
Q Consensus       530 ~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~--l~~l~~L~~L~l~~c~~  607 (680)
                      ...+..+++|+.|+++++ .+..++...+          ..+++|+.|++++|. +..++.  +..+++|++|++++++.
T Consensus       150 ~~~~~~l~~L~~L~l~~n-~l~~~~~~~~----------~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~N~~  217 (272)
T 3rfs_A          150 KGVFDKLTNLTELDLSYN-QLQSLPEGVF----------DKLTQLKDLRLYQNQ-LKSVPDGVFDRLTSLQYIWLHDNPW  217 (272)
T ss_dssp             TTTTTTCTTCCEEECCSS-CCCCCCTTTT----------TTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSSCB
T ss_pred             HHHhccCccCCEEECCCC-CcCccCHHHh----------cCCccCCEEECCCCc-CCccCHHHHhCCcCCCEEEccCCCc
Confidence            335677888888888875 3444433322          567888888888876 444443  57788888888887642


Q ss_pred             hhHhhhcCCCCCCCcccccCccccccCCCCCCCCc
Q 041114          608 MEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSN  642 (680)
Q Consensus       608 l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~  642 (680)
                               .+.+|+|++|.+..+.---.+|....
T Consensus       218 ---------~~~~~~l~~l~~~~n~~~g~ip~~~~  243 (272)
T 3rfs_A          218 ---------DCTCPGIRYLSEWINKHSGVVRNSAG  243 (272)
T ss_dssp             ---------CCCTTTTHHHHHHHHHTGGGBBCTTS
T ss_pred             ---------cccCcHHHHHHHHHHhCCCcccCccc
Confidence                     14567777777665543345555443

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

Probab=99.51  E-value=5.3e-14  Score=154.21  Aligned_cols=77  Identities=19%  Similarity=0.261  Sum_probs=42.5

Q ss_pred             cceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccc
Q 041114          377 ETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVT  456 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~  456 (680)
                      +++++|.+.+|.+..+                ++..|..+++|++|+|++| .+...|. ++.+++|++|+|++| .++.
T Consensus        34 ~~L~~L~Ls~n~l~~~----------------~~~~~~~l~~L~~L~Ls~N-~l~~~~~-l~~l~~L~~L~Ls~N-~l~~   94 (487)
T 3oja_A           34 WNVKELDLSGNPLSQI----------------SAADLAPFTKLELLNLSSN-VLYETLD-LESLSTLRTLDLNNN-YVQE   94 (487)
T ss_dssp             GGCCEEECCSSCCCCC----------------CGGGGTTCTTCCEEECTTS-CCEEEEE-CTTCTTCCEEECCSS-EEEE
T ss_pred             CCccEEEeeCCcCCCC----------------CHHHHhCCCCCCEEEeeCC-CCCCCcc-cccCCCCCEEEecCC-cCCC
Confidence            4788898888887654                3333555555555555553 4443333 555555555555555 4554


Q ss_pred             cchhhhcCCCCCcEeeccCCc
Q 041114          457 IPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       457 lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      +|..     ++|++|++++|.
T Consensus        95 l~~~-----~~L~~L~L~~N~  110 (487)
T 3oja_A           95 LLVG-----PSIETLHAANNN  110 (487)
T ss_dssp             EEEC-----TTCCEEECCSSC
T ss_pred             CCCC-----CCcCEEECcCCc
Confidence            4431     445555555443

>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=99.50  E-value=6.8e-14  Score=141.55  Aligned_cols=206  Identities=17%  Similarity=0.145  Sum_probs=146.9

Q ss_pred             ccccchhhhccCCcceEEEccCCCCccccch-hhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc----ch
Q 041114          405 FKMITDGFFQFMPLLKVLNMSRETNIKELLG-ELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV----LA  479 (680)
Q Consensus       405 l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~-~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~----~~  479 (680)
                      +..+|..+   .++|++|++++ +.+..+|. .++++++|++|++++| .+..+|...++++++|++|++++|.    .+
T Consensus        19 l~~ip~~l---~~~l~~L~ls~-n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~   93 (276)
T 2z62_A           19 FYKIPDNL---PFSTKNLDLSF-NPLRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLILTGNPIQSLAL   93 (276)
T ss_dssp             CSSCCSSS---CTTCCEEECTT-CCCCEECTTTTTTCTTCSEEECTTC-CCCEECTTTTTTCTTCCEEECTTCCCCEECT
T ss_pred             ccccCCCC---CCCccEEECCC-CcccccCHhHhccccCCcEEECCCC-cCCccCHHHccCCcCCCEEECCCCccCccCh
Confidence            44566652   25799999999 58988885 7999999999999999 7999987668999999999999986    23


Q ss_pred             hhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCc--ccccccccCCCCCEEEEeccCCcceeeccc
Q 041114          480 KELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKS--IDVIALARLKHLSTLHFSKCEELEEWKTDY  557 (680)
Q Consensus       480 ~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~--~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~  557 (680)
                      ..+.++++|+.|++..+....+...  ....+++|+.|+++++. +..  ++ ..+..+++|+.|+++++ .+..++...
T Consensus        94 ~~~~~l~~L~~L~l~~n~l~~~~~~--~~~~l~~L~~L~l~~n~-l~~~~l~-~~~~~l~~L~~L~Ls~N-~l~~~~~~~  168 (276)
T 2z62_A           94 GAFSGLSSLQKLVAVETNLASLENF--PIGHLKTLKELNVAHNL-IQSFKLP-EYFSNLTNLEHLDLSSN-KIQSIYCTD  168 (276)
T ss_dssp             TTTTTCTTCCEEECTTSCCCCSTTC--CCTTCTTCCEEECCSSC-CCCCCCC-GGGGGCTTCCEEECCSS-CCCEECGGG
T ss_pred             hhhcCCccccEEECCCCCccccCch--hcccCCCCCEEECcCCc-cceecCc-hhhccCCCCCEEECCCC-CCCcCCHHH
Confidence            5678889999998875544333221  12334589999998876 333  33 37888899999999875 455554433


Q ss_pred             CCCCccCCCCCCCCCCcc----EEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccc
Q 041114          558 TSGTVLKSPQPFVFCSLH----KVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCA  632 (680)
Q Consensus       558 ~~~~~l~~~~~~~l~~L~----~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~  632 (680)
                      +          ..+++|+    +|+++++..-...+......+|++|+++++. +..++. ..++.+++|+.|++++.|
T Consensus       169 ~----------~~l~~L~~l~l~L~ls~n~l~~~~~~~~~~~~L~~L~L~~n~-l~~~~~-~~~~~l~~L~~L~l~~N~  235 (276)
T 2z62_A          169 L----------RVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQ-LKSVPD-GIFDRLTSLQKIWLHTNP  235 (276)
T ss_dssp             G----------HHHHTCTTCCEEEECCSSCCCEECTTSSCSCCEEEEECCSSC-CSCCCT-TTTTTCCSCCEEECCSSC
T ss_pred             h----------hhhhhccccceeeecCCCcccccCccccCCCcccEEECCCCc-eeecCH-hHhcccccccEEEccCCc
Confidence            3          3344555    7888887643333444555689999999854 666644 344678888888877543

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

Probab=99.50  E-value=2.1e-13  Score=137.51  Aligned_cols=177  Identities=19%  Similarity=0.181  Sum_probs=132.9

Q ss_pred             CcceEEEccCCCCccccch-hhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCCCCCceeEEEe
Q 041114          417 PLLKVLNMSRETNIKELLG-ELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTL  495 (680)
Q Consensus       417 ~~Lr~LdL~~~~~i~~lP~-~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L~~L~~L~i~~  495 (680)
                      ++|+.|+|++ +.+..+|. .++.+++|++|++++| .+..+|.+.+..+++|++|+++++..-       .+   .   
T Consensus        37 ~~l~~L~l~~-n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~i~~~~~~~l~~L~~L~l~~n~l~-------~~---~---  101 (270)
T 2o6q_A           37 ADTKKLDLQS-NKLSSLPSKAFHRLTKLRLLYLNDN-KLQTLPAGIFKELKNLETLWVTDNKLQ-------AL---P---  101 (270)
T ss_dssp             TTCSEEECCS-SCCSCCCTTSSSSCTTCCEEECCSS-CCSCCCTTTTSSCTTCCEEECCSSCCC-------CC---C---
T ss_pred             CCCCEEECcC-CCCCeeCHHHhcCCCCCCEEECCCC-ccCeeChhhhcCCCCCCEEECCCCcCC-------cC---C---
Confidence            5789999999 48888884 6899999999999999 799999875688999999999887411       00   0   


Q ss_pred             ccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCcc
Q 041114          496 RCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLH  575 (680)
Q Consensus       496 ~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~  575 (680)
                               +.....+++|+.|+++++. +...+...+..+++|+.|+++++ .+..++...+          ..+++|+
T Consensus       102 ---------~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~----------~~l~~L~  160 (270)
T 2o6q_A          102 ---------IGVFDQLVNLAELRLDRNQ-LKSLPPRVFDSLTKLTYLSLGYN-ELQSLPKGVF----------DKLTSLK  160 (270)
T ss_dssp             ---------TTTTTTCSSCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTT----------TTCTTCC
T ss_pred             ---------HhHcccccCCCEEECCCCc-cCeeCHHHhCcCcCCCEEECCCC-cCCccCHhHc----------cCCcccc
Confidence                     0011223478888888776 44455446889999999999975 4555544333          5789999


Q ss_pred             EEeeeCCCCCCCCCC--cCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccc
Q 041114          576 KVTITFCPKLKGLTF--LVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCA  632 (680)
Q Consensus       576 ~L~L~~c~~l~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~  632 (680)
                      .|++++|. ++.++.  +..+++|++|+++++ .+..++. ..++.+++|+.|+++++|
T Consensus       161 ~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~-~~~~~l~~L~~L~l~~N~  216 (270)
T 2o6q_A          161 ELRLYNNQ-LKRVPEGAFDKLTELKTLKLDNN-QLKRVPE-GAFDSLEKLKMLQLQENP  216 (270)
T ss_dssp             EEECCSSC-CSCCCTTTTTTCTTCCEEECCSS-CCSCCCT-TTTTTCTTCCEEECCSSC
T ss_pred             eeEecCCc-CcEeChhHhccCCCcCEEECCCC-cCCcCCH-HHhccccCCCEEEecCCC
Confidence            99999976 555553  778999999999996 5666654 345779999999988766

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

Probab=99.50  E-value=6.5e-14  Score=144.80  Aligned_cols=233  Identities=14%  Similarity=0.118  Sum_probs=125.2

Q ss_pred             cceEEEEeecccccccccC--CCCccc------cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEec
Q 041114          377 ETVRRLSLMQNQIKILSEA--PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNL  448 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~--~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L  448 (680)
                      +++++|.+.+|.+..++..  ..+++|      ++.+..+++  |..+++|++|++++| .+..+|    .+++|++|++
T Consensus        34 ~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~--~~~l~~L~~L~Ls~n-~l~~l~----~~~~L~~L~l  106 (317)
T 3o53_A           34 WNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD--LESLSTLRTLDLNNN-YVQELL----VGPSIETLHA  106 (317)
T ss_dssp             GGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEEEEE--ETTCTTCCEEECCSS-EEEEEE----ECTTCCEEEC
T ss_pred             CCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCCcchh--hhhcCCCCEEECcCC-cccccc----CCCCcCEEEC
Confidence            4778888888777654321  222222      333333333  455555666666553 454444    2355556666


Q ss_pred             cCCCCccccchhhhcCCCCCcEeeccCCcc----hhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCC
Q 041114          449 EWARDLVTIPLEVISNFSKLRVLRLFGTVL----AKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKD  524 (680)
Q Consensus       449 ~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~----~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~  524 (680)
                      ++| .+..+|..   .+++|++|++++|..    ...+..+++|+.|+++.+....+. .......+++|+.|+++++. 
T Consensus       107 ~~n-~l~~~~~~---~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~-~~~~~~~l~~L~~L~L~~N~-  180 (317)
T 3o53_A          107 ANN-NISRVSCS---RGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVN-FAELAASSDTLEHLNLQYNF-  180 (317)
T ss_dssp             CSS-CCSEEEEC---CCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEE-GGGGGGGTTTCCEEECTTSC-
T ss_pred             CCC-ccCCcCcc---ccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCccc-HHHHhhccCcCCEEECCCCc-
Confidence            655 45555542   355666666666541    223445566666666543322211 01111223466777776665 


Q ss_pred             CCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC-CcCCCCCCCEEeEe
Q 041114          525 SKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT-FLVFAPNLKCLSLF  603 (680)
Q Consensus       525 ~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~  603 (680)
                      +...+  ....+++|+.|+++++ .+..++.. +          ..+++|+.|++++|. ++.+| .+..+++|+.|+++
T Consensus       181 l~~~~--~~~~l~~L~~L~Ls~N-~l~~l~~~-~----------~~l~~L~~L~L~~N~-l~~l~~~~~~l~~L~~L~l~  245 (317)
T 3o53_A          181 IYDVK--GQVVFAKLKTLDLSSN-KLAFMGPE-F----------QSAAGVTWISLRNNK-LVLIEKALRFSQNLEHFDLR  245 (317)
T ss_dssp             CCEEE--CCCCCTTCCEEECCSS-CCCEECGG-G----------GGGTTCSEEECTTSC-CCEECTTCCCCTTCCEEECT
T ss_pred             Ccccc--cccccccCCEEECCCC-cCCcchhh-h----------cccCcccEEECcCCc-ccchhhHhhcCCCCCEEEcc
Confidence            33333  3334667777777654 34444332 1          456777777777765 33443 46677778888877


Q ss_pred             cCcch-hHhhhcCCCCCCCcccccCccccccCCCCCC
Q 041114          604 DCTAM-EEIISAGKFVHTPEMMGNTMDPCAKLRKLPL  639 (680)
Q Consensus       604 ~c~~l-~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~  639 (680)
                      +++.. ..++.  .++.+++|+.+++.+|+.++..+.
T Consensus       246 ~N~~~~~~~~~--~~~~~~~L~~l~l~~~~~l~~~~~  280 (317)
T 3o53_A          246 GNGFHCGTLRD--FFSKNQRVQTVAKQTVKKLTGQNE  280 (317)
T ss_dssp             TCCCBHHHHHH--HHHTCHHHHHHHHHHHHHHHSSSS
T ss_pred             CCCccCcCHHH--HHhccccceEEECCCchhccCCch
Confidence            75543 22222  235677777777777776665543

>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=99.49  E-value=1.2e-14  Score=151.53  Aligned_cols=188  Identities=20%  Similarity=0.157  Sum_probs=104.9

Q ss_pred             cccccccchhhhccCCcceEEEccCCCCccc--cchhhhccCCCCEEeccCCCCcc-ccchhhhcCCCCCcEeeccCCcc
Q 041114          402 HYEFKMITDGFFQFMPLLKVLNMSRETNIKE--LLGELKALVNLKCVNLEWARDLV-TIPLEVISNFSKLRVLRLFGTVL  478 (680)
Q Consensus       402 ~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~--lP~~i~~L~~Lr~L~L~~~~~l~-~lP~~~i~~L~~L~~L~l~~~~~  478 (680)
                      ++.+...++. +..+++|++|+|++| .+..  +|..+..+++|++|++++| .+. ..|.. ++++++|++|++++|..
T Consensus        79 ~n~l~~~~~~-~~~~~~L~~L~L~~~-~l~~~~~~~~~~~~~~L~~L~L~~~-~l~~~~~~~-l~~~~~L~~L~L~~~~~  154 (336)
T 2ast_B           79 RSFMDQPLAE-HFSPFRVQHMDLSNS-VIEVSTLHGILSQCSKLQNLSLEGL-RLSDPIVNT-LAKNSNLVRLNLSGCSG  154 (336)
T ss_dssp             TCEECSCCCS-CCCCBCCCEEECTTC-EECHHHHHHHHTTBCCCSEEECTTC-BCCHHHHHH-HTTCTTCSEEECTTCBS
T ss_pred             Cccccccchh-hccCCCCCEEEccCC-CcCHHHHHHHHhhCCCCCEEeCcCc-ccCHHHHHH-HhcCCCCCEEECCCCCC
Confidence            3344444444 345777777777774 4542  6666777777777777777 454 34554 67777777777777631


Q ss_pred             h------hhhcCCCCCceeEEEec-cchhhhhhhhchhhhc-cccEEEEeccC-CCC--cccccccccCCCCCEEEEecc
Q 041114          479 A------KELLGLKHLEELDFTLR-CVHSLQILVSSNKLQS-CTRALVLIRFK-DSK--SIDVIALARLKHLSTLHFSKC  547 (680)
Q Consensus       479 ~------~~l~~L~~L~~L~i~~~-~~~~l~~l~~~~~l~~-~L~~L~l~~~~-~~~--~~~~~~l~~l~~L~~L~l~~~  547 (680)
                      +      ..+.++++|+.|++..+ .... ..++.....++ +|+.|++++|. .+.  .++ ..+..+++|+.|++++|
T Consensus       155 l~~~~l~~~~~~~~~L~~L~l~~~~~l~~-~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~-~~~~~~~~L~~L~l~~~  232 (336)
T 2ast_B          155 FSEFALQTLLSSCSRLDELNLSWCFDFTE-KHVQVAVAHVSETITQLNLSGYRKNLQKSDLS-TLVRRCPNLVHLDLSDS  232 (336)
T ss_dssp             CCHHHHHHHHHHCTTCCEEECCCCTTCCH-HHHHHHHHHSCTTCCEEECCSCGGGSCHHHHH-HHHHHCTTCSEEECTTC
T ss_pred             CCHHHHHHHHhcCCCCCEEcCCCCCCcCh-HHHHHHHHhcccCCCEEEeCCCcccCCHHHHH-HHHhhCCCCCEEeCCCC
Confidence            1      22455667777766644 2221 11233333344 67777776663 222  122 14456667777777666


Q ss_pred             CCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCC--CCCcCCCCCCCEEeEecC
Q 041114          548 EELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKG--LTFLVFAPNLKCLSLFDC  605 (680)
Q Consensus       548 ~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~--l~~l~~l~~L~~L~l~~c  605 (680)
                      ..+....+..+          ..+++|++|++++|..+..  +..++.+++|++|++++|
T Consensus       233 ~~l~~~~~~~l----------~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~  282 (336)
T 2ast_B          233 VMLKNDCFQEF----------FQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI  282 (336)
T ss_dssp             TTCCGGGGGGG----------GGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS
T ss_pred             CcCCHHHHHHH----------hCCCCCCEeeCCCCCCCCHHHHHHHhcCCCCCEEeccCc
Confidence            54432222222          4556777777777653221  113556677777777766

>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=99.49  E-value=2.5e-13  Score=152.34  Aligned_cols=226  Identities=20%  Similarity=0.161  Sum_probs=166.1

Q ss_pred             cceEEEEeecccccccccCCCCccc------cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccC
Q 041114          377 ETVRRLSLMQNQIKILSEAPTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEW  450 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~  450 (680)
                      .+++.+.+.++.+..+|.... ++|      ++.+..+|.    .+++|++|+|++| .+..+|.   .+++|++|++++
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~Ls~  110 (622)
T 3g06_A           40 NGNAVLNVGESGLTTLPDCLP-AHITTLVIPDNNLTSLPA----LPPELRTLEVSGN-QLTSLPV---LPPGLLELSIFS  110 (622)
T ss_dssp             HCCCEEECCSSCCSCCCSCCC-TTCSEEEECSCCCSCCCC----CCTTCCEEEECSC-CCSCCCC---CCTTCCEEEECS
T ss_pred             CCCcEEEecCCCcCccChhhC-CCCcEEEecCCCCCCCCC----cCCCCCEEEcCCC-cCCcCCC---CCCCCCEEECcC
Confidence            468899999999998876432 333      677888886    4788999999994 7888886   788999999999


Q ss_pred             CCCccccchhhhcCCCCCcEeeccCCcchhhhc-CCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCccc
Q 041114          451 ARDLVTIPLEVISNFSKLRVLRLFGTVLAKELL-GLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSID  529 (680)
Q Consensus       451 ~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~-~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~  529 (680)
                      | .++.+|.    .+.+|++|++++|..- .++ .+++|+.|+++.+....+   +.   ...+|+.|.++++. +..++
T Consensus       111 N-~l~~l~~----~l~~L~~L~L~~N~l~-~lp~~l~~L~~L~Ls~N~l~~l---~~---~~~~L~~L~L~~N~-l~~l~  177 (622)
T 3g06_A          111 N-PLTHLPA----LPSGLCKLWIFGNQLT-SLPVLPPGLQELSVSDNQLASL---PA---LPSELCKLWAYNNQ-LTSLP  177 (622)
T ss_dssp             C-CCCCCCC----CCTTCCEEECCSSCCS-CCCCCCTTCCEEECCSSCCSCC---CC---CCTTCCEEECCSSC-CSCCC
T ss_pred             C-cCCCCCC----CCCCcCEEECCCCCCC-cCCCCCCCCCEEECcCCcCCCc---CC---ccCCCCEEECCCCC-CCCCc
Confidence            8 7888886    5678899999887522 222 357888888875544333   22   34578899988875 44444


Q ss_pred             ccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchh
Q 041114          530 VIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAME  609 (680)
Q Consensus       530 ~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~  609 (680)
                          ..+++|+.|+++++ .+..++              ..+++|+.|++++|. ++.+|.  .+++|+.|+++++ .++
T Consensus       178 ----~~~~~L~~L~Ls~N-~l~~l~--------------~~~~~L~~L~L~~N~-l~~l~~--~~~~L~~L~Ls~N-~L~  234 (622)
T 3g06_A          178 ----MLPSGLQELSVSDN-QLASLP--------------TLPSELYKLWAYNNR-LTSLPA--LPSGLKELIVSGN-RLT  234 (622)
T ss_dssp             ----CCCTTCCEEECCSS-CCSCCC--------------CCCTTCCEEECCSSC-CSSCCC--CCTTCCEEECCSS-CCS
T ss_pred             ----ccCCCCcEEECCCC-CCCCCC--------------CccchhhEEECcCCc-ccccCC--CCCCCCEEEccCC-ccC
Confidence                45689999999875 344331              235789999999975 566663  4699999999985 566


Q ss_pred             HhhhcCCCCCCCcccccCccccccCCCCCCCCccccCcceEEecc
Q 041114          610 EIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNSALEHKIAIRGE  654 (680)
Q Consensus       610 ~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~~~l~~L~i~~~~  654 (680)
                      .++     ..+++|+.|++++| +|+.+|..+.+ |+.|.+.+|.
T Consensus       235 ~lp-----~~l~~L~~L~Ls~N-~L~~lp~~~~~-L~~L~Ls~N~  272 (622)
T 3g06_A          235 SLP-----VLPSELKELMVSGN-RLTSLPMLPSG-LLSLSVYRNQ  272 (622)
T ss_dssp             CCC-----CCCTTCCEEECCSS-CCSCCCCCCTT-CCEEECCSSC
T ss_pred             cCC-----CCCCcCcEEECCCC-CCCcCCccccc-CcEEeCCCCC
Confidence            654     45799999999997 69999984433 7777766664

>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=99.47  E-value=6.5e-13  Score=144.14  Aligned_cols=256  Identities=18%  Similarity=0.188  Sum_probs=101.1

Q ss_pred             CCCcccccccccccceEEEEeecccccccccCC-CCccc---cccccccchhhhccCCcceEEEccCCCCccccchhhhc
Q 041114          364 GRGLKEAPEVKEWETVRRLSLMQNQIKILSEAP-TCPHL---HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKA  439 (680)
Q Consensus       364 ~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~-~~~~L---~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~  439 (680)
                      +..+..+|......+++++.+.+|.+..+|... ....|   ++.+..+|.  |..+++|++|++++| .+..+|...  
T Consensus       140 ~n~l~~lp~~~~l~~L~~L~l~~N~l~~lp~~~~~L~~L~L~~n~l~~l~~--~~~l~~L~~L~l~~N-~l~~l~~~~--  214 (454)
T 1jl5_A          140 NNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPE--LQNLPFLTAIYADNN-SLKKLPDLP--  214 (454)
T ss_dssp             SSCCSSCCCCTTCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSSCCC--CTTCTTCCEEECCSS-CCSSCCCCC--
T ss_pred             CCCCCCCcccCCCCCCCEEECCCCcCcccCCCcccccEEECcCCcCCcCcc--ccCCCCCCEEECCCC-cCCcCCCCc--
Confidence            333333443344445555555555555443321 11111   444444442  455555555555553 444444322  


Q ss_pred             cCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhc-CCCCCceeEEEeccchhhhhhhhchhhhccccEEE
Q 041114          440 LVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELL-GLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALV  518 (680)
Q Consensus       440 L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~-~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~  518 (680)
                       .+|++|++++| .+..+|.  ++.+++|++|++++|..- .++ .+++|+.|++..+....   ++.   ..++|+.|+
T Consensus       215 -~~L~~L~l~~n-~l~~lp~--~~~l~~L~~L~l~~N~l~-~l~~~~~~L~~L~l~~N~l~~---l~~---~~~~L~~L~  283 (454)
T 1jl5_A          215 -LSLESIVAGNN-ILEELPE--LQNLPFLTTIYADNNLLK-TLPDLPPSLEALNVRDNYLTD---LPE---LPQSLTFLD  283 (454)
T ss_dssp             -TTCCEEECCSS-CCSSCCC--CTTCTTCCEEECCSSCCS-SCCSCCTTCCEEECCSSCCSC---CCC---CCTTCCEEE
T ss_pred             -CcccEEECcCC-cCCcccc--cCCCCCCCEEECCCCcCC-cccccccccCEEECCCCcccc---cCc---ccCcCCEEE
Confidence             35555555555 4555553  556666666666554311 111 12455555554332222   111   123555555


Q ss_pred             EeccCCCCcccccccccCCCCCEEEEeccCCcceee----------cccCCCCccCCCCCCCCCCccEEeeeCCCCCCCC
Q 041114          519 LIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWK----------TDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGL  588 (680)
Q Consensus       519 l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~----------~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l  588 (680)
                      ++++. +..++  .+  .++|+.|+++++ .+..++          ...-...+  .|  ..+++|+.|++++|. ++.+
T Consensus       284 ls~N~-l~~l~--~~--~~~L~~L~l~~N-~l~~i~~~~~~L~~L~Ls~N~l~~--lp--~~~~~L~~L~L~~N~-l~~l  352 (454)
T 1jl5_A          284 VSENI-FSGLS--EL--PPNLYYLNASSN-EIRSLCDLPPSLEELNVSNNKLIE--LP--ALPPRLERLIASFNH-LAEV  352 (454)
T ss_dssp             CCSSC-CSEES--CC--CTTCCEEECCSS-CCSEECCCCTTCCEEECCSSCCSC--CC--CCCTTCCEEECCSSC-CSCC
T ss_pred             CcCCc-cCccc--Cc--CCcCCEEECcCC-cCCcccCCcCcCCEEECCCCcccc--cc--ccCCcCCEEECCCCc-cccc
Confidence            55543 22211  00  134555555432 111111          00000000  11  124677788887764 5566


Q ss_pred             CCcCCCCCCCEEeEecCcchhH---hhhcCCCCCC-------------CcccccCccccccCCCCCCCCccccCcceEEe
Q 041114          589 TFLVFAPNLKCLSLFDCTAMEE---IISAGKFVHT-------------PEMMGNTMDPCAKLRKLPLDSNSALEHKIAIR  652 (680)
Q Consensus       589 ~~l~~l~~L~~L~l~~c~~l~~---i~~~~~~~~l-------------p~L~~L~i~~C~~L~~lP~~~~~~l~~L~i~~  652 (680)
                      |.  .+++|++|+++++. +..   +|.  .++.+             ++|+.|++++++ ++.+|..+.. +..|.+..
T Consensus       353 p~--~l~~L~~L~L~~N~-l~~l~~ip~--~l~~L~~n~~~~~i~~~~~~L~~L~ls~N~-l~~~~~iP~s-l~~L~~~~  425 (454)
T 1jl5_A          353 PE--LPQNLKQLHVEYNP-LREFPDIPE--SVEDLRMNSHLAEVPELPQNLKQLHVETNP-LREFPDIPES-VEDLRMNS  425 (454)
T ss_dssp             CC--CCTTCCEEECCSSC-CSSCCCCCT--TCCEEECCC-----------------------------------------
T ss_pred             cc--hhhhccEEECCCCC-CCcCCCChH--HHHhhhhcccccccccccCcCCEEECCCCc-CCccccchhh-HhheeCcC
Confidence            65  56788888887754 333   322  12334             677888887754 5544333322 55555544


Q ss_pred             c
Q 041114          653 G  653 (680)
Q Consensus       653 ~  653 (680)
                      |
T Consensus       426 ~  426 (454)
T 1jl5_A          426 E  426 (454)
T ss_dssp             -
T ss_pred             c
Confidence            3

>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=99.47  E-value=4.9e-13  Score=136.18  Aligned_cols=186  Identities=17%  Similarity=0.117  Sum_probs=127.5

Q ss_pred             cceEEEEeecccccccccCC--CCccc---cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCC
Q 041114          377 ETVRRLSLMQNQIKILSEAP--TCPHL---HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWA  451 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~~--~~~~L---~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~  451 (680)
                      .+++.+.+.++.+..+|...  ....|   ++.+..+++..|..+++|++|+|++ +.+..+|.. +.+++|++|++++|
T Consensus        10 ~~l~~l~~~~~~l~~ip~~~~~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~-n~l~~~~~~-~~l~~L~~L~Ls~N   87 (290)
T 1p9a_G           10 ASHLEVNCDKRNLTALPPDLPKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDR-AELTKLQVD-GTLPVLGTLDLSHN   87 (290)
T ss_dssp             TTCCEEECTTSCCSSCCSCCCTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTT-SCCCEEECC-SCCTTCCEEECCSS
T ss_pred             CCccEEECCCCCCCcCCCCCCCCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCC-CccCcccCC-CCCCcCCEEECCCC
Confidence            45556666666665554331  11122   4555567666699999999999999 589888865 89999999999999


Q ss_pred             CCccccchhhhcCCCCCcEeeccCCcch----hhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCc
Q 041114          452 RDLVTIPLEVISNFSKLRVLRLFGTVLA----KELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKS  527 (680)
Q Consensus       452 ~~l~~lP~~~i~~L~~L~~L~l~~~~~~----~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~  527 (680)
                       .++.+|.. +..+++|++|++++|..-    ..+..+                          ++|+.|+++++. +..
T Consensus        88 -~l~~l~~~-~~~l~~L~~L~l~~N~l~~l~~~~~~~l--------------------------~~L~~L~L~~N~-l~~  138 (290)
T 1p9a_G           88 -QLQSLPLL-GQTLPALTVLDVSFNRLTSLPLGALRGL--------------------------GELQELYLKGNE-LKT  138 (290)
T ss_dssp             -CCSSCCCC-TTTCTTCCEEECCSSCCCCCCSSTTTTC--------------------------TTCCEEECTTSC-CCC
T ss_pred             -cCCcCchh-hccCCCCCEEECCCCcCcccCHHHHcCC--------------------------CCCCEEECCCCC-CCc
Confidence             79999996 899999999999987411    122223                          356666666654 444


Q ss_pred             ccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC-CcCCCCCCCEEeEecC
Q 041114          528 IDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT-FLVFAPNLKCLSLFDC  605 (680)
Q Consensus       528 ~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~c  605 (680)
                      ++...+..+++|+.|+++++ .++.++...+          ..+++|+.|+|+++. ++.+| .+..+++|+.|++++.
T Consensus       139 ~~~~~~~~l~~L~~L~L~~N-~l~~l~~~~~----------~~l~~L~~L~L~~N~-l~~ip~~~~~~~~L~~l~L~~N  205 (290)
T 1p9a_G          139 LPPGLLTPTPKLEKLSLANN-NLTELPAGLL----------NGLENLDTLLLQENS-LYTIPKGFFGSHLLPFAFLHGN  205 (290)
T ss_dssp             CCTTTTTTCTTCCEEECTTS-CCSCCCTTTT----------TTCTTCCEEECCSSC-CCCCCTTTTTTCCCSEEECCSC
T ss_pred             cChhhcccccCCCEEECCCC-cCCccCHHHh----------cCcCCCCEEECCCCc-CCccChhhcccccCCeEEeCCC
Confidence            44445677788888888764 4554443333          457788888888765 44444 4566778888888754

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

Probab=99.46  E-value=2.7e-13  Score=136.85  Aligned_cols=180  Identities=17%  Similarity=0.192  Sum_probs=133.8

Q ss_pred             hccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCCCCCceeE
Q 041114          413 FQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELD  492 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L~~L~~L~  492 (680)
                      +..+++|+.|++++ +.+..++ +++.+++|++|++++| .+..+|.  ++.+++|++|++++|..- .+.         
T Consensus        37 ~~~l~~L~~L~l~~-~~i~~~~-~l~~l~~L~~L~l~~n-~l~~~~~--l~~l~~L~~L~L~~n~l~-~~~---------  101 (272)
T 3rfs_A           37 QNELNSIDQIIANN-SDIKSVQ-GIQYLPNVRYLALGGN-KLHDISA--LKELTNLTYLILTGNQLQ-SLP---------  101 (272)
T ss_dssp             HHHHTTCCEEECTT-SCCCCCT-TGGGCTTCCEEECTTS-CCCCCGG--GTTCTTCCEEECTTSCCC-CCC---------
T ss_pred             cccccceeeeeeCC-CCccccc-ccccCCCCcEEECCCC-CCCCchh--hcCCCCCCEEECCCCccC-ccC---------
Confidence            56788999999999 4788776 6889999999999999 7888874  899999999999987411 000         


Q ss_pred             EEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCC
Q 041114          493 FTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFC  572 (680)
Q Consensus       493 i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~  572 (680)
                                  +.....+++|+.|+++++. +...+...+..+++|+.|+++++ .+..++...+          ..++
T Consensus       102 ------------~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~----------~~l~  157 (272)
T 3rfs_A          102 ------------NGVFDKLTNLKELVLVENQ-LQSLPDGVFDKLTNLTYLNLAHN-QLQSLPKGVF----------DKLT  157 (272)
T ss_dssp             ------------TTTTTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTT----------TTCT
T ss_pred             ------------hhHhcCCcCCCEEECCCCc-CCccCHHHhccCCCCCEEECCCC-ccCccCHHHh----------ccCc
Confidence                        0001122367777777765 44454446789999999999986 5555544333          5789


Q ss_pred             CccEEeeeCCCCCCCCCC--cCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccC
Q 041114          573 SLHKVTITFCPKLKGLTF--LVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKL  634 (680)
Q Consensus       573 ~L~~L~L~~c~~l~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L  634 (680)
                      +|+.|++++|. ++.++.  ++.+++|++|+++++. +..++. ..++.+++|+.|++++++-.
T Consensus       158 ~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~-~~~~~l~~L~~L~l~~N~~~  218 (272)
T 3rfs_A          158 NLTELDLSYNQ-LQSLPEGVFDKLTQLKDLRLYQNQ-LKSVPD-GVFDRLTSLQYIWLHDNPWD  218 (272)
T ss_dssp             TCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSC-CSCCCT-TTTTTCTTCCEEECCSSCBC
T ss_pred             cCCEEECCCCC-cCccCHHHhcCCccCCEEECCCCc-CCccCH-HHHhCCcCCCEEEccCCCcc
Confidence            99999999986 555554  6889999999999964 666644 34578999999999887643

>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=99.45  E-value=4.1e-13  Score=136.86  Aligned_cols=168  Identities=21%  Similarity=0.206  Sum_probs=111.7

Q ss_pred             hccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCce
Q 041114          413 FQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEE  490 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~  490 (680)
                      +..+++|++|++++ +.+..+| .++.+++|++|++++| .+..+|.  ++++++|++|++++|.  .+..+..+++|+.
T Consensus        42 ~~~l~~L~~L~l~~-~~i~~~~-~~~~l~~L~~L~L~~n-~l~~~~~--l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~  116 (291)
T 1h6t_A           42 QNELNSIDQIIANN-SDIKSVQ-GIQYLPNVTKLFLNGN-KLTDIKP--LANLKNLGWLFLDENKVKDLSSLKDLKKLKS  116 (291)
T ss_dssp             HHHHHTCCEEECTT-SCCCCCT-TGGGCTTCCEEECCSS-CCCCCGG--GTTCTTCCEEECCSSCCCCGGGGTTCTTCCE
T ss_pred             hhhcCcccEEEccC-CCcccCh-hHhcCCCCCEEEccCC-ccCCCcc--cccCCCCCEEECCCCcCCCChhhccCCCCCE
Confidence            34566677777777 3666665 4667777777777777 5666665  6677777777777664  3444566666666


Q ss_pred             eEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCC
Q 041114          491 LDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFV  570 (680)
Q Consensus       491 L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~  570 (680)
                      |++..+....+..+.    .+++|+.|+++++. +...  ..+..+++|+.|+++++ .+..+++  +          ..
T Consensus       117 L~L~~n~i~~~~~l~----~l~~L~~L~l~~n~-l~~~--~~l~~l~~L~~L~L~~N-~l~~~~~--l----------~~  176 (291)
T 1h6t_A          117 LSLEHNGISDINGLV----HLPQLESLYLGNNK-ITDI--TVLSRLTKLDTLSLEDN-QISDIVP--L----------AG  176 (291)
T ss_dssp             EECTTSCCCCCGGGG----GCTTCCEEECCSSC-CCCC--GGGGGCTTCSEEECCSS-CCCCCGG--G----------TT
T ss_pred             EECCCCcCCCChhhc----CCCCCCEEEccCCc-CCcc--hhhccCCCCCEEEccCC-ccccchh--h----------cC
Confidence            666544433332222    23478888888775 4444  36788888999999875 4444322  2          56


Q ss_pred             CCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCc
Q 041114          571 FCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCT  606 (680)
Q Consensus       571 l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~  606 (680)
                      +++|+.|++++|. ++.++.+..+++|+.|++++++
T Consensus       177 l~~L~~L~L~~N~-i~~l~~l~~l~~L~~L~l~~n~  211 (291)
T 1h6t_A          177 LTKLQNLYLSKNH-ISDLRALAGLKNLDVLELFSQE  211 (291)
T ss_dssp             CTTCCEEECCSSC-CCBCGGGTTCTTCSEEEEEEEE
T ss_pred             CCccCEEECCCCc-CCCChhhccCCCCCEEECcCCc
Confidence            7889999998875 6677778888999999998854

>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=99.44  E-value=1.1e-13  Score=144.30  Aligned_cols=205  Identities=17%  Similarity=0.073  Sum_probs=132.2

Q ss_pred             hccC--CcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccc--cchhhhcCCCCCcEeeccCCc----chhhhcC
Q 041114          413 FQFM--PLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVT--IPLEVISNFSKLRVLRLFGTV----LAKELLG  484 (680)
Q Consensus       413 ~~~l--~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~--lP~~~i~~L~~L~~L~l~~~~----~~~~l~~  484 (680)
                      +..+  +++++|++++ +.+...+..+..+++|++|++++| .+..  +|.. ++++++|++|++++|.    .+..+..
T Consensus        64 ~~~~~~~~l~~L~l~~-n~l~~~~~~~~~~~~L~~L~L~~~-~l~~~~~~~~-~~~~~~L~~L~L~~~~l~~~~~~~l~~  140 (336)
T 2ast_B           64 TGRLLSQGVIAFRCPR-SFMDQPLAEHFSPFRVQHMDLSNS-VIEVSTLHGI-LSQCSKLQNLSLEGLRLSDPIVNTLAK  140 (336)
T ss_dssp             HHHHHHTTCSEEECTT-CEECSCCCSCCCCBCCCEEECTTC-EECHHHHHHH-HTTBCCCSEEECTTCBCCHHHHHHHTT
T ss_pred             HHhhhhccceEEEcCC-ccccccchhhccCCCCCEEEccCC-CcCHHHHHHH-HhhCCCCCEEeCcCcccCHHHHHHHhc
Confidence            4555  7788888888 467666666777888888888888 4653  6664 7888888888888875    3445677


Q ss_pred             CCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCccc-ccccccCC-CCCEEEEeccC-Cccee-ecccCCC
Q 041114          485 LKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSID-VIALARLK-HLSTLHFSKCE-ELEEW-KTDYTSG  560 (680)
Q Consensus       485 L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~-~~~l~~l~-~L~~L~l~~~~-~l~~l-~~~~~~~  560 (680)
                      +++|+.|++..+..-.-..++.....+++|+.|++++|..+.... ...+..++ +|++|++++|. .+..- .+...  
T Consensus       141 ~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~--  218 (336)
T 2ast_B          141 NSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLV--  218 (336)
T ss_dssp             CTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHH--
T ss_pred             CCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCcccCCHHHHHHHH--
Confidence            888888887744211111234433445678888888874454321 12466777 88888888764 23210 11111  


Q ss_pred             CccCCCCCCCCCCccEEeeeCCCCCC--CCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCcccc
Q 041114          561 TVLKSPQPFVFCSLHKVTITFCPKLK--GLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPC  631 (680)
Q Consensus       561 ~~l~~~~~~~l~~L~~L~L~~c~~l~--~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C  631 (680)
                              ..+++|++|++++|..++  .++.+..+++|++|++++|..+..... ..++.+|+|+.|++++|
T Consensus       219 --------~~~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~-~~l~~~~~L~~L~l~~~  282 (336)
T 2ast_B          219 --------RRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETL-LELGEIPTLKTLQVFGI  282 (336)
T ss_dssp             --------HHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGGG-GGGGGCTTCCEEECTTS
T ss_pred             --------hhCCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEeeCCCCCCCCHHHH-HHHhcCCCCCEEeccCc
Confidence                    356788888888887543  245577788888888888763332211 12356888888888887

>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=99.44  E-value=3.5e-13  Score=146.23  Aligned_cols=155  Identities=17%  Similarity=0.105  Sum_probs=82.4

Q ss_pred             CcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCceeEEE
Q 041114          417 PLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEELDFT  494 (680)
Q Consensus       417 ~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~L~i~  494 (680)
                      ++|++|++++ +.+..+|..   +.+|++|++++| .+..+|.  +  .++|++|++++|.  .+.+++++++|+.|++.
T Consensus        91 ~~L~~L~l~~-n~l~~lp~~---~~~L~~L~l~~n-~l~~l~~--~--~~~L~~L~L~~n~l~~lp~~~~l~~L~~L~l~  161 (454)
T 1jl5_A           91 PHLESLVASC-NSLTELPEL---PQSLKSLLVDNN-NLKALSD--L--PPLLEYLGVSNNQLEKLPELQNSSFLKIIDVD  161 (454)
T ss_dssp             TTCSEEECCS-SCCSSCCCC---CTTCCEEECCSS-CCSCCCS--C--CTTCCEEECCSSCCSSCCCCTTCTTCCEEECC
T ss_pred             CCCCEEEccC-CcCCccccc---cCCCcEEECCCC-ccCcccC--C--CCCCCEEECcCCCCCCCcccCCCCCCCEEECC
Confidence            3455555554 244444432   244555555555 4544443  1  1466677776654  22245666777777776


Q ss_pred             eccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCc
Q 041114          495 LRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSL  574 (680)
Q Consensus       495 ~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L  574 (680)
                      .+....   ++..   ..+|+.|+++++. +..++  .+..+++|+.|+++++. +..++              ...++|
T Consensus       162 ~N~l~~---lp~~---~~~L~~L~L~~n~-l~~l~--~~~~l~~L~~L~l~~N~-l~~l~--------------~~~~~L  217 (454)
T 1jl5_A          162 NNSLKK---LPDL---PPSLEFIAAGNNQ-LEELP--ELQNLPFLTAIYADNNS-LKKLP--------------DLPLSL  217 (454)
T ss_dssp             SSCCSC---CCCC---CTTCCEEECCSSC-CSSCC--CCTTCTTCCEEECCSSC-CSSCC--------------CCCTTC
T ss_pred             CCcCcc---cCCC---cccccEEECcCCc-CCcCc--cccCCCCCCEEECCCCc-CCcCC--------------CCcCcc
Confidence            443332   2221   2377777777764 44444  57777788888887653 32221              112356


Q ss_pred             cEEeeeCCCCCCCCCCcCCCCCCCEEeEecC
Q 041114          575 HKVTITFCPKLKGLTFLVFAPNLKCLSLFDC  605 (680)
Q Consensus       575 ~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c  605 (680)
                      ++|++++|. +..+|.++.+++|++|+++++
T Consensus       218 ~~L~l~~n~-l~~lp~~~~l~~L~~L~l~~N  247 (454)
T 1jl5_A          218 ESIVAGNNI-LEELPELQNLPFLTTIYADNN  247 (454)
T ss_dssp             CEEECCSSC-CSSCCCCTTCTTCCEEECCSS
T ss_pred             cEEECcCCc-CCcccccCCCCCCCEEECCCC
Confidence            666666553 334555555666666666553

>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=99.40  E-value=5.9e-13  Score=149.03  Aligned_cols=167  Identities=22%  Similarity=0.213  Sum_probs=97.7

Q ss_pred             ccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCcee
Q 041114          414 QFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEEL  491 (680)
Q Consensus       414 ~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~L  491 (680)
                      ..+.+|+.|++++ +.+..+| .++.|++|++|+|++| .+..+|.  ++.|++|++|++++|.  .+..+..+++|+.|
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~~L  114 (605)
T 1m9s_A           40 NELNSIDQIIANN-SDIKSVQ-GIQYLPNVTKLFLNGN-KLTDIKP--LTNLKNLGWLFLDENKIKDLSSLKDLKKLKSL  114 (605)
T ss_dssp             HHHTTCCCCBCTT-CCCCCCT-TGGGCTTCCEEECTTS-CCCCCGG--GGGCTTCCEEECCSSCCCCCTTSTTCTTCCEE
T ss_pred             hcCCCCCEEECcC-CCCCCCh-HHccCCCCCEEEeeCC-CCCCChh--hccCCCCCEEECcCCCCCCChhhccCCCCCEE
Confidence            3455555555555 2455554 3555555555555555 4555554  5555555555555543  23344445555555


Q ss_pred             EEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCC
Q 041114          492 DFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVF  571 (680)
Q Consensus       492 ~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l  571 (680)
                      ++..+....+..+.    .+++|+.|+|++|. +..+  ..+..+++|+.|+|++| .+..+++  +          ..+
T Consensus       115 ~Ls~N~l~~l~~l~----~l~~L~~L~Ls~N~-l~~l--~~l~~l~~L~~L~Ls~N-~l~~~~~--l----------~~l  174 (605)
T 1m9s_A          115 SLEHNGISDINGLV----HLPQLESLYLGNNK-ITDI--TVLSRLTKLDTLSLEDN-QISDIVP--L----------AGL  174 (605)
T ss_dssp             ECTTSCCCCCGGGG----GCTTCSEEECCSSC-CCCC--GGGGSCTTCSEEECCSS-CCCCCGG--G----------TTC
T ss_pred             EecCCCCCCCcccc----CCCccCEEECCCCc-cCCc--hhhcccCCCCEEECcCC-cCCCchh--h----------ccC
Confidence            55433333322222    23467777777765 3333  36777888888888775 3443322  2          567


Q ss_pred             CCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCc
Q 041114          572 CSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCT  606 (680)
Q Consensus       572 ~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~  606 (680)
                      ++|+.|+|++|. +..+|.+..+++|+.|+|++|+
T Consensus       175 ~~L~~L~Ls~N~-i~~l~~l~~l~~L~~L~L~~N~  208 (605)
T 1m9s_A          175 TKLQNLYLSKNH-ISDLRALAGLKNLDVLELFSQE  208 (605)
T ss_dssp             TTCCEEECCSSC-CCBCGGGTTCTTCSEEECCSEE
T ss_pred             CCCCEEECcCCC-CCCChHHccCCCCCEEEccCCc
Confidence            888888888865 5666778888888888888754

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

Probab=99.40  E-value=1.3e-12  Score=134.45  Aligned_cols=173  Identities=14%  Similarity=0.033  Sum_probs=93.9

Q ss_pred             ccCCcceEEEccCCCCccc-cc----hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchh--------
Q 041114          414 QFMPLLKVLNMSRETNIKE-LL----GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAK--------  480 (680)
Q Consensus       414 ~~l~~Lr~LdL~~~~~i~~-lP----~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~--------  480 (680)
                      ..+++|++|+|++| .+.. .|    ..+..+++|++|++++| .+..+|...++.+++|++|++++|....        
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 ATGLALSSLRLRNV-SWATGRSWLAELQQWLKPGLKVLSIAQA-HSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAAL  191 (310)
T ss_dssp             CCCBCCSSCEEESC-CCSSTTSSHHHHHTTBCSCCCEEEEECC-SSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTS
T ss_pred             ccCCCCCEEEeecc-cccchhhhhHHHHhhhccCCCEEEeeCC-CcchhhHHHhccCCCCCEEECCCCCCccchhhhHHH
Confidence            67777888888874 5543 22    34456778888888887 5777665447778888888888775321        


Q ss_pred             hhcCCCCCceeEEEeccchhhhhhhh-chhhhccccEEEEeccCCCCcccccccccC---CCCCEEEEeccCCcceeecc
Q 041114          481 ELLGLKHLEELDFTLRCVHSLQILVS-SNKLQSCTRALVLIRFKDSKSIDVIALARL---KHLSTLHFSKCEELEEWKTD  556 (680)
Q Consensus       481 ~l~~L~~L~~L~i~~~~~~~l~~l~~-~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l---~~L~~L~l~~~~~l~~l~~~  556 (680)
                      .+..+++|+.|+++.+....+...+. ....+++|+.|+++++.-....|. .+..+   ++|++|+++++ .++.++. 
T Consensus       192 ~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~-~~~~~~~~~~L~~L~Ls~N-~l~~lp~-  268 (310)
T 4glp_A          192 CPHKFPAIQNLALRNTGMETPTGVCAALAAAGVQPHSLDLSHNSLRATVNP-SAPRCMWSSALNSLNLSFA-GLEQVPK-  268 (310)
T ss_dssp             CTTSSCCCCSCBCCSSCCCCHHHHHHHHHHHTCCCSSEECTTSCCCCCCCS-CCSSCCCCTTCCCEECCSS-CCCSCCS-
T ss_pred             hhhcCCCCCEEECCCCCCCchHHHHHHHHhcCCCCCEEECCCCCCCccchh-hHHhccCcCcCCEEECCCC-CCCchhh-
Confidence            12456666666666544433332221 112334566666665542222121 22222   46666666543 2332211 


Q ss_pred             cCCCCccCCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEec
Q 041114          557 YTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFD  604 (680)
Q Consensus       557 ~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~  604 (680)
                                  ..+++|+.|+|++|. ++.+|.+..+++|+.|++++
T Consensus       269 ------------~~~~~L~~L~Ls~N~-l~~~~~~~~l~~L~~L~L~~  303 (310)
T 4glp_A          269 ------------GLPAKLRVLDLSSNR-LNRAPQPDELPEVDNLTLDG  303 (310)
T ss_dssp             ------------CCCSCCSCEECCSCC-CCSCCCTTSCCCCSCEECSS
T ss_pred             ------------hhcCCCCEEECCCCc-CCCCchhhhCCCccEEECcC
Confidence                        112456666666544 44444455556666666655

>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=99.37  E-value=2.2e-13  Score=144.90  Aligned_cols=229  Identities=14%  Similarity=0.095  Sum_probs=155.6

Q ss_pred             ccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCC--CCcc-ccchhh-------hccCCCCE
Q 041114          376 WETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRE--TNIK-ELLGEL-------KALVNLKC  445 (680)
Q Consensus       376 ~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~--~~i~-~lP~~i-------~~L~~Lr~  445 (680)
                      .+++++|.+.+|.+....           ...++.. +..+++|++|+|++|  +.+. .+|.++       ..+++|++
T Consensus        31 ~~~L~~L~L~~n~i~~~~-----------~~~l~~~-l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~   98 (386)
T 2ca6_A           31 DDSVKEIVLSGNTIGTEA-----------ARWLSEN-IASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHT   98 (386)
T ss_dssp             CSCCCEEECTTSEECHHH-----------HHHHHHT-TTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCE
T ss_pred             CCCccEEECCCCCCCHHH-----------HHHHHHH-HHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccE
Confidence            357888988888775421           1123332 678999999999985  2222 445554       78899999


Q ss_pred             EeccCCCCccc-----cchhhhcCCCCCcEeeccCCcc----hhh----hcCC---------CCCceeEEEeccch--hh
Q 041114          446 VNLEWARDLVT-----IPLEVISNFSKLRVLRLFGTVL----AKE----LLGL---------KHLEELDFTLRCVH--SL  501 (680)
Q Consensus       446 L~L~~~~~l~~-----lP~~~i~~L~~L~~L~l~~~~~----~~~----l~~L---------~~L~~L~i~~~~~~--~l  501 (680)
                      |+|++| .+..     +|.. +.++++|++|++++|..    +..    +..+         ++|+.|++..+...  .+
T Consensus        99 L~Ls~n-~l~~~~~~~l~~~-l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~  176 (386)
T 2ca6_A           99 VRLSDN-AFGPTAQEPLIDF-LSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSM  176 (386)
T ss_dssp             EECCSC-CCCTTTHHHHHHH-HHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGH
T ss_pred             EECCCC-cCCHHHHHHHHHH-HHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHH
Confidence            999999 6776     7775 88999999999999863    222    3334         88999998866543  34


Q ss_pred             hhhhhchhhhccccEEEEeccCCCCc-----ccccccccCCCCCEEEEeccCCc----ceeecccCCCCccCCCCCCCCC
Q 041114          502 QILVSSNKLQSCTRALVLIRFKDSKS-----IDVIALARLKHLSTLHFSKCEEL----EEWKTDYTSGTVLKSPQPFVFC  572 (680)
Q Consensus       502 ~~l~~~~~l~~~L~~L~l~~~~~~~~-----~~~~~l~~l~~L~~L~l~~~~~l----~~l~~~~~~~~~l~~~~~~~l~  572 (680)
                      ..+......+++|+.|++++|. +..     +....+..+++|+.|+++++..-    ..++ ..+          ..++
T Consensus       177 ~~l~~~l~~~~~L~~L~L~~n~-l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~-~~l----------~~~~  244 (386)
T 2ca6_A          177 KEWAKTFQSHRLLHTVKMVQNG-IRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALA-IAL----------KSWP  244 (386)
T ss_dssp             HHHHHHHHHCTTCCEEECCSSC-CCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHH-HHG----------GGCT
T ss_pred             HHHHHHHHhCCCcCEEECcCCC-CCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHH-HHH----------ccCC
Confidence            4343444445689999999885 331     11126778999999999986531    2221 222          4678


Q ss_pred             CccEEeeeCCCCCCCC------CCc--CCCCCCCEEeEecCcchh----HhhhcCCCCCCCcccccCccccc
Q 041114          573 SLHKVTITFCPKLKGL------TFL--VFAPNLKCLSLFDCTAME----EIISAGKFVHTPEMMGNTMDPCA  632 (680)
Q Consensus       573 ~L~~L~L~~c~~l~~l------~~l--~~l~~L~~L~l~~c~~l~----~i~~~~~~~~lp~L~~L~i~~C~  632 (680)
                      +|++|+|++|. ++..      ..+  +.+++|++|++++|..-.    .++.. ..+++|+|+.|++++|+
T Consensus       245 ~L~~L~L~~n~-i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~~~l~~~-l~~~l~~L~~L~l~~N~  314 (386)
T 2ca6_A          245 NLRELGLNDCL-LSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTV-IDEKMPDLLFLELNGNR  314 (386)
T ss_dssp             TCCEEECTTCC-CCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHH-HHHHCTTCCEEECTTSB
T ss_pred             CcCEEECCCCC-CchhhHHHHHHHHhhccCCCeEEEECcCCcCCHHHHHHHHHH-HHhcCCCceEEEccCCc
Confidence            99999999987 3332      233  458999999999975333    24432 22458999999999876

>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=99.36  E-value=3.9e-12  Score=129.58  Aligned_cols=167  Identities=19%  Similarity=0.226  Sum_probs=130.6

Q ss_pred             ccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCC
Q 041114          374 KEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARD  453 (680)
Q Consensus       374 ~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~  453 (680)
                      ....+++.+.+.++.+..+                +.  +..+++|++|+|++ +.+..+|. ++.+++|++|++++| .
T Consensus        43 ~~l~~L~~L~l~~~~i~~~----------------~~--~~~l~~L~~L~L~~-n~l~~~~~-l~~l~~L~~L~l~~n-~  101 (291)
T 1h6t_A           43 NELNSIDQIIANNSDIKSV----------------QG--IQYLPNVTKLFLNG-NKLTDIKP-LANLKNLGWLFLDEN-K  101 (291)
T ss_dssp             HHHHTCCEEECTTSCCCCC----------------TT--GGGCTTCCEEECCS-SCCCCCGG-GTTCTTCCEEECCSS-C
T ss_pred             hhcCcccEEEccCCCcccC----------------hh--HhcCCCCCEEEccC-CccCCCcc-cccCCCCCEEECCCC-c
Confidence            3456889999988877643                32  67789999999999 48888887 899999999999999 7


Q ss_pred             ccccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCccccc
Q 041114          454 LVTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVI  531 (680)
Q Consensus       454 l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~  531 (680)
                      ++.+|.  ++.+++|++|++++|.  .+..+..+++|+.|++..+....+..+    ..+++|+.|+++++. +...+  
T Consensus       102 l~~~~~--l~~l~~L~~L~L~~n~i~~~~~l~~l~~L~~L~l~~n~l~~~~~l----~~l~~L~~L~L~~N~-l~~~~--  172 (291)
T 1h6t_A          102 VKDLSS--LKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNNKITDITVL----SRLTKLDTLSLEDNQ-ISDIV--  172 (291)
T ss_dssp             CCCGGG--GTTCTTCCEEECTTSCCCCCGGGGGCTTCCEEECCSSCCCCCGGG----GGCTTCSEEECCSSC-CCCCG--
T ss_pred             CCCChh--hccCCCCCEEECCCCcCCCChhhcCCCCCCEEEccCCcCCcchhh----ccCCCCCEEEccCCc-cccch--
Confidence            888876  8999999999999886  456778889999999986655555333    234589999999886 45444  


Q ss_pred             ccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCC
Q 041114          532 ALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCP  583 (680)
Q Consensus       532 ~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~  583 (680)
                      .+..+++|+.|+++++ .++.++  .+          ..+++|+.|++++++
T Consensus       173 ~l~~l~~L~~L~L~~N-~i~~l~--~l----------~~l~~L~~L~l~~n~  211 (291)
T 1h6t_A          173 PLAGLTKLQNLYLSKN-HISDLR--AL----------AGLKNLDVLELFSQE  211 (291)
T ss_dssp             GGTTCTTCCEEECCSS-CCCBCG--GG----------TTCTTCSEEEEEEEE
T ss_pred             hhcCCCccCEEECCCC-cCCCCh--hh----------ccCCCCCEEECcCCc
Confidence            3888999999999976 455432  12          578999999999976

>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=99.33  E-value=9.5e-12  Score=123.82  Aligned_cols=164  Identities=20%  Similarity=0.254  Sum_probs=102.2

Q ss_pred             ccccccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhh
Q 041114          403 YEFKMITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKE  481 (680)
Q Consensus       403 ~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~  481 (680)
                      +.+..+|..+   ...|+.|+|++ +.+..++ ..++.+++|++|+|++| .+..+|.+.+..+++|++|+++++..-  
T Consensus        24 ~~l~~~p~~~---~~~l~~L~L~~-n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~--   96 (251)
T 3m19_A           24 KSLDSVPSGI---PADTEKLDLQS-TGLATLSDATFRGLTKLTWLNLDYN-QLQTLSAGVFDDLTELGTLGLANNQLA--   96 (251)
T ss_dssp             CCCSSCCSCC---CTTCCEEECTT-SCCCCCCTTTTTTCTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECTTSCCC--
T ss_pred             CCccccCCCC---CCCCCEEEccC-CCcCccCHhHhcCcccCCEEECCCC-cCCccCHhHhccCCcCCEEECCCCccc--
Confidence            3455666652   25677777777 4666655 45777777777777777 677776655677777777777766311  


Q ss_pred             hcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCC
Q 041114          482 LLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGT  561 (680)
Q Consensus       482 l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~  561 (680)
                                        .+.  +.....+++|+.|+++++. +..++...+..+++|+.|+++++ .+..++...+   
T Consensus        97 ------------------~~~--~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~---  151 (251)
T 3m19_A           97 ------------------SLP--LGVFDHLTQLDKLYLGGNQ-LKSLPSGVFDRLTKLKELRLNTN-QLQSIPAGAF---  151 (251)
T ss_dssp             ------------------CCC--TTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTT---
T ss_pred             ------------------ccC--hhHhcccCCCCEEEcCCCc-CCCcChhHhccCCcccEEECcCC-cCCccCHHHc---
Confidence                              000  0011122366677776664 44444445677788888888764 4554433333   


Q ss_pred             ccCCCCCCCCCCccEEeeeCCCCCCCCC--CcCCCCCCCEEeEecCc
Q 041114          562 VLKSPQPFVFCSLHKVTITFCPKLKGLT--FLVFAPNLKCLSLFDCT  606 (680)
Q Consensus       562 ~l~~~~~~~l~~L~~L~L~~c~~l~~l~--~l~~l~~L~~L~l~~c~  606 (680)
                             ..+++|+.|+|+++. ++.++  .+..+++|++|++++++
T Consensus       152 -------~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~N~  190 (251)
T 3m19_A          152 -------DKLTNLQTLSLSTNQ-LQSVPHGAFDRLGKLQTITLFGNQ  190 (251)
T ss_dssp             -------TTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSCC
T ss_pred             -------CcCcCCCEEECCCCc-CCccCHHHHhCCCCCCEEEeeCCc
Confidence                   567788888888865 44444  36678888888887754

>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=99.32  E-value=5.2e-12  Score=141.34  Aligned_cols=168  Identities=19%  Similarity=0.218  Sum_probs=126.7

Q ss_pred             ccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCC
Q 041114          374 KEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARD  453 (680)
Q Consensus       374 ~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~  453 (680)
                      ..+.+++.|.+.++.+.                .+|.  |..+++|+.|+|++| .+..+|. ++.|++|++|+|++| .
T Consensus        40 ~~L~~L~~L~l~~n~i~----------------~l~~--l~~l~~L~~L~Ls~N-~l~~~~~-l~~l~~L~~L~Ls~N-~   98 (605)
T 1m9s_A           40 NELNSIDQIIANNSDIK----------------SVQG--IQYLPNVTKLFLNGN-KLTDIKP-LTNLKNLGWLFLDEN-K   98 (605)
T ss_dssp             HHHTTCCCCBCTTCCCC----------------CCTT--GGGCTTCCEEECTTS-CCCCCGG-GGGCTTCCEEECCSS-C
T ss_pred             hcCCCCCEEECcCCCCC----------------CChH--HccCCCCCEEEeeCC-CCCCChh-hccCCCCCEEECcCC-C
Confidence            34467777777776665                3442  778899999999994 8888876 889999999999999 7


Q ss_pred             ccccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCccccc
Q 041114          454 LVTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVI  531 (680)
Q Consensus       454 l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~  531 (680)
                      +..+|.  ++.|++|++|++++|.  .+..+..|++|+.|+++.+....+..+.    .+++|+.|+|++|. +...+  
T Consensus        99 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~~~~--  169 (605)
T 1m9s_A           99 IKDLSS--LKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNNKITDITVLS----RLTKLDTLSLEDNQ-ISDIV--  169 (605)
T ss_dssp             CCCCTT--STTCTTCCEEECTTSCCCCCGGGGGCTTCSEEECCSSCCCCCGGGG----SCTTCSEEECCSSC-CCCCG--
T ss_pred             CCCChh--hccCCCCCEEEecCCCCCCCccccCCCccCEEECCCCccCCchhhc----ccCCCCEEECcCCc-CCCch--
Confidence            888874  8999999999999876  4567788889999998866655553332    34589999999886 44443  


Q ss_pred             ccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCC
Q 041114          532 ALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPK  584 (680)
Q Consensus       532 ~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~  584 (680)
                      .+..+++|+.|+|++| .+..+  ..+          ..+++|+.|+|++|+.
T Consensus       170 ~l~~l~~L~~L~Ls~N-~i~~l--~~l----------~~l~~L~~L~L~~N~l  209 (605)
T 1m9s_A          170 PLAGLTKLQNLYLSKN-HISDL--RAL----------AGLKNLDVLELFSQEC  209 (605)
T ss_dssp             GGTTCTTCCEEECCSS-CCCBC--GGG----------TTCTTCSEEECCSEEE
T ss_pred             hhccCCCCCEEECcCC-CCCCC--hHH----------ccCCCCCEEEccCCcC
Confidence            3788999999999876 44433  122          5788999999998763

>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=99.32  E-value=3.8e-12  Score=121.64  Aligned_cols=148  Identities=18%  Similarity=0.195  Sum_probs=104.2

Q ss_pred             hccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcc----hhhhcCCCCC
Q 041114          413 FQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVL----AKELLGLKHL  488 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~----~~~l~~L~~L  488 (680)
                      ...+++|++|++++ +.+..+| ++..+++|++|++++| .+..+|.  ++.+++|++|++++|..    +..+..+   
T Consensus        40 ~~~l~~L~~L~l~~-n~i~~l~-~l~~l~~L~~L~l~~n-~~~~~~~--l~~l~~L~~L~l~~n~l~~~~~~~l~~l---  111 (197)
T 4ezg_A           40 EAQMNSLTYITLAN-INVTDLT-GIEYAHNIKDLTINNI-HATNYNP--ISGLSNLERLRIMGKDVTSDKIPNLSGL---  111 (197)
T ss_dssp             HHHHHTCCEEEEES-SCCSCCT-TGGGCTTCSEEEEESC-CCSCCGG--GTTCTTCCEEEEECTTCBGGGSCCCTTC---
T ss_pred             hhhcCCccEEeccC-CCccChH-HHhcCCCCCEEEccCC-CCCcchh--hhcCCCCCEEEeECCccCcccChhhcCC---
Confidence            35678899999998 5888888 7889999999999998 7877764  88899999999888742    1222222   


Q ss_pred             ceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCC
Q 041114          489 EELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQP  568 (680)
Q Consensus       489 ~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~  568 (680)
                                             ++|+.|+++++. +.......+..+++|+.|++++|..+..++  .+          
T Consensus       112 -----------------------~~L~~L~Ls~n~-i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~--~l----------  155 (197)
T 4ezg_A          112 -----------------------TSLTLLDISHSA-HDDSILTKINTLPKVNSIDLSYNGAITDIM--PL----------  155 (197)
T ss_dssp             -----------------------TTCCEEECCSSB-CBGGGHHHHTTCSSCCEEECCSCTBCCCCG--GG----------
T ss_pred             -----------------------CCCCEEEecCCc-cCcHhHHHHhhCCCCCEEEccCCCCccccH--hh----------
Confidence                                   255566666554 222112356777888888888765455432  12          


Q ss_pred             CCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecC
Q 041114          569 FVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDC  605 (680)
Q Consensus       569 ~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c  605 (680)
                      ..+++|+.|++++|. +..++.+..+++|++|++++.
T Consensus       156 ~~l~~L~~L~l~~n~-i~~~~~l~~l~~L~~L~l~~N  191 (197)
T 4ezg_A          156 KTLPELKSLNIQFDG-VHDYRGIEDFPKLNQLYAFSQ  191 (197)
T ss_dssp             GGCSSCCEEECTTBC-CCCCTTGGGCSSCCEEEECBC
T ss_pred             cCCCCCCEEECCCCC-CcChHHhccCCCCCEEEeeCc
Confidence            567888888888865 566667778888888888774

>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=99.29  E-value=2.4e-11  Score=120.92  Aligned_cols=173  Identities=23%  Similarity=0.271  Sum_probs=121.4

Q ss_pred             EEEecCCCcccccccccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccc-hhh
Q 041114          359 FLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELL-GEL  437 (680)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i  437 (680)
                      .+...+..+..+|.... .+++.|.+.+|.+.                .+++..|.++++|++|+|++| .+..+| ..+
T Consensus        18 ~l~~~~~~l~~~p~~~~-~~l~~L~L~~n~l~----------------~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~   79 (251)
T 3m19_A           18 EVDCQGKSLDSVPSGIP-ADTEKLDLQSTGLA----------------TLSDATFRGLTKLTWLNLDYN-QLQTLSAGVF   79 (251)
T ss_dssp             EEECTTCCCSSCCSCCC-TTCCEEECTTSCCC----------------CCCTTTTTTCTTCCEEECTTS-CCCCCCTTTT
T ss_pred             EEecCCCCccccCCCCC-CCCCEEEccCCCcC----------------ccCHhHhcCcccCCEEECCCC-cCCccCHhHh
Confidence            34455555555554322 46667777666654                455555889999999999994 888776 458


Q ss_pred             hccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEE
Q 041114          438 KALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRAL  517 (680)
Q Consensus       438 ~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L  517 (680)
                      ..+++|++|+|++| .++.+|...++.+++|++|++++|..- .+.                     +.....+++|+.|
T Consensus        80 ~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~N~l~-~~~---------------------~~~~~~l~~L~~L  136 (251)
T 3m19_A           80 DDLTELGTLGLANN-QLASLPLGVFDHLTQLDKLYLGGNQLK-SLP---------------------SGVFDRLTKLKEL  136 (251)
T ss_dssp             TTCTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECCSSCCC-CCC---------------------TTTTTTCTTCCEE
T ss_pred             ccCCcCCEEECCCC-cccccChhHhcccCCCCEEEcCCCcCC-CcC---------------------hhHhccCCcccEE
Confidence            99999999999999 799999776899999999999987411 100                     0001122367777


Q ss_pred             EEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCC
Q 041114          518 VLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPK  584 (680)
Q Consensus       518 ~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~  584 (680)
                      +++++. +..++...+..+++|+.|+++++ .+..++...+          ..+++|+.|+|++++.
T Consensus       137 ~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~----------~~l~~L~~L~l~~N~~  191 (251)
T 3m19_A          137 RLNTNQ-LQSIPAGAFDKLTNLQTLSLSTN-QLQSVPHGAF----------DRLGKLQTITLFGNQF  191 (251)
T ss_dssp             ECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCSCCCTTTT----------TTCTTCCEEECCSCCB
T ss_pred             ECcCCc-CCccCHHHcCcCcCCCEEECCCC-cCCccCHHHH----------hCCCCCCEEEeeCCce
Confidence            777764 45555446788899999999875 4555544333          5678999999999774

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

Probab=99.28  E-value=4.4e-12  Score=130.50  Aligned_cols=201  Identities=15%  Similarity=0.071  Sum_probs=123.7

Q ss_pred             cCCcceEEEccCCCCcc-ccchhh--hccCCCCEEeccCCCCccc-cc---hhhhcCCCCCcEeeccCCcc----hhhhc
Q 041114          415 FMPLLKVLNMSRETNIK-ELLGEL--KALVNLKCVNLEWARDLVT-IP---LEVISNFSKLRVLRLFGTVL----AKELL  483 (680)
Q Consensus       415 ~l~~Lr~LdL~~~~~i~-~lP~~i--~~L~~Lr~L~L~~~~~l~~-lP---~~~i~~L~~L~~L~l~~~~~----~~~l~  483 (680)
                      .+++|++|++++| .+. ..|..+  +.+++|++|++++| .+.. .|   ...+..+++|++|++++|..    +..+.
T Consensus        89 ~~~~L~~L~l~~n-~l~~~~~~~~~~~~~~~L~~L~Ls~n-~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~  166 (310)
T 4glp_A           89 AYSRLKELTLEDL-KITGTMPPLPLEATGLALSSLRLRNV-SWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVR  166 (310)
T ss_dssp             HHSCCCEEEEESC-CCBSCCCCCSSSCCCBCCSSCEEESC-CCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCC
T ss_pred             ccCceeEEEeeCC-EeccchhhhhhhccCCCCCEEEeecc-cccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhc
Confidence            3466899999885 554 566666  88889999999988 5664 22   11256788899999988762    34566


Q ss_pred             CCCCCceeEEEeccchhhhhhhhc--hhhhccccEEEEeccCCCCccccc---ccccCCCCCEEEEeccCCcceeecccC
Q 041114          484 GLKHLEELDFTLRCVHSLQILVSS--NKLQSCTRALVLIRFKDSKSIDVI---ALARLKHLSTLHFSKCEELEEWKTDYT  558 (680)
Q Consensus       484 ~L~~L~~L~i~~~~~~~l~~l~~~--~~l~~~L~~L~l~~~~~~~~~~~~---~l~~l~~L~~L~l~~~~~l~~l~~~~~  558 (680)
                      .+++|+.|+++.+.......++..  ...+++|+.|+++++. +..++..   .+..+++|++|+++++. +....+...
T Consensus       167 ~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~-l~~l~~~~~~l~~~l~~L~~L~Ls~N~-l~~~~p~~~  244 (310)
T 4glp_A          167 AFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTG-METPTGVCAALAAAGVQPHSLDLSHNS-LRATVNPSA  244 (310)
T ss_dssp             CCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSC-CCCHHHHHHHHHHHTCCCSSEECTTSC-CCCCCCSCC
T ss_pred             cCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCC-CCchHHHHHHHHhcCCCCCEEECCCCC-CCccchhhH
Confidence            788888888876554332222211  1334578888888775 3333311   23567888888887653 443322211


Q ss_pred             CCCccCCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccc
Q 041114          559 SGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCA  632 (680)
Q Consensus       559 ~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~  632 (680)
                      .       ....+++|++|+|++|. ++.+|. ..+++|++|+++++ .+..++.   ...+|+|+.|++++.+
T Consensus       245 ~-------~~~~~~~L~~L~Ls~N~-l~~lp~-~~~~~L~~L~Ls~N-~l~~~~~---~~~l~~L~~L~L~~N~  305 (310)
T 4glp_A          245 P-------RCMWSSALNSLNLSFAG-LEQVPK-GLPAKLRVLDLSSN-RLNRAPQ---PDELPEVDNLTLDGNP  305 (310)
T ss_dssp             S-------SCCCCTTCCCEECCSSC-CCSCCS-CCCSCCSCEECCSC-CCCSCCC---TTSCCCCSCEECSSTT
T ss_pred             H-------hccCcCcCCEEECCCCC-CCchhh-hhcCCCCEEECCCC-cCCCCch---hhhCCCccEEECcCCC
Confidence            1       00123688888888765 445553 22378888888874 3554432   2567777777776644

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

Probab=99.26  E-value=5e-12  Score=126.69  Aligned_cols=155  Identities=16%  Similarity=0.180  Sum_probs=105.8

Q ss_pred             ccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhh
Q 041114          403 YEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKEL  482 (680)
Q Consensus       403 ~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l  482 (680)
                      +.+..++.  +..+++|++|++++| .+..+| .++.+++|++|++++| .+..+|.  ++++++|++|++++|.     
T Consensus        29 ~~i~~~~~--~~~l~~L~~L~l~~n-~i~~l~-~l~~l~~L~~L~L~~N-~i~~~~~--l~~l~~L~~L~L~~N~-----   96 (263)
T 1xeu_A           29 QSVTDLVS--QKELSGVQNFNGDNS-NIQSLA-GMQFFTNLKELHLSHN-QISDLSP--LKDLTKLEELSVNRNR-----   96 (263)
T ss_dssp             SCTTSEEC--HHHHTTCSEEECTTS-CCCCCT-TGGGCTTCCEEECCSS-CCCCCGG--GTTCSSCCEEECCSSC-----
T ss_pred             CCcccccc--hhhcCcCcEEECcCC-Ccccch-HHhhCCCCCEEECCCC-ccCCChh--hccCCCCCEEECCCCc-----
Confidence            34444542  556677777777773 666666 5667777777777776 5666665  6667777777776653     


Q ss_pred             cCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCc
Q 041114          483 LGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTV  562 (680)
Q Consensus       483 ~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~  562 (680)
                                     ...+..   ...  .+|+.|+++++. +...+  .+..+++|+.|+++++ .++.++  .+    
T Consensus        97 ---------------l~~l~~---~~~--~~L~~L~L~~N~-l~~~~--~l~~l~~L~~L~Ls~N-~i~~~~--~l----  146 (263)
T 1xeu_A           97 ---------------LKNLNG---IPS--ACLSRLFLDNNE-LRDTD--SLIHLKNLEILSIRNN-KLKSIV--ML----  146 (263)
T ss_dssp             ---------------CSCCTT---CCC--SSCCEEECCSSC-CSBSG--GGTTCTTCCEEECTTS-CCCBCG--GG----
T ss_pred             ---------------cCCcCc---ccc--CcccEEEccCCc-cCCCh--hhcCcccccEEECCCC-cCCCCh--HH----
Confidence                           111111   111  478889988875 55544  6888999999999875 455442  22    


Q ss_pred             cCCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCc
Q 041114          563 LKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCT  606 (680)
Q Consensus       563 l~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~  606 (680)
                            ..+++|+.|++++|. +..++.+..+++|+.|++++++
T Consensus       147 ------~~l~~L~~L~L~~N~-i~~~~~l~~l~~L~~L~l~~N~  183 (263)
T 1xeu_A          147 ------GFLSKLEVLDLHGNE-ITNTGGLTRLKKVNWIDLTGQK  183 (263)
T ss_dssp             ------GGCTTCCEEECTTSC-CCBCTTSTTCCCCCEEEEEEEE
T ss_pred             ------ccCCCCCEEECCCCc-CcchHHhccCCCCCEEeCCCCc
Confidence                  578999999999976 5556788899999999999854

>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=99.26  E-value=3.5e-12  Score=135.57  Aligned_cols=222  Identities=14%  Similarity=0.054  Sum_probs=148.6

Q ss_pred             ccccchhhhccCCcceEEEccCCCCccc-----cchhhhccCCCCEEeccCCCCcc----ccchhh------hcCCCCCc
Q 041114          405 FKMITDGFFQFMPLLKVLNMSRETNIKE-----LLGELKALVNLKCVNLEWARDLV----TIPLEV------ISNFSKLR  469 (680)
Q Consensus       405 l~~lp~~~~~~l~~Lr~LdL~~~~~i~~-----lP~~i~~L~~Lr~L~L~~~~~l~----~lP~~~------i~~L~~L~  469 (680)
                      +..++.. +..+++|++|+|++| .+..     ++..+..+++|++|+|++| .+.    .+|.++      +.++++|+
T Consensus        21 ~~~l~~~-l~~~~~L~~L~L~~n-~i~~~~~~~l~~~l~~~~~L~~L~Ls~~-~~~~l~~~~~~~~~~l~~~l~~~~~L~   97 (386)
T 2ca6_A           21 EKSVFAV-LLEDDSVKEIVLSGN-TIGTEAARWLSENIASKKDLEIAEFSDI-FTGRVKDEIPEALRLLLQALLKCPKLH   97 (386)
T ss_dssp             HHTTSHH-HHHCSCCCEEECTTS-EECHHHHHHHHHTTTTCTTCCEEECCSC-CTTSCGGGSHHHHHHHHHHHTTCTTCC
T ss_pred             HHHHHHH-HhcCCCccEEECCCC-CCCHHHHHHHHHHHHhCCCccEEeCccc-ccCccccchhHHHHHHHHHHhhCCccc
Confidence            3355655 788999999999995 6654     4445778999999999998 454    345441      37899999


Q ss_pred             EeeccCCcc--------hhhhcCCCCCceeEEEeccchh--hhhhhhchhhh---------ccccEEEEeccCCC-Cccc
Q 041114          470 VLRLFGTVL--------AKELLGLKHLEELDFTLRCVHS--LQILVSSNKLQ---------SCTRALVLIRFKDS-KSID  529 (680)
Q Consensus       470 ~L~l~~~~~--------~~~l~~L~~L~~L~i~~~~~~~--l~~l~~~~~l~---------~~L~~L~l~~~~~~-~~~~  529 (680)
                      +|++++|..        +..+.++++|+.|++..+....  ...++.....+         ++|+.|+++++.-. ...+
T Consensus        98 ~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~  177 (386)
T 2ca6_A           98 TVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMK  177 (386)
T ss_dssp             EEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHH
T ss_pred             EEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHH
Confidence            999998862        3367889999999998665432  22233322222         69999999998632 1222


Q ss_pred             c--cccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCC----CCCC-CcCCCCCCCEEeE
Q 041114          530 V--IALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKL----KGLT-FLVFAPNLKCLSL  602 (680)
Q Consensus       530 ~--~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l----~~l~-~l~~l~~L~~L~l  602 (680)
                      .  ..+..+++|++|++++|. +........     .+..+..+++|++|+|++|..-    ..+| .+..+++|++|++
T Consensus       178 ~l~~~l~~~~~L~~L~L~~n~-l~~~g~~~l-----~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L  251 (386)
T 2ca6_A          178 EWAKTFQSHRLLHTVKMVQNG-IRPEGIEHL-----LLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGL  251 (386)
T ss_dssp             HHHHHHHHCTTCCEEECCSSC-CCHHHHHHH-----HHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEEC
T ss_pred             HHHHHHHhCCCcCEEECcCCC-CCHhHHHHH-----HHHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEEC
Confidence            1  256688999999999874 331100000     0012257899999999998731    2333 4678999999999


Q ss_pred             ecCcchhH----hhhcCCCCCCCcccccCccccccCCC
Q 041114          603 FDCTAMEE----IISAGKFVHTPEMMGNTMDPCAKLRK  636 (680)
Q Consensus       603 ~~c~~l~~----i~~~~~~~~lp~L~~L~i~~C~~L~~  636 (680)
                      ++|..-..    ++.....+.+++|+.|++++|+ +..
T Consensus       252 ~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~-i~~  288 (386)
T 2ca6_A          252 NDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNE-IEL  288 (386)
T ss_dssp             TTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSC-CBH
T ss_pred             CCCCCchhhHHHHHHHHhhccCCCeEEEECcCCc-CCH
Confidence            99763222    2222111458999999998875 554

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

Probab=99.24  E-value=3.8e-11  Score=115.73  Aligned_cols=148  Identities=18%  Similarity=0.180  Sum_probs=83.8

Q ss_pred             CCcceEEEccCCCCccccchh-hhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCCCCCceeEEE
Q 041114          416 MPLLKVLNMSRETNIKELLGE-LKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFT  494 (680)
Q Consensus       416 l~~Lr~LdL~~~~~i~~lP~~-i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L~~L~~L~i~  494 (680)
                      .++|++|++++ +.+..+|.. ++.+++|++|++++| .++.+|...++.+++|++|++++|..- .+.           
T Consensus        27 ~~~l~~L~l~~-n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~l~-~~~-----------   92 (208)
T 2o6s_A           27 PAQTTYLDLET-NSLKSLPNGVFDELTSLTQLYLGGN-KLQSLPNGVFNKLTSLTYLNLSTNQLQ-SLP-----------   92 (208)
T ss_dssp             CTTCSEEECCS-SCCCCCCTTTTTTCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCC-CCC-----------
T ss_pred             CCCCcEEEcCC-CccCcCChhhhcccccCcEEECCCC-ccCccChhhcCCCCCcCEEECCCCcCC-ccC-----------
Confidence            35677777777 366666643 567777777777777 677777654567777777777765310 000           


Q ss_pred             eccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCc
Q 041114          495 LRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSL  574 (680)
Q Consensus       495 ~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L  574 (680)
                                +.....+++|+.|+++++. +..++...+..+++|+.|+++++ .+..++...+          ..+++|
T Consensus        93 ----------~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~----------~~l~~L  150 (208)
T 2o6s_A           93 ----------NGVFDKLTQLKELALNTNQ-LQSLPDGVFDKLTQLKDLRLYQN-QLKSVPDGVF----------DRLTSL  150 (208)
T ss_dssp             ----------TTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCSCCCTTTT----------TTCTTC
T ss_pred             ----------HhHhcCccCCCEEEcCCCc-CcccCHhHhccCCcCCEEECCCC-ccceeCHHHh----------ccCCCc
Confidence                      0000111244444444443 33333234566777777777764 3443333222          456777


Q ss_pred             cEEeeeCCCCCCCCCCcCCCCCCCEEeEecC
Q 041114          575 HKVTITFCPKLKGLTFLVFAPNLKCLSLFDC  605 (680)
Q Consensus       575 ~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c  605 (680)
                      +.|++++++      +.+.+++|++|+++.+
T Consensus       151 ~~L~l~~N~------~~~~~~~l~~L~~~~n  175 (208)
T 2o6s_A          151 QYIWLHDNP------WDCTCPGIRYLSEWIN  175 (208)
T ss_dssp             CEEECCSCC------BCCCTTTTHHHHHHHH
T ss_pred             cEEEecCCC------eecCCCCHHHHHHHHH
Confidence            777777763      3455666777766653

>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=99.21  E-value=9.9e-11  Score=132.66  Aligned_cols=199  Identities=16%  Similarity=0.138  Sum_probs=107.5

Q ss_pred             ccCCcceEEEccCCCCcc---ccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc-----chhhhcCC
Q 041114          414 QFMPLLKVLNMSRETNIK---ELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV-----LAKELLGL  485 (680)
Q Consensus       414 ~~l~~Lr~LdL~~~~~i~---~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~-----~~~~l~~L  485 (680)
                      ..+++|++|++++| .+.   ..|..+..+.+|++|++..+ ....++.. +..+.+|+.+++.++.     ....+..+
T Consensus       368 ~~l~~L~~L~ls~n-~l~~~~~~~~~~~~~~~L~~L~~~~~-~~~~~~~~-~~~l~~L~~l~l~~~~~~~~~~~~~~~~l  444 (635)
T 4g8a_A          368 VDLPSLEFLDLSRN-GLSFKGCCSQSDFGTISLKYLDLSFN-GVITMSSN-FLGLEQLEHLDFQHSNLKQMSEFSVFLSL  444 (635)
T ss_dssp             CBCTTCCEEECCSS-CCBEEEECCHHHHSCSCCCEEECCSC-SEEEECSC-CTTCTTCCEEECTTSEEESTTSSCTTTTC
T ss_pred             ccccccccchhhcc-ccccccccccchhhhhhhhhhhcccc-cccccccc-ccccccccchhhhhccccccccccccccc
Confidence            45677777777774 332   34556667777777777777 56666665 6677777777776654     12234455


Q ss_pred             CCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCC
Q 041114          486 KHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKS  565 (680)
Q Consensus       486 ~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~  565 (680)
                      ++++.+++..+......  +......++++.|+++++..........+..+++|+.|+++++ .++.+++..+       
T Consensus       445 ~~l~~l~ls~n~l~~~~--~~~~~~~~~L~~L~Ls~N~~~~~~~~~~~~~l~~L~~L~Ls~N-~L~~l~~~~f-------  514 (635)
T 4g8a_A          445 RNLIYLDISHTHTRVAF--NGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAF-------  514 (635)
T ss_dssp             TTCCEEECTTSCCEECC--TTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTS-CCCEECTTTT-------
T ss_pred             ccccccccccccccccc--ccccccchhhhhhhhhhcccccccCchhhhhccccCEEECCCC-ccCCcChHHH-------
Confidence            56665555433222111  1122233456666666554333222235566666666666654 4444433333       


Q ss_pred             CCCCCCCCccEEeeeCCCCCCCCC--CcCCCCCCCEEeEecCcchhHhhhcCCCCCC-CcccccCcccc
Q 041114          566 PQPFVFCSLHKVTITFCPKLKGLT--FLVFAPNLKCLSLFDCTAMEEIISAGKFVHT-PEMMGNTMDPC  631 (680)
Q Consensus       566 ~~~~~l~~L~~L~L~~c~~l~~l~--~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~l-p~L~~L~i~~C  631 (680)
                         ..+++|+.|+|+++. ++.++  .+..+++|++|+++++ .+..++.. .++.+ ++|+.|+++++
T Consensus       515 ---~~l~~L~~L~Ls~N~-l~~l~~~~~~~l~~L~~L~Ls~N-~l~~~~~~-~l~~l~~~L~~L~L~~N  577 (635)
T 4g8a_A          515 ---NSLSSLQVLNMSHNN-FFSLDTFPYKCLNSLQVLDYSLN-HIMTSKKQ-ELQHFPSSLAFLNLTQN  577 (635)
T ss_dssp             ---TTCTTCCEEECTTSC-CCBCCCGGGTTCTTCCEEECTTS-CCCBCCSS-CTTCCCTTCCEEECTTC
T ss_pred             ---cCCCCCCEEECCCCc-CCCCChhHHhCCCCCCEEECCCC-cCCCCCHH-HHHhhhCcCCEEEeeCC
Confidence               456666666666654 34433  2456666666666663 34444332 22334 35555555543

>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=99.20  E-value=1.6e-11  Score=138.32  Aligned_cols=83  Identities=12%  Similarity=0.121  Sum_probs=45.3

Q ss_pred             CCCCccEEeeeCCCC-CCC--CCCc-CCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCC--CCCCCc-
Q 041114          570 VFCSLHKVTITFCPK-LKG--LTFL-VFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRK--LPLDSN-  642 (680)
Q Consensus       570 ~l~~L~~L~L~~c~~-l~~--l~~l-~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~--lP~~~~-  642 (680)
                      .+++|++|+++.|.. +..  +..+ ..+++|++|++++|. +...........+++|+.|++++|+ +..  +|.... 
T Consensus       434 ~~~~L~~L~L~~~~~~l~~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~~~~~~~~~~L~~L~l~~n~-l~~~~~~~~~~~  511 (592)
T 3ogk_B          434 GCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVG-ESDEGLMEFSRGCPNLQKLEMRGCC-FSERAIAAAVTK  511 (592)
T ss_dssp             HCTTCCEEEEECCGGGCCHHHHHHHHHSCTTCCEEEECSCC-SSHHHHHHHHTCCTTCCEEEEESCC-CBHHHHHHHHHH
T ss_pred             hCCCCCEEEEecCCCCccHHHHHHHHHhCccceEeeccCCC-CCHHHHHHHHhcCcccCeeeccCCC-CcHHHHHHHHHh
Confidence            356677777766553 111  1112 246778888887765 3321111122457888888888887 432  221111 


Q ss_pred             -cccCcceEEecc
Q 041114          643 -SALEHKIAIRGE  654 (680)
Q Consensus       643 -~~l~~L~i~~~~  654 (680)
                       ..|+.|.+.+|.
T Consensus       512 l~~L~~L~ls~n~  524 (592)
T 3ogk_B          512 LPSLRYLWVQGYR  524 (592)
T ss_dssp             CSSCCEEEEESCB
T ss_pred             cCccCeeECcCCc
Confidence             137777777776

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.19  E-value=3.6e-11  Score=126.59  Aligned_cols=231  Identities=16%  Similarity=0.076  Sum_probs=147.0

Q ss_pred             cceEEEEeecccccccccCCCCccccccccccchhhhccCC-cceEEEccCCCCcccc-chhhhcc-----CCCCEEecc
Q 041114          377 ETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMP-LLKVLNMSRETNIKEL-LGELKAL-----VNLKCVNLE  449 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~-~Lr~LdL~~~~~i~~l-P~~i~~L-----~~Lr~L~L~  449 (680)
                      .++++|.+++|.+...+..           .+. ..|..++ +|++|+|++| .+... |..+..+     ++|++|+|+
T Consensus        22 ~~L~~L~Ls~n~l~~~~~~-----------~l~-~~l~~~~~~L~~L~Ls~N-~l~~~~~~~l~~~l~~~~~~L~~L~Ls   88 (362)
T 3goz_A           22 HGVTSLDLSLNNLYSISTV-----------ELI-QAFANTPASVTSLNLSGN-SLGFKNSDELVQILAAIPANVTSLNLS   88 (362)
T ss_dssp             TTCCEEECTTSCGGGSCHH-----------HHH-HHHHTCCTTCCEEECCSS-CGGGSCHHHHHHHHHTSCTTCCEEECC
T ss_pred             CCceEEEccCCCCChHHHH-----------HHH-HHHHhCCCceeEEECcCC-CCCHHHHHHHHHHHhccCCCccEEECc
Confidence            4588999988877643210           111 3477788 8999999995 77665 5667765     899999999


Q ss_pred             CCCCccccchhh----hcCC-CCCcEeeccCCcc----hhh----hcCC-CCCceeEEEeccch--hhhhhhhchhhh-c
Q 041114          450 WARDLVTIPLEV----ISNF-SKLRVLRLFGTVL----AKE----LLGL-KHLEELDFTLRCVH--SLQILVSSNKLQ-S  512 (680)
Q Consensus       450 ~~~~l~~lP~~~----i~~L-~~L~~L~l~~~~~----~~~----l~~L-~~L~~L~i~~~~~~--~l~~l~~~~~l~-~  512 (680)
                      +| .+...+...    +..+ ++|++|++++|..    +..    +..+ ++|+.|+++.+...  ....+....... .
T Consensus        89 ~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~  167 (362)
T 3goz_A           89 GN-FLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPA  167 (362)
T ss_dssp             SS-CGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCT
T ss_pred             CC-cCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCc
Confidence            99 687655432    3344 8999999998862    222    3443 58999998755443  122333322222 4


Q ss_pred             cccEEEEeccCCCCccccc----ccccC-CCCCEEEEeccCCcceeecccCCCCccCCCCCCC-CCCccEEeeeCCCCCC
Q 041114          513 CTRALVLIRFKDSKSIDVI----ALARL-KHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFV-FCSLHKVTITFCPKLK  586 (680)
Q Consensus       513 ~L~~L~l~~~~~~~~~~~~----~l~~l-~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~-l~~L~~L~L~~c~~l~  586 (680)
                      +|+.|++++|. +......    .+... ++|+.|+++++. +.......+.      ..+.. .++|++|+|++|. ++
T Consensus       168 ~L~~L~Ls~n~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-i~~~~~~~l~------~~l~~~~~~L~~L~Ls~N~-l~  238 (362)
T 3goz_A          168 NVNSLNLRGNN-LASKNCAELAKFLASIPASVTSLDLSANL-LGLKSYAELA------YIFSSIPNHVVSLNLCLNC-LH  238 (362)
T ss_dssp             TCCEEECTTSC-GGGSCHHHHHHHHHTSCTTCCEEECTTSC-GGGSCHHHHH------HHHHHSCTTCCEEECCSSC-CC
T ss_pred             cccEeeecCCC-CchhhHHHHHHHHHhCCCCCCEEECCCCC-CChhHHHHHH------HHHhcCCCCceEEECcCCC-CC
Confidence            89999999885 3332221    33445 599999999764 4431111110      00012 3689999999975 55


Q ss_pred             CCC------CcCCCCCCCEEeEecCc-------chhHhhhcCCCCCCCcccccCccccc
Q 041114          587 GLT------FLVFAPNLKCLSLFDCT-------AMEEIISAGKFVHTPEMMGNTMDPCA  632 (680)
Q Consensus       587 ~l~------~l~~l~~L~~L~l~~c~-------~l~~i~~~~~~~~lp~L~~L~i~~C~  632 (680)
                      ..+      .+..+++|+.|++++|.       .+..+..  .+..+++|+.|++++++
T Consensus       239 ~~~~~~l~~~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~--~~~~l~~L~~LdL~~N~  295 (362)
T 3goz_A          239 GPSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGA--AFPNIQKIILVDKNGKE  295 (362)
T ss_dssp             CCCHHHHHHTTTTTTTCSEEEEEHHHHTTCCHHHHHHHHT--TSTTCCEEEEECTTSCB
T ss_pred             cHHHHHHHHHHhcCCCccEEEeccCCccccCHHHHHHHHH--HhccCCceEEEecCCCc
Confidence            543      24678999999999875       1333322  33578888888888765

>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=99.18  E-value=1.1e-10  Score=111.29  Aligned_cols=147  Identities=14%  Similarity=0.172  Sum_probs=99.4

Q ss_pred             ccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCC
Q 041114          374 KEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARD  453 (680)
Q Consensus       374 ~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~  453 (680)
                      ....+++++.+.++.+..                +| + +..+++|++|++++| .+..+| .+..+++|++|++++| .
T Consensus        41 ~~l~~L~~L~l~~n~i~~----------------l~-~-l~~l~~L~~L~l~~n-~~~~~~-~l~~l~~L~~L~l~~n-~   99 (197)
T 4ezg_A           41 AQMNSLTYITLANINVTD----------------LT-G-IEYAHNIKDLTINNI-HATNYN-PISGLSNLERLRIMGK-D   99 (197)
T ss_dssp             HHHHTCCEEEEESSCCSC----------------CT-T-GGGCTTCSEEEEESC-CCSCCG-GGTTCTTCCEEEEECT-T
T ss_pred             hhcCCccEEeccCCCccC----------------hH-H-HhcCCCCCEEEccCC-CCCcch-hhhcCCCCCEEEeECC-c
Confidence            344689999999887763                44 2 778999999999996 776665 8899999999999999 6


Q ss_pred             ccc-cchhhhcCCCCCcEeeccCCcc----hhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcc
Q 041114          454 LVT-IPLEVISNFSKLRVLRLFGTVL----AKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSI  528 (680)
Q Consensus       454 l~~-lP~~~i~~L~~L~~L~l~~~~~----~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~  528 (680)
                      +.. .|.. ++++++|++|++++|..    +..+..+++|+                          .|++++|..+..+
T Consensus       100 l~~~~~~~-l~~l~~L~~L~Ls~n~i~~~~~~~l~~l~~L~--------------------------~L~L~~n~~i~~~  152 (197)
T 4ezg_A          100 VTSDKIPN-LSGLTSLTLLDISHSAHDDSILTKINTLPKVN--------------------------SIDLSYNGAITDI  152 (197)
T ss_dssp             CBGGGSCC-CTTCTTCCEEECCSSBCBGGGHHHHTTCSSCC--------------------------EEECCSCTBCCCC
T ss_pred             cCcccChh-hcCCCCCCEEEecCCccCcHhHHHHhhCCCCC--------------------------EEEccCCCCcccc
Confidence            775 5665 99999999999998752    33444444444                          4444444323333


Q ss_pred             cccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCC
Q 041114          529 DVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCP  583 (680)
Q Consensus       529 ~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~  583 (680)
                      +  .+..+++|+.|++++|. +..++  .          +..+++|+.|++++++
T Consensus       153 ~--~l~~l~~L~~L~l~~n~-i~~~~--~----------l~~l~~L~~L~l~~N~  192 (197)
T 4ezg_A          153 M--PLKTLPELKSLNIQFDG-VHDYR--G----------IEDFPKLNQLYAFSQT  192 (197)
T ss_dssp             G--GGGGCSSCCEEECTTBC-CCCCT--T----------GGGCSSCCEEEECBC-
T ss_pred             H--hhcCCCCCCEEECCCCC-CcChH--H----------hccCCCCCEEEeeCcc
Confidence            3  45666666777766542 33221  1          1456667777776654

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

Probab=99.18  E-value=9.2e-11  Score=117.45  Aligned_cols=132  Identities=24%  Similarity=0.225  Sum_probs=93.5

Q ss_pred             cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--ch
Q 041114          402 HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--LA  479 (680)
Q Consensus       402 ~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~  479 (680)
                      ++.+..+| . +..+++|++|+|++ +.+..+|. ++.+++|++|++++| .++.+|.  +.. .+|++|++++|.  .+
T Consensus        50 ~n~i~~l~-~-l~~l~~L~~L~L~~-N~i~~~~~-l~~l~~L~~L~L~~N-~l~~l~~--~~~-~~L~~L~L~~N~l~~~  121 (263)
T 1xeu_A           50 NSNIQSLA-G-MQFFTNLKELHLSH-NQISDLSP-LKDLTKLEELSVNRN-RLKNLNG--IPS-ACLSRLFLDNNELRDT  121 (263)
T ss_dssp             TSCCCCCT-T-GGGCTTCCEEECCS-SCCCCCGG-GTTCSSCCEEECCSS-CCSCCTT--CCC-SSCCEEECCSSCCSBS
T ss_pred             CCCcccch-H-HhhCCCCCEEECCC-CccCCChh-hccCCCCCEEECCCC-ccCCcCc--ccc-CcccEEEccCCccCCC
Confidence            55677787 3 88999999999999 48999987 999999999999999 7999987  455 999999999875  22


Q ss_pred             hhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCC
Q 041114          480 KELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTS  559 (680)
Q Consensus       480 ~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~  559 (680)
                      ..+..++                          +|+.|+++++. +...+  .+..+++|+.|+++++ .+..+  ..+ 
T Consensus       122 ~~l~~l~--------------------------~L~~L~Ls~N~-i~~~~--~l~~l~~L~~L~L~~N-~i~~~--~~l-  168 (263)
T 1xeu_A          122 DSLIHLK--------------------------NLEILSIRNNK-LKSIV--MLGFLSKLEVLDLHGN-EITNT--GGL-  168 (263)
T ss_dssp             GGGTTCT--------------------------TCCEEECTTSC-CCBCG--GGGGCTTCCEEECTTS-CCCBC--TTS-
T ss_pred             hhhcCcc--------------------------cccEEECCCCc-CCCCh--HHccCCCCCEEECCCC-cCcch--HHh-
Confidence            2333344                          45555555544 33333  4666777777777664 33322  222 


Q ss_pred             CCccCCCCCCCCCCccEEeeeCCC
Q 041114          560 GTVLKSPQPFVFCSLHKVTITFCP  583 (680)
Q Consensus       560 ~~~l~~~~~~~l~~L~~L~L~~c~  583 (680)
                               ..+++|+.|++++++
T Consensus       169 ---------~~l~~L~~L~l~~N~  183 (263)
T 1xeu_A          169 ---------TRLKKVNWIDLTGQK  183 (263)
T ss_dssp             ---------TTCCCCCEEEEEEEE
T ss_pred             ---------ccCCCCCEEeCCCCc
Confidence                     456777777777755

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

Probab=99.14  E-value=7.3e-11  Score=130.69  Aligned_cols=176  Identities=15%  Similarity=0.088  Sum_probs=106.2

Q ss_pred             cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcc--h
Q 041114          402 HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVL--A  479 (680)
Q Consensus       402 ~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~--~  479 (680)
                      ++.+..+|..+   +++|++|+|++ +.+..+|   +.+++|++|++++| .++.+|.  +++  +|++|++++|..  +
T Consensus        68 ~n~L~~lp~~l---~~~L~~L~Ls~-N~l~~ip---~~l~~L~~L~Ls~N-~l~~ip~--l~~--~L~~L~Ls~N~l~~l  135 (571)
T 3cvr_A           68 RLNLSSLPDNL---PPQITVLEITQ-NALISLP---ELPASLEYLDACDN-RLSTLPE--LPA--SLKHLDVDNNQLTML  135 (571)
T ss_dssp             SSCCSCCCSCC---CTTCSEEECCS-SCCSCCC---CCCTTCCEEECCSS-CCSCCCC--CCT--TCCEEECCSSCCSCC
T ss_pred             CCCCCccCHhH---cCCCCEEECcC-CCCcccc---cccCCCCEEEccCC-CCCCcch--hhc--CCCEEECCCCcCCCC
Confidence            44566677653   36788888888 4777777   45778888888887 6777776  554  788888877652  2


Q ss_pred             hhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCC
Q 041114          480 KELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTS  559 (680)
Q Consensus       480 ~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~  559 (680)
                      ..  .+++|+.|+++.+....   ++.   .+++|+.|+++++. +..++.  +.  ++|+.|+++++ .++.++.  +.
T Consensus       136 p~--~l~~L~~L~Ls~N~l~~---lp~---~l~~L~~L~Ls~N~-L~~lp~--l~--~~L~~L~Ls~N-~L~~lp~--~~  199 (571)
T 3cvr_A          136 PE--LPALLEYINADNNQLTM---LPE---LPTSLEVLSVRNNQ-LTFLPE--LP--ESLEALDVSTN-LLESLPA--VP  199 (571)
T ss_dssp             CC--CCTTCCEEECCSSCCSC---CCC---CCTTCCEEECCSSC-CSCCCC--CC--TTCCEEECCSS-CCSSCCC--CC
T ss_pred             CC--cCccccEEeCCCCccCc---CCC---cCCCcCEEECCCCC-CCCcch--hh--CCCCEEECcCC-CCCchhh--HH
Confidence            22  46677777776554333   222   34577778877775 444442  33  77788888764 4444432  21


Q ss_pred             CCccCCCCCCCCCCccEEeeeCCCCCCCCCC-cCCCCCCCEEeEecCcchhHh
Q 041114          560 GTVLKSPQPFVFCSLHKVTITFCPKLKGLTF-LVFAPNLKCLSLFDCTAMEEI  611 (680)
Q Consensus       560 ~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~-l~~l~~L~~L~l~~c~~l~~i  611 (680)
                      . .+    ....+.|+.|+|++|. ++.+|. +..+++|+.|++++++.-..+
T Consensus       200 ~-~L----~~~~~~L~~L~Ls~N~-l~~lp~~l~~l~~L~~L~L~~N~l~~~~  246 (571)
T 3cvr_A          200 V-RN----HHSEETEIFFRCRENR-ITHIPENILSLDPTCTIILEDNPLSSRI  246 (571)
T ss_dssp             -------------CCEEEECCSSC-CCCCCGGGGGSCTTEEEECCSSSCCHHH
T ss_pred             H-hh----hcccccceEEecCCCc-ceecCHHHhcCCCCCEEEeeCCcCCCcC
Confidence            0 00    0011223778887765 455553 666788888888776543433

>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=99.14  E-value=1.8e-12  Score=144.26  Aligned_cols=203  Identities=16%  Similarity=0.090  Sum_probs=131.7

Q ss_pred             ccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCcc-------------ccchhhhcCCCCCcEee-ccCCcch
Q 041114          414 QFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLV-------------TIPLEVISNFSKLRVLR-LFGTVLA  479 (680)
Q Consensus       414 ~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~-------------~lP~~~i~~L~~L~~L~-l~~~~~~  479 (680)
                      ..+++|+.|+|++ +.++.+|.+|++|++|+.|+++++..+.             .+|.. ++.|++|+.|+ ++.+ .+
T Consensus       346 ~~~~~L~~L~Ls~-n~L~~Lp~~i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~~-l~~l~~L~~L~~l~~n-~~  422 (567)
T 1dce_A          346 ATDEQLFRCELSV-EKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKET-LQYFSTLKAVDPMRAA-YL  422 (567)
T ss_dssp             STTTTSSSCCCCH-HHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHH-HHHHHHHHHHCGGGHH-HH
T ss_pred             ccCccceeccCCh-hhHHhhHHHHHHHHHHHHhccccchhhhhHHHHHHhcccccCCHHH-HHHHHhcccCcchhhc-cc
Confidence            5678888999998 5888999999999999999987663122             22332 45555555554 2211 11


Q ss_pred             hhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCC
Q 041114          480 KELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTS  559 (680)
Q Consensus       480 ~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~  559 (680)
                      .      +|..+.+.   ...+..++.     ..|+.|+++++. +..+|  .+..+++|+.|+++++ .+..++. .+ 
T Consensus       423 ~------~L~~l~l~---~n~i~~l~~-----~~L~~L~Ls~n~-l~~lp--~~~~l~~L~~L~Ls~N-~l~~lp~-~~-  482 (567)
T 1dce_A          423 D------DLRSKFLL---ENSVLKMEY-----ADVRVLHLAHKD-LTVLC--HLEQLLLVTHLDLSHN-RLRALPP-AL-  482 (567)
T ss_dssp             H------HHHHHHHH---HHHHHHHHH-----TTCSEEECTTSC-CSSCC--CGGGGTTCCEEECCSS-CCCCCCG-GG-
T ss_pred             c------hhhhhhhh---cccccccCc-----cCceEEEecCCC-CCCCc--CccccccCcEeecCcc-cccccch-hh-
Confidence            1      11111111   011222211     258889999875 56666  4889999999999875 4555533 22 


Q ss_pred             CCccCCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCC
Q 041114          560 GTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPL  639 (680)
Q Consensus       560 ~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~  639 (680)
                               +.+++|+.|+|+++. ++.+|.++.+++|+.|+++++ .+..++....++.+++|+.|++++++ |..+|.
T Consensus       483 ---------~~l~~L~~L~Ls~N~-l~~lp~l~~l~~L~~L~Ls~N-~l~~~~~p~~l~~l~~L~~L~L~~N~-l~~~~~  550 (567)
T 1dce_A          483 ---------AALRCLEVLQASDNA-LENVDGVANLPRLQELLLCNN-RLQQSAAIQPLVSCPRLVLLNLQGNS-LCQEEG  550 (567)
T ss_dssp             ---------GGCTTCCEEECCSSC-CCCCGGGTTCSSCCEEECCSS-CCCSSSTTGGGGGCTTCCEEECTTSG-GGGSSS
T ss_pred             ---------hcCCCCCEEECCCCC-CCCCcccCCCCCCcEEECCCC-CCCCCCCcHHHhcCCCCCEEEecCCc-CCCCcc
Confidence                     678999999999965 666888899999999999984 56666312235789999999999875 777765


Q ss_pred             CCcc---ccCcceEE
Q 041114          640 DSNS---ALEHKIAI  651 (680)
Q Consensus       640 ~~~~---~l~~L~i~  651 (680)
                      ....   .+.+|...
T Consensus       551 ~~~~l~~~lp~L~~L  565 (567)
T 1dce_A          551 IQERLAEMLPSVSSI  565 (567)
T ss_dssp             CTTHHHHHCTTCSEE
T ss_pred             HHHHHHHHCcccCcc
Confidence            4432   24455443

>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=99.14  E-value=1.9e-11  Score=137.58  Aligned_cols=127  Identities=14%  Similarity=0.029  Sum_probs=81.4

Q ss_pred             hccCCcceEEEccCCCCcc-----ccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc-------chh
Q 041114          413 FQFMPLLKVLNMSRETNIK-----ELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV-------LAK  480 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~-----~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~-------~~~  480 (680)
                      +..+++|++|++++| .+.     .++..+.++++|++|++++| .+..+|.. ++++++|++|++++..       ...
T Consensus       188 ~~~~~~L~~L~L~~n-~~~~~~~~~l~~~~~~~~~L~~L~L~~~-~~~~l~~~-~~~~~~L~~L~l~~~~~~~~~~~~~~  264 (592)
T 3ogk_B          188 AQHNTSLEVLNFYMT-EFAKISPKDLETIARNCRSLVSVKVGDF-EILELVGF-FKAAANLEEFCGGSLNEDIGMPEKYM  264 (592)
T ss_dssp             HHHCCCCCEEECTTC-CCSSCCHHHHHHHHHHCTTCCEEECSSC-BGGGGHHH-HHHCTTCCEEEECBCCCCTTCTTSSS
T ss_pred             HhcCCCccEEEeecc-CCCccCHHHHHHHHhhCCCCcEEeccCc-cHHHHHHH-HhhhhHHHhhcccccccccchHHHHH
Confidence            456788888888874 443     45556677888888888887 67777764 7788888888886432       223


Q ss_pred             hhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccc-cccccCCCCCEEEEec
Q 041114          481 ELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDV-IALARLKHLSTLHFSK  546 (680)
Q Consensus       481 ~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~-~~l~~l~~L~~L~l~~  546 (680)
                      .+..+++|+.|.+...   ....++.....+++|+.|++++|. +..... ..+..+++|+.|++++
T Consensus       265 ~l~~~~~L~~L~l~~~---~~~~l~~~~~~~~~L~~L~Ls~~~-l~~~~~~~~~~~~~~L~~L~L~~  327 (592)
T 3ogk_B          265 NLVFPRKLCRLGLSYM---GPNEMPILFPFAAQIRKLDLLYAL-LETEDHCTLIQKCPNLEVLETRN  327 (592)
T ss_dssp             CCCCCTTCCEEEETTC---CTTTGGGGGGGGGGCCEEEETTCC-CCHHHHHHHHTTCTTCCEEEEEG
T ss_pred             HhhccccccccCcccc---chhHHHHHHhhcCCCcEEecCCCc-CCHHHHHHHHHhCcCCCEEeccC
Confidence            4556667777666422   222344444455678888888776 332222 1346677788877763

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

Probab=99.13  E-value=1.8e-10  Score=127.61  Aligned_cols=174  Identities=15%  Similarity=0.106  Sum_probs=83.7

Q ss_pred             cceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCCC-CCceeEEEec
Q 041114          418 LLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLK-HLEELDFTLR  496 (680)
Q Consensus       418 ~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L~-~L~~L~i~~~  496 (680)
                      +|++|+|++ +.+..+|..+.  ++|++|+|++| .++.+| +   .+++|++|++++|..- .++.+. +|+.|+++.+
T Consensus        60 ~L~~L~Ls~-n~L~~lp~~l~--~~L~~L~Ls~N-~l~~ip-~---~l~~L~~L~Ls~N~l~-~ip~l~~~L~~L~Ls~N  130 (571)
T 3cvr_A           60 QFSELQLNR-LNLSSLPDNLP--PQITVLEITQN-ALISLP-E---LPASLEYLDACDNRLS-TLPELPASLKHLDVDNN  130 (571)
T ss_dssp             TCSEEECCS-SCCSCCCSCCC--TTCSEEECCSS-CCSCCC-C---CCTTCCEEECCSSCCS-CCCCCCTTCCEEECCSS
T ss_pred             CccEEEeCC-CCCCccCHhHc--CCCCEEECcCC-CCcccc-c---ccCCCCEEEccCCCCC-CcchhhcCCCEEECCCC
Confidence            566666666 35555665442  55666666666 466665 2   3456666666655311 111111 5555555543


Q ss_pred             cchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccE
Q 041114          497 CVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHK  576 (680)
Q Consensus       497 ~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~  576 (680)
                      ....   ++.   .+++|+.|+++++. +..++.    .+++|+.|+++++ .+..++.  +          .  ++|+.
T Consensus       131 ~l~~---lp~---~l~~L~~L~Ls~N~-l~~lp~----~l~~L~~L~Ls~N-~L~~lp~--l----------~--~~L~~  184 (571)
T 3cvr_A          131 QLTM---LPE---LPALLEYINADNNQ-LTMLPE----LPTSLEVLSVRNN-QLTFLPE--L----------P--ESLEA  184 (571)
T ss_dssp             CCSC---CCC---CCTTCCEEECCSSC-CSCCCC----CCTTCCEEECCSS-CCSCCCC--C----------C--TTCCE
T ss_pred             cCCC---CCC---cCccccEEeCCCCc-cCcCCC----cCCCcCEEECCCC-CCCCcch--h----------h--CCCCE
Confidence            3332   222   23456666666554 333331    3456666666553 2332211  1          1  55666


Q ss_pred             EeeeCCCCCCCCCCcCCCCCC-------CEEeEecCcchhHhhhcCCCCCCCcccccCccccc
Q 041114          577 VTITFCPKLKGLTFLVFAPNL-------KCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCA  632 (680)
Q Consensus       577 L~L~~c~~l~~l~~l~~l~~L-------~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~  632 (680)
                      |+|++|. ++.+|.+.  ++|       +.|+++++ .+..+|...  ..+++|+.|++++++
T Consensus       185 L~Ls~N~-L~~lp~~~--~~L~~~~~~L~~L~Ls~N-~l~~lp~~l--~~l~~L~~L~L~~N~  241 (571)
T 3cvr_A          185 LDVSTNL-LESLPAVP--VRNHHSEETEIFFRCREN-RITHIPENI--LSLDPTCTIILEDNP  241 (571)
T ss_dssp             EECCSSC-CSSCCCCC----------CCEEEECCSS-CCCCCCGGG--GGSCTTEEEECCSSS
T ss_pred             EECcCCC-CCchhhHH--HhhhcccccceEEecCCC-cceecCHHH--hcCCCCCEEEeeCCc
Confidence            6666543 44444422  144       66666653 344444322  336666666655544

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

Probab=99.11  E-value=3.8e-10  Score=108.61  Aligned_cols=176  Identities=14%  Similarity=0.060  Sum_probs=125.8

Q ss_pred             ceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCCCCCceeEEEeccc
Q 041114          419 LKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTLRCV  498 (680)
Q Consensus       419 Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L~~L~~L~i~~~~~  498 (680)
                      -+.++.++ ..+..+|..+  ..+|++|++++| .++.+|.+.++.+++|++|+++++..- .+.               
T Consensus         9 ~~~v~c~~-~~l~~~p~~~--~~~l~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~-~~~---------------   68 (208)
T 2o6s_A            9 GTTVECYS-QGRTSVPTGI--PAQTTYLDLETN-SLKSLPNGVFDELTSLTQLYLGGNKLQ-SLP---------------   68 (208)
T ss_dssp             TTEEECCS-SCCSSCCSCC--CTTCSEEECCSS-CCCCCCTTTTTTCTTCSEEECCSSCCC-CCC---------------
T ss_pred             CCEEEecC-CCccCCCCCC--CCCCcEEEcCCC-ccCcCChhhhcccccCcEEECCCCccC-ccC---------------
Confidence            35778888 5888898665  468999999999 799999876789999999999987411 000               


Q ss_pred             hhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEe
Q 041114          499 HSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVT  578 (680)
Q Consensus       499 ~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~  578 (680)
                            +.....+++|+.|+++++. +..++...+..+++|+.|+++++ .+..++...+          ..+++|++|+
T Consensus        69 ------~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~----------~~l~~L~~L~  130 (208)
T 2o6s_A           69 ------NGVFNKLTSLTYLNLSTNQ-LQSLPNGVFDKLTQLKELALNTN-QLQSLPDGVF----------DKLTQLKDLR  130 (208)
T ss_dssp             ------TTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTT----------TTCTTCCEEE
T ss_pred             ------hhhcCCCCCcCEEECCCCc-CCccCHhHhcCccCCCEEEcCCC-cCcccCHhHh----------ccCCcCCEEE
Confidence                  0011123477788887775 44555446789999999999875 4555443333          5789999999


Q ss_pred             eeCCCCCCCCCC--cCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCCc
Q 041114          579 ITFCPKLKGLTF--LVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSN  642 (680)
Q Consensus       579 L~~c~~l~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~  642 (680)
                      ++++. ++.++.  +..+++|++|++++++.         .+.+|+|++|.++.+.--..+|....
T Consensus       131 l~~N~-l~~~~~~~~~~l~~L~~L~l~~N~~---------~~~~~~l~~L~~~~n~~~g~ip~~~~  186 (208)
T 2o6s_A          131 LYQNQ-LKSVPDGVFDRLTSLQYIWLHDNPW---------DCTCPGIRYLSEWINKHSGVVRNSAG  186 (208)
T ss_dssp             CCSSC-CSCCCTTTTTTCTTCCEEECCSCCB---------CCCTTTTHHHHHHHHHCTTTBBCTTS
T ss_pred             CCCCc-cceeCHHHhccCCCccEEEecCCCe---------ecCCCCHHHHHHHHHhCCceeeccCc
Confidence            99976 555553  67899999999998631         25678888888777554446665443

>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=99.11  E-value=3.4e-10  Score=110.78  Aligned_cols=131  Identities=22%  Similarity=0.241  Sum_probs=77.0

Q ss_pred             CcceEEEccCCCCcccc-chhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCCCCCceeEEEe
Q 041114          417 PLLKVLNMSRETNIKEL-LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTL  495 (680)
Q Consensus       417 ~~Lr~LdL~~~~~i~~l-P~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L~~L~~L~i~~  495 (680)
                      ++|++|+|++ +.+..+ |..++.+++|++|+|++| .+..+|.+.++.+++|++|++++|..- .+.            
T Consensus        40 ~~L~~L~Ls~-n~i~~~~~~~~~~l~~L~~L~L~~N-~l~~i~~~~~~~l~~L~~L~Ls~N~l~-~l~------------  104 (229)
T 3e6j_A           40 TNAQILYLHD-NQITKLEPGVFDSLINLKELYLGSN-QLGALPVGVFDSLTQLTVLDLGTNQLT-VLP------------  104 (229)
T ss_dssp             TTCSEEECCS-SCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCC-CCC------------
T ss_pred             CCCCEEEcCC-CccCccCHHHhhCccCCcEEECCCC-CCCCcChhhcccCCCcCEEECCCCcCC-ccC------------
Confidence            6677777777 366665 456777777777777777 577777654577777777777766310 000            


Q ss_pred             ccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCcc
Q 041114          496 RCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLH  575 (680)
Q Consensus       496 ~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~  575 (680)
                               +.....+.+|+.|+++++. +..++. .+..+++|+.|+++++ .+..++...+          ..+++|+
T Consensus       105 ---------~~~~~~l~~L~~L~Ls~N~-l~~lp~-~~~~l~~L~~L~L~~N-~l~~~~~~~~----------~~l~~L~  162 (229)
T 3e6j_A          105 ---------SAVFDRLVHLKELFMCCNK-LTELPR-GIERLTHLTHLALDQN-QLKSIPHGAF----------DRLSSLT  162 (229)
T ss_dssp             ---------TTTTTTCTTCCEEECCSSC-CCSCCT-TGGGCTTCSEEECCSS-CCCCCCTTTT----------TTCTTCC
T ss_pred             ---------hhHhCcchhhCeEeccCCc-ccccCc-ccccCCCCCEEECCCC-cCCccCHHHH----------hCCCCCC
Confidence                     0000112245555555544 334442 5566777777777753 4444433322          4567777


Q ss_pred             EEeeeCCCC
Q 041114          576 KVTITFCPK  584 (680)
Q Consensus       576 ~L~L~~c~~  584 (680)
                      .|++++++.
T Consensus       163 ~L~l~~N~~  171 (229)
T 3e6j_A          163 HAYLFGNPW  171 (229)
T ss_dssp             EEECTTSCB
T ss_pred             EEEeeCCCc
Confidence            777777653

>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=99.10  E-value=3.1e-10  Score=110.29  Aligned_cols=143  Identities=25%  Similarity=0.380  Sum_probs=98.1

Q ss_pred             EEEecCCCcccccccccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCcccc-chhh
Q 041114          359 FLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKEL-LGEL  437 (680)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~l-P~~i  437 (680)
                      .+...+.++..+|... ..+++.|.+.+|.+.                .+|+..|..+++|++|+|++| .+..+ |..+
T Consensus        15 ~v~c~~~~l~~iP~~l-~~~l~~L~l~~n~i~----------------~i~~~~~~~l~~L~~L~Ls~N-~i~~~~~~~~   76 (220)
T 2v9t_B           15 IVDCRGKGLTEIPTNL-PETITEIRLEQNTIK----------------VIPPGAFSPYKKLRRIDLSNN-QISELAPDAF   76 (220)
T ss_dssp             EEECTTSCCSSCCSSC-CTTCCEEECCSSCCC----------------EECTTSSTTCTTCCEEECCSS-CCCEECTTTT
T ss_pred             EEEcCCCCcCcCCCcc-CcCCCEEECCCCcCC----------------CcCHhHhhCCCCCCEEECCCC-cCCCcCHHHh
Confidence            3445555566665422 256777777776665                455555788889999999984 77776 6778


Q ss_pred             hccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcc----hhhhcCCCCCceeEEEeccchhhhhhhhchhhhcc
Q 041114          438 KALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVL----AKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSC  513 (680)
Q Consensus       438 ~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~----~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~  513 (680)
                      ..+++|++|+|++| .++.+|.+.+..+++|++|++++|..    +..+..++                          +
T Consensus        77 ~~l~~L~~L~Ls~N-~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~--------------------------~  129 (220)
T 2v9t_B           77 QGLRSLNSLVLYGN-KITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLH--------------------------N  129 (220)
T ss_dssp             TTCSSCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCT--------------------------T
T ss_pred             hCCcCCCEEECCCC-cCCccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCC--------------------------C
Confidence            89999999999998 78888887668889999999888741    12222333                          5


Q ss_pred             ccEEEEeccCCCCcccccccccCCCCCEEEEecc
Q 041114          514 TRALVLIRFKDSKSIDVIALARLKHLSTLHFSKC  547 (680)
Q Consensus       514 L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~  547 (680)
                      |+.|+++++. +..++...+..+++|+.|+++++
T Consensus       130 L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N  162 (220)
T 2v9t_B          130 LNLLSLYDNK-LQTIAKGTFSPLRAIQTMHLAQN  162 (220)
T ss_dssp             CCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSS
T ss_pred             CCEEECCCCc-CCEECHHHHhCCCCCCEEEeCCC
Confidence            6666666654 34444345677788888888764

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.07  E-value=2e-11  Score=128.47  Aligned_cols=214  Identities=13%  Similarity=0.040  Sum_probs=140.6

Q ss_pred             ccchhhhccCCcceEEEccCCCCccccc-----hhhhccC-CCCEEeccCCCCccccchhhhcCC-----CCCcEeeccC
Q 041114          407 MITDGFFQFMPLLKVLNMSRETNIKELL-----GELKALV-NLKCVNLEWARDLVTIPLEVISNF-----SKLRVLRLFG  475 (680)
Q Consensus       407 ~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-----~~i~~L~-~Lr~L~L~~~~~l~~lP~~~i~~L-----~~L~~L~l~~  475 (680)
                      ...+.++...++|++|||++| .+...+     ..+..++ +|++|+|++| .+...+...+..+     ++|++|++++
T Consensus        12 ~~~~~~~~~~~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~   89 (362)
T 3goz_A           12 NPVEEFTSIPHGVTSLDLSLN-NLYSISTVELIQAFANTPASVTSLNLSGN-SLGFKNSDELVQILAAIPANVTSLNLSG   89 (362)
T ss_dssp             CHHHHHHTSCTTCCEEECTTS-CGGGSCHHHHHHHHHTCCTTCCEEECCSS-CGGGSCHHHHHHHHHTSCTTCCEEECCS
T ss_pred             HHHHHHHhCCCCceEEEccCC-CCChHHHHHHHHHHHhCCCceeEEECcCC-CCCHHHHHHHHHHHhccCCCccEEECcC
Confidence            444555666777999999995 788776     5678898 9999999999 7887644336665     9999999999


Q ss_pred             Ccc----hh----hhcCC-CCCceeEEEeccchhhh--hhhhchhh-hccccEEEEeccCCCCcccc----cccccCC-C
Q 041114          476 TVL----AK----ELLGL-KHLEELDFTLRCVHSLQ--ILVSSNKL-QSCTRALVLIRFKDSKSIDV----IALARLK-H  538 (680)
Q Consensus       476 ~~~----~~----~l~~L-~~L~~L~i~~~~~~~l~--~l~~~~~l-~~~L~~L~l~~~~~~~~~~~----~~l~~l~-~  538 (680)
                      |..    +.    .+..+ ++|+.|+++.+......  .+...... .++|+.|+++++. +.....    ..+..++ +
T Consensus        90 n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-l~~~~~~~l~~~l~~~~~~  168 (362)
T 3goz_A           90 NFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGND-LGIKSSDELIQILAAIPAN  168 (362)
T ss_dssp             SCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSC-GGGSCHHHHHHHHHTSCTT
T ss_pred             CcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCc-CCHHHHHHHHHHHhcCCcc
Confidence            862    22    24555 89999999866544321  22221111 3589999999885 332111    1344555 9


Q ss_pred             CCEEEEeccCCcceeecccCCCCccCCCCCCCC-CCccEEeeeCCCCCCC-----CC-CcCC-CCCCCEEeEecCcchhH
Q 041114          539 LSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVF-CSLHKVTITFCPKLKG-----LT-FLVF-APNLKCLSLFDCTAMEE  610 (680)
Q Consensus       539 L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l-~~L~~L~L~~c~~l~~-----l~-~l~~-l~~L~~L~l~~c~~l~~  610 (680)
                      |++|++++|. +.......+..      ....+ ++|++|+|++|. ++.     ++ .+.. .++|++|+++++. +..
T Consensus       169 L~~L~Ls~n~-l~~~~~~~l~~------~l~~~~~~L~~L~Ls~N~-i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-l~~  239 (362)
T 3goz_A          169 VNSLNLRGNN-LASKNCAELAK------FLASIPASVTSLDLSANL-LGLKSYAELAYIFSSIPNHVVSLNLCLNC-LHG  239 (362)
T ss_dssp             CCEEECTTSC-GGGSCHHHHHH------HHHTSCTTCCEEECTTSC-GGGSCHHHHHHHHHHSCTTCCEEECCSSC-CCC
T ss_pred             ccEeeecCCC-CchhhHHHHHH------HHHhCCCCCCEEECCCCC-CChhHHHHHHHHHhcCCCCceEEECcCCC-CCc
Confidence            9999999864 43332221100      00233 599999999986 443     22 2333 4699999999964 433


Q ss_pred             hhh---cCCCCCCCcccccCccccc
Q 041114          611 IIS---AGKFVHTPEMMGNTMDPCA  632 (680)
Q Consensus       611 i~~---~~~~~~lp~L~~L~i~~C~  632 (680)
                      ...   ...+..+++|+.|++++|.
T Consensus       240 ~~~~~l~~~~~~l~~L~~L~L~~n~  264 (362)
T 3goz_A          240 PSLENLKLLKDSLKHLQTVYLDYDI  264 (362)
T ss_dssp             CCHHHHHHTTTTTTTCSEEEEEHHH
T ss_pred             HHHHHHHHHHhcCCCccEEEeccCC
Confidence            211   1234678999999998886

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

Probab=99.07  E-value=2.6e-10  Score=119.88  Aligned_cols=86  Identities=17%  Similarity=0.268  Sum_probs=58.5

Q ss_pred             ccchhhhc-cCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcc----hh
Q 041114          407 MITDGFFQ-FMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVL----AK  480 (680)
Q Consensus       407 ~lp~~~~~-~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~----~~  480 (680)
                      .++...|. .+++|++|+|++ +.+..+| ..+..+++|++|+|++| .++.+|.+.+..+.+|++|++++|..    +.
T Consensus        53 ~l~~~~~~~~l~~L~~L~L~~-N~i~~i~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~  130 (361)
T 2xot_A           53 RLRAEWTPTRLTNLHSLLLSH-NHLNFISSEAFVPVPNLRYLDLSSN-HLHTLDEFLFSDLQALEVLLLYNNHIVVVDRN  130 (361)
T ss_dssp             EECTTSSSSCCTTCCEEECCS-SCCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSCCCEECTT
T ss_pred             ccChhhhhhcccccCEEECCC-CcCCccChhhccCCCCCCEEECCCC-cCCcCCHHHhCCCcCCCEEECCCCcccEECHH
Confidence            44555455 778888888887 4777776 45778888888888887 67777776577788888888877652    23


Q ss_pred             hhcCCCCCceeEEE
Q 041114          481 ELLGLKHLEELDFT  494 (680)
Q Consensus       481 ~l~~L~~L~~L~i~  494 (680)
                      .+..+++|+.|++.
T Consensus       131 ~~~~l~~L~~L~L~  144 (361)
T 2xot_A          131 AFEDMAQLQKLYLS  144 (361)
T ss_dssp             TTTTCTTCCEEECC
T ss_pred             HhCCcccCCEEECC
Confidence            34455555555554

>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=99.06  E-value=3.4e-11  Score=131.03  Aligned_cols=204  Identities=17%  Similarity=0.107  Sum_probs=105.7

Q ss_pred             cceEEEccCCCCcc-----ccchhhhccCCCCEEeccCCCCcccc-----chhhhcCCCCCcEeeccCCcc--------h
Q 041114          418 LLKVLNMSRETNIK-----ELLGELKALVNLKCVNLEWARDLVTI-----PLEVISNFSKLRVLRLFGTVL--------A  479 (680)
Q Consensus       418 ~Lr~LdL~~~~~i~-----~lP~~i~~L~~Lr~L~L~~~~~l~~l-----P~~~i~~L~~L~~L~l~~~~~--------~  479 (680)
                      +|++|+|++| .+.     .+|..+..+++|++|++++| .+...     .......+.+|++|++++|..        .
T Consensus        86 ~L~~L~L~~n-~i~~~~~~~l~~~l~~~~~L~~L~Ls~n-~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~  163 (461)
T 1z7x_W           86 KIQKLSLQNC-CLTGAGCGVLSSTLRTLPTLQELHLSDN-LLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLA  163 (461)
T ss_dssp             CCCEEECTTS-CCBGGGHHHHHHHTTSCTTCCEEECCSS-BCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHH
T ss_pred             ceeEEEccCC-CCCHHHHHHHHHHHccCCceeEEECCCC-cCchHHHHHHHHHHhcCCCcceEEECCCCCCCHHHHHHHH
Confidence            4666666664 444     34556666666666666666 34422     111112244566666666541        2


Q ss_pred             hhhcCCCCCceeEEEeccchh--hhhhhhc-hhhhccccEEEEeccCCCCccc----ccccccCCCCCEEEEeccCCcce
Q 041114          480 KELLGLKHLEELDFTLRCVHS--LQILVSS-NKLQSCTRALVLIRFKDSKSID----VIALARLKHLSTLHFSKCEELEE  552 (680)
Q Consensus       480 ~~l~~L~~L~~L~i~~~~~~~--l~~l~~~-~~l~~~L~~L~l~~~~~~~~~~----~~~l~~l~~L~~L~l~~~~~l~~  552 (680)
                      ..+..+++|+.|++..+....  ...+... ....++|+.|++++|. +....    ...+..+++|++|+++++. +..
T Consensus       164 ~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~Ls~n~-l~~  241 (461)
T 1z7x_W          164 SVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCG-VTSDNCRDLCGIVASKASLRELALGSNK-LGD  241 (461)
T ss_dssp             HHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSC-CBTTHHHHHHHHHHHCTTCCEEECCSSB-CHH
T ss_pred             HHHhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCC-CcHHHHHHHHHHHHhCCCccEEeccCCc-CCh
Confidence            233445666666665433221  1111110 0112367777777764 32211    1245567788888887653 332


Q ss_pred             eecccCCCCccCCCCCCCCCCccEEeeeCCCCCCC-----CC-CcCCCCCCCEEeEecCcchhHhhh----cCCCCCCCc
Q 041114          553 WKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKG-----LT-FLVFAPNLKCLSLFDCTAMEEIIS----AGKFVHTPE  622 (680)
Q Consensus       553 l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~-----l~-~l~~l~~L~~L~l~~c~~l~~i~~----~~~~~~lp~  622 (680)
                      .....+.     +.....+++|++|++++|. ++.     ++ .+..+++|++|+++++. +.....    .......++
T Consensus       242 ~~~~~l~-----~~~~~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~Ls~n~-i~~~~~~~l~~~l~~~~~~  314 (461)
T 1z7x_W          242 VGMAELC-----PGLLHPSSRLRTLWIWECG-ITAKGCGDLCRVLRAKESLKELSLAGNE-LGDEGARLLCETLLEPGCQ  314 (461)
T ss_dssp             HHHHHHH-----HHHTSTTCCCCEEECTTSC-CCHHHHHHHHHHHHHCTTCCEEECTTCC-CHHHHHHHHHHHHTSTTCC
T ss_pred             HHHHHHH-----HHHhcCCCCceEEECcCCC-CCHHHHHHHHHHHhhCCCcceEECCCCC-CchHHHHHHHHHhccCCcc
Confidence            2111100     0000246788888888874 443     22 34568889999998864 433211    111123478


Q ss_pred             ccccCccccc
Q 041114          623 MMGNTMDPCA  632 (680)
Q Consensus       623 L~~L~i~~C~  632 (680)
                      |+.|++++|.
T Consensus       315 L~~L~L~~n~  324 (461)
T 1z7x_W          315 LESLWVKSCS  324 (461)
T ss_dssp             CCEEECTTSC
T ss_pred             ceeeEcCCCC
Confidence            8999988886

>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=99.06  E-value=6.9e-10  Score=107.83  Aligned_cols=68  Identities=13%  Similarity=0.287  Sum_probs=36.1

Q ss_pred             cccccchhhhccCCcceEEEccCCCCccccch-hhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCC
Q 041114          404 EFKMITDGFFQFMPLLKVLNMSRETNIKELLG-ELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGT  476 (680)
Q Consensus       404 ~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~-~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~  476 (680)
                      .+..+|..+   .++|+.|+|++ +.+..+|. .+..+++|++|+|++| .+..++++.+..+++|++|++++|
T Consensus        22 ~l~~iP~~l---~~~l~~L~l~~-n~i~~i~~~~~~~l~~L~~L~Ls~N-~i~~~~~~~~~~l~~L~~L~Ls~N   90 (220)
T 2v9t_B           22 GLTEIPTNL---PETITEIRLEQ-NTIKVIPPGAFSPYKKLRRIDLSNN-QISELAPDAFQGLRSLNSLVLYGN   90 (220)
T ss_dssp             CCSSCCSSC---CTTCCEEECCS-SCCCEECTTSSTTCTTCCEEECCSS-CCCEECTTTTTTCSSCCEEECCSS
T ss_pred             CcCcCCCcc---CcCCCEEECCC-CcCCCcCHhHhhCCCCCCEEECCCC-cCCCcCHHHhhCCcCCCEEECCCC
Confidence            344555432   14556666666 35555553 4555666666666665 455553323555555655555554

>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=99.05  E-value=6.2e-10  Score=108.93  Aligned_cols=148  Identities=16%  Similarity=0.111  Sum_probs=88.7

Q ss_pred             ceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCCCCCceeEEEeccc
Q 041114          419 LKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTLRCV  498 (680)
Q Consensus       419 Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L~~L~~L~i~~~~~  498 (680)
                      .+.++.++ ..+..+|.++.  ++|++|+|++| .+..++...++.+++|++|++++|.. ..+.               
T Consensus        21 ~~~v~c~~-~~l~~ip~~~~--~~L~~L~Ls~n-~i~~~~~~~~~~l~~L~~L~L~~N~l-~~i~---------------   80 (229)
T 3e6j_A           21 GTTVDCRS-KRHASVPAGIP--TNAQILYLHDN-QITKLEPGVFDSLINLKELYLGSNQL-GALP---------------   80 (229)
T ss_dssp             TTEEECTT-SCCSSCCSCCC--TTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCC-CCCC---------------
T ss_pred             CCEeEccC-CCcCccCCCCC--CCCCEEEcCCC-ccCccCHHHhhCccCCcEEECCCCCC-CCcC---------------
Confidence            45677776 57777776554  67778888777 67776444477777777777777641 1000               


Q ss_pred             hhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEe
Q 041114          499 HSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVT  578 (680)
Q Consensus       499 ~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~  578 (680)
                            +.....+++|+.|+++++. +..++...+..+++|+.|+++++ .+..++..           +..+++|+.|+
T Consensus        81 ------~~~~~~l~~L~~L~Ls~N~-l~~l~~~~~~~l~~L~~L~Ls~N-~l~~lp~~-----------~~~l~~L~~L~  141 (229)
T 3e6j_A           81 ------VGVFDSLTQLTVLDLGTNQ-LTVLPSAVFDRLVHLKELFMCCN-KLTELPRG-----------IERLTHLTHLA  141 (229)
T ss_dssp             ------TTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCCSCCTT-----------GGGCTTCSEEE
T ss_pred             ------hhhcccCCCcCEEECCCCc-CCccChhHhCcchhhCeEeccCC-cccccCcc-----------cccCCCCCEEE
Confidence                  0001112356666666654 44444335667777888887764 34443221           24667778888


Q ss_pred             eeCCCCCCCCC--CcCCCCCCCEEeEecCc
Q 041114          579 ITFCPKLKGLT--FLVFAPNLKCLSLFDCT  606 (680)
Q Consensus       579 L~~c~~l~~l~--~l~~l~~L~~L~l~~c~  606 (680)
                      |+++. +..++  .+..+++|+.|++++++
T Consensus       142 L~~N~-l~~~~~~~~~~l~~L~~L~l~~N~  170 (229)
T 3e6j_A          142 LDQNQ-LKSIPHGAFDRLSSLTHAYLFGNP  170 (229)
T ss_dssp             CCSSC-CCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             CCCCc-CCccCHHHHhCCCCCCEEEeeCCC
Confidence            87754 45554  25667777777777643

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

Probab=99.05  E-value=8.1e-11  Score=135.03  Aligned_cols=143  Identities=18%  Similarity=0.130  Sum_probs=83.1

Q ss_pred             cceEEEEeecccccccccC-CCCccc-----------cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCC
Q 041114          377 ETVRRLSLMQNQIKILSEA-PTCPHL-----------HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLK  444 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~-~~~~~L-----------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr  444 (680)
                      ..++++++.++.+...+.. .....|           ++.+. +++..|..+.+|++|+|++| .+..+|..+..|++|+
T Consensus       173 ~~~~~l~L~~n~~~~~~~~~l~~l~Ls~~~i~~~~~~~n~~~-~~~~~~~~l~~L~~L~Ls~n-~l~~l~~~~~~l~~L~  250 (727)
T 4b8c_D          173 PLTPKIELFANGKDEANQALLQHKKLSQYSIDEDDDIENRMV-MPKDSKYDDQLWHALDLSNL-QIFNISANIFKYDFLT  250 (727)
T ss_dssp             --------------------------------------------------CCCCCCEEECTTS-CCSCCCGGGGGCCSCS
T ss_pred             CccceEEeeCCCCCcchhhHhhcCccCcccccCcccccccee-cChhhhccCCCCcEEECCCC-CCCCCChhhcCCCCCC
Confidence            4678888877777664332 122222           23333 55556889999999999994 8889999999999999


Q ss_pred             EEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCC
Q 041114          445 CVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKD  524 (680)
Q Consensus       445 ~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~  524 (680)
                      +|+|++| .+..+|.+ |++|.+|++|++++|..- .                      ++.....+++|+.|+|+++. 
T Consensus       251 ~L~Ls~N-~l~~lp~~-~~~l~~L~~L~Ls~N~l~-~----------------------lp~~~~~l~~L~~L~L~~N~-  304 (727)
T 4b8c_D          251 RLYLNGN-SLTELPAE-IKNLSNLRVLDLSHNRLT-S----------------------LPAELGSCFQLKYFYFFDNM-  304 (727)
T ss_dssp             CCBCTTS-CCSCCCGG-GGGGTTCCEEECTTSCCS-S----------------------CCSSGGGGTTCSEEECCSSC-
T ss_pred             EEEeeCC-cCcccChh-hhCCCCCCEEeCcCCcCC-c----------------------cChhhcCCCCCCEEECCCCC-
Confidence            9999999 79999987 999999999999987411 1                      11111223467777777764 


Q ss_pred             CCcccccccccCCCCCEEEEeccC
Q 041114          525 SKSIDVIALARLKHLSTLHFSKCE  548 (680)
Q Consensus       525 ~~~~~~~~l~~l~~L~~L~l~~~~  548 (680)
                      +..+|. .+..+++|+.|+|+++.
T Consensus       305 l~~lp~-~~~~l~~L~~L~L~~N~  327 (727)
T 4b8c_D          305 VTTLPW-EFGNLCNLQFLGVEGNP  327 (727)
T ss_dssp             CCCCCS-STTSCTTCCCEECTTSC
T ss_pred             CCccCh-hhhcCCCccEEeCCCCc
Confidence            556664 58888888888888754

>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=99.03  E-value=7.7e-10  Score=107.49  Aligned_cols=126  Identities=17%  Similarity=0.178  Sum_probs=71.4

Q ss_pred             cceEEEccCCCCccccc--hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcc----hhhhcCCCCCcee
Q 041114          418 LLKVLNMSRETNIKELL--GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVL----AKELLGLKHLEEL  491 (680)
Q Consensus       418 ~Lr~LdL~~~~~i~~lP--~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~----~~~l~~L~~L~~L  491 (680)
                      .+++|+|++ +.+..+|  ..++.+++|++|+|++| .++.+|.+.++.+++|++|++++|..    ...+..+      
T Consensus        33 ~~~~L~L~~-N~l~~~~~~~~~~~l~~L~~L~L~~N-~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l------  104 (220)
T 2v70_A           33 YTAELRLNN-NEFTVLEATGIFKKLPQLRKINFSNN-KITDIEEGAFEGASGVNEILLTSNRLENVQHKMFKGL------  104 (220)
T ss_dssp             TCSEEECCS-SCCCEECCCCCGGGCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSCCCCCCGGGGTTC------
T ss_pred             CCCEEEcCC-CcCCccCchhhhccCCCCCEEECCCC-cCCEECHHHhCCCCCCCEEECCCCccCccCHhHhcCC------
Confidence            456777777 3666663  23667777777777777 56666654466777777777766531    0112222      


Q ss_pred             EEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCC
Q 041114          492 DFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVF  571 (680)
Q Consensus       492 ~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l  571 (680)
                                          ++|+.|+++++. +...+...+..+++|+.|+++++ .+..+.+..+          ..+
T Consensus       105 --------------------~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~----------~~l  152 (220)
T 2v70_A          105 --------------------ESLKTLMLRSNR-ITCVGNDSFIGLSSVRLLSLYDN-QITTVAPGAF----------DTL  152 (220)
T ss_dssp             --------------------SSCCEEECTTSC-CCCBCTTSSTTCTTCSEEECTTS-CCCCBCTTTT----------TTC
T ss_pred             --------------------cCCCEEECCCCc-CCeECHhHcCCCccCCEEECCCC-cCCEECHHHh----------cCC
Confidence                                244444554443 22232235666777777777653 4444433333          456


Q ss_pred             CCccEEeeeCCC
Q 041114          572 CSLHKVTITFCP  583 (680)
Q Consensus       572 ~~L~~L~L~~c~  583 (680)
                      ++|+.|+|++++
T Consensus       153 ~~L~~L~L~~N~  164 (220)
T 2v70_A          153 HSLSTLNLLANP  164 (220)
T ss_dssp             TTCCEEECCSCC
T ss_pred             CCCCEEEecCcC
Confidence            777777777765

>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=99.02  E-value=2.2e-10  Score=128.97  Aligned_cols=235  Identities=13%  Similarity=0.065  Sum_probs=115.7

Q ss_pred             hccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCC-------------------Ccc-----------ccchhhh
Q 041114          413 FQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWAR-------------------DLV-----------TIPLEVI  462 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~-------------------~l~-----------~lP~~~i  462 (680)
                      +..+++|++|++++|..+..+|..+..+++|++|++..+.                   +++           .+|.- +
T Consensus       207 ~~~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~l~~~l~~~~~L~~Ls~~~~~~~~~l~~~-~  285 (594)
T 2p1m_B          207 VTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAV-Y  285 (594)
T ss_dssp             HHHCTTCCEEECCTTSCHHHHHHHHHHCTTCSEEECSBCCCCCCHHHHHHHHHHHHTCTTCCEEECCBTCCGGGGGGG-H
T ss_pred             HHhCCCCcEEecCCCCcHHHHHHHHhcCCcceEcccccccCccchhhHHHHHHHHhcCCCcccccCCcccchhhHHHH-H
Confidence            3456888888888876666677777777777777654431                   111           22321 3


Q ss_pred             cCCCCCcEeeccCCcc----hh-hhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEecc--------CCCCccc
Q 041114          463 SNFSKLRVLRLFGTVL----AK-ELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRF--------KDSKSID  529 (680)
Q Consensus       463 ~~L~~L~~L~l~~~~~----~~-~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~--------~~~~~~~  529 (680)
                      ..+++|++|++++|..    +. -+.++++|+.|.+..+  .....+......+++|+.|++.++        ..+....
T Consensus       286 ~~~~~L~~L~L~~~~l~~~~l~~~~~~~~~L~~L~l~~~--~~~~~l~~l~~~~~~L~~L~L~~~~~~g~~~~~~l~~~~  363 (594)
T 2p1m_B          286 SVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDY--IEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQG  363 (594)
T ss_dssp             HHHTTCCEEECTTCCCCHHHHHHHHTTCTTCCEEEEEGG--GHHHHHHHHHHHCTTCCEEEEECSCTTCSSCSSCCCHHH
T ss_pred             HhhCCCCEEEccCCCCCHHHHHHHHhcCCCcCEEeCcCc--cCHHHHHHHHHhCCCCCEEEEecCcccccccCCCCCHHH
Confidence            3567777888877761    11 1456777777777632  222223333333456777777432        2222111


Q ss_pred             cccc-ccCCCCCEEEEeccCCcceeecccCCC------------------CccC--CC------CCCCCCCccEEeeeCC
Q 041114          530 VIAL-ARLKHLSTLHFSKCEELEEWKTDYTSG------------------TVLK--SP------QPFVFCSLHKVTITFC  582 (680)
Q Consensus       530 ~~~l-~~l~~L~~L~l~~~~~l~~l~~~~~~~------------------~~l~--~~------~~~~l~~L~~L~L~~c  582 (680)
                      ...+ ..+++|+.|.+. |+.+.......+..                  ..+.  +.      -...+++|+.|+|++ 
T Consensus       364 l~~l~~~~~~L~~L~~~-~~~l~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~L~~-  441 (594)
T 2p1m_B          364 LVSVSMGCPKLESVLYF-CRQMTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSG-  441 (594)
T ss_dssp             HHHHHHHCTTCCEEEEE-ESCCCHHHHHHHHHHCTTCCEEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEECCS-
T ss_pred             HHHHHHhchhHHHHHHh-cCCcCHHHHHHHHhhCCCcceeEeecccCCCcccccCCchhhHHHHHHhhCCCccEEeecC-
Confidence            1111 124555555443 22222111111100                  0000  00      002334555555543 


Q ss_pred             CCCCC--CCCcCC-CCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCC--CCc--cccCcceEEeccc
Q 041114          583 PKLKG--LTFLVF-APNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPL--DSN--SALEHKIAIRGEA  655 (680)
Q Consensus       583 ~~l~~--l~~l~~-l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~--~~~--~~l~~L~i~~~~~  655 (680)
                       .+..  ++.++. +++|+.|++++|..-...+. .....+|+|+.|++++|+- ...+.  ...  ..|+.|.+.+|..
T Consensus       442 -~l~~~~~~~l~~~~~~L~~L~L~~~~i~~~~~~-~l~~~~~~L~~L~L~~n~~-~~~~~~~~~~~l~~L~~L~l~~~~~  518 (594)
T 2p1m_B          442 -LLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMH-HVLSGCDSLRKLEIRDCPF-GDKALLANASKLETMRSLWMSSCSV  518 (594)
T ss_dssp             -SCCHHHHHHHHHHCTTCCEEEEESCCSSHHHHH-HHHHHCTTCCEEEEESCSC-CHHHHHHTGGGGGGSSEEEEESSCC
T ss_pred             -cccHHHHHHHHHhchhccEeeccCCCCcHHHHH-HHHhcCCCcCEEECcCCCC-cHHHHHHHHHhCCCCCEEeeeCCCC
Confidence             1111  111222 77788888887653222211 1124489999999988874 22111  111  1477888888864

>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=99.02  E-value=4.1e-11  Score=134.87  Aligned_cols=35  Identities=20%  Similarity=0.445  Sum_probs=19.2

Q ss_pred             CCCCccEEeeeCCCCCCCC--C-CcCCCCCCCEEeEecC
Q 041114          570 VFCSLHKVTITFCPKLKGL--T-FLVFAPNLKCLSLFDC  605 (680)
Q Consensus       570 ~l~~L~~L~L~~c~~l~~l--~-~l~~l~~L~~L~l~~c  605 (680)
                      .+++|++|+|++|. +...  + .+..+++|++|++++|
T Consensus       287 ~~~~L~~L~L~~~~-l~~~~l~~~~~~~~~L~~L~l~~~  324 (594)
T 2p1m_B          287 VCSRLTTLNLSYAT-VQSYDLVKLLCQCPKLQRLWVLDY  324 (594)
T ss_dssp             HHTTCCEEECTTCC-CCHHHHHHHHTTCTTCCEEEEEGG
T ss_pred             hhCCCCEEEccCCC-CCHHHHHHHHhcCCCcCEEeCcCc
Confidence            34666666666665 3221  1 1345666666666665

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

Probab=99.01  E-value=5.4e-10  Score=117.41  Aligned_cols=159  Identities=21%  Similarity=0.227  Sum_probs=102.7

Q ss_pred             cccchhhhccCCcceEEEccCCCCccccchh-hh-ccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcch----
Q 041114          406 KMITDGFFQFMPLLKVLNMSRETNIKELLGE-LK-ALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLA----  479 (680)
Q Consensus       406 ~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~-i~-~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~----  479 (680)
                      ..+|..+   ...+++|+|++ +.+..+|.. +. .+++|++|+|++| .+..+|.+.+..+.+|++|++++|..-    
T Consensus        31 ~~iP~~~---~~~l~~L~Ls~-N~l~~l~~~~~~~~l~~L~~L~L~~N-~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~  105 (361)
T 2xot_A           31 PNVPQSL---PSYTALLDLSH-NNLSRLRAEWTPTRLTNLHSLLLSHN-HLNFISSEAFVPVPNLRYLDLSSNHLHTLDE  105 (361)
T ss_dssp             SSCCSSC---CTTCSEEECCS-SCCCEECTTSSSSCCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSCCCEECT
T ss_pred             CccCccC---CCCCCEEECCC-CCCCccChhhhhhcccccCEEECCCC-cCCccChhhccCCCCCCEEECCCCcCCcCCH
Confidence            3555542   24589999999 589888865 55 8999999999999 799998766899999999999987511    


Q ss_pred             hhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCC
Q 041114          480 KELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTS  559 (680)
Q Consensus       480 ~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~  559 (680)
                      ..+..++                          +|+.|+++++. +..++...+..+++|+.|+++++ .+..++...+.
T Consensus       106 ~~~~~l~--------------------------~L~~L~L~~N~-i~~~~~~~~~~l~~L~~L~L~~N-~l~~l~~~~~~  157 (361)
T 2xot_A          106 FLFSDLQ--------------------------ALEVLLLYNNH-IVVVDRNAFEDMAQLQKLYLSQN-QISRFPVELIK  157 (361)
T ss_dssp             TTTTTCT--------------------------TCCEEECCSSC-CCEECTTTTTTCTTCCEEECCSS-CCCSCCGGGTC
T ss_pred             HHhCCCc--------------------------CCCEEECCCCc-ccEECHHHhCCcccCCEEECCCC-cCCeeCHHHhc
Confidence            1223333                          55556665554 33333236677777777777764 44444433321


Q ss_pred             CCccCCCCCCCCCCccEEeeeCCCCCCCCCC--cCCCCC--CCEEeEecC
Q 041114          560 GTVLKSPQPFVFCSLHKVTITFCPKLKGLTF--LVFAPN--LKCLSLFDC  605 (680)
Q Consensus       560 ~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~--l~~l~~--L~~L~l~~c  605 (680)
                      .       ...+++|+.|+|+++. ++.+|.  +..++.  |+.|+++++
T Consensus       158 ~-------~~~l~~L~~L~L~~N~-l~~l~~~~~~~l~~~~l~~l~l~~N  199 (361)
T 2xot_A          158 D-------GNKLPKLMLLDLSSNK-LKKLPLTDLQKLPAWVKNGLYLHNN  199 (361)
T ss_dssp             -----------CTTCCEEECCSSC-CCCCCHHHHHHSCHHHHTTEECCSS
T ss_pred             C-------cccCCcCCEEECCCCC-CCccCHHHhhhccHhhcceEEecCC
Confidence            0       0246777788887754 555552  455665  366777663

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=98.99  E-value=1.3e-10  Score=126.56  Aligned_cols=245  Identities=16%  Similarity=0.148  Sum_probs=147.9

Q ss_pred             cccceEEEEeecccccccc-----cC-C----CCccc---ccccc-----ccchhhhccCCcceEEEccCCCCcccc-ch
Q 041114          375 EWETVRRLSLMQNQIKILS-----EA-P----TCPHL---HYEFK-----MITDGFFQFMPLLKVLNMSRETNIKEL-LG  435 (680)
Q Consensus       375 ~~~~~r~lsl~~~~~~~l~-----~~-~----~~~~L---~~~l~-----~lp~~~~~~l~~Lr~LdL~~~~~i~~l-P~  435 (680)
                      ..++++++.+.+|.+....     .. .    ....|   ++.+.     .+|. .+..+++|++|+|++| .+... +.
T Consensus        54 ~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~-~l~~~~~L~~L~Ls~n-~i~~~~~~  131 (461)
T 1z7x_W           54 VNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSS-TLRTLPTLQELHLSDN-LLGDAGLQ  131 (461)
T ss_dssp             TCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHHHHH-HTTSCTTCCEEECCSS-BCHHHHHH
T ss_pred             hCCCcCEEeCCCCcCChHHHHHHHHHHhhCCCceeEEEccCCCCCHHHHHHHHH-HHccCCceeEEECCCC-cCchHHHH
Confidence            3468899999888775421     11 1    13333   44444     3344 3788999999999995 56432 33


Q ss_pred             hhh-----ccCCCCEEeccCCCCccc-----cchhhhcCCCCCcEeeccCCcc----hhhhc-----CCCCCceeEEEec
Q 041114          436 ELK-----ALVNLKCVNLEWARDLVT-----IPLEVISNFSKLRVLRLFGTVL----AKELL-----GLKHLEELDFTLR  496 (680)
Q Consensus       436 ~i~-----~L~~Lr~L~L~~~~~l~~-----lP~~~i~~L~~L~~L~l~~~~~----~~~l~-----~L~~L~~L~i~~~  496 (680)
                      .+.     .+.+|++|++++| .+..     ++.. +..+++|++|++++|..    +..+.     .+++|+.|++..+
T Consensus       132 ~l~~~l~~~~~~L~~L~L~~n-~l~~~~~~~l~~~-l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n  209 (461)
T 1z7x_W          132 LLCEGLLDPQCRLEKLQLEYC-SLSAASCEPLASV-LRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESC  209 (461)
T ss_dssp             HHHHHHTSTTCCCCEEECTTS-CCBGGGHHHHHHH-HHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTS
T ss_pred             HHHHHHhcCCCcceEEECCCC-CCCHHHHHHHHHH-HhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCC
Confidence            333     2567999999998 6765     4553 77889999999998762    22222     3568888888755


Q ss_pred             cchh--hhhhhhchhhhccccEEEEeccCCCCcccc-----cccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCC
Q 041114          497 CVHS--LQILVSSNKLQSCTRALVLIRFKDSKSIDV-----IALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPF  569 (680)
Q Consensus       497 ~~~~--l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~-----~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~  569 (680)
                      ....  ...++......++|+.|+++++. +.....     .....+++|++|++++| .+.......+.      ..+.
T Consensus       210 ~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~-l~~~~~~~l~~~~~~~~~~L~~L~L~~n-~l~~~~~~~l~------~~l~  281 (461)
T 1z7x_W          210 GVTSDNCRDLCGIVASKASLRELALGSNK-LGDVGMAELCPGLLHPSSRLRTLWIWEC-GITAKGCGDLC------RVLR  281 (461)
T ss_dssp             CCBTTHHHHHHHHHHHCTTCCEEECCSSB-CHHHHHHHHHHHHTSTTCCCCEEECTTS-CCCHHHHHHHH------HHHH
T ss_pred             CCcHHHHHHHHHHHHhCCCccEEeccCCc-CChHHHHHHHHHHhcCCCCceEEECcCC-CCCHHHHHHHH------HHHh
Confidence            4432  22344444445689999998875 333211     12235789999999887 44432111110      0013


Q ss_pred             CCCCccEEeeeCCCCCCCCC--Cc-----CCCCCCCEEeEecCcchhH----hhhcCCCCCCCcccccCccccccCC
Q 041114          570 VFCSLHKVTITFCPKLKGLT--FL-----VFAPNLKCLSLFDCTAMEE----IISAGKFVHTPEMMGNTMDPCAKLR  635 (680)
Q Consensus       570 ~l~~L~~L~L~~c~~l~~l~--~l-----~~l~~L~~L~l~~c~~l~~----i~~~~~~~~lp~L~~L~i~~C~~L~  635 (680)
                      .+++|++|++++|. +....  .+     ...++|++|++++|..-..    ++.  .+..+++|+.|++++|. +.
T Consensus       282 ~~~~L~~L~Ls~n~-i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~--~l~~~~~L~~L~Ls~n~-i~  354 (461)
T 1z7x_W          282 AKESLKELSLAGNE-LGDEGARLLCETLLEPGCQLESLWVKSCSFTAACCSHFSS--VLAQNRFLLELQISNNR-LE  354 (461)
T ss_dssp             HCTTCCEEECTTCC-CHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHH--HHHHCSSCCEEECCSSB-CH
T ss_pred             hCCCcceEECCCCC-CchHHHHHHHHHhccCCccceeeEcCCCCCchHHHHHHHH--HHhhCCCccEEEccCCc-cc
Confidence            46889999999875 32211  11     2347999999998763221    221  12457889999988873 44

>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=6.4e-09  Score=107.67  Aligned_cols=97  Identities=19%  Similarity=0.230  Sum_probs=73.2

Q ss_pred             ccceEEEEeecccccccccC-CCCcc--c-cccccccchhhhcc--------CCcceEEEccCCCCccccc-hhhhccCC
Q 041114          376 WETVRRLSLMQNQIKILSEA-PTCPH--L-HYEFKMITDGFFQF--------MPLLKVLNMSRETNIKELL-GELKALVN  442 (680)
Q Consensus       376 ~~~~r~lsl~~~~~~~l~~~-~~~~~--L-~~~l~~lp~~~~~~--------l~~Lr~LdL~~~~~i~~lP-~~i~~L~~  442 (680)
                      ..+++.|.+++|.+...... ..++.  + ......+|+..|.+        +.+|+.|+|+.  .++.++ ..+..+++
T Consensus        48 l~~L~~LdLs~n~i~~~~~~~~~~~~~~~~~~~~~~I~~~aF~~~~~~~~~g~~~L~~l~L~~--~i~~I~~~aF~~~~~  125 (329)
T 3sb4_A           48 FPSLKVLDISNAEIKMYSGKAGTYPNGKFYIYMANFVPAYAFSNVVNGVTKGKQTLEKVILSE--KIKNIEDAAFKGCDN  125 (329)
T ss_dssp             CTTCCEEEEEEEEECCEEESSSSSGGGCCEEECTTEECTTTTEEEETTEEEECTTCCC-CBCT--TCCEECTTTTTTCTT
T ss_pred             hccCeEEecCcceeEEecCccccccccccccccccccCHHHhcccccccccccCCCcEEECCc--cccchhHHHhhcCcc
Confidence            46799999999998722111 12222  1 22333788888999        99999999997  788888 45899999


Q ss_pred             CCEEeccCCCCccccchhhhcCCCCCcEeeccC
Q 041114          443 LKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG  475 (680)
Q Consensus       443 Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~  475 (680)
                      |+.|++.++ .+..++...+....++..+....
T Consensus       126 L~~l~l~~n-~i~~i~~~aF~~~~~l~~l~~~~  157 (329)
T 3sb4_A          126 LKICQIRKK-TAPNLLPEALADSVTAIFIPLGS  157 (329)
T ss_dssp             CCEEEBCCS-SCCEECTTSSCTTTCEEEECTTC
T ss_pred             cceEEcCCC-CccccchhhhcCCCceEEecCcc
Confidence            999999999 78899988788888888877665

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=98.92  E-value=4.9e-09  Score=101.80  Aligned_cols=144  Identities=17%  Similarity=0.274  Sum_probs=79.5

Q ss_pred             EEecCCCcccccccccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccch-hhh
Q 041114          360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLG-ELK  438 (680)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~-~i~  438 (680)
                      +...+..+..+|... ...+++|.+.+|.+..++               |.++|..+++|++|+|++ +.+..+|. .++
T Consensus        16 l~~s~n~l~~iP~~~-~~~~~~L~L~~N~l~~~~---------------~~~~~~~l~~L~~L~L~~-N~i~~i~~~~~~   78 (220)
T 2v70_A           16 VDCSNQKLNKIPEHI-PQYTAELRLNNNEFTVLE---------------ATGIFKKLPQLRKINFSN-NKITDIEEGAFE   78 (220)
T ss_dssp             EECCSSCCSSCCSCC-CTTCSEEECCSSCCCEEC---------------CCCCGGGCTTCCEEECCS-SCCCEECTTTTT
T ss_pred             eEeCCCCcccCccCC-CCCCCEEEcCCCcCCccC---------------chhhhccCCCCCEEECCC-CcCCEECHHHhC
Confidence            444444455555321 235566777766665442               223356666666666666 35666553 566


Q ss_pred             ccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc----chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccc
Q 041114          439 ALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV----LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCT  514 (680)
Q Consensus       439 ~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L  514 (680)
                      .+++|++|+|++| .+..+|.+.++.+++|++|++++|.    .+..+..+++|+.|++..+....+.  +.....+++|
T Consensus        79 ~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~--~~~~~~l~~L  155 (220)
T 2v70_A           79 GASGVNEILLTSN-RLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVA--PGAFDTLHSL  155 (220)
T ss_dssp             TCTTCCEEECCSS-CCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBC--TTTTTTCTTC
T ss_pred             CCCCCCEEECCCC-ccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCcCCEEC--HHHhcCCCCC
Confidence            6666666666666 5666665556666666666666654    1344556666666666543332221  1222233466


Q ss_pred             cEEEEeccC
Q 041114          515 RALVLIRFK  523 (680)
Q Consensus       515 ~~L~l~~~~  523 (680)
                      +.|+++++.
T Consensus       156 ~~L~L~~N~  164 (220)
T 2v70_A          156 STLNLLANP  164 (220)
T ss_dssp             CEEECCSCC
T ss_pred             CEEEecCcC
Confidence            666666654

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=98.87  E-value=2.4e-09  Score=99.16  Aligned_cols=132  Identities=18%  Similarity=0.166  Sum_probs=90.5

Q ss_pred             cCCcceEEEccCCCCcc--ccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCCCCCceeE
Q 041114          415 FMPLLKVLNMSRETNIK--ELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELD  492 (680)
Q Consensus       415 ~l~~Lr~LdL~~~~~i~--~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L~~L~~L~  492 (680)
                      ..++|++|++++| .+.  .+|..++.+++|++|++++| .++.+ .. ++.+++|++|++++|..-..           
T Consensus        22 ~~~~L~~L~l~~n-~l~~~~i~~~~~~l~~L~~L~l~~n-~l~~~-~~-~~~l~~L~~L~Ls~N~l~~~-----------   86 (168)
T 2ell_A           22 TPAAVRELVLDNC-KSNDGKIEGLTAEFVNLEFLSLINV-GLISV-SN-LPKLPKLKKLELSENRIFGG-----------   86 (168)
T ss_dssp             CTTSCSEEECCSC-BCBTTBCSSCCGGGGGCCEEEEESS-CCCCC-SS-CCCCSSCCEEEEESCCCCSC-----------
T ss_pred             CcccCCEEECCCC-CCChhhHHHHHHhCCCCCEEeCcCC-CCCCh-hh-hccCCCCCEEECcCCcCchH-----------
Confidence            3578999999995 777  88988899999999999999 68888 43 88999999999988742110           


Q ss_pred             EEeccchhhhhhhhchhhhccccEEEEeccCCCCcccc-cccccCCCCCEEEEeccCCcceeec---ccCCCCccCCCCC
Q 041114          493 FTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDV-IALARLKHLSTLHFSKCEELEEWKT---DYTSGTVLKSPQP  568 (680)
Q Consensus       493 i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~l~~l~~---~~~~~~~l~~~~~  568 (680)
                                 ++.....+++|+.|+++++. +..++. ..+..+++|+.|+++++. +..++.   ..+          
T Consensus        87 -----------~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~l~~l~~L~~L~l~~N~-l~~~~~~~~~~~----------  143 (168)
T 2ell_A           87 -----------LDMLAEKLPNLTHLNLSGNK-LKDISTLEPLKKLECLKSLDLFNCE-VTNLNDYRESVF----------  143 (168)
T ss_dssp             -----------CCHHHHHCTTCCEEECBSSS-CCSSGGGGGGSSCSCCCEEECCSSG-GGTSTTHHHHHH----------
T ss_pred             -----------HHHHHhhCCCCCEEeccCCc-cCcchhHHHHhcCCCCCEEEeeCCc-CcchHHHHHHHH----------
Confidence                       11111223466777777664 444331 367778888888888753 333322   122          


Q ss_pred             CCCCCccEEeeeCCCC
Q 041114          569 FVFCSLHKVTITFCPK  584 (680)
Q Consensus       569 ~~l~~L~~L~L~~c~~  584 (680)
                      ..+++|++|++++|..
T Consensus       144 ~~l~~L~~L~l~~n~~  159 (168)
T 2ell_A          144 KLLPQLTYLDGYDRED  159 (168)
T ss_dssp             TTCSSCCEETTEETTS
T ss_pred             HhCccCcEecCCCCCh
Confidence            4678888888888764

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

Probab=98.84  E-value=2.9e-09  Score=96.39  Aligned_cols=128  Identities=18%  Similarity=0.184  Sum_probs=82.5

Q ss_pred             cCCcceEEEccCCCCcc--ccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCCCCCceeE
Q 041114          415 FMPLLKVLNMSRETNIK--ELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELD  492 (680)
Q Consensus       415 ~l~~Lr~LdL~~~~~i~--~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L~~L~~L~  492 (680)
                      ..++|+.|++++| .+.  .+|..++.+++|++|++++| .+..+ .. ++.+++|++|++++|..-..           
T Consensus        15 ~~~~l~~L~l~~n-~l~~~~~~~~~~~l~~L~~L~l~~n-~l~~~-~~-~~~l~~L~~L~Ls~n~i~~~-----------   79 (149)
T 2je0_A           15 TPSDVKELVLDNS-RSNEGKLEGLTDEFEELEFLSTINV-GLTSI-AN-LPKLNKLKKLELSDNRVSGG-----------   79 (149)
T ss_dssp             CGGGCSEEECTTC-BCBTTBCCSCCTTCTTCCEEECTTS-CCCCC-TT-CCCCTTCCEEECCSSCCCSC-----------
T ss_pred             CCccCeEEEccCC-cCChhHHHHHHhhcCCCcEEECcCC-CCCCc-hh-hhcCCCCCEEECCCCcccch-----------
Confidence            3577899999995 776  78888889999999999998 78888 33 88899999999988742110           


Q ss_pred             EEeccchhhhhhhhchhhhccccEEEEeccCCCCccc-ccccccCCCCCEEEEeccCCcceeec---ccCCCCccCCCCC
Q 041114          493 FTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSID-VIALARLKHLSTLHFSKCEELEEWKT---DYTSGTVLKSPQP  568 (680)
Q Consensus       493 i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~-~~~l~~l~~L~~L~l~~~~~l~~l~~---~~~~~~~l~~~~~  568 (680)
                                 ++.....+++|+.|+++++. +...+ ...+..+++|+.|+++++ .+..++.   ..+          
T Consensus        80 -----------~~~~~~~l~~L~~L~ls~N~-i~~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~~----------  136 (149)
T 2je0_A           80 -----------LEVLAEKCPNLTHLNLSGNK-IKDLSTIEPLKKLENLKSLDLFNC-EVTNLNDYRENVF----------  136 (149)
T ss_dssp             -----------THHHHHHCTTCCEEECTTSC-CCSHHHHGGGGGCTTCCEEECTTC-GGGGSTTHHHHHH----------
T ss_pred             -----------HHHHhhhCCCCCEEECCCCc-CCChHHHHHHhhCCCCCEEeCcCC-cccchHHHHHHHH----------
Confidence                       11111223356666666654 33322 135667777777777765 3333322   112          


Q ss_pred             CCCCCccEEeee
Q 041114          569 FVFCSLHKVTIT  580 (680)
Q Consensus       569 ~~l~~L~~L~L~  580 (680)
                      ..+++|+.|+++
T Consensus       137 ~~l~~L~~L~l~  148 (149)
T 2je0_A          137 KLLPQLTYLDGY  148 (149)
T ss_dssp             HHCTTCCEETTB
T ss_pred             HHCCCcccccCC
Confidence            456777777665

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=98.79  E-value=1.1e-08  Score=94.48  Aligned_cols=128  Identities=21%  Similarity=0.113  Sum_probs=74.2

Q ss_pred             cceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccc
Q 041114          377 ETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVT  456 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~  456 (680)
                      +++++|.+.++.+..-              .+|.. +..+++|++|++++| .+..+ ..++.+++|++|++++| .+..
T Consensus        24 ~~L~~L~l~~n~l~~~--------------~i~~~-~~~l~~L~~L~l~~n-~l~~~-~~~~~l~~L~~L~Ls~N-~l~~   85 (168)
T 2ell_A           24 AAVRELVLDNCKSNDG--------------KIEGL-TAEFVNLEFLSLINV-GLISV-SNLPKLPKLKKLELSEN-RIFG   85 (168)
T ss_dssp             TSCSEEECCSCBCBTT--------------BCSSC-CGGGGGCCEEEEESS-CCCCC-SSCCCCSSCCEEEEESC-CCCS
T ss_pred             ccCCEEECCCCCCChh--------------hHHHH-HHhCCCCCEEeCcCC-CCCCh-hhhccCCCCCEEECcCC-cCch
Confidence            5788888888776510              23332 455666677777663 56555 55666666777777666 4655


Q ss_pred             -cchhhhcCCCCCcEeeccCCc-----chhhhcCCCCCceeEEEeccchhhhhhh-hchhhhccccEEEEeccC
Q 041114          457 -IPLEVISNFSKLRVLRLFGTV-----LAKELLGLKHLEELDFTLRCVHSLQILV-SSNKLQSCTRALVLIRFK  523 (680)
Q Consensus       457 -lP~~~i~~L~~L~~L~l~~~~-----~~~~l~~L~~L~~L~i~~~~~~~l~~l~-~~~~l~~~L~~L~l~~~~  523 (680)
                       +|.. ++++++|++|++++|.     .+..+..+++|+.|++..+....+.... .....+++|+.|++.++.
T Consensus        86 ~~~~~-~~~l~~L~~L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~  158 (168)
T 2ell_A           86 GLDML-AEKLPNLTHLNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDRE  158 (168)
T ss_dssp             CCCHH-HHHCTTCCEEECBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEETT
T ss_pred             HHHHH-HhhCCCCCEEeccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCCC
Confidence             4442 5556677777766654     1145556666666666644333222110 122334577777777765

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=98.77  E-value=1.8e-08  Score=95.46  Aligned_cols=119  Identities=22%  Similarity=0.374  Sum_probs=80.0

Q ss_pred             EEecCCCcccccccccccceEEEEeecccccccccCCCCccccccccccch-hhhccCCcceEEEccCCCCcccc-chhh
Q 041114          360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITD-GFFQFMPLLKVLNMSRETNIKEL-LGEL  437 (680)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~-~~~~~l~~Lr~LdL~~~~~i~~l-P~~i  437 (680)
                      +...+..+..+|... ..++++|.+.+|.+.                .+++ .+|..+++|++|+|++| .+..+ |..+
T Consensus        13 l~~s~~~l~~ip~~~-~~~l~~L~l~~n~i~----------------~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~   74 (192)
T 1w8a_A           13 VDCTGRGLKEIPRDI-PLHTTELLLNDNELG----------------RISSDGLFGRLPHLVKLELKRN-QLTGIEPNAF   74 (192)
T ss_dssp             EECTTSCCSSCCSCC-CTTCSEEECCSCCCC----------------SBCCSCSGGGCTTCCEEECCSS-CCCCBCTTTT
T ss_pred             EEcCCCCcCcCccCC-CCCCCEEECCCCcCC----------------ccCCccccccCCCCCEEECCCC-CCCCcCHhHc
Confidence            344444555555322 136666666666554                3343 24778888888888884 77766 5778


Q ss_pred             hccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc----chhhhcCCCCCceeEEEecc
Q 041114          438 KALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV----LAKELLGLKHLEELDFTLRC  497 (680)
Q Consensus       438 ~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~~L~~L~i~~~~  497 (680)
                      +.+++|++|+|++| .++.+|...++.+++|++|+++++.    .+..+..+++|+.|++..+.
T Consensus        75 ~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~  137 (192)
T 1w8a_A           75 EGASHIQELQLGEN-KIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNP  137 (192)
T ss_dssp             TTCTTCCEEECCSC-CCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCC
T ss_pred             CCcccCCEEECCCC-cCCccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCCC
Confidence            88888888888888 6888877657888888888888875    23455666777777665443

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=98.77  E-value=1e-08  Score=95.71  Aligned_cols=128  Identities=19%  Similarity=0.147  Sum_probs=67.1

Q ss_pred             ccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCcc
Q 041114          376 WETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLV  455 (680)
Q Consensus       376 ~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~  455 (680)
                      ..+++++.+.+|.+..++..                 ....++|++|+|++| .+..+ ..++.+++|++|++++| .+.
T Consensus        18 ~~~L~~L~l~~n~l~~i~~~-----------------~~~~~~L~~L~Ls~N-~l~~~-~~l~~l~~L~~L~Ls~N-~l~   77 (176)
T 1a9n_A           18 AVRDRELDLRGYKIPVIENL-----------------GATLDQFDAIDFSDN-EIRKL-DGFPLLRRLKTLLVNNN-RIC   77 (176)
T ss_dssp             TTSCEEEECTTSCCCSCCCG-----------------GGGTTCCSEEECCSS-CCCEE-CCCCCCSSCCEEECCSS-CCC
T ss_pred             cCCceEEEeeCCCCchhHHh-----------------hhcCCCCCEEECCCC-CCCcc-cccccCCCCCEEECCCC-ccc
Confidence            36788899988887754321                 122235666666663 55555 35556666666666666 466


Q ss_pred             ccchhhhcCCCCCcEeeccCCcc---h--hhhcCCCCCceeEEEeccchhhhhh-hhchhhhccccEEEEeccC
Q 041114          456 TIPLEVISNFSKLRVLRLFGTVL---A--KELLGLKHLEELDFTLRCVHSLQIL-VSSNKLQSCTRALVLIRFK  523 (680)
Q Consensus       456 ~lP~~~i~~L~~L~~L~l~~~~~---~--~~l~~L~~L~~L~i~~~~~~~l~~l-~~~~~l~~~L~~L~l~~~~  523 (680)
                      .+|++.++.+++|++|++++|..   +  ..+..+++|+.|++..+....+... ......+++|+.|+++++.
T Consensus        78 ~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~i~~~~~~~~~~~~~l~~L~~Ld~~~n~  151 (176)
T 1a9n_A           78 RIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDFQKVK  151 (176)
T ss_dssp             EECSCHHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETTEECC
T ss_pred             ccCcchhhcCCCCCEEECCCCcCCcchhhHhhhcCCCCCEEEecCCCCCCcHhHHHHHHHHCCccceeCCCcCC
Confidence            66554235566666666665531   1  1445555566665553333222110 0012233456666665553

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

Probab=98.76  E-value=1.7e-08  Score=95.74  Aligned_cols=102  Identities=23%  Similarity=0.196  Sum_probs=67.2

Q ss_pred             CcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcc----hhhhcCCCCCceeE
Q 041114          417 PLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVL----AKELLGLKHLEELD  492 (680)
Q Consensus       417 ~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~----~~~l~~L~~L~~L~  492 (680)
                      ++|++|+|++ +.+..+|..++.+++|++|+|++| .++.+|.+.+..|++|++|+++++..    +..+..++      
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~------  102 (193)
T 2wfh_A           31 RDVTELYLDG-NQFTLVPKELSNYKHLTLIDLSNN-RISTLSNQSFSNMTQLLTLILSYNRLRCIPPRTFDGLK------  102 (193)
T ss_dssp             TTCCEEECCS-SCCCSCCGGGGGCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCT------
T ss_pred             CCCCEEECCC-CcCchhHHHhhcccCCCEEECCCC-cCCEeCHhHccCCCCCCEEECCCCccCEeCHHHhCCCC------
Confidence            4678888888 477788877888888888888888 67777765577888888888877641    11122222      


Q ss_pred             EEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEecc
Q 041114          493 FTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKC  547 (680)
Q Consensus       493 i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~  547 (680)
                                          +|+.|+++++. +..++...+..+++|+.|+++++
T Consensus       103 --------------------~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N  136 (193)
T 2wfh_A          103 --------------------SLRLLSLHGND-ISVVPEGAFNDLSALSHLAIGAN  136 (193)
T ss_dssp             --------------------TCCEEECCSSC-CCBCCTTTTTTCTTCCEEECCSS
T ss_pred             --------------------CCCEEECCCCC-CCeeChhhhhcCccccEEEeCCC
Confidence                                45555555544 33444335666777777777653

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

Probab=98.76  E-value=2.9e-08  Score=94.11  Aligned_cols=120  Identities=23%  Similarity=0.343  Sum_probs=88.8

Q ss_pred             EEEecCCCcccccccccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccc-hhh
Q 041114          359 FLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELL-GEL  437 (680)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i  437 (680)
                      .+...+..+..+|... ..+++.|.+.+|.+.                .+|.. |..+++|++|+|++ +.+..+| ..+
T Consensus        14 ~l~~~~~~l~~ip~~~-~~~l~~L~L~~n~i~----------------~ip~~-~~~l~~L~~L~Ls~-N~i~~i~~~~f   74 (193)
T 2wfh_A           14 VVRCSNKGLKVLPKGI-PRDVTELYLDGNQFT----------------LVPKE-LSNYKHLTLIDLSN-NRISTLSNQSF   74 (193)
T ss_dssp             EEECTTSCCSSCCSCC-CTTCCEEECCSSCCC----------------SCCGG-GGGCTTCCEEECCS-SCCCCCCTTTT
T ss_pred             EEEcCCCCCCcCCCCC-CCCCCEEECCCCcCc----------------hhHHH-hhcccCCCEEECCC-CcCCEeCHhHc
Confidence            3445555556665422 256777777777665                45643 78899999999999 4888877 458


Q ss_pred             hccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc---ch-hhhcCCCCCceeEEEeccc
Q 041114          438 KALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV---LA-KELLGLKHLEELDFTLRCV  498 (680)
Q Consensus       438 ~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~---~~-~~l~~L~~L~~L~i~~~~~  498 (680)
                      ..|++|++|+|++| .++.+|...++.+++|++|++++|.   .+ ..+..+++|+.|++..+..
T Consensus        75 ~~l~~L~~L~Ls~N-~l~~i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~  138 (193)
T 2wfh_A           75 SNMTQLLTLILSYN-RLRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANPL  138 (193)
T ss_dssp             TTCTTCCEEECCSS-CCCBCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSCE
T ss_pred             cCCCCCCEEECCCC-ccCEeCHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCCCe
Confidence            89999999999999 7888887668899999999999876   22 2467788888888875543

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

Probab=98.75  E-value=1.3e-08  Score=92.02  Aligned_cols=125  Identities=19%  Similarity=0.108  Sum_probs=74.4

Q ss_pred             cceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccc
Q 041114          377 ETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVT  456 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~  456 (680)
                      .+++++.+.++.+..-              .+|.. +..+++|++|++++| .+..+ ..++.+++|++|++++| .+..
T Consensus        17 ~~l~~L~l~~n~l~~~--------------~~~~~-~~~l~~L~~L~l~~n-~l~~~-~~~~~l~~L~~L~Ls~n-~i~~   78 (149)
T 2je0_A           17 SDVKELVLDNSRSNEG--------------KLEGL-TDEFEELEFLSTINV-GLTSI-ANLPKLNKLKKLELSDN-RVSG   78 (149)
T ss_dssp             GGCSEEECTTCBCBTT--------------BCCSC-CTTCTTCCEEECTTS-CCCCC-TTCCCCTTCCEEECCSS-CCCS
T ss_pred             ccCeEEEccCCcCChh--------------HHHHH-HhhcCCCcEEECcCC-CCCCc-hhhhcCCCCCEEECCCC-cccc
Confidence            5788888888877510              23332 566677777777774 66666 56677777777777777 5666


Q ss_pred             -cchhhhcCCCCCcEeeccCCc--c---hhhhcCCCCCceeEEEeccchhhhhhh-hchhhhccccEEEEe
Q 041114          457 -IPLEVISNFSKLRVLRLFGTV--L---AKELLGLKHLEELDFTLRCVHSLQILV-SSNKLQSCTRALVLI  520 (680)
Q Consensus       457 -lP~~~i~~L~~L~~L~l~~~~--~---~~~l~~L~~L~~L~i~~~~~~~l~~l~-~~~~l~~~L~~L~l~  520 (680)
                       +|.. ++.+++|++|++++|.  .   +..+..+++|+.|++..+......... .....+++|+.|+++
T Consensus        79 ~~~~~-~~~l~~L~~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           79 GLEVL-AEKCPNLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             CTHHH-HHHCTTCCEEECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             hHHHH-hhhCCCCCEEECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccCC
Confidence             5553 5667777777777664  1   245666677777776644333222110 122334466666543

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

Probab=98.74  E-value=1.5e-08  Score=112.66  Aligned_cols=78  Identities=21%  Similarity=0.283  Sum_probs=50.3

Q ss_pred             hccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc---c--hhhhcCCCC
Q 041114          413 FQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV---L--AKELLGLKH  487 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~---~--~~~l~~L~~  487 (680)
                      |..+++|++|+|++ +.+..+|..++.|++|++|+|++| .++.+| + +++|++|++|++++|.   .  +..+.+|++
T Consensus       459 ~~~l~~L~~L~Ls~-N~l~~lp~~~~~l~~L~~L~Ls~N-~l~~lp-~-l~~l~~L~~L~Ls~N~l~~~~~p~~l~~l~~  534 (567)
T 1dce_A          459 LEQLLLVTHLDLSH-NRLRALPPALAALRCLEVLQASDN-ALENVD-G-VANLPRLQELLLCNNRLQQSAAIQPLVSCPR  534 (567)
T ss_dssp             GGGGTTCCEEECCS-SCCCCCCGGGGGCTTCCEEECCSS-CCCCCG-G-GTTCSSCCEEECCSSCCCSSSTTGGGGGCTT
T ss_pred             ccccccCcEeecCc-ccccccchhhhcCCCCCEEECCCC-CCCCCc-c-cCCCCCCcEEECCCCCCCCCCCcHHHhcCCC
Confidence            56667777777777 366677777777777777777776 566666 3 6777777777776654   1  344555555


Q ss_pred             CceeEEE
Q 041114          488 LEELDFT  494 (680)
Q Consensus       488 L~~L~i~  494 (680)
                      |+.|+++
T Consensus       535 L~~L~L~  541 (567)
T 1dce_A          535 LVLLNLQ  541 (567)
T ss_dssp             CCEEECT
T ss_pred             CCEEEec
Confidence            5555554

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=98.71  E-value=1.8e-08  Score=93.99  Aligned_cols=119  Identities=18%  Similarity=0.196  Sum_probs=90.0

Q ss_pred             cEEEecCCCccccccccccc-ceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchh
Q 041114          358 NFLVCAGRGLKEAPEVKEWE-TVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGE  436 (680)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~-~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~  436 (680)
                      ..+...+..+..++...... +++++.+.+|.+..+                +  .|..+++|++|+|++ +.+..+|..
T Consensus        22 ~~L~l~~n~l~~i~~~~~~~~~L~~L~Ls~N~l~~~----------------~--~l~~l~~L~~L~Ls~-N~l~~~~~~   82 (176)
T 1a9n_A           22 RELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKL----------------D--GFPLLRRLKTLLVNN-NRICRIGEG   82 (176)
T ss_dssp             EEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEE----------------C--CCCCCSSCCEEECCS-SCCCEECSC
T ss_pred             eEEEeeCCCCchhHHhhhcCCCCCEEECCCCCCCcc----------------c--ccccCCCCCEEECCC-CcccccCcc
Confidence            34555566666666555555 899999999987643                1  167788999999999 488888866


Q ss_pred             h-hccCCCCEEeccCCCCccccch--hhhcCCCCCcEeeccCCcc---hh----hhcCCCCCceeEEEecc
Q 041114          437 L-KALVNLKCVNLEWARDLVTIPL--EVISNFSKLRVLRLFGTVL---AK----ELLGLKHLEELDFTLRC  497 (680)
Q Consensus       437 i-~~L~~Lr~L~L~~~~~l~~lP~--~~i~~L~~L~~L~l~~~~~---~~----~l~~L~~L~~L~i~~~~  497 (680)
                      + +.+++|++|++++| .++.+|.  . ++.+++|++|++++|..   +.    .+..+++|+.|++..+.
T Consensus        83 ~~~~l~~L~~L~L~~N-~i~~~~~~~~-l~~l~~L~~L~l~~N~i~~~~~~~~~~~~~l~~L~~Ld~~~n~  151 (176)
T 1a9n_A           83 LDQALPDLTELILTNN-SLVELGDLDP-LASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDFQKVK  151 (176)
T ss_dssp             HHHHCTTCCEEECCSC-CCCCGGGGGG-GGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETTEECC
T ss_pred             hhhcCCCCCEEECCCC-cCCcchhhHh-hhcCCCCCEEEecCCCCCCcHhHHHHHHHHCCccceeCCCcCC
Confidence            5 89999999999999 7888886  5 88899999999998762   22    26778888888877544

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=98.71  E-value=6.7e-10  Score=105.99  Aligned_cols=110  Identities=19%  Similarity=0.127  Sum_probs=74.5

Q ss_pred             cccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--chhhhc
Q 041114          406 KMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--LAKELL  483 (680)
Q Consensus       406 ~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~  483 (680)
                      +.+|.. |..+++|++|+|++| .+..+| .++.+++|++|++++| .+..+|.. ++.+++|++|++++|.  .+..+.
T Consensus        38 ~~l~~~-~~~l~~L~~L~ls~n-~l~~l~-~~~~l~~L~~L~l~~n-~l~~l~~~-~~~~~~L~~L~L~~N~l~~l~~~~  112 (198)
T 1ds9_A           38 EKMDAT-LSTLKACKHLALSTN-NIEKIS-SLSGMENLRILSLGRN-LIKKIENL-DAVADTLEELWISYNQIASLSGIE  112 (198)
T ss_dssp             CCCHHH-HHHTTTCSEEECSEE-EESCCC-CHHHHTTCCEEEEEEE-EECSCSSH-HHHHHHCSEEEEEEEECCCHHHHH
T ss_pred             hhhhHH-HhcCCCCCEEECCCC-CCcccc-ccccCCCCCEEECCCC-Ccccccch-hhcCCcCCEEECcCCcCCcCCccc
Confidence            355654 788888999999884 788888 8888899999999888 68888874 7777888888887763  112222


Q ss_pred             CCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccc-cccccCCCCCEEEEecc
Q 041114          484 GLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDV-IALARLKHLSTLHFSKC  547 (680)
Q Consensus       484 ~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~-~~l~~l~~L~~L~l~~~  547 (680)
                      .++                          +|+.|+++++. +...+. ..+..+++|+.|+++++
T Consensus       113 ~l~--------------------------~L~~L~l~~N~-i~~~~~~~~l~~l~~L~~L~l~~N  150 (198)
T 1ds9_A          113 KLV--------------------------NLRVLYMSNNK-ITNWGEIDKLAALDKLEDLLLAGN  150 (198)
T ss_dssp             HHH--------------------------HSSEEEESEEE-CCCHHHHHHHTTTTTCSEEEECSC
T ss_pred             cCC--------------------------CCCEEECCCCc-CCchhHHHHHhcCCCCCEEEecCC
Confidence            333                          56666666554 232221 24566667777777654

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=98.69  E-value=4.9e-08  Score=92.45  Aligned_cols=41  Identities=17%  Similarity=0.151  Sum_probs=22.0

Q ss_pred             ccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCC
Q 041114          532 ALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCP  583 (680)
Q Consensus       532 ~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~  583 (680)
                      .+..+++|+.|+++++ .+..+.+..+          ..+++|++|+|++++
T Consensus        97 ~~~~l~~L~~L~L~~N-~l~~~~~~~~----------~~l~~L~~L~L~~N~  137 (192)
T 1w8a_A           97 MFLGLHQLKTLNLYDN-QISCVMPGSF----------EHLNSLTSLNLASNP  137 (192)
T ss_dssp             SSTTCTTCCEEECCSS-CCCEECTTSS----------TTCTTCCEEECTTCC
T ss_pred             HhcCCCCCCEEECCCC-cCCeeCHHHh----------hcCCCCCEEEeCCCC
Confidence            3555666666666653 3443333222          455666666666654

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

Probab=98.69  E-value=4.7e-08  Score=90.92  Aligned_cols=69  Identities=19%  Similarity=0.330  Sum_probs=43.4

Q ss_pred             ccchhhhccCCcceEEEccCCCCccccchh-hhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc
Q 041114          407 MITDGFFQFMPLLKVLNMSRETNIKELLGE-LKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       407 ~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~-i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      .+++..|.++++|++|+|++ +.+..+|.. ++.+++|++|+|++| .++.+|.+.++.+++|++|++++|.
T Consensus        47 ~~~~~~~~~l~~L~~L~Ls~-N~l~~i~~~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~l~~L~~L~L~~N~  116 (174)
T 2r9u_A           47 KLEPGVFDHLVNLQQLYFNS-NKLTAIPTGVFDKLTQLTQLDLNDN-HLKSIPRGAFDNLKSLTHIYLYNNP  116 (174)
T ss_dssp             CCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCSEEECCSSC
T ss_pred             ccCHHHhcCCcCCCEEECCC-CCCCccChhHhCCcchhhEEECCCC-ccceeCHHHhccccCCCEEEeCCCC
Confidence            44444466666677777776 366666654 466666777777666 5666666546666666666666653

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

Probab=98.69  E-value=4.6e-08  Score=91.21  Aligned_cols=119  Identities=22%  Similarity=0.342  Sum_probs=77.0

Q ss_pred             EEecCCCcccccccccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchh-hh
Q 041114          360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGE-LK  438 (680)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~-i~  438 (680)
                      +...+.++..+|.. ...++++|.+.+|.+.                .+|+..|..+++|++|++++ +.+..+|.. ++
T Consensus        12 l~~~~~~l~~~p~~-~~~~l~~L~l~~n~l~----------------~~~~~~~~~l~~L~~L~l~~-n~l~~~~~~~~~   73 (177)
T 2o6r_A           12 IRCNSKGLTSVPTG-IPSSATRLELESNKLQ----------------SLPHGVFDKLTQLTKLSLSQ-NQIQSLPDGVFD   73 (177)
T ss_dssp             EECCSSCCSSCCTT-CCTTCSEEECCSSCCC----------------CCCTTTTTTCTTCSEEECCS-SCCCCCCTTTTT
T ss_pred             EEecCCCCccCCCC-CCCCCcEEEeCCCccc----------------EeCHHHhcCcccccEEECCC-CcceEeChhHcc
Confidence            33344444444422 2246666666666554                45555577788888888888 477777744 57


Q ss_pred             ccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc---chh-hhcCCCCCceeEEEecc
Q 041114          439 ALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV---LAK-ELLGLKHLEELDFTLRC  497 (680)
Q Consensus       439 ~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~---~~~-~l~~L~~L~~L~i~~~~  497 (680)
                      .+++|++|++++| .++.+|...++.+++|++|+++++.   .+. .+..+++|+.|++..+.
T Consensus        74 ~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~  135 (177)
T 2o6r_A           74 KLTKLTILYLHEN-KLQSLPNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNP  135 (177)
T ss_dssp             TCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCCccCEEECCCC-CccccCHHHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEEecCCC
Confidence            8888888888888 6888877656778888888888764   112 23556666666665443

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=98.68  E-value=1.6e-09  Score=103.42  Aligned_cols=144  Identities=18%  Similarity=0.234  Sum_probs=104.4

Q ss_pred             cceEEEccCC-CCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhhcCCCCCceeEEEec
Q 041114          418 LLKVLNMSRE-TNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTLR  496 (680)
Q Consensus       418 ~Lr~LdL~~~-~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L~~L~~L~i~~~  496 (680)
                      .|+.+++.++ ..++.+|..++.+++|++|++++| .+..+| . ++++++|++|++++|..    .             
T Consensus        24 ~l~~~~l~~~~~~l~~l~~~~~~l~~L~~L~ls~n-~l~~l~-~-~~~l~~L~~L~l~~n~l----~-------------   83 (198)
T 1ds9_A           24 EAEKVELHGMIPPIEKMDATLSTLKACKHLALSTN-NIEKIS-S-LSGMENLRILSLGRNLI----K-------------   83 (198)
T ss_dssp             TCSEEECCBCCTTCCCCHHHHHHTTTCSEEECSEE-EESCCC-C-HHHHTTCCEEEEEEEEE----C-------------
T ss_pred             chheeEeccccCcHhhhhHHHhcCCCCCEEECCCC-CCcccc-c-cccCCCCCEEECCCCCc----c-------------
Confidence            3455555542 356778889999999999999999 799999 5 89999999999987631    1             


Q ss_pred             cchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeec-ccCCCCccCCCCCCCCCCcc
Q 041114          497 CVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKT-DYTSGTVLKSPQPFVFCSLH  575 (680)
Q Consensus       497 ~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~-~~~~~~~l~~~~~~~l~~L~  575 (680)
                            .++.....+++|+.|+++++. +..++  .+..+++|+.|+++++ .+..++. ..+          ..+++|+
T Consensus        84 ------~l~~~~~~~~~L~~L~L~~N~-l~~l~--~~~~l~~L~~L~l~~N-~i~~~~~~~~l----------~~l~~L~  143 (198)
T 1ds9_A           84 ------KIENLDAVADTLEELWISYNQ-IASLS--GIEKLVNLRVLYMSNN-KITNWGEIDKL----------AALDKLE  143 (198)
T ss_dssp             ------SCSSHHHHHHHCSEEEEEEEE-CCCHH--HHHHHHHSSEEEESEE-ECCCHHHHHHH----------TTTTTCS
T ss_pred             ------cccchhhcCCcCCEEECcCCc-CCcCC--ccccCCCCCEEECCCC-cCCchhHHHHH----------hcCCCCC
Confidence                  112222334588999999885 55554  6888999999999985 3443322 223          5689999


Q ss_pred             EEeeeCCCCCCCCCC-----------cCCCCCCCEEe
Q 041114          576 KVTITFCPKLKGLTF-----------LVFAPNLKCLS  601 (680)
Q Consensus       576 ~L~L~~c~~l~~l~~-----------l~~l~~L~~L~  601 (680)
                      +|++++|+....+|.           +..+|+|+.|+
T Consensus       144 ~L~l~~N~l~~~~~~~~~~~~~~~~~~~~l~~L~~Ld  180 (198)
T 1ds9_A          144 DLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKLD  180 (198)
T ss_dssp             EEEECSCHHHHHHHTTTTHHHHHHHHHHHCSSCSEEC
T ss_pred             EEEecCCccccccccccchHHHHHHHHHhCCCcEEEC
Confidence            999999874333332           67999999997

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

Probab=98.67  E-value=7.5e-08  Score=89.80  Aligned_cols=102  Identities=24%  Similarity=0.387  Sum_probs=82.3

Q ss_pred             cEEEecCCCcccccc--cccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccch
Q 041114          358 NFLVCAGRGLKEAPE--VKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLG  435 (680)
Q Consensus       358 ~~~~~~~~~~~~~~~--~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~  435 (680)
                      ..+...+..+..++.  .....++++|.+.+|.+.                .+|+..|..+++|++|+|++ +.+..+|.
T Consensus        31 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~----------------~~~~~~~~~l~~L~~L~l~~-N~l~~~~~   93 (177)
T 2o6r_A           31 TRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQ----------------SLPDGVFDKLTKLTILYLHE-NKLQSLPN   93 (177)
T ss_dssp             SEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCC----------------CCCTTTTTTCTTCCEEECCS-SCCCCCCT
T ss_pred             cEEEeCCCcccEeCHHHhcCcccccEEECCCCcce----------------EeChhHccCCCccCEEECCC-CCccccCH
Confidence            445555555555553  245678999999888775                45666688999999999999 58988886


Q ss_pred             h-hhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc
Q 041114          436 E-LKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       436 ~-i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      . ++.+++|++|++++| .++.+|.+.+..+++|++|++++|.
T Consensus        94 ~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~l~~N~  135 (177)
T 2o6r_A           94 GVFDKLTQLKELALDTN-QLKSVPDGIFDRLTSLQKIWLHTNP  135 (177)
T ss_dssp             TTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             HHhhCCcccCEEECcCC-cceEeCHHHhcCCcccCEEEecCCC
Confidence            5 689999999999999 7999999756889999999999885

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=98.63  E-value=8.9e-08  Score=88.70  Aligned_cols=68  Identities=21%  Similarity=0.346  Sum_probs=42.1

Q ss_pred             ccchhhhccCCcceEEEccCCCCccccchh-hhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCC
Q 041114          407 MITDGFFQFMPLLKVLNMSRETNIKELLGE-LKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGT  476 (680)
Q Consensus       407 ~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~-i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~  476 (680)
                      .+++..|.++++|++|+|++ +.+..+|.. +..+++|++|+|++| .++.+|.+.+..+++|++|+++++
T Consensus        44 ~~~~~~~~~l~~L~~L~Ls~-N~l~~l~~~~f~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N  112 (170)
T 3g39_A           44 KLEPGVFDRLTQLTRLDLDN-NQLTVLPAGVFDKLTQLTQLSLNDN-QLKSIPRGAFDNLKSLTHIWLLNN  112 (170)
T ss_dssp             CCCTTTTTTCTTCSEEECCS-SCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             ccChhhhcCcccCCEEECCC-CCcCccChhhccCCCCCCEEECCCC-ccCEeCHHHhcCCCCCCEEEeCCC
Confidence            44444466666666666666 366666644 456666666666666 566666544666666666666665

>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=98.59  E-value=1.2e-07  Score=98.13  Aligned_cols=214  Identities=16%  Similarity=0.078  Sum_probs=118.8

Q ss_pred             CCcceEEEccCCCCcc--------------------ccc-hhhhc--------cCCCCEEeccCCCCccccchhhhcCCC
Q 041114          416 MPLLKVLNMSRETNIK--------------------ELL-GELKA--------LVNLKCVNLEWARDLVTIPLEVISNFS  466 (680)
Q Consensus       416 l~~Lr~LdL~~~~~i~--------------------~lP-~~i~~--------L~~Lr~L~L~~~~~l~~lP~~~i~~L~  466 (680)
                      +++|++|||++| .+.                    .+| ..+..        +.+|+.|+|.+  .++.++..++..++
T Consensus        48 l~~L~~LdLs~n-~i~~~~~~~~~~~~~~~~~~~~~~I~~~aF~~~~~~~~~g~~~L~~l~L~~--~i~~I~~~aF~~~~  124 (329)
T 3sb4_A           48 FPSLKVLDISNA-EIKMYSGKAGTYPNGKFYIYMANFVPAYAFSNVVNGVTKGKQTLEKVILSE--KIKNIEDAAFKGCD  124 (329)
T ss_dssp             CTTCCEEEEEEE-EECCEEESSSSSGGGCCEEECTTEECTTTTEEEETTEEEECTTCCC-CBCT--TCCEECTTTTTTCT
T ss_pred             hccCeEEecCcc-eeEEecCccccccccccccccccccCHHHhcccccccccccCCCcEEECCc--cccchhHHHhhcCc
Confidence            788999999985 666                    455 34567        89999999988  48999988899999


Q ss_pred             CCcEeeccCCcc----hhhhcCCCCCceeEEEec---------------------------cchhhhhh-hhchhhhccc
Q 041114          467 KLRVLRLFGTVL----AKELLGLKHLEELDFTLR---------------------------CVHSLQIL-VSSNKLQSCT  514 (680)
Q Consensus       467 ~L~~L~l~~~~~----~~~l~~L~~L~~L~i~~~---------------------------~~~~l~~l-~~~~~l~~~L  514 (680)
                      +|+.|++.++..    ...+....++..+.....                           ....+... ....-...++
T Consensus       125 ~L~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~L~~~i~~~~~~~l~~~~~~~~~~~~~~  204 (329)
T 3sb4_A          125 NLKICQIRKKTAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEPLETTIQVGAMGKLEDEIMKAGLQPRDI  204 (329)
T ss_dssp             TCCEEEBCCSSCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCCCEEEEEECTTCCHHHHHHHTTCCGGGC
T ss_pred             ccceEEcCCCCccccchhhhcCCCceEEecCcchhhhhccccccccccccccccceeEEecCCCcHHHHHhhcccCcccc
Confidence            999999987641    122233333322221110                           00000000 0000012233


Q ss_pred             cEEEEeccCCCCccccccc-ccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC--Cc
Q 041114          515 RALVLIRFKDSKSIDVIAL-ARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT--FL  591 (680)
Q Consensus       515 ~~L~l~~~~~~~~~~~~~l-~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~--~l  591 (680)
                      ..+.+.+.-  .......+ ..+++|+.|+++++ .++.++...+          ..+++|+.|+|.+.  ++.++  .+
T Consensus       205 ~~l~~~~~l--~~~~~~~l~~~~~~L~~l~L~~n-~i~~I~~~aF----------~~~~~L~~l~l~~n--i~~I~~~aF  269 (329)
T 3sb4_A          205 NFLTIEGKL--DNADFKLIRDYMPNLVSLDISKT-NATTIPDFTF----------AQKKYLLKIKLPHN--LKTIGQRVF  269 (329)
T ss_dssp             SEEEEEECC--CHHHHHHHHHHCTTCCEEECTTB-CCCEECTTTT----------TTCTTCCEEECCTT--CCEECTTTT
T ss_pred             ceEEEeeee--cHHHHHHHHHhcCCCeEEECCCC-CcceecHhhh----------hCCCCCCEEECCcc--cceehHHHh
Confidence            344443321  11111111 12567777777653 3555544444          45677777777763  55544  25


Q ss_pred             CCCCCCC-EEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCCccccCcceEE
Q 041114          592 VFAPNLK-CLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNSALEHKIAI  651 (680)
Q Consensus       592 ~~l~~L~-~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~~~l~~L~i~  651 (680)
                      ..+++|+ .|.+.+  .++.+ +...|..+++|+.+.+.+ .+++.++......+.+|+.+
T Consensus       270 ~~~~~L~~~l~l~~--~l~~I-~~~aF~~c~~L~~l~l~~-n~i~~I~~~aF~~~~~L~~l  326 (329)
T 3sb4_A          270 SNCGRLAGTLELPA--SVTAI-EFGAFMGCDNLRYVLATG-DKITTLGDELFGNGVPSKLI  326 (329)
T ss_dssp             TTCTTCCEEEEECT--TCCEE-CTTTTTTCTTEEEEEECS-SCCCEECTTTTCTTCCCCEE
T ss_pred             hCChhccEEEEEcc--cceEE-chhhhhCCccCCEEEeCC-CccCccchhhhcCCcchhhh
Confidence            6777777 777765  45555 334556677777777654 45666666544434555544

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

Probab=98.54  E-value=7.8e-08  Score=110.21  Aligned_cols=98  Identities=22%  Similarity=0.234  Sum_probs=77.3

Q ss_pred             ccceEEEEeecccccccccC-CCCccc------cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEec
Q 041114          376 WETVRRLSLMQNQIKILSEA-PTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNL  448 (680)
Q Consensus       376 ~~~~r~lsl~~~~~~~l~~~-~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L  448 (680)
                      ...++.|.+.+|.+..++.. ..+++|      ++.+..+|.. |.++++|++|||++| .+..+|.+|+.|++|++|+|
T Consensus       223 l~~L~~L~Ls~n~l~~l~~~~~~l~~L~~L~Ls~N~l~~lp~~-~~~l~~L~~L~Ls~N-~l~~lp~~~~~l~~L~~L~L  300 (727)
T 4b8c_D          223 DQLWHALDLSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAE-IKNLSNLRVLDLSHN-RLTSLPAELGSCFQLKYFYF  300 (727)
T ss_dssp             CCCCCEEECTTSCCSCCCGGGGGCCSCSCCBCTTSCCSCCCGG-GGGGTTCCEEECTTS-CCSSCCSSGGGGTTCSEEEC
T ss_pred             CCCCcEEECCCCCCCCCChhhcCCCCCCEEEeeCCcCcccChh-hhCCCCCCEEeCcCC-cCCccChhhcCCCCCCEEEC
Confidence            36789999999988877643 233333      6677778876 688888888888884 78888888888888888888


Q ss_pred             cCCCCccccchhhhcCCCCCcEeeccCCc
Q 041114          449 EWARDLVTIPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       449 ~~~~~l~~lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      ++| .++.+|.+ |++|++|++|++++|.
T Consensus       301 ~~N-~l~~lp~~-~~~l~~L~~L~L~~N~  327 (727)
T 4b8c_D          301 FDN-MVTTLPWE-FGNLCNLQFLGVEGNP  327 (727)
T ss_dssp             CSS-CCCCCCSS-TTSCTTCCCEECTTSC
T ss_pred             CCC-CCCccChh-hhcCCCccEEeCCCCc
Confidence            888 68888887 8888888888888765

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

Probab=98.50  E-value=1.8e-07  Score=87.02  Aligned_cols=88  Identities=22%  Similarity=0.270  Sum_probs=70.6

Q ss_pred             cccchhhhccCCcceEEEccCCCCcccc-chhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc---chh-
Q 041114          406 KMITDGFFQFMPLLKVLNMSRETNIKEL-LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV---LAK-  480 (680)
Q Consensus       406 ~~lp~~~~~~l~~Lr~LdL~~~~~i~~l-P~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~---~~~-  480 (680)
                      ..+|..+   .++|++|+|++ +.+..+ |..++.+++|++|+|++| .++.+|.+.++++++|++|++++|.   .+. 
T Consensus        25 ~~iP~~~---~~~L~~L~Ls~-N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~i~~~~~~~l~~L~~L~L~~N~l~~l~~~   99 (174)
T 2r9u_A           25 ASVPAGI---PTDKQRLWLNN-NQITKLEPGVFDHLVNLQQLYFNSN-KLTAIPTGVFDKLTQLTQLDLNDNHLKSIPRG   99 (174)
T ss_dssp             SSCCSCC---CTTCSEEECCS-SCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTT
T ss_pred             CccCCCc---CCCCcEEEeCC-CCccccCHHHhcCCcCCCEEECCCC-CCCccChhHhCCcchhhEEECCCCccceeCHH
Confidence            3566553   37899999999 488888 467999999999999999 8999998756899999999999875   222 


Q ss_pred             hhcCCCCCceeEEEeccc
Q 041114          481 ELLGLKHLEELDFTLRCV  498 (680)
Q Consensus       481 ~l~~L~~L~~L~i~~~~~  498 (680)
                      .+..+++|+.|++..+..
T Consensus       100 ~~~~l~~L~~L~L~~N~~  117 (174)
T 2r9u_A          100 AFDNLKSLTHIYLYNNPW  117 (174)
T ss_dssp             TTTTCTTCSEEECCSSCB
T ss_pred             HhccccCCCEEEeCCCCc
Confidence            367788888888775543

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=98.46  E-value=2.6e-07  Score=85.53  Aligned_cols=86  Identities=21%  Similarity=0.293  Sum_probs=69.7

Q ss_pred             ccchhhhccCCcceEEEccCCCCcccc-chhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc---ch-hh
Q 041114          407 MITDGFFQFMPLLKVLNMSRETNIKEL-LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV---LA-KE  481 (680)
Q Consensus       407 ~lp~~~~~~l~~Lr~LdL~~~~~i~~l-P~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~---~~-~~  481 (680)
                      .+|..+   .++|++|+|++ +.+..+ |..++.+++|++|+|++| .++.+|.+.+..+++|++|+++++.   .+ ..
T Consensus        23 ~ip~~~---~~~l~~L~L~~-N~i~~~~~~~~~~l~~L~~L~Ls~N-~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~   97 (170)
T 3g39_A           23 SVPTGI---PTTTQVLYLYD-NQITKLEPGVFDRLTQLTRLDLDNN-QLTVLPAGVFDKLTQLTQLSLNDNQLKSIPRGA   97 (170)
T ss_dssp             SCCSCC---CTTCSEEECCS-SCCCCCCTTTTTTCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTT
T ss_pred             ccCccC---CCCCcEEEcCC-CcCCccChhhhcCcccCCEEECCCC-CcCccChhhccCCCCCCEEECCCCccCEeCHHH
Confidence            455542   37899999999 589888 467999999999999999 7999999867899999999999986   22 24


Q ss_pred             hcCCCCCceeEEEecc
Q 041114          482 LLGLKHLEELDFTLRC  497 (680)
Q Consensus       482 l~~L~~L~~L~i~~~~  497 (680)
                      +..+++|+.|++..+.
T Consensus        98 ~~~l~~L~~L~L~~N~  113 (170)
T 3g39_A           98 FDNLKSLTHIWLLNNP  113 (170)
T ss_dssp             TTTCTTCCEEECCSSC
T ss_pred             hcCCCCCCEEEeCCCC
Confidence            6778888888887554

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.43  E-value=4.1e-06  Score=88.73  Aligned_cols=227  Identities=13%  Similarity=0.064  Sum_probs=135.6

Q ss_pred             cccccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc---ch
Q 041114          404 EFKMITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV---LA  479 (680)
Q Consensus       404 ~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~---~~  479 (680)
                      .+..++...|.++ +|+.+++..  .+..++ ..+.++.+|+.+++.++ .++.+|.+.+. ..+|+.+.+..+-   ..
T Consensus       145 ~i~~I~~~aF~~~-~L~~i~lp~--~l~~I~~~aF~~c~~L~~l~l~~n-~l~~I~~~aF~-~~~L~~l~lp~~l~~I~~  219 (401)
T 4fdw_A          145 GLKSIGDMAFFNS-TVQEIVFPS--TLEQLKEDIFYYCYNLKKADLSKT-KITKLPASTFV-YAGIEEVLLPVTLKEIGS  219 (401)
T ss_dssp             TCCEECTTTTTTC-CCCEEECCT--TCCEECSSTTTTCTTCCEEECTTS-CCSEECTTTTT-TCCCSEEECCTTCCEECT
T ss_pred             CccEECHHhcCCC-CceEEEeCC--CccEehHHHhhCcccCCeeecCCC-cceEechhhEe-ecccCEEEeCCchheehh
Confidence            3555666666653 566666664  566665 44667777777777776 67777776454 4677777775331   12


Q ss_pred             hhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCC----cceeec
Q 041114          480 KELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEE----LEEWKT  555 (680)
Q Consensus       480 ~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~----l~~l~~  555 (680)
                      ..+.++.+|+.+.+..    ++..++...-...+|+.+.+.+  ++..++...+.++++|+.+.+.+...    ...++.
T Consensus       220 ~aF~~~~~L~~l~l~~----~l~~I~~~aF~~~~L~~i~lp~--~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~  293 (401)
T 4fdw_A          220 QAFLKTSQLKTIEIPE----NVSTIGQEAFRESGITTVKLPN--GVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHP  293 (401)
T ss_dssp             TTTTTCTTCCCEECCT----TCCEECTTTTTTCCCSEEEEET--TCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECT
T ss_pred             hHhhCCCCCCEEecCC----CccCccccccccCCccEEEeCC--CccEEChhHhhCCCCCCEEEeCCccccCCcccEECH
Confidence            2345566666666541    1222221111124788888843  35566656888889999999875321    112333


Q ss_pred             ccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC--CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCcccccc
Q 041114          556 DYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT--FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAK  633 (680)
Q Consensus       556 ~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~--~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~  633 (680)
                      ..+          ..+++|+.+.|.+  .++.++  .+..+++|+.+.|..  .++.+ ....|..+ +|+.+.+.+. .
T Consensus       294 ~aF----------~~c~~L~~l~l~~--~i~~I~~~aF~~c~~L~~l~lp~--~l~~I-~~~aF~~~-~L~~l~l~~n-~  356 (401)
T 4fdw_A          294 YCL----------EGCPKLARFEIPE--SIRILGQGLLGGNRKVTQLTIPA--NVTQI-NFSAFNNT-GIKEVKVEGT-T  356 (401)
T ss_dssp             TTT----------TTCTTCCEECCCT--TCCEECTTTTTTCCSCCEEEECT--TCCEE-CTTSSSSS-CCCEEEECCS-S
T ss_pred             HHh----------hCCccCCeEEeCC--ceEEEhhhhhcCCCCccEEEECc--cccEE-cHHhCCCC-CCCEEEEcCC-C
Confidence            333          5678899998874  355554  366789999999954  36666 34456667 8888888774 4


Q ss_pred             CCCCCCCCcccc-CcceEEecccccc
Q 041114          634 LRKLPLDSNSAL-EHKIAIRGEAGWW  658 (680)
Q Consensus       634 L~~lP~~~~~~l-~~L~i~~~~~~~~  658 (680)
                      +..++.+....+ ..+..+..+....
T Consensus       357 ~~~l~~~~F~~~~~~l~~l~vp~~~~  382 (401)
T 4fdw_A          357 PPQVFEKVWYGFPDDITVIRVPAESV  382 (401)
T ss_dssp             CCBCCCSSCCCSCTTCCEEEECGGGH
T ss_pred             CcccccccccCCCCCccEEEeCHHHH
Confidence            555555433333 2445555554443

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.26  E-value=1e-05  Score=85.74  Aligned_cols=181  Identities=11%  Similarity=0.077  Sum_probs=131.5

Q ss_pred             cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc---c
Q 041114          402 HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV---L  478 (680)
Q Consensus       402 ~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~---~  478 (680)
                      .+.+..++...|.++.+|+.++|+. +.+..+|...-...+|+.+.+..+  ++.++..++..+.+|+.+++..+-   .
T Consensus       165 p~~l~~I~~~aF~~c~~L~~l~l~~-n~l~~I~~~aF~~~~L~~l~lp~~--l~~I~~~aF~~~~~L~~l~l~~~l~~I~  241 (401)
T 4fdw_A          165 PSTLEQLKEDIFYYCYNLKKADLSK-TKITKLPASTFVYAGIEEVLLPVT--LKEIGSQAFLKTSQLKTIEIPENVSTIG  241 (401)
T ss_dssp             CTTCCEECSSTTTTCTTCCEEECTT-SCCSEECTTTTTTCCCSEEECCTT--CCEECTTTTTTCTTCCCEECCTTCCEEC
T ss_pred             CCCccEehHHHhhCcccCCeeecCC-CcceEechhhEeecccCEEEeCCc--hheehhhHhhCCCCCCEEecCCCccCcc
Confidence            4467788888899999999999998 589999966555789999999854  899999889999999999997532   1


Q ss_pred             hhhhcCCCCCceeEEEeccchhhhhhh-hchhhhccccEEEEeccCC----CCcccccccccCCCCCEEEEeccCCccee
Q 041114          479 AKELLGLKHLEELDFTLRCVHSLQILV-SSNKLQSCTRALVLIRFKD----SKSIDVIALARLKHLSTLHFSKCEELEEW  553 (680)
Q Consensus       479 ~~~l~~L~~L~~L~i~~~~~~~l~~l~-~~~~l~~~L~~L~l~~~~~----~~~~~~~~l~~l~~L~~L~l~~~~~l~~l  553 (680)
                      ...+.+ .+|+.+.+. +   .+..++ .....+.+|+.+.+.+...    ...++...+..+++|+.+.+.+  .++.+
T Consensus       242 ~~aF~~-~~L~~i~lp-~---~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~~--~i~~I  314 (401)
T 4fdw_A          242 QEAFRE-SGITTVKLP-N---GVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIPE--SIRIL  314 (401)
T ss_dssp             TTTTTT-CCCSEEEEE-T---TCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCCT--TCCEE
T ss_pred             cccccc-CCccEEEeC-C---CccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeCC--ceEEE
Confidence            123334 577777774 1   222222 2223456899999876532    1234545888999999999973  57776


Q ss_pred             ecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC--CcCCCCCCCEEeEecC
Q 041114          554 KTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT--FLVFAPNLKCLSLFDC  605 (680)
Q Consensus       554 ~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~--~l~~l~~L~~L~l~~c  605 (680)
                      +...+          ..+++|+.+.|...  ++.+.  .+..+ +|+.+.+.+.
T Consensus       315 ~~~aF----------~~c~~L~~l~lp~~--l~~I~~~aF~~~-~L~~l~l~~n  355 (401)
T 4fdw_A          315 GQGLL----------GGNRKVTQLTIPAN--VTQINFSAFNNT-GIKEVKVEGT  355 (401)
T ss_dssp             CTTTT----------TTCCSCCEEEECTT--CCEECTTSSSSS-CCCEEEECCS
T ss_pred             hhhhh----------cCCCCccEEEECcc--ccEEcHHhCCCC-CCCEEEEcCC
Confidence            55554          56789999999653  55544  36677 9999999874

>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=98.25  E-value=1.9e-06  Score=89.53  Aligned_cols=67  Identities=16%  Similarity=0.231  Sum_probs=41.8

Q ss_pred             ccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCC
Q 041114          407 MITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGT  476 (680)
Q Consensus       407 ~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~  476 (680)
                      .+|+..|..+++|++|+|++| .+..+| ..+++|++|++|+|++| .+..+|.+.+..+. |++|++.++
T Consensus        46 ~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~~~-L~~l~l~~N  113 (347)
T 2ifg_A           46 HLELRDLRGLGELRNLTIVKS-GLRFVAPDAFHFTPRLSRLNLSFN-ALESLSWKTVQGLS-LQELVLSGN  113 (347)
T ss_dssp             EECGGGSCSCCCCSEEECCSS-CCCEECTTGGGSCSCCCEEECCSS-CCSCCCSTTTCSCC-CCEEECCSS
T ss_pred             CcChhHhccccCCCEEECCCC-ccceeCHHHhcCCcCCCEEeCCCC-ccceeCHHHcccCC-ceEEEeeCC
Confidence            445444666777777777773 666655 34567777777777776 56677665333343 777776654

>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=98.23  E-value=1.7e-06  Score=90.00  Aligned_cols=92  Identities=18%  Similarity=0.224  Sum_probs=73.5

Q ss_pred             cccccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc---ch
Q 041114          404 EFKMITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV---LA  479 (680)
Q Consensus       404 ~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~---~~  479 (680)
                      .+..+|.  +..+.+|++|+|++++.+..+| ..++.|++|++|+|++| .+..+|++.+++|++|++|+|++|.   .+
T Consensus        20 ~l~~ip~--l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~   96 (347)
T 2ifg_A           20 ALDSLHH--LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS-GLRFVAPDAFHFTPRLSRLNLSFNALESLS   96 (347)
T ss_dssp             CCTTTTT--SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSS-CCCEECTTGGGSCSCCCEEECCSSCCSCCC
T ss_pred             CCCccCC--CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCC-ccceeCHHHhcCCcCCCEEeCCCCccceeC
Confidence            4557787  7889999999999635899888 56999999999999999 7999988768999999999999986   22


Q ss_pred             h-hhcCCCCCceeEEEeccch
Q 041114          480 K-ELLGLKHLEELDFTLRCVH  499 (680)
Q Consensus       480 ~-~l~~L~~L~~L~i~~~~~~  499 (680)
                      . .+..+. |+.|.+..+...
T Consensus        97 ~~~~~~~~-L~~l~l~~N~~~  116 (347)
T 2ifg_A           97 WKTVQGLS-LQELVLSGNPLH  116 (347)
T ss_dssp             STTTCSCC-CCEEECCSSCCC
T ss_pred             HHHcccCC-ceEEEeeCCCcc
Confidence            2 233344 888888755443

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.18  E-value=6.1e-07  Score=82.35  Aligned_cols=89  Identities=21%  Similarity=0.217  Sum_probs=55.9

Q ss_pred             cccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCC--CCCCccEEeeeCCCCCCC--C
Q 041114          513 CTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPF--VFCSLHKVTITFCPKLKG--L  588 (680)
Q Consensus       513 ~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~--~l~~L~~L~L~~c~~l~~--l  588 (680)
                      +|+.|++++|. +.......+..+++|++|++++|..+++-....+..        .  ..++|++|+|++|+.+++  +
T Consensus        62 ~L~~LDLs~~~-Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~--------~~~~~~~L~~L~Ls~C~~ITD~Gl  132 (176)
T 3e4g_A           62 KIQAIDATDSC-IMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQ--------LENLQKSMLEMEIISCGNVTDKGI  132 (176)
T ss_dssp             CEEEEEEESCC-CCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHT--------CHHHHHHCCEEEEESCTTCCHHHH
T ss_pred             eEeEEeCcCCC-ccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHh--------cccccCCCCEEEcCCCCcCCHHHH
Confidence            57777777776 555554566677777777777777666544333310        0  013577777777776654  3


Q ss_pred             CCcCCCCCCCEEeEecCcchhH
Q 041114          589 TFLVFAPNLKCLSLFDCTAMEE  610 (680)
Q Consensus       589 ~~l~~l~~L~~L~l~~c~~l~~  610 (680)
                      ..+..+++|++|+|++|+.+++
T Consensus       133 ~~L~~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          133 IALHHFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             HHGGGCTTCCEEEEESCTTCCC
T ss_pred             HHHhcCCCCCEEECCCCCCCCc
Confidence            3455677777777777776554

>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=98.07  E-value=5.2e-06  Score=76.16  Aligned_cols=41  Identities=20%  Similarity=0.299  Sum_probs=29.1

Q ss_pred             ccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcce
Q 041114          512 SCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEE  552 (680)
Q Consensus       512 ~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~  552 (680)
                      ++|+.|++++|..+....+..+.++++|++|++++|+.++.
T Consensus       114 ~~L~~L~Ls~C~~ITD~Gl~~L~~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          114 KSMLEMEIISCGNVTDKGIIALHHFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             HHCCEEEEESCTTCCHHHHHHGGGCTTCCEEEEESCTTCCC
T ss_pred             CCCCEEEcCCCCcCCHHHHHHHhcCCCCCEEECCCCCCCCc
Confidence            36777777777766666555667777788888877777664

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=97.88  E-value=8.3e-06  Score=85.46  Aligned_cols=107  Identities=15%  Similarity=0.179  Sum_probs=61.8

Q ss_pred             cceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccc--cchhhhccCCCCEEeccCCCCc
Q 041114          377 ETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKE--LLGELKALVNLKCVNLEWARDL  454 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~--lP~~i~~L~~Lr~L~L~~~~~l  454 (680)
                      +.++.+++.++.+....           ...+........++|++|||++| .+..  +..-...+.+|++|+|++| .+
T Consensus        72 ~~L~~L~Ls~n~l~~~~-----------~~~l~~~L~~~~~~L~~L~Ls~n-~l~~~~~~~l~~~L~~L~~L~Ls~n-~l  138 (372)
T 3un9_A           72 SSLRQLNLAGVRMTPVK-----------CTVVAAVLGSGRHALDEVNLASC-QLDPAGLRTLLPVFLRARKLGLQLN-SL  138 (372)
T ss_dssp             TTCCEEECTTSCCCHHH-----------HHHHHHHHSSCSSCEEEEECTTC-CCCHHHHHHTHHHHHTEEEEECCSS-CC
T ss_pred             hhCCEEEecCCCCCHHH-----------HHHHHHHHhhCCCCceEEEecCC-CCCHHHHHHHHHHHHhccHhhcCCC-CC
Confidence            46778888877765321           11222221123368899999985 5643  2222335678889999988 67


Q ss_pred             cccchhhh-----cCCCCCcEeeccCCcc--------hhhhcCCCCCceeEEEec
Q 041114          455 VTIPLEVI-----SNFSKLRVLRLFGTVL--------AKELLGLKHLEELDFTLR  496 (680)
Q Consensus       455 ~~lP~~~i-----~~L~~L~~L~l~~~~~--------~~~l~~L~~L~~L~i~~~  496 (680)
                      +..+...+     ....+|++|++++|..        ...+..+++|+.|+++.+
T Consensus       139 ~~~~~~~L~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N  193 (372)
T 3un9_A          139 GPEACKDLRDLLLHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHT  193 (372)
T ss_dssp             CHHHHHHHHHHHHSTTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTS
T ss_pred             CHHHHHHHHHHHHhcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCC
Confidence            65432222     3467888888888752        112344555666665543

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.87  E-value=9.7e-06  Score=84.35  Aligned_cols=61  Identities=16%  Similarity=0.102  Sum_probs=34.6

Q ss_pred             hccCCcceEEEccCCCC----c-----cccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc
Q 041114          413 FQFMPLLKVLNMSRETN----I-----KELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~----i-----~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      ..++++|+.|.+...+.    +     ..++.-+..+++|+.|+|++|..+ .+|.  +. +.+|++|++..|.
T Consensus       135 ~~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l-~l~~--~~-~~~L~~L~L~~~~  204 (362)
T 2ra8_A          135 KEKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNL-SIGK--KP-RPNLKSLEIISGG  204 (362)
T ss_dssp             HHHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTC-BCCS--CB-CTTCSEEEEECSB
T ss_pred             hhhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCc-eecc--cc-CCCCcEEEEecCC
Confidence            44567777777755211    1     134455566777777777766322 3443  32 6667777666543

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.57  E-value=0.00089  Score=70.57  Aligned_cols=66  Identities=20%  Similarity=0.191  Sum_probs=35.1

Q ss_pred             CCCCCccEEeeeCCCCCCCCC--CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCC
Q 041114          569 FVFCSLHKVTITFCPKLKGLT--FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDS  641 (680)
Q Consensus       569 ~~l~~L~~L~L~~c~~l~~l~--~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~  641 (680)
                      ....+|+.+.+.+.  ++.++  .+..+.+|+.+.|.+  .++.+ +...|.++++|+.+.+..  +++.++...
T Consensus       294 ~~~~~L~~i~l~~~--i~~I~~~aF~~c~~L~~i~lp~--~v~~I-~~~aF~~c~~L~~i~lp~--~l~~I~~~a  361 (394)
T 4fs7_A          294 YGCSSLTEVKLLDS--VKFIGEEAFESCTSLVSIDLPY--LVEEI-GKRSFRGCTSLSNINFPL--SLRKIGANA  361 (394)
T ss_dssp             TTCTTCCEEEECTT--CCEECTTTTTTCTTCCEECCCT--TCCEE-CTTTTTTCTTCCEECCCT--TCCEECTTT
T ss_pred             cccccccccccccc--cceechhhhcCCCCCCEEEeCC--cccEE-hHHhccCCCCCCEEEECc--cccEehHHH
Confidence            34566777766542  33332  245677777777743  34444 334455566666665542  355554433

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.56  E-value=4e-05  Score=79.68  Aligned_cols=168  Identities=12%  Similarity=0.009  Sum_probs=83.3

Q ss_pred             ccchhhhccCCCCEEeccCCCCcc----------ccchhhhcCCCCCcEeeccCCcchhhhcCCCCCceeEEEeccchhh
Q 041114          432 ELLGELKALVNLKCVNLEWARDLV----------TIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTLRCVHSL  501 (680)
Q Consensus       432 ~lP~~i~~L~~Lr~L~L~~~~~l~----------~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L~~L~~L~i~~~~~~~l  501 (680)
                      .+++++..+++|+.|.+... ...          .++. ++..+++|+.|+++++..+                    . 
T Consensus       130 ~L~~s~~~l~~L~~L~l~~~-~~e~~~is~~~~~~L~~-ll~~~P~L~~L~L~g~~~l--------------------~-  186 (362)
T 2ra8_A          130 GIVENKEKFAHFEGLFWGDI-DFEEQEISWIEQVDLSP-VLDAMPLLNNLKIKGTNNL--------------------S-  186 (362)
T ss_dssp             HHHTTHHHHTTCSEEEECCC-CTTTCCGGGCBCCBCHH-HHHTCTTCCEEEEECCBTC--------------------B-
T ss_pred             HHHHhhhhcchhhheeecCc-chhhcccccccccCHHH-HHhcCCCCcEEEEeCCCCc--------------------e-
Confidence            34566788999999998654 111          2333 2556667777776655210                    0 


Q ss_pred             hhhhhchhhhccccEEEEeccCCCCccccccc--ccCCCCCEEEEeccCCc--ceeecccCCCCccCCCCCCCCCCccEE
Q 041114          502 QILVSSNKLQSCTRALVLIRFKDSKSIDVIAL--ARLKHLSTLHFSKCEEL--EEWKTDYTSGTVLKSPQPFVFCSLHKV  577 (680)
Q Consensus       502 ~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l--~~l~~L~~L~l~~~~~l--~~l~~~~~~~~~l~~~~~~~l~~L~~L  577 (680)
                        ++..  ...+|+.|.+..+. +.......+  ..+++|+.|+|+.+...  .......+..    ......+++|+.|
T Consensus       187 --l~~~--~~~~L~~L~L~~~~-l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~----~l~~~~~p~Lr~L  257 (362)
T 2ra8_A          187 --IGKK--PRPNLKSLEIISGG-LPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRP----LFSKDRFPNLKWL  257 (362)
T ss_dssp             --CCSC--BCTTCSEEEEECSB-CCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGG----GSCTTTCTTCCEE
T ss_pred             --eccc--cCCCCcEEEEecCC-CChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHH----HHhcCCCCCcCEE
Confidence              0110  02366666666543 222111122  25677777777522110  0000000000    0001357788888


Q ss_pred             eeeCCCCCCCC----CCcCCCCCCCEEeEecCcchhHhhh---cCCCCCCCcccccCccccc
Q 041114          578 TITFCPKLKGL----TFLVFAPNLKCLSLFDCTAMEEIIS---AGKFVHTPEMMGNTMDPCA  632 (680)
Q Consensus       578 ~L~~c~~l~~l----~~l~~l~~L~~L~l~~c~~l~~i~~---~~~~~~lp~L~~L~i~~C~  632 (680)
                      .|.+|......    .....+|+|++|+|+.+ .+...-.   ......+++|+.|++++|.
T Consensus       258 ~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n-~L~d~G~~~L~~~L~~l~~L~~L~L~~n~  318 (362)
T 2ra8_A          258 GIVDAEEQNVVVEMFLESDILPQLETMDISAG-VLTDEGARLLLDHVDKIKHLKFINMKYNY  318 (362)
T ss_dssp             EEESCTTHHHHHHHHHHCSSGGGCSEEECCSS-CCBHHHHHHHHTTHHHHTTCSEEECCSBB
T ss_pred             eCCCCCCchHHHHHHHhCccCCCCCEEECCCC-CCChHHHHHHHhhcccCCcceEEECCCCc
Confidence            88876532111    01135788888888764 3444210   0111346778888887764

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=97.40  E-value=0.00014  Score=76.17  Aligned_cols=83  Identities=11%  Similarity=0.118  Sum_probs=59.1

Q ss_pred             cceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccc-hhh-----hccCCCCEEeccC
Q 041114          377 ETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELL-GEL-----KALVNLKCVNLEW  450 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i-----~~L~~Lr~L~L~~  450 (680)
                      .+++.|.+++|.+...              . ...++..+++|+.|+|++| .+.... ..+     ....+|++|+|++
T Consensus       101 ~~L~~L~Ls~n~l~~~--------------~-~~~l~~~L~~L~~L~Ls~n-~l~~~~~~~L~~~L~~~~~~L~~L~Ls~  164 (372)
T 3un9_A          101 HALDEVNLASCQLDPA--------------G-LRTLLPVFLRARKLGLQLN-SLGPEACKDLRDLLLHDQCQITTLRLSN  164 (372)
T ss_dssp             SCEEEEECTTCCCCHH--------------H-HHHTHHHHHTEEEEECCSS-CCCHHHHHHHHHHHHSTTCCCCEEECCS
T ss_pred             CCceEEEecCCCCCHH--------------H-HHHHHHHHHhccHhhcCCC-CCCHHHHHHHHHHHHhcCCccceeeCCC
Confidence            5899999998877532              0 1112344668999999995 675433 233     2467899999999


Q ss_pred             CCCccc-----cchhhhcCCCCCcEeeccCCc
Q 041114          451 ARDLVT-----IPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       451 ~~~l~~-----lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      | .++.     ++.. +..+++|++|++++|.
T Consensus       165 n-~l~~~~~~~l~~~-L~~~~~L~~L~Ls~N~  194 (372)
T 3un9_A          165 N-PLTAAGVAVLMEG-LAGNTSVTHLSLLHTG  194 (372)
T ss_dssp             S-CCHHHHHHHHHHH-HHTCSSCCEEECTTSS
T ss_pred             C-CCChHHHHHHHHH-HhcCCCcCEEeCCCCC
Confidence            9 6765     4553 6788999999999986

>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=97.36  E-value=0.0002  Score=70.62  Aligned_cols=61  Identities=28%  Similarity=0.323  Sum_probs=47.3

Q ss_pred             ccCCcceEEEccCCCCccc---cchhhhccCCCCEEeccCCCCccccchhhhcCCC--CCcEeeccCCcc
Q 041114          414 QFMPLLKVLNMSRETNIKE---LLGELKALVNLKCVNLEWARDLVTIPLEVISNFS--KLRVLRLFGTVL  478 (680)
Q Consensus       414 ~~l~~Lr~LdL~~~~~i~~---lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~--~L~~L~l~~~~~  478 (680)
                      .++++|+.|+|++| .+..   +|..++.+++|++|+|++| .+..+..  +..+.  +|++|++++|..
T Consensus       167 ~~l~~L~~L~Ls~N-~l~~l~~l~~~~~~l~~L~~L~Ls~N-~i~~~~~--l~~l~~l~L~~L~L~~Npl  232 (267)
T 3rw6_A          167 ENIPELLSLNLSNN-RLYRLDDMSSIVQKAPNLKILNLSGN-ELKSERE--LDKIKGLKLEELWLDGNSL  232 (267)
T ss_dssp             HHCTTCCEEECTTS-CCCCCGGGTTHHHHSTTCCEEECTTS-CCCSGGG--GGGGTTSCCSEEECTTSTT
T ss_pred             hhCCCCCEEECCCC-CCCCCccchhHHhhCCCCCEEECCCC-ccCCchh--hhhcccCCcceEEccCCcC
Confidence            56888999999995 6655   4466788999999999998 7887743  56665  888999888763

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.15  E-value=0.0017  Score=68.31  Aligned_cols=64  Identities=19%  Similarity=0.197  Sum_probs=38.2

Q ss_pred             cchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccC
Q 041114          408 ITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG  475 (680)
Q Consensus       408 lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~  475 (680)
                      +....|.++.+|+.+.+..  .+..++ ..+.++.+|+.+.+..+  ++.++...+....+|+.+.+..
T Consensus       153 i~~~aF~~c~~L~~i~l~~--~~~~I~~~~F~~c~~L~~i~l~~~--~~~I~~~~F~~~~~L~~i~~~~  217 (394)
T 4fs7_A          153 IGDEAFATCESLEYVSLPD--SMETLHNGLFSGCGKLKSIKLPRN--LKIIRDYCFAECILLENMEFPN  217 (394)
T ss_dssp             ECTTTTTTCTTCCEEECCT--TCCEECTTTTTTCTTCCBCCCCTT--CCEECTTTTTTCTTCCBCCCCT
T ss_pred             cchhhhcccCCCcEEecCC--ccceeccccccCCCCceEEEcCCC--ceEeCchhhccccccceeecCC
Confidence            4444566667777777764  344555 33556667777766654  5666655566666666665543

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.08  E-value=0.00095  Score=62.17  Aligned_cols=64  Identities=16%  Similarity=0.081  Sum_probs=47.2

Q ss_pred             hhccCCcceEEEccCCCCcc-----ccchhhhccCCCCEEeccCCCCccc-----cchhhhcCCCCCcEeeccCCc
Q 041114          412 FFQFMPLLKVLNMSRETNIK-----ELLGELKALVNLKCVNLEWARDLVT-----IPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       412 ~~~~l~~Lr~LdL~~~~~i~-----~lP~~i~~L~~Lr~L~L~~~~~l~~-----lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      .+...+.|+.|+|++|..+.     .+...+...++|++|+|++| .+..     +... +...++|++|++++|.
T Consensus        31 ~l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n-~i~~~g~~~l~~~-L~~n~~L~~L~L~~N~  104 (185)
T 1io0_A           31 IQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGT-RSNDPVAFALAEM-LKVNNTLKSLNVESNF  104 (185)
T ss_dssp             HHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTS-CCCHHHHHHHHHH-HHHCSSCCEEECCSSC
T ss_pred             HHhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCC-CCChHHHHHHHHH-HHhCCCcCEEECcCCc
Confidence            36778899999999852553     35566777889999999999 5764     3343 5566788889888875

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.08  E-value=0.013  Score=61.41  Aligned_cols=65  Identities=17%  Similarity=0.199  Sum_probs=28.1

Q ss_pred             ccccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeec
Q 041114          405 FKMITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRL  473 (680)
Q Consensus       405 l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l  473 (680)
                      ++.+....|..+.+|+.+.+..  ++..++ ..+..+.+|+.+.+...  +..++...+....+|+.+.+
T Consensus       102 l~~Ig~~aF~~c~~L~~i~~~~--~~~~I~~~aF~~c~~L~~i~lp~~--~~~I~~~~F~~c~~L~~i~~  167 (394)
T 4gt6_A          102 VKKIGRQAFMFCSELTDIPILD--SVTEIDSEAFHHCEELDTVTIPEG--VTSVADGMFSYCYSLHTVTL  167 (394)
T ss_dssp             CCEECTTTTTTCTTCCBCGGGT--TCSEECTTTTTTCTTCCEEECCTT--CCEECTTTTTTCTTCCEEEC
T ss_pred             eeEechhhchhcccceeeccCC--ccceehhhhhhhhcccccccccce--eeeecccceecccccccccc
Confidence            3344444455555555444443  233443 22344444555544432  34444433444444444444

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.02  E-value=0.0037  Score=65.82  Aligned_cols=71  Identities=13%  Similarity=0.096  Sum_probs=54.3

Q ss_pred             ccccccchhhhccCCcceEEEccCC--CCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccC
Q 041114          403 YEFKMITDGFFQFMPLLKVLNMSRE--TNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFG  475 (680)
Q Consensus       403 ~~l~~lp~~~~~~l~~Lr~LdL~~~--~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~  475 (680)
                      ..++.+.+..|.++.+|+.+.++.+  +.++.++ ..+..+.+|+.+.+..+  ++.++...+..+.+|+.+.+..
T Consensus        73 ~svt~Ig~~AF~~C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~~--~~~I~~~aF~~c~~L~~i~lp~  146 (394)
T 4gt6_A           73 DTVTEIGSNAFYNCTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILDS--VTEIDSEAFHHCEELDTVTIPE  146 (394)
T ss_dssp             TTCCEECTTTTTTCTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGTT--CSEECTTTTTTCTTCCEEECCT
T ss_pred             CCeeEEhHHHhhCCccCceEeecCCCCCeeeEechhhchhcccceeeccCCc--cceehhhhhhhhcccccccccc
Confidence            3466777888999999999998764  3466776 45777888888887754  7888877788889999988854

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=96.68  E-value=0.0024  Score=59.41  Aligned_cols=105  Identities=17%  Similarity=0.189  Sum_probs=72.1

Q ss_pred             cceEEEEeecc-cccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccc-----cchhhhccCCCCEEeccC
Q 041114          377 ETVRRLSLMQN-QIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKE-----LLGELKALVNLKCVNLEW  450 (680)
Q Consensus       377 ~~~r~lsl~~~-~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~-----lP~~i~~L~~Lr~L~L~~  450 (680)
                      +.+++|.+.++ .+..-           ....+... +...++|++|+|++| .+..     +...+...++|++|+|++
T Consensus        36 ~~L~~L~L~~n~~i~~~-----------g~~~l~~~-L~~~~~L~~L~Ls~n-~i~~~g~~~l~~~L~~n~~L~~L~L~~  102 (185)
T 1io0_A           36 PDLEEVNLNNIMNIPVP-----------TLKACAEA-LKTNTYVKKFSIVGT-RSNDPVAFALAEMLKVNNTLKSLNVES  102 (185)
T ss_dssp             TTCCEEECTTCTTCCHH-----------HHHHHHHH-HTTCCSCCEEECTTS-CCCHHHHHHHHHHHHHCSSCCEEECCS
T ss_pred             CCCCEEEecCCCCCCHH-----------HHHHHHHH-HHhCCCcCEEECcCC-CCChHHHHHHHHHHHhCCCcCEEECcC
Confidence            57889999887 66531           11233333 667889999999995 6643     556677778999999999


Q ss_pred             CCCccc-----cchhhhcCCCCCcEeec--cCCcc--------hhhhcCCCCCceeEEEec
Q 041114          451 ARDLVT-----IPLEVISNFSKLRVLRL--FGTVL--------AKELLGLKHLEELDFTLR  496 (680)
Q Consensus       451 ~~~l~~-----lP~~~i~~L~~L~~L~l--~~~~~--------~~~l~~L~~L~~L~i~~~  496 (680)
                      | .+..     +... +...++|++|++  ++|..        ...+...+.|+.|++..+
T Consensus       103 N-~i~~~g~~~l~~~-L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n  161 (185)
T 1io0_A          103 N-FISGSGILALVEA-LQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFT  161 (185)
T ss_dssp             S-CCCHHHHHHHHHG-GGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCS
T ss_pred             C-cCCHHHHHHHHHH-HHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCC
Confidence            9 6775     4554 777889999999  65541        123344466666666544

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

Probab=96.59  E-value=0.0024  Score=62.91  Aligned_cols=81  Identities=27%  Similarity=0.277  Sum_probs=60.9

Q ss_pred             cceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccC--CCCEEeccCCCCc
Q 041114          377 ETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALV--NLKCVNLEWARDL  454 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~--~Lr~L~L~~~~~l  454 (680)
                      ++++.|.+++|.+..++             .+|.. +..+++|++|+|++ +.+..+ ..++.|.  +|++|+|++|. +
T Consensus       170 ~~L~~L~Ls~N~l~~l~-------------~l~~~-~~~l~~L~~L~Ls~-N~i~~~-~~l~~l~~l~L~~L~L~~Np-l  232 (267)
T 3rw6_A          170 PELLSLNLSNNRLYRLD-------------DMSSI-VQKAPNLKILNLSG-NELKSE-RELDKIKGLKLEELWLDGNS-L  232 (267)
T ss_dssp             TTCCEEECTTSCCCCCG-------------GGTTH-HHHSTTCCEEECTT-SCCCSG-GGGGGGTTSCCSEEECTTST-T
T ss_pred             CCCCEEECCCCCCCCCc-------------cchhH-HhhCCCCCEEECCC-CccCCc-hhhhhcccCCcceEEccCCc-C
Confidence            58999999999987553             34443 77899999999999 488877 4566666  99999999995 5


Q ss_pred             c-ccch------hhhcCCCCCcEeecc
Q 041114          455 V-TIPL------EVISNFSKLRVLRLF  474 (680)
Q Consensus       455 ~-~lP~------~~i~~L~~L~~L~l~  474 (680)
                      . .+|.      .++..+++|+.||-.
T Consensus       233 ~~~~~~~~~y~~~il~~~P~L~~LDg~  259 (267)
T 3rw6_A          233 CDTFRDQSTYISAIRERFPKLLRLDGH  259 (267)
T ss_dssp             GGGCSSHHHHHHHHHHHCTTCCEESSC
T ss_pred             ccccCcchhHHHHHHHHCcccCeECCc
Confidence            4 3442      236778888888754

>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=96.17  E-value=0.21  Score=51.71  Aligned_cols=63  Identities=8%  Similarity=0.049  Sum_probs=31.5

Q ss_pred             ccccchhhhccCCcceEEEccCCCCccccch-hhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeec
Q 041114          405 FKMITDGFFQFMPLLKVLNMSRETNIKELLG-ELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRL  473 (680)
Q Consensus       405 l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~-~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l  473 (680)
                      ++.+++..|.++.+|+.++|..  .++.++. .+.+. +|..+.+..  +++.++...+.. .+|+.+.+
T Consensus        57 vt~Ig~~aF~~C~~L~~I~lp~--~v~~Ig~~aF~~c-~l~~i~~~~--~l~~I~~~aF~~-~~L~~i~l  120 (379)
T 4h09_A           57 ITSIGEANFNSCYNMTKVTVAS--TVTSIGDGAFADT-KLQSYTGME--RVKKFGDYVFQG-TDLDDFEF  120 (379)
T ss_dssp             EEEECTTTTTTCTTCCEEEECT--TCCEECTTTTTTC-CCCEEEECT--TCCEECTTTTTT-CCCSEEEC
T ss_pred             ccChHHHHhhCCCCCCEEEeCC--cceEechhhhcCC-CCceEECCc--eeeEeccceecc-CCcccccC
Confidence            4455666666666666666654  3555542 23333 344444443  245555443322 24555544

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.96  E-value=0.023  Score=49.17  Aligned_cols=54  Identities=17%  Similarity=0.267  Sum_probs=41.7

Q ss_pred             eEEEccCCCCcc--ccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc
Q 041114          420 KVLNMSRETNIK--ELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       420 r~LdL~~~~~i~--~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      .+++-++ ..++  .+|..+.  .+|++|+|++| .|+.||.+++..+.+|++|++.+|.
T Consensus        11 ~~v~Cs~-~~L~~~~vP~~lp--~~l~~L~Ls~N-~l~~l~~~~f~~l~~L~~L~L~~NP   66 (130)
T 3rfe_A           11 TLVDCGR-RGLTWASLPTAFP--VDTTELVLTGN-NLTALPPGLLDALPALRTAHLGANP   66 (130)
T ss_dssp             TEEECCS-SCCCTTTSCSCCC--TTCSEEECTTS-CCSSCCTTTGGGCTTCCEEECCSSC
T ss_pred             CEEEeCC-CCCccccCCCCCC--cCCCEEECCCC-cCCccChhhhhhccccCEEEecCCC
Confidence            3677777 5777  8885532  36889999998 7999988877888889999888753

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=90.53  E-value=0.21  Score=42.99  Aligned_cols=35  Identities=23%  Similarity=0.168  Sum_probs=30.4

Q ss_pred             CcceEEEccCCCCccccchh-hhccCCCCEEeccCCC
Q 041114          417 PLLKVLNMSRETNIKELLGE-LKALVNLKCVNLEWAR  452 (680)
Q Consensus       417 ~~Lr~LdL~~~~~i~~lP~~-i~~L~~Lr~L~L~~~~  452 (680)
                      .+|++|+|++ +.|..+|.+ +..+++|++|+|++|.
T Consensus        31 ~~l~~L~Ls~-N~l~~l~~~~f~~l~~L~~L~L~~NP   66 (130)
T 3rfe_A           31 VDTTELVLTG-NNLTALPPGLLDALPALRTAHLGANP   66 (130)
T ss_dssp             TTCSEEECTT-SCCSSCCTTTGGGCTTCCEEECCSSC
T ss_pred             cCCCEEECCC-CcCCccChhhhhhccccCEEEecCCC
Confidence            4689999999 599999955 7889999999999984

>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=89.28  E-value=0.57  Score=48.38  Aligned_cols=88  Identities=19%  Similarity=0.149  Sum_probs=65.9

Q ss_pred             ccccccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCC-cch-
Q 041114          403 YEFKMITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGT-VLA-  479 (680)
Q Consensus       403 ~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~-~~~-  479 (680)
                      ..+..+....|..+.+|+.+.+..  .+..++ ..+..+.+|+.+.+.++ .++.++...+..+.+|+.+.+... ..+ 
T Consensus       249 ~~v~~I~~~aF~~~~~l~~i~l~~--~i~~i~~~aF~~c~~L~~i~l~~~-~i~~I~~~aF~~c~~L~~i~lp~~l~~I~  325 (379)
T 4h09_A          249 KNVTSIGSFLLQNCTALKTLNFYA--KVKTVPYLLCSGCSNLTKVVMDNS-AIETLEPRVFMDCVKLSSVTLPTALKTIQ  325 (379)
T ss_dssp             TTCCEECTTTTTTCTTCCEEEECC--CCSEECTTTTTTCTTCCEEEECCT-TCCEECTTTTTTCTTCCEEECCTTCCEEC
T ss_pred             CCccEeCccccceeehhccccccc--cceecccccccccccccccccccc-ccceehhhhhcCCCCCCEEEcCccccEEH
Confidence            446677777888999999999975  577777 45778899999999887 688898887889999999988542 222 


Q ss_pred             -hhhcCCCCCceeEE
Q 041114          480 -KELLGLKHLEELDF  493 (680)
Q Consensus       480 -~~l~~L~~L~~L~i  493 (680)
                       ..+.++.+|+.+.+
T Consensus       326 ~~aF~~C~~L~~i~i  340 (379)
T 4h09_A          326 VYAFKNCKALSTISY  340 (379)
T ss_dssp             TTTTTTCTTCCCCCC
T ss_pred             HHHhhCCCCCCEEEE
Confidence             23455666665554

>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=87.84  E-value=1.2  Score=41.22  Aligned_cols=63  Identities=16%  Similarity=0.130  Sum_probs=40.6

Q ss_pred             hccCCcceEEEccCCCCcc-----ccchhhhccCCCCEEeccCCCCccc-----cchhhhcCCCCCcEeeccCCc
Q 041114          413 FQFMPLLKVLNMSRETNIK-----ELLGELKALVNLKCVNLEWARDLVT-----IPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~-----~lP~~i~~L~~Lr~L~L~~~~~l~~-----lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      +..-+.|+.|+|+++..|.     .+-+.+..=++|+.|+|++| .+..     |-. ++..=+.|++|++++|.
T Consensus        37 l~~n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n-~igd~ga~alA~-aL~~N~tL~~L~L~~N~  109 (197)
T 1pgv_A           37 REDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANT-AISDSEARGLIE-LIETSPSLRVLNVESNF  109 (197)
T ss_dssp             HTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTS-CCBHHHHTTHHH-HHHHCSSCCEEECCSSB
T ss_pred             HhcCCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCC-CCChHHHHHHHH-HHhcCCccCeEecCCCc
Confidence            4556778889998743443     24455666678888888888 5653     222 13344677777777664

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=81.07  E-value=9.3  Score=38.23  Aligned_cols=118  Identities=13%  Similarity=0.029  Sum_probs=67.0

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHhccCCCHHHHHHHHHHHhcCCCccccCChhhHHHHHHHhHhcC---CchhHHHHHHH
Q 041114          201 ELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSEFAGLVKEVYPLLKFSYDSL---QNDVIRSCFLY  277 (680)
Q Consensus       201 ~~~~~I~~kc~GlPLai~~lg~~L~~k~~~~~W~~~l~~l~~~~~~~~~~~~~~i~~~L~~Sy~~L---~~~~lk~cfl~  277 (680)
                      +....|...|+|.|+++..++..+....+...+..   .+-.           .+...+.-.+..+   ++ ..+..+..
T Consensus       226 ~~~~~i~~~tgG~P~~l~~~~~~~~~~~~~~~~~~---~~~~-----------~~~~~~~~~l~~l~~~~~-~~~~~l~~  290 (350)
T 2qen_A          226 NEIEEAVELLDGIPGWLVVFGVEYLRNGDFGRAMK---RTLE-----------VAKGLIMGELEELRRRSP-RYVDILRA  290 (350)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCHHHHHH---HHHH-----------HHHHHHHHHHHHHHHHCH-HHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHhccccHhHHHH---HHHH-----------HHHHHHHHHHHHHHhCCh-hHHHHHHH
Confidence            46788999999999999999876533222222211   1111           1111111112222   66 78889988


Q ss_pred             hcccCCCcccChHHHHHHHHHcCCcCCCChhhHHHHHHHHHHHHHHcccccccCcccEEe-chhHHHH
Q 041114          278 CCLYPEDFAILKRDLIDCWIGEGFLDERDSFSAQNQGYYIVGTLVHAWLLEEVGDDKVKL-HGVLHDM  344 (680)
Q Consensus       278 ~s~Fp~~~~i~~~~Li~~Wiaeg~i~~~~~~~~~~~g~~~~~~L~~~~ll~~~~~~~~~m-hdl~~d~  344 (680)
                      +|.   + ..+...+....-+.. -.    . .......+++.|.+.+++... ...|.+ |.++++.
T Consensus       291 la~---g-~~~~~~l~~~~~~~~-~~----~-~~~~~~~~l~~L~~~gli~~~-~~~y~~~~p~~~~~  347 (350)
T 2qen_A          291 IAL---G-YNRWSLIRDYLAVKG-TK----I-PEPRLYALLENLKKMNWIVEE-DNTYKIADPVVATV  347 (350)
T ss_dssp             HHT---T-CCSHHHHHHHHHHTT-CC----C-CHHHHHHHHHHHHHTTSEEEE-TTEEEESSHHHHHH
T ss_pred             HHh---C-CCCHHHHHHHHHHHh-CC----C-CHHHHHHHHHHHHhCCCEEec-CCEEEEecHHHHHH
Confidence            887   2 245455554432211 00    0 124456789999999999875 345665 5566554

---

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	680
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	1e-05
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	5e-05

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 45.6 bits (107), Expect = 1e-05
 Identities = 12/81 (14%), Positives = 25/81 (30%), Gaps = 9/81 (11%)

Query: 195 SHHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSEFAGLVKE 254
                 ++     +   G+P  L+   ++    K  E+       L           +  
Sbjct: 203 VGEKEEDVLNKTIELSSGNPATLMMFFKSCE-PKTFEKMAQLNNKLESRG-------LVG 254

Query: 255 VYPLLKFSYDSLQNDVIRSCF 275
           V  +  +SY SL    ++ C 
Sbjct: 255 VECITPYSYKSLAMA-LQRCV 274

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 43.8 bits (102), Expect = 5e-05
 Identities = 30/204 (14%), Positives = 63/204 (30%), Gaps = 38/204 (18%)

Query: 358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLH----YEFKMITDGFF 413
             L+     + +   +     +  LSL  NQ+K +    +  +L        ++      
Sbjct: 200 ESLIATNNQISDITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPL 259

Query: 414 QFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRL 473
             +  L  L +         +  +  L  L  +      +     +  ISN   L  L L
Sbjct: 260 SGLTKLTELKLGANQ-----ISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTL 314

Query: 474 FGTVLAK--ELLGLKHLEELDF---------TLRCVHSLQIL-VSSNKLQSCTRALVLIR 521
           +   ++    +  L  L+ L F         +L  + ++  L    N++           
Sbjct: 315 YFNNISDISPVSSLTKLQRLFFANNKVSDVSSLANLTNINWLSAGHNQIS---------- 364

Query: 522 FKDSKSIDVIALARLKHLSTLHFS 545
                  D+  LA L  ++ L  +
Sbjct: 365 -------DLTPLANLTRITQLGLN 381

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	680
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.65
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.58
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.58
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.55
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.55
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.52
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.52
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.48
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.47
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.46
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.43
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.42
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.41
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.4
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.4
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.36
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.34
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.34
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.34
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.3
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.3
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.27
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.07
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.06
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.99
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.94
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.9
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.79
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.76
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.73
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.62
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.25
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.22
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.01
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	97.82
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.11
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	96.17
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	95.89
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	95.62
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	95.38
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	95.17
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	91.61
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	87.01

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=99.65  E-value=2.1e-17  Score=164.48  Aligned_cols=73  Identities=16%  Similarity=0.178  Sum_probs=63.9

Q ss_pred             CccHHHHHHHHHHHhCCChhHHHHHHHHhccCCCHHHHHHHHHHHhcCCCccccCChhhHHHHHHHhHhcCCchhHHHHH
Q 041114          196 HHDILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVLRKSSSSEFAGLVKEVYPLLKFSYDSLQNDVIRSCF  275 (680)
Q Consensus       196 ~~~l~~~~~~I~~kc~GlPLai~~lg~~L~~k~~~~~W~~~l~~l~~~~~~~~~~~~~~i~~~L~~Sy~~L~~~~lk~cf  275 (680)
                      .+..++++++|+++|+|+||||+++|+.|+. ++.++|.+..+.|++ ...      .++..++.+||++||+ ++|+||
T Consensus       204 ~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~-k~~~~~~~~~~~L~~-~~~------~~v~~il~~sY~~L~~-~lk~c~  274 (277)
T d2a5yb3         204 GEKEEDVLNKTIELSSGNPATLMMFFKSCEP-KTFEKMAQLNNKLES-RGL------VGVECITPYSYKSLAM-ALQRCV  274 (277)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHTTCCS-SSHHHHHHHHHHHHH-HCS------STTCCCSSSSSSSHHH-HHHHHH
T ss_pred             chhhHHHHHHHHHHhCCCHHHHHHHHHHhcc-CCHHHHHHHHHHHhc-CcH------HHHHHHHHHHHhcccH-HHHHHH
Confidence            4557899999999999999999999999987 789999999988877 322      2688999999999999 999999


Q ss_pred             HH
Q 041114          276 LY  277 (680)
Q Consensus       276 l~  277 (680)
                      -+
T Consensus       275 ~~  276 (277)
T d2a5yb3         275 EV  276 (277)
T ss_dssp             HT
T ss_pred             Hh
Confidence            75

>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=99.58  E-value=2e-14  Score=150.08  Aligned_cols=249  Identities=18%  Similarity=0.188  Sum_probs=178.0

Q ss_pred             EEEecCCCcccccccccccceEEEEeecccccccccCCCCccc------cccccccchhhhccCCcceEEEccCC-----
Q 041114          359 FLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHL------HYEFKMITDGFFQFMPLLKVLNMSRE-----  427 (680)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L------~~~l~~lp~~~~~~l~~Lr~LdL~~~-----  427 (680)
                      -+...+.++..+......+++++|.+.+|.++.++....+++|      ++.+..+++  ++++++|+.|+++++     
T Consensus        48 ~L~l~~~~I~~l~gl~~L~nL~~L~Ls~N~l~~l~~l~~L~~L~~L~L~~n~i~~i~~--l~~l~~L~~L~~~~~~~~~~  125 (384)
T d2omza2          48 TLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITP--LANLTNLTGLTLFNNQITDI  125 (384)
T ss_dssp             EEECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCCC
T ss_pred             EEECCCCCCCCccccccCCCCCEEeCcCCcCCCCccccCCcccccccccccccccccc--cccccccccccccccccccc
Confidence            4455555566665556678899999999999888766666666      666777765  788899999998875     


Q ss_pred             ----------------------------------------------------------CCccccchhhhccCCCCEEecc
Q 041114          428 ----------------------------------------------------------TNIKELLGELKALVNLKCVNLE  449 (680)
Q Consensus       428 ----------------------------------------------------------~~i~~lP~~i~~L~~Lr~L~L~  449 (680)
                                                                                ......+.....++++++++++
T Consensus       126 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~l~  205 (384)
T d2omza2         126 DPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIAT  205 (384)
T ss_dssp             GGGTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECC
T ss_pred             ccccccccccccccccccccccccccccccccccccccccchhhhhccccccccccccccccccccccccccccceeecc
Confidence                                                                      0111123456778889999999


Q ss_pred             CCCCccccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCc
Q 041114          450 WARDLVTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKS  527 (680)
Q Consensus       450 ~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~  527 (680)
                      ++ .+..+++  .+...+|++|++++|.  .+..+..+++|+.+++..+....+..+.    .+++|+.|.++++. +..
T Consensus       206 ~n-~i~~~~~--~~~~~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~~~----~~~~L~~L~l~~~~-l~~  277 (384)
T d2omza2         206 NN-QISDITP--LGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPLS----GLTKLTELKLGANQ-ISN  277 (384)
T ss_dssp             SS-CCCCCGG--GGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCCGGGT----TCTTCSEEECCSSC-CCC
T ss_pred             CC-ccCCCCc--ccccCCCCEEECCCCCCCCcchhhcccccchhccccCccCCCCccc----ccccCCEeeccCcc-cCC
Confidence            88 6888876  6788899999999875  4567788889999888755444443322    23489999998775 333


Q ss_pred             ccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcc
Q 041114          528 IDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTA  607 (680)
Q Consensus       528 ~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~  607 (680)
                      .+  .+..++.++.+.+..+ .+..+  ...          ..+++++.|+++++. ++.++.+..+|+|++|++++| .
T Consensus       278 ~~--~~~~~~~l~~l~~~~n-~l~~~--~~~----------~~~~~l~~L~ls~n~-l~~l~~l~~l~~L~~L~L~~n-~  340 (384)
T d2omza2         278 IS--PLAGLTALTNLELNEN-QLEDI--SPI----------SNLKNLTYLTLYFNN-ISDISPVSSLTKLQRLFFANN-K  340 (384)
T ss_dssp             CG--GGTTCTTCSEEECCSS-CCSCC--GGG----------GGCTTCSEEECCSSC-CSCCGGGGGCTTCCEEECCSS-C
T ss_pred             CC--cccccccccccccccc-ccccc--ccc----------chhcccCeEECCCCC-CCCCcccccCCCCCEEECCCC-C
Confidence            33  5677888888888764 33322  111          467888999998864 677777888999999999887 4


Q ss_pred             hhHhhhcCCCCCCCcccccCccccccCCCCC
Q 041114          608 MEEIISAGKFVHTPEMMGNTMDPCAKLRKLP  638 (680)
Q Consensus       608 l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP  638 (680)
                      ++.++.   ++.+|+|+.|++++| +++.+|
T Consensus       341 l~~l~~---l~~l~~L~~L~l~~N-~l~~l~  367 (384)
T d2omza2         341 VSDVSS---LANLTNINWLSAGHN-QISDLT  367 (384)
T ss_dssp             CCCCGG---GGGCTTCCEEECCSS-CCCBCG
T ss_pred             CCCChh---HcCCCCCCEEECCCC-cCCCCh
Confidence            665542   367899999999876 577776

>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=99.58  E-value=1.5e-14  Score=151.03  Aligned_cols=242  Identities=18%  Similarity=0.210  Sum_probs=149.0

Q ss_pred             cccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCc
Q 041114          375 EWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDL  454 (680)
Q Consensus       375 ~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l  454 (680)
                      ...++++|.+.++.+..+.                 + +..+++|++|||++| .++.+|. +++|++|++|++++| .+
T Consensus        42 ~l~~l~~L~l~~~~I~~l~-----------------g-l~~L~nL~~L~Ls~N-~l~~l~~-l~~L~~L~~L~L~~n-~i  100 (384)
T d2omza2          42 DLDQVTTLQADRLGIKSID-----------------G-VEYLNNLTQINFSNN-QLTDITP-LKNLTKLVDILMNNN-QI  100 (384)
T ss_dssp             HHTTCCEEECCSSCCCCCT-----------------T-GGGCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSS-CC
T ss_pred             HhCCCCEEECCCCCCCCcc-----------------c-cccCCCCCEEeCcCC-cCCCCcc-ccCCccccccccccc-cc
Confidence            4468999999988876442                 2 667888888888884 8888874 888888888888888 68


Q ss_pred             cccchhhhcCCCCCcEeeccCCc--ch-----------------------------------------------------
Q 041114          455 VTIPLEVISNFSKLRVLRLFGTV--LA-----------------------------------------------------  479 (680)
Q Consensus       455 ~~lP~~~i~~L~~L~~L~l~~~~--~~-----------------------------------------------------  479 (680)
                      ..+++  ++++++|+.|++.++.  .+                                                     
T Consensus       101 ~~i~~--l~~l~~L~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (384)
T d2omza2         101 ADITP--LANLTNLTGLTLFNNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLE  178 (384)
T ss_dssp             CCCGG--GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCC
T ss_pred             ccccc--ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhccccccc
Confidence            88876  7888888888887532  00                                                     


Q ss_pred             ------------hhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEecc
Q 041114          480 ------------KELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKC  547 (680)
Q Consensus       480 ------------~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~  547 (680)
                                  .....++++..+.+..+....+   .. .....+|+.|+++++. +..++  .+..+++|+.|+++++
T Consensus       179 ~~~~~~~~~~~~~~~~~l~~~~~l~l~~n~i~~~---~~-~~~~~~L~~L~l~~n~-l~~~~--~l~~l~~L~~L~l~~n  251 (384)
T d2omza2         179 RLDISSNKVSDISVLAKLTNLESLIATNNQISDI---TP-LGILTNLDELSLNGNQ-LKDIG--TLASLTNLTDLDLANN  251 (384)
T ss_dssp             EEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCC---GG-GGGCTTCCEEECCSSC-CCCCG--GGGGCTTCSEEECCSS
T ss_pred             cccccccccccccccccccccceeeccCCccCCC---Cc-ccccCCCCEEECCCCC-CCCcc--hhhcccccchhccccC
Confidence                        0111222223332221111111   11 1223578888888775 44443  5677888888888765


Q ss_pred             CCcceeecccCCCC----------cc-CCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhcCC
Q 041114          548 EELEEWKTDYTSGT----------VL-KSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGK  616 (680)
Q Consensus       548 ~~l~~l~~~~~~~~----------~l-~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~  616 (680)
                      . +..++. .....          .+ ..+....++.++.+.+..+. +..++.+..+++|+.|+++++ .+++++.   
T Consensus       252 ~-l~~~~~-~~~~~~L~~L~l~~~~l~~~~~~~~~~~l~~l~~~~n~-l~~~~~~~~~~~l~~L~ls~n-~l~~l~~---  324 (384)
T d2omza2         252 Q-ISNLAP-LSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQ-LEDISPISNLKNLTYLTLYFN-NISDISP---  324 (384)
T ss_dssp             C-CCCCGG-GTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSC-CSCCGGGGGCTTCSEEECCSS-CCSCCGG---
T ss_pred             c-cCCCCc-ccccccCCEeeccCcccCCCCccccccccccccccccc-cccccccchhcccCeEECCCC-CCCCCcc---
Confidence            3 332211 10000          00 01112334445555555433 444555677899999999985 5666643   


Q ss_pred             CCCCCcccccCccccccCCCCCCCCccccCcceEEecccc
Q 041114          617 FVHTPEMMGNTMDPCAKLRKLPLDSNSALEHKIAIRGEAG  656 (680)
Q Consensus       617 ~~~lp~L~~L~i~~C~~L~~lP~~~~~~l~~L~i~~~~~~  656 (680)
                      +..+|+|+.|++++| +++.+|. +.. +.+|+..++...
T Consensus       325 l~~l~~L~~L~L~~n-~l~~l~~-l~~-l~~L~~L~l~~N  361 (384)
T d2omza2         325 VSSLTKLQRLFFANN-KVSDVSS-LAN-LTNINWLSAGHN  361 (384)
T ss_dssp             GGGCTTCCEEECCSS-CCCCCGG-GGG-CTTCCEEECCSS
T ss_pred             cccCCCCCEEECCCC-CCCCChh-HcC-CCCCCEEECCCC
Confidence            367999999999998 6888873 333 556666655543

>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=99.55  E-value=6.1e-14  Score=141.66  Aligned_cols=241  Identities=17%  Similarity=0.186  Sum_probs=154.5

Q ss_pred             ccEEEecCCCcccccccccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCcccc-ch
Q 041114          357 ENFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKEL-LG  435 (680)
Q Consensus       357 ~~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~l-P~  435 (680)
                      ...+...+.++..+|... ..++++|.+++|.+.                .+|+..|.++++|++|++++| .+..+ |.
T Consensus        12 ~~~~~C~~~~L~~lP~~l-~~~l~~L~Ls~N~i~----------------~l~~~~f~~l~~L~~L~l~~n-~~~~i~~~   73 (305)
T d1xkua_          12 LRVVQCSDLGLEKVPKDL-PPDTALLDLQNNKIT----------------EIKDGDFKNLKNLHTLILINN-KISKISPG   73 (305)
T ss_dssp             TTEEECTTSCCCSCCCSC-CTTCCEEECCSSCCC----------------CBCTTTTTTCTTCCEEECCSS-CCCCBCTT
T ss_pred             CCEEEecCCCCCccCCCC-CCCCCEEECcCCcCC----------------CcChhHhhccccccccccccc-cccccchh
Confidence            355666677777777533 368999999988776                456555888899999999994 77776 46


Q ss_pred             hhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc----chhhhcCCCCCceeEEEeccchhhhhhhhchhhh
Q 041114          436 ELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV----LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQ  511 (680)
Q Consensus       436 ~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~  511 (680)
                      .+.+|++|++|++++| .++.+|..   ....|..|++.++.    ....+.....+..+....+..............+
T Consensus        74 ~f~~l~~L~~L~l~~n-~l~~l~~~---~~~~l~~L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l  149 (305)
T d1xkua_          74 AFAPLVKLERLYLSKN-QLKELPEK---MPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGM  149 (305)
T ss_dssp             TTTTCTTCCEEECCSS-CCSBCCSS---CCTTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGC
T ss_pred             hhhCCCccCEecccCC-ccCcCccc---hhhhhhhhhccccchhhhhhhhhhccccccccccccccccccCCCccccccc
Confidence            6889999999999998 78888875   33577777777654    1122334444555544432222222112222333


Q ss_pred             ccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC--
Q 041114          512 SCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT--  589 (680)
Q Consensus       512 ~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~--  589 (680)
                      ++|+.+.+.++. ...++.   ..+++|+.|+++++.... .....+          ..++.++.|.+++|. +..++  
T Consensus       150 ~~L~~l~l~~n~-l~~l~~---~~~~~L~~L~l~~n~~~~-~~~~~~----------~~~~~l~~L~~s~n~-l~~~~~~  213 (305)
T d1xkua_         150 KKLSYIRIADTN-ITTIPQ---GLPPSLTELHLDGNKITK-VDAASL----------KGLNNLAKLGLSFNS-ISAVDNG  213 (305)
T ss_dssp             TTCCEEECCSSC-CCSCCS---SCCTTCSEEECTTSCCCE-ECTGGG----------TTCTTCCEEECCSSC-CCEECTT
T ss_pred             cccCccccccCC-ccccCc---ccCCccCEEECCCCcCCC-CChhHh----------hcccccccccccccc-ccccccc
Confidence            467777777765 333332   235788888887654433 222222          456778888888764 44332  


Q ss_pred             CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCC
Q 041114          590 FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPL  639 (680)
Q Consensus       590 ~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~  639 (680)
                      ++..+++|++|+++++ .++.++.  .+..+|+|+.|+++++ +|+.++.
T Consensus       214 ~~~~l~~L~~L~L~~N-~L~~lp~--~l~~l~~L~~L~Ls~N-~i~~i~~  259 (305)
T d1xkua_         214 SLANTPHLRELHLNNN-KLVKVPG--GLADHKYIQVVYLHNN-NISAIGS  259 (305)
T ss_dssp             TGGGSTTCCEEECCSS-CCSSCCT--TTTTCSSCCEEECCSS-CCCCCCT
T ss_pred             cccccccceeeecccc-ccccccc--ccccccCCCEEECCCC-ccCccCh
Confidence            4667788888888885 5666643  3467888888888885 5777764

>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=99.55  E-value=6.7e-15  Score=149.49  Aligned_cols=229  Identities=14%  Similarity=0.072  Sum_probs=139.7

Q ss_pred             cceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCcc-ccchhhhccCCCCEEeccCCCCcc
Q 041114          377 ETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIK-ELLGELKALVNLKCVNLEWARDLV  455 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~-~lP~~i~~L~~Lr~L~L~~~~~l~  455 (680)
                      .+++.|++.++.+...             ..+|+. ++++++|++|||++|+.+. .+|.+|++|++|++|+|++| .+.
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~  114 (313)
T d1ogqa_          50 YRVNNLDLSGLNLPKP-------------YPIPSS-LANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHT-NVS  114 (313)
T ss_dssp             CCEEEEEEECCCCSSC-------------EECCGG-GGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEE-CCE
T ss_pred             EEEEEEECCCCCCCCC-------------CCCChH-HhcCccccccccccccccccccccccccccccchhhhccc-ccc
Confidence            3688999998876532             135665 7788888888888644554 78888888888888888888 576


Q ss_pred             ccchhhhcCCCCCcEeeccCCc----chhhhcCCCCCceeEEEeccchhhhhhhhch-hhhccccEEEEecc--------
Q 041114          456 TIPLEVISNFSKLRVLRLFGTV----LAKELLGLKHLEELDFTLRCVHSLQILVSSN-KLQSCTRALVLIRF--------  522 (680)
Q Consensus       456 ~lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~-~l~~~L~~L~l~~~--------  522 (680)
                      .++...+..+.+|++++++++.    .+..+.++++|+.+++..+....  .++... .+...++.+.+.++        
T Consensus       115 ~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~--~ip~~~~~l~~l~~~l~~~~n~l~~~~~~  192 (313)
T d1ogqa_         115 GAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISG--AIPDSYGSFSKLFTSMTISRNRLTGKIPP  192 (313)
T ss_dssp             EECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEE--ECCGGGGCCCTTCCEEECCSSEEEEECCG
T ss_pred             ccccccccchhhhcccccccccccccCchhhccCcccceeecccccccc--ccccccccccccccccccccccccccccc
Confidence            6655557788888888888764    44567777888777776433221  111111 11111233333222        


Q ss_pred             ---------------CCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCC
Q 041114          523 ---------------KDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKG  587 (680)
Q Consensus       523 ---------------~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~  587 (680)
                                     ......+ ..+..+++|+.|+++++.... .           ++.+..+++|+.|+|++|.....
T Consensus       193 ~~~~l~~~~l~l~~~~~~~~~~-~~~~~~~~l~~l~~~~~~l~~-~-----------~~~~~~~~~L~~L~Ls~N~l~g~  259 (313)
T d1ogqa_         193 TFANLNLAFVDLSRNMLEGDAS-VLFGSDKNTQKIHLAKNSLAF-D-----------LGKVGLSKNLNGLDLRNNRIYGT  259 (313)
T ss_dssp             GGGGCCCSEEECCSSEEEECCG-GGCCTTSCCSEEECCSSEECC-B-----------GGGCCCCTTCCEEECCSSCCEEC
T ss_pred             cccccccccccccccccccccc-ccccccccccccccccccccc-c-----------ccccccccccccccCccCeeccc
Confidence                           1111112 134455666666665542211 1           12225567888888887764435


Q ss_pred             CC-CcCCCCCCCEEeEecCcchh-HhhhcCCCCCCCcccccCccccccCCCCCC
Q 041114          588 LT-FLVFAPNLKCLSLFDCTAME-EIISAGKFVHTPEMMGNTMDPCAKLRKLPL  639 (680)
Q Consensus       588 l~-~l~~l~~L~~L~l~~c~~l~-~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~  639 (680)
                      +| +++.+++|++|+++++. +. .+|.   ++++++|+.+++.+.+.|-..|+
T Consensus       260 iP~~l~~L~~L~~L~Ls~N~-l~g~iP~---~~~L~~L~~l~l~~N~~l~g~pl  309 (313)
T d1ogqa_         260 LPQGLTQLKFLHSLNVSFNN-LCGEIPQ---GGNLQRFDVSAYANNKCLCGSPL  309 (313)
T ss_dssp             CCGGGGGCTTCCEEECCSSE-EEEECCC---STTGGGSCGGGTCSSSEEESTTS
T ss_pred             CChHHhCCCCCCEEECcCCc-ccccCCC---cccCCCCCHHHhCCCccccCCCC
Confidence            54 57778888888888743 44 4442   26677777777777776766553

>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=99.52  E-value=2.5e-14  Score=137.97  Aligned_cols=187  Identities=19%  Similarity=0.208  Sum_probs=113.5

Q ss_pred             hccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCce
Q 041114          413 FQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEE  490 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~  490 (680)
                      +..+.+|+.|++++ ++|++++ ++.+|++|++|++++| .+..+++  +.++.+|++|+++++.  .+..+..+++|+.
T Consensus        37 ~~~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          37 QADLDGITTLSAFG-TGVTTIE-GVQYLNNLIGLELKDN-QITDLAP--LKNLTKITELELSGNPLKNVSAIAGLQSIKT  111 (227)
T ss_dssp             HHHHHTCCEEECTT-SCCCCCT-TGGGCTTCCEEECCSS-CCCCCGG--GTTCCSCCEEECCSCCCSCCGGGTTCTTCCE
T ss_pred             HHHcCCcCEEECCC-CCCCcch-hHhcCCCCcEeecCCc-eeecccc--ccccccccccccccccccccccccccccccc
Confidence            45577788888888 4788874 6888888888888888 6777765  7888888888888764  4455666666666


Q ss_pred             eEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCC
Q 041114          491 LDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFV  570 (680)
Q Consensus       491 L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~  570 (680)
                      +.+.......+..+..    ...+..+.+.++.. ...  ..+..+++|+.|+++++.. ...  ..+          ..
T Consensus       112 l~l~~~~~~~~~~~~~----~~~~~~l~~~~~~~-~~~--~~~~~~~~L~~L~l~~n~~-~~~--~~l----------~~  171 (227)
T d1h6ua2         112 LDLTSTQITDVTPLAG----LSNLQVLYLDLNQI-TNI--SPLAGLTNLQYLSIGNAQV-SDL--TPL----------AN  171 (227)
T ss_dssp             EECTTSCCCCCGGGTT----CTTCCEEECCSSCC-CCC--GGGGGCTTCCEEECCSSCC-CCC--GGG----------TT
T ss_pred             cccccccccccchhcc----ccchhhhhchhhhh-chh--hhhcccccccccccccccc-ccc--hhh----------cc
Confidence            6655332222222211    22555555555432 111  1355666777777765432 211  111          45


Q ss_pred             CCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCcc
Q 041114          571 FCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMD  629 (680)
Q Consensus       571 l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~  629 (680)
                      +++|+.|++++| .++.+++++.+++|++|++++| .++++++   ++++++|+.|+++
T Consensus       172 l~~L~~L~Ls~n-~l~~l~~l~~l~~L~~L~Ls~N-~lt~i~~---l~~l~~L~~L~ls  225 (227)
T d1h6ua2         172 LSKLTTLKADDN-KISDISPLASLPNLIEVHLKNN-QISDVSP---LANTSNLFIVTLT  225 (227)
T ss_dssp             CTTCCEEECCSS-CCCCCGGGGGCTTCCEEECTTS-CCCBCGG---GTTCTTCCEEEEE
T ss_pred             cccceecccCCC-ccCCChhhcCCCCCCEEECcCC-cCCCCcc---cccCCCCCEEEee
Confidence            667777777765 3566666667777777777765 3555532   2456666665554

>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=99.52  E-value=8.2e-14  Score=134.23  Aligned_cols=187  Identities=20%  Similarity=0.262  Sum_probs=144.8

Q ss_pred             ccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCC
Q 041114          374 KEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARD  453 (680)
Q Consensus       374 ~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~  453 (680)
                      .+..+++.+++.++.+..                ++ + +.++++|++|++++| .+..++ .+..+++|++|++++| .
T Consensus        38 ~~l~~L~~L~l~~~~i~~----------------l~-~-l~~l~~L~~L~ls~n-~i~~~~-~l~~l~~l~~l~~~~n-~   96 (227)
T d1h6ua2          38 ADLDGITTLSAFGTGVTT----------------IE-G-VQYLNNLIGLELKDN-QITDLA-PLKNLTKITELELSGN-P   96 (227)
T ss_dssp             HHHHTCCEEECTTSCCCC----------------CT-T-GGGCTTCCEEECCSS-CCCCCG-GGTTCCSCCEEECCSC-C
T ss_pred             HHcCCcCEEECCCCCCCc----------------ch-h-HhcCCCCcEeecCCc-eeeccc-cccccccccccccccc-c
Confidence            345688999998887764                33 2 788999999999994 888776 4899999999999999 7


Q ss_pred             ccccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCccccc
Q 041114          454 LVTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVI  531 (680)
Q Consensus       454 l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~  531 (680)
                      ++.++.  +.++++|++++++++.  .+..+.....+..+.+..........+    ....+|+.|.+.++.- ...+  
T Consensus        97 ~~~i~~--l~~l~~L~~l~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~----~~~~~L~~L~l~~n~~-~~~~--  167 (227)
T d1h6ua2          97 LKNVSA--IAGLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISPL----AGLTNLQYLSIGNAQV-SDLT--  167 (227)
T ss_dssp             CSCCGG--GTTCTTCCEEECTTSCCCCCGGGTTCTTCCEEECCSSCCCCCGGG----GGCTTCCEEECCSSCC-CCCG--
T ss_pred             cccccc--ccccccccccccccccccccchhccccchhhhhchhhhhchhhhh----cccccccccccccccc-ccch--
Confidence            899886  8999999999999876  444566677777777764433332222    2234899999988763 3332  


Q ss_pred             ccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEec
Q 041114          532 ALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFD  604 (680)
Q Consensus       532 ~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~  604 (680)
                      .+.++++|+.|+++++ .+++++  .+          ..+++|++|+|++| .++.+++++.+++|+.|++++
T Consensus       168 ~l~~l~~L~~L~Ls~n-~l~~l~--~l----------~~l~~L~~L~Ls~N-~lt~i~~l~~l~~L~~L~lsn  226 (227)
T d1h6ua2         168 PLANLSKLTTLKADDN-KISDIS--PL----------ASLPNLIEVHLKNN-QISDVSPLANTSNLFIVTLTN  226 (227)
T ss_dssp             GGTTCTTCCEEECCSS-CCCCCG--GG----------GGCTTCCEEECTTS-CCCBCGGGTTCTTCCEEEEEE
T ss_pred             hhcccccceecccCCC-ccCCCh--hh----------cCCCCCCEEECcCC-cCCCCcccccCCCCCEEEeeC
Confidence            5788999999999986 566542  12          57899999999998 488898899999999999975

>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=99.48  E-value=3.3e-13  Score=136.17  Aligned_cols=225  Identities=20%  Similarity=0.124  Sum_probs=155.1

Q ss_pred             cccccchhhhccCCcceEEEccCCCCccccch-hhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCcchhhh
Q 041114          404 EFKMITDGFFQFMPLLKVLNMSRETNIKELLG-ELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTVLAKEL  482 (680)
Q Consensus       404 ~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~-~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~~~~~l  482 (680)
                      .++.+|.++   .+.+++|+|++ +.|+++|+ .+.++++|++|++++| .+..+++..+.++++|++|+++++. +..+
T Consensus        21 ~L~~lP~~l---~~~l~~L~Ls~-N~i~~l~~~~f~~l~~L~~L~l~~n-~~~~i~~~~f~~l~~L~~L~l~~n~-l~~l   94 (305)
T d1xkua_          21 GLEKVPKDL---PPDTALLDLQN-NKITEIKDGDFKNLKNLHTLILINN-KISKISPGAFAPLVKLERLYLSKNQ-LKEL   94 (305)
T ss_dssp             CCCSCCCSC---CTTCCEEECCS-SCCCCBCTTTTTTCTTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSSC-CSBC
T ss_pred             CCCccCCCC---CCCCCEEECcC-CcCCCcChhHhhccccccccccccc-cccccchhhhhCCCccCEecccCCc-cCcC
Confidence            355777763   36799999999 59999996 6899999999999999 6888866559999999999999885 2222


Q ss_pred             c--CCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCc-ccccccccCCCCCEEEEeccCCcceeecccCC
Q 041114          483 L--GLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKS-IDVIALARLKHLSTLHFSKCEELEEWKTDYTS  559 (680)
Q Consensus       483 ~--~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~-~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~  559 (680)
                      .  ....+..|....+....+....  ......+..+....+..... .....+..+++|+.++++++. +..++.    
T Consensus        95 ~~~~~~~l~~L~~~~n~l~~l~~~~--~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~-l~~l~~----  167 (305)
T d1xkua_          95 PEKMPKTLQELRVHENEITKVRKSV--FNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTN-ITTIPQ----  167 (305)
T ss_dssp             CSSCCTTCCEEECCSSCCCBBCHHH--HTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSC-CCSCCS----
T ss_pred             ccchhhhhhhhhccccchhhhhhhh--hhccccccccccccccccccCCCccccccccccCccccccCC-ccccCc----
Confidence            1  1245666665543333322211  11223555666655432211 112367788999999998763 333321    


Q ss_pred             CCccCCCCCCCCCCccEEeeeCCCCCCCCC-CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCC
Q 041114          560 GTVLKSPQPFVFCSLHKVTITFCPKLKGLT-FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLP  638 (680)
Q Consensus       560 ~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP  638 (680)
                               ..+++|++|+++++......+ .+..++.++.|+++++ .+..++. ..+..+++|+.|++++| +|+.+|
T Consensus       168 ---------~~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n-~l~~~~~-~~~~~l~~L~~L~L~~N-~L~~lp  235 (305)
T d1xkua_         168 ---------GLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFN-SISAVDN-GSLANTPHLRELHLNNN-KLVKVP  235 (305)
T ss_dssp             ---------SCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSS-CCCEECT-TTGGGSTTCCEEECCSS-CCSSCC
T ss_pred             ---------ccCCccCEEECCCCcCCCCChhHhhccccccccccccc-ccccccc-ccccccccceeeecccc-cccccc
Confidence                     346899999999987655544 4788999999999985 5666644 34577999999999998 699999


Q ss_pred             CCCccccCcceEEecc
Q 041114          639 LDSNSALEHKIAIRGE  654 (680)
Q Consensus       639 ~~~~~~l~~L~i~~~~  654 (680)
                      ..+.. +.+|+..+..
T Consensus       236 ~~l~~-l~~L~~L~Ls  250 (305)
T d1xkua_         236 GGLAD-HKYIQVVYLH  250 (305)
T ss_dssp             TTTTT-CSSCCEEECC
T ss_pred             ccccc-ccCCCEEECC
Confidence            77655 4555555444

>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=99.47  E-value=2e-13  Score=134.89  Aligned_cols=179  Identities=17%  Similarity=0.116  Sum_probs=116.8

Q ss_pred             ccccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc---chh
Q 041114          405 FKMITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV---LAK  480 (680)
Q Consensus       405 l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~---~~~  480 (680)
                      ++.+|+++ .  ++|++|||++ +.+..+| ..+.++++|++|+|++| .++.+|.  ++.+++|++|++++|.   .+.
T Consensus        22 L~~iP~~l-p--~~l~~L~Ls~-N~i~~l~~~~f~~l~~L~~L~L~~N-~l~~l~~--~~~l~~L~~L~Ls~N~l~~~~~   94 (266)
T d1p9ag_          22 LTALPPDL-P--KDTTILHLSE-NLLYTFSLATLMPYTRLTQLNLDRA-ELTKLQV--DGTLPVLGTLDLSHNQLQSLPL   94 (266)
T ss_dssp             CSSCCSCC-C--TTCCEEECTT-SCCSEEEGGGGTTCTTCCEEECTTS-CCCEEEC--CSCCTTCCEEECCSSCCSSCCC
T ss_pred             CCeeCcCc-C--cCCCEEECcC-CcCCCcCHHHhhccccccccccccc-ccccccc--cccccccccccccccccccccc
Confidence            33555542 1  5688899998 4888887 45888899999999988 7888886  6788899999988875   233


Q ss_pred             hhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCC
Q 041114          481 ELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSG  560 (680)
Q Consensus       481 ~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~  560 (680)
                      .+..+++|+.|++..+....+.  ......+.++..|.+.++. +..++...+..+++|+.|+++++ .+..++...+  
T Consensus        95 ~~~~l~~L~~L~l~~~~~~~~~--~~~~~~l~~l~~L~l~~n~-l~~l~~~~~~~l~~l~~l~l~~N-~l~~~~~~~~--  168 (266)
T d1p9ag_          95 LGQTLPALTVLDVSFNRLTSLP--LGALRGLGELQELYLKGNE-LKTLPPGLLTPTPKLEKLSLANN-NLTELPAGLL--  168 (266)
T ss_dssp             CTTTCTTCCEEECCSSCCCCCC--SSTTTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECTTS-CCSCCCTTTT--
T ss_pred             ccccccccccccccccccceee--ccccccccccccccccccc-cceeccccccccccchhcccccc-cccccCcccc--
Confidence            4556667777766533322211  1122234467777777664 44444445666777777777764 4554444333  


Q ss_pred             CccCCCCCCCCCCccEEeeeCCCCCCCCC-CcCCCCCCCEEeEecC
Q 041114          561 TVLKSPQPFVFCSLHKVTITFCPKLKGLT-FLVFAPNLKCLSLFDC  605 (680)
Q Consensus       561 ~~l~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~c  605 (680)
                              ..+++|++|+|+++. ++.+| .+..+++|+.|+|++.
T Consensus       169 --------~~l~~L~~L~Ls~N~-L~~lp~~~~~~~~L~~L~L~~N  205 (266)
T d1p9ag_         169 --------NGLENLDTLLLQENS-LYTIPKGFFGSHLLPFAFLHGN  205 (266)
T ss_dssp             --------TTCTTCCEEECCSSC-CCCCCTTTTTTCCCSEEECCSC
T ss_pred             --------ccccccceeecccCC-CcccChhHCCCCCCCEEEecCC
Confidence                    456778888887765 55665 3566777788877753

>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=99.46  E-value=1.5e-13  Score=135.77  Aligned_cols=194  Identities=19%  Similarity=0.099  Sum_probs=115.3

Q ss_pred             ccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCcee
Q 041114          414 QFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEEL  491 (680)
Q Consensus       414 ~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~L  491 (680)
                      .+...+...|.++ .+++++|.+|.  ++|++|+|++| .++.+|.+.+.++++|++|++++|.  .+.....+++|+.|
T Consensus         7 ~~~~~~~~v~C~~-~~L~~iP~~lp--~~l~~L~Ls~N-~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~~~~l~~L~~L   82 (266)
T d1p9ag_           7 SKVASHLEVNCDK-RNLTALPPDLP--KDTTILHLSEN-LLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTL   82 (266)
T ss_dssp             ECSTTCCEEECTT-SCCSSCCSCCC--TTCCEEECTTS-CCSEEEGGGGTTCTTCCEEECTTSCCCEEECCSCCTTCCEE
T ss_pred             cccCCCeEEEccC-CCCCeeCcCcC--cCCCEEECcCC-cCCCcCHHHhhcccccccccccccccccccccccccccccc
Confidence            4455666669988 68999998765  57999999999 7999997669999999999999885  22333456666666


Q ss_pred             EEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCC
Q 041114          492 DFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVF  571 (680)
Q Consensus       492 ~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l  571 (680)
                      +++.+...   ..+.....+++|+.|+++++.. ...+...+..+.+|+.|.++++ .+..++....          ..+
T Consensus        83 ~Ls~N~l~---~~~~~~~~l~~L~~L~l~~~~~-~~~~~~~~~~l~~l~~L~l~~n-~l~~l~~~~~----------~~l  147 (266)
T d1p9ag_          83 DLSHNQLQ---SLPLLGQTLPALTVLDVSFNRL-TSLPLGALRGLGELQELYLKGN-ELKTLPPGLL----------TPT  147 (266)
T ss_dssp             ECCSSCCS---SCCCCTTTCTTCCEEECCSSCC-CCCCSSTTTTCTTCCEEECTTS-CCCCCCTTTT----------TTC
T ss_pred             cccccccc---cccccccccccccccccccccc-ceeecccccccccccccccccc-ccceeccccc----------ccc
Confidence            66533322   2222223334566666665542 2222234455566666666543 3333333222          345


Q ss_pred             CCccEEeeeCCCCCCCCCC--cCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccc
Q 041114          572 CSLHKVTITFCPKLKGLTF--LVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDP  630 (680)
Q Consensus       572 ~~L~~L~L~~c~~l~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~  630 (680)
                      ++|+.|+++++. ++.++.  +..+++|++|+++++ .++.+|..  +..+++|+.|.+++
T Consensus       148 ~~l~~l~l~~N~-l~~~~~~~~~~l~~L~~L~Ls~N-~L~~lp~~--~~~~~~L~~L~L~~  204 (266)
T d1p9ag_         148 PKLEKLSLANNN-LTELPAGLLNGLENLDTLLLQEN-SLYTIPKG--FFGSHLLPFAFLHG  204 (266)
T ss_dssp             TTCCEEECTTSC-CSCCCTTTTTTCTTCCEEECCSS-CCCCCCTT--TTTTCCCSEEECCS
T ss_pred             ccchhccccccc-ccccCccccccccccceeecccC-CCcccChh--HCCCCCCCEEEecC
Confidence            566666666643 333332  455666666666653 35555432  13455555555554

>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=99.43  E-value=4.7e-13  Score=127.06  Aligned_cols=163  Identities=22%  Similarity=0.234  Sum_probs=85.6

Q ss_pred             CCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCceeEE
Q 041114          416 MPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEELDF  493 (680)
Q Consensus       416 l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~L~i  493 (680)
                      +..|+.|++++ +.++.++ ++..+++|++|++++| .++.+|.  ++.|++|++|++++|.  .+..+..+++|+.|++
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~l  119 (210)
T d1h6ta2          45 LNSIDQIIANN-SDIKSVQ-GIQYLPNVTKLFLNGN-KLTDIKP--LANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSL  119 (210)
T ss_dssp             HHTCCEEECTT-SCCCCCT-TGGGCTTCCEEECCSS-CCCCCGG--GTTCTTCCEEECCSSCCCCGGGGTTCTTCCEEEC
T ss_pred             hcCccEEECcC-CCCCCch-hHhhCCCCCEEeCCCc-cccCccc--cccCcccccccccccccccccccccccccccccc
Confidence            45666777776 3666654 4667777777777777 5666665  6677777777776654  2233444444444444


Q ss_pred             EeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCC
Q 041114          494 TLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCS  573 (680)
Q Consensus       494 ~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~  573 (680)
                      ..+....+..+..    +++++.+.+.++. +...+  .+..+++|+.++++++ .+..+..  +          ..+++
T Consensus       120 ~~~~~~~~~~l~~----l~~l~~l~~~~n~-l~~~~--~~~~l~~L~~l~l~~n-~l~~i~~--l----------~~l~~  179 (210)
T d1h6ta2         120 EHNGISDINGLVH----LPQLESLYLGNNK-ITDIT--VLSRLTKLDTLSLEDN-QISDIVP--L----------AGLTK  179 (210)
T ss_dssp             TTSCCCCCGGGGG----CTTCCEEECCSSC-CCCCG--GGGGCTTCSEEECCSS-CCCCCGG--G----------TTCTT
T ss_pred             ccccccccccccc----ccccccccccccc-ccccc--cccccccccccccccc-ccccccc--c----------cCCCC
Confidence            3222222221111    1244555554443 22221  3445566666666554 2332211  1          34566


Q ss_pred             ccEEeeeCCCCCCCCCCcCCCCCCCEEeEec
Q 041114          574 LHKVTITFCPKLKGLTFLVFAPNLKCLSLFD  604 (680)
Q Consensus       574 L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~  604 (680)
                      |+.|++++|. ++.++.+..+++|++|+|++
T Consensus       180 L~~L~Ls~N~-i~~l~~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         180 LQNLYLSKNH-ISDLRALAGLKNLDVLELFS  209 (210)
T ss_dssp             CCEEECCSSC-CCBCGGGTTCTTCSEEEEEE
T ss_pred             CCEEECCCCC-CCCChhhcCCCCCCEEEccC
Confidence            6666666653 55555566666666666653

>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=99.42  E-value=6e-13  Score=125.15  Aligned_cols=161  Identities=19%  Similarity=0.189  Sum_probs=105.2

Q ss_pred             ccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCcee
Q 041114          414 QFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEEL  491 (680)
Q Consensus       414 ~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~L  491 (680)
                      ..+.+|++|++++ ..+.+++ ++..+++|++|++++| .++.+|+  ++++++|++|++++|.  .+..+.+++     
T Consensus        37 ~~l~~l~~L~l~~-~~i~~l~-~l~~l~nL~~L~Ls~N-~l~~~~~--l~~l~~L~~L~l~~n~~~~~~~l~~l~-----  106 (199)
T d2omxa2          37 TDLDQVTTLQADR-LGIKSID-GVEYLNNLTQINFSNN-QLTDITP--LKNLTKLVDILMNNNQIADITPLANLT-----  106 (199)
T ss_dssp             HHHTTCCEEECTT-SCCCCCT-TGGGCTTCCEEECCSS-CCCCCGG--GTTCTTCCEEECCSSCCCCCGGGTTCT-----
T ss_pred             HHhcCCCEEECCC-CCCCCcc-ccccCCCcCcCccccc-cccCccc--ccCCccccccccccccccccccccccc-----
Confidence            4578889999999 4888875 6889999999999998 7888886  8899999999998764  222333333     


Q ss_pred             EEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCC
Q 041114          492 DFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVF  571 (680)
Q Consensus       492 ~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l  571 (680)
                                           +|+.|+++++.... .  ..+..+++|+.|+++++. +..+  ..+          ..+
T Consensus       107 ---------------------~L~~L~l~~~~~~~-~--~~~~~l~~L~~L~l~~n~-l~~~--~~l----------~~~  149 (199)
T d2omxa2         107 ---------------------NLTGLTLFNNQITD-I--DPLKNLTNLNRLELSSNT-ISDI--SAL----------SGL  149 (199)
T ss_dssp             ---------------------TCSEEECCSSCCCC-C--GGGTTCTTCSEEECCSSC-CCCC--GGG----------TTC
T ss_pred             ---------------------cccccccccccccc-c--cccchhhhhHHhhhhhhh-hccc--ccc----------ccc
Confidence                                 44555555443221 1  145566777777776642 3322  111          456


Q ss_pred             CCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCccccc
Q 041114          572 CSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGN  626 (680)
Q Consensus       572 ~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L  626 (680)
                      ++|+.|++.+|. ++.++.++.+++|++|+++++ .+++++.   ++.+++|++|
T Consensus       150 ~~L~~L~l~~n~-l~~l~~l~~l~~L~~L~ls~N-~i~~i~~---l~~L~~L~~L  199 (199)
T d2omxa2         150 TSLQQLNFSSNQ-VTDLKPLANLTTLERLDISSN-KVSDISV---LAKLTNLESL  199 (199)
T ss_dssp             TTCSEEECCSSC-CCCCGGGTTCTTCCEEECCSS-CCCCCGG---GGGCTTCSEE
T ss_pred             cccccccccccc-ccCCccccCCCCCCEEECCCC-CCCCCcc---ccCCCCCCcC
Confidence            777777777754 566666777777777777775 3555432   2445555543

>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=99.41  E-value=4.7e-13  Score=133.50  Aligned_cols=196  Identities=13%  Similarity=0.071  Sum_probs=118.9

Q ss_pred             CcceEEEccCCCCccccch-hhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc-----chhhhcCCCCCce
Q 041114          417 PLLKVLNMSRETNIKELLG-ELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV-----LAKELLGLKHLEE  490 (680)
Q Consensus       417 ~~Lr~LdL~~~~~i~~lP~-~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~-----~~~~l~~L~~L~~  490 (680)
                      ..+++|+|++ +.|+.+|. .+.++++|++|+++++ .+..++...+..+..++.++.....     ....+.++++|+.
T Consensus        32 ~~~~~L~Ls~-N~i~~i~~~~f~~l~~L~~L~ls~n-~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~L~~  109 (284)
T d1ozna_          32 AASQRIFLHG-NRISHVPAASFRACRNLTILWLHSN-VLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHT  109 (284)
T ss_dssp             TTCSEEECTT-SCCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCE
T ss_pred             CCCCEEECcC-CcCCCCCHHHhhccccccccccccc-cccccccccccccccccccccccccccccccchhhcccccCCE
Confidence            4567777777 47777773 4777777777777777 6777766555666777777665433     2334566677777


Q ss_pred             eEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCC
Q 041114          491 LDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFV  570 (680)
Q Consensus       491 L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~  570 (680)
                      |++..++...+.  ........+|+.+++.++. +..++...+..+++|+.|+++++ .++.++...+          ..
T Consensus       110 L~l~~n~~~~~~--~~~~~~~~~L~~l~l~~N~-l~~i~~~~f~~~~~L~~L~l~~N-~l~~l~~~~f----------~~  175 (284)
T d1ozna_         110 LHLDRCGLQELG--PGLFRGLAALQYLYLQDNA-LQALPDDTFRDLGNLTHLFLHGN-RISSVPERAF----------RG  175 (284)
T ss_dssp             EECTTSCCCCCC--TTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCCEECTTTT----------TT
T ss_pred             EecCCccccccc--ccccchhcccchhhhcccc-ccccChhHhccccchhhcccccC-cccccchhhh----------cc
Confidence            766543322221  1122334467777777665 44554446667777888888764 5565544444          45


Q ss_pred             CCCccEEeeeCCCCCCCCC-CcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccc
Q 041114          571 FCSLHKVTITFCPKLKGLT-FLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDP  630 (680)
Q Consensus       571 l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~  630 (680)
                      +++|+.+.++++......| .+..+++|++|+++++ .+..++.. .++.+++|+.|++++
T Consensus       176 l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N-~i~~~~~~-~~~~~~~L~~L~l~~  234 (284)
T d1ozna_         176 LHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFAN-NLSALPTE-ALAPLRALQYLRLND  234 (284)
T ss_dssp             CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCSCCCHH-HHTTCTTCCEEECCS
T ss_pred             ccccchhhhhhccccccChhHhhhhhhccccccccc-cccccccc-ccccccccCEEEecC
Confidence            6778888887765333222 4677778888888774 34444332 235566666666554

>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=99.40  E-value=1.5e-13  Score=139.34  Aligned_cols=216  Identities=17%  Similarity=0.113  Sum_probs=152.0

Q ss_pred             CCcceEEEccCCCCcc---ccchhhhccCCCCEEeccCCCCcc-ccchhhhcCCCCCcEeeccCCc----chhhhcCCCC
Q 041114          416 MPLLKVLNMSRETNIK---ELLGELKALVNLKCVNLEWARDLV-TIPLEVISNFSKLRVLRLFGTV----LAKELLGLKH  487 (680)
Q Consensus       416 l~~Lr~LdL~~~~~i~---~lP~~i~~L~~Lr~L~L~~~~~l~-~lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~~  487 (680)
                      -.+++.|||+++ .+.   .+|.+|++|++|++|+|++|.++. .+|.+ |++|++|++|++++|.    .+..+..+.+
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 TYRVNNLDLSGL-NLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPA-IAKLTQLHYLYITHTNVSGAIPDFLSQIKT  126 (313)
T ss_dssp             CCCEEEEEEECC-CCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGG-GGGCTTCSEEEEEEECCEEECCGGGGGCTT
T ss_pred             cEEEEEEECCCC-CCCCCCCCChHHhcCccccccccccccccccccccc-cccccccchhhhccccccccccccccchhh
Confidence            357899999995 554   689999999999999999743555 89998 9999999999999886    3445777888


Q ss_pred             CceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCC-CEEEEeccCCcceeecccCCCC-----
Q 041114          488 LEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHL-STLHFSKCEELEEWKTDYTSGT-----  561 (680)
Q Consensus       488 L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L-~~L~l~~~~~l~~l~~~~~~~~-----  561 (680)
                      |+.+++..+...  ..++.....+++++.++++++......|. .+..+.++ +.+.+++ +.+....+......     
T Consensus       127 L~~l~l~~N~~~--~~~p~~l~~l~~L~~l~l~~n~l~~~ip~-~~~~l~~l~~~l~~~~-n~l~~~~~~~~~~l~~~~l  202 (313)
T d1ogqa_         127 LVTLDFSYNALS--GTLPPSISSLPNLVGITFDGNRISGAIPD-SYGSFSKLFTSMTISR-NRLTGKIPPTFANLNLAFV  202 (313)
T ss_dssp             CCEEECCSSEEE--SCCCGGGGGCTTCCEEECCSSCCEEECCG-GGGCCCTTCCEEECCS-SEEEEECCGGGGGCCCSEE
T ss_pred             hccccccccccc--ccCchhhccCcccceeecccccccccccc-cccccccccccccccc-ccccccccccccccccccc
Confidence            998888744322  22333334455889999998764444553 56666665 6666654 33332222211110     


Q ss_pred             --------ccCCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCcccccc
Q 041114          562 --------VLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAK  633 (680)
Q Consensus       562 --------~l~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~  633 (680)
                              +..+.....+++|+.+++.++.....+|.++.+++|+.|+++++.....+|..  ++++++|+.|+++++. 
T Consensus       203 ~l~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~~~~~~~L~~L~Ls~N~l~g~iP~~--l~~L~~L~~L~Ls~N~-  279 (313)
T d1ogqa_         203 DLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQG--LTQLKFLHSLNVSFNN-  279 (313)
T ss_dssp             ECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSSCCEECCCGG--GGGCTTCCEEECCSSE-
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccCccCeecccCChH--HhCCCCCCEEECcCCc-
Confidence                    11233446788999999999876666777888999999999986543356543  4789999999999864 


Q ss_pred             CC-CCCCC
Q 041114          634 LR-KLPLD  640 (680)
Q Consensus       634 L~-~lP~~  640 (680)
                      |. .+|..
T Consensus       280 l~g~iP~~  287 (313)
T d1ogqa_         280 LCGEIPQG  287 (313)
T ss_dssp             EEEECCCS
T ss_pred             ccccCCCc
Confidence            66 67754

>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=99.40  E-value=2.2e-12  Score=128.60  Aligned_cols=214  Identities=18%  Similarity=0.145  Sum_probs=160.5

Q ss_pred             EEEecCCCcccccccccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccc-hhh
Q 041114          359 FLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELL-GEL  437 (680)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i  437 (680)
                      .+...+.++.++|... ..+++.|.+++|.++                .+|+..|.++++|++||+++ +.+..++ ..+
T Consensus        15 ~v~c~~~~L~~iP~~i-p~~~~~L~Ls~N~i~----------------~i~~~~f~~l~~L~~L~ls~-n~l~~i~~~~~   76 (284)
T d1ozna_          15 TTSCPQQGLQAVPVGI-PAASQRIFLHGNRIS----------------HVPAASFRACRNLTILWLHS-NVLARIDAAAF   76 (284)
T ss_dssp             EEECCSSCCSSCCTTC-CTTCSEEECTTSCCC----------------EECTTTTTTCTTCCEEECCS-SCCCEECTTTT
T ss_pred             EEEcCCCCCCccCCCC-CCCCCEEECcCCcCC----------------CCCHHHhhcccccccccccc-ccccccccccc
Confidence            4555666677776432 256788888888776                55666689999999999999 5888777 446


Q ss_pred             hccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc----chhhhcCCCCCceeEEEeccchhhhhhhhchhhhcc
Q 041114          438 KALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV----LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSC  513 (680)
Q Consensus       438 ~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~  513 (680)
                      ..+..++.+....+..+..+|...++++++|++|+++++.    ....+..+.+|+.+++..+....+.  +......++
T Consensus        77 ~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~--~~~f~~~~~  154 (284)
T d1ozna_          77 TGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALP--DDTFRDLGN  154 (284)
T ss_dssp             TTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC--TTTTTTCTT
T ss_pred             cccccccccccccccccccccchhhcccccCCEEecCCcccccccccccchhcccchhhhccccccccC--hhHhccccc
Confidence            7789999998876668888877668999999999999876    2334566788888888755443322  122234458


Q ss_pred             ccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCC--Cc
Q 041114          514 TRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLT--FL  591 (680)
Q Consensus       514 L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~--~l  591 (680)
                      |+.|+++++. +..++...+.++++|+.|+++++ .+..+.+..+          ..+++|++|+++++. +..++  .+
T Consensus       155 L~~L~l~~N~-l~~l~~~~f~~l~~L~~l~l~~N-~l~~i~~~~f----------~~l~~L~~L~l~~N~-i~~~~~~~~  221 (284)
T d1ozna_         155 LTHLFLHGNR-ISSVPERAFRGLHSLDRLLLHQN-RVAHVHPHAF----------RDLGRLMTLYLFANN-LSALPTEAL  221 (284)
T ss_dssp             CCEEECCSSC-CCEECTTTTTTCTTCCEEECCSS-CCCEECTTTT----------TTCTTCCEEECCSSC-CSCCCHHHH
T ss_pred             hhhcccccCc-ccccchhhhccccccchhhhhhc-cccccChhHh----------hhhhhcccccccccc-ccccccccc
Confidence            9999999886 66666568889999999999875 4555655554          678999999999977 45554  47


Q ss_pred             CCCCCCCEEeEecC
Q 041114          592 VFAPNLKCLSLFDC  605 (680)
Q Consensus       592 ~~l~~L~~L~l~~c  605 (680)
                      +.+++|++|++++.
T Consensus       222 ~~~~~L~~L~l~~N  235 (284)
T d1ozna_         222 APLRALQYLRLNDN  235 (284)
T ss_dssp             TTCTTCCEEECCSS
T ss_pred             ccccccCEEEecCC
Confidence            89999999999873

>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=99.36  E-value=2.4e-12  Score=122.09  Aligned_cols=163  Identities=19%  Similarity=0.229  Sum_probs=127.0

Q ss_pred             ccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCcc
Q 041114          376 WETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLV  455 (680)
Q Consensus       376 ~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~  455 (680)
                      ..+++++.+.++.+..+                +.  +..+++|++|+|++| .+..+| .++.|++|++|++++| .++
T Consensus        45 L~~L~~L~l~~~~i~~l----------------~~--l~~l~~L~~L~L~~n-~i~~l~-~~~~l~~L~~L~l~~n-~i~  103 (210)
T d1h6ta2          45 LNSIDQIIANNSDIKSV----------------QG--IQYLPNVTKLFLNGN-KLTDIK-PLANLKNLGWLFLDEN-KVK  103 (210)
T ss_dssp             HHTCCEEECTTSCCCCC----------------TT--GGGCTTCCEEECCSS-CCCCCG-GGTTCTTCCEEECCSS-CCC
T ss_pred             hcCccEEECcCCCCCCc----------------hh--HhhCCCCCEEeCCCc-cccCcc-ccccCccccccccccc-ccc
Confidence            45788888887777543                32  678999999999994 898887 5789999999999999 799


Q ss_pred             ccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCccccccc
Q 041114          456 TIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIAL  533 (680)
Q Consensus       456 ~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l  533 (680)
                      .+|.  +..+++|+.|+++++.  .+..+..+++|+.+.+..+.........    .+++|+.+.++++. +..++  .+
T Consensus       104 ~l~~--l~~l~~L~~L~l~~~~~~~~~~l~~l~~l~~l~~~~n~l~~~~~~~----~l~~L~~l~l~~n~-l~~i~--~l  174 (210)
T d1h6ta2         104 DLSS--LKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNNKITDITVLS----RLTKLDTLSLEDNQ-ISDIV--PL  174 (210)
T ss_dssp             CGGG--GTTCTTCCEEECTTSCCCCCGGGGGCTTCCEEECCSSCCCCCGGGG----GCTTCSEEECCSSC-CCCCG--GG
T ss_pred             cccc--cccccccccccccccccccccccccccccccccccccccccccccc----cccccccccccccc-ccccc--cc
Confidence            9985  8999999999999875  5567888888988888755444333222    24589999999886 44443  58


Q ss_pred             ccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeC
Q 041114          534 ARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITF  581 (680)
Q Consensus       534 ~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~  581 (680)
                      .++++|++|+++++ .+++++  .+          ..+++|+.|+|++
T Consensus       175 ~~l~~L~~L~Ls~N-~i~~l~--~l----------~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         175 AGLTKLQNLYLSKN-HISDLR--AL----------AGLKNLDVLELFS  209 (210)
T ss_dssp             TTCTTCCEEECCSS-CCCBCG--GG----------TTCTTCSEEEEEE
T ss_pred             cCCCCCCEEECCCC-CCCCCh--hh----------cCCCCCCEEEccC
Confidence            89999999999976 566542  22          5789999999975

>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=99.34  E-value=2.7e-12  Score=124.55  Aligned_cols=208  Identities=15%  Similarity=0.119  Sum_probs=129.6

Q ss_pred             ccchhhhccCCcceEEEccCCCCccccch-hhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc-----chh
Q 041114          407 MITDGFFQFMPLLKVLNMSRETNIKELLG-ELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV-----LAK  480 (680)
Q Consensus       407 ~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~-~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~-----~~~  480 (680)
                      .+|.+++   +++++|||++ +.+..+|. .+.++++|++|++++|.....+|...+..++++++|.+..+.     ...
T Consensus        22 ~iP~~l~---~~l~~L~Ls~-n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~   97 (242)
T d1xwdc1          22 EIPSDLP---RNAIELRFVL-TKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPE   97 (242)
T ss_dssp             SCCSCSC---SCCSEEEEES-CCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECTT
T ss_pred             CcCCCCC---CCCCEEECcC-CcCCccChhHhhccchhhhhhhccccccceeeccccccccccccccccccccccccccc
Confidence            5555432   4678888888 47888885 478888888888888843344555557788888888876543     233


Q ss_pred             hhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEecc--CCCCcccccccccC-CCCCEEEEeccCCcceeeccc
Q 041114          481 ELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRF--KDSKSIDVIALARL-KHLSTLHFSKCEELEEWKTDY  557 (680)
Q Consensus       481 ~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~--~~~~~~~~~~l~~l-~~L~~L~l~~~~~l~~l~~~~  557 (680)
                      .+.++++|+.+.+..+.........    ...+++.+.....  ..+..++...+..+ ..++.|++++ +.++.+....
T Consensus        98 ~~~~l~~L~~l~l~~~~l~~~~~~~----~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~-n~l~~i~~~~  172 (242)
T d1xwdc1          98 AFQNLPNLQYLLISNTGIKHLPDVH----KIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNK-NGIQEIHNCA  172 (242)
T ss_dssp             SEECCTTCCEEEEESCCCCSCCCCT----TTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCS-SCCCEECTTT
T ss_pred             cccccccccccccchhhhccccccc----ccccccccccccccccccccccccccccccccceeeeccc-cccccccccc
Confidence            4677788888888754333222111    1223344432222  22444443344444 3778888875 4556554333


Q ss_pred             CCCCccCCCCCCCCCCccEEeeeCCCCCCCCCC--cCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCC
Q 041114          558 TSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTF--LVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLR  635 (680)
Q Consensus       558 ~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~  635 (680)
                      .           ...++..+....+..++.+|.  +..+++|++|+++++ .++.++. ..+.++++|+.+++   .+|+
T Consensus       173 ~-----------~~~~l~~~~~l~~n~l~~l~~~~f~~l~~L~~L~Ls~N-~l~~l~~-~~~~~l~~L~~l~~---~~l~  236 (242)
T d1xwdc1         173 F-----------NGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRT-RIHSLPS-YGLENLKKLRARST---YNLK  236 (242)
T ss_dssp             T-----------TTCCEEEEECTTCTTCCCCCTTTTTTSCCCSEEECTTS-CCCCCCS-SSCTTCCEEESSSE---ESSS
T ss_pred             c-----------cchhhhccccccccccccccHHHhcCCCCCCEEECCCC-cCCccCH-HHHcCCcccccCcC---CCCC
Confidence            2           345666776666677888875  678999999999984 4777754 33456666666655   4577


Q ss_pred             CCCC
Q 041114          636 KLPL  639 (680)
Q Consensus       636 ~lP~  639 (680)
                      .+|.
T Consensus       237 ~lp~  240 (242)
T d1xwdc1         237 KLPT  240 (242)
T ss_dssp             CSCC
T ss_pred             cCCC
Confidence            7774

>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=99.34  E-value=6.6e-12  Score=128.65  Aligned_cols=70  Identities=19%  Similarity=0.156  Sum_probs=51.4

Q ss_pred             CCCCccEEeeeCCCCCCCCCCcCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCCccccCcce
Q 041114          570 VFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNSALEHKI  649 (680)
Q Consensus       570 ~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~~~l~~L~  649 (680)
                      .+++|++|+|++|. ++.+|  ..+++|+.|++++| .+++++.     .+++|+.|++++|+ |+++|..+.. +++|+
T Consensus       282 ~~~~L~~L~Ls~N~-l~~lp--~~~~~L~~L~L~~N-~L~~l~~-----~~~~L~~L~L~~N~-L~~lp~~~~~-L~~L~  350 (353)
T d1jl5a_         282 LPPSLEELNVSNNK-LIELP--ALPPRLERLIASFN-HLAEVPE-----LPQNLKQLHVEYNP-LREFPDIPES-VEDLR  350 (353)
T ss_dssp             CCTTCCEEECCSSC-CSCCC--CCCTTCCEEECCSS-CCSCCCC-----CCTTCCEEECCSSC-CSSCCCCCTT-CCEEE
T ss_pred             cCCCCCEEECCCCc-cCccc--cccCCCCEEECCCC-cCCcccc-----ccCCCCEEECcCCc-CCCCCccccc-cCeeE
Confidence            35789999998875 66676  35788999999875 4666642     36788889999887 8888876544 66665


Q ss_pred             E
Q 041114          650 A  650 (680)
Q Consensus       650 i  650 (680)
                      +
T Consensus       351 ~  351 (353)
T d1jl5a_         351 M  351 (353)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.34  E-value=4.9e-12  Score=118.79  Aligned_cols=160  Identities=23%  Similarity=0.315  Sum_probs=120.3

Q ss_pred             cccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCc
Q 041114          375 EWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDL  454 (680)
Q Consensus       375 ~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l  454 (680)
                      .+.+++++.+.++.+..+                +.  +..+++|++|++++| .+..+|. ++++++|++|++++| .+
T Consensus        38 ~l~~l~~L~l~~~~i~~l----------------~~--l~~l~nL~~L~Ls~N-~l~~~~~-l~~l~~L~~L~l~~n-~~   96 (199)
T d2omxa2          38 DLDQVTTLQADRLGIKSI----------------DG--VEYLNNLTQINFSNN-QLTDITP-LKNLTKLVDILMNNN-QI   96 (199)
T ss_dssp             HHTTCCEEECTTSCCCCC----------------TT--GGGCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSS-CC
T ss_pred             HhcCCCEEECCCCCCCCc----------------cc--cccCCCcCcCccccc-cccCccc-ccCCccccccccccc-cc
Confidence            456888999988877643                22  678999999999995 8888874 999999999999999 78


Q ss_pred             cccchhhhcCCCCCcEeeccCCcc--hhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcccccc
Q 041114          455 VTIPLEVISNFSKLRVLRLFGTVL--AKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIA  532 (680)
Q Consensus       455 ~~lP~~~i~~L~~L~~L~l~~~~~--~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~  532 (680)
                      ..+|.  ++.+++|++|+++++..  +..+..++                          +|+.|+++++. +...+  .
T Consensus        97 ~~~~~--l~~l~~L~~L~l~~~~~~~~~~~~~l~--------------------------~L~~L~l~~n~-l~~~~--~  145 (199)
T d2omxa2          97 ADITP--LANLTNLTGLTLFNNQITDIDPLKNLT--------------------------NLNRLELSSNT-ISDIS--A  145 (199)
T ss_dssp             CCCGG--GTTCTTCSEEECCSSCCCCCGGGTTCT--------------------------TCSEEECCSSC-CCCCG--G
T ss_pred             ccccc--cccccccccccccccccccccccchhh--------------------------hhHHhhhhhhh-hcccc--c
Confidence            88886  89999999999988752  22233333                          55666666554 33333  5


Q ss_pred             cccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCCCcCCCCCCCEE
Q 041114          533 LARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCL  600 (680)
Q Consensus       533 l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L  600 (680)
                      +..+++|+.|++.++ .++.++  .+          ..+++|++|++++|+ ++.++.++.+++|+.|
T Consensus       146 l~~~~~L~~L~l~~n-~l~~l~--~l----------~~l~~L~~L~ls~N~-i~~i~~l~~L~~L~~L  199 (199)
T d2omxa2         146 LSGLTSLQQLNFSSN-QVTDLK--PL----------ANLTTLERLDISSNK-VSDISVLAKLTNLESL  199 (199)
T ss_dssp             GTTCTTCSEEECCSS-CCCCCG--GG----------TTCTTCCEEECCSSC-CCCCGGGGGCTTCSEE
T ss_pred             ccccccccccccccc-cccCCc--cc----------cCCCCCCEEECCCCC-CCCCccccCCCCCCcC
Confidence            777888999998875 444332  12          567899999999975 7888888889998876

>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=99.30  E-value=2.7e-13  Score=135.20  Aligned_cols=178  Identities=21%  Similarity=0.204  Sum_probs=121.5

Q ss_pred             cCCcceEEEccCCCCcc--ccchhhhccCCCCEEeccCCCCcc-ccchhhhcCCCCCcEeeccCCcchh-----h-hcCC
Q 041114          415 FMPLLKVLNMSRETNIK--ELLGELKALVNLKCVNLEWARDLV-TIPLEVISNFSKLRVLRLFGTVLAK-----E-LLGL  485 (680)
Q Consensus       415 ~l~~Lr~LdL~~~~~i~--~lP~~i~~L~~Lr~L~L~~~~~l~-~lP~~~i~~L~~L~~L~l~~~~~~~-----~-l~~L  485 (680)
                      ....|++|||++| .+.  .++.-+..+++|++|++++| .+. ..+.. ++++++|++|++++|..+.     . ..++
T Consensus        44 ~~~~L~~LdLs~~-~i~~~~l~~l~~~c~~L~~L~L~~~-~l~~~~~~~-l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~  120 (284)
T d2astb2          44 SPFRVQHMDLSNS-VIEVSTLHGILSQCSKLQNLSLEGL-RLSDPIVNT-LAKNSNLVRLNLSGCSGFSEFALQTLLSSC  120 (284)
T ss_dssp             CCBCCCEEECTTC-EECHHHHHHHHTTBCCCSEEECTTC-BCCHHHHHH-HTTCTTCSEEECTTCBSCCHHHHHHHHHHC
T ss_pred             cCCCCCEEECCCC-ccCHHHHHHHHHhCCCccccccccc-CCCcHHHHH-HhcCCCCcCccccccccccccccchhhHHH
Confidence            4568999999985 553  35566789999999999999 565 34454 8899999999999987442     2 2467


Q ss_pred             CCCceeEEEeccchhhhhhh-hchhhhccccEEEEeccC-CCCccccc-ccccCCCCCEEEEeccCCcceeecccCCCCc
Q 041114          486 KHLEELDFTLRCVHSLQILV-SSNKLQSCTRALVLIRFK-DSKSIDVI-ALARLKHLSTLHFSKCEELEEWKTDYTSGTV  562 (680)
Q Consensus       486 ~~L~~L~i~~~~~~~l~~l~-~~~~l~~~L~~L~l~~~~-~~~~~~~~-~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~  562 (680)
                      ++|+.|+++......-..+. ......++|+.|.++++. .+...... ...++++|++|++++|..+++-....+    
T Consensus       121 ~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l----  196 (284)
T d2astb2         121 SRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEF----  196 (284)
T ss_dssp             TTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGG----
T ss_pred             HhccccccccccccccccchhhhcccccccchhhhcccccccccccccccccccccccccccccccCCCchhhhhh----
Confidence            88888888743211112222 122334578888888763 23322222 235678899999988877764333333    


Q ss_pred             cCCCCCCCCCCccEEeeeCCCCCCC--CCCcCCCCCCCEEeEecC
Q 041114          563 LKSPQPFVFCSLHKVTITFCPKLKG--LTFLVFAPNLKCLSLFDC  605 (680)
Q Consensus       563 l~~~~~~~l~~L~~L~L~~c~~l~~--l~~l~~l~~L~~L~l~~c  605 (680)
                            ..+++|++|+|++|..++.  +..++.+|+|+.|++++|
T Consensus       197 ------~~~~~L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         197 ------FQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             ------GGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS
T ss_pred             ------cccCcCCEEECCCCCCCChHHHHHHhcCCCCCEEeeeCC
Confidence                  4678899999999887654  234677889999998887

>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=99.30  E-value=1.4e-12  Score=129.96  Aligned_cols=158  Identities=15%  Similarity=0.038  Sum_probs=73.6

Q ss_pred             hccCCcceEEEccCCCCcc-ccchhhhccCCCCEEeccCCCCccc--cchhhhcCCCCCcEeeccCCcchh------hhc
Q 041114          413 FQFMPLLKVLNMSRETNIK-ELLGELKALVNLKCVNLEWARDLVT--IPLEVISNFSKLRVLRLFGTVLAK------ELL  483 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~-~lP~~i~~L~~Lr~L~L~~~~~l~~--lP~~~i~~L~~L~~L~l~~~~~~~------~l~  483 (680)
                      +.++++|++|+|++| .+. ..+..++.+++|++|++++|..++.  +.. +...+++|++|++++|..+.      .+.
T Consensus        67 ~~~c~~L~~L~L~~~-~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~-l~~~~~~L~~L~ls~c~~~~~~~~~~~~~  144 (284)
T d2astb2          67 LSQCSKLQNLSLEGL-RLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQT-LLSSCSRLDELNLSWCFDFTEKHVQVAVA  144 (284)
T ss_dssp             HTTBCCCSEEECTTC-BCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHH-HHHHCTTCCEEECCCCTTCCHHHHHHHHH
T ss_pred             HHhCCCccccccccc-CCCcHHHHHHhcCCCCcCccccccccccccccch-hhHHHHhccccccccccccccccchhhhc
Confidence            455566666666654 332 3345555556666666665544432  111 12345566666666554221      111


Q ss_pred             C-CCCCceeEEEecc-chhhhhhhhchhhhccccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCC
Q 041114          484 G-LKHLEELDFTLRC-VHSLQILVSSNKLQSCTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGT  561 (680)
Q Consensus       484 ~-L~~L~~L~i~~~~-~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~  561 (680)
                      . .++|+.|.+.... ......+......+++|+.|++++|..+.......+.++++|++|++++|..+.+-....+   
T Consensus       145 ~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l~~~~~L~~L~L~~C~~i~~~~l~~L---  221 (284)
T d2astb2         145 HVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLEL---  221 (284)
T ss_dssp             HSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGGGGGG---
T ss_pred             ccccccchhhhcccccccccccccccccccccccccccccccCCCchhhhhhcccCcCCEEECCCCCCCChHHHHHH---
Confidence            1 2455555554211 0011122222233445666666655544433334555556666666665555442222221   


Q ss_pred             ccCCCCCCCCCCccEEeeeCC
Q 041114          562 VLKSPQPFVFCSLHKVTITFC  582 (680)
Q Consensus       562 ~l~~~~~~~l~~L~~L~L~~c  582 (680)
                             +.+++|+.|++++|
T Consensus       222 -------~~~~~L~~L~l~~~  235 (284)
T d2astb2         222 -------GEIPTLKTLQVFGI  235 (284)
T ss_dssp             -------GGCTTCCEEECTTS
T ss_pred             -------hcCCCCCEEeeeCC
Confidence                   34455666666555

>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=1.4e-11  Score=119.29  Aligned_cols=217  Identities=18%  Similarity=0.190  Sum_probs=143.0

Q ss_pred             cEEEecCCCcccccccccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccc-hh
Q 041114          358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELL-GE  436 (680)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~  436 (680)
                      ..+...+.++..+|... ..+++.|.+.+|.+.                .+|...|.++++|++|++++|.....+| ..
T Consensus        11 ~~i~c~~~~l~~iP~~l-~~~l~~L~Ls~n~i~----------------~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~   73 (242)
T d1xwdc1          11 RVFLCQESKVTEIPSDL-PRNAIELRFVLTKLR----------------VIQKGAFSGFGDLEKIEISQNDVLEVIEADV   73 (242)
T ss_dssp             SEEEEESCSCSSCCSCS-CSCCSEEEEESCCCC----------------EECTTTTTTCTTCCEEEEESCTTCCEECSSS
T ss_pred             CEEEEeCCCCCCcCCCC-CCCCCEEECcCCcCC----------------ccChhHhhccchhhhhhhccccccceeeccc
Confidence            34555556666666432 257888888877765                5666668999999999999963334455 45


Q ss_pred             hhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCceeEEEeccchhhhhhh--hchhhhc
Q 041114          437 LKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEELDFTLRCVHSLQILV--SSNKLQS  512 (680)
Q Consensus       437 i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~L~i~~~~~~~l~~l~--~~~~l~~  512 (680)
                      +..++++++|.+..+.++..++.+.+.++++|++|++.++.  .+..+..+..++.+.....+...+..++  .+.....
T Consensus        74 f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L~~l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~  153 (242)
T d1xwdc1          74 FSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSF  153 (242)
T ss_dssp             EESCTTCCEEEEECCTTCCEECTTSEECCTTCCEEEEESCCCCSCCCCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBS
T ss_pred             cccccccccccccccccccccccccccccccccccccchhhhcccccccccccccccccccccccccccccccccccccc
Confidence            78899999999887657888887768999999999999875  2223334455555544333333333322  1222334


Q ss_pred             cccEEEEeccCCCCcccccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCCCCC--
Q 041114          513 CTRALVLIRFKDSKSIDVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKGLTF--  590 (680)
Q Consensus       513 ~L~~L~l~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~l~~--  590 (680)
                      .+..|.+.++. +..++. ......+++++....++.++.++...+          ..+++|+.|+|+++. ++.+|.  
T Consensus       154 ~l~~L~l~~n~-l~~i~~-~~~~~~~l~~~~~l~~n~l~~l~~~~f----------~~l~~L~~L~Ls~N~-l~~l~~~~  220 (242)
T d1xwdc1         154 ESVILWLNKNG-IQEIHN-CAFNGTQLDELNLSDNNNLEELPNDVF----------HGASGPVILDISRTR-IHSLPSYG  220 (242)
T ss_dssp             SCEEEECCSSC-CCEECT-TTTTTCCEEEEECTTCTTCCCCCTTTT----------TTSCCCSEEECTTSC-CCCCCSSS
T ss_pred             cceeeeccccc-cccccc-ccccchhhhccccccccccccccHHHh----------cCCCCCCEEECCCCc-CCccCHHH
Confidence            67788887654 445443 344556777776666677777655444          578999999999976 666663  


Q ss_pred             cCCCCCCCEEeEec
Q 041114          591 LVFAPNLKCLSLFD  604 (680)
Q Consensus       591 l~~l~~L~~L~l~~  604 (680)
                      +..+++|+.|++.+
T Consensus       221 ~~~l~~L~~l~~~~  234 (242)
T d1xwdc1         221 LENLKKLRARSTYN  234 (242)
T ss_dssp             CTTCCEEESSSEES
T ss_pred             HcCCcccccCcCCC
Confidence            45556666665554

>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=99.07  E-value=1.6e-10  Score=98.92  Aligned_cols=78  Identities=21%  Similarity=0.272  Sum_probs=55.6

Q ss_pred             hccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc-----chhhhcCCCC
Q 041114          413 FQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV-----LAKELLGLKH  487 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~-----~~~~l~~L~~  487 (680)
                      +..+.+|++||+++ +.++.+|.+++.+++|++|++++| .++.+|.  ++++++|++|+++++.     .+..+..+++
T Consensus        16 l~~l~~L~~L~ls~-N~l~~lp~~~~~l~~L~~L~l~~N-~i~~l~~--~~~l~~L~~L~l~~N~i~~~~~~~~l~~~~~   91 (124)
T d1dcea3          16 LEQLLLVTHLDLSH-NRLRALPPALAALRCLEVLQASDN-ALENVDG--VANLPRLQELLLCNNRLQQSAAIQPLVSCPR   91 (124)
T ss_dssp             GGGGTTCCEEECCS-SCCCCCCGGGGGCTTCCEEECCSS-CCCCCGG--GTTCSSCCEEECCSSCCCSSSTTGGGGGCTT
T ss_pred             cccCCCCCEEECCC-CccCcchhhhhhhhcccccccccc-cccccCc--cccccccCeEECCCCccCCCCCchhhcCCCC
Confidence            56777888888888 477888877888888888888887 6887775  7788888888887764     1233455555


Q ss_pred             CceeEEE
Q 041114          488 LEELDFT  494 (680)
Q Consensus       488 L~~L~i~  494 (680)
                      |+.+++.
T Consensus        92 L~~L~l~   98 (124)
T d1dcea3          92 LVLLNLQ   98 (124)
T ss_dssp             CCEEECT
T ss_pred             CCEEECC
Confidence            5555554

>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=99.06  E-value=8e-10  Score=112.70  Aligned_cols=252  Identities=17%  Similarity=0.086  Sum_probs=145.0

Q ss_pred             ceEEEEeecccccccccCC-CCccc---cccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCC
Q 041114          378 TVRRLSLMQNQIKILSEAP-TCPHL---HYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARD  453 (680)
Q Consensus       378 ~~r~lsl~~~~~~~l~~~~-~~~~L---~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~  453 (680)
                      ++++|+++++.+..+|+.. ....|   ++.++.+|..    +.+|+.|++++| .+..++.-   ...|++|++++| .
T Consensus        39 ~l~~LdLs~~~L~~lp~~~~~L~~L~Ls~N~l~~lp~~----~~~L~~L~l~~n-~l~~l~~l---p~~L~~L~L~~n-~  109 (353)
T d1jl5a_          39 QAHELELNNLGLSSLPELPPHLESLVASCNSLTELPEL----PQSLKSLLVDNN-NLKALSDL---PPLLEYLGVSNN-Q  109 (353)
T ss_dssp             TCSEEECTTSCCSCCCSCCTTCSEEECCSSCCSSCCCC----CTTCCEEECCSS-CCSCCCSC---CTTCCEEECCSS-C
T ss_pred             CCCEEEeCCCCCCCCCCCCCCCCEEECCCCCCcccccc----hhhhhhhhhhhc-ccchhhhh---cccccccccccc-c
Confidence            5667778877777776542 22223   6677788764    467888888884 66666521   135889999988 6


Q ss_pred             ccccchhhhcCCCCCcEeeccCCcchhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCCCCcc-----
Q 041114          454 LVTIPLEVISNFSKLRVLRLFGTVLAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKDSKSI-----  528 (680)
Q Consensus       454 l~~lP~~~i~~L~~L~~L~l~~~~~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~~~~~-----  528 (680)
                      +..+|.  ++.+++|++|+++++...........+..+.+..........+    ..+..++.|.+.++......     
T Consensus       110 l~~lp~--~~~l~~L~~L~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~l----~~l~~l~~L~l~~n~~~~~~~~~~~  183 (353)
T d1jl5a_         110 LEKLPE--LQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPEL----QNLPFLTAIYADNNSLKKLPDLPLS  183 (353)
T ss_dssp             CSSCCC--CTTCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSSCCCC----TTCTTCCEEECCSSCCSSCCCCCTT
T ss_pred             cccccc--hhhhccceeeccccccccccccccccccchhhccccccccccc----cccccceeccccccccccccccccc
Confidence            888886  6889999999998775433333334455554432221111111    12335667776655422110     


Q ss_pred             ------------cccccccCCCCCEEEEeccCCcceeecccCCC-C-----ccCCC-CCCCCCCccEEeeeCCC--CCCC
Q 041114          529 ------------DVIALARLKHLSTLHFSKCEELEEWKTDYTSG-T-----VLKSP-QPFVFCSLHKVTITFCP--KLKG  587 (680)
Q Consensus       529 ------------~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~-~-----~l~~~-~~~~l~~L~~L~L~~c~--~l~~  587 (680)
                                  .......+++|+.++++++.. ..++ ..... .     ..... .....+++..+.+..+.  .+..
T Consensus       184 ~~~l~~~~~~~~~~~~~~~l~~L~~l~l~~n~~-~~~~-~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~  261 (353)
T d1jl5a_         184 LESIVAGNNILEELPELQNLPFLTTIYADNNLL-KTLP-DLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSE  261 (353)
T ss_dssp             CCEEECCSSCCSSCCCCTTCTTCCEEECCSSCC-SSCC-SCCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSEESC
T ss_pred             ccccccccccccccccccccccccccccccccc-cccc-ccccccccccccccccccccccccccccccccccccccccc
Confidence                        012345677888888876533 2222 11110 0     00000 00122334444433211  1111


Q ss_pred             CCC---------------cCCCCCCCEEeEecCcchhHhhhcCCCCCCCcccccCccccccCCCCCCCCccccCcceEEe
Q 041114          588 LTF---------------LVFAPNLKCLSLFDCTAMEEIISAGKFVHTPEMMGNTMDPCAKLRKLPLDSNSALEHKIAIR  652 (680)
Q Consensus       588 l~~---------------l~~l~~L~~L~l~~c~~l~~i~~~~~~~~lp~L~~L~i~~C~~L~~lP~~~~~~l~~L~i~~  652 (680)
                      ++.               ...+|+|++|++++| .+++++     ..+|+|+.|++++| +|+++|..+.+ |++|.+.+
T Consensus       262 l~~~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~N-~l~~lp-----~~~~~L~~L~L~~N-~L~~l~~~~~~-L~~L~L~~  333 (353)
T d1jl5a_         262 LPPNLYYLNASSNEIRSLCDLPPSLEELNVSNN-KLIELP-----ALPPRLERLIASFN-HLAEVPELPQN-LKQLHVEY  333 (353)
T ss_dssp             CCTTCCEEECCSSCCSEECCCCTTCCEEECCSS-CCSCCC-----CCCTTCCEEECCSS-CCSCCCCCCTT-CCEEECCS
T ss_pred             ccchhcccccccCccccccccCCCCCEEECCCC-ccCccc-----cccCCCCEEECCCC-cCCccccccCC-CCEEECcC
Confidence            111               134689999999996 466664     34899999999886 59999976655 88887766


Q ss_pred             cc
Q 041114          653 GE  654 (680)
Q Consensus       653 ~~  654 (680)
                      |.
T Consensus       334 N~  335 (353)
T d1jl5a_         334 NP  335 (353)
T ss_dssp             SC
T ss_pred             Cc
Confidence            65

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.99  E-value=5.2e-10  Score=95.66  Aligned_cols=71  Identities=21%  Similarity=0.345  Sum_probs=57.1

Q ss_pred             eEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--chhhhcCCCCCceeEEE
Q 041114          420 KVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--LAKELLGLKHLEELDFT  494 (680)
Q Consensus       420 r~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~L~~L~~L~i~  494 (680)
                      |+|||++ ++++.+| .++.|++|++|++++| .++.+|.+ ++.+++|++|+++++.  .+..+.++++|+.|++.
T Consensus         1 R~L~Ls~-n~l~~l~-~l~~l~~L~~L~ls~N-~l~~lp~~-~~~l~~L~~L~l~~N~i~~l~~~~~l~~L~~L~l~   73 (124)
T d1dcea3           1 RVLHLAH-KDLTVLC-HLEQLLLVTHLDLSHN-RLRALPPA-LAALRCLEVLQASDNALENVDGVANLPRLQELLLC   73 (124)
T ss_dssp             SEEECTT-SCCSSCC-CGGGGTTCCEEECCSS-CCCCCCGG-GGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEECC
T ss_pred             CEEEcCC-CCCCCCc-ccccCCCCCEEECCCC-ccCcchhh-hhhhhcccccccccccccccCccccccccCeEECC
Confidence            7999999 5999997 5899999999999999 79999987 9999999999999875  23334444444444443

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.94  E-value=5.9e-10  Score=100.25  Aligned_cols=61  Identities=8%  Similarity=0.072  Sum_probs=53.1

Q ss_pred             hccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc
Q 041114          413 FQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      |.++..||.|||++ +.|..+|..+..+++|++|+|++| .++.++.  ++.+++|++|++++|.
T Consensus        14 ~~n~~~lr~L~L~~-n~I~~i~~~~~~l~~L~~L~Ls~N-~i~~l~~--~~~l~~L~~L~ls~N~   74 (162)
T d1a9na_          14 YTNAVRDRELDLRG-YKIPVIENLGATLDQFDAIDFSDN-EIRKLDG--FPLLRRLKTLLVNNNR   74 (162)
T ss_dssp             EECTTSCEEEECTT-SCCCSCCCGGGGTTCCSEEECCSS-CCCEECC--CCCCSSCCEEECCSSC
T ss_pred             ccCcCcCcEEECCC-CCCCccCccccccccCCEEECCCC-CCCccCC--cccCcchhhhhccccc
Confidence            56778899999999 589999876778999999999999 7999975  8999999999999875

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.90  E-value=1e-09  Score=98.68  Aligned_cols=99  Identities=19%  Similarity=0.172  Sum_probs=76.3

Q ss_pred             ccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCcc
Q 041114          376 WETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLV  455 (680)
Q Consensus       376 ~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~  455 (680)
                      ..++|.|++.+|.+..+                |. .+..+++|++|||++| .|.+++ ++..+++|++|++++| .+.
T Consensus        17 ~~~lr~L~L~~n~I~~i----------------~~-~~~~l~~L~~L~Ls~N-~i~~l~-~~~~l~~L~~L~ls~N-~i~   76 (162)
T d1a9na_          17 AVRDRELDLRGYKIPVI----------------EN-LGATLDQFDAIDFSDN-EIRKLD-GFPLLRRLKTLLVNNN-RIC   76 (162)
T ss_dssp             TTSCEEEECTTSCCCSC----------------CC-GGGGTTCCSEEECCSS-CCCEEC-CCCCCSSCCEEECCSS-CCC
T ss_pred             cCcCcEEECCCCCCCcc----------------Cc-cccccccCCEEECCCC-CCCccC-CcccCcchhhhhcccc-ccc
Confidence            35789999999988744                32 2567899999999994 898885 6889999999999999 799


Q ss_pred             ccchhhhcCCCCCcEeeccCCc--c---hhhhcCCCCCceeEEE
Q 041114          456 TIPLEVISNFSKLRVLRLFGTV--L---AKELLGLKHLEELDFT  494 (680)
Q Consensus       456 ~lP~~~i~~L~~L~~L~l~~~~--~---~~~l~~L~~L~~L~i~  494 (680)
                      .+|.+++..+++|++|++++|.  .   +..+..+++|+.|++.
T Consensus        77 ~l~~~~~~~l~~L~~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~  120 (162)
T d1a9na_          77 RIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCIL  120 (162)
T ss_dssp             EECSCHHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCCEEECC
T ss_pred             CCCccccccccccccceeccccccccccccccccccccchhhcC
Confidence            9998755789999999999875  1   2234445555555554

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.79  E-value=1.1e-10  Score=108.94  Aligned_cols=55  Identities=20%  Similarity=0.255  Sum_probs=34.4

Q ss_pred             ceEEEccCC-CCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCC
Q 041114          419 LKVLNMSRE-TNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGT  476 (680)
Q Consensus       419 Lr~LdL~~~-~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~  476 (680)
                      ++.+++++. ..++.+|.++..|++|++|+|++| .|+.+|.  ++.|++|++|++++|
T Consensus        25 ~~~~~l~~~~~~i~~l~~sl~~L~~L~~L~Ls~n-~I~~i~~--l~~l~~L~~L~Ls~N   80 (198)
T d1m9la_          25 AEKVELHGMIPPIEKMDATLSTLKACKHLALSTN-NIEKISS--LSGMENLRILSLGRN   80 (198)
T ss_dssp             CSCEECCBCCTTCCCCHHHHHHTTTCCEEECSEE-EESCCCC--HHHHTTCCEEECCEE
T ss_pred             cceeeeecccCchhhhhhHHhcccccceeECccc-CCCCccc--ccCCccccChhhccc
Confidence            344455442 245666667777777777777776 5666653  666677777777665

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.76  E-value=2.8e-10  Score=106.12  Aligned_cols=83  Identities=18%  Similarity=0.134  Sum_probs=62.8

Q ss_pred             ccchhhhccCCcceEEEccCCCCccccchhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc--chhhhcC
Q 041114          407 MITDGFFQFMPLLKVLNMSRETNIKELLGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV--LAKELLG  484 (680)
Q Consensus       407 ~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~--~~~~l~~  484 (680)
                      .+|.+ +..+++|++|+|++ +.|+.++ .++.|++|++|+|++| .++.+|.- ...+.+|++|++++|.  .+..+..
T Consensus        39 ~l~~s-l~~L~~L~~L~Ls~-n~I~~i~-~l~~l~~L~~L~Ls~N-~i~~i~~~-~~~~~~L~~L~l~~N~i~~l~~~~~  113 (198)
T d1m9la_          39 KMDAT-LSTLKACKHLALST-NNIEKIS-SLSGMENLRILSLGRN-LIKKIENL-DAVADTLEELWISYNQIASLSGIEK  113 (198)
T ss_dssp             CCHHH-HHHTTTCCEEECSE-EEESCCC-CHHHHTTCCEEECCEE-EECSCSSH-HHHHHHCCEEECSEEECCCHHHHHH
T ss_pred             hhhhH-HhcccccceeECcc-cCCCCcc-cccCCccccChhhccc-cccccccc-ccccccccccccccccccccccccc
Confidence            55555 88899999999999 5899987 6999999999999999 79999873 5566789999998764  2233333


Q ss_pred             CCCCceeEEE
Q 041114          485 LKHLEELDFT  494 (680)
Q Consensus       485 L~~L~~L~i~  494 (680)
                      +++|+.|+++
T Consensus       114 l~~L~~L~L~  123 (198)
T d1m9la_         114 LVNLRVLYMS  123 (198)
T ss_dssp             HHHSSEEEES
T ss_pred             cccccccccc
Confidence            4444444443

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=98.73  E-value=1.3e-08  Score=94.14  Aligned_cols=121  Identities=21%  Similarity=0.361  Sum_probs=85.5

Q ss_pred             EEEecCCCcccccccccccceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccc-hhh
Q 041114          359 FLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELL-GEL  437 (680)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i  437 (680)
                      .+...+.++..+|... ..++++|.+++|.+...               ++...|..+++|+.|+|++| .+..+| ..+
T Consensus        12 ~v~Cs~~~L~~iP~~l-p~~l~~L~Ls~N~i~~~---------------~~~~~f~~l~~L~~L~L~~N-~i~~~~~~~~   74 (192)
T d1w8aa_          12 TVDCTGRGLKEIPRDI-PLHTTELLLNDNELGRI---------------SSDGLFGRLPHLVKLELKRN-QLTGIEPNAF   74 (192)
T ss_dssp             EEECTTSCCSSCCSCC-CTTCSEEECCSCCCCSB---------------CCSCSGGGCTTCCEEECCSS-CCCCBCTTTT
T ss_pred             EEEEeCCCcCccCCCC-CCCCCEEEeCCCCCccc---------------ccccccCCCceEeeeecccc-cccccccccc
Confidence            4555666777777532 36788899998887542               33444777888888888884 666555 567


Q ss_pred             hccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc----chhhhcCCCCCceeEEEecc
Q 041114          438 KALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV----LAKELLGLKHLEELDFTLRC  497 (680)
Q Consensus       438 ~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~----~~~~l~~L~~L~~L~i~~~~  497 (680)
                      ..+++|++|+|++| .+..+|++++.+|++|++|+++++.    ....+..+++|+.+++..+.
T Consensus        75 ~~~~~L~~L~Ls~N-~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N~  137 (192)
T d1w8aa_          75 EGASHIQELQLGEN-KIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNP  137 (192)
T ss_dssp             TTCTTCCEEECCSC-CCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCC
T ss_pred             ccccccceeeeccc-cccccCHHHHhCCCcccccccCCccccccCHHHhcCCcccccccccccc
Confidence            77888888888888 6888877667888888888888775    23346677778877776443

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=98.62  E-value=3.2e-08  Score=91.42  Aligned_cols=114  Identities=18%  Similarity=0.137  Sum_probs=86.9

Q ss_pred             cccccchhhhccCCcceEEEccCCCCccc-cc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc----
Q 041114          404 EFKMITDGFFQFMPLLKVLNMSRETNIKE-LL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV----  477 (680)
Q Consensus       404 ~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~-lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~----  477 (680)
                      .+..+|.++   ..++++|+|++ +.|.. ++ ..++.+++|++|+|++| .+..+|.+.+..+++|++|+++++.    
T Consensus        19 ~L~~iP~~l---p~~l~~L~Ls~-N~i~~~~~~~~f~~l~~L~~L~L~~N-~i~~~~~~~~~~~~~L~~L~Ls~N~l~~l   93 (192)
T d1w8aa_          19 GLKEIPRDI---PLHTTELLLND-NELGRISSDGLFGRLPHLVKLELKRN-QLTGIEPNAFEGASHIQELQLGENKIKEI   93 (192)
T ss_dssp             CCSSCCSCC---CTTCSEEECCS-CCCCSBCCSCSGGGCTTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSCCCCEE
T ss_pred             CcCccCCCC---CCCCCEEEeCC-CCCcccccccccCCCceEeeeecccc-ccccccccccccccccceeeecccccccc
Confidence            344666653   26799999999 48864 44 56799999999999999 7888887778999999999999986    


Q ss_pred             chhhhcCCCCCceeEEEeccchhhhhhhhchhhhccccEEEEeccCC
Q 041114          478 LAKELLGLKHLEELDFTLRCVHSLQILVSSNKLQSCTRALVLIRFKD  524 (680)
Q Consensus       478 ~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~l~~~L~~L~l~~~~~  524 (680)
                      ....+.+|++|+.|++..+....+.  +.....+.+|+.|+++++.-
T Consensus        94 ~~~~F~~l~~L~~L~L~~N~l~~i~--~~~f~~l~~L~~l~L~~N~~  138 (192)
T d1w8aa_          94 SNKMFLGLHQLKTLNLYDNQISCVM--PGSFEHLNSLTSLNLASNPF  138 (192)
T ss_dssp             CSSSSTTCTTCCEEECCSSCCCEEC--TTSSTTCTTCCEEECTTCCB
T ss_pred             CHHHHhCCCcccccccCCccccccC--HHHhcCCccccccccccccc
Confidence            2345788999999999866554432  12223355899999988763

>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=98.25  E-value=1.1e-06  Score=77.61  Aligned_cols=68  Identities=15%  Similarity=0.186  Sum_probs=45.5

Q ss_pred             cccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCC
Q 041114          406 KMITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGT  476 (680)
Q Consensus       406 ~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~  476 (680)
                      +.++...|..+++|+.|+|++ +.|..+| ..+..+++|++|+|++| .++.+|.+++ ...+|++|+++++
T Consensus        45 ~~i~~~~f~~l~~L~~L~Ls~-N~l~~i~~~~f~~l~~L~~L~Ls~N-~l~~l~~~~~-~~~~l~~L~L~~N  113 (156)
T d2ifga3          45 QHLELRDLRGLGELRNLTIVK-SGLRFVAPDAFHFTPRLSRLNLSFN-ALESLSWKTV-QGLSLQELVLSGN  113 (156)
T ss_dssp             CEECGGGSCSCCCCSEEECCS-SCCCEECTTGGGSCSCCCEEECCSS-CCSCCCSTTT-CSCCCCEEECCSS
T ss_pred             cccCchhhccccccCcceeec-cccCCcccccccccccccceeccCC-CCcccChhhh-ccccccccccCCC
Confidence            355555577777777777777 4777775 44677777777777777 6777777633 3336777777765

>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=98.22  E-value=1.2e-06  Score=77.45  Aligned_cols=69  Identities=14%  Similarity=0.114  Sum_probs=59.5

Q ss_pred             ccchhhhccCCcceEEEccCCCCccccc-hhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc
Q 041114          407 MITDGFFQFMPLLKVLNMSRETNIKELL-GELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       407 ~lp~~~~~~l~~Lr~LdL~~~~~i~~lP-~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      .+|.. +..+++|+.|++++++.++.+| ..+..|++|+.|++++| .|+.+|++.+..+++|++|+++++.
T Consensus        22 ~~p~~-l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N-~l~~i~~~~f~~l~~L~~L~Ls~N~   91 (156)
T d2ifga3          22 DSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS-GLRFVAPDAFHFTPRLSRLNLSFNA   91 (156)
T ss_dssp             TTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSS-CCCEECTTGGGSCSCCCEEECCSSC
T ss_pred             cCccc-ccCccccCeeecCCCccccccCchhhccccccCcceeecc-ccCCcccccccccccccceeccCCC
Confidence            45555 6778999999998766799998 55899999999999999 7999987778999999999999875

>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=98.01  E-value=1.6e-06  Score=87.60  Aligned_cols=206  Identities=15%  Similarity=0.096  Sum_probs=105.6

Q ss_pred             cceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCcc-----------ccchhhhccCCCCE
Q 041114          377 ETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIK-----------ELLGELKALVNLKC  445 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~-----------~lP~~i~~L~~Lr~  445 (680)
                      .+++.|.+.+|.+..-           ....+... +...++|+.|+++++ ...           .+...+...++|+.
T Consensus        31 ~~l~~L~Ls~n~i~~~-----------~~~~l~~~-l~~~~~L~~l~l~~~-~~~~~~~~~~~~~~~l~~~l~~~~~L~~   97 (344)
T d2ca6a1          31 DSVKEIVLSGNTIGTE-----------AARWLSEN-IASKKDLEIAEFSDI-FTGRVKDEIPEALRLLLQALLKCPKLHT   97 (344)
T ss_dssp             SCCCEEECTTSEECHH-----------HHHHHHHT-TTTCTTCCEEECCSC-CTTSCGGGSHHHHHHHHHHHTTCTTCCE
T ss_pred             CCCCEEECcCCcCCHH-----------HHHHHHHH-HHhCCCCCEEECCCC-cccccccccchHHHHHHHHHhhCCCccc
Confidence            5677788777765421           11122222 556677788887764 211           12233455677888


Q ss_pred             EeccCCCCccc-----cchhhhcCCCCCcEeeccCCcch-----------hh------hcCCCCCceeEEEeccch--hh
Q 041114          446 VNLEWARDLVT-----IPLEVISNFSKLRVLRLFGTVLA-----------KE------LLGLKHLEELDFTLRCVH--SL  501 (680)
Q Consensus       446 L~L~~~~~l~~-----lP~~~i~~L~~L~~L~l~~~~~~-----------~~------l~~L~~L~~L~i~~~~~~--~l  501 (680)
                      |+|++| .+..     +... +...++|++|++++|..-           ..      ....+.|+.+.+..+...  ..
T Consensus        98 L~L~~n-~i~~~~~~~l~~~-l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~  175 (344)
T d2ca6a1          98 VRLSDN-AFGPTAQEPLIDF-LSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSM  175 (344)
T ss_dssp             EECCSC-CCCTTTHHHHHHH-HHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGH
T ss_pred             cccccc-ccccccccchhhh-hcccccchheecccccccccccccccccccccccccccccCcccceeeccccccccccc
Confidence            888777 4543     3332 456677888888776411           01      123455666665533221  22


Q ss_pred             hhhhhchhhhccccEEEEeccCCCCcc-----cccccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccE
Q 041114          502 QILVSSNKLQSCTRALVLIRFKDSKSI-----DVIALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHK  576 (680)
Q Consensus       502 ~~l~~~~~l~~~L~~L~l~~~~~~~~~-----~~~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~  576 (680)
                      ..+........+|+.|+++++. +...     ....+...++|+.|+++++. +.......+.      ..+...++|++
T Consensus       176 ~~l~~~l~~~~~L~~L~L~~n~-i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~-i~~~g~~~L~------~~l~~~~~L~~  247 (344)
T d2ca6a1         176 KEWAKTFQSHRLLHTVKMVQNG-IRPEGIEHLLLEGLAYCQELKVLDLQDNT-FTHLGSSALA------IALKSWPNLRE  247 (344)
T ss_dssp             HHHHHHHHHCTTCCEEECCSSC-CCHHHHHHHHHTTGGGCTTCCEEECCSSC-CHHHHHHHHH------HHGGGCTTCCE
T ss_pred             ccccchhhhhhhhccccccccc-ccccccccchhhhhcchhhhccccccccc-cccccccccc------ccccccccchh
Confidence            3333333334567777777664 2211     11245667777777777643 2211100000      00134577777


Q ss_pred             EeeeCCCCCCCCC------Cc--CCCCCCCEEeEecCc
Q 041114          577 VTITFCPKLKGLT------FL--VFAPNLKCLSLFDCT  606 (680)
Q Consensus       577 L~L~~c~~l~~l~------~l--~~l~~L~~L~l~~c~  606 (680)
                      |+|++|. ++.-.      .+  ...+.|++|+++++.
T Consensus       248 L~Ls~n~-i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~  284 (344)
T d2ca6a1         248 LGLNDCL-LSARGAAAVVDAFSKLENIGLQTLRLQYNE  284 (344)
T ss_dssp             EECTTCC-CCHHHHHHHHHHHHTCSSCCCCEEECCSSC
T ss_pred             hhhhcCc-cCchhhHHHHHHhhhccCCCCCEEECCCCc
Confidence            7777765 22110      01  124667777777754

>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=97.82  E-value=6.6e-06  Score=82.87  Aligned_cols=214  Identities=15%  Similarity=0.041  Sum_probs=131.3

Q ss_pred             ccchhhhccCCcceEEEccCCCCcc-----ccchhhhccCCCCEEeccCCCCcccc-----------chhhhcCCCCCcE
Q 041114          407 MITDGFFQFMPLLKVLNMSRETNIK-----ELLGELKALVNLKCVNLEWARDLVTI-----------PLEVISNFSKLRV  470 (680)
Q Consensus       407 ~lp~~~~~~l~~Lr~LdL~~~~~i~-----~lP~~i~~L~~Lr~L~L~~~~~l~~l-----------P~~~i~~L~~L~~  470 (680)
                      .+... +.....|+.|+|++| .+.     .+-..+...++|+.|+++++ .....           ... +...++|++
T Consensus        22 ~l~~~-L~~~~~l~~L~Ls~n-~i~~~~~~~l~~~l~~~~~L~~l~l~~~-~~~~~~~~~~~~~~~l~~~-l~~~~~L~~   97 (344)
T d2ca6a1          22 SVFAV-LLEDDSVKEIVLSGN-TIGTEAARWLSENIASKKDLEIAEFSDI-FTGRVKDEIPEALRLLLQA-LLKCPKLHT   97 (344)
T ss_dssp             TTSHH-HHHCSCCCEEECTTS-EECHHHHHHHHHTTTTCTTCCEEECCSC-CTTSCGGGSHHHHHHHHHH-HTTCTTCCE
T ss_pred             HHHHH-HhhCCCCCEEECcCC-cCCHHHHHHHHHHHHhCCCCCEEECCCC-cccccccccchHHHHHHHH-HhhCCCccc
Confidence            44444 677899999999995 553     34455678899999999987 33322           222 567889999


Q ss_pred             eeccCCc--------chhhhcCCCCCceeEEEeccchh--hhh----hhh-----chhhhccccEEEEeccCCCCcccc-
Q 041114          471 LRLFGTV--------LAKELLGLKHLEELDFTLRCVHS--LQI----LVS-----SNKLQSCTRALVLIRFKDSKSIDV-  530 (680)
Q Consensus       471 L~l~~~~--------~~~~l~~L~~L~~L~i~~~~~~~--l~~----l~~-----~~~l~~~L~~L~l~~~~~~~~~~~-  530 (680)
                      |++++|.        ....+...++|+.|++..+....  ...    +..     .......|+.+.++++. +..... 
T Consensus        98 L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~-i~~~~~~  176 (344)
T d2ca6a1          98 VRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNR-LENGSMK  176 (344)
T ss_dssp             EECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSC-CTGGGHH
T ss_pred             ccccccccccccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeeccccc-ccccccc
Confidence            9999875        22344567889999887544321  111    111     11223478888887764 222111 


Q ss_pred             ---cccccCCCCCEEEEeccCCcceeecccCCCCccCCCCCCCCCCccEEeeeCCCCCCC-----C-CCcCCCCCCCEEe
Q 041114          531 ---IALARLKHLSTLHFSKCEELEEWKTDYTSGTVLKSPQPFVFCSLHKVTITFCPKLKG-----L-TFLVFAPNLKCLS  601 (680)
Q Consensus       531 ---~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~l~~~~~~~l~~L~~L~L~~c~~l~~-----l-~~l~~l~~L~~L~  601 (680)
                         ..+...++|++|++++|..-..-....+.      ......++|+.|+|++|. ++.     + ..+..+++|++|+
T Consensus       177 ~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~------~~l~~~~~L~~L~Ls~N~-i~~~g~~~L~~~l~~~~~L~~L~  249 (344)
T d2ca6a1         177 EWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLL------EGLAYCQELKVLDLQDNT-FTHLGSSALAIALKSWPNLRELG  249 (344)
T ss_dssp             HHHHHHHHCTTCCEEECCSSCCCHHHHHHHHH------TTGGGCTTCCEEECCSSC-CHHHHHHHHHHHGGGCTTCCEEE
T ss_pred             cccchhhhhhhhcccccccccccccccccchh------hhhcchhhhccccccccc-ccccccccccccccccccchhhh
Confidence               14567889999999886432110000010      111467899999999875 221     1 2356789999999


Q ss_pred             EecCcch----hHhhhcCCCCCCCcccccCccccc
Q 041114          602 LFDCTAM----EEIISAGKFVHTPEMMGNTMDPCA  632 (680)
Q Consensus       602 l~~c~~l----~~i~~~~~~~~lp~L~~L~i~~C~  632 (680)
                      +++|.--    ..+.........++|+.|+++++.
T Consensus       250 Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~  284 (344)
T d2ca6a1         250 LNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNE  284 (344)
T ss_dssp             CTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSC
T ss_pred             hhcCccCchhhHHHHHHhhhccCCCCCEEECCCCc
Confidence            9998621    112111101235778999988764

>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=97.11  E-value=9e-05  Score=65.34  Aligned_cols=66  Identities=26%  Similarity=0.139  Sum_probs=51.7

Q ss_pred             hhhhccCCcceEEEccCCCCcccc---chhhhccCCCCEEeccCCCCccccchhhhcCCCCCcEeeccCCc
Q 041114          410 DGFFQFMPLLKVLNMSRETNIKEL---LGELKALVNLKCVNLEWARDLVTIPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       410 ~~~~~~l~~Lr~LdL~~~~~i~~l---P~~i~~L~~Lr~L~L~~~~~l~~lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      ...+..++.|++|+|++| .|+.+   +..+..+++|++|+|++| .++.++.-...+..+|+.|++.++.
T Consensus        58 ~~~~~~~~~L~~L~Ls~N-~i~~l~~~~~~~~~l~~L~~L~Ls~N-~i~~l~~l~~l~~~~L~~L~L~~Np  126 (162)
T d1koha1          58 RIIEENIPELLSLNLSNN-RLYRLDDMSSIVQKAPNLKILNLSGN-ELKSERELDKIKGLKLEELWLDGNS  126 (162)
T ss_dssp             HHHHHHCTTCCCCCCCSS-CCCCCSGGGTHHHHSTTCCCCCCTTS-CCCCGGGHHHHTTCCCSSCCCTTST
T ss_pred             HHHHHhCCCCCEeeCCCc-cccCCchhHHHHhhCCcccccccccC-ccccchhhhhhhccccceeecCCCC
Confidence            344678999999999995 77765   456789999999999999 7999886212344578999999875

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.17  E-value=0.0014  Score=67.39  Aligned_cols=62  Identities=18%  Similarity=0.320  Sum_probs=33.4

Q ss_pred             hccCCcceEEEccCCCCcccc-----chhhh-ccCCCCEEeccCCCCccc-----cchhhhcCCCCCcEeeccCCc
Q 041114          413 FQFMPLLKVLNMSRETNIKEL-----LGELK-ALVNLKCVNLEWARDLVT-----IPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~l-----P~~i~-~L~~Lr~L~L~~~~~l~~-----lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      +..+++|+.|||++| .|...     ...+. ...+|++|+|++| .++.     ++.. +..+++|++|++++|.
T Consensus        51 L~~~~~L~~LdLs~N-~i~~~~~~~l~~~l~~~~~~L~~L~L~~n-~it~~~~~~l~~~-l~~~~~L~~L~L~~N~  123 (460)
T d1z7xw1          51 LRVNPALAELNLRSN-ELGDVGVHCVLQGLQTPSCKIQKLSLQNC-CLTGAGCGVLSST-LRTLPTLQELHLSDNL  123 (460)
T ss_dssp             HHTCTTCCEEECTTC-CCHHHHHHHHHHTTCSTTCCCCEEECTTS-CCBGGGHHHHHHH-TTSCTTCCEEECCSSB
T ss_pred             HhcCCCCCEEECcCC-cCChHHHHHHHHHHhcCCCCCCEEECCCC-Cccccccccccch-hhcccccccccccccc
Confidence            455666777777663 45321     11111 1235677777666 4543     3332 5566667777766654

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.89  E-value=0.0013  Score=57.42  Aligned_cols=80  Identities=24%  Similarity=0.236  Sum_probs=57.0

Q ss_pred             cceEEEEeecccccccccCCCCccccccccccchhhhccCCcceEEEccCCCCccccch-hhhccCCCCEEeccCCCCcc
Q 041114          377 ETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLLKVLNMSRETNIKELLG-ELKALVNLKCVNLEWARDLV  455 (680)
Q Consensus       377 ~~~r~lsl~~~~~~~l~~~~~~~~L~~~l~~lp~~~~~~l~~Lr~LdL~~~~~i~~lP~-~i~~L~~Lr~L~L~~~~~l~  455 (680)
                      ++++.|.+++|.+..++             .++. .+..+++|++|||++ +.|..+++ ......+|+.|++++| .+.
T Consensus        65 ~~L~~L~Ls~N~i~~l~-------------~~~~-~~~~l~~L~~L~Ls~-N~i~~l~~l~~l~~~~L~~L~L~~N-pl~  128 (162)
T d1koha1          65 PELLSLNLSNNRLYRLD-------------DMSS-IVQKAPNLKILNLSG-NELKSERELDKIKGLKLEELWLDGN-SLS  128 (162)
T ss_dssp             TTCCCCCCCSSCCCCCS-------------GGGT-HHHHSTTCCCCCCTT-SCCCCGGGHHHHTTCCCSSCCCTTS-TTS
T ss_pred             CCCCEeeCCCccccCCc-------------hhHH-HHhhCCccccccccc-CccccchhhhhhhccccceeecCCC-CcC
Confidence            57888888888887542             2233 367899999999999 59988874 2334457999999999 465


Q ss_pred             ccch-------hhhcCCCCCcEee
Q 041114          456 TIPL-------EVISNFSKLRVLR  472 (680)
Q Consensus       456 ~lP~-------~~i~~L~~L~~L~  472 (680)
                      ....       .++..+++|+.||
T Consensus       129 ~~~~~~~~y~~~i~~~~P~L~~LD  152 (162)
T d1koha1         129 DTFRDQSTYISAIRERFPKLLRLD  152 (162)
T ss_dssp             SSSSSHHHHHHHHHTTSTTCCEET
T ss_pred             cCcccchhHHHHHHHHCCCCCEEC
Confidence            4332       1356677888776

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.62  E-value=0.005  Score=62.99  Aligned_cols=83  Identities=18%  Similarity=0.246  Sum_probs=60.7

Q ss_pred             hccCCcceEEEccCCCCcc-----ccchhhhccCCCCEEeccCCCCccc-----cchhhhc-CCCCCcEeeccCCcc---
Q 041114          413 FQFMPLLKVLNMSRETNIK-----ELLGELKALVNLKCVNLEWARDLVT-----IPLEVIS-NFSKLRVLRLFGTVL---  478 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~-----~lP~~i~~L~~Lr~L~L~~~~~l~~-----lP~~~i~-~L~~L~~L~l~~~~~---  478 (680)
                      +..+++|++|+|++| .+.     .++..+..+++|++|+|++| .++.     +... +. .-.+|++|++++|..   
T Consensus        23 ~~~l~~l~~L~L~~~-~i~~~~~~~l~~~L~~~~~L~~LdLs~N-~i~~~~~~~l~~~-l~~~~~~L~~L~L~~n~it~~   99 (460)
T d1z7xw1          23 LPLLQQCQVVRLDDC-GLTEARCKDISSALRVNPALAELNLRSN-ELGDVGVHCVLQG-LQTPSCKIQKLSLQNCCLTGA   99 (460)
T ss_dssp             HHHHTTCSEEEEESS-CCCHHHHHHHHHHHHTCTTCCEEECTTC-CCHHHHHHHHHHT-TCSTTCCCCEEECTTSCCBGG
T ss_pred             HHhCCCCCEEEeCCC-CCCHHHHHHHHHHHhcCCCCCEEECcCC-cCChHHHHHHHHH-HhcCCCCCCEEECCCCCcccc
Confidence            566899999999997 554     45666788999999999998 6753     2222 22 235799999998862   


Q ss_pred             -----hhhhcCCCCCceeEEEeccc
Q 041114          479 -----AKELLGLKHLEELDFTLRCV  498 (680)
Q Consensus       479 -----~~~l~~L~~L~~L~i~~~~~  498 (680)
                           ...+..+++|+.|++..+..
T Consensus       100 ~~~~l~~~l~~~~~L~~L~L~~N~i  124 (460)
T d1z7xw1         100 GCGVLSSTLRTLPTLQELHLSDNLL  124 (460)
T ss_dssp             GHHHHHHHTTSCTTCCEEECCSSBC
T ss_pred             ccccccchhhccccccccccccccc
Confidence                 23467788999999875543

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=95.38  E-value=0.015  Score=50.73  Aligned_cols=62  Identities=16%  Similarity=0.155  Sum_probs=39.6

Q ss_pred             ccCCcceEEEccCCCCccc-----cchhhhccCCCCEEeccCCCCccc-----cchhhhcCCCCCcEeeccCCc
Q 041114          414 QFMPLLKVLNMSRETNIKE-----LLGELKALVNLKCVNLEWARDLVT-----IPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       414 ~~l~~Lr~LdL~~~~~i~~-----lP~~i~~L~~Lr~L~L~~~~~l~~-----lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      .+.+.|+.|+|+++..+..     +-..+...++|++|+|++| .+..     +.. .+..-++|++|++++|.
T Consensus        12 ~n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n-~l~~~~~~~la~-~L~~n~~L~~L~L~~n~   83 (167)
T d1pgva_          12 EDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANT-AISDSEARGLIE-LIETSPSLRVLNVESNF   83 (167)
T ss_dssp             TTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTS-CCBHHHHTTHHH-HHHHCSSCCEEECCSSB
T ss_pred             hCCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeecccc-ccchhHHHHHhh-hhhhcccccceeeehhh
Confidence            4567888888887434432     3345666777888888888 5652     222 24455677888887764

>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=95.17  E-value=0.017  Score=50.25  Aligned_cols=63  Identities=16%  Similarity=0.096  Sum_probs=42.4

Q ss_pred             hccCCcceEEEccCCCCcc-----ccchhhhccCCCCEEeccCCCCccc-----cchhhhcCCCCCcEeeccCCc
Q 041114          413 FQFMPLLKVLNMSRETNIK-----ELLGELKALVNLKCVNLEWARDLVT-----IPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~-----~lP~~i~~L~~Lr~L~L~~~~~l~~-----lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      ..+.+.|+.|+|+++..+.     .+-..+...++|+.|++++| .+..     +-. .+...++|+.+++++|.
T Consensus        13 ~~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n-~l~~~~~~~L~~-~l~~~~~l~~l~l~~~~   85 (166)
T d1io0a_          13 QNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGT-RSNDPVAFALAE-MLKVNNTLKSLNVESNF   85 (166)
T ss_dssp             HTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTS-CCCHHHHHHHHH-HHHHCSSCCEEECCSSC
T ss_pred             HhcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCC-cccHHHHHHHHH-HHhhcccchhhhhcccc
Confidence            4567888899998744443     23345667888999999988 5653     222 25566788888887764

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=91.61  E-value=0.15  Score=43.93  Aligned_cols=38  Identities=18%  Similarity=0.163  Sum_probs=26.1

Q ss_pred             ccCCCCEEeccCCCCccc-----cchhhhcCCCCCcEeeccCCc
Q 041114          439 ALVNLKCVNLEWARDLVT-----IPLEVISNFSKLRVLRLFGTV  477 (680)
Q Consensus       439 ~L~~Lr~L~L~~~~~l~~-----lP~~~i~~L~~L~~L~l~~~~  477 (680)
                      +.++|+.|+|+++..+..     +-.. +..-++|++|++++|.
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~~-L~~n~~L~~L~Ls~n~   55 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEA-ACNSKHIEKFSLANTA   55 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHH-HTTCSCCCEEECTTSC
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHHH-HhhCCccceeeccccc
Confidence            558899999987533432     2222 5677788999988875

>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=87.01  E-value=0.27  Score=42.06  Aligned_cols=81  Identities=17%  Similarity=0.167  Sum_probs=53.7

Q ss_pred             hccCCcceEEEccCCCCccc-----cchhhhccCCCCEEeccCCCCccc-----cchhhhcCCCCCcEeeccCCc-----
Q 041114          413 FQFMPLLKVLNMSRETNIKE-----LLGELKALVNLKCVNLEWARDLVT-----IPLEVISNFSKLRVLRLFGTV-----  477 (680)
Q Consensus       413 ~~~l~~Lr~LdL~~~~~i~~-----lP~~i~~L~~Lr~L~L~~~~~l~~-----lP~~~i~~L~~L~~L~l~~~~-----  477 (680)
                      +...++|+.|+|++| .+..     +-..+...+.|+.+++++| .+..     +-.. +...++|+.+++..+.     
T Consensus        42 l~~n~~L~~L~Ls~n-~l~~~~~~~L~~~l~~~~~l~~l~l~~~-~~~~~g~~~l~~~-l~~~~~L~~l~L~l~~n~i~~  118 (166)
T d1io0a_          42 LKTNTYVKKFSIVGT-RSNDPVAFALAEMLKVNNTLKSLNVESN-FISGSGILALVEA-LQSNTSLIELRIDNQSQPLGN  118 (166)
T ss_dssp             HTTCCSCCEEECTTS-CCCHHHHHHHHHHHHHCSSCCEEECCSS-CCCHHHHHHHHHG-GGGCSSCCEEECCCCSSCCCH
T ss_pred             HhcCCccCeeeccCC-cccHHHHHHHHHHHhhcccchhhhhccc-cccchhHHHHHHH-HHhCccccEEeeccCCCcCcH
Confidence            567899999999996 5532     3345678899999999998 5542     3333 6677888887665332     


Q ss_pred             -----chhhhcCCCCCceeEEEec
Q 041114          478 -----LAKELLGLKHLEELDFTLR  496 (680)
Q Consensus       478 -----~~~~l~~L~~L~~L~i~~~  496 (680)
                           ....+...+.|+.|++.++
T Consensus       119 ~~~~~La~~L~~n~~L~~L~l~~~  142 (166)
T d1io0a_         119 NVEMEIANMLEKNTTLLKFGYHFT  142 (166)
T ss_dssp             HHHHHHHHHHHHCSSCCEEECCCS
T ss_pred             HHHHHHHHHHHhCCCcCEEeCcCC
Confidence                 1223345566666666543