Citrus Sinensis ID: 038110

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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-------
Protein Sequence
VVKCLAPPTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEKLLDSGNNAIVEAEKFVGDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGRFDRISYRPLPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILKEEEAWSGEFKWVAKECAGLPVSIVTVSRALRNKSLFEWKDALQQLRRPISTNFKDELKQIFLLIGYTYVAFIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDDENISISIASREQNVFTATDELVNGWEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYGGVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGPQFECVK
Secondary Structure (PSIPRED)
ccccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEcccccccccccccccccccccccHHHHHHHHHHHHHHHccccEEEccccccccHHHHHHHHHHHHHcccccccEEEEEEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHcccEEEEEEcccccccccccccccccccccccEEEEEEccHHHHHHcccccccEEcccccHHHcHHHHHHHHHHHHcccccHHHHHHHHHccccHHHHHHHHHHHHccccccccHHHHHHHHHHcccccccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHcccccccccEEEEHHcccccEEEEcccccccccccccccEEEEEEEEEEcccccccccccccccEEEEEEccccccccccccHHHcccccEEEEEccccccccccHHHHccccccEEcccccccccccccccccccccccccccEEEcccccccccccccccccccccccEEEccEEccccccccccccccEEEEccccccccHHHHHccccccEEEEEcccccccccccHHHcccccccccEEEEEccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHcccccEEccccccccccccccccccccccccccHHHHHHHHHHHHcccccEEEEEEccccccHHHHHHHHHccccHcccccEEEEEEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHccccEEEEEEccccHccHHHHcccccccccccEEEEEEccHHHHHHHHccccccEcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHcccHHHHHHHHHHHHHHcHHHccHHHHHHHHHHHcccccHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHHHHHHccccccccccccHHHHEEEEEcccccccccccccccccEEEEEcccccccccccHHHHHHcccEEEEEccccccHcccccHHHHHHEEEEEcccccHHcccHHHHHHHHHHHHHHccccccccccccHcccHHHHHHHHcHEEEEEEcccccccHHHHHHcccccEEEEEccccHHHHHHHHHHcHHHHHHHHHcccccHcHHHHccccccccccEEEEEccccccccccc
Coil and Loop (DISEMBL)
vvkclappterqFSYLRSYNNNIENLKAEvgklkdgtESIQHAVDEAKRKGEEIEKKVEKLLDSGNNAIVEAEKFVGDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREagrfdrisyrplpedifcdnknrsssssfdpqnltlmsnKDYEAFESRMSTLNDILGalknpdttLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKlgltfheesesGRASLCNQLKKNKTILMILDNIWENLDLLAigiphgndhkGCKILLTARsedtlsrkmdskqnfsVGILKEEEAWSGEFKWVAKECAGLPVSIVTVSRALRNKSLFEWKDALQQLRRPISTNFKDELKQIFLLIGYTYVAFIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCmlldddenisISIASREQNVFTATDElvngwewsdesrvrhcTSIVILDVktyvlpevmecpqlklfsmpaeknsffaipHNLFRSMLQVRVLDLtdmnllslpssigllTNLHTLCLyggvgvvdgvknasleelkhfpnltslelevndantlprgglffekperykiltghrwsrgfyrssnkSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLqiegyrgpqfecvk
Flexible Loop (DISEMBL)
vvkclappterqfsyLRSYNNNIENLKAevgklkdgtESIQHAVDEAKRKGEEIEKKVEKLLDSGNNAIVEAEKFVGDEAAANKQCFKGLCANLKIRiqhsteaprQLEAIVKLREagrfdrisyrplpedifcdnknrsssssfdpqnltLMSNKDYEAFESRMSTLNDILGALKNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTArsedtlsrkmdskqnfsvGILKEEEAWSGEFKWVAKECAGLPVSIVTVSRALRNKSLFEWKDALQQLRRPISTNFKDELKQIFLLIGYTYVAFIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDDENISISIASREQNVFTATDELVngwewsdesrvrhCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYGGVGVVDGVKNASLEELKhfpnltslelevndantlprgglffekperykiltghrwsrgfyrssnksyrsfridldanvrLKDRLVVQLRGIEELslaglldqdIKNFVNELVKVGSsqlkylqiegyrgpqfecvk
Low Complexity Region (SEG)
VVKCLAPPTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEKLLDSGNNAIVEAEKFVGDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGRFDRISYRPLPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILKEEEAWSGEFKWVAKECAGLPVSIVTVSRALRNKSLFEWKDALQQLRRPISTNFKDELKQIFLLIGYTYVAFIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDDENISISIASREQNVFTATDELVNGWEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYGGVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGPQFECVK
Disordered region (IsUnstruct)
**************YLRSY***********************************************NAIVEAEKFVGDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGRFDRISYRPLPEDIFC********************************TLNDILGALKNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFH********SLCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTA***************FSVGILKEEEAWSGEFKWVAKECAGLPVSIVTVSRALRNKSLFEWKDALQQLRRPISTNFKDELKQIFLLIGYTYVAFIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDDENISISIASREQNVFTATDELVNGWEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYGGVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGP******
Disordered Region (DISOPRED)
VVKCLAPPTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEKLLDSGNNAIVEAEKFVGD***ANKQCFKGLCANLKIRIQHSTEAPRQLEAIV***************************************LMSNKDYEAFESRMSTLNDILGALKNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGL**********ASLCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILKEEEAWSGEFKWVAKECAGLPVSIVTVSRALRNKSLFEWKDALQQLRRPIS*NFKDELKQIFLLIGYTYVAFIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDDENISISIASREQNVFTATDELVNGWEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYGGVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGPQFEC**
Disordered Region (DISEMBL)
VVKCLAPPTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEKLLDSGNNAIVEAEKFVGDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGRFDRISYRPLPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILKEEEAWSGEFKWVAKECAGLPVSIVTVSRALRNKSLFEWKDALQQLRRPISTNFKDELKQIFLLIGYTYVAFIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDDENISISIASREQNVFTATDELVNGWEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYGGVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGPQFECVK
Disordered Region (DISPRO)
VVKCLAPPTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEKLLDSGNNAIVEAEKFVGDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGRFDRISYR*******************DPQNLTLMSNKDYEAFESRMSTLNDILGALKNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILKEEEAWSGEFKWVAKECAGLPVSIVTVSRALRNKSLFEWKDALQQLRRPISTNFKDELKQIFLLIGYTYVAFIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDDENISISIASREQNVFTATDELVNGWEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYGGVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGPQFECVK
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
VVKCLAPPTERQFSYxxxxxxxxxxxxxxxxxxxxxTESIQHAxxxxxxxxxxxxxxxxxxxxxGNNAIVEAEKFVGDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGRFDRISYRPLPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILKEEEAWSGEFKWVAKECAGLPVSIVTVSRALRNKSLFEWKDALQQLRRPISTNFKDELKQIFLLIGYTYVAFIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDDENISISIASREQNVFTATDELVNGWEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYGGVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGPQFECVK
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	667	2.2.26 [Sep-21-2011]
O22727	967	Probable disease resistan	yes	no	0.578	0.399	0.248	8e-26
O81825	919	Probable disease resistan	no	no	0.545	0.396	0.277	9e-26
O64789	925	Probable disease resistan	no	no	0.568	0.409	0.250	2e-23
Q940K0	889	Probable disease resistan	no	no	0.532	0.399	0.251	2e-22
Q42484	909	Disease resistance protei	no	no	0.518	0.380	0.245	1e-21
O64973	889	Disease resistance protei	no	no	0.649	0.487	0.241	5e-21
Q9T048	985	Disease resistance protei	no	no	0.566	0.383	0.262	1e-20
P60838	894	Probable disease resistan	no	no	0.736	0.549	0.247	4e-19
Q9C8K0	854	Probable disease resistan	no	no	0.520	0.406	0.236	1e-18
Q8RXS5	888	Probable disease resistan	no	no	0.751	0.564	0.220	2e-17

>sp|O22727|DRL16_ARATH Probable disease resistance protein At1g61190 OS=Arabidopsis thaliana GN=At1g61190 PE=3 SV=1

 Score =  119 bits (298), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 107/431 (24%), Positives = 197/431 (45%), Gaps = 45/431 (10%)

Query: 1   VVKCLAPPTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEK 60
           +++CL         Y+R+   N+  L+ E+  L+     +Q+ V   + + ++  + V+ 
Sbjct: 18  IIRCLCGK-----GYIRNLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQV 72

Query: 61  LLDSGNNAIVEAEKFVG-DEAAANKQCFKGLCANLKIR-IQHSTEAPRQLEAIVKLREAG 118
            LD  N+  +E +  +        K C  GLC+       ++       LE + KL+  G
Sbjct: 73  WLDRVNSIDIECKDLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEG 132

Query: 119 RFDRISYRPLPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNP 178
            FD +S  P   ++    + R +  +   +    M  K +         +  + G     
Sbjct: 133 NFDEVSQPPPRSEV----EERPTQPTIGQEE---MLKKAWNRLMEDGVGIMGLHGMGGVG 185

Query: 179 DTTLAKEVAWK-AENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLT---FHEESESGRA 234
            TTL K++  K AE    FD  ++  VSQ   + K+Q +IA+KL L    +  ++ES +A
Sbjct: 186 KTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKA 245

Query: 235 SLCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQN 294
           +  +++ K K  +++LD+IWE +DL AIGIP+ ++   CK+  T R +    +  D K  
Sbjct: 246 TDIHRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRDQKVCGQMGDHKP- 304

Query: 295 FSVGILKEEEAWS------------------GEFKWVAKECAGLPVSIVTVSRALRNKSL 336
             V  L+ E+AW                   G  + VA++C GLP+++  +   + +K++
Sbjct: 305 MQVKCLEPEDAWELFKNKVGDNTLRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTM 364

Query: 337 F-EWKDALQQLRRPISTNFKDELKQIFLLIGYTYVAFIDDLIWYS-IGLGLFQGIKNMEE 394
             EW+ A+  L R  +  F D   +I  ++ Y+Y +  D+ I    +   LF      E+
Sbjct: 365 VQEWEHAIDVLTRS-AAEFSDMQNKILPILKYSYDSLEDEHIKSCFLYCALFP-----ED 418

Query: 395 ARAGVRTLVNK 405
            +   +TL+NK
Sbjct: 419 DKIDTKTLINK 429

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

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

 Score =  119 bits (298), Expect = 9e-26,   Method: Compositional matrix adjust.
 Identities = 118/425 (27%), Positives = 196/425 (46%), Gaps = 61/425 (14%)

Query: 196 FDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRA-SLCNQLKKNKTILMILDNIW 254
           F   ++  VS+  D++++Q +IA +LG  F  E  +    ++C +L   K  L+ILD++W
Sbjct: 167 FALVIWVTVSKDFDLKRVQMDIAKRLGKRFTREQMNQLGLTICERLIDLKNFLLILDDVW 226

Query: 255 ENLDLLAIGIPHGNDH-KGCKILLTARSEDTLSRKMDSKQNFSVGILKEEEAWS------ 307
             +DL  +GIP   +  K  K++LT+R  + + ++M + +N  V  L+E+EAW       
Sbjct: 227 HPIDLDQLGIPLALERSKDSKVVLTSRRLE-VCQQMMTNENIKVACLQEKEAWELFCHNV 285

Query: 308 GEF----------KWVAKECAGLPVSIVTVSRALRNKSLFE-WKDALQQLRRP------- 349
           GE           K V+ EC GLP++I+T+ R LR K   E WK  L  L+R        
Sbjct: 286 GEVANSDNVKPIAKDVSHECCGLPLAIITIGRTLRGKPQVEVWKHTLNLLKRSAPSIDTE 345

Query: 350 --------ISTNF-KDELKQIFL---LIGYTYVAFIDDLIWYSIGLGLFQGIKNMEEARA 397
                   +S +F +D +K  FL   L    Y   + +LI Y +  GL  G  + E+   
Sbjct: 346 EKIFGTLKLSYDFLQDNMKSCFLFCALFPEDYSIKVSELIMYWVAEGLLDGQHHYEDMMN 405

Query: 398 GVRTLVNKLKASCMLLDDD-----------ENISISIASREQNVFTATDELVNGW-EWSD 445
              TLV +LK SC+L D D            + +I   S +   F +      G  E+  
Sbjct: 406 EGVTLVERLKDSCLLEDGDSCDTVKMHDVVRDFAIWFMSSQGEGFHSLVMAGRGLIEFPQ 465

Query: 446 ESRVRHCTSIVILDVKTYVLP-EVMECPQLKLFSMPAEKNSFFA-IPHNLFRSMLQVRVL 503
           +  V     + ++  K   LP  V+E   ++   +  + NS    +P+   ++   +R+L
Sbjct: 466 DKFVSSVQRVSLMANKLERLPNNVIE--GVETLVLLLQGNSHVKEVPNGFLQAFPNLRIL 523

Query: 504 DLTDMNLLSLPSSIGLLTNLHTLCLYGGVGVVDGVKNASLEELKHFPNLTSLELEVNDAN 563
           DL+ + + +LP S   L +L +L L       +  K  +L  L+    L  L+L  +   
Sbjct: 524 DLSGVRIRTLPDSFSNLHSLRSLVLR------NCKKLRNLPSLESLVKLQFLDLHESAIR 577

Query: 564 TLPRG 568
            LPRG
Sbjct: 578 ELPRG 582

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64789|DRL18_ARATH Probable disease resistance protein At1g61310 OS=Arabidopsis thaliana GN=At1g61310 PE=2 SV=1

 Score =  111 bits (277), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 105/419 (25%), Positives = 191/419 (45%), Gaps = 40/419 (9%)

Query: 14  SYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEKLLDSGNNAIVEAE 73
           SY+R+   N+  L+ E+  L+     +Q+ V   + + ++  + V+  LD  N+  +E +
Sbjct: 27  SYIRTLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECK 86

Query: 74  KFVG-DEAAANKQCFKGLCANLKIR-IQHSTEAPRQLEAIVKLREAGRFDRISYRPLPED 131
             +        K C  GLC        ++  +    LE +  L+  G FD +S  P   +
Sbjct: 87  DLLSVSPVELQKLCLCGLCTKYVCSSYKYGKKVFLLLEEVKILKSEGNFDEVSQPPPRSE 146

Query: 132 IFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPDTTLAKEVAWK-A 190
           +    + R +  +   +    M  K +         +  + G      TTL K++  K A
Sbjct: 147 V----EERPTQPTIGQEE---MLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFA 199

Query: 191 ENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLT---FHEESESGRASLCNQLKKNKTIL 247
           E    FD  ++  VSQ   + K+Q +IA+KL L    +  ++ES +A+  +++ K K  +
Sbjct: 200 EIGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFV 259

Query: 248 MILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILKEEEAWS 307
           ++LD+IWE +DL AIGIP+ ++   CK+  T RS +      D K    V  L+ E+AW 
Sbjct: 260 LMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKP-MQVNCLEPEDAWE 318

Query: 308 ------------------GEFKWVAKECAGLPVSIVTVSRALRNKSLF-EWKDALQQLRR 348
                             G  + VA++C GLP+++  +   + +K++  EW+ A+  L R
Sbjct: 319 LFKNKVGDNTLSSDPVIVGLAREVAQKCRGLPLALNVIGETMASKTMVQEWEYAIDVLTR 378

Query: 349 PISTNFKDELKQIFLLIGYTYVAFIDDLIWYS-IGLGLFQGIKNMEEARAGVRTLVNKL 406
             +  F     +I  ++ Y+Y +  D+ I    +   LF      E+ +    TL++KL
Sbjct: 379 S-AAEFSGMENKILPILKYSYDSLGDEHIKSCFLYCALFP-----EDGQIYTETLIDKL 431

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  108 bits (269), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 98/389 (25%), Positives = 180/389 (46%), Gaps = 34/389 (8%)

Query: 14  SYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEKLLDSGNNAIVEAE 73
           SY+R+   N+  L+ E+  L+     +Q+ V   + + +   + V+  LD  N+  +E +
Sbjct: 25  SYIRTLEKNLRALQREMEDLRAIQHEVQNKVARDEARHQRRLEAVQVWLDRVNSVDIECK 84

Query: 74  KFVG-DEAAANKQCFKGLCANLKIR-IQHSTEAPRQLEAIVKLREAGRFDRISYRPLPED 131
             +        K C  GLC+       ++  +    LE + KL   G FD +S  P   +
Sbjct: 85  DLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNSEGNFDEVSQPPPRSE 144

Query: 132 IFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPDTTLAKEVAWK-A 190
           +    + R +  +   ++   M  K +         +  + G      TTL K++  K A
Sbjct: 145 V----EERPTQPTIGQED---MLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFA 197

Query: 191 ENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLT---FHEESESGRASLCNQLKKNKTIL 247
           E    FD  ++  VS+   I K+Q +IA+KL L    +  ++ES +A+  +++ K K  +
Sbjct: 198 EIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFV 257

Query: 248 MILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILKEEEAWS 307
           ++LD+IWE +DL AIGIP+ ++   CK+  T RS +      D K    V  L+ E+AW 
Sbjct: 258 LMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKP-MQVNCLEPEDAWE 316

Query: 308 ------GE------------FKWVAKECAGLPVSIVTVSRALRNKSLF-EWKDALQQLRR 348
                 G+             + VA++C GLP+++  +   + +K++  EW+ A+     
Sbjct: 317 LFKNKVGDNTLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHAIHVFNT 376

Query: 349 PISTNFKDELKQIFLLIGYTYVAFIDDLI 377
             +  F D   +I  ++ Y+Y +  D+ I
Sbjct: 377 S-AAEFSDMQNKILPILKYSYDSLGDEHI 404

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  105 bits (261), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 101/412 (24%), Positives = 175/412 (42%), Gaps = 66/412 (16%)

Query: 196 FDQAVFAEVSQSHDIRKIQGEIADKLGLTFHE-ESESGRASLCNQLKKNKTILMILDNIW 254
           +D  ++ ++S+      IQ  +  +LGL++ E E+   RA    +  + K  L++LD++W
Sbjct: 206 YDVLIWVQMSREFGECTIQQAVGARLGLSWDEKETGENRALKIYRALRQKRFLLLLDDVW 265

Query: 255 ENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILKEEEAW-------- 306
           E +DL   G+P  +    CK++ T RS   L   M ++    V  L+++ AW        
Sbjct: 266 EEIDLEKTGVPRPDRENKCKVMFTTRS-IALCNNMGAEYKLRVEFLEKKHAWELFCSKVW 324

Query: 307 ------SGEFKWVAK----ECAGLPVSIVTVSRALRNKSL-FEWKDALQQLRRPISTNFK 355
                 S   + +A+    +C GLP++++T+  A+ ++    EW  A + L R     F 
Sbjct: 325 RKDLLESSSIRRLAEIIVSKCGGLPLALITLGGAMAHRETEEEWIHASEVLTR-----FP 379

Query: 356 DELK---QIFLLIGYTYVAF----------------------IDDLIWYSIGLGLFQGIK 390
            E+K    +F L+ ++Y                         I+ L+ Y +G G      
Sbjct: 380 AEMKGMNYVFALLKFSYDNLESDLLRSCFLYCALFPEEHSIEIEQLVEYWVGEGFLTSSH 439

Query: 391 NMEEARAGVRTLVNKLKASCMLLDDDENISISI----------ASREQNVF---TATDEL 437
            +     G   L+  LKA+C+L   DE   + +           + EQ  +      +  
Sbjct: 440 GVNTIYKGY-FLIGDLKAACLLETGDEKTQVKMHNVVRSFALWMASEQGTYKELILVEPS 498

Query: 438 VNGWEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSM 497
           +   E       R    I +LD +   LPE + CP+L    M  + +S   IP   F  M
Sbjct: 499 MGHTEAPKAENWRQALVISLLDNRIQTLPEKLICPKLTTL-MLQQNSSLKKIPTGFFMHM 557

Query: 498 LQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYGGVGVVDGVKNASLEELKHF 549
             +RVLDL+  ++  +P SI  L  L+ L + G    V   +  +L +LKH 
Sbjct: 558 PVLRVLDLSFTSITEIPLSIKYLVELYHLSMSGTKISVLPQELGNLRKLKHL 609

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  103 bits (257), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 123/510 (24%), Positives = 218/510 (42%), Gaps = 77/510 (15%)

Query: 78  DEAAANKQCFKGLCA-NLKIRIQHSTEAPRQLEAIVKLREAGRFDRISYRPLPEDIFCDN 136
           +E    + C  G C+ +LK+  ++       L+ +  L   G FD +S      D+    
Sbjct: 93  NEVELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQGFFDVVSEATPFADV---- 148

Query: 137 KNRSSSSSFDPQNL--TLMSNKDYEAFESRMSTLNDILGALKNPDTTLAKEVAWK-AEND 193
                   F P  +   +M  K +       S +  + G      TTL  ++  K ++ D
Sbjct: 149 ----DEIPFQPTIVGQEIMLEKAWNRLMEDGSGILGLYGMGGVGKTTLLTKINNKFSKID 204

Query: 194 KLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLC----NQLKKNKTILMI 249
             FD  ++  VS+S  +RKIQ +IA+K+GL   E SE     +     N L++ K +L+ 
Sbjct: 205 DRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRRRKFVLL- 263

Query: 250 LDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILKEEEAWS-- 307
           LD+IWE ++L A+G+P+ +   GCK+  T RS D   R M       V  L+ EE+W   
Sbjct: 264 LDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGR-MGVDDPMEVSCLQPEESWDLF 322

Query: 308 ----------------GEFKWVAKECAGLPVSIVTVSRALRNK-SLFEWKDALQQLRRPI 350
                           G  + VA++C GLP+++  +  A+  K ++ EW  A+  L    
Sbjct: 323 QMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLTSS- 381

Query: 351 STNFKDELKQIFLLIGYTY---------------VAFIDDLIWYSIGL---GLFQGIKNM 392
           + +F     +I  ++ Y+Y                 F +D +    GL    + +G  N 
Sbjct: 382 AIDFSGMEDEILHVLKYSYDNLNGELMKSCFLYCSLFPEDYLIDKEGLVDYWISEGFINE 441

Query: 393 EEARA----GVRTLVNKLKASCMLLDDDE---NISISIASREQNVFTATDE--------L 437
           +E R         ++  L  +C+LL+++    N+ +    RE  ++ ++D         +
Sbjct: 442 KEGRERNINQGYEIIGTLVRACLLLEEERNKSNVKMHDVVREMALWISSDLGKQKEKCIV 501

Query: 438 VNGWEWSDESRVRHCTSIVILDVKTYVLPEVM---ECPQLKLFSMPAEKNSFFAIPHNLF 494
             G    +  +V+   ++  + +    + E+    EC  L   ++  +KN    I    F
Sbjct: 502 RAGVGLREVPKVKDWNTVRKISLMNNEIEEIFDSHECAALT--TLFLQKNDVVKISAEFF 559

Query: 495 RSMLQVRVLDLTD-MNLLSLPSSIGLLTNL 523
           R M  + VLDL++  +L  LP  I  L +L
Sbjct: 560 RCMPHLVVLDLSENQSLNELPEEISELASL 589

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

 Score =  102 bits (254), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 117/445 (26%), Positives = 206/445 (46%), Gaps = 67/445 (15%)

Query: 196 FDQAVFAEVSQSHDIRKIQGEIADKLGL-TFHEESESGRAS-LCNQLKKNKTILMILDNI 253
           F   +F  VS+  D R++Q +IA++L + T  EESE   A  +   L K +  L+ILD++
Sbjct: 197 FGLVIFVIVSKEFDPREVQKQIAERLDIDTQMEESEEKLARRIYVGLMKERKFLLILDDV 256

Query: 254 WENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILKEEEAW------S 307
           W+ +DL  +GIP   ++KG K++LT+R  + + R M +  +  V  L EE+AW      +
Sbjct: 257 WKPIDLDLLGIPRTEENKGSKVILTSRFLE-VCRSMKTDLDVRVDCLLEEDAWELFCKNA 315

Query: 308 GEF----------KWVAKECAGLPVSIVTVSRALRNKSLFE-WKDALQQLRR-------- 348
           G+           K V++EC GLP++I+TV  A+R K   + W   L +L +        
Sbjct: 316 GDVVRSDHVRKIAKAVSQECGGLPLAIITVGTAMRGKKNVKLWNHVLSKLSKSVPWIKSI 375

Query: 349 ------PISTNF---KDELKQIFLLIGY---TYVAFIDDLIWYSIGLGLFQGIKNMEEAR 396
                 P+  ++   +D+ K  FLL       Y   + +++ Y +  G  + + + E++ 
Sbjct: 376 EEKIFQPLKLSYDFLEDKAKFCFLLCALFPEDYSIEVTEVVRYWMAEGFMEELGSQEDSM 435

Query: 397 AGVRTLVNKLKASCMLLDDD-----------ENISISIASREQNVFTATDELVNGWEWSD 445
               T V  LK  C+L D D            + +I I S  Q+   +   +++G    D
Sbjct: 436 NEGITTVESLKDYCLLEDGDRRDTVKMHDVVRDFAIWIMSSSQD--DSHSLVMSGTGLQD 493

Query: 446 ESRVRHCTS---IVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFA-IPHNLFRSMLQVR 501
             + +   S   + +++ K   LP+++E   +K   +  + N     +P    ++   +R
Sbjct: 494 IRQDKLAPSLRRVSLMNNKLESLPDLVEEFCVKTSVLLLQGNFLLKEVPIGFLQAFPTLR 553

Query: 502 VLDLTDMNLLSLPS-SIGLLTNLHTLCLYGGVGVVDGVKNASLEELKHFPNLTSLELEVN 560
           +L+L+   + S PS S+  L +LH+L L       D  K   L  L+    L  L+L   
Sbjct: 554 ILNLSGTRIKSFPSCSLLRLFSLHSLFLR------DCFKLVKLPSLETLAKLELLDLCGT 607

Query: 561 DANTLPRGGLFFEKPERYKILTGHR 585
                PRG    E+ +R++ L   R
Sbjct: 608 HILEFPRG---LEELKRFRHLDLSR 629

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 97.1 bits (240), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 145/586 (24%), Positives = 255/586 (43%), Gaps = 95/586 (16%)

Query: 15  YLRSYNNNIENLKAEVGKLKDGTESIQHAVD--EAKRKGEEIEKKVEKLLDSGNNAIVEA 72
           Y+   + N+  +K ++  LK   + ++  VD  E  R+ E +  +V+  L   N + VE 
Sbjct: 28  YICELSKNVVAMKKDMEVLKKKRDDVKRRVDIEEFTRRRERL-SQVQGWLT--NVSTVEN 84

Query: 73  ---EKFVGDEAAANKQCFKGLCA-NLKIRIQHSTEAPRQLEAIVKLREAGRFDRISY-RP 127
              E    ++A   + C  G C+ N+K+   +       L+ I  L   G FD ++   P
Sbjct: 85  KFNELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRVVLMLKEIESLSSQGDFDTVTLATP 144

Query: 128 LPEDIFCDNKNRSSSSSFDPQNLTLMSNKDY-EAFESRMSTLND----ILGALKNPDTTL 182
           +          R       P   T++  +   E   +R++   D    + G      TTL
Sbjct: 145 IA---------RIEEMPIQP---TIVGQETMLERVWTRLTEDGDEIVGLYGMGGVGKTTL 192

Query: 183 AKEVAWK-AENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHE---ESESGRA-SLC 237
              +  K +E    F   ++  VS+S DI +IQG+I  +L L   E    +E+ RA  + 
Sbjct: 193 LTRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIY 252

Query: 238 NQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSV 297
           N L K K +L+ LD+IWE ++L  +G+P+ +   GCK++ T RS D   R M       V
Sbjct: 253 NVLGKQKFVLL-LDDIWEKVNLEVLGVPYPSRQNGCKVVFTTRSRDVCGR-MRVDDPMEV 310

Query: 298 GILKEEEAWS------GE------------FKWVAKECAGLPVSIVTVSRALRNKSLF-E 338
             L+  EAW       GE             + VA +C GLP+++  +   +  K +  E
Sbjct: 311 SCLEPNEAWELFQMKVGENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQE 370

Query: 339 WKDALQQLRRPISTNFKDELKQIFLLIGYTY---------------VAFIDD-------L 376
           W++A+  L    +  F   ++QI  ++ Y+Y                 F +D       L
Sbjct: 371 WRNAIDVL-SSYAAEFPG-MEQILPILKYSYDNLNKEQVKPCFLYCSLFPEDYRMEKERL 428

Query: 377 IWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDD---DENISISIASREQNVFTA 433
           I Y I  G     ++ E A +    ++  L  +C+LL++    E + +    RE  ++ A
Sbjct: 429 IDYWICEGFIDENESRERALSQGYEIIGILVRACLLLEEAINKEQVKMHDVVREMALWIA 488

Query: 434 TDE--------LVNGWEWSDESRVRHCTSI---VILDVKTYVLPEVMECPQLKLFSMPAE 482
           +D         +  G    +  +V++ +S+    +++ +  +L    EC  L+L ++  +
Sbjct: 489 SDLGEHKERCIVQVGVGLREVPKVKNWSSVRRMSLMENEIEILSGSPEC--LELTTLFLQ 546

Query: 483 KN-SFFAIPHNLFRSMLQVRVLDLT-DMNLLSLPSSIGLLTNLHTL 526
           KN S   I    FR +  + VLDL+ + +L  LP+ I  L +L  L
Sbjct: 547 KNDSLLHISDEFFRCIPMLVVLDLSGNSSLRKLPNQISKLVSLRYL 592

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C8K0|DRL5_ARATH Probable disease resistance protein At1g51480 OS=Arabidopsis thaliana GN=At1g51480 PE=2 SV=2

 Score = 95.5 bits (236), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 90/381 (23%), Positives = 173/381 (45%), Gaps = 34/381 (8%)

Query: 14  SYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEKLLDSGNNAIVEAE 73
           +Y+     N+++L   + +LK+G + +   V   + KG +   +V+  +          +
Sbjct: 26  NYIHKMEANLDDLHTTMEELKNGRDDLLRRVSIEEDKGLQQLAQVKGWISRVEIVESRFK 85

Query: 74  KFVGDEAA-ANKQCFKGLCA-NLKIRIQHSTEAPRQLEAIVKLREAGRFDRISYR-PLPE 130
             + D++    + C  G C+ N      +  +  + LE + +L     F+ ++++ P+P+
Sbjct: 86  DLLEDKSTETGRLCLFGFCSENCISSYNYGEKVMKNLEEVKELLSKKHFEVVAHKIPVPK 145

Query: 131 DIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPDTTLAKEVAWK- 189
               + KN  ++       +  M+ K     E R   L+ + G  K   TTL   +  K 
Sbjct: 146 ---VEEKNIHTTVGL--YAMVEMAWKSLMNDEIRTLCLHGMGGVGK---TTLLACINNKF 197

Query: 190 AENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGL--TFHEESESGRASLCNQLKKNKTIL 247
            E +  FD  ++  VS+   +  IQ +I  +L L   +  E+E+ +ASL N   K K  +
Sbjct: 198 VELESEFDVVIWVVVSKDFQLEGIQDQILGRLRLDKEWERETENKKASLINNNLKRKKFV 257

Query: 248 MILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILKEEEAW- 306
           ++LD++W  +DL  IG+P      G KI+ T RS++ +S+ M +     V  L  +EAW 
Sbjct: 258 LLLDDLWSEVDLNKIGVPPPTRENGAKIVFTKRSKE-VSKYMKADMQIKVSCLSPDEAWE 316

Query: 307 -----------------SGEFKWVAKECAGLPVSIVTVSRALRNK-SLFEWKDALQQLRR 348
                                + VA +C GLP++++ +  A+  K ++ EW  A+  L  
Sbjct: 317 LFRITVDDVILSSHEDIPALARIVAAKCHGLPLALIVIGEAMACKETIQEWHHAINVLNS 376

Query: 349 PISTNFKDELKQIFLLIGYTY 369
           P    F    ++I L++ ++Y
Sbjct: 377 PAGHKFPGMEERILLVLKFSY 397

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 91.3 bits (225), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 132/598 (22%), Positives = 245/598 (40%), Gaps = 97/598 (16%)

Query: 1   VVKCLAPPTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEK 60
           V  CL     R   Y+     N+  L+  + +++   E +   +   +R+G +    V+ 
Sbjct: 18  VCSCL----NRNGDYIHGLEENLTALQRALEQIEQRREDLLRKILSEERRGLQRLSVVQG 73

Query: 61  LLDSGNNAIVEAEKFVGDEAA-ANKQCFKGLCA-NLKIRIQHSTEAPRQLEAIVKLREAG 118
            +      +    + V   +    + C  G C+ NL    ++     + +E +  LR  G
Sbjct: 74  WVSKVEAIVPRVNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVMKMIEEVEVLRYQG 133

Query: 119 RFDRISYRPLPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNP 178
            F  ++ R     +  + +      + DP    ++ +      E  +  L  + G     
Sbjct: 134 DFAVVAERVDAARV--EERPTRPMVAMDP----MLESAWNRLMEDEIGILG-LHGMGGVG 186

Query: 179 DTTLAKEVAWKAENDKL------FDQAVFAEVSQSHDIRKIQGEIADKL---GLTFHEES 229
            TTL   +     N++       FD  ++  VS+   I++IQ EI +KL      + +++
Sbjct: 187 KTTLLSHI-----NNRFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQKT 241

Query: 230 ESGRASLCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKM 289
           E  +AS    + K+K  +++LD+IW  +DL  +G+P  +   GCKI+ T R ++   R M
Sbjct: 242 EDIKASNIYNVLKHKRFVLLLDDIWSKVDLTEVGVPFPSRENGCKIVFTTRLKEICGR-M 300

Query: 290 DSKQNFSVGILKEEEAWS------GEF------------KWVAKECAGLPVSIVTVSRAL 331
               +  V  L  ++AW       GE             + VAK+C GLP+++  +   +
Sbjct: 301 GVDSDMEVRCLAPDDAWDLFTKKVGEITLGSHPEIPTVARTVAKKCRGLPLALNVIGETM 360

Query: 332 RNK-SLFEWKDALQQLRR-------------PISTNFKDELKQIFLLIGYTYVAFI---- 373
             K ++ EW+ A+  L               PI     D LK   L + + Y A      
Sbjct: 361 AYKRTVQEWRSAIDVLTSSAAEFSGMEDEILPILKYSYDNLKSEQLKLCFQYCALFPEDH 420

Query: 374 ----DDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDD-ENISISIASREQ 428
               +DL+ Y IG G     +N  +A      ++  L  SC+L++++ E + +    RE 
Sbjct: 421 NIEKNDLVDYWIGEGFID--RNKGKAENQGYEIIGILVRSCLLMEENQETVKMHDVVREM 478

Query: 429 NVFTATD-----------------ELVNGWEWSDESRVRHCTSIVILDVKTYVLPEVMEC 471
            ++ A+D                  +    +W    RV    S++  ++++  + +  E 
Sbjct: 479 ALWIASDFGKQKENFIVQAGLQSRNIPEIEKWKVARRV----SLMFNNIES--IRDAPES 532

Query: 472 PQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLT-DMNLLSLPSSIGLLTNLHTLCL 528
           PQ  L ++   KN    I  + FR M  + VLDL+ + +L  LP+ I    +L  L L
Sbjct: 533 PQ--LITLLLRKNFLGHISSSFFRLMPMLVVLDLSMNRDLRHLPNEISECVSLQYLSL 588

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	667
224111284	1340	cc-nbs-lrr resistance protein [Populus t	0.758	0.377	0.423	1e-110
224143316	1337	cc-nbs-lrr resistance protein [Populus t	0.752	0.375	0.425	1e-108
224111296	1315	cc-nbs-lrr resistance protein [Populus t	0.946	0.479	0.348	1e-106
359488027	1520	PREDICTED: disease resistance protein At	0.775	0.340	0.401	1e-104
224147195	554	cc-nbs resistance protein [Populus trich	0.725	0.873	0.410	1e-102
147865073	1694	hypothetical protein VITISV_021876 [Viti	0.815	0.321	0.374	1e-99
255563252	1603	Disease resistance protein RPS5, putativ	0.793	0.330	0.392	3e-99
302143590	948	unnamed protein product [Vitis vinifera]	0.952	0.669	0.344	1e-97
147777048	1460	hypothetical protein VITISV_009359 [Viti	0.808	0.369	0.376	2e-97
359488288	1340	PREDICTED: LOW QUALITY PROTEIN: probable	0.784	0.390	0.384	5e-97

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

 Score =  405 bits (1041), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 251/592 (42%), Positives = 342/592 (57%), Gaps = 86/592 (14%)

Query: 1   VVKCLAPPTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEK 60
           V + L  P +RQ  Y+   N NI+NLK EV KL D    + H+++EA+R GEEIE  VE 
Sbjct: 11  VAELLVVPIKRQIGYVLDCNTNIQNLKNEVEKLTDAKTRVNHSIEEARRNGEEIEVDVEN 70

Query: 61  LLDSGNNAIVEAEKFVGDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGRF 120
            L S N  I      V DE++  K+CF GLC +LK+R +    A ++L  +V L+E G+F
Sbjct: 71  WLTSVNGVIGGGGGVVVDESS--KKCFMGLCPDLKLRYRLGKAAKKELTVVVNLQEKGKF 128

Query: 121 DRISYRPLPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPD- 179
           DR+SYR  P             S   P        KDYEAFESR S LNDI+ ALK+ D 
Sbjct: 129 DRVSYRAAP-------------SGIGPV-------KDYEAFESRNSVLNDIVDALKDCDV 168

Query: 180 -------------TTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFH 226
                        TTLAK+VA + +  +LFD+ V A VS + DIR+IQGEIAD LGL  +
Sbjct: 169 NMVGVYGMGGVGKTTLAKKVAEQVKEGRLFDKVVLAVVSHTPDIRRIQGEIADGLGLKLN 228

Query: 227 EESESGRA-SLCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTL 285
            E++ GRA  LC  LKK   +L+ILD+IW+ L L  +GIP G+DH+GCKIL+T+R+++ L
Sbjct: 229 AETDKGRADQLCEGLKKVTRVLVILDDIWKELKLEDVGIPSGSDHEGCKILMTSRNKNVL 288

Query: 286 SRKMDSKQNFSVGILKEEEAWSGEFKW----------------VAKECAGLPVSIVTVSR 329
           SR+M + +NF V +L   EAW+   K                 VAK CAGLP+ + TV+R
Sbjct: 289 SREMGANRNFQVQVLPVREAWNFFEKMVGVTVKNPSVQPVAAEVAKRCAGLPILLATVAR 348

Query: 330 ALRNKSLFEWKDALQQLRR------------PISTNFK----DELKQIFLLIG--YTYVA 371
           AL+N+ L+ WKDAL+QL R             +  ++K    DE+K +FLL G   TY +
Sbjct: 349 ALKNEDLYAWKDALKQLTRFDKDEIDNQVYSCLELSYKALRGDEIKSLFLLCGQFLTYDS 408

Query: 372 FIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDD-----------ENIS 420
            I DL+ Y+IGL LF+G   +EEAR  +RTLV++LKASC+LL+ D           ++ +
Sbjct: 409 SISDLLKYAIGLDLFKGRSTLEEARNRLRTLVDELKASCLLLEGDKDGRVKMHDVVQSFA 468

Query: 421 ISIASREQNVFTATDELVNGWEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMP 480
            S+ASR+ +V    DE     EW     ++  T+I +   K   LP ++ECP L  F + 
Sbjct: 469 FSVASRDHHVLIVADEFK---EWPTSDVLQQYTAISLPYRKIPDLPAILECPNLNSFIL- 524

Query: 481 AEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYGGV 532
             K+    IP N FR M +++VLDLT +NL  LPSS+  L NL TLCL G V
Sbjct: 525 LNKDPSLQIPDNFFREMKELKVLDLTRVNLSPLPSSLQFLENLQTLCLDGCV 576

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  399 bits (1025), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 250/588 (42%), Positives = 335/588 (56%), Gaps = 86/588 (14%)

Query: 1   VVKCLAPPTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEK 60
           V + L  P +RQ  Y+   N NI+NLK EV KL      + H+++EA  KGEEIE  VE 
Sbjct: 11  VAELLVVPIKRQIGYVIDCNTNIQNLKNEVEKLTYAKTRVIHSIEEAISKGEEIEVDVEN 70

Query: 61  LLDSGNNAIVEAEKFVGDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGRF 120
            L S +  I      VGDE++  K+CF GLC +LKIR +    A  +L  +V L+E G+F
Sbjct: 71  WLGSVDGVIEGGCGVVGDESS--KKCFMGLCPDLKIRYRLGKAAKEELTVVVDLQEKGKF 128

Query: 121 DRISYRPLPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPD- 179
           DR+SYR  P             S   P        KDYEAFESR S LNDI+ ALK+ D 
Sbjct: 129 DRVSYRAAP-------------SGIGPV-------KDYEAFESRNSVLNDIVDALKDCDV 168

Query: 180 -------------TTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFH 226
                        TTLAK+VA + +  +LFD+ V A VS + DIR+IQGEIAD LGL   
Sbjct: 169 NMVGVYGMGGVGKTTLAKKVAEQVKEGRLFDKVVLALVSPTPDIRRIQGEIADGLGLKLD 228

Query: 227 EESESGRAS-LCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTL 285
            E++ GRAS LC  LKK  T+L+ILD+IW+ L L  +GIP G+DH+GCKIL+T+R+++ L
Sbjct: 229 AETDKGRASQLCRGLKKVTTVLVILDDIWKELKLEDVGIPSGSDHEGCKILMTSRNKNIL 288

Query: 286 SRKMDSKQNFSVGILKEEEAWSGEFKW----------------VAKECAGLPVSIVTVSR 329
           SR+M + +NF + IL   EAW+   K                 VAK CAGLP+ + TV+R
Sbjct: 289 SREMGANRNFQIQILPVREAWNFFEKMVGVTVKNPSVQLVAAEVAKRCAGLPILLATVAR 348

Query: 330 ALRNKSLFEWKDALQQLRR------------PISTNFK----DELKQIFLLIG--YTYVA 371
           AL+N+ L+ WK+AL QL R             +  ++K    DE+K +FLL G   TY A
Sbjct: 349 ALKNEDLYAWKEALTQLTRFDKDDIDKTAYSCLELSYKALRDDEIKSLFLLCGQILTYDA 408

Query: 372 FIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDDEN-----------IS 420
            I DL+ Y+IGL LF+G    EEAR  + TLV++LKASC+LL+ D +            +
Sbjct: 409 LISDLLKYAIGLDLFKGRSTSEEARNRLHTLVDELKASCLLLEGDNDGSVKMHDVVRSFA 468

Query: 421 ISIASREQNVFTATDELVNGWEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMP 480
           IS+A R+ +V    DE     EW     ++  T+I +   K   LP ++ECP L  F + 
Sbjct: 469 ISVALRDHHVLIVADEF---KEWPTNDVLQQYTAISLPFRKIPDLPAILECPNLNSFLLL 525

Query: 481 AEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCL 528
           +   S   IP N FR M +++VLDLT +NL  LPSS+  L NL TLCL
Sbjct: 526 STDPS-LQIPENFFREMKELKVLDLTGVNLSPLPSSLQFLENLQTLCL 572

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  392 bits (1007), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 279/801 (34%), Positives = 407/801 (50%), Gaps = 170/801 (21%)

Query: 1   VVKCLAPPTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEK 60
           V + L  P +RQ  Y+ + N NI+NLK EV KL D    + H+++EA+R GEEIE +V  
Sbjct: 11  VAELLVVPIKRQIGYVLNCNTNIQNLKNEVEKLTDARTRVNHSIEEARRNGEEIEVEVFN 70

Query: 61  LLDSGNNAIVEAEKFVGDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGRF 120
            L S +  I      V DE++  K+CF GLC +LKIR +    A ++L  +V L+E GRF
Sbjct: 71  WLGSVDGVIDGGGGGVADESS--KKCFMGLCPDLKIRYRLGKAAKKELTVVVDLQEKGRF 128

Query: 121 DRISYRPLPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNP-- 178
           DR+SYR  P             S   P        KDYEAFESR S LN I+ ALK+   
Sbjct: 129 DRVSYRAAP-------------SGIGPV-------KDYEAFESRDSVLNAIVDALKDGGV 168

Query: 179 ------------DTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFH 226
                        TTL K+VA + +  +LFD+ V A VS + DIR+IQGEIAD LGL   
Sbjct: 169 NMVGVYGMPGVGKTTLVKKVAEQVKEGRLFDKEVLAVVSHTPDIRRIQGEIADGLGLKLD 228

Query: 227 EESESGRAS-LCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTL 285
            E++ GRAS L  +LKK   +L+ILD+IW+ L L  +GIP G+DH+GCKIL+++R+E  L
Sbjct: 229 AETDKGRASQLYERLKKVTRVLVILDDIWKELKLEDVGIPSGSDHEGCKILMSSRNEYVL 288

Query: 286 SRKMDSKQNFSVGILKEEEAWSGEFKWV----------------AKECAGLPVSIVTVSR 329
           SR+M S +NF + +L   EAW+   K V                A+ CAGLP+ + TV+R
Sbjct: 289 SREMGSNRNFPIQVLPASEAWNLFEKMVGVAVKKHSVRLVAAEVARRCAGLPILLATVAR 348

Query: 330 ALRNKSLFEWKDALQQLRR------------PISTNFK----DELKQIFLLIGY--TYVA 371
           AL+NK L+ WK AL+QL R             +  ++K    DE+K +FLL G   +   
Sbjct: 349 ALKNKDLYAWKKALKQLTRFDKDDIDDQVYLGLELSYKSLRGDEIKSLFLLCGQLRSNNI 408

Query: 372 FIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDDEN-----------IS 420
            I DL+ Y IGL LF+G   +EE R  + TLV++LKASC+LL+ D++            +
Sbjct: 409 LISDLLRYGIGLDLFKGCSTLEETRNSLLTLVDELKASCLLLEGDKDGSVKMHDVVHSFA 468

Query: 421 ISIASREQNVFTATDELVNGWEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMP 480
           IS+A R+ +V T  DE     EW     ++  T+I +   K   LP ++ECP L  F + 
Sbjct: 469 ISVALRDHHVLTVADEF---KEWPANDVLQQYTAISLPFRKIPDLPAILECPNLNSFLL- 524

Query: 481 AEKNSFFAIPHNLFRSMLQVRVLDLTDM-------------------------------- 508
             K+    IP + FR M ++++LDLT++                                
Sbjct: 525 LNKDPSLQIPDSFFREMKELKILDLTEVNLSPLPSSLQFLENLQTLCLDHCVLEDISIIG 584

Query: 509 -------------NLLSLPSSIGLLTNLHTL----C-------------------LYGGV 532
                        N++ LP  IG +T L  L    C                   LY G 
Sbjct: 585 ELNKLKVLSLMSSNIVRLPREIGKVTRLQLLDLSNCERLEVISPNALSSLTRLEDLYMGN 644

Query: 533 GVV--------DGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLF--FEKPERYKILT 582
             V            NA L ELKH  NL++L +++ DA+ +P+  LF  F+  ER++I  
Sbjct: 645 SFVKWETEGSSSQRNNACLSELKHLSNLSTLHMQITDADNMPK-DLFSSFQNLERFRIFI 703

Query: 583 GHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNEL 642
           G  W    +   + + R+ ++ L+  ++L++ +   L+  EEL L  L    +K+ +N+L
Sbjct: 704 GDGWD---WSVKDATSRTLKLKLNTVIQLEEGVNTLLKITEELHLQEL--NGVKSILNDL 758

Query: 643 VKVGSSQLKYLQIEGYRGPQF 663
              G  QL++L ++   G Q+
Sbjct: 759 DGEGFPQLRHLHVQNCPGVQY 779

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  384 bits (986), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 244/607 (40%), Positives = 347/607 (57%), Gaps = 90/607 (14%)

Query: 1   VVKCLAPPTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEK 60
           V + L  P  R F YL +Y +NI++L+ +V KL D    ++ +VDEA R G+EIE  V+K
Sbjct: 12  VAEYLVAPIGRSFGYLFNYRSNIDDLRQQVEKLGDARARLERSVDEAIRNGDEIEADVDK 71

Query: 61  LLDSGNNAIVEAEKFVGDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGRF 120
            L   +  + EA  F   E  AN+ CF G C NLK + Q S EA ++   + +++  G+F
Sbjct: 72  WLLRVSGFMEEAGIFFEVEKKANQSCFNGSCPNLKSQYQLSREAKKRARVVAEIQGDGKF 131

Query: 121 DRISYR-PLPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPD 179
           +R+SYR PLP            S+ F          K +EA ESRM+TL++I+ AL++  
Sbjct: 132 ERVSYRAPLP---------GIGSAPF----------KGHEALESRMTTLDEIMEALRDAH 172

Query: 180 --------------TTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTF 225
                         TTL K+VA +AE +KLFD+ V A +S + +++KIQGE+AD LGL F
Sbjct: 173 VNIIGVWGMAGVGKTTLMKQVAKQAEEEKLFDKVVMAYISSTPELKKIQGELADMLGLKF 232

Query: 226 HEESESGRAS-LCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDT 284
            EESE GRA+ LC +LKK K IL+ILD+IW  LDL  +GIP G+DHKGCK++LT+R++  
Sbjct: 233 EEESEMGRAARLCERLKKVKKILIILDDIWTELDLEKVGIPFGDDHKGCKMVLTSRNKHI 292

Query: 285 LSRKMDSKQNFSVGILKEEEAWSGEFKW----------------VAKECAGLPVSIVTVS 328
           LS +M ++++F V  L+EEEA     K                 VAKECAGLP++IVTV+
Sbjct: 293 LSNEMGTQKDFPVEHLQEEEALILFKKMAGDSIEEPDLQSIAIDVAKECAGLPIAIVTVA 352

Query: 329 RALRNKSLFEWKDALQQLRRPISTNFK-------------------DELKQIFLLIG-YT 368
           +AL+NK L  W+DAL+QL+R I TN K                   DE+K +FLL G  +
Sbjct: 353 KALKNKGLSIWEDALRQLKRSIPTNIKGMDAMVYSTLELSYKHLEGDEVKSLFLLCGLMS 412

Query: 369 YVAFIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDDEN---------- 418
              +IDDL+ Y +GL LFQG   +EEA+  + TLV+ LKAS +LLD   N          
Sbjct: 413 NKIYIDDLLKYGMGLRLFQGTNTLEEAKNRIDTLVDSLKASKLLLDTGHNSFVRMHDVVR 472

Query: 419 -ISISIASREQNVFTA-TDELVNGWEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKL 476
            ++I+I S+   VF+   DELV   EW     ++ CT + +       LP  + CP+L+L
Sbjct: 473 DVAIAIVSKVHRVFSLREDELV---EWPKMDELQTCTKMSLAYNDICELPIELVCPELEL 529

Query: 477 FSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTL----CLYGGV 532
           F      +    IP   F  M +++VLDL++M+  SLPSS+  LTNL TL    C  G +
Sbjct: 530 FLFYHTIDYHLKIPETFFEEMKKLKVLDLSNMHFTSLPSSLRCLTNLRTLSLNWCKLGDI 589

Query: 533 GVVDGVK 539
            ++  +K
Sbjct: 590 SIIVELK 596

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224147195|ref|XP_002336426.1| cc-nbs resistance protein [Populus trichocarpa] gi|222834979|gb|EEE73428.1| cc-nbs resistance protein [Populus trichocarpa]

 Score =  379 bits (972), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 234/570 (41%), Positives = 325/570 (57%), Gaps = 86/570 (15%)

Query: 1   VVKCLAPPTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEK 60
           V + L  P +RQ  Y+   N+NI+NLK EV KL D    + H+++EA+  GEEIE +V  
Sbjct: 11  VAELLVVPIKRQIGYVLDCNSNIQNLKNEVEKLTDAKTRVIHSIEEAQWNGEEIEVEVLN 70

Query: 61  LLDSGNNAIVEAEKFVGDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGRF 120
            L S +  I  A   V DE++  K+CF GLC +LKIR +    A ++L  +V L+  G+F
Sbjct: 71  WLGSVDGVIEGAGGVVADESS--KKCFMGLCPDLKIRYRLGKAAKKELTVVVDLQGKGKF 128

Query: 121 DRISYRPLPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPD- 179
           DR+SYR  P             S   P        KDYEAFESR S LNDI+GALK+ D 
Sbjct: 129 DRVSYRAAP-------------SGIGPV-------KDYEAFESRNSVLNDIVGALKDGDE 168

Query: 180 -------------TTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFH 226
                        TTL K+VA + +  +LF++ V A VSQ+ DIR+IQGEIAD LGL   
Sbjct: 169 NMVGVFGMAGVGKTTLVKKVAEQVKEGRLFNEVVLAVVSQTPDIRRIQGEIADGLGLKLD 228

Query: 227 EESESGRAS-LCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTL 285
            E++ GRAS LC  LKK   +L+ILD+IW+ L L  +GIP G+DH GCKIL+T+R ++ L
Sbjct: 229 AETDKGRASQLCKGLKKVTRVLVILDDIWKELKLEDVGIPSGSDHDGCKILMTSRDKNVL 288

Query: 286 SRKMDSKQNFSVGILKEEEAWSGEFKW----------------VAKECAGLPVSIVTVSR 329
           S +M + +NF + +L E EAW    K                 VAK CAGLP+ +  V+R
Sbjct: 289 SCEMGANKNFQIQVLPESEAWDLFEKTVGVTVKNPSVQPVAAKVAKRCAGLPILLAAVAR 348

Query: 330 ALRNKSLFEWKDALQQLRR------------PISTNFK----DELKQIFLLIG--YTYVA 371
           ALRN+ ++ W DAL+QL R             +  ++K    DE+K +FLL G   TY +
Sbjct: 349 ALRNEEVYAWNDALKQLNRFDKDEIDNQVYLGLELSYKALRGDEIKSLFLLCGQFLTYDS 408

Query: 372 FIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDD-----------ENIS 420
            I DL+ Y+IGL LF+G+  +EEAR  +RTLV+KLKASC+L + D           ++ +
Sbjct: 409 SISDLLKYAIGLDLFKGLSTLEEARDRLRTLVDKLKASCLLQEGDKDERVKMHDVVQSFA 468

Query: 421 ISIASREQNVFTATDELVNGWEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMP 480
           +S+ASR+ +V    DEL    EW     ++  T+I +   K  VLP ++ECP L  F + 
Sbjct: 469 LSVASRDHHVLIVADEL---KEWPTTDVLQQYTAISLPFRKIPVLPAILECPNLNSFIL- 524

Query: 481 AEKNSFFAIPHNLFRSMLQVRVLDLTDMNL 510
             K+    IP N FR   +++VLDLT + L
Sbjct: 525 LNKDPSLQIPDNFFRETKELKVLDLTRIYL 554

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  370 bits (950), Expect = 1e-99,   Method: Compositional matrix adjust.
 Identities = 240/641 (37%), Positives = 356/641 (55%), Gaps = 97/641 (15%)

Query: 1   VVKCLAPPTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEK 60
           V + L  P  RQ  YL +Y  NIE+L  +V KL+D    +QH+VDEA   G  IE  V K
Sbjct: 12  VSEYLVDPAIRQLGYLFNYRANIEDLSQQVEKLRDARARLQHSVDEAIGNGHIIEDDVRK 71

Query: 61  LLDSGNNAIVEAEKFVGDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGRF 120
            +   +  I  A KF+ DE  A K CF GLC NLK R Q S EA ++    V++  AG+F
Sbjct: 72  WMKRADGFIQNACKFLEDEKEARKSCFNGLCPNLKSRYQLSREARKKAGVAVEIHGAGQF 131

Query: 121 DRISYRPLPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPD- 179
           +R+SYR   ++I      R++ S               EA ESRM TLN+++ AL++ + 
Sbjct: 132 ERVSYRAPLQEI------RTAPS---------------EALESRMLTLNEVMEALRDANI 170

Query: 180 -------------TTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFH 226
                        +TL K+VA +AE +KLF + V   V Q+ D + IQ +IADKLG+ F 
Sbjct: 171 NRIGVWGMGGVGKSTLVKQVAEQAEQEKLFRKVVMVPVIQTPDFKGIQQQIADKLGMKFE 230

Query: 227 EESESGRASLCNQ-LKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTL 285
           E SE GRA   +Q +K+  TIL+ILD++W  L+L  +GIP  +DHKGCK++LT+R++  L
Sbjct: 231 EVSEQGRADRLHQRIKQENTILIILDDLWAELELEKVGIPSPDDHKGCKLVLTSRNKQVL 290

Query: 286 SRKMDSKQNFSVGILKEEEAW------------SGEFKW----VAKECAGLPVSIVTVSR 329
           S +M ++++F V  L+E+E W            + E +     VAKECAGLP++IVTV++
Sbjct: 291 SNEMSTQKDFRVQHLQEDETWILFKNTAGDSIENPELQPIAVDVAKECAGLPIAIVTVAK 350

Query: 330 ALRNKSLFEWKDALQQLRRPISTNFK-------------------DELKQIFLLIG-YTY 369
           AL+NK++  WKDALQQL    STN                     DE+K +FLL G ++ 
Sbjct: 351 ALKNKNVSIWKDALQQLNSQTSTNITGMETKVYSSLKLSYEHLEGDEVKSLFLLCGLFSN 410

Query: 370 VAFIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDDEN----------- 418
             +I DL+ Y +GL LFQG   +EEA+  + TLV+ LK+S +LL+   N           
Sbjct: 411 YIYIRDLLKYGMGLRLFQGTNTLEEAKNRIDTLVDNLKSSNLLLETGHNAVVRMHDVVRS 470

Query: 419 ISISIASREQNVFTATDELVNGWEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFS 478
           +++ I+S++ +VFT         +W     ++    +   +   + LPE + CP+LKLF 
Sbjct: 471 VALDISSKDHHVFTLQQTTGRVEKWPRIDELQKVIWVNQDECDIHELPEGLVCPKLKLFI 530

Query: 479 MPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLY----GGVGV 534
              + NS   IP+  F  M Q++VLD T M+L SLPSS+  L NL TL LY    G +G+
Sbjct: 531 CCLKTNSAVKIPNTFFEGMKQLQVLDFTQMHLPSLPSSLQCLANLQTLLLYGCKLGDIGI 590

Query: 535 VDGVK--------NASLEEL-KHFPNLTSLE-LEVNDANTL 565
           +  +K        ++ +E+L +    LT L  L+++D++T+
Sbjct: 591 ITELKKLEILSLIDSDIEQLPREIAQLTHLRLLDLSDSSTI 631

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  369 bits (946), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 245/624 (39%), Positives = 337/624 (54%), Gaps = 95/624 (15%)

Query: 8   PTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEKLLDSGNN 67
           P +R   Y  +Y + +EN K    KL    E +QH+VD A R GEEIE  V++ +   + 
Sbjct: 20  PIKRHLGYAFNYKSQVENFKNWTEKLVSARERLQHSVDYAVRGGEEIENDVKRWIIGVDK 79

Query: 68  AIVEAEKFV-GDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGRFDRISYR 126
           AI EA+K +  D+  A K+CF GLC N+K R     +  +  + I +L+  GRFD +SYR
Sbjct: 80  AIEEADKLIKDDQEEATKRCFIGLCPNVKARYNLCKKMEKYSKVIAELQNKGRFDPVSYR 139

Query: 127 PLPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPD------- 179
                                Q +   S K+  A  SRMS L +++ AL +P+       
Sbjct: 140 ------------------VQLQQIVTSSVKNRGALHSRMSVLKEVMDALADPNVLMVGVC 181

Query: 180 -------TTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESG 232
                  TTLAKEV  +   +KLFD  V A VS+  DIRKIQG IAD LGL F EE+E+G
Sbjct: 182 GMGGVGKTTLAKEVHQQVIEEKLFDIVVMATVSEKPDIRKIQGNIADVLGLKFDEETETG 241

Query: 233 RA-SLCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDS 291
           RA  L  +L   K IL+ILDNIW  L+L  +GIP G DHKGCKILLT+RS D LS  M  
Sbjct: 242 RAYRLRQRLMTEKKILVILDNIWAQLELEEVGIPCGVDHKGCKILLTSRSRDLLSCDMGV 301

Query: 292 KQNFSVGILKEEEAWS-----------GEFKW----VAKECAGLPVSIVTVSRALRNKSL 336
           ++ F + +L+EEEA S           GEF+     V K+CAGLPV IVT++RAL+NK L
Sbjct: 302 QKVFRLEVLQEEEALSLFEMMVGDVKGGEFQSAASEVTKKCAGLPVLIVTIARALKNKDL 361

Query: 337 FEWKDALQQLRRPISTNFKD----------------ELKQIFL---LIGYTYVAFIDDLI 377
           + WKDA++QL R  +   ++                E+K +FL   L+G + +A + DL+
Sbjct: 362 YVWKDAVKQLSRCDNEEIQEKVYSALELSYNHLIGAEVKSLFLLCGLLGKSDIAIL-DLL 420

Query: 378 WYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDD-----------ENISISIASR 426
            YS GLGLF+GI  + +AR  V  L++ LKA+C+LLD D            +++ISIASR
Sbjct: 421 MYSTGLGLFKGIDTLGDARNRVHKLISDLKAACLLLDSDIKGRVKIHDVVRDVAISIASR 480

Query: 427 EQNVFTATDELVNGW---EWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEK 483
            Q++FT      NG    EW ++   + CT I +     + LPEV+ECP+L+LF +  + 
Sbjct: 481 MQHLFTVR----NGALLKEWPNKDVCKSCTRISLPYNDIHGLPEVLECPELELFLLFTQD 536

Query: 484 NSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYGGVGVVDGVKNASL 543
            S   +P   F     +RVL+ T M+  SLP S+G L NL TLCL       D      +
Sbjct: 537 IS-LKVPDLCFELTKNLRVLNFTGMHFSSLPPSLGFLKNLFTLCL-------DWCALRDV 588

Query: 544 EELKHFPNLTSLELEVNDANTLPR 567
             +     LT L  + +D   LPR
Sbjct: 589 AIIGELTGLTILSFKHSDIVELPR 612

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143590|emb|CBI22343.3| unnamed protein product [Vitis vinifera]

 Score =  363 bits (933), Expect = 1e-97,   Method: Compositional matrix adjust.
 Identities = 276/801 (34%), Positives = 395/801 (49%), Gaps = 166/801 (20%)

Query: 1   VVKCLAPPTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEK 60
           V KCL  P +RQ  YL +Y  NIE+L  EV KL+   +  QH+V+EA   G +IE  V K
Sbjct: 12  VSKCLVVPVKRQLGYLFNYRTNIEDLSQEVEKLRHARDGHQHSVNEAIGNGHKIEDYVCK 71

Query: 61  LLDSGNNAIVEAEKFVGDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGRF 120
            L   +  I +A KF+ DE  A K CF GLC NLK R Q S EA ++    V++   G+F
Sbjct: 72  WLTRADGFIQDACKFLEDEKEAQKSCFNGLCPNLKSRYQLSREARKKARVAVQMHGDGQF 131

Query: 121 DRISYRPLPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPD- 179
            R+SYR   ++I      RS+ S               EA  SR+ TL++++ AL++   
Sbjct: 132 VRVSYRAPLQEI------RSAPS---------------EALRSRVLTLDEVMEALRDAKI 170

Query: 180 -------------TTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFH 226
                        TTL K+VA +A  +KLFD+ V A V Q+ D++KIQGE+AD LG+ F 
Sbjct: 171 NKIGVWGLGGVGKTTLVKQVAEQAAQEKLFDKVVTAAVLQTPDLKKIQGELADLLGMKFE 230

Query: 227 EESESGRAS-LCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTL 285
           EESE GRA+ L  ++   KTIL+ILD+IW  LDL  IGIP  + HKGCK++LT+R+E  L
Sbjct: 231 EESEQGRAARLYQRMNNEKTILIILDDIWAKLDLEKIGIPSPDHHKGCKLVLTSRNEHIL 290

Query: 286 SRKMDSKQNFSVGILKEEEAW------SGEFKW---------VAKECAGLPVSIVTVSRA 330
           S +MD++++F V  L+E+E W      +G  +          VAKECAGLP++IVTV+ A
Sbjct: 291 SNEMDTQKDFRVQPLQEDETWILFKNTAGSIENPELQPIAVDVAKECAGLPLAIVTVATA 350

Query: 331 LRN-KSLFEWKDALQQLRRPISTNFKD-------------------ELKQIFLLIGYTYV 370
           L+  KS+  W+DA  QL+   STN                      E+K  FLL G    
Sbjct: 351 LKGEKSVSIWEDARLQLKSQTSTNITGLTSNVYSSLKLSYEHLKGIEVKSFFLLCGLISQ 410

Query: 371 A--FIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDDENISI------- 421
               I DL+ Y +GL LFQG   +EE +  + TLVN LK+S +LL+   N  +       
Sbjct: 411 NDFHIWDLLKYGVGLRLFQGTNTLEEVKNRIDTLVNNLKSSNLLLETGHNAVVRMHDLVR 470

Query: 422 ----SIASREQNVFTA--TDELVNGWEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLK 475
                IAS + +VFT   T   V GW   DE  ++  T + + D   + LPE + CP+L+
Sbjct: 471 STARKIASDQHHVFTLQNTTVRVEGWPRIDE--LQKVTWVSLHDCDIHELPEGLVCPKLE 528

Query: 476 LFS-MPAEKNSFFAIPHNLFRSMLQVRVLDLT---------------------------- 506
           LF       NS   IP+N F  M Q++VL L+                            
Sbjct: 529 LFGCYDVNTNSAVQIPNNFFEEMKQLKVLHLSRMQLPSLPLSLQCLTNLRTLCLDGCKVG 588

Query: 507 -----------------DMNLLSLPSSIGLLTNLHTLCLYGG--VGVV------------ 535
                            D ++  LP  I  LT+L  L L G   + V+            
Sbjct: 589 DIVIIAKLKKLEILSLMDSDMEQLPREIAQLTHLRMLDLSGSSKLKVIPSDVISSLSQLE 648

Query: 536 -------------DGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILT 582
                        +G  NA L ELKH  +LTSL++++ DA  LP+  + F+   RY+I  
Sbjct: 649 NLCMANSFTQWEGEGKSNACLAELKHLSHLTSLDIQIPDAKLLPK-DIVFDTLVRYRIFV 707

Query: 583 GHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNEL 642
           G  WS G    +N + +  +   D ++ L D +   L+  E+L L  L      + +++L
Sbjct: 708 GDVWSWGGIFEANNTLKLNK--FDTSLHLVDGISKLLKRTEDLHLRELC--GFTHVLSKL 763

Query: 643 VKVGSSQLKYLQIEGYRGPQF 663
            + G  +LK+L +E     Q+
Sbjct: 764 NREGFLKLKHLNVESSPEIQY 784

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  363 bits (932), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 237/629 (37%), Positives = 337/629 (53%), Gaps = 90/629 (14%)

Query: 1   VVKCLAPPTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEK 60
           V + L  P  RQ  +L +Y  NIE+L  +V KL+D    +QH+VDEA   G  IE  V K
Sbjct: 12  VSEYLVDPAVRQLGHLFNYRANIEHLSLQVEKLRDARARLQHSVDEAIGNGHIIEDDVCK 71

Query: 61  LLDSGNNAIVEAEKFVGDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGRF 120
            +   +     A KF+ DE  A K CF GLC NLK R Q S EA ++    V++    +F
Sbjct: 72  WMKRADEFTQNACKFLEDEKEARKSCFNGLCPNLKSRYQLSREARKKAGVAVQILGDRQF 131

Query: 121 DRISYRPLPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPD- 179
           +++SYR   ++I      RS+ S               EA +SRM TLN+++ AL++ D 
Sbjct: 132 EKVSYRAPLQEI------RSAPS---------------EALQSRMLTLNEVMEALRDADI 170

Query: 180 -------------TTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFH 226
                        +TL K VA +AE ++LF + V A V Q+ D ++IQ +IA+KLG+ F 
Sbjct: 171 NRIGVWGLGGVGKSTLVKRVAEQAEQEELFHKVVTASVFQTPDYKEIQQQIAEKLGMKFE 230

Query: 227 EESESGRASLCNQ-LKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTL 285
           E SE GRA   +Q +K+  TIL+ILD++W  L+L  +GIP  +DHKGCK++LT+R++  L
Sbjct: 231 EVSEQGRAGRLHQRIKQENTILIILDDLWAELELEKVGIPSPDDHKGCKLVLTSRNKQVL 290

Query: 286 SRKMDSKQNFSVGILKEEEAW------------SGEFKW----VAKECAGLPVSIVTVSR 329
           S +M ++++F V  L+E+E W            + E +     VAKECAGLP++IVTV++
Sbjct: 291 SNEMSTQKDFRVQHLQEDETWILFKNTAGDSIENPELQPIAVDVAKECAGLPIAIVTVAK 350

Query: 330 ALRNKSLFEWKDALQQLRRPISTNFK-------------------DELKQIFLLIGYTYV 370
           AL+NK++  WKDALQQL    STN                     DE+K + LL G  Y 
Sbjct: 351 ALKNKNVAIWKDALQQLESQTSTNITGMETKVYSSLKLSYEHLEGDEMKSLCLLCGLCYS 410

Query: 371 A-FIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDDENISI-------- 421
             +I DL+ Y +GL LFQG   +EEA+  + TLV+KLK+S  LL+   N  +        
Sbjct: 411 QIYISDLLKYGVGLRLFQGTNTLEEAKNRIDTLVDKLKSSNFLLETGHNAVVRMHDLVRS 470

Query: 422 ---SIASREQNVFTATDELVNGWEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFS 478
               IAS + +VFT     V   EW     ++  T + + D   + LPE + CP+L+LF 
Sbjct: 471 TARKIASEQLHVFTHQKTTVRVEEWPRTDELQKVTWVSLGDCDIHELPEGLLCPELELFQ 530

Query: 479 MPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYGGVGVVDGV 538
              + +S   IPH  F  M Q+ VLD ++M L SLP S+  L NL TLCL       DG 
Sbjct: 531 CYQKTSSAVKIPHTFFEGMKQLEVLDFSNMQLPSLPLSLQCLANLRTLCL-------DGC 583

Query: 539 KNASLEELKHFPNLTSLELEVNDANTLPR 567
           K   +  +     L  L L  +D   LPR
Sbjct: 584 KLGDIVIIAKLKKLEILSLIDSDIEQLPR 612

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  361 bits (927), Expect = 5e-97,   Method: Compositional matrix adjust.
 Identities = 241/627 (38%), Positives = 335/627 (53%), Gaps = 104/627 (16%)

Query: 5   LAPPTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEKLLDS 64
           L  P  RQ  +L +Y  N+E+L  +V KL+D     QH+VDEA RKG +IE  V K    
Sbjct: 16  LVAPVGRQLGHLFNYRTNVEDLSQQVAKLRDARARQQHSVDEAIRKGHKIEDDVCKWFTR 75

Query: 65  GNNAIVEAEKFVGDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGRFDRIS 124
            +  I  A KF+ +E  A K CF GLC NLK R Q S EA ++    V++   G+F+R+S
Sbjct: 76  ADGFIQVACKFLEEEKEAQKTCFNGLCPNLKSRYQLSKEARKKAGVAVEIHGDGQFERVS 135

Query: 125 YRPLPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPD----- 179
           YRP   +I           S  P        K  +  ESRM TLN+++ AL++ D     
Sbjct: 136 YRPPLLEI----------GSAPP--------KASKVLESRMLTLNEVMKALRDADINTIG 177

Query: 180 ---------TTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESE 230
                     TL K+VA +A  +KLFD+ V   V Q+ D R+IQGEIAD LG+ F EESE
Sbjct: 178 IWGMGGVGKNTLVKQVAEQAAQEKLFDKVVMTSVFQTPDFRRIQGEIADMLGMKFEEESE 237

Query: 231 SGRAS-LCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKM 289
            GRA+ L  ++ + KTIL+ILD+IW  L+L  IGIP  ++HKGCK++LT+R++  LS +M
Sbjct: 238 QGRAARLHRKINEEKTILIILDDIWAELELEKIGIPSPDNHKGCKLVLTSRNKHVLSNEM 297

Query: 290 DSKQNFSVGILKEEEAWSGEFKW-----------------VAKECAGLPVSIVTVSRALR 332
            ++++F V  L+ +EAW   FK                  VAKEC GLP++IVTV++AL+
Sbjct: 298 STQKDFGVEHLQGDEAWI-LFKNMVGDSIENPDLLLIATDVAKECTGLPIAIVTVAKALK 356

Query: 333 NKSLFEWKDALQQLRRPISTNFK-------------------DELKQIFLLIGYTYVAFI 373
           NK++  WKDAL+QL+   STN                     DE+K +FLL G  +  +I
Sbjct: 357 NKNVSIWKDALKQLKTQTSTNITGMGTKVYSTLKLSYKHLEGDEVKSLFLLCGL-FSNYI 415

Query: 374 D--DLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLL-----------DDDENIS 420
           D  DL+ Y +GL LFQG   +EEA+  + TLV+ LKAS +LL           D  +N++
Sbjct: 416 DIRDLLKYGMGLRLFQGTNTLEEAKNRIETLVDNLKASNLLLETRYNAVFRMHDVVQNVA 475

Query: 421 ISIASREQNVFTATDELVNGWEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMP 480
           I IAS+E +VFT     V   EW +   ++  T I             ++C  ++     
Sbjct: 476 IEIASKEHHVFTFQTG-VRMEEWPNMDELQKFTMI------------YLDCCDIRELPEG 522

Query: 481 AEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYGGVGVVDGVKN 540
              NS   IP+  F  M Q++VLD T+M+L SLPSS+  L NL TLCL       D  K 
Sbjct: 523 LNHNSSLKIPNTFFEGMKQLKVLDFTNMHLPSLPSSLHCLANLRTLCL-------DACKL 575

Query: 541 ASLEELKHFPNLTSLELEVNDANTLPR 567
             +  +     L  L L  +D   LPR
Sbjct: 576 GDITIIAELKKLEILSLMDSDIEQLPR 602

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	667
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.422	0.313	0.288	1.4e-24
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.437	0.301	0.265	3.6e-24
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.449	0.326	0.286	1.4e-22
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.464	0.348	0.259	1.5e-20
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.413	0.308	0.275	3.1e-19
TAIR|locus:2153474	874	AT5G05400 [Arabidopsis thalian	0.482	0.368	0.241	3.4e-19
TAIR|locus:2005517	909	RPS2 "RESISTANT TO P. SYRINGAE	0.164	0.121	0.285	7.3e-18
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.482	0.362	0.232	1e-17
TAIR|locus:2170892	848	AT5G43730 [Arabidopsis thalian	0.422	0.332	0.243	1.8e-17
TAIR|locus:2203881	893	AT1G62630 [Arabidopsis thalian	0.446	0.333	0.254	8.3e-16

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

 Score = 262 (97.3 bits), Expect = 1.4e-24, Sum P(3) = 1.4e-24
 Identities = 87/302 (28%), Positives = 149/302 (49%)

Query:    14 SYLRSYNNNIENLKAEVGKLKDGTESIQHAV--DEAKRKGEEIEKKVEKLLDSGNNAIVE 71
             SY+R+   N+  L+ E+  L+     +Q+ V  DEA+ +   +E  V+  LD  N+  +E
Sbjct:    25 SYIRTLEKNLRALQREMEDLRAIQHEVQNKVARDEARHQ-RRLEA-VQVWLDRVNSVDIE 82

Query:    72 AEKFVG-DEAAANKQCFKGLCANLKIR-IQHSTEAPRQLEAIVKLREAGRFDRISYRPLP 129
              +  +        K C  GLC+       ++  +    LE + KL   G FD +S  P  
Sbjct:    83 CKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNSEGNFDEVSQPPPR 142

Query:   130 EDIFCDNKNRSSSSSFDPQNLTLMS-NKDYEAFESRMSTLNDILGALKNPDTTLAKEVAW 188
              ++    + R +  +   +++   + N+  E     M  L+ + G  K   TTL K++  
Sbjct:   143 SEV----EERPTQPTIGQEDMLEKAWNRLMEDGVGIMG-LHGMGGVGK---TTLFKKIHN 194

Query:   189 K-AENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLT---FHEESESGRASLCNQLKKNK 244
             K AE    FD  ++  VS+   I K+Q +IA+KL L    +  ++ES +A+  +++ K K
Sbjct:   195 KFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGK 254

Query:   245 TILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILKEEE 304
               +++LD+IWE +DL AIGIP+ ++   CK+  T RS +      D K    V  L+ E+
Sbjct:   255 RFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKP-MQVNCLEPED 313

Query:   305 AW 306
             AW
Sbjct:   314 AW 315

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 266 (98.7 bits), Expect = 3.6e-24, Sum P(2) = 3.6e-24
 Identities = 83/313 (26%), Positives = 150/313 (47%)

Query:     1 VVKCLAPPTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEK 60
             +++CL         Y+R+   N+  L+ E+  L+     +Q+ V   + + ++  + V+ 
Sbjct:    18 IIRCLCGK-----GYIRNLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQV 72

Query:    61 LLDSGNNAIVEAEKFVG-DEAAANKQCFKGLCANLKIR-IQHSTEAPRQLEAIVKLREAG 118
              LD  N+  +E +  +        K C  GLC+       ++       LE + KL+  G
Sbjct:    73 WLDRVNSIDIECKDLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEG 132

Query:   119 RFDRISYRPLPEDIFCDNKNRSSSSSFDPQNLTLMS-NKDYEAFESRMSTLNDILGALKN 177
              FD +S  P   ++    + R +  +   + +   + N+  E     M  L+ + G  K 
Sbjct:   133 NFDEVSQPPPRSEV----EERPTQPTIGQEEMLKKAWNRLMEDGVGIMG-LHGMGGVGK- 186

Query:   178 PDTTLAKEVAWK-AENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLT---FHEESESGR 233
               TTL K++  K AE    FD  ++  VSQ   + K+Q +IA+KL L    +  ++ES +
Sbjct:   187 --TTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDK 244

Query:   234 ASLCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQ 293
             A+  +++ K K  +++LD+IWE +DL AIGIP+ ++   CK+  T R +    +  D K 
Sbjct:   245 ATDIHRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRDQKVCGQMGDHKP 304

Query:   294 NFSVGILKEEEAW 306
                V  L+ E+AW
Sbjct:   305 -MQVKCLEPEDAW 316

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 227 (85.0 bits), Expect = 1.4e-22, Sum P(2) = 1.4e-22
 Identities = 99/345 (28%), Positives = 158/345 (45%)

Query:    19 YNNNIENLKAEVGKLKDGTESIQHAVDEA-KRKGEEIEKKVEKLLDSGNNAIVEAEKFVG 77
             + +N   L   + +LK+    +Q  V+EA KR G + EK +E+ L       VE    +G
Sbjct:     2 FRSNARALNRALERLKN----VQTKVNEALKRSGIQ-EKSLERKLRIWLRK-VEENVPLG 55

Query:    78 DEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGR--FDRISYRPLPEDIFCD 135
              E    K   +  CA     I  S +    LE + +L E G+    +IS      +I   
Sbjct:    56 -ELILEK---RSSCA-----IWLSDKDVEILEKVKRLEEQGQDLIKKISVNKSSREIV-- 104

Query:   136 NKNRSSSSSFDPQNLTL-MSNKDYEAFESRMSTLNDILGALKNPDTTLAKEV---AWKAE 191
                R    SF PQ   L M +K  +  + +      + G      TTL + +     K  
Sbjct:   105 --ERVLGPSFHPQKTALEMLDKLKDCLKKKNVQKIGVWGMGGVGKTTLVRTLNNDLLKYA 162

Query:   192 NDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTF-HEESESGRASLCNQLKKNKTILMIL 250
               + F   ++  VS+  D++++Q +IA +LG  F  E+      ++C +L   K  L+IL
Sbjct:   163 ATQQFALVIWVTVSKDFDLKRVQMDIAKRLGKRFTREQMNQLGLTICERLIDLKNFLLIL 222

Query:   251 DNIWENLDLLAIGIPHGNDH-KGCKILLTARSEDTLSRKMDSKQNFSVGILKEEEAWS-- 307
             D++W  +DL  +GIP   +  K  K++LT+R  +   + M + +N  V  L+E+EAW   
Sbjct:   223 DDVWHPIDLDQLGIPLALERSKDSKVVLTSRRLEVCQQMM-TNENIKVACLQEKEAWELF 281

Query:   308 ----GEF------KWVAK----ECAGLPVSIVTVSRALRNKSLFE 338
                 GE       K +AK    EC GLP++I+T+ R LR K   E
Sbjct:   282 CHNVGEVANSDNVKPIAKDVSHECCGLPLAIITIGRTLRGKPQVE 326

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 233 (87.1 bits), Expect = 1.5e-20, Sum P(3) = 1.5e-20
 Identities = 86/332 (25%), Positives = 147/332 (44%)

Query:    14 SYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIE-KKVEKLLDSGNNAIVEA 72
             SY+ + + N+ +L+  +  LK     +   ++  +  G +    +V+  L S    ++  
Sbjct:    27 SYIHNLSKNLASLQKAMRMLKARQYDVIRRLETEEFTGRQQRLSQVQVWLTS---VLIIQ 83

Query:    73 EKFV----GDEAAANKQCFKGLCA-NLKIRIQHSTEAPRQLEAIVKLREAGRFDRISYRP 127
              +F      +E    + C  G C+ +LK+  ++       L+ +  L   G FD +S   
Sbjct:    84 NQFNDLLRSNEVELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQGFFDVVS-EA 142

Query:   128 LPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPDTTLAKEVA 187
              P   F D        +   Q + L   K +       S +  + G      TTL  ++ 
Sbjct:   143 TP---FADVDEIPFQPTIVGQEIML--EKAWNRLMEDGSGILGLYGMGGVGKTTLLTKIN 197

Query:   188 WK-AENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLC----NQLKK 242
              K ++ D  FD  ++  VS+S  +RKIQ +IA+K+GL   E SE     +     N L++
Sbjct:   198 NKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRR 257

Query:   243 NKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILKE 302
              K +L+ LD+IWE ++L A+G+P+ +   GCK+  T RS D   R M       V  L+ 
Sbjct:   258 RKFVLL-LDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGR-MGVDDPMEVSCLQP 315

Query:   303 EEAWSGEFKWVAKECAGLPVSIVTVSRALRNK 334
             EE+W      V K   G    I  ++R +  K
Sbjct:   316 EESWDLFQMKVGKNTLGSHPDIPGLARKVARK 347

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

 Score = 210 (79.0 bits), Expect = 3.1e-19, Sum P(3) = 3.1e-19
 Identities = 85/308 (27%), Positives = 139/308 (45%)

Query:    15 YLRSYNNNIENLKAEVGKLKDGTESIQHAVD--EAKRKGEEIEKKVEKLLDSGNNAIVEA 72
             Y+   + N+  +K ++  LK   + ++  VD  E  R+ E + + V+  L   N + VE 
Sbjct:    28 YICELSKNVVAMKKDMEVLKKKRDDVKRRVDIEEFTRRRERLSQ-VQGWLT--NVSTVEN 84

Query:    73 ---EKFVGDEAAANKQCFKGLCA-NLKIRIQHSTEAPRQLEAIVKLREAGRFDRISYRPL 128
                E    ++A   + C  G C+ N+K+   +       L+ I  L   G FD ++   L
Sbjct:    85 KFNELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRVVLMLKEIESLSSQGDFDTVT---L 141

Query:   129 PEDIFCDNKNRSSSSSFDPQNLTLMSNKDY-EAFESRMSTLNDILGALKNPD----TTLA 183
                I      R       P   T++  +   E   +R++   D +  L        TTL 
Sbjct:   142 ATPIA-----RIEEMPIQP---TIVGQETMLERVWTRLTEDGDEIVGLYGMGGVGKTTLL 193

Query:   184 KEVAWK-AENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHE---ESESGRA-SLCN 238
               +  K +E    F   ++  VS+S DI +IQG+I  +L L   E    +E+ RA  + N
Sbjct:   194 TRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYN 253

Query:   239 QLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVG 298
              L K K +L+ LD+IWE ++L  +G+P+ +   GCK++ T RS D   R M       V 
Sbjct:   254 VLGKQKFVLL-LDDIWEKVNLEVLGVPYPSRQNGCKVVFTTRSRDVCGR-MRVDDPMEVS 311

Query:   299 ILKEEEAW 306
              L+  EAW
Sbjct:   312 CLEPNEAW 319

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 207 (77.9 bits), Expect = 3.4e-19, Sum P(2) = 3.4e-19
 Identities = 87/360 (24%), Positives = 159/360 (44%)

Query:    11 RQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEKLLDSGNNAIV 70
             R  +  R+  +++  LK  V +L+   + +   +   + +G  +  +V++ L    + + 
Sbjct:    24 RNQNRFRNLVDHVAALKKTVRQLEARRDDLLKRIKVQEDRGLNLLDEVQQWLSEVESRVC 83

Query:    71 EAEKFVG--DEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGRFDRISYR-P 127
             EA   +   DE   N  C +      K    +S     +L+ +  L   G FD ++ + P
Sbjct:    84 EAHDILSQSDEEIDNLCCGQYCSKRCKYSYDYSKSVINKLQDVENLLSKGVFDEVAQKGP 143

Query:   128 LPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPDTTLAKEVA 187
             +P+      + R        Q   + S  +    E  +  L  I G      TTL  ++ 
Sbjct:   144 IPKV-----EERLFHQEIVGQEAIVESTWN-SMMEVGVGLLG-IYGMGGVGKTTLLSQIN 196

Query:   188 WK---AENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLT---FHEESESGRASLCNQLK 241
              K     ND  FD A++  VS++  +++IQ +I  +L L    + +++E+  AS   +  
Sbjct:   197 NKFRTVSND--FDIAIWVVVSKNPTVKRIQEDIGKRLDLYNEGWEQKTENEIASTIKRSL 254

Query:   242 KNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILK 301
             +NK  +++LD++W  +DL  IGIP      G KI  T+RS +    KM   +   V  L 
Sbjct:   255 ENKKYMLLLDDMWTKVDLANIGIPVPK-RNGSKIAFTSRSNEVCG-KMGVDKEIEVTCLM 312

Query:   302 EEEAWS----------------GEF-KWVAKECAGLPVSIVTVSRAL-RNKSLFEWKDAL 343
              ++AW                  E  K +A++C GLP+++  +   + R KS+ EW DA+
Sbjct:   313 WDDAWDLFTRNMKETLESHPKIPEVAKSIARKCNGLPLALNVIGETMARKKSIEEWHDAV 372

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0006826 "iron ion transport" evidence=RCA

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

GO:0010167 "response to nitrate" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

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

 Score = 147 (56.8 bits), Expect = 7.3e-18, Sum P(3) = 7.3e-18
 Identities = 32/112 (28%), Positives = 59/112 (52%)

Query:   196 FDQAVFAEVSQSHDIRKIQGEIADKLGLTFHE-ESESGRASLCNQLKKNKTILMILDNIW 254
             +D  ++ ++S+      IQ  +  +LGL++ E E+   RA    +  + K  L++LD++W
Sbjct:   206 YDVLIWVQMSREFGECTIQQAVGARLGLSWDEKETGENRALKIYRALRQKRFLLLLDDVW 265

Query:   255 ENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILKEEEAW 306
             E +DL   G+P  +    CK++ T RS   L   M ++    V  L+++ AW
Sbjct:   266 EEIDLEKTGVPRPDRENKCKVMFTTRSI-ALCNNMGAEYKLRVEFLEKKHAW 316

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

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

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

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

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

GO:0000165 "MAPK cascade" evidence=RCA

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

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

GO:0009617 "response to bacterium" evidence=RCA

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

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

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

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

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

GO:0010200 "response to chitin" evidence=RCA

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

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

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

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

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

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

GO:0045087 "innate immune response" evidence=RCA

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

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

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

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

 Score = 196 (74.1 bits), Expect = 1.0e-17, Sum P(3) = 1.0e-17
 Identities = 79/340 (23%), Positives = 145/340 (42%)

Query:     1 VVKCLAPPTERQFSYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEK 60
             V  CL     R   Y+     N+  L+  + +++   E +   +   +R+G +    V+ 
Sbjct:    18 VCSCL----NRNGDYIHGLEENLTALQRALEQIEQRREDLLRKILSEERRGLQRLSVVQG 73

Query:    61 LLDSGNNAIVEAEKFVGDEAA-ANKQCFKGLCA-NLKIRIQHSTEAPRQLEAIVKLREAG 118
              +      +    + V   +    + C  G C+ NL    ++     + +E +  LR  G
Sbjct:    74 WVSKVEAIVPRVNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVMKMIEEVEVLRYQG 133

Query:   119 RFDRISYRPLPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNP 178
              F  ++ R     +  + +      + DP  L    N+  E  E  +  L+ + G  K  
Sbjct:   134 DFAVVAERVDAARV--EERPTRPMVAMDPM-LESAWNRLMED-EIGILGLHGMGGVGK-- 187

Query:   179 DTTLAKEVAWKAEN-DKLFDQAVFAEVSQSHDIRKIQGEIADKL---GLTFHEESESGRA 234
              TTL   +  +       FD  ++  VS+   I++IQ EI +KL      + +++E  +A
Sbjct:   188 -TTLLSHINNRFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKA 246

Query:   235 SLCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQN 294
             S    + K+K  +++LD+IW  +DL  +G+P  +   GCKI+ T R ++   R M    +
Sbjct:   247 SNIYNVLKHKRFVLLLDDIWSKVDLTEVGVPFPSRENGCKIVFTTRLKEICGR-MGVDSD 305

Query:   295 FSVGILKEEEAWSGEFKWVAKECAGLPVSIVTVSRALRNK 334
               V  L  ++AW    K V +   G    I TV+R +  K
Sbjct:   306 MEVRCLAPDDAWDLFTKKVGEITLGSHPEIPTVARTVAKK 345

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 209 (78.6 bits), Expect = 1.8e-17, Sum P(3) = 1.8e-17
 Identities = 73/300 (24%), Positives = 141/300 (47%)

Query:    14 SYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEKLLDSGNNAIVEAE 73
             +Y+    +N++ L+  + +LK+G + +   V   + KG +    V   L      IVE+E
Sbjct:    26 NYIHLMESNLDALQKTMEELKNGRDDLLARVSIEEDKGLQRLALVNGWLSRVQ--IVESE 83

Query:    74 -KFVGDEAA--ANKQCFKGLCANLKIR-IQHSTEAPRQLEAIVKLREAGRFDRISYRPLP 129
              K + +  +    + C  G C+   I    +  +  + LE + +L     F+ ++ + +P
Sbjct:    84 FKDLLEAMSIETGRLCLFGYCSEDCISSYNYGGKVMKNLEEVKELLSKKNFEVVAQKIIP 143

Query:   130 EDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKNPDTTLAKEVAWK 189
             +    + K+  ++   D    T++        +  + TL  + G      TTL + +  K
Sbjct:   144 K---AEKKHIQTTVGLD----TMVGIAWESLIDDEIRTLG-LYGMGGIGKTTLLESLNNK 195

Query:   190 -AENDKLFDQAVFAEVSQSHDIRKIQGEIADKL--GLTFHEESESGRASLCNQLKKNKTI 246
               E +  FD  ++  VS+   +  IQ +I  +L     +  E+ES +ASL N   K K  
Sbjct:   196 FVELESEFDVVIWVVVSKDFQLEGIQDQILGRLRPDKEWERETESKKASLINNNLKRKKF 255

Query:   247 LMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILKEEEAW 306
             +++LD++W  +DL+ IG+P  +   G KI+ T RS++ + + M + +   V  L  +EAW
Sbjct:   256 VLLLDDLWSEVDLIKIGVPPPSRENGSKIVFTTRSKE-VCKHMKADKQIKVDCLSPDEAW 314

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2203881 AT1G62630 [Arabidopsis thaliana (taxid:3702)]

 Score = 203 (76.5 bits), Expect = 8.3e-16, Sum P(3) = 8.3e-16
 Identities = 81/318 (25%), Positives = 149/318 (46%)

Query:    33 LKDGTESIQHAVDEAKRKGEEIEKKVEKLLDSGNNAIVEAEKFVGDEAAANKQCFKGLCA 92
             L+    +++  ++E K K +++ +++++  D G   + E + ++ +  A  +     L  
Sbjct:    30 LEKNLVALETTMEELKAKRDDLLRRLKREEDRGLQRLSEFQVWL-NRVATVEDIIITLLR 88

Query:    93 NLKIRIQHSTEAPRQLEAIVKLREAGR--FDRI-SYRPLPEDIFCDNKNRSSSSSFDPQN 149
             +  + IQ         + +      G+  F R+     L  ++F     ++S+S+F+ + 
Sbjct:    89 DRDVEIQRLCLCRFCSKNLTTSYRYGKSVFLRLREVEKLKGEVFGVITEQASTSAFEERP 148

Query:   150 L--TLMSNKDY--EAFESRMSTLNDILGALKNPD---TTLAKEVAWKAENDKL-FDQAVF 201
             L  T++  K    +A++  M     I+G         TTL  ++      DK  FD  ++
Sbjct:   149 LQPTIVGQKKMLDKAWKHLMEDGTGIMGMYGMGGVGKTTLLTQLFNMFNKDKCGFDIGIW 208

Query:   202 AEVSQSHDIRKIQGEIADKLGLTFHEE-----SESGRASLCNQLKKNKTILMILDNIWEN 256
               VSQ  ++ KIQ EIA KLGL  HE      S+ G   L N LK NK  ++ LD++W+ 
Sbjct:   209 VVVSQEVNVEKIQDEIAQKLGLGGHEWTQRDISQKG-VHLFNFLK-NKKFVLFLDDLWDK 266

Query:   257 LDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILKEEEAWSGEFKWVAKE 316
             ++L  IG+P     KGCK+  T+RS +  +  M  ++   V  L+E  A+    K V ++
Sbjct:   267 VELANIGVPDPRTQKGCKLAFTSRSLNVCT-SMGDEEPMEVQCLEENVAFDLFQKKVGQK 325

Query:   317 CAGLPVSIVTVSRALRNK 334
               G    I  ++R +  K
Sbjct:   326 TLGSDPGIPQLARIVAKK 343

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	667
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	2e-24

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

 Score =  103 bits (259), Expect = 2e-24
 Identities = 64/238 (26%), Positives = 106/238 (44%), Gaps = 28/238 (11%)

Query: 180 TTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLT-----FHEESESGRA 234
           TTLAK++         FD   +  VS+++   ++Q +I  +LGL         ESE    
Sbjct: 33  TTLAKQIYNDDSVGGHFDSVAWVVVSKTYTEFRLQKDILQELGLDDSDWVEKNESE-LAV 91

Query: 235 SLCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQN 294
            +   L + K  L++LD++WE  D   IG+P  +   G ++++T RSE    R   + + 
Sbjct: 92  KIKEALLR-KRFLLVLDDVWEKNDWDKIGVPFPDGENGSRVIVTTRSESVAGRMGGTSKP 150

Query: 295 FSVGILKEEEAW--------------SGEFKWVAKE----CAGLPVSIVTVSRALRNKS- 335
             V  L+ EE+W                E + VAKE    C GLP+++  +   L  KS 
Sbjct: 151 HEVESLEPEESWELFSNKVFEKELPPCPELEEVAKEIVEKCKGLPLALKVLGGLLAFKST 210

Query: 336 LFEWKDALQQLRRPISTNFKDELKQIFLLIGYTYVAFIDDLIWYSIGLGLFQGIKNME 393
           + EW+  L+QL        +D L ++  ++  +Y      L    + L LF    N+ 
Sbjct: 211 VQEWEHVLEQLNN--ELAGRDGLNEVLSILSLSYDNLPMHLKRCFLYLALFPEDYNIR 266

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	667
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	100.0
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.6
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.57
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.57
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.56
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.5
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.46
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.36
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.31
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.31
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.31
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.28
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.26
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.25
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.15
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.12
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.97
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.97
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	98.9
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.89
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	98.87
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.8
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.77
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.7
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.67
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.63
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.53
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.51
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.49
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.48
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.44
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.3
PLN03150	623	hypothetical protein; Provisional	98.28
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.23
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.18
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.14
PLN03150	623	hypothetical protein; Provisional	98.14
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.98
PRK15386	426	type III secretion protein GogB; Provisional	97.88
PRK04841	903	transcriptional regulator MalT; Provisional	97.85
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.79
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.79
PF05729	166	NACHT: NACHT domain	97.79
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	97.72
PRK15386	426	type III secretion protein GogB; Provisional	97.69
PRK00411	394	cdc6 cell division control protein 6; Reviewed	97.61
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.58
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.54
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.45
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	97.41
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.37
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.36
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.28
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.13
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.07
cd01128	249	rho_factor Transcription termination factor rho is	97.06
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	96.94
PRK09376	416	rho transcription termination factor Rho; Provisio	96.93
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	96.9
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.85
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	96.8
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	96.76
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	96.75
PRK06893	229	DNA replication initiation factor; Validated	96.7
PRK05564	313	DNA polymerase III subunit delta'; Validated	96.64
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	96.49
PF13173	128	AAA_14: AAA domain	96.38
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	96.34
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	96.28
TIGR00767	415	rho transcription termination factor Rho. Members	96.1
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.09
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	95.94
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	95.92
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	95.59
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	95.54
KOG2982	418	consensus Uncharacterized conserved protein [Funct	95.49
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	95.49
COG2256	436	MGS1 ATPase related to the helicase subunit of the	95.4
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	95.36
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	95.28
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	94.94
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	94.59
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	94.45
KOG2123	388	consensus Uncharacterized conserved protein [Funct	94.23
PRK13342	413	recombination factor protein RarA; Reviewed	93.87
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	93.77
KOG2123	388	consensus Uncharacterized conserved protein [Funct	93.37
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	93.36
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	93.28
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	93.21
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	93.11
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	93.04
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	92.61
PRK12402	337	replication factor C small subunit 2; Reviewed	92.59
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	92.47
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	92.45
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	92.38
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	92.23
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	92.08
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	91.86
PRK04195	482	replication factor C large subunit; Provisional	91.77
PTZ00112	1164	origin recognition complex 1 protein; Provisional	91.72
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	91.61
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	91.28
PRK08727	233	hypothetical protein; Validated	91.28
PRK00440	319	rfc replication factor C small subunit; Reviewed	91.27
smart00370	26	LRR Leucine-rich repeats, outliers.	91.19
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	91.19
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	91.0
smart00370	26	LRR Leucine-rich repeats, outliers.	91.0
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	90.63
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	90.59
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	90.52
KOG0473	326	consensus Leucine-rich repeat protein [Function un	90.44
PLN03025	319	replication factor C subunit; Provisional	90.21
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	90.19
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	90.09
PF14516	331	AAA_35: AAA-like domain	90.03
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	89.87
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	89.31
PRK07471	365	DNA polymerase III subunit delta'; Validated	89.07
PHA02544	316	44 clamp loader, small subunit; Provisional	89.02
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	88.64
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	88.42
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	88.2
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	88.15
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	88.08
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	87.54
PRK07940	394	DNA polymerase III subunit delta'; Validated	87.5
KOG2028	554	consensus ATPase related to the helicase subunit o	87.28
PTZ00202	550	tuzin; Provisional	87.15
PRK03992	389	proteasome-activating nucleotidase; Provisional	86.5
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	86.42
PRK08116	268	hypothetical protein; Validated	86.27
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	86.2
PRK08084	235	DNA replication initiation factor; Provisional	85.8
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	85.69
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	85.48
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	85.28
PRK13341	725	recombination factor protein RarA/unknown domain f	85.17
PRK04132	846	replication factor C small subunit; Provisional	84.93
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	84.85
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	84.74
PRK09112	351	DNA polymerase III subunit delta'; Validated	84.08
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	83.84
PRK14087	450	dnaA chromosomal replication initiation protein; P	83.31
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	82.97
KOG0473	326	consensus Leucine-rich repeat protein [Function un	82.91
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	82.62
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	82.56
PRK05642	234	DNA replication initiation factor; Validated	82.5
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	82.49
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	81.92
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	81.88
COG3899	849	Predicted ATPase [General function prediction only	81.32
PRK05707	328	DNA polymerase III subunit delta'; Validated	81.22
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	81.17
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	80.59
KOG4341	483	consensus F-box protein containing LRR [General fu	80.34
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	80.08

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=8.7e-73  Score=640.00  Aligned_cols=626  Identities=23%  Similarity=0.334  Sum_probs=479.4

Q ss_pred             cccccchhhHhh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHhhHH
Q 038110            2 VKCLAPPTERQF-SYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEKLLDSGNNAIVEAEKFVGDEA   80 (667)
Q Consensus         2 a~~~~~~v~~~~-~~l~~~~~~~~~~~~~~~~L~~~l~~i~~~l~~ae~~~~~~~~~~~~Wl~~l~~~ayd~ed~ld~~~   80 (667)
                      |++.++..++++ .++......+.+.++.+..|++.|..++.+++++++++. ....+..|.+.+++++|++||.++.+.
T Consensus         1 ~~~~~s~~~~~~~~~l~~~~~~~~~~~~~i~~Lk~~L~~l~~~l~d~~a~~~-~~~~~~~~~e~~~~~~~~~e~~~~~~~   79 (889)
T KOG4658|consen    1 MGACVSFGVEKLDQLLNRESECLDGKDNYILELKENLKALQSALEDLDAKRD-DLERRVNWEEDVGDLVYLAEDIIWLFL   79 (889)
T ss_pred             CCeEEEEehhhHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHhhcc-hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            466777777754 466777788999999999999999999999999999874 478899999999999999999998765


Q ss_pred             Hhh-----------------hhhccccc-cchHHHhHhhhhHHHHHHHHHHHHHcCCCCeeecCCCCCccccCCCCCCCC
Q 038110           81 AAN-----------------KQCFKGLC-ANLKIRIQHSTEAPRQLEAIVKLREAGRFDRISYRPLPEDIFCDNKNRSSS  142 (667)
Q Consensus        81 ~~~-----------------~~~~~~~~-~~~~~r~~~~~~i~~~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~  142 (667)
                      ...                 +-|+.+.+ .+...-+.+++++-++...++.+..++.|..+.....+..      .+++ 
T Consensus        80 v~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~------~~e~-  152 (889)
T KOG4658|consen   80 VEEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPRE------KVET-  152 (889)
T ss_pred             HHHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchh------hccc-
Confidence            321                 11221222 1222233444444444444454444444443322110000      0111 


Q ss_pred             CCCCccccccccCCCcccccchHHHHHHHHHhcCC--------------CCcHHHHHHHHHhc-cCCCCCEEEEEEeCCC
Q 038110          143 SSFDPQNLTLMSNKDYEAFESRMSTLNDILGALKN--------------PDTTLAKEVAWKAE-NDKLFDQAVFAEVSQS  207 (667)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~gr~~~~~~i~~~l~~--------------~~TtLa~~vy~~~~-~~~~F~~~~wv~vs~~  207 (667)
                                .|...... +|.+..++++++.|.+              ||||||+.|||+.. ++.+||.++||+||+.
T Consensus       153 ----------~~~~~~~~-VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~  221 (889)
T KOG4658|consen  153 ----------RPIQSESD-VGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKE  221 (889)
T ss_pred             ----------CCCCcccc-ccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEccc
Confidence                      11122222 7999999999998865              35999999999998 9999999999999999


Q ss_pred             CCHHHHHHHHHHHhCCCCCCCCh---hHHHH-HHHHHhcCCeEEEEEeCCCCcccccccCCCcCCCCCCcEEEEecCChh
Q 038110          208 HDIRKIQGEIADKLGLTFHEESE---SGRAS-LCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSED  283 (667)
Q Consensus       208 ~~~~~i~~~i~~~l~~~~~~~~~---~~~~~-l~~~L~~~kr~LlVLDdvw~~~~~~~l~~~~~~~~~gs~iivTTr~~~  283 (667)
                      |+..+++++|++.++.......+   ...+. |.+.|+ +|||+|||||||+..+|+.++.|+|...+||||++|||++.
T Consensus       222 f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~-~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~  300 (889)
T KOG4658|consen  222 FTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLE-GKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEE  300 (889)
T ss_pred             ccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhc-cCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHh
Confidence            99999999999998874433322   23334 999998 89999999999999999999999999999999999999999


Q ss_pred             hhhhccCCcceEecCCCCHHHHHHHHH------------------HHHHHHhCCcchHHHHHHHHHccC-ChHHHHHHHH
Q 038110          284 TLSRKMDSKQNFSVGILKEEEAWSGEF------------------KWVAKECAGLPVSIVTVSRALRNK-SLFEWKDALQ  344 (667)
Q Consensus       284 va~~~~~~~~~~~l~~L~~~~s~~Lf~------------------~~i~~~c~GlPLai~~~g~~L~~k-~~~~W~~~l~  344 (667)
                      |+..+|++...+++++|+++|||.||+                  ++|+++|+|+|||++++|++|+.| +.++|+++.+
T Consensus       301 V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~  380 (889)
T KOG4658|consen  301 VCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALN  380 (889)
T ss_pred             hhhccccCCccccccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHc
Confidence            986668888999999999999999999                  899999999999999999999988 8889999999


Q ss_pred             HhcCC------------------CCcCchHHHHHHHHHHhhh---hcccHHHHHHHHhHcCCCCCcccHHHHHHHHHHHH
Q 038110          345 QLRRP------------------ISTNFKDELKQIFLLIGYT---YVAFIDDLIWYSIGLGLFQGIKNMEEARAGVRTLV  403 (667)
Q Consensus       345 ~l~~~------------------~~~~l~~~lk~cfly~s~f---~~i~~~~Li~~Wiaeg~i~~~~~~e~~~~~~~~li  403 (667)
                      .+.+.                  +|+++|+++|.||+|||+|   |.|+++.||.+||||||+++....+.+++.+.+++
T Consensus       381 ~l~s~~~~~~~~~~~~i~~iLklSyd~L~~~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i  460 (889)
T KOG4658|consen  381 VLKSSLAADFSGMEESILPILKLSYDNLPEELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYI  460 (889)
T ss_pred             cccccccCCCCchhhhhHHhhhccHhhhhHHHHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHH
Confidence            76543                  5677899999999999999   99999999999999999988666666778888888


Q ss_pred             HHHHHccccccCC--------------cchhhhhcc-----ccccEEEeecccccCcCCCccccccceeEEEEeccCccc
Q 038110          404 NKLKASCMLLDDD--------------ENISISIAS-----REQNVFTATDELVNGWEWSDESRVRHCTSIVILDVKTYV  464 (667)
Q Consensus       404 ~~L~~~~l~~~~~--------------~dl~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~  464 (667)
                      .+|+++||++...              .|+|.++++     +++  .++.++ ....+.|....+..+|++++.+|.+..
T Consensus       461 ~~LV~~~Ll~~~~~~~~~~~~kmHDvvRe~al~ias~~~~~~e~--~iv~~~-~~~~~~~~~~~~~~~rr~s~~~~~~~~  537 (889)
T KOG4658|consen  461 EELVRASLLIEERDEGRKETVKMHDVVREMALWIASDFGKQEEN--QIVSDG-VGLSEIPQVKSWNSVRRMSLMNNKIEH  537 (889)
T ss_pred             HHHHHHHHHhhcccccceeEEEeeHHHHHHHHHHhccccccccc--eEEECC-cCccccccccchhheeEEEEeccchhh
Confidence            8888899998865              178889987     565  233322 112245677778899999999999999


Q ss_pred             cCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCC-CCccCCccccCCCcccEEecCC-cccccCCCCccC
Q 038110          465 LPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDM-NLLSLPSSIGLLTNLHTLCLYG-GVGVVDGVKNAS  542 (667)
Q Consensus       465 l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~-~i~~lP~si~~L~~L~~L~L~~-~l~~LP~~~~~~  542 (667)
                      ++....+++|++|.+.+|...+..++..+|..|++||+|||++| .+.+||++|++|.|||||+|++ .+.+||      
T Consensus       538 ~~~~~~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP------  611 (889)
T KOG4658|consen  538 IAGSSENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHLP------  611 (889)
T ss_pred             ccCCCCCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCCccccc------
Confidence            99888899999999999873127889998999999999999988 6889999999999999999999 999999      


Q ss_pred             hhhhcCCCCCCeEEeecCC-CCCCCCCCcCCCCCCeeEEEecC-ccCCCcccc--cccccceEEeecCccccchH---HH
Q 038110          543 LEELKHFPNLTSLELEVND-ANTLPRGGLFFEKPERYKILTGH-RWSRGFYRS--SNKSYRSFRIDLDANVRLKD---RL  615 (667)
Q Consensus       543 ~~~l~~L~~L~~L~l~~~~-l~~lP~~~~~l~~L~~l~~~~~~-~~~~~~~~~--~~~~l~~l~l~~~~~~~~~~---~~  615 (667)
                       .++++|.+|.+|++..+. +..+|.....|++|+.|.+.... ......+..  ....++.+.+..... ...+   ..
T Consensus       612 -~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~~~~~~~~l~el~~Le~L~~ls~~~~s~-~~~e~l~~~  689 (889)
T KOG4658|consen  612 -SGLGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLPRSALSNDKLLLKELENLEHLENLSITISSV-LLLEDLLGM  689 (889)
T ss_pred             -hHHHHHHhhheeccccccccccccchhhhcccccEEEeeccccccchhhHHhhhcccchhhheeecchh-HhHhhhhhh
Confidence             999999999999999986 44454444569999999887543 111111122  122233333322111 1111   11


Q ss_pred             HHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCCCee
Q 038110          616 VVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGPQF  663 (667)
Q Consensus       616 ~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~l~~  663 (667)
                      ..+.+..+.+.+.++   .....+..+  ..+.+|+.|.|.+|...+.
T Consensus       690 ~~L~~~~~~l~~~~~---~~~~~~~~~--~~l~~L~~L~i~~~~~~e~  732 (889)
T KOG4658|consen  690 TRLRSLLQSLSIEGC---SKRTLISSL--GSLGNLEELSILDCGISEI  732 (889)
T ss_pred             HHHHHHhHhhhhccc---ccceeeccc--ccccCcceEEEEcCCCchh
Confidence            122234445555444   444566677  8899999999999998654

>PLN03210 Resistant to P

Probab=100.00  E-value=7.2e-43  Score=417.35  Aligned_cols=409  Identities=16%  Similarity=0.195  Sum_probs=287.1

Q ss_pred             cccccchHHHHHHHHHhcC----------------CCCcHHHHHHHHHhccCCCCCEEEEEEe---CCC-----------
Q 038110          158 YEAFESRMSTLNDILGALK----------------NPDTTLAKEVAWKAENDKLFDQAVFAEV---SQS-----------  207 (667)
Q Consensus       158 ~~~~~gr~~~~~~i~~~l~----------------~~~TtLa~~vy~~~~~~~~F~~~~wv~v---s~~-----------  207 (667)
                      ..+++|++..++++..+|.                .||||||+++|+...  .+|+..+|+..   +..           
T Consensus       183 ~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~--~~F~g~vfv~~~~v~~~~~~~~~~~~~~  260 (1153)
T PLN03210        183 FEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLS--RQFQSSVFIDRAFISKSMEIYSSANPDD  260 (1153)
T ss_pred             cccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHh--hcCCeEEEeeccccccchhhcccccccc
Confidence            4567899999998887763                367999999999766  77999888742   211           


Q ss_pred             CC-HHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCcccccccCCCcCCCCCCcEEEEecCChhhhh
Q 038110          208 HD-IRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLS  286 (667)
Q Consensus       208 ~~-~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~~~~~~l~~~~~~~~~gs~iivTTr~~~va~  286 (667)
                      ++ ...++++++.++........ .....++++|+ +||+||||||||+..+|+.+.....+.++||+||||||+++++.
T Consensus       261 ~~~~~~l~~~~l~~il~~~~~~~-~~~~~~~~~L~-~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~  338 (1153)
T PLN03210        261 YNMKLHLQRAFLSEILDKKDIKI-YHLGAMEERLK-HRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLR  338 (1153)
T ss_pred             cchhHHHHHHHHHHHhCCCCccc-CCHHHHHHHHh-CCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHHHHH
Confidence            11 23455666666543321110 11123888898 89999999999999999999887777789999999999999974


Q ss_pred             hccCCcceEecCCCCHHHHHHHHH-----------------HHHHHHhCCcchHHHHHHHHHccCChHHHHHHHHHhcC-
Q 038110          287 RKMDSKQNFSVGILKEEEAWSGEF-----------------KWVAKECAGLPVSIVTVSRALRNKSLFEWKDALQQLRR-  348 (667)
Q Consensus       287 ~~~~~~~~~~l~~L~~~~s~~Lf~-----------------~~i~~~c~GlPLai~~~g~~L~~k~~~~W~~~l~~l~~-  348 (667)
                       .++...+|+++.|++++||+||+                 ++|+++|+|+|||++++|+.|++++..+|+.+++++.+ 
T Consensus       339 -~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~L~~~  417 (1153)
T PLN03210        339 -AHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNG  417 (1153)
T ss_pred             -hcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHhC
Confidence             46677899999999999999998                 77999999999999999999999999999999988764 


Q ss_pred             ----------CCCcCchH-HHHHHHHHHhhhhcccHHHHHHHHhHcCCCCCcccHHH-----------HHHHHHHHHHHH
Q 038110          349 ----------PISTNFKD-ELKQIFLLIGYTYVAFIDDLIWYSIGLGLFQGIKNMEE-----------ARAGVRTLVNKL  406 (667)
Q Consensus       349 ----------~~~~~l~~-~lk~cfly~s~f~~i~~~~Li~~Wiaeg~i~~~~~~e~-----------~~~~~~~li~~L  406 (667)
                                .+|+++++ ..|.||+|||+|+.-...+.+..|.|.+.+......+.           ....||++++++
T Consensus       418 ~~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~~v~~~l~~~~~~~~~~l~~L~~ksLi~~~~~~~~MHdLl~~~  497 (1153)
T PLN03210        418 LDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLVDKSLIHVREDIVEMHSLLQEM  497 (1153)
T ss_pred             ccHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHHHHHHHHHhcCCCchhChHHHHhcCCEEEcCCeEEhhhHHHHH
Confidence                      36778865 59999999999932233345777888765543222211           123588888887


Q ss_pred             HHccccccC----Cc-------chhh---hhcc--ccccEEE---------ee-cccc---cC-----------------
Q 038110          407 KASCMLLDD----DE-------NISI---SIAS--REQNVFT---------AT-DELV---NG-----------------  440 (667)
Q Consensus       407 ~~~~l~~~~----~~-------dl~~---~~~~--~~~~~~~---------~~-~~~~---~~-----------------  440 (667)
                      ++.-..++.    .+       |...   ....  ....+..         +. +.+.   .+                 
T Consensus       498 ~r~i~~~~~~~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~~~~~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~  577 (1153)
T PLN03210        498 GKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKVLGITLDIDEIDELHIHENAFKGMRNLLFLKFYTKKWDQKKEVR  577 (1153)
T ss_pred             HHHHHHhhcCCCCcceeEeCHHHHHHHHHhCcccceeeEEEeccCccceeeecHHHHhcCccccEEEEecccccccccce
Confidence            643322211    10       1000   0000  0000000         00 0000   00                 


Q ss_pred             cCCCc--cccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCC-CCccCCccc
Q 038110          441 WEWSD--ESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDM-NLLSLPSSI  517 (667)
Q Consensus       441 ~~~~~--~~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~-~i~~lP~si  517 (667)
                      -.+|.  ...+.++|.|.+.++.+..+|....+.+|+.|.+.++..  ..+|.++ ..+++|++|+|+++ .+..+|. +
T Consensus       578 ~~lp~~~~~lp~~Lr~L~~~~~~l~~lP~~f~~~~L~~L~L~~s~l--~~L~~~~-~~l~~Lk~L~Ls~~~~l~~ip~-l  653 (1153)
T PLN03210        578 WHLPEGFDYLPPKLRLLRWDKYPLRCMPSNFRPENLVKLQMQGSKL--EKLWDGV-HSLTGLRNIDLRGSKNLKEIPD-L  653 (1153)
T ss_pred             eecCcchhhcCcccEEEEecCCCCCCCCCcCCccCCcEEECcCccc--ccccccc-ccCCCCCEEECCCCCCcCcCCc-c
Confidence            00010  012346777888777777777777778888888888765  6677776 78888888888877 4667774 7


Q ss_pred             cCCCcccEEecCC--cccccCCCCccChhhhcCCCCCCeEEeecCC-CCCCCCCCcCCCCCCeeEEEec
Q 038110          518 GLLTNLHTLCLYG--GVGVVDGVKNASLEELKHFPNLTSLELEVND-ANTLPRGGLFFEKPERYKILTG  583 (667)
Q Consensus       518 ~~L~~L~~L~L~~--~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~-l~~lP~~~~~l~~L~~l~~~~~  583 (667)
                      +.+++|++|+|++  .+..+|       ..+++|++|++|++++|. ++.+|.++ ++++|+.|.+..+
T Consensus       654 s~l~~Le~L~L~~c~~L~~lp-------~si~~L~~L~~L~L~~c~~L~~Lp~~i-~l~sL~~L~Lsgc  714 (1153)
T PLN03210        654 SMATNLETLKLSDCSSLVELP-------SSIQYLNKLEDLDMSRCENLEILPTGI-NLKSLYRLNLSGC  714 (1153)
T ss_pred             ccCCcccEEEecCCCCccccc-------hhhhccCCCCEEeCCCCCCcCccCCcC-CCCCCCEEeCCCC
Confidence            8888888888887  678888       888999999999998874 88888874 6778888876543

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=100.00  E-value=4.6e-34  Score=293.23  Aligned_cols=224  Identities=25%  Similarity=0.385  Sum_probs=175.3

Q ss_pred             hHHHHHHHHHhcCC----------------CCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC
Q 038110          164 RMSTLNDILGALKN----------------PDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHE  227 (667)
Q Consensus       164 r~~~~~~i~~~l~~----------------~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~  227 (667)
                      ||.++++|.++|..                ||||||+.+|++..++.+|+.++||.+++.++...+++.|+.+++.....
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~   80 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSS   80 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-ST
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccc
Confidence            46666666666654                56999999999977789999999999999999999999999999987432


Q ss_pred             C----ChhHHHH-HHHHHhcCCeEEEEEeCCCCcccccccCCCcCCCCCCcEEEEecCChhhhhhccCCcceEecCCCCH
Q 038110          228 E----SESGRAS-LCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMDSKQNFSVGILKE  302 (667)
Q Consensus       228 ~----~~~~~~~-l~~~L~~~kr~LlVLDdvw~~~~~~~l~~~~~~~~~gs~iivTTr~~~va~~~~~~~~~~~l~~L~~  302 (667)
                      .    ....... +++.|. ++++||||||||+...|+.+...++....||+||||||+..++.........|++++|++
T Consensus        81 ~~~~~~~~~~~~~l~~~L~-~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~  159 (287)
T PF00931_consen   81 ISDPKDIEELQDQLRELLK-DKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSE  159 (287)
T ss_dssp             SSCCSSHHHHHHHHHHHHC-CTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--H
T ss_pred             cccccccccccccchhhhc-cccceeeeeeeccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            2    2223334 999998 789999999999999999998888888889999999999999743333367999999999


Q ss_pred             HHHHHHHH------------------HHHHHHhCCcchHHHHHHHHHccC-ChHHHHHHHHHhcCC--------------
Q 038110          303 EEAWSGEF------------------KWVAKECAGLPVSIVTVSRALRNK-SLFEWKDALQQLRRP--------------  349 (667)
Q Consensus       303 ~~s~~Lf~------------------~~i~~~c~GlPLai~~~g~~L~~k-~~~~W~~~l~~l~~~--------------  349 (667)
                      ++|++||.                  ++|+++|+|+|||++++|++|+.+ +..+|+.+++++.+.              
T Consensus       160 ~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~  239 (287)
T PF00931_consen  160 EEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSVFSA  239 (287)
T ss_dssp             HHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            99999999                  789999999999999999999755 889999999875422              


Q ss_pred             ---CCcCchHHHHHHHHHHhhh---hcccHHHHHHHHhHcCCCCC
Q 038110          350 ---ISTNFKDELKQIFLLIGYT---YVAFIDDLIWYSIGLGLFQG  388 (667)
Q Consensus       350 ---~~~~l~~~lk~cfly~s~f---~~i~~~~Li~~Wiaeg~i~~  388 (667)
                         +|+.+|+++|.||+|||+|   +.|+++.|+++|+|+|||+.
T Consensus       240 l~~s~~~L~~~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~  284 (287)
T PF00931_consen  240 LELSYDSLPDELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISS  284 (287)
T ss_dssp             HHHHHHSSHTCCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC-
T ss_pred             ceechhcCCccHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCcc
Confidence               2455689999999999999   78999999999999999975

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.

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

Probab=99.60  E-value=1.2e-16  Score=158.57  Aligned_cols=210  Identities=17%  Similarity=0.164  Sum_probs=151.5

Q ss_pred             CCCccccccceeEEEEeccCccccCCCC--CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccC
Q 038110          442 EWSDESRVRHCTSIVILDVKTYVLPEVM--ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGL  519 (667)
Q Consensus       442 ~~~~~~~~~~lr~L~l~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~  519 (667)
                      ..|.......+..+.+..|.++.+|...  .++++.+|++.+|..  .++|+++ +.+++|.+||+|+|.|+.+|.++|+
T Consensus       220 ~lPef~gcs~L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRdNkl--ke~Pde~-clLrsL~rLDlSNN~is~Lp~sLgn  296 (565)
T KOG0472|consen  220 FLPEFPGCSLLKELHVGENQIEMLPAEHLKHLNSLLVLDLRDNKL--KEVPDEI-CLLRSLERLDLSNNDISSLPYSLGN  296 (565)
T ss_pred             cCCCCCccHHHHHHHhcccHHHhhHHHHhcccccceeeecccccc--ccCchHH-HHhhhhhhhcccCCccccCCccccc
Confidence            3455555556666666666666666543  677888888888877  7888887 7888888888888888888888888


Q ss_pred             CCcccEEecCC-cccccC--------------------------------------------------------------
Q 038110          520 LTNLHTLCLYG-GVGVVD--------------------------------------------------------------  536 (667)
Q Consensus       520 L~~L~~L~L~~-~l~~LP--------------------------------------------------------------  536 (667)
                      | ||+.|-+.+ .++.+-                                                              
T Consensus       297 l-hL~~L~leGNPlrTiRr~ii~~gT~~vLKyLrs~~~~dglS~se~~~e~~~t~~~~~~~~~~~~i~tkiL~~s~~qlt  375 (565)
T KOG0472|consen  297 L-HLKFLALEGNPLRTIRREIISKGTQEVLKYLRSKIKDDGLSQSEGGTETAMTLPSESFPDIYAIITTKILDVSDKQLT  375 (565)
T ss_pred             c-eeeehhhcCCchHHHHHHHHcccHHHHHHHHHHhhccCCCCCCcccccccCCCCCCcccchhhhhhhhhhcccccccc
Confidence            8 888888766 111110                                                              


Q ss_pred             ---------------------C-------------------------CCccChhhhcCCCCCCeEEeecCCCCCCCCCCc
Q 038110          537 ---------------------G-------------------------VKNASLEELKHFPNLTSLELEVNDANTLPRGGL  570 (667)
Q Consensus       537 ---------------------~-------------------------~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~  570 (667)
                                           +                         .....+..++.+++|..|++++|-+..+|..++
T Consensus       376 ~VPdEVfea~~~~~Vt~VnfskNqL~elPk~L~~lkelvT~l~lsnn~isfv~~~l~~l~kLt~L~L~NN~Ln~LP~e~~  455 (565)
T KOG0472|consen  376 LVPDEVFEAAKSEIVTSVNFSKNQLCELPKRLVELKELVTDLVLSNNKISFVPLELSQLQKLTFLDLSNNLLNDLPEEMG  455 (565)
T ss_pred             cCCHHHHHHhhhcceEEEecccchHhhhhhhhHHHHHHHHHHHhhcCccccchHHHHhhhcceeeecccchhhhcchhhh
Confidence                                 0                         011224566788999999999998999999888


Q ss_pred             CCCCCCeeEEEecCccCCCcccccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCc
Q 038110          571 FFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQL  650 (667)
Q Consensus       571 ~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L  650 (667)
                      .+..|+.++++.+....+++.-.....++.+-.+.+.+....+.-..++++|..|+|.+|   .+..+|+.+  +++.||
T Consensus       456 ~lv~Lq~LnlS~NrFr~lP~~~y~lq~lEtllas~nqi~~vd~~~l~nm~nL~tLDL~nN---dlq~IPp~L--gnmtnL  530 (565)
T KOG0472|consen  456 SLVRLQTLNLSFNRFRMLPECLYELQTLETLLASNNQIGSVDPSGLKNMRNLTTLDLQNN---DLQQIPPIL--GNMTNL  530 (565)
T ss_pred             hhhhhheecccccccccchHHHhhHHHHHHHHhccccccccChHHhhhhhhcceeccCCC---chhhCChhh--ccccce
Confidence            888999999987754445443333333433334434444555554567799999999999   888899999  999999


Q ss_pred             cEEEeecCCC
Q 038110          651 KYLQIEGYRG  660 (667)
Q Consensus       651 ~~L~l~~~~~  660 (667)
                      ++|.|+|||-
T Consensus       531 ~hLeL~gNpf  540 (565)
T KOG0472|consen  531 RHLELDGNPF  540 (565)
T ss_pred             eEEEecCCcc
Confidence            9999999985

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

Probab=99.57  E-value=1e-16  Score=166.53  Aligned_cols=202  Identities=15%  Similarity=0.208  Sum_probs=165.2

Q ss_pred             ccccceeEEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccE
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHT  525 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~  525 (667)
                      ..+.++.||++.+|++..+-... .++.||++.+..|......+|+.+ -+|.-|.+||||.|++++.|..+..-.++-.
T Consensus        52 ~~lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~LKnsGiP~di-F~l~dLt~lDLShNqL~EvP~~LE~AKn~iV  130 (1255)
T KOG0444|consen   52 SRLQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNNLKNSGIPTDI-FRLKDLTILDLSHNQLREVPTNLEYAKNSIV  130 (1255)
T ss_pred             HHHhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhccccccCCCCchh-cccccceeeecchhhhhhcchhhhhhcCcEE
Confidence            46678999999999887665544 799999999999887657899999 5899999999999999999999999999999


Q ss_pred             EecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecC--ccCCCcccccccccceEE
Q 038110          526 LCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGH--RWSRGFYRSSNKSYRSFR  602 (667)
Q Consensus       526 L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~--~~~~~~~~~~~~~l~~l~  602 (667)
                      |+|++ +|..+|.      .-+-+|+-|-+||+++|.+..+|+.+..|.+|+.|.++.+.  .+.+..++.+ .+++.|.
T Consensus       131 LNLS~N~IetIPn------~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQLPsm-tsL~vLh  203 (1255)
T KOG0444|consen  131 LNLSYNNIETIPN------SLFINLTDLLFLDLSNNRLEMLPPQIRRLSMLQTLKLSNNPLNHFQLRQLPSM-TSLSVLH  203 (1255)
T ss_pred             EEcccCccccCCc------hHHHhhHhHhhhccccchhhhcCHHHHHHhhhhhhhcCCChhhHHHHhcCccc-hhhhhhh
Confidence            99999 8999994      45678999999999999999999998889999999888665  3344445544 4566777


Q ss_pred             eec-Ccccc-chHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCCCe
Q 038110          603 IDL-DANVR-LKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGPQ  662 (667)
Q Consensus       603 l~~-~~~~~-~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~l~  662 (667)
                      +++ +.... .+.++ ..+.+|..++|+.|   .+..+|+.+  -.+++|+.|+|++|...+
T Consensus       204 ms~TqRTl~N~Ptsl-d~l~NL~dvDlS~N---~Lp~vPecl--y~l~~LrrLNLS~N~ite  259 (1255)
T KOG0444|consen  204 MSNTQRTLDNIPTSL-DDLHNLRDVDLSEN---NLPIVPECL--YKLRNLRRLNLSGNKITE  259 (1255)
T ss_pred             cccccchhhcCCCch-hhhhhhhhcccccc---CCCcchHHH--hhhhhhheeccCcCceee
Confidence            777 33322 34444 34579999999999   777799999  899999999999997653

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

Probab=99.57  E-value=2.2e-16  Score=164.14  Aligned_cols=210  Identities=16%  Similarity=0.188  Sum_probs=166.2

Q ss_pred             CccccccceeEEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCc
Q 038110          444 SDESRVRHCTSIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTN  522 (667)
Q Consensus       444 ~~~~~~~~lr~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~  522 (667)
                      +.+-.+..+..|++++|.+.+.|... ..+++-+|.+++|.+  ..||..+|-+|+-|-+||||+|++..||+.+..|.+
T Consensus        97 ~diF~l~dLt~lDLShNqL~EvP~~LE~AKn~iVLNLS~N~I--etIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~  174 (1255)
T KOG0444|consen   97 TDIFRLKDLTILDLSHNQLREVPTNLEYAKNSIVLNLSYNNI--ETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSM  174 (1255)
T ss_pred             chhcccccceeeecchhhhhhcchhhhhhcCcEEEEcccCcc--ccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhh
Confidence            34556788999999999999999877 789999999999988  899999999999999999999999999999999999


Q ss_pred             ccEEecCC------cccccCC--------------CCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEe
Q 038110          523 LHTLCLYG------GVGVVDG--------------VKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILT  582 (667)
Q Consensus       523 L~~L~L~~------~l~~LP~--------------~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~  582 (667)
                      |++|.|++      .++.||.              .....|.++..|.||+.+|++.|++..+|..+.++.+|..|+++.
T Consensus       175 LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvDlS~N~Lp~vPecly~l~~LrrLNLS~  254 (1255)
T KOG0444|consen  175 LQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVDLSENNLPIVPECLYKLRNLRRLNLSG  254 (1255)
T ss_pred             hhhhhcCCChhhHHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhhccccccCCCcchHHHhhhhhhheeccCc
Confidence            99999998      6777883              122345677788888999999988888888888888888888875


Q ss_pred             cCccCCCcccccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCC
Q 038110          583 GHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       583 ~~~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~  659 (667)
                      +....+.--.+.-..+..|+++.|.....+.++- .+++|+.|++.+|. -..+.+|+.+  +.+.+|+.+...+|.
T Consensus       255 N~iteL~~~~~~W~~lEtLNlSrNQLt~LP~avc-KL~kL~kLy~n~Nk-L~FeGiPSGI--GKL~~Levf~aanN~  327 (1255)
T KOG0444|consen  255 NKITELNMTEGEWENLETLNLSRNQLTVLPDAVC-KLTKLTKLYANNNK-LTFEGIPSGI--GKLIQLEVFHAANNK  327 (1255)
T ss_pred             CceeeeeccHHHHhhhhhhccccchhccchHHHh-hhHHHHHHHhccCc-ccccCCccch--hhhhhhHHHHhhccc
Confidence            5533333223334456667777666555555554 44788888887771 1345689888  888999988887763

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

Probab=99.56  E-value=1.5e-14  Score=173.46  Aligned_cols=125  Identities=21%  Similarity=0.223  Sum_probs=68.6

Q ss_pred             ccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCc-cCCccccCCCcccEEe
Q 038110          449 VRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLL-SLPSSIGLLTNLHTLC  527 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-~lP~si~~L~~L~~L~  527 (667)
                      +.++++|++++|++....+...+++|++|++++|... ..+|..+ +++++|++|+|++|.+. .+|.+++++++|++|+
T Consensus       117 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        117 SSSLRYLNLSNNNFTGSIPRGSIPNLETLDLSNNMLS-GEIPNDI-GSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLT  194 (968)
T ss_pred             CCCCCEEECcCCccccccCccccCCCCEEECcCCccc-ccCChHH-hcCCCCCEEECccCcccccCChhhhhCcCCCeee
Confidence            3455555555554432212224555666666655553 4555554 66666666666666654 5566666666666666


Q ss_pred             cCC-c-ccccCCCCccChhhhcCCCCCCeEEeecCCCC-CCCCCCcCCCCCCeeEEEe
Q 038110          528 LYG-G-VGVVDGVKNASLEELKHFPNLTSLELEVNDAN-TLPRGGLFFEKPERYKILT  582 (667)
Q Consensus       528 L~~-~-l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~-~lP~~~~~l~~L~~l~~~~  582 (667)
                      |++ . ...+|       ..++++++|++|++++|.+. .+|..+..+++|+.|++..
T Consensus       195 L~~n~l~~~~p-------~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~  245 (968)
T PLN00113        195 LASNQLVGQIP-------RELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVY  245 (968)
T ss_pred             ccCCCCcCcCC-------hHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcC
Confidence            665 2 23455       55555555555555555543 3455555555555555543

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

Probab=99.50  E-value=6.5e-14  Score=168.03  Aligned_cols=201  Identities=16%  Similarity=0.122  Sum_probs=129.6

Q ss_pred             ccccceeEEEEeccCcc-ccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCc-cCCccccCCCcc
Q 038110          447 SRVRHCTSIVILDVKTY-VLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLL-SLPSSIGLLTNL  523 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~-~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-~lP~si~~L~~L  523 (667)
                      ..+.+++.|++.+|.+. .+|... .+++|++|++++|... ..+|..+ +++++|++|+|++|.+. .+|..++++++|
T Consensus       161 ~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~-~~~p~~l-~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L  238 (968)
T PLN00113        161 GSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLV-GQIPREL-GQMKSLKWIYLGYNNLSGEIPYEIGGLTSL  238 (968)
T ss_pred             hcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCc-CcCChHH-cCcCCccEEECcCCccCCcCChhHhcCCCC
Confidence            44566777777766653 344332 5667777777776654 5566655 77777777777777665 567777777777


Q ss_pred             cEEecCC-cc-cccCCCCccChhhhcCCCCCCeEEeecCCCC-CCCCCCcCCCCCCeeEEEecCcc-CCCcccccccccc
Q 038110          524 HTLCLYG-GV-GVVDGVKNASLEELKHFPNLTSLELEVNDAN-TLPRGGLFFEKPERYKILTGHRW-SRGFYRSSNKSYR  599 (667)
Q Consensus       524 ~~L~L~~-~l-~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~-~lP~~~~~l~~L~~l~~~~~~~~-~~~~~~~~~~~l~  599 (667)
                      ++|++++ .+ ..+|       ..++++++|++|++++|.+. .+|..+.++++|+.|++..+... .++........++
T Consensus       239 ~~L~L~~n~l~~~~p-------~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~  311 (968)
T PLN00113        239 NHLDLVYNNLTGPIP-------SSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLE  311 (968)
T ss_pred             CEEECcCceeccccC-------hhHhCCCCCCEEECcCCeeeccCchhHhhccCcCEEECcCCeeccCCChhHcCCCCCc
Confidence            7777766 33 3566       67777777777777777653 46666667777777776644311 2222223344566


Q ss_pred             eEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          600 SFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       600 ~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      .+.+..+......+.....+++|+.|+|++|  ...+.+|..+  ..+++|+.|++++|..
T Consensus       312 ~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n--~l~~~~p~~l--~~~~~L~~L~Ls~n~l  368 (968)
T PLN00113        312 ILHLFSNNFTGKIPVALTSLPRLQVLQLWSN--KFSGEIPKNL--GKHNNLTVLDLSTNNL  368 (968)
T ss_pred             EEECCCCccCCcCChhHhcCCCCCEEECcCC--CCcCcCChHH--hCCCCCcEEECCCCee
Confidence            6667665444433333445678888888888  4455678778  7888899998888754

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

Probab=99.46  E-value=3.6e-15  Score=131.62  Aligned_cols=164  Identities=19%  Similarity=0.278  Sum_probs=93.6

Q ss_pred             cCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-cccccCCCCccCh
Q 038110          465 LPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVDGVKNASL  543 (667)
Q Consensus       465 l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP~~~~~~~  543 (667)
                      +|....+++...|.+++|..  ..+|+++ ..+++|.+|++++|+++++|.+|+.|+.|+.|+++- .+..+|       
T Consensus        26 ~~gLf~~s~ITrLtLSHNKl--~~vppni-a~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~~lp-------   95 (264)
T KOG0617|consen   26 LPGLFNMSNITRLTLSHNKL--TVVPPNI-AELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLNILP-------   95 (264)
T ss_pred             cccccchhhhhhhhcccCce--eecCCcH-HHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhhcCc-------
Confidence            33334455555555555555  4556665 666666666666666666666666666666666665 566666       


Q ss_pred             hhhcCCCCCCeEEeecCCCC--CCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeecCccccchHHHHHHhhh
Q 038110          544 EELKHFPNLTSLELEVNDAN--TLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRG  621 (667)
Q Consensus       544 ~~l~~L~~L~~L~l~~~~l~--~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~  621 (667)
                      ..||.++-|+.||+++|++.  .+|..+..++.|..|+++.++..-++.-.+....++.+.+..+...+.+..+.. +..
T Consensus        96 rgfgs~p~levldltynnl~e~~lpgnff~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdndll~lpkeig~-lt~  174 (264)
T KOG0617|consen   96 RGFGSFPALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDNDLLSLPKEIGD-LTR  174 (264)
T ss_pred             cccCCCchhhhhhccccccccccCCcchhHHHHHHHHHhcCCCcccCChhhhhhcceeEEeeccCchhhCcHHHHH-HHH
Confidence            66666666666666666543  355555555666666555333222322222233334444444445555555543 468


Q ss_pred             cceeeccccccccccccchhh
Q 038110          622 IEELSLAGLLDQDIKNFVNEL  642 (667)
Q Consensus       622 L~~L~L~~~~~~~~~~~~~~l  642 (667)
                      |++|++++|   .+.-+|+.+
T Consensus       175 lrelhiqgn---rl~vlppel  192 (264)
T KOG0617|consen  175 LRELHIQGN---RLTVLPPEL  192 (264)
T ss_pred             HHHHhcccc---eeeecChhh
Confidence            888888888   555567666

>PLN03210 Resistant to P

Probab=99.36  E-value=6.1e-12  Score=151.77  Aligned_cols=79  Identities=20%  Similarity=0.316  Sum_probs=42.3

Q ss_pred             ccceeEEEEecc-CccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCC-CCccCCccccCCCcccEE
Q 038110          449 VRHCTSIVILDV-KTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDM-NLLSLPSSIGLLTNLHTL  526 (667)
Q Consensus       449 ~~~lr~L~l~~~-~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~-~i~~lP~si~~L~~L~~L  526 (667)
                      +.+++.|++.++ .+..+|....+++|++|++.+|... ..+|..+ +++++|++|++++| .++.+|..+ ++.+|++|
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~~L  709 (1153)
T PLN03210        633 LTGLRNIDLRGSKNLKEIPDLSMATNLETLKLSDCSSL-VELPSSI-QYLNKLEDLDMSRCENLEILPTGI-NLKSLYRL  709 (1153)
T ss_pred             CCCCCEEECCCCCCcCcCCccccCCcccEEEecCCCCc-cccchhh-hccCCCCEEeCCCCCCcCccCCcC-CCCCCCEE
Confidence            344444444433 2334444334555666666555443 5566655 66666666666665 455666554 45555555


Q ss_pred             ecCC
Q 038110          527 CLYG  530 (667)
Q Consensus       527 ~L~~  530 (667)
                      ++++
T Consensus       710 ~Lsg  713 (1153)
T PLN03210        710 NLSG  713 (1153)
T ss_pred             eCCC
Confidence            5544

syringae 6; Provisional

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

Probab=99.31  E-value=1e-14  Score=144.88  Aligned_cols=202  Identities=21%  Similarity=0.203  Sum_probs=104.6

Q ss_pred             ccccceeEEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccE
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHT  525 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~  525 (667)
                      .....+.++.+++|++..+|... .+.+|+.|+.+.|..  ..+|+++ +.+..|..|+..+|++.++|+.++++..|..
T Consensus        88 g~l~~l~~l~vs~n~ls~lp~~i~s~~~l~~l~~s~n~~--~el~~~i-~~~~~l~dl~~~~N~i~slp~~~~~~~~l~~  164 (565)
T KOG0472|consen   88 GELEALKSLNVSHNKLSELPEQIGSLISLVKLDCSSNEL--KELPDSI-GRLLDLEDLDATNNQISSLPEDMVNLSKLSK  164 (565)
T ss_pred             HHHHHHHHhhcccchHhhccHHHhhhhhhhhhhccccce--eecCchH-HHHhhhhhhhccccccccCchHHHHHHHHHH
Confidence            33444455555555555554433 444555555555544  3444444 4444444444444444445544444444444


Q ss_pred             EecCC-cccccCC----------------CCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCC
Q 038110          526 LCLYG-GVGVVDG----------------VKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSR  588 (667)
Q Consensus       526 L~L~~-~l~~LP~----------------~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~  588 (667)
                      |++.+ .+..+|.                .....|++++.|.+|..||+..|++..+| .|.....|..|+++.+....+
T Consensus       165 l~~~~n~l~~l~~~~i~m~~L~~ld~~~N~L~tlP~~lg~l~~L~~LyL~~Nki~~lP-ef~gcs~L~Elh~g~N~i~~l  243 (565)
T KOG0472|consen  165 LDLEGNKLKALPENHIAMKRLKHLDCNSNLLETLPPELGGLESLELLYLRRNKIRFLP-EFPGCSLLKELHVGENQIEML  243 (565)
T ss_pred             hhccccchhhCCHHHHHHHHHHhcccchhhhhcCChhhcchhhhHHHHhhhcccccCC-CCCccHHHHHHHhcccHHHhh
Confidence            44444 3444430                00000156666666666666666666666 335555566665543332222


Q ss_pred             Cc-ccccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCC
Q 038110          589 GF-YRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       589 ~~-~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~  659 (667)
                      +. .....+.+..+.+..+...+.+..+ ..+++|+.|++++|   .+..+|..+  +++ .|+.|-+.|||
T Consensus       244 pae~~~~L~~l~vLDLRdNklke~Pde~-clLrsL~rLDlSNN---~is~Lp~sL--gnl-hL~~L~leGNP  308 (565)
T KOG0472|consen  244 PAEHLKHLNSLLVLDLRDNKLKEVPDEI-CLLRSLERLDLSNN---DISSLPYSL--GNL-HLKFLALEGNP  308 (565)
T ss_pred             HHHHhcccccceeeeccccccccCchHH-HHhhhhhhhcccCC---ccccCCccc--ccc-eeeehhhcCCc
Confidence            21 1112233444444444444444444 34577888888877   666677777  777 78888888876

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

Probab=99.31  E-value=7.5e-13  Score=137.54  Aligned_cols=195  Identities=20%  Similarity=0.239  Sum_probs=93.0

Q ss_pred             ceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCcccEEe
Q 038110          451 HCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNLHTLC  527 (667)
Q Consensus       451 ~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L~~L~  527 (667)
                      .+|.|+++.|.+.+++..  +.-.++..|++.+|.+  ..+..+-|.++.+|-.|.|+.|+++.||.- |.+|++|+.|+
T Consensus       150 alrslDLSrN~is~i~~~sfp~~~ni~~L~La~N~I--t~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~Ld  227 (873)
T KOG4194|consen  150 ALRSLDLSRNLISEIPKPSFPAKVNIKKLNLASNRI--TTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLD  227 (873)
T ss_pred             hhhhhhhhhchhhcccCCCCCCCCCceEEeeccccc--cccccccccccchheeeecccCcccccCHHHhhhcchhhhhh
Confidence            444444444444443321  1233455555555544  334333345555555555555555555442 33355555555


Q ss_pred             cCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCccCCCc-ccccccccceEEee
Q 038110          528 LYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHRWSRGF-YRSSNKSYRSFRID  604 (667)
Q Consensus       528 L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~~~~~~-~~~~~~~l~~l~l~  604 (667)
                      |.. .++..-+      ..|..|++|+.|.+..|++..+..| +..+.++++|++..++-..+.+ ..-....++.|.++
T Consensus       228 LnrN~irive~------ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS  301 (873)
T KOG4194|consen  228 LNRNRIRIVEG------LTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLS  301 (873)
T ss_pred             ccccceeeehh------hhhcCchhhhhhhhhhcCcccccCcceeeecccceeecccchhhhhhcccccccchhhhhccc
Confidence            544 3332211      2345555555555555555555555 3355666666655444222211 01112334455555


Q ss_pred             cCccccch-HHHHHHhhhcceeeccccccccccccch-hhhhccCCCccEEEeecCC
Q 038110          605 LDANVRLK-DRLVVQLRGIEELSLAGLLDQDIKNFVN-ELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       605 ~~~~~~~~-~~~~~~l~~L~~L~L~~~~~~~~~~~~~-~l~~~~l~~L~~L~l~~~~  659 (667)
                      .|.+.... .++ ...++|+.|+|++|   .+..+++ .+  ..++.|++|.|+.|.
T Consensus       302 ~NaI~rih~d~W-sftqkL~~LdLs~N---~i~~l~~~sf--~~L~~Le~LnLs~Ns  352 (873)
T KOG4194|consen  302 YNAIQRIHIDSW-SFTQKLKELDLSSN---RITRLDEGSF--RVLSQLEELNLSHNS  352 (873)
T ss_pred             hhhhheeecchh-hhcccceeEecccc---ccccCChhHH--HHHHHhhhhcccccc
Confidence            54433322 122 12257777777777   4444443 34  566777777777764

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

Probab=99.31  E-value=5.6e-14  Score=124.15  Aligned_cols=138  Identities=20%  Similarity=0.242  Sum_probs=81.2

Q ss_pred             CccccccceeEEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCc
Q 038110          444 SDESRVRHCTSIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTN  522 (667)
Q Consensus       444 ~~~~~~~~lr~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~  522 (667)
                      +..-.+..+++|.+++|.+..+|+.. .+.+|.+|.+++|..  .++|.++ +.++.||.|+++-|++.-+|..||.++-
T Consensus        27 ~gLf~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnqi--e~lp~~i-ssl~klr~lnvgmnrl~~lprgfgs~p~  103 (264)
T KOG0617|consen   27 PGLFNMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQI--EELPTSI-SSLPKLRILNVGMNRLNILPRGFGSFPA  103 (264)
T ss_pred             ccccchhhhhhhhcccCceeecCCcHHHhhhhhhhhcccchh--hhcChhh-hhchhhhheecchhhhhcCccccCCCch
Confidence            33344455566666666665555544 555666666665554  5556555 5566666666665555555666666666


Q ss_pred             ccEEecCC---cccccCC----------------CCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEec
Q 038110          523 LHTLCLYG---GVGVVDG----------------VKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTG  583 (667)
Q Consensus       523 L~~L~L~~---~l~~LP~----------------~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~  583 (667)
                      |+.|||..   .-..||+                .-.-.|.++++|++|+.|.++.|.+-++|..++.|..|+.|++..+
T Consensus       104 levldltynnl~e~~lpgnff~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdndll~lpkeig~lt~lrelhiqgn  183 (264)
T KOG0617|consen  104 LEVLDLTYNNLNENSLPGNFFYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDNDLLSLPKEIGDLTRLRELHIQGN  183 (264)
T ss_pred             hhhhhccccccccccCCcchhHHHHHHHHHhcCCCcccCChhhhhhcceeEEeeccCchhhCcHHHHHHHHHHHHhcccc
Confidence            66665554   2223441                0001127777777777777777777777777777777777776644


Q ss_pred             C
Q 038110          584 H  584 (667)
Q Consensus       584 ~  584 (667)
                      .
T Consensus       184 r  184 (264)
T KOG0617|consen  184 R  184 (264)
T ss_pred             e
Confidence            3

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

Probab=99.28  E-value=2.3e-12  Score=133.91  Aligned_cols=207  Identities=14%  Similarity=0.127  Sum_probs=127.3

Q ss_pred             ccceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccC-CccccCCCcccE
Q 038110          449 VRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSIGLLTNLHT  525 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-P~si~~L~~L~~  525 (667)
                      ..++.+|.+.+|.|+.+...  ..+.+|.+|.++.|..  ..+|...|.+|++|+.|+|..|.|... --.|..|.+|+.
T Consensus       172 ~~ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsrNri--ttLp~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~n  249 (873)
T KOG4194|consen  172 KVNIKKLNLASNRITTLETGHFDSLNSLLTLKLSRNRI--TTLPQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQN  249 (873)
T ss_pred             CCCceEEeeccccccccccccccccchheeeecccCcc--cccCHHHhhhcchhhhhhccccceeeehhhhhcCchhhhh
Confidence            35788888888888766543  3677888888888887  678888888888888888888887755 445777777777


Q ss_pred             EecCC-cccccCCC-------------Ccc-----ChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCc
Q 038110          526 LCLYG-GVGVVDGV-------------KNA-----SLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHR  585 (667)
Q Consensus       526 L~L~~-~l~~LP~~-------------~~~-----~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~  585 (667)
                      |.|.. .+..|.+.             ...     .-..+-+|+.|+.|++++|.|..+... ....++|+.|.++.+..
T Consensus       250 lklqrN~I~kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i  329 (873)
T KOG4194|consen  250 LKLQRNDISKLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNRI  329 (873)
T ss_pred             hhhhhcCcccccCcceeeecccceeecccchhhhhhcccccccchhhhhccchhhhheeecchhhhcccceeEecccccc
Confidence            77766 45555420             000     002344555666666666655554332 23445666666655544


Q ss_pred             cCCCc-ccccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchh-hhhccCCCccEEEeecCC
Q 038110          586 WSRGF-YRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNE-LVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       586 ~~~~~-~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~-l~~~~l~~L~~L~l~~~~  659 (667)
                      ..+++ .......++.|.|+.|.+.+..+.....+++|++|+|++|  .....+-+. -.+.+++.|+.|.+.||.
T Consensus       330 ~~l~~~sf~~L~~Le~LnLs~Nsi~~l~e~af~~lssL~~LdLr~N--~ls~~IEDaa~~f~gl~~LrkL~l~gNq  403 (873)
T KOG4194|consen  330 TRLDEGSFRVLSQLEELNLSHNSIDHLAEGAFVGLSSLHKLDLRSN--ELSWCIEDAAVAFNGLPSLRKLRLTGNQ  403 (873)
T ss_pred             ccCChhHHHHHHHhhhhcccccchHHHHhhHHHHhhhhhhhcCcCC--eEEEEEecchhhhccchhhhheeecCce
Confidence            44332 1122334555666666666666666666678888888777  221111111 012568888999988874

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.26  E-value=6.2e-11  Score=134.25  Aligned_cols=115  Identities=19%  Similarity=0.262  Sum_probs=81.0

Q ss_pred             ccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEec
Q 038110          449 VRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCL  528 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L  528 (667)
                      +..++.|.+.+|++..+|... +++|++|++++|..  ..+|..++   .+|+.|+|++|.+..+|.++.  .+|++|++
T Consensus       198 p~~L~~L~Ls~N~LtsLP~~l-~~nL~~L~Ls~N~L--tsLP~~l~---~~L~~L~Ls~N~L~~LP~~l~--s~L~~L~L  269 (754)
T PRK15370        198 PEQITTLILDNNELKSLPENL-QGNIKTLYANSNQL--TSIPATLP---DTIQEMELSINRITELPERLP--SALQSLDL  269 (754)
T ss_pred             ccCCcEEEecCCCCCcCChhh-ccCCCEEECCCCcc--ccCChhhh---ccccEEECcCCccCcCChhHh--CCCCEEEC
Confidence            457888888888888777644 36888888888776  57777652   368888888888888887765  47888888


Q ss_pred             CC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEe
Q 038110          529 YG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILT  582 (667)
Q Consensus       529 ~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~  582 (667)
                      ++ .+..+|       ..+.  ++|++|++++|+++.+|..+.  .+|+.|++..
T Consensus       270 s~N~L~~LP-------~~l~--~sL~~L~Ls~N~Lt~LP~~lp--~sL~~L~Ls~  313 (754)
T PRK15370        270 FHNKISCLP-------ENLP--EELRYLSVYDNSIRTLPAHLP--SGITHLNVQS  313 (754)
T ss_pred             cCCccCccc-------cccC--CCCcEEECCCCccccCcccch--hhHHHHHhcC
Confidence            87 677777       4443  477888888877777776532  2445554443

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.25  E-value=1.7e-10  Score=129.92  Aligned_cols=190  Identities=15%  Similarity=0.112  Sum_probs=109.8

Q ss_pred             ccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEec
Q 038110          449 VRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCL  528 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L  528 (667)
                      +++++.|.+.+|++..+|..  .++|++|++++|..  ..+|.    .+..|+.|++++|+++.+|..   +++|++|+|
T Consensus       241 p~~Lk~LdLs~N~LtsLP~l--p~sL~~L~Ls~N~L--~~Lp~----lp~~L~~L~Ls~N~Lt~LP~~---p~~L~~LdL  309 (788)
T PRK15387        241 PPELRTLEVSGNQLTSLPVL--PPGLLELSIFSNPL--THLPA----LPSGLCKLWIFGNQLTSLPVL---PPGLQELSV  309 (788)
T ss_pred             CCCCcEEEecCCccCcccCc--ccccceeeccCCch--hhhhh----chhhcCEEECcCCcccccccc---ccccceeEC
Confidence            46777777777777766642  35666666666654  34443    123455666666666666642   355677777


Q ss_pred             CC-cccccCCC---------CccChhhhcCC-CCCCeEEeecCCCCCCCCCCcCC-----------------CCCCeeEE
Q 038110          529 YG-GVGVVDGV---------KNASLEELKHF-PNLTSLELEVNDANTLPRGGLFF-----------------EKPERYKI  580 (667)
Q Consensus       529 ~~-~l~~LP~~---------~~~~~~~l~~L-~~L~~L~l~~~~l~~lP~~~~~l-----------------~~L~~l~~  580 (667)
                      ++ .+..+|..         ....+..+..+ .+|++|++++|+++.+|....++                 .+|+.|++
T Consensus       310 S~N~L~~Lp~lp~~L~~L~Ls~N~L~~LP~lp~~Lq~LdLS~N~Ls~LP~lp~~L~~L~Ls~N~L~~LP~l~~~L~~LdL  389 (788)
T PRK15387        310 SDNQLASLPALPSELCKLWAYNNQLTSLPTLPSGLQELSVSDNQLASLPTLPSELYKLWAYNNRLTSLPALPSGLKELIV  389 (788)
T ss_pred             CCCccccCCCCcccccccccccCccccccccccccceEecCCCccCCCCCCCcccceehhhccccccCcccccccceEEe
Confidence            66 44444410         00001111112 36788888888877777532111                 23444444


Q ss_pred             EecCccCCCcccccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          581 LTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       581 ~~~~~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      ..+.   +..++.....++.|.++++.....+.    ...+|+.|++++|   .+..+|+.+  ..+++|+.|+|++|+-
T Consensus       390 s~N~---Lt~LP~l~s~L~~LdLS~N~LssIP~----l~~~L~~L~Ls~N---qLt~LP~sl--~~L~~L~~LdLs~N~L  457 (788)
T PRK15387        390 SGNR---LTSLPVLPSELKELMVSGNRLTSLPM----LPSGLLSLSVYRN---QLTRLPESL--IHLSSETTVNLEGNPL  457 (788)
T ss_pred             cCCc---ccCCCCcccCCCEEEccCCcCCCCCc----chhhhhhhhhccC---cccccChHH--hhccCCCeEECCCCCC
Confidence            4322   22233333455666666654443332    2246788888888   667799988  8899999999999975


Q ss_pred             C
Q 038110          661 P  661 (667)
Q Consensus       661 l  661 (667)
                      .
T Consensus       458 s  458 (788)
T PRK15387        458 S  458 (788)
T ss_pred             C
Confidence            4

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

Probab=99.15  E-value=5.1e-12  Score=138.23  Aligned_cols=207  Identities=19%  Similarity=0.215  Sum_probs=152.4

Q ss_pred             ccccceeEEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccE
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHT  525 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~  525 (667)
                      ..+.++.++++++|++..+|... .+.+|..|....|..  ..+|..+ ..+..|++|+...|.++.+|...+.+.+|++
T Consensus       238 p~p~nl~~~dis~n~l~~lp~wi~~~~nle~l~~n~N~l--~~lp~ri-~~~~~L~~l~~~~nel~yip~~le~~~sL~t  314 (1081)
T KOG0618|consen  238 PVPLNLQYLDISHNNLSNLPEWIGACANLEALNANHNRL--VALPLRI-SRITSLVSLSAAYNELEYIPPFLEGLKSLRT  314 (1081)
T ss_pred             cccccceeeecchhhhhcchHHHHhcccceEecccchhH--HhhHHHH-hhhhhHHHHHhhhhhhhhCCCcccccceeee
Confidence            45678899999999998888443 788999999988877  6788887 6788888888888888888888888889999


Q ss_pred             EecCC-cccccCC-------------------------------------------CCccChhhhcCCCCCCeEEeecCC
Q 038110          526 LCLYG-GVGVVDG-------------------------------------------VKNASLEELKHFPNLTSLELEVND  561 (667)
Q Consensus       526 L~L~~-~l~~LP~-------------------------------------------~~~~~~~~l~~L~~L~~L~l~~~~  561 (667)
                      |+|.. .+..+|.                                           -...+..-+.+..+|+.|++++|+
T Consensus       315 LdL~~N~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNr  394 (1081)
T KOG0618|consen  315 LDLQSNNLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNR  394 (1081)
T ss_pred             eeehhccccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeecccc
Confidence            99887 6666661                                           012234556778999999999999


Q ss_pred             CCCCCCC-CcCCCCCCeeEEEecCccCCCcccccccccceEEeecCccccchHHHHHHhhhcceeecccccccccc-ccc
Q 038110          562 ANTLPRG-GLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIK-NFV  639 (667)
Q Consensus       562 l~~lP~~-~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~-~~~  639 (667)
                      +..+|.. +.+|..|++|+++.+.-..++.-......++.|....|.....+  -.+.++.|+.+++++|  +... .+|
T Consensus       395 L~~fpas~~~kle~LeeL~LSGNkL~~Lp~tva~~~~L~tL~ahsN~l~~fP--e~~~l~qL~~lDlS~N--~L~~~~l~  470 (1081)
T KOG0618|consen  395 LNSFPASKLRKLEELEELNLSGNKLTTLPDTVANLGRLHTLRAHSNQLLSFP--ELAQLPQLKVLDLSCN--NLSEVTLP  470 (1081)
T ss_pred             cccCCHHHHhchHHhHHHhcccchhhhhhHHHHhhhhhHHHhhcCCceeech--hhhhcCcceEEecccc--hhhhhhhh
Confidence            9999987 45888889998885554444433333344555554445554444  3345689999999999  3222 234


Q ss_pred             hhhhhccCCCccEEEeecCCCCee
Q 038110          640 NELVKVGSSQLKYLQIEGYRGPQF  663 (667)
Q Consensus       640 ~~l~~~~l~~L~~L~l~~~~~l~~  663 (667)
                      ..+   +.++|++|+++||..+.|
T Consensus       471 ~~~---p~p~LkyLdlSGN~~l~~  491 (1081)
T KOG0618|consen  471 EAL---PSPNLKYLDLSGNTRLVF  491 (1081)
T ss_pred             hhC---CCcccceeeccCCccccc
Confidence            443   449999999999986543

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.12  E-value=2.2e-10  Score=129.83  Aligned_cols=115  Identities=18%  Similarity=0.234  Sum_probs=94.2

Q ss_pred             ceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC
Q 038110          451 HCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG  530 (667)
Q Consensus       451 ~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~  530 (667)
                      +...|.+.++++..+|... .++|+.|++++|..  ..+|..++   .+|++|++++|.++.+|..+.  .+|+.|+|++
T Consensus       179 ~~~~L~L~~~~LtsLP~~I-p~~L~~L~Ls~N~L--tsLP~~l~---~nL~~L~Ls~N~LtsLP~~l~--~~L~~L~Ls~  250 (754)
T PRK15370        179 NKTELRLKILGLTTIPACI-PEQITTLILDNNEL--KSLPENLQ---GNIKTLYANSNQLTSIPATLP--DTIQEMELSI  250 (754)
T ss_pred             CceEEEeCCCCcCcCCccc-ccCCcEEEecCCCC--CcCChhhc---cCCCEEECCCCccccCChhhh--ccccEEECcC
Confidence            3456777777888887643 46899999999987  68998774   589999999999999998775  4799999999


Q ss_pred             -cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecC
Q 038110          531 -GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGH  584 (667)
Q Consensus       531 -~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~  584 (667)
                       .+..+|       ..+.  .+|+.|++++|++..+|..+.  .+|+.|.++.+.
T Consensus       251 N~L~~LP-------~~l~--s~L~~L~Ls~N~L~~LP~~l~--~sL~~L~Ls~N~  294 (754)
T PRK15370        251 NRITELP-------ERLP--SALQSLDLFHNKISCLPENLP--EELRYLSVYDNS  294 (754)
T ss_pred             CccCcCC-------hhHh--CCCCEEECcCCccCccccccC--CCCcEEECCCCc
Confidence             888999       6664  589999999999999998753  578888887554

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.97  E-value=1.2e-09  Score=125.92  Aligned_cols=109  Identities=19%  Similarity=0.306  Sum_probs=92.3

Q ss_pred             CccccccceeEEEEeccC--ccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccC
Q 038110          444 SDESRVRHCTSIVILDVK--TYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGL  519 (667)
Q Consensus       444 ~~~~~~~~lr~L~l~~~~--~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~  519 (667)
                      +.....++++.|-+..|.  +..++.  ...++.||+|++++|... ..+|.++ ++|.+||||+|+++.+..||.++++
T Consensus       539 ~~~~~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l-~~LP~~I-~~Li~LryL~L~~t~I~~LP~~l~~  616 (889)
T KOG4658|consen  539 AGSSENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSL-SKLPSSI-GELVHLRYLDLSDTGISHLPSGLGN  616 (889)
T ss_pred             cCCCCCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCcc-CcCChHH-hhhhhhhcccccCCCccccchHHHH
Confidence            333444579999999986  566665  447999999999998766 8999999 9999999999999999999999999


Q ss_pred             CCcccEEecCC--cccccCCCCccChhhhcCCCCCCeEEeecCC
Q 038110          520 LTNLHTLCLYG--GVGVVDGVKNASLEELKHFPNLTSLELEVND  561 (667)
Q Consensus       520 L~~L~~L~L~~--~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~  561 (667)
                      |..|.||++..  .+..+|       ..+..|++|++|.+....
T Consensus       617 Lk~L~~Lnl~~~~~l~~~~-------~i~~~L~~Lr~L~l~~s~  653 (889)
T KOG4658|consen  617 LKKLIYLNLEVTGRLESIP-------GILLELQSLRVLRLPRSA  653 (889)
T ss_pred             HHhhheecccccccccccc-------chhhhcccccEEEeeccc
Confidence            99999999998  566667       667779999999987654

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

Probab=98.97  E-value=4.2e-11  Score=124.66  Aligned_cols=169  Identities=18%  Similarity=0.200  Sum_probs=113.6

Q ss_pred             cccceeEEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEE
Q 038110          448 RVRHCTSIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTL  526 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L  526 (667)
                      .+.......++.|.+.++|... .|-.|..|.+..|.+  ..+|..+ +++..|.||||+.|++..+|..+|.|+ |+.|
T Consensus        73 ~ltdt~~aDlsrNR~~elp~~~~~f~~Le~liLy~n~~--r~ip~~i-~~L~~lt~l~ls~NqlS~lp~~lC~lp-Lkvl  148 (722)
T KOG0532|consen   73 DLTDTVFADLSRNRFSELPEEACAFVSLESLILYHNCI--RTIPEAI-CNLEALTFLDLSSNQLSHLPDGLCDLP-LKVL  148 (722)
T ss_pred             cccchhhhhccccccccCchHHHHHHHHHHHHHHhccc--eecchhh-hhhhHHHHhhhccchhhcCChhhhcCc-ceeE
Confidence            3444555666777777776654 466677777777766  6777777 788888888888888888888888776 7788


Q ss_pred             ecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeec
Q 038110          527 CLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDL  605 (667)
Q Consensus       527 ~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~  605 (667)
                      -+++ ++..+|       .+++.+..|.+||.+.|.+..+|..++.|.+|+.|.+..+.-..++   .....+....|+.
T Consensus       149 i~sNNkl~~lp-------~~ig~~~tl~~ld~s~nei~slpsql~~l~slr~l~vrRn~l~~lp---~El~~LpLi~lDf  218 (722)
T KOG0532|consen  149 IVSNNKLTSLP-------EEIGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVRRNHLEDLP---EELCSLPLIRLDF  218 (722)
T ss_pred             EEecCccccCC-------cccccchhHHHhhhhhhhhhhchHHhhhHHHHHHHHHhhhhhhhCC---HHHhCCceeeeec
Confidence            7777 788888       7888777888888888888888887777777777755533322332   2222333444444


Q ss_pred             -CccccchHHHHHHhhhcceeecccc
Q 038110          606 -DANVRLKDRLVVQLRGIEELSLAGL  630 (667)
Q Consensus       606 -~~~~~~~~~~~~~l~~L~~L~L~~~  630 (667)
                       +|.+...+..+..|++|+.|.|.+|
T Consensus       219 ScNkis~iPv~fr~m~~Lq~l~LenN  244 (722)
T KOG0532|consen  219 SCNKISYLPVDFRKMRHLQVLQLENN  244 (722)
T ss_pred             ccCceeecchhhhhhhhheeeeeccC
Confidence             3333444444455677777777777

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=98.90  E-value=5.8e-09  Score=117.78  Aligned_cols=171  Identities=18%  Similarity=0.185  Sum_probs=122.1

Q ss_pred             ccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEec
Q 038110          449 VRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCL  528 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L  528 (667)
                      ..+++.|++.+|++..+|..  +++|++|++++|..  ..+|.    ..++|+.|+|++|.+..+|...   .+|+.|++
T Consensus       221 ~~~L~~L~L~~N~Lt~LP~l--p~~Lk~LdLs~N~L--tsLP~----lp~sL~~L~Ls~N~L~~Lp~lp---~~L~~L~L  289 (788)
T PRK15387        221 PAHITTLVIPDNNLTSLPAL--PPELRTLEVSGNQL--TSLPV----LPPGLLELSIFSNPLTHLPALP---SGLCKLWI  289 (788)
T ss_pred             hcCCCEEEccCCcCCCCCCC--CCCCcEEEecCCcc--CcccC----cccccceeeccCCchhhhhhch---hhcCEEEC
Confidence            45899999999999998864  68999999999977  57775    2468999999999999998743   56889999


Q ss_pred             CC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeecCc
Q 038110          529 YG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDA  607 (667)
Q Consensus       529 ~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~  607 (667)
                      ++ .+..+|       ..   +++|+.|++++|++..+|...   .+|+.|.+..+.   +..++.....++.|.|++|.
T Consensus       290 s~N~Lt~LP-------~~---p~~L~~LdLS~N~L~~Lp~lp---~~L~~L~Ls~N~---L~~LP~lp~~Lq~LdLS~N~  353 (788)
T PRK15387        290 FGNQLTSLP-------VL---PPGLQELSVSDNQLASLPALP---SELCKLWAYNNQ---LTSLPTLPSGLQELSVSDNQ  353 (788)
T ss_pred             cCCcccccc-------cc---ccccceeECCCCccccCCCCc---ccccccccccCc---cccccccccccceEecCCCc
Confidence            98 888888       42   478999999999999998742   346666665433   33344444567788888765


Q ss_pred             cccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecC
Q 038110          608 NVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGY  658 (667)
Q Consensus       608 ~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~  658 (667)
                      ....+.    ...+|+.|++++|   .+..+|..     +++|+.|++++|
T Consensus       354 Ls~LP~----lp~~L~~L~Ls~N---~L~~LP~l-----~~~L~~LdLs~N  392 (788)
T PRK15387        354 LASLPT----LPSELYKLWAYNN---RLTSLPAL-----PSGLKELIVSGN  392 (788)
T ss_pred             cCCCCC----CCcccceehhhcc---ccccCccc-----ccccceEEecCC
Confidence            554432    1246777777777   34444432     234555555554

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

Probab=98.89  E-value=4.9e-10  Score=111.97  Aligned_cols=126  Identities=17%  Similarity=0.237  Sum_probs=88.6

Q ss_pred             ccccceeEEEEeccCccccCCCC--CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCC-CCCccCCcc-ccCCCc
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVM--ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTD-MNLLSLPSS-IGLLTN  522 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~-~~i~~lP~s-i~~L~~  522 (667)
                      ..+.....|.+..|.|..+|+..  .+++||.|++++|.+  ..|-+..|.++..|-.|-+-+ |+|+.+|+. |++|..
T Consensus        64 ~LP~~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~I--s~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~s  141 (498)
T KOG4237|consen   64 NLPPETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNI--SFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSS  141 (498)
T ss_pred             cCCCcceEEEeccCCcccCChhhccchhhhceecccccch--hhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHH
Confidence            44567777888888888888654  788888888888877  456666668888877665555 788888875 778888


Q ss_pred             ccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEE
Q 038110          523 LHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKI  580 (667)
Q Consensus       523 L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~  580 (667)
                      |+-|.+.. .+.-++.      ..|..|++|..|.+..|.+..++.+ +..+..++.+++
T Consensus       142 lqrLllNan~i~Cir~------~al~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tlhl  195 (498)
T KOG4237|consen  142 LQRLLLNANHINCIRQ------DALRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTLHL  195 (498)
T ss_pred             HHHHhcChhhhcchhH------HHHHHhhhcchhcccchhhhhhccccccchhccchHhh
Confidence            88888776 4544442      5667777777777777777777764 334555555443

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

Probab=98.87  E-value=1.8e-10  Score=126.39  Aligned_cols=172  Identities=16%  Similarity=0.156  Sum_probs=127.2

Q ss_pred             ccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEec
Q 038110          449 VRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCL  528 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L  528 (667)
                      ..++++|...+|.+..+-......+|.+++++.+..  ..+|+.+ +.+.+|..|+...|.+..+|..|...++|++|.+
T Consensus       218 g~~l~~L~a~~n~l~~~~~~p~p~nl~~~dis~n~l--~~lp~wi-~~~~nle~l~~n~N~l~~lp~ri~~~~~L~~l~~  294 (1081)
T KOG0618|consen  218 GPSLTALYADHNPLTTLDVHPVPLNLQYLDISHNNL--SNLPEWI-GACANLEALNANHNRLVALPLRISRITSLVSLSA  294 (1081)
T ss_pred             CcchheeeeccCcceeeccccccccceeeecchhhh--hcchHHH-HhcccceEecccchhHHhhHHHHhhhhhHHHHHh
Confidence            357889999998877554455678999999999988  6899666 9999999999999999999999999999999999


Q ss_pred             CC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCc-CCC-CCCeeEEEecC---------------------
Q 038110          529 YG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGL-FFE-KPERYKILTGH---------------------  584 (667)
Q Consensus       529 ~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~-~l~-~L~~l~~~~~~---------------------  584 (667)
                      .. .++.+|       .....+++|++|++..|++..+|..+. .+. .|..|+.+.+.                     
T Consensus       295 ~~nel~yip-------~~le~~~sL~tLdL~~N~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~Lyla  367 (1081)
T KOG0618|consen  295 AYNELEYIP-------PFLEGLKSLRTLDLQSNNLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLA  367 (1081)
T ss_pred             hhhhhhhCC-------CcccccceeeeeeehhccccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHh
Confidence            88 899999       888899999999999999999887522 111 12222221111                     


Q ss_pred             ccCC----CcccccccccceEEeecCccccchHHHHHHhhhcceeecccc
Q 038110          585 RWSR----GFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGL  630 (667)
Q Consensus       585 ~~~~----~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~  630 (667)
                      ++.+    -........++.|.|+.|.....+.+....+..|++|+|++|
T Consensus       368 nN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSGN  417 (1081)
T KOG0618|consen  368 NNHLTDSCFPVLVNFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSGN  417 (1081)
T ss_pred             cCcccccchhhhccccceeeeeecccccccCCHHHHhchHHhHHHhcccc
Confidence            0111    111223344666667666555666666677778888888887

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

Probab=98.80  E-value=1.5e-10  Score=120.54  Aligned_cols=189  Identities=15%  Similarity=0.158  Sum_probs=130.5

Q ss_pred             EEEEeccCccccCCC---CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC
Q 038110          454 SIVILDVKTYVLPEV---MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG  530 (667)
Q Consensus       454 ~L~l~~~~~~~l~~~---~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~  530 (667)
                      +|.+++..+..+|..   ..+..-...+++.|.+  ..+|..+ +.+..|..|.|..|.+..+|..+++|..|.||+|+.
T Consensus        54 ~l~Ls~rrlk~fpr~a~~~~ltdt~~aDlsrNR~--~elp~~~-~~f~~Le~liLy~n~~r~ip~~i~~L~~lt~l~ls~  130 (722)
T KOG0532|consen   54 RLLLSGRRLKEFPRGAASYDLTDTVFADLSRNRF--SELPEEA-CAFVSLESLILYHNCIRTIPEAICNLEALTFLDLSS  130 (722)
T ss_pred             ccccccchhhcCCCccccccccchhhhhcccccc--ccCchHH-HHHHHHHHHHHHhccceecchhhhhhhHHHHhhhcc
Confidence            344554455555432   2445555667777776  6778776 778888888888888888888888888888888887


Q ss_pred             -cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeecCccc
Q 038110          531 -GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANV  609 (667)
Q Consensus       531 -~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~~  609 (667)
                       .+..+|       ..++.|+ |+.|-+++|+++.+|..++.+++|..|.++.|+...++........++.+.+..++..
T Consensus       131 NqlS~lp-------~~lC~lp-Lkvli~sNNkl~~lp~~ig~~~tl~~ld~s~nei~slpsql~~l~slr~l~vrRn~l~  202 (722)
T KOG0532|consen  131 NQLSHLP-------DGLCDLP-LKVLIVSNNKLTSLPEEIGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVRRNHLE  202 (722)
T ss_pred             chhhcCC-------hhhhcCc-ceeEEEecCccccCCcccccchhHHHhhhhhhhhhhchHHhhhHHHHHHHHHhhhhhh
Confidence             788888       7777775 7888888888888888877777777777776655544433333333444444445555


Q ss_pred             cchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          610 RLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       610 ~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      ..++... .+ .|..|++++|   .+..+|-.+  ..+..|++|.|.+||-
T Consensus       203 ~lp~El~-~L-pLi~lDfScN---kis~iPv~f--r~m~~Lq~l~LenNPL  246 (722)
T KOG0532|consen  203 DLPEELC-SL-PLIRLDFSCN---KISYLPVDF--RKMRHLQVLQLENNPL  246 (722)
T ss_pred             hCCHHHh-CC-ceeeeecccC---ceeecchhh--hhhhhheeeeeccCCC
Confidence            5555554 22 6788888887   666678777  7888888888888774

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

Probab=98.77  E-value=4.6e-09  Score=97.40  Aligned_cols=127  Identities=15%  Similarity=0.197  Sum_probs=51.7

Q ss_pred             CccccccceeEEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccc-cCCC
Q 038110          444 SDESRVRHCTSIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSI-GLLT  521 (667)
Q Consensus       444 ~~~~~~~~lr~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si-~~L~  521 (667)
                      +....+.+++.|++.+|.+..+.... .+.+|++|++++|..  ..++.  +..++.|+.|++++|.|+++++.+ ..++
T Consensus        13 ~~~~n~~~~~~L~L~~n~I~~Ie~L~~~l~~L~~L~Ls~N~I--~~l~~--l~~L~~L~~L~L~~N~I~~i~~~l~~~lp   88 (175)
T PF14580_consen   13 AQYNNPVKLRELNLRGNQISTIENLGATLDKLEVLDLSNNQI--TKLEG--LPGLPRLKTLDLSNNRISSISEGLDKNLP   88 (175)
T ss_dssp             -----------------------S--TT-TT--EEE-TTS----S--TT------TT--EEE--SS---S-CHHHHHH-T
T ss_pred             cccccccccccccccccccccccchhhhhcCCCEEECCCCCC--ccccC--ccChhhhhhcccCCCCCCccccchHHhCC
Confidence            33444557899999999998876544 578999999999987  56654  488999999999999999997765 3689


Q ss_pred             cccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC----CcCCCCCCeeE
Q 038110          522 NLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG----GLFFEKPERYK  579 (667)
Q Consensus       522 ~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~----~~~l~~L~~l~  579 (667)
                      +|+.|+|++ .+..+-     .+..+..+++|+.|++.+|.+...+..    +..+++|+.|+
T Consensus        89 ~L~~L~L~~N~I~~l~-----~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD  146 (175)
T PF14580_consen   89 NLQELYLSNNKISDLN-----ELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLD  146 (175)
T ss_dssp             T--EEE-TTS---SCC-----CCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEET
T ss_pred             cCCEEECcCCcCCChH-----HhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeC
Confidence            999999998 454443     124678899999999999988776653    44788888874

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

Probab=98.70  E-value=8.6e-09  Score=110.82  Aligned_cols=175  Identities=22%  Similarity=0.239  Sum_probs=104.4

Q ss_pred             CCCCccEEEccCCCCccccccHHHHhCCC-CCcEEEcCCCCCccCCccccCCCcccEEecCC-cccccCCCCccChhhhc
Q 038110          470 ECPQLKLFSMPAEKNSFFAIPHNLFRSML-QVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELK  547 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~-~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~  547 (667)
                      .++.+..|.+.++..  ..+|+.. ..+. +|+.|++++|.+..+|..++.+++|+.|+++. .+..+|       ...+
T Consensus       114 ~~~~l~~L~l~~n~i--~~i~~~~-~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N~l~~l~-------~~~~  183 (394)
T COG4886         114 ELTNLTSLDLDNNNI--TDIPPLI-GLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDLP-------KLLS  183 (394)
T ss_pred             cccceeEEecCCccc--ccCcccc-ccchhhcccccccccchhhhhhhhhccccccccccCCchhhhhh-------hhhh
Confidence            456677777766665  5666655 5553 77777777777777776777777777777777 677777       5555


Q ss_pred             CCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeecCccccchHHHHHHhhhcceeec
Q 038110          548 HFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSL  627 (667)
Q Consensus       548 ~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L  627 (667)
                      .+++|+.|++++|++..+|..+..+..|+.+.+..+..............+..+.+..+..... ......+.+++.|++
T Consensus       184 ~~~~L~~L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~n~~~~~-~~~~~~l~~l~~L~~  262 (394)
T COG4886         184 NLSNLNNLDLSGNKISDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNKLEDL-PESIGNLSNLETLDL  262 (394)
T ss_pred             hhhhhhheeccCCccccCchhhhhhhhhhhhhhcCCcceecchhhhhcccccccccCCceeeec-cchhccccccceecc
Confidence            6777777777777777777654445556666555442122111111111111122222221111 233344567888888


Q ss_pred             cccccccccccchhhhhccCCCccEEEeecCCCC
Q 038110          628 AGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       628 ~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~l  661 (667)
                      ++|   ....++. +  .++.+|+.|+++++...
T Consensus       263 s~n---~i~~i~~-~--~~~~~l~~L~~s~n~~~  290 (394)
T COG4886         263 SNN---QISSISS-L--GSLTNLRELDLSGNSLS  290 (394)
T ss_pred             ccc---ccccccc-c--cccCccCEEeccCcccc
Confidence            888   5555555 6  78888888888887654

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

Probab=98.67  E-value=2.3e-08  Score=104.10  Aligned_cols=127  Identities=17%  Similarity=0.108  Sum_probs=69.8

Q ss_pred             ccceeEEEEeccCccc-cCCCC-CC---CCccEEEccCCCCcc---ccccHHHHhCC-CCCcEEEcCCCCCc-----cCC
Q 038110          449 VRHCTSIVILDVKTYV-LPEVM-EC---PQLKLFSMPAEKNSF---FAIPHNLFRSM-LQVRVLDLTDMNLL-----SLP  514 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~-l~~~~-~~---~~Lr~L~l~~~~~~~---~~lp~~~~~~l-~~Lr~L~L~~~~i~-----~lP  514 (667)
                      ..+++.|++.+|.+.. .+... .+   ++|+.|++++|....   ..+...+ ..+ ++|+.|+|++|.++     .++
T Consensus        80 ~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l-~~~~~~L~~L~L~~n~l~~~~~~~~~  158 (319)
T cd00116          80 GCGLQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGL-KDLPPALEKLVLGRNRLEGASCEALA  158 (319)
T ss_pred             cCceeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCccchHHHHHHHHHH-HhCCCCceEEEcCCCcCCchHHHHHH
Confidence            4567777777665532 11110 11   447777777665420   0122222 455 67777777777665     344


Q ss_pred             ccccCCCcccEEecCC-ccc-----ccCCCCccChhhhcCCCCCCeEEeecCCCCCC-----CCCCcCCCCCCeeEEEec
Q 038110          515 SSIGLLTNLHTLCLYG-GVG-----VVDGVKNASLEELKHFPNLTSLELEVNDANTL-----PRGGLFFEKPERYKILTG  583 (667)
Q Consensus       515 ~si~~L~~L~~L~L~~-~l~-----~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~l-----P~~~~~l~~L~~l~~~~~  583 (667)
                      ..+..+.+|++|++++ .+.     .++       ..+..+++|++|++++|.+...     +..+..+++|+.|+++.+
T Consensus       159 ~~~~~~~~L~~L~l~~n~l~~~~~~~l~-------~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n  231 (319)
T cd00116         159 KALRANRDLKELNLANNGIGDAGIRALA-------EGLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDN  231 (319)
T ss_pred             HHHHhCCCcCEEECcCCCCchHHHHHHH-------HHHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCC
Confidence            4556666777777766 232     334       4555566777777777765422     222335566777766543

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

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

Probab=98.63  E-value=3.8e-08  Score=91.27  Aligned_cols=111  Identities=23%  Similarity=0.239  Sum_probs=35.8

Q ss_pred             ccCccccCCCCCCCCccEEEccCCCCccccccHHHHh-CCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-cccccC
Q 038110          459 DVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFR-SMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVD  536 (667)
Q Consensus       459 ~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~-~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP  536 (667)
                      .+.+...+...+..+++.|++.||..  ..+. .+ + .+.+|+.|+|++|.|+.++ .+..|.+|++|++++ .+..++
T Consensus         6 ~~~i~~~~~~~n~~~~~~L~L~~n~I--~~Ie-~L-~~~l~~L~~L~Ls~N~I~~l~-~l~~L~~L~~L~L~~N~I~~i~   80 (175)
T PF14580_consen    6 ANMIEQIAQYNNPVKLRELNLRGNQI--STIE-NL-GATLDKLEVLDLSNNQITKLE-GLPGLPRLKTLDLSNNRISSIS   80 (175)
T ss_dssp             ---------------------------------S---TT-TT--EEE-TTS--S--T-T----TT--EEE--SS---S-C
T ss_pred             cccccccccccccccccccccccccc--cccc-ch-hhhhcCCCEEECCCCCCcccc-CccChhhhhhcccCCCCCCccc
Confidence            34555666666677889999999887  4443 33 4 5789999999999999886 477899999999998 788887


Q ss_pred             CCCccChhhh-cCCCCCCeEEeecCCCCCCCCC--CcCCCCCCeeEEE
Q 038110          537 GVKNASLEEL-KHFPNLTSLELEVNDANTLPRG--GLFFEKPERYKIL  581 (667)
Q Consensus       537 ~~~~~~~~~l-~~L~~L~~L~l~~~~l~~lP~~--~~~l~~L~~l~~~  581 (667)
                             ..+ ..+++|++|++++|++..+-.-  +..+++|+.|.+.
T Consensus        81 -------~~l~~~lp~L~~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~  121 (175)
T PF14580_consen   81 -------EGLDKNLPNLQELYLSNNKISDLNELEPLSSLPKLRVLSLE  121 (175)
T ss_dssp             -------HHHHHH-TT--EEE-TTS---SCCCCGGGGG-TT--EEE-T
T ss_pred             -------cchHHhCCcCCEEECcCCcCCChHHhHHHHcCCCcceeecc
Confidence                   656 4689999999999988776542  3456677777554

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

Probab=98.53  E-value=8.5e-09  Score=103.28  Aligned_cols=84  Identities=12%  Similarity=0.151  Sum_probs=60.4

Q ss_pred             cccccceeEEEEeccCccccCCCC--CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCC-ccccCCCc
Q 038110          446 ESRVRHCTSIVILDVKTYVLPEVM--ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLP-SSIGLLTN  522 (667)
Q Consensus       446 ~~~~~~lr~L~l~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP-~si~~L~~  522 (667)
                      ....+++|+|++++|+|+.+.+..  .+++|-+|.+.+++.. ..+|.+.|++|..|+-|.+.-|.+..++ ..+..|++
T Consensus        87 F~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI-~~l~k~~F~gL~slqrLllNan~i~Cir~~al~dL~~  165 (498)
T KOG4237|consen   87 FKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKI-TDLPKGAFGGLSSLQRLLLNANHINCIRQDALRDLPS  165 (498)
T ss_pred             ccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCch-hhhhhhHhhhHHHHHHHhcChhhhcchhHHHHHHhhh
Confidence            356789999999999998886543  7888888888774333 7888888888887777777777666543 34555666


Q ss_pred             ccEEecCC
Q 038110          523 LHTLCLYG  530 (667)
Q Consensus       523 L~~L~L~~  530 (667)
                      |..|.+..
T Consensus       166 l~lLslyD  173 (498)
T KOG4237|consen  166 LSLLSLYD  173 (498)
T ss_pred             cchhcccc
Confidence            65555544

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

Probab=98.51  E-value=4.6e-08  Score=101.92  Aligned_cols=180  Identities=18%  Similarity=0.087  Sum_probs=85.7

Q ss_pred             CCCCccEEEccCCCCccccccHHHHhCCCC---CcEEEcCCCCCc-----cCCccccCC-CcccEEecCC-ccc-----c
Q 038110          470 ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQ---VRVLDLTDMNLL-----SLPSSIGLL-TNLHTLCLYG-GVG-----V  534 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~---Lr~L~L~~~~i~-----~lP~si~~L-~~L~~L~L~~-~l~-----~  534 (667)
                      .+++|+.|++++|... ...+.. |..+..   |++|++++|.+.     .++.++..+ ++|+.|++++ .+.     .
T Consensus        79 ~~~~L~~L~l~~~~~~-~~~~~~-~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~  156 (319)
T cd00116          79 KGCGLQELDLSDNALG-PDGCGV-LESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEA  156 (319)
T ss_pred             hcCceeEEEccCCCCC-hhHHHH-HHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHH
Confidence            3556666666666553 222222 244443   666666666654     233445555 6666666666 222     2


Q ss_pred             cCCCCccChhhhcCCCCCCeEEeecCCCCC-----CCCCCcCCCCCCeeEEEecCccC-----CCcccccccccceEEee
Q 038110          535 VDGVKNASLEELKHFPNLTSLELEVNDANT-----LPRGGLFFEKPERYKILTGHRWS-----RGFYRSSNKSYRSFRID  604 (667)
Q Consensus       535 LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~-----lP~~~~~l~~L~~l~~~~~~~~~-----~~~~~~~~~~l~~l~l~  604 (667)
                      ++       ..+..+++|++|++++|.+..     ++..+..+++|+.|++..+....     +.........++.+.++
T Consensus       157 ~~-------~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls  229 (319)
T cd00116         157 LA-------KALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLG  229 (319)
T ss_pred             HH-------HHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecC
Confidence            33       455556666666666666542     22222334566666655332110     00111122345555555


Q ss_pred             cCcccc-chHHHHHHh----hhcceeeccccccc--cccccchhhhhccCCCccEEEeecCCC
Q 038110          605 LDANVR-LKDRLVVQL----RGIEELSLAGLLDQ--DIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       605 ~~~~~~-~~~~~~~~l----~~L~~L~L~~~~~~--~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      ++.... ....+...+    +.|++|++++|.-.  +...+...+  ..+++|+.|++++|.-
T Consensus       230 ~n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~~~--~~~~~L~~l~l~~N~l  290 (319)
T cd00116         230 DNNLTDAGAAALASALLSPNISLLTLSLSCNDITDDGAKDLAEVL--AEKESLLELDLRGNKF  290 (319)
T ss_pred             CCcCchHHHHHHHHHHhccCCCceEEEccCCCCCcHHHHHHHHHH--hcCCCccEEECCCCCC
Confidence            533322 111111221    46666666666110  122334444  4456666666666643

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).

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

Probab=98.49  E-value=3.2e-08  Score=95.59  Aligned_cols=79  Identities=22%  Similarity=0.229  Sum_probs=60.4

Q ss_pred             hCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCC
Q 038110          495 RSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFE  573 (667)
Q Consensus       495 ~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~  573 (667)
                      ...+.|..||||+|.|+.+-+|+.-++.++.|++++ .+..+.        ++..|++|++||+++|.+.++-.+-..|.
T Consensus       281 dTWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~--------nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLG  352 (490)
T KOG1259|consen  281 DTWQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQ--------NLAELPQLQLLDLSGNLLAECVGWHLKLG  352 (490)
T ss_pred             chHhhhhhccccccchhhhhhhhhhccceeEEeccccceeeeh--------hhhhcccceEeecccchhHhhhhhHhhhc
Confidence            455678889999999999988988889999999998 666664        57888899999999988776655433455


Q ss_pred             CCCeeEEE
Q 038110          574 KPERYKIL  581 (667)
Q Consensus       574 ~L~~l~~~  581 (667)
                      +.+.|.+.
T Consensus       353 NIKtL~La  360 (490)
T KOG1259|consen  353 NIKTLKLA  360 (490)
T ss_pred             CEeeeehh
Confidence            55555444

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

Probab=98.48  E-value=8.4e-08  Score=103.17  Aligned_cols=171  Identities=19%  Similarity=0.226  Sum_probs=127.9

Q ss_pred             cccceeEEEEeccCccccCCCCCCC--CccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccE
Q 038110          448 RVRHCTSIVILDVKTYVLPEVMECP--QLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHT  525 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~~~~~--~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~  525 (667)
                      ..+.+..+.+.+|.+..++......  +|+.|++++|..  ..+|..+ ..++.|+.|++++|.+..+|...+.+.+|+.
T Consensus       114 ~~~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N~i--~~l~~~~-~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~  190 (394)
T COG4886         114 ELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKI--ESLPSPL-RNLPNLKNLDLSFNDLSDLPKLLSNLSNLNN  190 (394)
T ss_pred             cccceeEEecCCcccccCccccccchhhcccccccccch--hhhhhhh-hccccccccccCCchhhhhhhhhhhhhhhhh
Confidence            3467899999999999998877554  899999999987  6787666 8999999999999999999998889999999


Q ss_pred             EecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEee
Q 038110          526 LCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRID  604 (667)
Q Consensus       526 L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~  604 (667)
                      |++++ .+..+|       ..+..+.+|+.|.+++|.+..+|..+..+..+..+.+..+....+.........++.+.++
T Consensus       191 L~ls~N~i~~l~-------~~~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~n~~~~~~~~~~~l~~l~~L~~s  263 (394)
T COG4886         191 LDLSGNKISDLP-------PEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNKLEDLPESIGNLSNLETLDLS  263 (394)
T ss_pred             eeccCCccccCc-------hhhhhhhhhhhhhhcCCcceecchhhhhcccccccccCCceeeeccchhccccccceeccc
Confidence            99999 899999       6767777799999988876667776667777776654433322222333333445566666


Q ss_pred             cCccccchHHHHHHhhhcceeecccc
Q 038110          605 LDANVRLKDRLVVQLRGIEELSLAGL  630 (667)
Q Consensus       605 ~~~~~~~~~~~~~~l~~L~~L~L~~~  630 (667)
                      .+.......  ...+.+++.|+++++
T Consensus       264 ~n~i~~i~~--~~~~~~l~~L~~s~n  287 (394)
T COG4886         264 NNQISSISS--LGSLTNLRELDLSGN  287 (394)
T ss_pred             ccccccccc--ccccCccCEEeccCc
Confidence            554444433  344578888888887

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

Probab=98.44  E-value=2e-08  Score=96.96  Aligned_cols=131  Identities=17%  Similarity=0.137  Sum_probs=108.3

Q ss_pred             ccccceeEEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccE
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHT  525 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~  525 (667)
                      +-++.+..+++++|.+..+..+. -.|.+|.|+++.|..  ..+.. + ..+.+|..||||+|.+.++-.+=.+|-|.++
T Consensus       281 dTWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i--~~v~n-L-a~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKt  356 (490)
T KOG1259|consen  281 DTWQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRI--RTVQN-L-AELPQLQLLDLSGNLLAECVGWHLKLGNIKT  356 (490)
T ss_pred             chHhhhhhccccccchhhhhhhhhhccceeEEeccccce--eeehh-h-hhcccceEeecccchhHhhhhhHhhhcCEee
Confidence            45678899999999998887666 579999999999987  34433 4 8999999999999999988777778889999


Q ss_pred             EecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCC--CCcCCCCCCeeEEEecCccCCC
Q 038110          526 LCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPR--GGLFFEKPERYKILTGHRWSRG  589 (667)
Q Consensus       526 L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~--~~~~l~~L~~l~~~~~~~~~~~  589 (667)
                      |.|.+ .++.|.        .+++|.+|..||+++|++..+..  +|++|+.|+++.+..+.-..++
T Consensus       357 L~La~N~iE~LS--------GL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~NPl~~~v  415 (490)
T KOG1259|consen  357 LKLAQNKIETLS--------GLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTGNPLAGSV  415 (490)
T ss_pred             eehhhhhHhhhh--------hhHhhhhheeccccccchhhHHHhcccccccHHHHHhhcCCCccccc
Confidence            99998 677774        79999999999999999988765  5889999999987755544433

>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=98.30  E-value=4.8e-07  Score=68.72  Aligned_cols=55  Identities=31%  Similarity=0.465  Sum_probs=25.7

Q ss_pred             CccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCcccEEecC
Q 038110          473 QLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLHTLCLY  529 (667)
Q Consensus       473 ~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~~L~L~  529 (667)
                      +|++|++.+|..  ..+|+..|.++++|++|++++|.++.+|+ .+..+++|++|+++
T Consensus         2 ~L~~L~l~~n~l--~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~   57 (61)
T PF13855_consen    2 NLESLDLSNNKL--TEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLS   57 (61)
T ss_dssp             TESEEEETSSTE--SEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEET
T ss_pred             cCcEEECCCCCC--CccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCc
Confidence            444555554433  34444444555555555555555544432 34444444444443

...

>PLN03150 hypothetical protein; Provisional

Probab=98.28  E-value=1.9e-06  Score=97.39  Aligned_cols=103  Identities=17%  Similarity=0.256  Sum_probs=82.6

Q ss_pred             CccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCc-cCCccccCCCcccEEecCC-cc-cccCCCCccChhhhcCC
Q 038110          473 QLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLL-SLPSSIGLLTNLHTLCLYG-GV-GVVDGVKNASLEELKHF  549 (667)
Q Consensus       473 ~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-~lP~si~~L~~L~~L~L~~-~l-~~LP~~~~~~~~~l~~L  549 (667)
                      .++.|++.+|... ..+|..+ +++++|++|+|++|.+. .+|.+++.|.+|++|+|++ .+ ..+|       ..+++|
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  489 (623)
T PLN03150        419 FIDGLGLDNQGLR-GFIPNDI-SKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIP-------ESLGQL  489 (623)
T ss_pred             EEEEEECCCCCcc-ccCCHHH-hCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCc-------hHHhcC
Confidence            4778888888876 7888886 89999999999999987 7899999999999999998 44 4678       889999


Q ss_pred             CCCCeEEeecCCCC-CCCCCCcCC-CCCCeeEEEecC
Q 038110          550 PNLTSLELEVNDAN-TLPRGGLFF-EKPERYKILTGH  584 (667)
Q Consensus       550 ~~L~~L~l~~~~l~-~lP~~~~~l-~~L~~l~~~~~~  584 (667)
                      ++|++|++++|.+. .+|..+..+ .++..+.+..+.
T Consensus       490 ~~L~~L~Ls~N~l~g~iP~~l~~~~~~~~~l~~~~N~  526 (623)
T PLN03150        490 TSLRILNLNGNSLSGRVPAALGGRLLHRASFNFTDNA  526 (623)
T ss_pred             CCCCEEECcCCcccccCChHHhhccccCceEEecCCc
Confidence            99999999999865 678775532 355566655443

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

Probab=98.23  E-value=7.6e-07  Score=67.64  Aligned_cols=59  Identities=31%  Similarity=0.468  Sum_probs=47.4

Q ss_pred             CCCcEEEcCCCCCccCCc-cccCCCcccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCC
Q 038110          498 LQVRVLDLTDMNLLSLPS-SIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDA  562 (667)
Q Consensus       498 ~~Lr~L~L~~~~i~~lP~-si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l  562 (667)
                      ++|++|++++|+++.+|. .+..+++|++|++++ .+..+|.      ..|.++++|++|++++|++
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~------~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPP------DAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEET------TTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCH------HHHcCCCCCCEEeCcCCcC
Confidence            468888888888888875 577888888888888 7777773      5678888888888888763

...

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=98.18  E-value=0.0001  Score=74.65  Aligned_cols=168  Identities=17%  Similarity=0.155  Sum_probs=103.5

Q ss_pred             CCCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHH-HH----HHHhcCCeEEEEE
Q 038110          176 KNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRAS-LC----NQLKKNKTILMIL  250 (667)
Q Consensus       176 ~~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~-l~----~~L~~~kr~LlVL  250 (667)
                      +.||||+++.+++..... .+ ..+|+. ....+..++++.|...++.+........... +.    .....+++++||+
T Consensus        53 G~GKTtl~~~l~~~l~~~-~~-~~~~~~-~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~~~~~~~~~vlii  129 (269)
T TIGR03015        53 GAGKTTLIRNLLKRLDQE-RV-VAAKLV-NTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIEQFAAGKRALLVV  129 (269)
T ss_pred             CCCHHHHHHHHHHhcCCC-Ce-EEeeee-CCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHhCCCCeEEEE
Confidence            347899999999986632 11 233433 3456788999999999876544332222222 33    3333478899999


Q ss_pred             eCCCCc--ccccccCCCc---CCCCCCcEEEEecCChhhhh--------hccCCcceEecCCCCHHHHHHHHH-------
Q 038110          251 DNIWEN--LDLLAIGIPH---GNDHKGCKILLTARSEDTLS--------RKMDSKQNFSVGILKEEEAWSGEF-------  310 (667)
Q Consensus       251 Ddvw~~--~~~~~l~~~~---~~~~~gs~iivTTr~~~va~--------~~~~~~~~~~l~~L~~~~s~~Lf~-------  310 (667)
                      ||+|..  ..++.+....   .+......|++|....-...        ........+++++++.+|..+++.       
T Consensus       130 De~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~~~~l~~~l~~~g  209 (269)
T TIGR03015       130 DEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRIIASCHLGPLDREETREYIEHRLERAG  209 (269)
T ss_pred             ECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHHHHHcCchhHHHHhheeeeeeCCCCCHHHHHHHHHHHHHHcC
Confidence            999985  3455443211   11122234455554321100        001113467899999999988765       


Q ss_pred             ------------HHHHHHhCCcchHHHHHHHHHc------cC---ChHHHHHHHHHh
Q 038110          311 ------------KWVAKECAGLPVSIVTVSRALR------NK---SLFEWKDALQQL  346 (667)
Q Consensus       311 ------------~~i~~~c~GlPLai~~~g~~L~------~k---~~~~W~~~l~~l  346 (667)
                                  +.|++.|+|.|..|..++..+-      ++   +.+.++.++..+
T Consensus       210 ~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~~~  266 (269)
T TIGR03015       210 NRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIAEI  266 (269)
T ss_pred             CCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence                        7889999999999999988872      11   666666666554

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

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

Probab=98.14  E-value=2.6e-07  Score=94.14  Aligned_cols=84  Identities=15%  Similarity=0.129  Sum_probs=48.3

Q ss_pred             ccccceeEEEEeccCccccCC---CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc--ccCCC
Q 038110          447 SRVRHCTSIVILDVKTYVLPE---VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS--IGLLT  521 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~---~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s--i~~L~  521 (667)
                      ...+++|.+++.++.+...+.   ...|++++.|++++|-+.-....-.+...|++|+.|+|+.|++...-++  -..+.
T Consensus       118 sn~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~  197 (505)
T KOG3207|consen  118 SNLKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLS  197 (505)
T ss_pred             hhHHhhhheeecCccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhh
Confidence            345567777777665554442   2257777777777765431112233446777777777777765533222  23456


Q ss_pred             cccEEecCC
Q 038110          522 NLHTLCLYG  530 (667)
Q Consensus       522 ~L~~L~L~~  530 (667)
                      ||+.|.|+.
T Consensus       198 ~lK~L~l~~  206 (505)
T KOG3207|consen  198 HLKQLVLNS  206 (505)
T ss_pred             hhheEEecc
Confidence            677777765

>PLN03150 hypothetical protein; Provisional

Probab=98.14  E-value=6.7e-06  Score=93.06  Aligned_cols=102  Identities=25%  Similarity=0.295  Sum_probs=86.6

Q ss_pred             ceeEEEEeccCcc-ccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCc-cCCccccCCCcccEEe
Q 038110          451 HCTSIVILDVKTY-VLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLL-SLPSSIGLLTNLHTLC  527 (667)
Q Consensus       451 ~lr~L~l~~~~~~-~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-~lP~si~~L~~L~~L~  527 (667)
                      .++.|.+.+|.+. .+|... .+++|+.|++++|... +.+|..+ +.+++|++|+|++|.+. .+|+++++|.+|++|+
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~  496 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIR-GNIPPSL-GSITSLEVLDLSYNSFNGSIPESLGQLTSLRILN  496 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCccc-CcCChHH-hCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEE
Confidence            4788999988874 455433 7899999999999886 7899886 99999999999999998 7899999999999999


Q ss_pred             cCC--cccccCCCCccChhhhcCC-CCCCeEEeecCC
Q 038110          528 LYG--GVGVVDGVKNASLEELKHF-PNLTSLELEVND  561 (667)
Q Consensus       528 L~~--~l~~LP~~~~~~~~~l~~L-~~L~~L~l~~~~  561 (667)
                      |++  ....+|       ..++.+ .++..+++.+|.
T Consensus       497 Ls~N~l~g~iP-------~~l~~~~~~~~~l~~~~N~  526 (623)
T PLN03150        497 LNGNSLSGRVP-------AALGGRLLHRASFNFTDNA  526 (623)
T ss_pred             CcCCcccccCC-------hHHhhccccCceEEecCCc
Confidence            998  445788       778764 577899999885

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

Probab=97.98  E-value=7.4e-07  Score=96.17  Aligned_cols=193  Identities=18%  Similarity=0.125  Sum_probs=106.3

Q ss_pred             cceeEEEEeccCccccCC-CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEec
Q 038110          450 RHCTSIVILDVKTYVLPE-VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCL  528 (667)
Q Consensus       450 ~~lr~L~l~~~~~~~l~~-~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L  528 (667)
                      ..+..+++..|.+..+.. ...+++|..|++.+|..  ..+...+ ..+.+|++|+|++|.|+.+. .+..|..|+.|++
T Consensus        72 ~~l~~l~l~~n~i~~~~~~l~~~~~l~~l~l~~n~i--~~i~~~l-~~~~~L~~L~ls~N~I~~i~-~l~~l~~L~~L~l  147 (414)
T KOG0531|consen   72 TSLKELNLRQNLIAKILNHLSKLKSLEALDLYDNKI--EKIENLL-SSLVNLQVLDLSFNKITKLE-GLSTLTLLKELNL  147 (414)
T ss_pred             HhHHhhccchhhhhhhhcccccccceeeeeccccch--hhcccch-hhhhcchheecccccccccc-chhhccchhhhee
Confidence            444455556665554222 33567777777777765  4444433 67778888888888777764 3566666777777


Q ss_pred             CC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCccCCCcccccccccceEEeecC
Q 038110          529 YG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLD  606 (667)
Q Consensus       529 ~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~  606 (667)
                      .+ .+..++        .+..+++|+.+++++|.+..++.. ...+.+|+.+.+..+....+..+... ..+..+.+..+
T Consensus       148 ~~N~i~~~~--------~~~~l~~L~~l~l~~n~i~~ie~~~~~~~~~l~~l~l~~n~i~~i~~~~~~-~~l~~~~l~~n  218 (414)
T KOG0531|consen  148 SGNLISDIS--------GLESLKSLKLLDLSYNRIVDIENDELSELISLEELDLGGNSIREIEGLDLL-KKLVLLSLLDN  218 (414)
T ss_pred             ccCcchhcc--------CCccchhhhcccCCcchhhhhhhhhhhhccchHHHhccCCchhcccchHHH-HHHHHhhcccc
Confidence            77 555554        455577777888877777766662 23556666665553332222111111 11111111111


Q ss_pred             ccccchHHHHHH-hhhcceeeccccccccccccchhhhhccCCCccEEEeecCCCC
Q 038110          607 ANVRLKDRLVVQ-LRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       607 ~~~~~~~~~~~~-l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~l  661 (667)
                      ..... ...... ..+|+.|++.+|   +...++..+  ..+.++..|++.++...
T Consensus       219 ~i~~~-~~l~~~~~~~L~~l~l~~n---~i~~~~~~~--~~~~~l~~l~~~~n~~~  268 (414)
T KOG0531|consen  219 KISKL-EGLNELVMLHLRELYLSGN---RISRSPEGL--ENLKNLPVLDLSSNRIS  268 (414)
T ss_pred             cceec-cCcccchhHHHHHHhcccC---ccccccccc--cccccccccchhhcccc
Confidence            11111 111111 014778888887   444444555  66777777777766543

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.88  E-value=2.7e-05  Score=81.17  Aligned_cols=58  Identities=17%  Similarity=0.209  Sum_probs=27.6

Q ss_pred             CCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCC-CCccCCccccCCCcccEEecCC--cccccC
Q 038110          471 CPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDM-NLLSLPSSIGLLTNLHTLCLYG--GVGVVD  536 (667)
Q Consensus       471 ~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~-~i~~lP~si~~L~~L~~L~L~~--~l~~LP  536 (667)
                      +.+++.|++++|..  ..+|. +   ..+|+.|.+++| .++.+|..+.  .+|++|++++  .+..+|
T Consensus        51 ~~~l~~L~Is~c~L--~sLP~-L---P~sLtsL~Lsnc~nLtsLP~~LP--~nLe~L~Ls~Cs~L~sLP  111 (426)
T PRK15386         51 ARASGRLYIKDCDI--ESLPV-L---PNELTEITIENCNNLTTLPGSIP--EGLEKLTVCHCPEISGLP  111 (426)
T ss_pred             hcCCCEEEeCCCCC--cccCC-C---CCCCcEEEccCCCCcccCCchhh--hhhhheEccCcccccccc
Confidence            45555555555532  44441 1   224555555553 3445554442  3555555554  344444

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.85  E-value=0.00018  Score=86.24  Aligned_cols=186  Identities=12%  Similarity=0.120  Sum_probs=114.6

Q ss_pred             CCCcHHHHHHHHHhccCCCCCEEEEEEeCC-CCCHHHHHHHHHHHhCCCCCCC-------------Ch-hHHHH-HHHHH
Q 038110          177 NPDTTLAKEVAWKAENDKLFDQAVFAEVSQ-SHDIRKIQGEIADKLGLTFHEE-------------SE-SGRAS-LCNQL  240 (667)
Q Consensus       177 ~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~-~~~~~~i~~~i~~~l~~~~~~~-------------~~-~~~~~-l~~~L  240 (667)
                      -||||++......      ++.++|+++.. .-+...+...++..+.......             .. ..... +...+
T Consensus        43 ~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  116 (903)
T PRK04841         43 YGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLIAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIEL  116 (903)
T ss_pred             CCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHHHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHH
Confidence            3789999998752      23699999964 4566777788877774211110             00 11111 33333


Q ss_pred             hc-CCeEEEEEeCCCCcc--c-ccccCCCcCCCCCCcEEEEecCChhhhh--hccCCcceEecC----CCCHHHHHHHHH
Q 038110          241 KK-NKTILMILDNIWENL--D-LLAIGIPHGNDHKGCKILLTARSEDTLS--RKMDSKQNFSVG----ILKEEEAWSGEF  310 (667)
Q Consensus       241 ~~-~kr~LlVLDdvw~~~--~-~~~l~~~~~~~~~gs~iivTTr~~~va~--~~~~~~~~~~l~----~L~~~~s~~Lf~  310 (667)
                      .. +.+++|||||+....  . .+.+..-+.....+-++|||||...-..  ..........+.    +|+.+|+.++|.
T Consensus       117 ~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~  196 (903)
T PRK04841        117 ADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFD  196 (903)
T ss_pred             hcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHH
Confidence            32 578999999997642  1 1222222222345668889999843210  000112245555    999999999996


Q ss_pred             ------------HHHHHHhCCcchHHHHHHHHHccCC--hH--HH-------HHHHHHhcCCCCcCchHHHHHHHHHHhh
Q 038110          311 ------------KWVAKECAGLPVSIVTVSRALRNKS--LF--EW-------KDALQQLRRPISTNFKDELKQIFLLIGY  367 (667)
Q Consensus       311 ------------~~i~~~c~GlPLai~~~g~~L~~k~--~~--~W-------~~~l~~l~~~~~~~l~~~lk~cfly~s~  367 (667)
                                  ..+.+.|+|.|+++..++..++...  ..  .|       ..+.+.+....+..+|+..+..+...|+
T Consensus       197 ~~~~~~~~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~v~~~l~~~~~~~l~~~a~  276 (903)
T PRK04841        197 QRLSSPIEAAESSRLCDDVEGWATALQLIALSARQNNSSLHDSARRLAGINASHLSDYLVEEVLDNVDLETRHFLLRCSV  276 (903)
T ss_pred             hccCCCCCHHHHHHHHHHhCChHHHHHHHHHHHhhCCCchhhhhHhhcCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcc
Confidence                        7899999999999999888776331  11  11       1122222333355679999999999999


Q ss_pred             h
Q 038110          368 T  368 (667)
Q Consensus       368 f  368 (667)
                      +
T Consensus       277 ~  277 (903)
T PRK04841        277 L  277 (903)
T ss_pred             c
Confidence            8

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

Probab=97.79  E-value=7.9e-06  Score=92.31  Aligned_cols=126  Identities=18%  Similarity=0.234  Sum_probs=87.8

Q ss_pred             ccceeEEEEeccCcc--ccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCccc
Q 038110          449 VRHCTSIVILDVKTY--VLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLH  524 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~--~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~  524 (667)
                      ..++++|++.+...-  ..|.  ...+|.|++|.+.|-.....++ ..++.++++|+.||+|+++++.+ ..|++|+||+
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 RQNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDF-SQLCASFPNLRSLDISGTNISNL-SGISRLKNLQ  198 (699)
T ss_pred             HHhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhH-HHHhhccCccceeecCCCCccCc-HHHhccccHH
Confidence            357888888774321  1111  1268999999998866532222 34568999999999999999988 7899999999


Q ss_pred             EEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-------CcCCCCCCeeEEE
Q 038110          525 TLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-------GLFFEKPERYKIL  581 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-------~~~l~~L~~l~~~  581 (667)
                      .|.+++ .+..-     ..+.++-+|++|++||+|......-|.-       -..|+.|+.|+.+
T Consensus       199 ~L~mrnLe~e~~-----~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcS  258 (699)
T KOG3665|consen  199 VLSMRNLEFESY-----QDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCS  258 (699)
T ss_pred             HHhccCCCCCch-----hhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecC
Confidence            999988 33321     2235778899999999998764444421       1247777777766

>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=97.79  E-value=2e-05  Score=55.02  Aligned_cols=32  Identities=34%  Similarity=0.520  Sum_probs=14.3

Q ss_pred             CCcEEEcCCCCCccCCccccCCCcccEEecCC
Q 038110          499 QVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG  530 (667)
Q Consensus       499 ~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~  530 (667)
                      +|++|++++|+|+.+|..+++|++|++|++++
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~   33 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSN   33 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETS
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecC
Confidence            34444455444444444444444444444444

...

>PF05729 NACHT: NACHT domain

Probab=97.79  E-value=0.0001  Score=68.38  Aligned_cols=131  Identities=21%  Similarity=0.249  Sum_probs=78.7

Q ss_pred             CCCCcHHHHHHHHHhccCCC----CCEEEEEEeCCCCCHH---HHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEE
Q 038110          176 KNPDTTLAKEVAWKAENDKL----FDQAVFAEVSQSHDIR---KIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILM  248 (667)
Q Consensus       176 ~~~~TtLa~~vy~~~~~~~~----F~~~~wv~vs~~~~~~---~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~Ll  248 (667)
                      +.||||+++.++.+......    +...+|++.+...+..   .+...|..+........    ...+...+...++++|
T Consensus        10 G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~----~~~~~~~~~~~~~~ll   85 (166)
T PF05729_consen   10 GSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPI----EELLQELLEKNKRVLL   85 (166)
T ss_pred             CCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhh----HHHHHHHHHcCCceEE
Confidence            45899999999988664433    4456677665533322   33333333332211111    0013333334789999


Q ss_pred             EEeCCCCccc---------ccc-cCCCcCC-CCCCcEEEEecCChhhh--hhccCCcceEecCCCCHHHHHHHHH
Q 038110          249 ILDNIWENLD---------LLA-IGIPHGN-DHKGCKILLTARSEDTL--SRKMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       249 VLDdvw~~~~---------~~~-l~~~~~~-~~~gs~iivTTr~~~va--~~~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      |||++++...         +.. +..-++. ...+.+++||||.....  .........+++.+|++++..+++.
T Consensus        86 ilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  160 (166)
T PF05729_consen   86 ILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQYLR  160 (166)
T ss_pred             EEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHHHH
Confidence            9999987632         111 2112222 24689999999998772  2223444689999999999988764

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

Probab=97.72  E-value=5.8e-06  Score=84.53  Aligned_cols=182  Identities=15%  Similarity=0.057  Sum_probs=123.5

Q ss_pred             CCCCCccEEEccCCCCccccccH-HHHhCCCCCcEEEcCCCCCcc---CCccccCCCcccEEecCCcccccCCCCccChh
Q 038110          469 MECPQLKLFSMPAEKNSFFAIPH-NLFRSMLQVRVLDLTDMNLLS---LPSSIGLLTNLHTLCLYGGVGVVDGVKNASLE  544 (667)
Q Consensus       469 ~~~~~Lr~L~l~~~~~~~~~lp~-~~~~~l~~Lr~L~L~~~~i~~---lP~si~~L~~L~~L~L~~~l~~LP~~~~~~~~  544 (667)
                      .++++||...+.++..  ...+. +....++++|-|||+.|-+..   +-.-+..|++|+.|+|+.+--..|.   ++ .
T Consensus       118 sn~kkL~~IsLdn~~V--~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~---~s-~  191 (505)
T KOG3207|consen  118 SNLKKLREISLDNYRV--EDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFI---SS-N  191 (505)
T ss_pred             hhHHhhhheeecCccc--cccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCc---cc-c
Confidence            3688999999988765  33332 234899999999999997654   3344568999999999982112220   00 1


Q ss_pred             hhcCCCCCCeEEeecCCCCC--CCCCCcCCCCCCeeEEEecCccCCCc-ccccccccceEEeecCccccchH-HHHHHhh
Q 038110          545 ELKHFPNLTSLELEVNDANT--LPRGGLFFEKPERYKILTGHRWSRGF-YRSSNKSYRSFRIDLDANVRLKD-RLVVQLR  620 (667)
Q Consensus       545 ~l~~L~~L~~L~l~~~~l~~--lP~~~~~l~~L~~l~~~~~~~~~~~~-~~~~~~~l~~l~l~~~~~~~~~~-~~~~~l~  620 (667)
                      .-.-+++|+.|.++.|++..  +-.-...+++|+.|++..+++..+.. ....+..++.|.|++++...... .....++
T Consensus       192 ~~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~  271 (505)
T KOG3207|consen  192 TTLLLSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQGYKVGTLP  271 (505)
T ss_pred             chhhhhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHhhccccCCccccccccccccccc
Confidence            11357899999999998762  11112378899999888775332222 23445678888898876666542 3445678


Q ss_pred             hcceeeccccccccccc--cchh-----hhhccCCCccEEEeecCCCC
Q 038110          621 GIEELSLAGLLDQDIKN--FVNE-----LVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       621 ~L~~L~L~~~~~~~~~~--~~~~-----l~~~~l~~L~~L~l~~~~~l  661 (667)
                      .|..|.++.|   ++.+  .|+.     .  ..+++|++|++..|+..
T Consensus       272 ~L~~Lnls~t---gi~si~~~d~~s~~kt--~~f~kL~~L~i~~N~I~  314 (505)
T KOG3207|consen  272 GLNQLNLSST---GIASIAEPDVESLDKT--HTFPKLEYLNISENNIR  314 (505)
T ss_pred             chhhhhcccc---CcchhcCCCccchhhh--cccccceeeecccCccc
Confidence            9999999888   4332  3433     3  57999999999999873

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.69  E-value=0.00014  Score=75.93  Aligned_cols=113  Identities=20%  Similarity=0.255  Sum_probs=75.4

Q ss_pred             cccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCC-CCccCCccccCCCcccEE
Q 038110          448 RVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDM-NLLSLPSSIGLLTNLHTL  526 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~-~i~~lP~si~~L~~L~~L  526 (667)
                      .+.++++|++++|.+..+|.  -.++|++|.+.++... ..+|..+   ..+|++|++++| .+..+|.+      |+.|
T Consensus        50 ~~~~l~~L~Is~c~L~sLP~--LP~sLtsL~Lsnc~nL-tsLP~~L---P~nLe~L~Ls~Cs~L~sLP~s------Le~L  117 (426)
T PRK15386         50 EARASGRLYIKDCDIESLPV--LPNELTEITIENCNNL-TTLPGSI---PEGLEKLTVCHCPEISGLPES------VRSL  117 (426)
T ss_pred             HhcCCCEEEeCCCCCcccCC--CCCCCcEEEccCCCCc-ccCCchh---hhhhhheEccCcccccccccc------cceE
Confidence            34678899999888888873  2346999999886654 6777655   257899999988 77788875      4445


Q ss_pred             ecCC----cccccCCCCccChhhhcCC------------------CCCCeEEeecCCCCCCCCCCcCCCCCCeeEEE
Q 038110          527 CLYG----GVGVVDGVKNASLEELKHF------------------PNLTSLELEVNDANTLPRGGLFFEKPERYKIL  581 (667)
Q Consensus       527 ~L~~----~l~~LP~~~~~~~~~l~~L------------------~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~  581 (667)
                      ++..    .+..||       .++..|                  ++|++|++++|....+|..+.  .+|+.|.+.
T Consensus       118 ~L~~n~~~~L~~LP-------ssLk~L~I~~~n~~~~~~lp~~LPsSLk~L~Is~c~~i~LP~~LP--~SLk~L~ls  185 (426)
T PRK15386        118 EIKGSATDSIKNVP-------NGLTSLSINSYNPENQARIDNLISPSLKTLSLTGCSNIILPEKLP--ESLQSITLH  185 (426)
T ss_pred             EeCCCCCcccccCc-------chHhheeccccccccccccccccCCcccEEEecCCCcccCccccc--ccCcEEEec
Confidence            5544    467777       333322                  367777777776555555422  356666654

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=97.61  E-value=0.0022  Score=68.87  Aligned_cols=204  Identities=16%  Similarity=0.082  Sum_probs=120.8

Q ss_pred             cccccchHHHHHHHHHhcC------------------CCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 038110          158 YEAFESRMSTLNDILGALK------------------NPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIAD  219 (667)
Q Consensus       158 ~~~~~gr~~~~~~i~~~l~------------------~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~  219 (667)
                      +..+.||++++++|...+.                  .|||++++.++++.......-..++|+.....+...++.+|++
T Consensus        29 P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~  108 (394)
T PRK00411         29 PENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIAR  108 (394)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHH
Confidence            3458899999999888762                  2469999999998763322234666766666788899999999


Q ss_pred             HhCCCC-C--CCChhHHHH-HHHHHhc-CCeEEEEEeCCCCcc------cccccCCCcCCCCCCcE--EEEecCChhhhh
Q 038110          220 KLGLTF-H--EESESGRAS-LCNQLKK-NKTILMILDNIWENL------DLLAIGIPHGNDHKGCK--ILLTARSEDTLS  286 (667)
Q Consensus       220 ~l~~~~-~--~~~~~~~~~-l~~~L~~-~kr~LlVLDdvw~~~------~~~~l~~~~~~~~~gs~--iivTTr~~~va~  286 (667)
                      ++.... .  .....+... +.+.+.. ++..+||||+++.-.      .+..+...+. ...+++  +|.++....+..
T Consensus       109 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~-~~~~~~v~vI~i~~~~~~~~  187 (394)
T PRK00411        109 QLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHE-EYPGARIGVIGISSDLTFLY  187 (394)
T ss_pred             HhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhh-ccCCCeEEEEEEECCcchhh
Confidence            997622 1  111222233 6666652 456899999998742      1222222221 123433  566666554321


Q ss_pred             hc------cCCcceEecCCCCHHHHHHHHH-----------------HHHHHHh----CCcchHHHHHHHHHc-----c-
Q 038110          287 RK------MDSKQNFSVGILKEEEAWSGEF-----------------KWVAKEC----AGLPVSIVTVSRALR-----N-  333 (667)
Q Consensus       287 ~~------~~~~~~~~l~~L~~~~s~~Lf~-----------------~~i~~~c----~GlPLai~~~g~~L~-----~-  333 (667)
                      ..      .-....+.+++++.++..+++.                 ..|++.+    |..+.|+..+-.+..     + 
T Consensus       188 ~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~  267 (394)
T PRK00411        188 ILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGS  267 (394)
T ss_pred             hcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCC
Confidence            10      0012467899999999888876                 3344444    346666666544321     1 


Q ss_pred             -C-ChHHHHHHHHHhcCC----CCcCchHHHHHHH
Q 038110          334 -K-SLFEWKDALQQLRRP----ISTNFKDELKQIF  362 (667)
Q Consensus       334 -k-~~~~W~~~l~~l~~~----~~~~l~~~lk~cf  362 (667)
                       + +.++...+++.+...    ....+|.+.|.-+
T Consensus       268 ~~I~~~~v~~a~~~~~~~~~~~~~~~L~~~~k~~L  302 (394)
T PRK00411        268 RKVTEEDVRKAYEKSEIVHLSEVLRTLPLHEKLLL  302 (394)
T ss_pred             CCcCHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHH
Confidence             1 667777776665221    2345566655433

>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=97.58  E-value=8.8e-05  Score=51.74  Aligned_cols=41  Identities=12%  Similarity=0.318  Sum_probs=34.1

Q ss_pred             CCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc
Q 038110          472 PQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS  515 (667)
Q Consensus       472 ~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~  515 (667)
                      ++|++|++++|..  ..+|+.+ ++|++|++|++++|+++.+|.
T Consensus         1 ~~L~~L~l~~N~i--~~l~~~l-~~l~~L~~L~l~~N~i~~i~~   41 (44)
T PF12799_consen    1 KNLEELDLSNNQI--TDLPPEL-SNLPNLETLNLSNNPISDISP   41 (44)
T ss_dssp             TT-SEEEETSSS---SSHGGHG-TTCTTSSEEEETSSCCSBEGG
T ss_pred             CcceEEEccCCCC--cccCchH-hCCCCCCEEEecCCCCCCCcC
Confidence            5789999999987  6888876 999999999999999987753

...

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

Probab=97.54  E-value=9.2e-06  Score=70.11  Aligned_cols=90  Identities=13%  Similarity=0.165  Sum_probs=57.2

Q ss_pred             CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-cccccCCCCccChhhhcC
Q 038110          470 ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKH  548 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~  548 (667)
                      ....|....+++|.+  ..+|+.+-.+++-+..|+|++|.|..+|..+..++.|+.|+++. .+...|       +-+..
T Consensus        51 ~~~el~~i~ls~N~f--k~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~N~l~~~p-------~vi~~  121 (177)
T KOG4579|consen   51 KGYELTKISLSDNGF--KKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLRFNPLNAEP-------RVIAP  121 (177)
T ss_pred             CCceEEEEecccchh--hhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcccccCccccch-------HHHHH
Confidence            344555566666665  56666665555566666666666666666666666666666666 566666       66666


Q ss_pred             CCCCCeEEeecCCCCCCCCC
Q 038110          549 FPNLTSLELEVNDANTLPRG  568 (667)
Q Consensus       549 L~~L~~L~l~~~~l~~lP~~  568 (667)
                      |.+|-.|+..+|.+..+|-.
T Consensus       122 L~~l~~Lds~~na~~eid~d  141 (177)
T KOG4579|consen  122 LIKLDMLDSPENARAEIDVD  141 (177)
T ss_pred             HHhHHHhcCCCCccccCcHH
Confidence            66666666666666666544

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

Probab=97.45  E-value=6.2e-06  Score=89.11  Aligned_cols=122  Identities=21%  Similarity=0.245  Sum_probs=58.7

Q ss_pred             EEEcCCCCCccCCccccCCCcccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEE
Q 038110          502 VLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKI  580 (667)
Q Consensus       502 ~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~  580 (667)
                      +.+.++|.+..+-.++.-|++|+.|+|++ ++...        ..+..|++|+||||++|.+..+|.-            
T Consensus       168 ~a~fsyN~L~~mD~SLqll~ale~LnLshNk~~~v--------~~Lr~l~~LkhLDlsyN~L~~vp~l------------  227 (1096)
T KOG1859|consen  168 TASFSYNRLVLMDESLQLLPALESLNLSHNKFTKV--------DNLRRLPKLKHLDLSYNCLRHVPQL------------  227 (1096)
T ss_pred             hhhcchhhHHhHHHHHHHHHHhhhhccchhhhhhh--------HHHHhcccccccccccchhcccccc------------
Confidence            33444444444445555555555555555 23222        2344455555555555555555543            


Q ss_pred             EecCccCCCcccccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCC
Q 038110          581 LTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       581 ~~~~~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~  659 (667)
                                 ......++.|.|.+|...+ .-.+ .++++|+.|+++.|--.+..+ ++.|  ..+..|+.|.|.|||
T Consensus       228 -----------~~~gc~L~~L~lrnN~l~t-L~gi-e~LksL~~LDlsyNll~~hse-L~pL--wsLs~L~~L~LeGNP  290 (1096)
T KOG1859|consen  228 -----------SMVGCKLQLLNLRNNALTT-LRGI-ENLKSLYGLDLSYNLLSEHSE-LEPL--WSLSSLIVLWLEGNP  290 (1096)
T ss_pred             -----------chhhhhheeeeecccHHHh-hhhH-HhhhhhhccchhHhhhhcchh-hhHH--HHHHHHHHHhhcCCc
Confidence                       2222223344444332222 2222 345778888887771111111 1122  346677777777776

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=97.41  E-value=0.00047  Score=67.97  Aligned_cols=161  Identities=17%  Similarity=0.150  Sum_probs=79.5

Q ss_pred             ccchHHHHHHHHHhcCC--------------CCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHH---------
Q 038110          161 FESRMSTLNDILGALKN--------------PDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEI---------  217 (667)
Q Consensus       161 ~~gr~~~~~~i~~~l~~--------------~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i---------  217 (667)
                      |+||++++++|.+++..              |||+|++.+.+..+.. .+ ..+|+...+..... ....+         
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~-~~-~~~y~~~~~~~~~~-~~~~~~~~~~~~~~   77 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELKEK-GY-KVVYIDFLEESNES-SLRSFIEETSLADE   77 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT---EE-CCCHHCCTTBSHHH-HHHHHHHHHHHHCH
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhhhc-CC-cEEEEecccchhhh-HHHHHHHHHHHHHH
Confidence            57999999999998753              4699999999977421 11 34444444433222 22222         


Q ss_pred             -----HHHhCCCCC--------CCChhHHHHHHHHHh-cCCeEEEEEeCCCCcc-ccc-------ccCCCc---CCCCCC
Q 038110          218 -----ADKLGLTFH--------EESESGRASLCNQLK-KNKTILMILDNIWENL-DLL-------AIGIPH---GNDHKG  272 (667)
Q Consensus       218 -----~~~l~~~~~--------~~~~~~~~~l~~~L~-~~kr~LlVLDdvw~~~-~~~-------~l~~~~---~~~~~g  272 (667)
                           ...+.....        .........+.+.+. .+++++||+||+.... ...       .+...+   ....+.
T Consensus        78 l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  157 (234)
T PF01637_consen   78 LSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNV  157 (234)
T ss_dssp             CHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTE
T ss_pred             HHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCc
Confidence                 111111110        001111122444443 2456999999997765 111       111111   122333


Q ss_pred             cEEEEecCChhhhhh-------ccCCcceEecCCCCHHHHHHHHH----------------HHHHHHhCCcchHHH
Q 038110          273 CKILLTARSEDTLSR-------KMDSKQNFSVGILKEEEAWSGEF----------------KWVAKECAGLPVSIV  325 (667)
Q Consensus       273 s~iivTTr~~~va~~-------~~~~~~~~~l~~L~~~~s~~Lf~----------------~~i~~~c~GlPLai~  325 (667)
                      + +|+++....+...       ..+....+.+++|+.+++++++.                ++|...+||.|..|.
T Consensus       158 ~-~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~~~~~~~~~~~~~i~~~~gG~P~~l~  232 (234)
T PF01637_consen  158 S-IVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKELIKLPFSDEDIEEIYSLTGGNPRYLQ  232 (234)
T ss_dssp             E-EEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC------HHHHHHHHHHHTT-HHHHH
T ss_pred             e-EEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHhCCCHHHHh
Confidence            4 4444444433321       12333469999999999999877                567778888887664

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

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

Probab=97.37  E-value=2.9e-05  Score=83.84  Aligned_cols=173  Identities=18%  Similarity=0.112  Sum_probs=110.9

Q ss_pred             CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-cccccCCCCccChhhhcC
Q 038110          470 ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKH  548 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~  548 (667)
                      .+..+..+.+..|..  ..+-..+ +.+++|.+|++.+|.|..+...+..+.+|++|++++ .|..+.        .+..
T Consensus        70 ~l~~l~~l~l~~n~i--~~~~~~l-~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~I~~i~--------~l~~  138 (414)
T KOG0531|consen   70 SLTSLKELNLRQNLI--AKILNHL-SKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNKITKLE--------GLST  138 (414)
T ss_pred             HhHhHHhhccchhhh--hhhhccc-ccccceeeeeccccchhhcccchhhhhcchheecccccccccc--------chhh
Confidence            355666666666655  3333334 889999999999999999987789999999999999 788875        5788


Q ss_pred             CCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcc-cccccccceEEeecCccccchHHHHHHhhhcceeec
Q 038110          549 FPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFY-RSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSL  627 (667)
Q Consensus       549 L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~-~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L  627 (667)
                      |+.|+.|++++|.+..++.. ..+..|+.+.+..+....+... ......+..+.+.++.... .+... .+..+..+.+
T Consensus       139 l~~L~~L~l~~N~i~~~~~~-~~l~~L~~l~l~~n~i~~ie~~~~~~~~~l~~l~l~~n~i~~-i~~~~-~~~~l~~~~l  215 (414)
T KOG0531|consen  139 LTLLKELNLSGNLISDISGL-ESLKSLKLLDLSYNRIVDIENDELSELISLEELDLGGNSIRE-IEGLD-LLKKLVLLSL  215 (414)
T ss_pred             ccchhhheeccCcchhccCC-ccchhhhcccCCcchhhhhhhhhhhhccchHHHhccCCchhc-ccchH-HHHHHHHhhc
Confidence            88899999999999888764 4577777777765554433321 1222233334444433322 22221 1235555566


Q ss_pred             cccccccccccchhhhhccCCC--ccEEEeecCCCCe
Q 038110          628 AGLLDQDIKNFVNELVKVGSSQ--LKYLQIEGYRGPQ  662 (667)
Q Consensus       628 ~~~~~~~~~~~~~~l~~~~l~~--L~~L~l~~~~~l~  662 (667)
                      ..|   .+. ....+  ..+..  |+.+++.+|+..+
T Consensus       216 ~~n---~i~-~~~~l--~~~~~~~L~~l~l~~n~i~~  246 (414)
T KOG0531|consen  216 LDN---KIS-KLEGL--NELVMLHLRELYLSGNRISR  246 (414)
T ss_pred             ccc---cce-eccCc--ccchhHHHHHHhcccCcccc
Confidence            666   221 12222  22333  7888888887654

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

Probab=97.36  E-value=5.6e-05  Score=85.54  Aligned_cols=34  Identities=24%  Similarity=0.360  Sum_probs=18.1

Q ss_pred             hcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEE
Q 038110          546 LKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKI  580 (667)
Q Consensus       546 l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~  580 (667)
                      ..+++||..||+|+++++.+ .|+++|++|+.|.+
T Consensus       169 c~sFpNL~sLDIS~TnI~nl-~GIS~LknLq~L~m  202 (699)
T KOG3665|consen  169 CASFPNLRSLDISGTNISNL-SGISRLKNLQVLSM  202 (699)
T ss_pred             hhccCccceeecCCCCccCc-HHHhccccHHHHhc
Confidence            34555555556655555555 44455555555533

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

Probab=97.28  E-value=2.3e-05  Score=67.65  Aligned_cols=99  Identities=22%  Similarity=0.225  Sum_probs=77.5

Q ss_pred             ccEEEccCCCCc-cccccHHHHhCCCCCcEEEcCCCCCccCCccccCCC-cccEEecCC-cccccCCCCccChhhhcCCC
Q 038110          474 LKLFSMPAEKNS-FFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLT-NLHTLCLYG-GVGVVDGVKNASLEELKHFP  550 (667)
Q Consensus       474 Lr~L~l~~~~~~-~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~-~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~  550 (667)
                      +..+++++|... +...+..+ .+..+|...+|++|.++++|+.+.... -+.+|+|.+ .+..+|       .++..++
T Consensus        29 ~h~ldLssc~lm~i~davy~l-~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neisdvP-------eE~Aam~  100 (177)
T KOG4579|consen   29 LHFLDLSSCQLMYIADAVYML-SKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEISDVP-------EELAAMP  100 (177)
T ss_pred             hhhcccccchhhHHHHHHHHH-hCCceEEEEecccchhhhCCHHHhhccchhhhhhcchhhhhhch-------HHHhhhH
Confidence            344455555431 12233344 788889999999999999999987654 799999999 999999       9999999


Q ss_pred             CCCeEEeecCCCCCCCCCCcCCCCCCeeEE
Q 038110          551 NLTSLELEVNDANTLPRGGLFFEKPERYKI  580 (667)
Q Consensus       551 ~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~  580 (667)
                      .|+.|+++.|.+...|.-+..|.+|-.|..
T Consensus       101 aLr~lNl~~N~l~~~p~vi~~L~~l~~Lds  130 (177)
T KOG4579|consen  101 ALRSLNLRFNPLNAEPRVIAPLIKLDMLDS  130 (177)
T ss_pred             HhhhcccccCccccchHHHHHHHhHHHhcC
Confidence            999999999999999998776666666643

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

Probab=97.13  E-value=9.1e-06  Score=87.86  Aligned_cols=125  Identities=15%  Similarity=0.119  Sum_probs=83.1

Q ss_pred             cccceeEEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEE
Q 038110          448 RVRHCTSIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTL  526 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L  526 (667)
                      .+.++...++..|.+..+.... -++.|++|++++|..  .... .+ ..+++|+.|||++|.+..+|.--..=.+|+.|
T Consensus       162 ~Wn~L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk~--~~v~-~L-r~l~~LkhLDlsyN~L~~vp~l~~~gc~L~~L  237 (1096)
T KOG1859|consen  162 VWNKLATASFSYNRLVLMDESLQLLPALESLNLSHNKF--TKVD-NL-RRLPKLKHLDLSYNCLRHVPQLSMVGCKLQLL  237 (1096)
T ss_pred             hhhhHhhhhcchhhHHhHHHHHHHHHHhhhhccchhhh--hhhH-HH-Hhcccccccccccchhccccccchhhhhheee
Confidence            4456777777777766554444 467888888888876  3333 44 88888888888888888777521111248888


Q ss_pred             ecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC--CcCCCCCCeeEEEecC
Q 038110          527 CLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG--GLFFEKPERYKILTGH  584 (667)
Q Consensus       527 ~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~--~~~l~~L~~l~~~~~~  584 (667)
                      .+++ .+..|        .++.+|.+|+.||+++|-+.....-  ++.|..|..|++..|.
T Consensus       238 ~lrnN~l~tL--------~gie~LksL~~LDlsyNll~~hseL~pLwsLs~L~~L~LeGNP  290 (1096)
T KOG1859|consen  238 NLRNNALTTL--------RGIENLKSLYGLDLSYNLLSEHSELEPLWSLSSLIVLWLEGNP  290 (1096)
T ss_pred             eecccHHHhh--------hhHHhhhhhhccchhHhhhhcchhhhHHHHHHHHHHHhhcCCc
Confidence            8888 56666        3678888888888888865443321  2355666666665444

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.07  E-value=0.00011  Score=71.62  Aligned_cols=104  Identities=19%  Similarity=0.172  Sum_probs=67.2

Q ss_pred             ceeEEEEeccCccccCCC----CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccc-cCCCcccE
Q 038110          451 HCTSIVILDVKTYVLPEV----MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSI-GLLTNLHT  525 (667)
Q Consensus       451 ~lr~L~l~~~~~~~l~~~----~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si-~~L~~L~~  525 (667)
                      .+.-+.+.++.+......    ..++.++.|++.+|..+-.+--..++.+|++|++|+|+.|.+..--.+. -.+.+|++
T Consensus        46 a~ellvln~~~id~~gd~~~~~~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~  125 (418)
T KOG2982|consen   46 ALELLVLNGSIIDNEGDVMLFGSSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRV  125 (418)
T ss_pred             chhhheecCCCCCcchhHHHHHHHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEE
Confidence            334555666555443322    2678899999999987522223456789999999999999765322222 35678999


Q ss_pred             EecCC---cccccCCCCccChhhhcCCCCCCeEEeecCC
Q 038110          526 LCLYG---GVGVVDGVKNASLEELKHFPNLTSLELEVND  561 (667)
Q Consensus       526 L~L~~---~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~  561 (667)
                      |-|.+   .-..+.       ..+..||.++.|+++.|+
T Consensus       126 lVLNgT~L~w~~~~-------s~l~~lP~vtelHmS~N~  157 (418)
T KOG2982|consen  126 LVLNGTGLSWTQST-------SSLDDLPKVTELHMSDNS  157 (418)
T ss_pred             EEEcCCCCChhhhh-------hhhhcchhhhhhhhccch
Confidence            99988   222233       445666677777777664

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=97.06  E-value=0.00084  Score=66.45  Aligned_cols=80  Identities=14%  Similarity=0.182  Sum_probs=54.7

Q ss_pred             CCCCcHHHHHHHHHhccCCCCCEEEEEEeCCC--CCHHHHHHHHHHHhCCCCCCCChhHH------HH--HHHHHhcCCe
Q 038110          176 KNPDTTLAKEVAWKAENDKLFDQAVFAEVSQS--HDIRKIQGEIADKLGLTFHEESESGR------AS--LCNQLKKNKT  245 (667)
Q Consensus       176 ~~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~--~~~~~i~~~i~~~l~~~~~~~~~~~~------~~--l~~~L~~~kr  245 (667)
                      +.|||||++.+|++.... +|+.++||++++.  +++.++++.|...+-....+.+....      ..  .......+++
T Consensus        26 G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~~a~~~~~~G~~  104 (249)
T cd01128          26 KAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLEKAKRLVEHGKD  104 (249)
T ss_pred             CCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHHHHHHHHHCCCC
Confidence            457899999999988754 8999999998776  89999999994332221111111111      11  2222234899


Q ss_pred             EEEEEeCCCCc
Q 038110          246 ILMILDNIWEN  256 (667)
Q Consensus       246 ~LlVLDdvw~~  256 (667)
                      .++++|++..-
T Consensus       105 vll~iDei~r~  115 (249)
T cd01128         105 VVILLDSITRL  115 (249)
T ss_pred             EEEEEECHHHh
Confidence            99999999764

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=96.94  E-value=0.16  Score=52.28  Aligned_cols=188  Identities=12%  Similarity=-0.049  Sum_probs=106.7

Q ss_pred             ccccchHHHHHHHHHhcC-------------------CCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 038110          159 EAFESRMSTLNDILGALK-------------------NPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIAD  219 (667)
Q Consensus       159 ~~~~gr~~~~~~i~~~l~-------------------~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~  219 (667)
                      ..|+|++..++.+..++.                   .|||+||+.+.+.....  |   ..+..+..... ..+...+.
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~--~---~~~~~~~~~~~-~~l~~~l~   77 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVN--L---KITSGPALEKP-GDLAAILT   77 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC--E---EEeccchhcCc-hhHHHHHH
Confidence            468899998888776653                   25699999999876532  2   11222111112 22223333


Q ss_pred             HhCCCCC------CCChhHHHH-HHHHHhcCCeEEEEEeCCCCcccccccCCCcCCCCCCcEEEEecCChhhhhhc-cCC
Q 038110          220 KLGLTFH------EESESGRAS-LCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRK-MDS  291 (667)
Q Consensus       220 ~l~~~~~------~~~~~~~~~-l~~~L~~~kr~LlVLDdvw~~~~~~~l~~~~~~~~~gs~iivTTr~~~va~~~-~~~  291 (667)
                      .+....-      +........ +...+. +.+..+|+|+......|..   +++   +.+-|..||+...+.... ...
T Consensus        78 ~~~~~~vl~iDEi~~l~~~~~e~l~~~~~-~~~~~~v~~~~~~~~~~~~---~~~---~~~li~~t~~~~~l~~~l~sR~  150 (305)
T TIGR00635        78 NLEEGDVLFIDEIHRLSPAVEELLYPAME-DFRLDIVIGKGPSARSVRL---DLP---PFTLVGATTRAGMLTSPLRDRF  150 (305)
T ss_pred             hcccCCEEEEehHhhhCHHHHHHhhHHHh-hhheeeeeccCccccceee---cCC---CeEEEEecCCccccCHHHHhhc
Confidence            4332210      001111223 666666 5677788888766655542   221   245666778776553211 112


Q ss_pred             cceEecCCCCHHHHHHHHH---------------HHHHHHhCCcchHHHHHHHHHc------c---CChHHHHHHHHHhc
Q 038110          292 KQNFSVGILKEEEAWSGEF---------------KWVAKECAGLPVSIVTVSRALR------N---KSLFEWKDALQQLR  347 (667)
Q Consensus       292 ~~~~~l~~L~~~~s~~Lf~---------------~~i~~~c~GlPLai~~~g~~L~------~---k~~~~W~~~l~~l~  347 (667)
                      ...+++++++.++..+++.               ..|++.|+|.|-.+..++..+.      +   .+.+..+.++..+ 
T Consensus       151 ~~~~~l~~l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~~l~~l-  229 (305)
T TIGR00635       151 GIILRLEFYTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALKALEML-  229 (305)
T ss_pred             ceEEEeCCCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHh-
Confidence            3468999999999999988               7899999999966555544331      1   1555555565553 


Q ss_pred             CCCCcCchHHHHH
Q 038110          348 RPISTNFKDELKQ  360 (667)
Q Consensus       348 ~~~~~~l~~~lk~  360 (667)
                      ...+..++++.+.
T Consensus       230 ~~~~~~l~~~~~~  242 (305)
T TIGR00635       230 MIDELGLDEIDRK  242 (305)
T ss_pred             CCCCCCCCHHHHH
Confidence            2234445555444

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=96.93  E-value=0.0019  Score=66.99  Aligned_cols=80  Identities=14%  Similarity=0.224  Sum_probs=54.8

Q ss_pred             CCCCcHHHHHHHHHhccCCCCCEEEEEEeCCCC--CHHHHHHHHHHHhCCCCCCCChhHH------HH-HHHHH-hcCCe
Q 038110          176 KNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSH--DIRKIQGEIADKLGLTFHEESESGR------AS-LCNQL-KKNKT  245 (667)
Q Consensus       176 ~~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~--~~~~i~~~i~~~l~~~~~~~~~~~~------~~-l~~~L-~~~kr  245 (667)
                      +.||||||+.||++...+ ||++++||.+++.+  ++.++++.|.-.+-....+......      .. ..+++ ..|++
T Consensus       179 GvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d~~~~~~~~~a~~~ie~Ae~~~e~G~d  257 (416)
T PRK09376        179 KAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERHVQVAEMVIEKAKRLVEHGKD  257 (416)
T ss_pred             CCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCC
Confidence            447899999999998865 89999999999988  8888888887322111111111111      11 33333 24899


Q ss_pred             EEEEEeCCCCc
Q 038110          246 ILMILDNIWEN  256 (667)
Q Consensus       246 ~LlVLDdvw~~  256 (667)
                      ++|++|++..-
T Consensus       258 VlL~iDsItR~  268 (416)
T PRK09376        258 VVILLDSITRL  268 (416)
T ss_pred             EEEEEEChHHH
Confidence            99999999754

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

Probab=96.90  E-value=0.00041  Score=69.43  Aligned_cols=213  Identities=16%  Similarity=0.111  Sum_probs=113.0

Q ss_pred             ccccceeEEEEeccCccc-----cCCC-CCCCCccEEEccCCCC--ccccccHHH------HhCCCCCcEEEcCCCCCc-
Q 038110          447 SRVRHCTSIVILDVKTYV-----LPEV-MECPQLKLFSMPAEKN--SFFAIPHNL------FRSMLQVRVLDLTDMNLL-  511 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~-----l~~~-~~~~~Lr~L~l~~~~~--~~~~lp~~~------~~~l~~Lr~L~L~~~~i~-  511 (667)
                      .....+..|.+++|.+..     +... ...++|+.-++++-..  ....+|+.+      +-+.++|++||||.|-+. 
T Consensus        27 ~~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G~  106 (382)
T KOG1909|consen   27 EPMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFGP  106 (382)
T ss_pred             cccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccCc
Confidence            455678888888886632     1111 1445777777654321  113344332      345668888888888554 


Q ss_pred             cCC----ccccCCCcccEEecCC-cccccCC-------CCccChhhhcCCCCCCeEEeecCCCCCCCCC-----CcCCCC
Q 038110          512 SLP----SSIGLLTNLHTLCLYG-GVGVVDG-------VKNASLEELKHFPNLTSLELEVNDANTLPRG-----GLFFEK  574 (667)
Q Consensus       512 ~lP----~si~~L~~L~~L~L~~-~l~~LP~-------~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-----~~~l~~  574 (667)
                      .-|    +-|.+++.|+.|.|.+ .++..-+       ..+.....+++-++|+.++..+|.+..-|..     +...+.
T Consensus       107 ~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~  186 (382)
T KOG1909|consen  107 KGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENGGATALAEAFQSHPT  186 (382)
T ss_pred             cchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccccccHHHHHHHHHhccc
Confidence            222    2355677888888876 2221110       0000113345567888888888877766653     224567


Q ss_pred             CCeeEEEecCccCCC-----cccccccccceEEeecCccccchH-HHH---HHhhhcceeeccccc--cccccccchhhh
Q 038110          575 PERYKILTGHRWSRG-----FYRSSNKSYRSFRIDLDANVRLKD-RLV---VQLRGIEELSLAGLL--DQDIKNFVNELV  643 (667)
Q Consensus       575 L~~l~~~~~~~~~~~-----~~~~~~~~l~~l~l~~~~~~~~~~-~~~---~~l~~L~~L~L~~~~--~~~~~~~~~~l~  643 (667)
                      |+.+++..+....-.     +...-.+.++.|.|..|.....-. .+.   ..+++|+.|+++.|.  +.|...+...+.
T Consensus       187 leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dcll~~~Ga~a~~~al~  266 (382)
T KOG1909|consen  187 LEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDCLLENEGAIAFVDALK  266 (382)
T ss_pred             cceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeecccccccccccHHHHHHHHh
Confidence            777777654422110     011123345555555433322111 111   223578888887772  234445566664


Q ss_pred             hccCCCccEEEeecCCC
Q 038110          644 KVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       644 ~~~l~~L~~L~l~~~~~  660 (667)
                       ...|+|+.|.+.+|..
T Consensus       267 -~~~p~L~vl~l~gNeI  282 (382)
T KOG1909|consen  267 -ESAPSLEVLELAGNEI  282 (382)
T ss_pred             -ccCCCCceeccCcchh
Confidence             3477777777777753

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

Probab=96.85  E-value=0.0016  Score=60.46  Aligned_cols=104  Identities=20%  Similarity=0.242  Sum_probs=66.0

Q ss_pred             ceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc--cccCCCcccEEec
Q 038110          451 HCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS--SIGLLTNLHTLCL  528 (667)
Q Consensus       451 ~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~--si~~L~~L~~L~L  528 (667)
                      ..-.+++.+|.+..++....+++|.+|.+.+|.+  ..+.+.+-.-+++|..|.|.+|.|.++-+  .+..++.|++|.+
T Consensus        43 ~~d~iDLtdNdl~~l~~lp~l~rL~tLll~nNrI--t~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Ltl  120 (233)
T KOG1644|consen   43 QFDAIDLTDNDLRKLDNLPHLPRLHTLLLNNNRI--TRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYLTL  120 (233)
T ss_pred             ccceecccccchhhcccCCCccccceEEecCCcc--eeeccchhhhccccceEEecCcchhhhhhcchhccCCccceeee
Confidence            4455677777777777666778888888877776  56666665566678888888887765522  2445567777776


Q ss_pred             CC-cccccCCCCccChhhhcCCCCCCeEEeec
Q 038110          529 YG-GVGVVDGVKNASLEELKHFPNLTSLELEV  559 (667)
Q Consensus       529 ~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~  559 (667)
                      -+ .+...+.   --.--+.++++|++||++.
T Consensus       121 l~Npv~~k~~---YR~yvl~klp~l~~LDF~k  149 (233)
T KOG1644|consen  121 LGNPVEHKKN---YRLYVLYKLPSLRTLDFQK  149 (233)
T ss_pred             cCCchhcccC---ceeEEEEecCcceEeehhh
Confidence            55 3332220   0001256677888888764

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

Probab=96.80  E-value=0.0006  Score=68.26  Aligned_cols=181  Identities=16%  Similarity=0.098  Sum_probs=111.3

Q ss_pred             CCCCCccEEEccCCCCcc---ccccHHHHhCCCCCcEEEcCCCC----CccCCccc-------cCCCcccEEecCC----
Q 038110          469 MECPQLKLFSMPAEKNSF---FAIPHNLFRSMLQVRVLDLTDMN----LLSLPSSI-------GLLTNLHTLCLYG----  530 (667)
Q Consensus       469 ~~~~~Lr~L~l~~~~~~~---~~lp~~~~~~l~~Lr~L~L~~~~----i~~lP~si-------~~L~~L~~L~L~~----  530 (667)
                      .....+..|+++||.+..   ..+-+. +.+.+.||.-+++.-.    ..++|+.+       -..++|++|+|+.    
T Consensus        27 ~~~~s~~~l~lsgnt~G~EAa~~i~~~-L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G  105 (382)
T KOG1909|consen   27 EPMDSLTKLDLSGNTFGTEAARAIAKV-LASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFG  105 (382)
T ss_pred             cccCceEEEeccCCchhHHHHHHHHHH-HhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccC
Confidence            367889999999998741   123344 4888899999999862    23566643       3446999999998    


Q ss_pred             --cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC--------------CcCCCCCCeeEEEecCccCCC-----
Q 038110          531 --GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG--------------GLFFEKPERYKILTGHRWSRG-----  589 (667)
Q Consensus       531 --~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~--------------~~~l~~L~~l~~~~~~~~~~~-----  589 (667)
                        .+..+-       .-|.+.+.|++|++.+|.+...-.+              +.+-..|+.|....|.-..-+     
T Consensus       106 ~~g~~~l~-------~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~ga~~~A  178 (382)
T KOG1909|consen  106 PKGIRGLE-------ELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENGGATALA  178 (382)
T ss_pred             ccchHHHH-------HHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccccccHHHHH
Confidence              222232       4456789999999999987643222              124456666655544322111     


Q ss_pred             cccccccccceEEeecCccccc----hHHHHHHhhhcceeecccccc--ccccccchhhhhccCCCccEEEeecCC
Q 038110          590 FYRSSNKSYRSFRIDLDANVRL----KDRLVVQLRGIEELSLAGLLD--QDIKNFVNELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       590 ~~~~~~~~l~~l~l~~~~~~~~----~~~~~~~l~~L~~L~L~~~~~--~~~~~~~~~l~~~~l~~L~~L~l~~~~  659 (667)
                      ......+.++.+.+..+.+...    ........++|+.|+|..|.-  .+...+-..+  ..+++|++|++++|.
T Consensus       179 ~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL--~s~~~L~El~l~dcl  252 (382)
T KOG1909|consen  179 EAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKAL--SSWPHLRELNLGDCL  252 (382)
T ss_pred             HHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHh--cccchheeecccccc
Confidence            1112234566666665433221    111123347999999999921  1222344555  678899999999985

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=96.76  E-value=0.058  Score=57.25  Aligned_cols=152  Identities=15%  Similarity=0.144  Sum_probs=89.7

Q ss_pred             ccccchHHHHHHHHHhcC------------------CCCcHHHHHHHHHhccC-CCC---CEEEEEEeCCCCCHHHHHHH
Q 038110          159 EAFESRMSTLNDILGALK------------------NPDTTLAKEVAWKAEND-KLF---DQAVFAEVSQSHDIRKIQGE  216 (667)
Q Consensus       159 ~~~~gr~~~~~~i~~~l~------------------~~~TtLa~~vy~~~~~~-~~F---~~~~wv~vs~~~~~~~i~~~  216 (667)
                      ..++||++++++|..++.                  .|||++++.++++.... ...   -..+||......+...++..
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~   94 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVE   94 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHH
Confidence            457899999999998873                  14699999999875411 111   13567777776678899999


Q ss_pred             HHHHhC---CCCC--CCChhHHHH-HHHHHh-cCCeEEEEEeCCCCcc-c----ccccCCCc-CCCCCCc--EEEEecCC
Q 038110          217 IADKLG---LTFH--EESESGRAS-LCNQLK-KNKTILMILDNIWENL-D----LLAIGIPH-GNDHKGC--KILLTARS  281 (667)
Q Consensus       217 i~~~l~---~~~~--~~~~~~~~~-l~~~L~-~~kr~LlVLDdvw~~~-~----~~~l~~~~-~~~~~gs--~iivTTr~  281 (667)
                      |++++.   ....  ..+..+... +.+.+. .+++++||||+++.-. .    ...+.... .....++  .+|.+|..
T Consensus        95 i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~n~  174 (365)
T TIGR02928        95 LANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISND  174 (365)
T ss_pred             HHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEECC
Confidence            999984   2211  111222223 556663 2567999999998761 1    11221110 1111222  34445544


Q ss_pred             hhhhhh----cc-C-CcceEecCCCCHHHHHHHHH
Q 038110          282 EDTLSR----KM-D-SKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       282 ~~va~~----~~-~-~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      ......    .. . ....+.+++.+.++..+++.
T Consensus       175 ~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~  209 (365)
T TIGR02928       175 LKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILE  209 (365)
T ss_pred             cchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHH
Confidence            332110    00 1 12468899999998888876

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=96.75  E-value=0.43  Score=49.74  Aligned_cols=160  Identities=12%  Similarity=-0.056  Sum_probs=91.6

Q ss_pred             CcccccchHHHHHHHHHhcC-------------------CCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHH
Q 038110          157 DYEAFESRMSTLNDILGALK-------------------NPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEI  217 (667)
Q Consensus       157 ~~~~~~gr~~~~~~i~~~l~-------------------~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i  217 (667)
                      ....|+|+++.++.+..++.                   .||||||+.+.+.....  |   .++..+ ......-+..+
T Consensus        23 ~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~--~---~~~~~~-~~~~~~~l~~~   96 (328)
T PRK00080         23 SLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVN--I---RITSGP-ALEKPGDLAAI   96 (328)
T ss_pred             CHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCC--e---EEEecc-cccChHHHHHH
Confidence            45678999999888765542                   24699999999987632  2   112211 12222233444


Q ss_pred             HHHhCCCCC------CCChhHHHH-HHHHHhcCCeEEEEEeCCCCcccccccCCCcCCCCCCcEEEEecCChhhhhhc-c
Q 038110          218 ADKLGLTFH------EESESGRAS-LCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRK-M  289 (667)
Q Consensus       218 ~~~l~~~~~------~~~~~~~~~-l~~~L~~~kr~LlVLDdvw~~~~~~~l~~~~~~~~~gs~iivTTr~~~va~~~-~  289 (667)
                      +..+....-      +........ +...+. +.+..+|+|+..+...+..   .++   +.+-|..||+...+.... .
T Consensus        97 l~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e-~~~~~~~l~~~~~~~~~~~---~l~---~~~li~at~~~~~l~~~L~s  169 (328)
T PRK00080         97 LTNLEEGDVLFIDEIHRLSPVVEEILYPAME-DFRLDIMIGKGPAARSIRL---DLP---PFTLIGATTRAGLLTSPLRD  169 (328)
T ss_pred             HHhcccCCEEEEecHhhcchHHHHHHHHHHH-hcceeeeeccCccccceee---cCC---CceEEeecCCcccCCHHHHH
Confidence            444432110      000111222 555555 5567777777655433221   111   245566777765543211 1


Q ss_pred             CCcceEecCCCCHHHHHHHHH---------------HHHHHHhCCcchHHHHHHH
Q 038110          290 DSKQNFSVGILKEEEAWSGEF---------------KWVAKECAGLPVSIVTVSR  329 (667)
Q Consensus       290 ~~~~~~~l~~L~~~~s~~Lf~---------------~~i~~~c~GlPLai~~~g~  329 (667)
                      .....+++++++.++..+++.               ..|++.|+|.|-.+..+..
T Consensus       170 Rf~~~~~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~G~pR~a~~~l~  224 (328)
T PRK00080        170 RFGIVQRLEFYTVEELEKIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLLR  224 (328)
T ss_pred             hcCeeeecCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHcCCCchHHHHHHH
Confidence            123478999999999999988               7899999999965544444

>PRK06893 DNA replication initiation factor; Validated

Probab=96.70  E-value=0.0054  Score=60.34  Aligned_cols=142  Identities=18%  Similarity=0.164  Sum_probs=81.4

Q ss_pred             CCCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCC
Q 038110          176 KNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWE  255 (667)
Q Consensus       176 ~~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~  255 (667)
                      +.|||+||+.+.+....+  .....++++...   .....                   .+.+.+.  +.-+|||||+|.
T Consensus        49 G~GKThL~~ai~~~~~~~--~~~~~y~~~~~~---~~~~~-------------------~~~~~~~--~~dlLilDDi~~  102 (229)
T PRK06893         49 SSGKSHLLKAVSNHYLLN--QRTAIYIPLSKS---QYFSP-------------------AVLENLE--QQDLVCLDDLQA  102 (229)
T ss_pred             CCCHHHHHHHHHHHHHHc--CCCeEEeeHHHh---hhhhH-------------------HHHhhcc--cCCEEEEeChhh
Confidence            347899999999986532  334567765311   00000                   1222232  235899999997


Q ss_pred             c---ccccc-cCCCcCCC-CCCcEEEEecCCh----------hhhhhccCCcceEecCCCCHHHHHHHHHHHHHHHhCCc
Q 038110          256 N---LDLLA-IGIPHGND-HKGCKILLTARSE----------DTLSRKMDSKQNFSVGILKEEEAWSGEFKWVAKECAGL  320 (667)
Q Consensus       256 ~---~~~~~-l~~~~~~~-~~gs~iivTTr~~----------~va~~~~~~~~~~~l~~L~~~~s~~Lf~~~i~~~c~Gl  320 (667)
                      .   .+|+. +...+... ..|+.+||+|.+.          +++.+ +.....++++++++++.++++.+.+.++  |+
T Consensus       103 ~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sR-l~~g~~~~l~~pd~e~~~~iL~~~a~~~--~l  179 (229)
T PRK06893        103 VIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASR-LTWGEIYQLNDLTDEQKIIVLQRNAYQR--GI  179 (229)
T ss_pred             hcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHH-HhcCCeeeCCCCCHHHHHHHHHHHHHHc--CC
Confidence            4   45542 22222211 2356665554443          44332 3445689999999999999998555543  66


Q ss_pred             chHHHHHHHHHcc--CChHHHHHHHHHh
Q 038110          321 PVSIVTVSRALRN--KSLFEWKDALQQL  346 (667)
Q Consensus       321 PLai~~~g~~L~~--k~~~~W~~~l~~l  346 (667)
                      ++.-.++--+++.  .+...-..+++.+
T Consensus       180 ~l~~~v~~~L~~~~~~d~r~l~~~l~~l  207 (229)
T PRK06893        180 ELSDEVANFLLKRLDRDMHTLFDALDLL  207 (229)
T ss_pred             CCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            6665555555542  2555555555554

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=96.64  E-value=0.027  Score=58.36  Aligned_cols=151  Identities=17%  Similarity=0.151  Sum_probs=94.5

Q ss_pred             cccchHHHHHHHHHhcCC---------------CCcHHHHHHHHHh----ccCCCCCEEEEEE-eCCCCCHHHHHHHHHH
Q 038110          160 AFESRMSTLNDILGALKN---------------PDTTLAKEVAWKA----ENDKLFDQAVFAE-VSQSHDIRKIQGEIAD  219 (667)
Q Consensus       160 ~~~gr~~~~~~i~~~l~~---------------~~TtLa~~vy~~~----~~~~~F~~~~wv~-vs~~~~~~~i~~~i~~  219 (667)
                      .++|.+..++.+..++..               ||||+|+.++...    ....|+|...|.. -+....+.+ .+++.+
T Consensus         5 ~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-ir~~~~   83 (313)
T PRK05564          5 TIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-IRNIIE   83 (313)
T ss_pred             hccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-HHHHHH
Confidence            456777777777776643               4599999998853    2336778777765 234444444 334444


Q ss_pred             HhCCCCCCCChhHHHHHHHHHhcCCeEEEEEe-CCCCcccccccCCCcCCCCCCcEEEEecCChhhh-hhccCCcceEec
Q 038110          220 KLGLTFHEESESGRASLCNQLKKNKTILMILD-NIWENLDLLAIGIPHGNDHKGCKILLTARSEDTL-SRKMDSKQNFSV  297 (667)
Q Consensus       220 ~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLD-dvw~~~~~~~l~~~~~~~~~gs~iivTTr~~~va-~~~~~~~~~~~l  297 (667)
                      .+.....              ..++|++||=| |..+...++.+...+.....++.+|++|.+.+.. .+.......+++
T Consensus        84 ~~~~~p~--------------~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~  149 (313)
T PRK05564         84 EVNKKPY--------------EGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKL  149 (313)
T ss_pred             HHhcCcc--------------cCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeC
Confidence            4432111              12455555544 4455577888877777767788888888665432 222233468999


Q ss_pred             CCCCHHHHHHHHH-----------HHHHHHhCCcchHHH
Q 038110          298 GILKEEEAWSGEF-----------KWVAKECAGLPVSIV  325 (667)
Q Consensus       298 ~~L~~~~s~~Lf~-----------~~i~~~c~GlPLai~  325 (667)
                      .++++++....+.           ..++..++|.|.-+.
T Consensus       150 ~~~~~~~~~~~l~~~~~~~~~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        150 NRLSKEEIEKFISYKYNDIKEEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             CCcCHHHHHHHHHHHhcCCCHHHHHHHHHHcCCCHHHHH
Confidence            9999999876654           346777888775443

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

Probab=96.49  E-value=0.00096  Score=38.76  Aligned_cols=22  Identities=45%  Similarity=0.603  Sum_probs=18.1

Q ss_pred             CCcEEEcCCCCCccCCccccCC
Q 038110          499 QVRVLDLTDMNLLSLPSSIGLL  520 (667)
Q Consensus       499 ~Lr~L~L~~~~i~~lP~si~~L  520 (667)
                      +|++|||++|.++.+|++|++|
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~l   22 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSNL   22 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT-
T ss_pred             CccEEECCCCcCEeCChhhcCC
Confidence            5889999999999999887764

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 ....

>PF13173 AAA_14: AAA domain

Probab=96.38  E-value=0.006  Score=53.98  Aligned_cols=110  Identities=18%  Similarity=0.086  Sum_probs=70.8

Q ss_pred             CCCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHH-HHHHHhcCCeEEEEEeCCC
Q 038110          176 KNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRAS-LCNQLKKNKTILMILDNIW  254 (667)
Q Consensus       176 ~~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~-l~~~L~~~kr~LlVLDdvw  254 (667)
                      ..||||++++++.+..   .....++++............+                ... +.+... .+..+|+||++.
T Consensus        12 ~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~~~----------------~~~~~~~~~~-~~~~~i~iDEiq   71 (128)
T PF13173_consen   12 GVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLADPD----------------LLEYFLELIK-PGKKYIFIDEIQ   71 (128)
T ss_pred             CCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhhhh----------------hHHHHHHhhc-cCCcEEEEehhh
Confidence            4588999999998765   2345667765543221100000                112 333333 356889999999


Q ss_pred             CcccccccCCCcCCCCCCcEEEEecCChhhhhh-----ccCCcceEecCCCCHHHH
Q 038110          255 ENLDLLAIGIPHGNDHKGCKILLTARSEDTLSR-----KMDSKQNFSVGILKEEEA  305 (667)
Q Consensus       255 ~~~~~~~l~~~~~~~~~gs~iivTTr~~~va~~-----~~~~~~~~~l~~L~~~~s  305 (667)
                      ...+|......+.+.....+|++|+........     ..|....++|.||+-.|.
T Consensus        72 ~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   72 YLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             hhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            998888776666665567899999998776521     123345789999998763

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

Probab=96.34  E-value=0.00018  Score=70.34  Aligned_cols=40  Identities=25%  Similarity=0.320  Sum_probs=28.2

Q ss_pred             HHhhhcceeeccccccccccccchhh-hhccCCCccEEEeecCCC
Q 038110          617 VQLRGIEELSLAGLLDQDIKNFVNEL-VKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       617 ~~l~~L~~L~L~~~~~~~~~~~~~~l-~~~~l~~L~~L~l~~~~~  660 (667)
                      ..++.|++|.|+.|  +++  .|+.+ .....|.|.+|++.||-.
T Consensus       335 ~kf~~L~~lSlsRC--Y~i--~p~~~~~l~s~psl~yLdv~g~vs  375 (419)
T KOG2120|consen  335 FKFNYLQHLSLSRC--YDI--IPETLLELNSKPSLVYLDVFGCVS  375 (419)
T ss_pred             Hhcchheeeehhhh--cCC--ChHHeeeeccCcceEEEEeccccC
Confidence            34579999999999  553  34332 226789999999988743

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

Probab=96.28  E-value=0.00022  Score=69.74  Aligned_cols=160  Identities=16%  Similarity=0.119  Sum_probs=97.8

Q ss_pred             CCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCc-cCCccccCCCcccEEecCC--cccccCCCCccChhhhcC
Q 038110          472 PQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLL-SLPSSIGLLTNLHTLCLYG--GVGVVDGVKNASLEELKH  548 (667)
Q Consensus       472 ~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-~lP~si~~L~~L~~L~L~~--~l~~LP~~~~~~~~~l~~  548 (667)
                      +.|+.|+++..... ..--..+++.+.+|+-|.|.|+.+. .+-..|.+=.+|+.|+|+.  .+.+-.     .-.-+.+
T Consensus       185 sRlq~lDLS~s~it-~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~-----~~ll~~s  258 (419)
T KOG2120|consen  185 SRLQHLDLSNSVIT-VSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENA-----LQLLLSS  258 (419)
T ss_pred             hhhHHhhcchhhee-HHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhH-----HHHHHHh
Confidence            45888888876654 2223445688888999999998877 4556677778888888887  332211     0033567


Q ss_pred             CCCCCeEEeecCCCCC-C-CCCCcCC-CCCCeeEEEecCccCCCcccccccccceEEeecCccccchHHHHHHhhhccee
Q 038110          549 FPNLTSLELEVNDANT-L-PRGGLFF-EKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEEL  625 (667)
Q Consensus       549 L~~L~~L~l~~~~l~~-l-P~~~~~l-~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L  625 (667)
                      ++.|..|++++|.+.. . .-.+.+. .+|..|+++....                    +...+..+.+....++|.+|
T Consensus       259 cs~L~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rr--------------------nl~~sh~~tL~~rcp~l~~L  318 (419)
T KOG2120|consen  259 CSRLDELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRR--------------------NLQKSHLSTLVRRCPNLVHL  318 (419)
T ss_pred             hhhHhhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHh--------------------hhhhhHHHHHHHhCCceeee
Confidence            7888888888886421 1 0001111 1333333331110                    11222334444556899999


Q ss_pred             ecccccccccc-ccchhhhhccCCCccEEEeecCCCC
Q 038110          626 SLAGLLDQDIK-NFVNELVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       626 ~L~~~~~~~~~-~~~~~l~~~~l~~L~~L~l~~~~~l  661 (667)
                      +|+.|  .-+. .+...+  ..|+.|++|.++.|.++
T Consensus       319 DLSD~--v~l~~~~~~~~--~kf~~L~~lSlsRCY~i  351 (419)
T KOG2120|consen  319 DLSDS--VMLKNDCFQEF--FKFNYLQHLSLSRCYDI  351 (419)
T ss_pred             ccccc--cccCchHHHHH--HhcchheeeehhhhcCC
Confidence            99998  3222 344555  67999999999999886

>TIGR00767 rho transcription termination factor Rho

Probab=96.10  E-value=0.02  Score=59.92  Aligned_cols=80  Identities=14%  Similarity=0.205  Sum_probs=54.9

Q ss_pred             CCCCcHHHHHHHHHhccCCCCCEEEEEEeCCC--CCHHHHHHHHHHHhCCCCCCCChhHH------HH--HHHHHhcCCe
Q 038110          176 KNPDTTLAKEVAWKAENDKLFDQAVFAEVSQS--HDIRKIQGEIADKLGLTFHEESESGR------AS--LCNQLKKNKT  245 (667)
Q Consensus       176 ~~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~--~~~~~i~~~i~~~l~~~~~~~~~~~~------~~--l~~~L~~~kr  245 (667)
                      +.|||||++.+++....+ ||+..+||.+++.  +++.++++.|+..+-....+......      ..  .......|++
T Consensus       178 g~GKTtL~~~i~~~I~~n-hfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e~Ae~~~~~Gkd  256 (415)
T TIGR00767       178 KAGKTVLLQKIAQAITRN-HPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKD  256 (415)
T ss_pred             CCChhHHHHHHHHhhccc-CCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHHHHHHHHHcCCC
Confidence            457899999999988754 8999999999865  79999999996543322222111111      11  2222234899


Q ss_pred             EEEEEeCCCCc
Q 038110          246 ILMILDNIWEN  256 (667)
Q Consensus       246 ~LlVLDdvw~~  256 (667)
                      .+|++|.+..-
T Consensus       257 VVLlIDEitR~  267 (415)
T TIGR00767       257 VVILLDSITRL  267 (415)
T ss_pred             eEEEEEChhHH
Confidence            99999999754

Members of this family differ in the specificity of RNA binding.

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

Probab=96.09  E-value=0.0094  Score=55.45  Aligned_cols=103  Identities=16%  Similarity=0.184  Sum_probs=76.8

Q ss_pred             CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcccc-CCCcccEEecCC-cccccCCCCccChhhhc
Q 038110          470 ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIG-LLTNLHTLCLYG-GVGVVDGVKNASLEELK  547 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~-~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~  547 (667)
                      -..+...+++.+|..  ..++.  |..++.|..|.|++|+|+.+-+.++ .+++|..|.|.+ .+.+|-+     +..+.
T Consensus        40 ~~d~~d~iDLtdNdl--~~l~~--lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~d-----l~pLa  110 (233)
T KOG1644|consen   40 TLDQFDAIDLTDNDL--RKLDN--LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGD-----LDPLA  110 (233)
T ss_pred             cccccceecccccch--hhccc--CCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhh-----cchhc
Confidence            355778889998876  44443  5899999999999999999866665 456799999988 4444420     13467


Q ss_pred             CCCCCCeEEeecCCCCCCCCC----CcCCCCCCeeEEE
Q 038110          548 HFPNLTSLELEVNDANTLPRG----GLFFEKPERYKIL  581 (667)
Q Consensus       548 ~L~~L~~L~l~~~~l~~lP~~----~~~l~~L~~l~~~  581 (667)
                      .++.|++|.+-+|.++.-+..    +..+++|+.|+..
T Consensus       111 ~~p~L~~Ltll~Npv~~k~~YR~yvl~klp~l~~LDF~  148 (233)
T KOG1644|consen  111 SCPKLEYLTLLGNPVEHKKNYRLYVLYKLPSLRTLDFQ  148 (233)
T ss_pred             cCCccceeeecCCchhcccCceeEEEEecCcceEeehh
Confidence            788999999999988777654    3477788877654

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=95.94  E-value=0.27  Score=55.60  Aligned_cols=188  Identities=18%  Similarity=0.147  Sum_probs=117.2

Q ss_pred             CCcHHHHHHHHHhccCCCCCEEEEEEeCC-CCCHHHHHHHHHHHhCCCCCCCChhH-----------HHH----HHHHHh
Q 038110          178 PDTTLAKEVAWKAENDKLFDQAVFAEVSQ-SHDIRKIQGEIADKLGLTFHEESESG-----------RAS----LCNQLK  241 (667)
Q Consensus       178 ~~TtLa~~vy~~~~~~~~F~~~~wv~vs~-~~~~~~i~~~i~~~l~~~~~~~~~~~-----------~~~----l~~~L~  241 (667)
                      |||||+-.......   .=..++|.+... .-+...+...++..++.-.++..+.-           ...    +...|.
T Consensus        49 GKttl~aq~~~~~~---~~~~v~Wlslde~dndp~rF~~yLi~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela  125 (894)
T COG2909          49 GKTTLLAQWRELAA---DGAAVAWLSLDESDNDPARFLSYLIAALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELA  125 (894)
T ss_pred             cHHHHHHHHHHhcC---cccceeEeecCCccCCHHHHHHHHHHHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHH
Confidence            67999999986322   124599999966 55789999999988874322211111           011    222222


Q ss_pred             -cCCeEEEEEeCCCCcc--cc-cccCCCcCCCCCCcEEEEecCChhhhhhc-cC-CcceEecC----CCCHHHHHHHHH-
Q 038110          242 -KNKTILMILDNIWENL--DL-LAIGIPHGNDHKGCKILLTARSEDTLSRK-MD-SKQNFSVG----ILKEEEAWSGEF-  310 (667)
Q Consensus       242 -~~kr~LlVLDdvw~~~--~~-~~l~~~~~~~~~gs~iivTTr~~~va~~~-~~-~~~~~~l~----~L~~~~s~~Lf~-  310 (667)
                       -.+...+||||..-..  .. ..+..-+.....+=..|||||+..-.... +. .....+++    .++.+|+-++|. 
T Consensus       126 ~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~  205 (894)
T COG2909         126 SYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLND  205 (894)
T ss_pred             hhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHH
Confidence             1457899999986541  12 12222233344567899999997532100 00 11122222    378899999998 


Q ss_pred             -----------HHHHHHhCCcchHHHHHHHHHccC-ChHHHHH--------HHHHhcCCCCcCchHHHHHHHHHHhhh
Q 038110          311 -----------KWVAKECAGLPVSIVTVSRALRNK-SLFEWKD--------ALQQLRRPISTNFKDELKQIFLLIGYT  368 (667)
Q Consensus       311 -----------~~i~~~c~GlPLai~~~g~~L~~k-~~~~W~~--------~l~~l~~~~~~~l~~~lk~cfly~s~f  368 (667)
                                 +.+.+...|.+-|+..++=.+++. +.+.--.        +.+.+-....+.+|+.++.-++-||++
T Consensus       206 ~~~l~Ld~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~q~~~~LsG~~~~l~dYL~eeVld~Lp~~l~~FLl~~svl  283 (894)
T COG2909         206 RGSLPLDAADLKALYDRTEGWAAALQLIALALRNNTSAEQSLRGLSGAASHLSDYLVEEVLDRLPPELRDFLLQTSVL  283 (894)
T ss_pred             cCCCCCChHHHHHHHhhcccHHHHHHHHHHHccCCCcHHHHhhhccchHHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Confidence                       888999999999998888888733 3332222        222233444566799999999999998

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

Probab=95.92  E-value=0.0041  Score=60.21  Aligned_cols=80  Identities=19%  Similarity=0.264  Sum_probs=52.5

Q ss_pred             cccceeEEEEeccCccccCCCCCCCCccEEEccCC--CCccccccHHHHhCCCCCcEEEcCCCCCccCCcc---ccCCCc
Q 038110          448 RVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAE--KNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS---IGLLTN  522 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~--~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s---i~~L~~  522 (667)
                      ....+..+++.+..++.+...+.+++|+.|.++.|  ... ..++--+ .++++|++|+|++|+|+- +++   ...|.+
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 EFVELELLSVINVGLTTLTNFPKLPKLKKLELSDNYRRVS-GGLEVLA-EKAPNLKVLNLSGNKIKD-LSTLRPLKELEN  117 (260)
T ss_pred             cccchhhhhhhccceeecccCCCcchhhhhcccCCccccc-ccceehh-hhCCceeEEeecCCcccc-ccccchhhhhcc
Confidence            34566677777666666666677888888888888  333 4444444 566888888888887764 222   344555


Q ss_pred             ccEEecCC
Q 038110          523 LHTLCLYG  530 (667)
Q Consensus       523 L~~L~L~~  530 (667)
                      |..|++..
T Consensus       118 L~~Ldl~n  125 (260)
T KOG2739|consen  118 LKSLDLFN  125 (260)
T ss_pred             hhhhhccc
Confidence            55666655

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=95.59  E-value=0.12  Score=58.50  Aligned_cols=152  Identities=15%  Similarity=0.073  Sum_probs=88.9

Q ss_pred             ccccchHHHHHHHHHhcC--------------CCCcHHHHHHHHHhccCCCCC---EEEEEEeCC---CCCHHHHHHHH-
Q 038110          159 EAFESRMSTLNDILGALK--------------NPDTTLAKEVAWKAENDKLFD---QAVFAEVSQ---SHDIRKIQGEI-  217 (667)
Q Consensus       159 ~~~~gr~~~~~~i~~~l~--------------~~~TtLa~~vy~~~~~~~~F~---~~~wv~vs~---~~~~~~i~~~i-  217 (667)
                      ..++|++..+..+...+.              .||||+|+.+++..+....+.   ...||.+..   ..+...+...+ 
T Consensus       154 ~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~~~ll  233 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPREVTNPLL  233 (615)
T ss_pred             HhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHHHhHHhc
Confidence            346677777777665543              256999999998765444442   245665532   22333322211 


Q ss_pred             --------------HHHhCCC------------------CCCCChhHHHH-HHHHHhcCCeEEEEEeCCCCc--cccccc
Q 038110          218 --------------ADKLGLT------------------FHEESESGRAS-LCNQLKKNKTILMILDNIWEN--LDLLAI  262 (667)
Q Consensus       218 --------------~~~l~~~------------------~~~~~~~~~~~-l~~~L~~~kr~LlVLDdvw~~--~~~~~l  262 (667)
                                    +...+..                  .-+..+..... +.+.++ +++++++-|+.|..  ..|+.+
T Consensus       234 g~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le-~~~v~~~~~~~~~~~~~~~~~i  312 (615)
T TIGR02903       234 GSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLE-DKRVEFSSSYYDPDDPNVPKYI  312 (615)
T ss_pred             CCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHh-hCeEEeecceeccCCcccchhh
Confidence                          1111110                  00111222333 888888 78899998877765  568888


Q ss_pred             CCCcCCCCCCcEEEE--ecCChhhhhhc-cCCcceEecCCCCHHHHHHHHHH
Q 038110          263 GIPHGNDHKGCKILL--TARSEDTLSRK-MDSKQNFSVGILKEEEAWSGEFK  311 (667)
Q Consensus       263 ~~~~~~~~~gs~iiv--TTr~~~va~~~-~~~~~~~~l~~L~~~~s~~Lf~~  311 (667)
                      ...+....+...|++  ||++....... ......+.+.+++.+|.+.++.+
T Consensus       313 k~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~  364 (615)
T TIGR02903       313 KKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLN  364 (615)
T ss_pred             hhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHH
Confidence            777766666665666  66654322111 11224678999999999999864

Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.

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

Probab=95.54  E-value=0.013  Score=57.01  Aligned_cols=213  Identities=15%  Similarity=0.128  Sum_probs=101.6

Q ss_pred             cccceeEEEEeccCccc-----cCCCC-CCCCccEEEccCCCCc--cccccHHH------HhCCCCCcEEEcCCCCCc-c
Q 038110          448 RVRHCTSIVILDVKTYV-----LPEVM-ECPQLKLFSMPAEKNS--FFAIPHNL------FRSMLQVRVLDLTDMNLL-S  512 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~-----l~~~~-~~~~Lr~L~l~~~~~~--~~~lp~~~------~~~l~~Lr~L~L~~~~i~-~  512 (667)
                      .+..+..+.+++|.++.     +.... .-.+|+...++.-...  ...+|+++      +-++++|+..+||.|-+. .
T Consensus        28 ~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~~  107 (388)
T COG5238          28 MMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGSE  107 (388)
T ss_pred             hhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCcc
Confidence            35677788888876632     11111 3455666655543210  02233222      356777888888887654 3


Q ss_pred             CCcc----ccCCCcccEEecCC-cccccCCCC-c------cChhhhcCCCCCCeEEeecCCCCCCCCCCc-----CCCCC
Q 038110          513 LPSS----IGLLTNLHTLCLYG-GVGVVDGVK-N------ASLEELKHFPNLTSLELEVNDANTLPRGGL-----FFEKP  575 (667)
Q Consensus       513 lP~s----i~~L~~L~~L~L~~-~l~~LP~~~-~------~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~-----~l~~L  575 (667)
                      .|+.    |.+-++|..|.|++ .++.+.+.. .      .-.....+-|.|++.+...|++..-|...+     +=..|
T Consensus       108 ~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRlengs~~~~a~~l~sh~~l  187 (388)
T COG5238         108 FPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENGSKELSAALLESHENL  187 (388)
T ss_pred             cchHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhccCcHHHHHHHHHhhcCc
Confidence            4443    45556677777766 333222100 0      000223445677777777777666665321     11355


Q ss_pred             CeeEEEecCccCC--Cc--cccc--ccccceEEeecCccccchHHHH-HHh---hhcceeecccc--ccccccccchhhh
Q 038110          576 ERYKILTGHRWSR--GF--YRSS--NKSYRSFRIDLDANVRLKDRLV-VQL---RGIEELSLAGL--LDQDIKNFVNELV  643 (667)
Q Consensus       576 ~~l~~~~~~~~~~--~~--~~~~--~~~l~~l~l~~~~~~~~~~~~~-~~l---~~L~~L~L~~~--~~~~~~~~~~~l~  643 (667)
                      +.+.+..+....-  ..  +.++  ...+..|.|..|.......... ..+   +.|++|.+..|  ++.|..++...+.
T Consensus       188 k~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W~~lrEL~lnDClls~~G~~~v~~~f~  267 (388)
T COG5238         188 KEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEWNLLRELRLNDCLLSNEGVKSVLRRFN  267 (388)
T ss_pred             eeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHhcccchhhhccccchhhccccHHHHHHHhh
Confidence            5565553331110  00  0111  2334444444433322221111 111   35666766666  1234445555554


Q ss_pred             hccCCCccEEEeecCCC
Q 038110          644 KVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       644 ~~~l~~L~~L~l~~~~~  660 (667)
                      ..-.|+|..|...+|..
T Consensus       268 e~~~p~l~~L~~~Yne~  284 (388)
T COG5238         268 EKFVPNLMPLPGDYNER  284 (388)
T ss_pred             hhcCCCccccccchhhh
Confidence            44567777777666543

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.49  E-value=0.0058  Score=60.02  Aligned_cols=81  Identities=20%  Similarity=0.124  Sum_probs=57.2

Q ss_pred             HHhCCCCCcEEEcCCCCCcc---CCccccCCCcccEEecCC-----cccccCCCCccChhhhcCCCCCCeEEeecCCCC-
Q 038110          493 LFRSMLQVRVLDLTDMNLLS---LPSSIGLLTNLHTLCLYG-----GVGVVDGVKNASLEELKHFPNLTSLELEVNDAN-  563 (667)
Q Consensus       493 ~~~~l~~Lr~L~L~~~~i~~---lP~si~~L~~L~~L~L~~-----~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~-  563 (667)
                      +=....+++.|||.+|.|..   +-.-..+|++|++|+|+.     .|+.+|          ..+.+|+.|-+.++.+. 
T Consensus        66 ~~~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp----------~p~~nl~~lVLNgT~L~w  135 (418)
T KOG2982|consen   66 FGSSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLP----------LPLKNLRVLVLNGTGLSW  135 (418)
T ss_pred             HHHHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCc----------ccccceEEEEEcCCCCCh
Confidence            33567899999999998873   333456899999999998     455555          23568999999988643 


Q ss_pred             -CCCCCCcCCCCCCeeEEEec
Q 038110          564 -TLPRGGLFFEKPERYKILTG  583 (667)
Q Consensus       564 -~lP~~~~~l~~L~~l~~~~~  583 (667)
                       ........++.++.|+++.+
T Consensus       136 ~~~~s~l~~lP~vtelHmS~N  156 (418)
T KOG2982|consen  136 TQSTSSLDDLPKVTELHMSDN  156 (418)
T ss_pred             hhhhhhhhcchhhhhhhhccc
Confidence             22333346677777766655

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=95.49  E-value=0.031  Score=49.43  Aligned_cols=104  Identities=21%  Similarity=0.298  Sum_probs=69.0

Q ss_pred             CCCCcHHHHHHHHHhccC---CCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC-CChhHHHH-HHHHHhcCCeEEEEE
Q 038110          176 KNPDTTLAKEVAWKAEND---KLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHE-ESESGRAS-LCNQLKKNKTILMIL  250 (667)
Q Consensus       176 ~~~~TtLa~~vy~~~~~~---~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~-~~~~~~~~-l~~~L~~~kr~LlVL  250 (667)
                      +.|||++++.+.++....   ..-...+|+.++...+...+...|+.+++..... ....+... +.+.+...+..+||+
T Consensus        14 G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l~~~~~~~lvi   93 (131)
T PF13401_consen   14 GSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDALDRRRVVLLVI   93 (131)
T ss_dssp             TSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHHHHCTEEEEEE
T ss_pred             CCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHHHhcCCeEEEE
Confidence            458899999999875411   0123477999988879999999999999987665 23333334 777777566679999


Q ss_pred             eCCCCc---ccccccCCCcCCCCCCcEEEEecCC
Q 038110          251 DNIWEN---LDLLAIGIPHGNDHKGCKILLTARS  281 (667)
Q Consensus       251 Ddvw~~---~~~~~l~~~~~~~~~gs~iivTTr~  281 (667)
                      |++..-   ..++.+.... + ..+.+||+..+.
T Consensus        94 De~~~l~~~~~l~~l~~l~-~-~~~~~vvl~G~~  125 (131)
T PF13401_consen   94 DEADHLFSDEFLEFLRSLL-N-ESNIKVVLVGTP  125 (131)
T ss_dssp             ETTHHHHTHHHHHHHHHHT-C-SCBEEEEEEESS
T ss_pred             eChHhcCCHHHHHHHHHHH-h-CCCCeEEEEECh
Confidence            999764   2233332222 2 455666665544

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=95.40  E-value=0.1  Score=53.85  Aligned_cols=120  Identities=20%  Similarity=0.151  Sum_probs=77.6

Q ss_pred             CCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc
Q 038110          177 NPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWEN  256 (667)
Q Consensus       177 ~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~  256 (667)
                      .||||||+.+.....  ..|     ..+|-..+-.+=++++++..               ++....|+|.+|.+|.|..-
T Consensus        59 ~GKTTlA~liA~~~~--~~f-----~~~sAv~~gvkdlr~i~e~a---------------~~~~~~gr~tiLflDEIHRf  116 (436)
T COG2256          59 TGKTTLARLIAGTTN--AAF-----EALSAVTSGVKDLREIIEEA---------------RKNRLLGRRTILFLDEIHRF  116 (436)
T ss_pred             CCHHHHHHHHHHhhC--Cce-----EEeccccccHHHHHHHHHHH---------------HHHHhcCCceEEEEehhhhc
Confidence            367999999998665  334     34444333333333333322               11222378999999999764


Q ss_pred             --ccccccCCCcCCCCCCcEEEE--ecCChhhh--hhccCCcceEecCCCCHHHHHHHHHHHHHHHhCCcc
Q 038110          257 --LDLLAIGIPHGNDHKGCKILL--TARSEDTL--SRKMDSKQNFSVGILKEEEAWSGEFKWVAKECAGLP  321 (667)
Q Consensus       257 --~~~~~l~~~~~~~~~gs~iiv--TTr~~~va--~~~~~~~~~~~l~~L~~~~s~~Lf~~~i~~~c~GlP  321 (667)
                        .+=+.+   +|.-.+|.-|+|  ||-+..-.  ........++.+++|+.++-..++.+-+...+.|++
T Consensus       117 nK~QQD~l---Lp~vE~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l~ra~~~~~rgl~  184 (436)
T COG2256         117 NKAQQDAL---LPHVENGTIILIGATTENPSFELNPALLSRARVFELKPLSSEDIKKLLKRALLDEERGLG  184 (436)
T ss_pred             Chhhhhhh---hhhhcCCeEEEEeccCCCCCeeecHHHhhhhheeeeecCCHHHHHHHHHHHHhhhhcCCC
Confidence              333333   344567887777  77666532  112234569999999999999999988888888888

>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=95.36  E-value=0.11  Score=46.79  Aligned_cols=105  Identities=10%  Similarity=0.111  Sum_probs=78.0

Q ss_pred             ccccchhhHhh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHhhHHH
Q 038110            3 KCLAPPTERQF-SYLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKGEEIEKKVEKLLDSGNNAIVEAEKFVGDEAA   81 (667)
Q Consensus         3 ~~~~~~v~~~~-~~l~~~~~~~~~~~~~~~~L~~~l~~i~~~l~~ae~~~~~~~~~~~~Wl~~l~~~ayd~ed~ld~~~~   81 (667)
                      |+++|.+...+ ..+.+..+.....+.-++.|.++++.|..++++.+..+...|..-+.=++++.+...+++++++.+..
T Consensus         8 gaalG~~~~eLlk~v~~~~~k~~~fk~~l~~L~sTl~~i~P~i~eI~~~~~eld~~~~ee~e~L~~~L~~g~~LV~k~sk   87 (147)
T PF05659_consen    8 GAALGAVFGELLKAVIDASKKSLSFKSILKRLESTLESIIPIIKEIDKLNVELDRPRQEEIERLKELLEKGKELVEKCSK   87 (147)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhHHHHHHHHhhhcCCchhHHHHHHHHHHHHHHHHHHHhcc
Confidence            44444444443 45566666677788899999999999999999998766555555577789999999999999977643


Q ss_pred             hhhhhccccccchHHHhHhhhhHHHHHHHHHHH
Q 038110           82 ANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKL  114 (667)
Q Consensus        82 ~~~~~~~~~~~~~~~r~~~~~~i~~~~~~l~~i  114 (667)
                      -.       +.++...++.+++|+++.+.+...
T Consensus        88 ~~-------r~n~~kk~~y~~Ki~~le~~l~~f  113 (147)
T PF05659_consen   88 VR-------RWNLYKKPRYARKIEELEESLRRF  113 (147)
T ss_pred             cc-------HHHHHhhHhHHHHHHHHHHHHHHH
Confidence            22       345667778899999888888765

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=95.28  E-value=0.0081  Score=58.20  Aligned_cols=103  Identities=22%  Similarity=0.222  Sum_probs=70.8

Q ss_pred             CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCC--CCc-cCCccccCCCcccEEecCC-c---ccccCCCCccC
Q 038110          470 ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDM--NLL-SLPSSIGLLTNLHTLCLYG-G---VGVVDGVKNAS  542 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~--~i~-~lP~si~~L~~L~~L~L~~-~---l~~LP~~~~~~  542 (667)
                      .+..|..|.+.+...  ..+-.  |..|++|+.|+++.|  .+. .++-...++++|++|++++ .   +..++      
T Consensus        41 ~~~~le~ls~~n~gl--tt~~~--~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~------  110 (260)
T KOG2739|consen   41 EFVELELLSVINVGL--TTLTN--FPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLR------  110 (260)
T ss_pred             cccchhhhhhhccce--eeccc--CCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccc------
Confidence            455666666655544  22222  478899999999999  555 6777677779999999998 3   44443      


Q ss_pred             hhhhcCCCCCCeEEeecCCCCCCCCC----CcCCCCCCeeEEEecC
Q 038110          543 LEELKHFPNLTSLELEVNDANTLPRG----GLFFEKPERYKILTGH  584 (667)
Q Consensus       543 ~~~l~~L~~L~~L~l~~~~l~~lP~~----~~~l~~L~~l~~~~~~  584 (667)
                        .+.+|.||..|++..|....+-..    +.-+++|+.|+.....
T Consensus       111 --pl~~l~nL~~Ldl~n~~~~~l~dyre~vf~ll~~L~~LD~~dv~  154 (260)
T KOG2739|consen  111 --PLKELENLKSLDLFNCSVTNLDDYREKVFLLLPSLKYLDGCDVD  154 (260)
T ss_pred             --hhhhhcchhhhhcccCCccccccHHHHHHHHhhhhccccccccC
Confidence              577888999999999876665432    2356777777554333

>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=94.94  E-value=0.073  Score=52.70  Aligned_cols=103  Identities=12%  Similarity=0.062  Sum_probs=69.5

Q ss_pred             ccchhhHhhhHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH-HhcCcccHHHHHHHHHHHHHHHHHHHHHHhhHHHh
Q 038110            5 LAPPTERQFSYLRSYN-NNIENLKAEVGKLKDGTESIQHAVDEA-KRKGEEIEKKVEKLLDSGNNAIVEAEKFVGDEAAA   82 (667)
Q Consensus         5 ~~~~v~~~~~~l~~~~-~~~~~~~~~~~~L~~~l~~i~~~l~~a-e~~~~~~~~~~~~Wl~~l~~~ayd~ed~ld~~~~~   82 (667)
                      .+..+++.+.-+...| ..+.-++.+++-++.+++++|.||++. +.....++. ...+..++.+.||++|.++|-.-..
T Consensus       297 yVdFlL~NLkdfq~rysdSlaflKnQiqvIQ~elesLqpFLk~V~ee~~nkh~~-~ed~a~~ii~kAyevEYVVDaCi~k  375 (402)
T PF12061_consen  297 YVDFLLKNLKDFQGRYSDSLAFLKNQIQVIQTELESLQPFLKHVVEEPHNKHDT-NEDCATQIIRKAYEVEYVVDACISK  375 (402)
T ss_pred             HHHHHHhhHHHHhccccchHHHHHHHHHHHHHHHHHhhHHHHHHHhccchhhhh-hhhHHHHHHHHHhheeeeeehhhcC
Confidence            4556666666554433 567889999999999999999999987 443444444 9999999999999999999874321


Q ss_pred             hhhhccccccchHHHhHhhhhHHHHHHHHH
Q 038110           83 NKQCFKGLCANLKIRIQHSTEAPRQLEAIV  112 (667)
Q Consensus        83 ~~~~~~~~~~~~~~r~~~~~~i~~~~~~l~  112 (667)
                      .   ...|| ....-..+..+|+-++++++
T Consensus       376 ~---~P~Wc-l~~WL~dIieei~~ik~~i~  401 (402)
T PF12061_consen  376 S---VPHWC-LERWLLDIIEEITCIKAKIQ  401 (402)
T ss_pred             C---CcHHH-HHHHHHHHHHHHHHHHHHhc
Confidence            1   11111 12233455556666555543

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.

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

Probab=94.59  E-value=0.021  Score=30.76  Aligned_cols=17  Identities=47%  Similarity=0.704  Sum_probs=10.5

Q ss_pred             CCCcEEEcCCCCCccCC
Q 038110          498 LQVRVLDLTDMNLLSLP  514 (667)
Q Consensus       498 ~~Lr~L~L~~~~i~~lP  514 (667)
                      ++|+.|+|++|+++++|
T Consensus         1 ~~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    1 PNLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             TT-SEEEETSS--SSE-
T ss_pred             CccCEEECCCCCCCCCc
Confidence            46888888888888776

...

>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=94.45  E-value=0.011  Score=34.22  Aligned_cols=20  Identities=30%  Similarity=0.393  Sum_probs=15.4

Q ss_pred             CCCeEEeecCCCCCCCCCCc
Q 038110          551 NLTSLELEVNDANTLPRGGL  570 (667)
Q Consensus       551 ~L~~L~l~~~~l~~lP~~~~  570 (667)
                      +|++||+++|+++.+|+++.
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~   20 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFS   20 (22)
T ss_dssp             TESEEEETSSEESEEGTTTT
T ss_pred             CccEEECCCCcCEeCChhhc
Confidence            57888888888888887744

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 ....

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.23  E-value=0.0036  Score=60.88  Aligned_cols=79  Identities=28%  Similarity=0.287  Sum_probs=41.1

Q ss_pred             CccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-cccccCCCCccChhhhcCCCC
Q 038110          473 QLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHFPN  551 (667)
Q Consensus       473 ~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~  551 (667)
                      +.+.|.+.|+..  ..|  ++..+|+.|.||.|+-|.|+.|- .+..+++|+.|.|+. .|..|-.     +.-+.+|++
T Consensus        20 ~vkKLNcwg~~L--~DI--sic~kMp~lEVLsLSvNkIssL~-pl~rCtrLkElYLRkN~I~sldE-----L~YLknlps   89 (388)
T KOG2123|consen   20 NVKKLNCWGCGL--DDI--SICEKMPLLEVLSLSVNKISSLA-PLQRCTRLKELYLRKNCIESLDE-----LEYLKNLPS   89 (388)
T ss_pred             HhhhhcccCCCc--cHH--HHHHhcccceeEEeeccccccch-hHHHHHHHHHHHHHhcccccHHH-----HHHHhcCch
Confidence            444444444443  222  23456666666666666666552 345556666666655 2222210     023456666


Q ss_pred             CCeEEeecCC
Q 038110          552 LTSLELEVND  561 (667)
Q Consensus       552 L~~L~l~~~~  561 (667)
                      |+.|.|..|.
T Consensus        90 Lr~LWL~ENP   99 (388)
T KOG2123|consen   90 LRTLWLDENP   99 (388)
T ss_pred             hhhHhhccCC
Confidence            6666666664

>PRK13342 recombination factor protein RarA; Reviewed

Probab=93.87  E-value=0.62  Score=50.25  Aligned_cols=66  Identities=17%  Similarity=0.122  Sum_probs=41.4

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEE--ecCChhhh--hhccCCcceEecCCCCHHHHHHHHHH
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILL--TARSEDTL--SRKMDSKQNFSVGILKEEEAWSGEFK  311 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iiv--TTr~~~va--~~~~~~~~~~~l~~L~~~~s~~Lf~~  311 (667)
                      +++.+|++|+++..  .+.+.+...+.   .|..+++  ||.+....  .........+.+.+++.++.+.++.+
T Consensus        91 g~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~aL~SR~~~~~~~~ls~e~i~~lL~~  162 (413)
T PRK13342         91 GRRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPALLSRAQVFELKPLSEEDIEQLLKR  162 (413)
T ss_pred             CCceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHHHhccceeeEeCCCCHHHHHHHHHH
Confidence            67899999999875  34444433332   3555555  34443211  11122336899999999999999874

>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=93.77  E-value=0.036  Score=29.79  Aligned_cols=17  Identities=47%  Similarity=0.810  Sum_probs=11.1

Q ss_pred             CCCCeEEeecCCCCCCC
Q 038110          550 PNLTSLELEVNDANTLP  566 (667)
Q Consensus       550 ~~L~~L~l~~~~l~~lP  566 (667)
                      ++|+.|++++|+++.+|
T Consensus         1 ~~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    1 PNLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             TT-SEEEETSS--SSE-
T ss_pred             CccCEEECCCCCCCCCc
Confidence            47899999999888877

...

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.37  E-value=0.0039  Score=60.61  Aligned_cols=78  Identities=17%  Similarity=0.173  Sum_probs=47.9

Q ss_pred             ccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc--cccCCCcccEE
Q 038110          449 VRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS--SIGLLTNLHTL  526 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~--si~~L~~L~~L  526 (667)
                      +.+++.|++.++.+..+.-..+++.|.+|.|+-|.+  ..+.+  |..++.|+.|.|..|.|..+-+  -+.+|++|++|
T Consensus        18 l~~vkKLNcwg~~L~DIsic~kMp~lEVLsLSvNkI--ssL~p--l~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~L   93 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDISICEKMPLLEVLSLSVNKI--SSLAP--LQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTL   93 (388)
T ss_pred             HHHhhhhcccCCCccHHHHHHhcccceeEEeecccc--ccchh--HHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhH
Confidence            345666666666666655555667777777776665  33433  3667777777777776665533  35566666666


Q ss_pred             ecCC
Q 038110          527 CLYG  530 (667)
Q Consensus       527 ~L~~  530 (667)
                      .|..
T Consensus        94 WL~E   97 (388)
T KOG2123|consen   94 WLDE   97 (388)
T ss_pred             hhcc
Confidence            6644

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=93.36  E-value=0.95  Score=51.45  Aligned_cols=84  Identities=10%  Similarity=0.054  Sum_probs=55.3

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCCh-hhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSE-DTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~-~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      ++.-++|||++...  ..|+.+...+..-....++|+||.+. .+..........+++..++.++..+.+.         
T Consensus       118 gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~  197 (830)
T PRK07003        118 ARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIA  197 (830)
T ss_pred             CCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCCC
Confidence            44557889999876  44777655554444566777766664 3332223334689999999999877665         


Q ss_pred             ------HHHHHHhCCcc-hHHHH
Q 038110          311 ------KWVAKECAGLP-VSIVT  326 (667)
Q Consensus       311 ------~~i~~~c~GlP-Lai~~  326 (667)
                            ..|++.++|.. -|+..
T Consensus       198 id~eAL~lIA~~A~GsmRdALsL  220 (830)
T PRK07003        198 FEPQALRLLARAAQGSMRDALSL  220 (830)
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHH
Confidence                  57778888754 34433

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.28  E-value=1.6  Score=46.08  Aligned_cols=68  Identities=12%  Similarity=0.109  Sum_probs=43.3

Q ss_pred             CCeEEEEEeCCCCcc--cccccCCCcCCCCCCcEEEEecCCh-hhhhhccCCcceEecCCCCHHHHHHHHH
Q 038110          243 NKTILMILDNIWENL--DLLAIGIPHGNDHKGCKILLTARSE-DTLSRKMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~~--~~~~l~~~~~~~~~gs~iivTTr~~-~va~~~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      +++-++|+|++....  .++.+...+.......++|++|.+. .+.....+....+++.+++.++..+.+.
T Consensus       118 ~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI~SRc~~~~~~~l~~~el~~~L~  188 (363)
T PRK14961        118 SRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSRCLQFKLKIISEEKIFNFLK  188 (363)
T ss_pred             CCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHHHhhceEEeCCCCCHHHHHHHHH
Confidence            455689999998763  4666655554444566677666543 3322223334689999999998776553

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=93.21  E-value=1.3  Score=48.62  Aligned_cols=68  Identities=13%  Similarity=0.047  Sum_probs=46.1

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEE-EecCChhhhhhccCCcceEecCCCCHHHHHHHHH
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKIL-LTARSEDTLSRKMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~ii-vTTr~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      +++-++|+|+++..  ..|+.+...+......+++| +||+...+..........+++.+++.++....+.
T Consensus       127 ~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~tI~SRc~~~ef~~ls~~el~~~L~  197 (507)
T PRK06645        127 GKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIISRCQRYDLRRLSFEEIFKLLE  197 (507)
T ss_pred             CCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHHHHhcceEEEccCCCHHHHHHHHH
Confidence            56778999999875  55777765555444455555 4555555543223344679999999999888776

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.11  E-value=0.74  Score=53.31  Aligned_cols=83  Identities=13%  Similarity=0.111  Sum_probs=54.8

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEe-cCChhhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLT-ARSEDTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivT-Tr~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +++-++|||++...  ...+.+...+-.-....++|++ |....+..........|++.+|+.++....+.         
T Consensus       118 gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~EgI~  197 (944)
T PRK14949        118 GRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQLP  197 (944)
T ss_pred             CCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcCCC
Confidence            67789999999875  4556655544433345555554 44454442223334689999999999887665         


Q ss_pred             ------HHHHHHhCCcchHHH
Q 038110          311 ------KWVAKECAGLPVSIV  325 (667)
Q Consensus       311 ------~~i~~~c~GlPLai~  325 (667)
                            ..|++.++|.|--+.
T Consensus       198 ~edeAL~lIA~~S~Gd~R~AL  218 (944)
T PRK14949        198 FEAEALTLLAKAANGSMRDAL  218 (944)
T ss_pred             CCHHHHHHHHHHcCCCHHHHH
Confidence                  678888999775333

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.04  E-value=0.72  Score=51.56  Aligned_cols=85  Identities=12%  Similarity=0.081  Sum_probs=55.8

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcE-EEEecCChhhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCK-ILLTARSEDTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~-iivTTr~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      ++.-++|+|++...  ..++.+...+..-....+ |++||....+..........+.+..++.++..+.+.         
T Consensus       123 gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~  202 (700)
T PRK12323        123 GRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIA  202 (700)
T ss_pred             CCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCCC
Confidence            56678999999875  456666555544334445 555665555543333334689999999998877654         


Q ss_pred             ------HHHHHHhCCcchHHHHH
Q 038110          311 ------KWVAKECAGLPVSIVTV  327 (667)
Q Consensus       311 ------~~i~~~c~GlPLai~~~  327 (667)
                            +.|++.++|.|.-+..+
T Consensus       203 ~d~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        203 HEVNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHH
Confidence                  45788888888544443

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=92.61  E-value=0.29  Score=47.91  Aligned_cols=141  Identities=15%  Similarity=0.148  Sum_probs=74.1

Q ss_pred             CCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc
Q 038110          177 NPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWEN  256 (667)
Q Consensus       177 ~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~  256 (667)
                      .|||+||+.+++...  ......++++++.-.      ...                ..+.+.++ + .-+|||||+...
T Consensus        49 ~GKT~la~~~~~~~~--~~~~~~~~i~~~~~~------~~~----------------~~~~~~~~-~-~~lLvIDdi~~l  102 (226)
T TIGR03420        49 SGKSHLLQAACAAAE--ERGKSAIYLPLAELA------QAD----------------PEVLEGLE-Q-ADLVCLDDVEAI  102 (226)
T ss_pred             CCHHHHHHHHHHHHH--hcCCcEEEEeHHHHH------HhH----------------HHHHhhcc-c-CCEEEEeChhhh
Confidence            467999999998765  223345566543321      110                01122233 2 238999999865


Q ss_pred             c---ccc-ccCCCcCC-CCCCcEEEEecCChhhh--------hhccCCcceEecCCCCHHHHHHHHHHHHHHHhCCcchH
Q 038110          257 L---DLL-AIGIPHGN-DHKGCKILLTARSEDTL--------SRKMDSKQNFSVGILKEEEAWSGEFKWVAKECAGLPVS  323 (667)
Q Consensus       257 ~---~~~-~l~~~~~~-~~~gs~iivTTr~~~va--------~~~~~~~~~~~l~~L~~~~s~~Lf~~~i~~~c~GlPLa  323 (667)
                      .   .|. .+...+.. ...+.+||+||+.....        .........+++.++++++-..++...+ .+ .|+++.
T Consensus       103 ~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~~l~~~e~~~~l~~~~-~~-~~~~~~  180 (226)
T TIGR03420       103 AGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEEKIAALQSRA-AR-RGLQLP  180 (226)
T ss_pred             cCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEecCCCCHHHHHHHHHHHH-HH-cCCCCC
Confidence            3   332 23222211 12345788888753211        1112223578999999988888875322 22 356655


Q ss_pred             HHHHHHHHcc--CChHHHHHHHHH
Q 038110          324 IVTVSRALRN--KSLFEWKDALQQ  345 (667)
Q Consensus       324 i~~~g~~L~~--k~~~~W~~~l~~  345 (667)
                      -.++..+...  -+..+-..+++.
T Consensus       181 ~~~l~~L~~~~~gn~r~L~~~l~~  204 (226)
T TIGR03420       181 DEVADYLLRHGSRDMGSLMALLDA  204 (226)
T ss_pred             HHHHHHHHHhccCCHHHHHHHHHH
Confidence            5555444431  244444444444

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=92.59  E-value=1.5  Score=45.73  Aligned_cols=67  Identities=10%  Similarity=0.031  Sum_probs=38.6

Q ss_pred             CeEEEEEeCCCCcc--cccccCCCcCCCCCCcEEEEecCChh-hhhhccCCcceEecCCCCHHHHHHHHH
Q 038110          244 KTILMILDNIWENL--DLLAIGIPHGNDHKGCKILLTARSED-TLSRKMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       244 kr~LlVLDdvw~~~--~~~~l~~~~~~~~~gs~iivTTr~~~-va~~~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      .+-+||+||+....  ..+.+...+......+++|+||.... +..........+.+.+++.++....+.
T Consensus       125 ~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~~~L~sr~~~v~~~~~~~~~~~~~l~  194 (337)
T PRK12402        125 DYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPPIRSRCLPLFFRAPTDDELVDVLE  194 (337)
T ss_pred             CCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCchhhcCCceEEEecCCCHHHHHHHHH
Confidence            34589999996542  23333333333334567777775432 211112233578899999988777665

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=92.47  E-value=0.58  Score=41.56  Aligned_cols=94  Identities=14%  Similarity=0.009  Sum_probs=48.2

Q ss_pred             CCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc
Q 038110          177 NPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWEN  256 (667)
Q Consensus       177 ~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~  256 (667)
                      .||||+|+.+++.....  -...+++..++..........+...          ........... .+.-+||+||++..
T Consensus        30 ~GKT~l~~~i~~~~~~~--~~~v~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~-~~~~~lilDe~~~~   96 (151)
T cd00009          30 TGKTTLARAIANELFRP--GAPFLYLNASDLLEGLVVAELFGHF----------LVRLLFELAEK-AKPGVLFIDEIDSL   96 (151)
T ss_pred             CCHHHHHHHHHHHhhcC--CCCeEEEehhhhhhhhHHHHHhhhh----------hHhHHHHhhcc-CCCeEEEEeChhhh
Confidence            36799999999987521  2346666655543322222111100          00000111222 56789999999853


Q ss_pred             -----ccccccCCCcCCC---CCCcEEEEecCChh
Q 038110          257 -----LDLLAIGIPHGND---HKGCKILLTARSED  283 (667)
Q Consensus       257 -----~~~~~l~~~~~~~---~~gs~iivTTr~~~  283 (667)
                           ..+..+...+...   ..+..||+||....
T Consensus        97 ~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          97 SRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             hHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence                 2222222222211   35778888887654

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=92.45  E-value=1.5  Score=41.54  Aligned_cols=68  Identities=13%  Similarity=0.005  Sum_probs=42.6

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCCh-hhhhhccCCcceEecCCCCHHHHHHHHH
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSE-DTLSRKMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~-~va~~~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      +.+-++|+|++...  ..++.+...+......+.+|++|++. .+..........+++.+++.++..+.+.
T Consensus        95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~  165 (188)
T TIGR00678        95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLI  165 (188)
T ss_pred             CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHH
Confidence            45668899998764  34555555554444456666666543 3322222234689999999998777665

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=92.38  E-value=1.3  Score=46.86  Aligned_cols=146  Identities=17%  Similarity=0.177  Sum_probs=80.6

Q ss_pred             CCcccccchHHHHHHHHHhcC---------------------------CCCcHHHHHHHHHhccCCCCCEEEEEEeCCCC
Q 038110          156 KDYEAFESRMSTLNDILGALK---------------------------NPDTTLAKEVAWKAENDKLFDQAVFAEVSQSH  208 (667)
Q Consensus       156 ~~~~~~~gr~~~~~~i~~~l~---------------------------~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~  208 (667)
                      ..+..+.|+++.+++|.+.+.                           .|||++|+.+++...  ..|     +.+..  
T Consensus       119 ~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~--~~~-----~~v~~--  189 (364)
T TIGR01242       119 VSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETN--ATF-----IRVVG--  189 (364)
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCC--CCE-----Eecch--
Confidence            345567899998888876541                           256999999999765  333     22211  


Q ss_pred             CHHHHHHHHHHHhCCCCCCCChhHHHH-HHHHHhcCCeEEEEEeCCCCcc----------------cccccCCCcC--CC
Q 038110          209 DIRKIQGEIADKLGLTFHEESESGRAS-LCNQLKKNKTILMILDNIWENL----------------DLLAIGIPHG--ND  269 (667)
Q Consensus       209 ~~~~i~~~i~~~l~~~~~~~~~~~~~~-l~~~L~~~kr~LlVLDdvw~~~----------------~~~~l~~~~~--~~  269 (667)
                        ..+....   ++      ....... +.+..+.....+|+|||++...                .+..+...+.  ..
T Consensus       190 --~~l~~~~---~g------~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~  258 (364)
T TIGR01242       190 --SELVRKY---IG------EGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDP  258 (364)
T ss_pred             --HHHHHHh---hh------HHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCC
Confidence              1111110   00      0011111 3333332456899999997531                1111111111  11


Q ss_pred             CCCcEEEEecCChhhhhhc----cCCcceEecCCCCHHHHHHHHH--------------HHHHHHhCCcc
Q 038110          270 HKGCKILLTARSEDTLSRK----MDSKQNFSVGILKEEEAWSGEF--------------KWVAKECAGLP  321 (667)
Q Consensus       270 ~~gs~iivTTr~~~va~~~----~~~~~~~~l~~L~~~~s~~Lf~--------------~~i~~~c~GlP  321 (667)
                      ..+.+||.||.........    ......+.+...+.++..++|.              ..+++.+.|..
T Consensus       259 ~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~~~~~la~~t~g~s  328 (364)
T TIGR01242       259 RGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVDLEAIAKMTEGAS  328 (364)
T ss_pred             CCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccCCHHHHHHHcCCCC
Confidence            2356788888764332111    1224578999999999999987              56666666654

Many proteins may score above the trusted cutoff because an internal

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

Probab=92.23  E-value=0.31  Score=42.73  Aligned_cols=62  Identities=21%  Similarity=0.357  Sum_probs=23.3

Q ss_pred             CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCcccEEecCCccccc
Q 038110          470 ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNLHTLCLYGGVGVV  535 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L~~L~L~~~l~~L  535 (667)
                      .+++|+.+.+.++ .  ..++...|.++..|+.+.+.. .+..++.. +..+.+|+.+.+...+..+
T Consensus        33 ~~~~l~~i~~~~~-~--~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l~~i~~~~~~~~i   95 (129)
T PF13306_consen   33 NCTSLKSINFPNN-L--TSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTNLKNIDIPSNITEI   95 (129)
T ss_dssp             T-TT-SEEEESST-T--SCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TTECEEEETTT-BEE
T ss_pred             ccccccccccccc-c--cccceeeeecccccccccccc-cccccccccccccccccccccCccccEE
Confidence            3444555555442 1  344444445554555555543 33333332 3334555555554333333

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

Probab=92.08  E-value=0.32  Score=47.62  Aligned_cols=184  Identities=13%  Similarity=0.035  Sum_probs=107.2

Q ss_pred             CCCCccEEEccCCCCcc---ccccHHHHhCCCCCcEEEcCCCCC----ccCCc-------cccCCCcccEEecCC--ccc
Q 038110          470 ECPQLKLFSMPAEKNSF---FAIPHNLFRSMLQVRVLDLTDMNL----LSLPS-------SIGLLTNLHTLCLYG--GVG  533 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~---~~lp~~~~~~l~~Lr~L~L~~~~i----~~lP~-------si~~L~~L~~L~L~~--~l~  533 (667)
                      .+..+..++++||.+..   ..+...+ .+-++|++.+++.-..    .++|+       .+-++++|+..+|+.  .-.
T Consensus        28 ~~d~~~evdLSGNtigtEA~e~l~~~i-a~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~  106 (388)
T COG5238          28 MMDELVEVDLSGNTIGTEAMEELCNVI-ANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGS  106 (388)
T ss_pred             hhcceeEEeccCCcccHHHHHHHHHHH-hhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCc
Confidence            46788899999998741   2344444 7788999999887531    14444       456789999999998  222


Q ss_pred             ccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-Cc-------------CCCCCCeeEEEecCccCCCc-----cccc
Q 038110          534 VVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GL-------------FFEKPERYKILTGHRWSRGF-----YRSS  594 (667)
Q Consensus       534 ~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~-------------~l~~L~~l~~~~~~~~~~~~-----~~~~  594 (667)
                      ..|   .....-|.+-+.|.||.+++|.+..+..+ |+             +-+.|+.+....+.-.+.+.     ....
T Consensus       107 ~~~---e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRlengs~~~~a~~l~s  183 (388)
T COG5238         107 EFP---EELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENGSKELSAALLES  183 (388)
T ss_pred             ccc---hHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhccCcHHHHHHHHHh
Confidence            233   00013457778999999999988765443 22             44556666544333222211     1112


Q ss_pred             ccccceEEeecCccccch-H--HHH--HHhhhcceeecccccc--ccccccchhhhhccCCCccEEEeecCC
Q 038110          595 NKSYRSFRIDLDANVRLK-D--RLV--VQLRGIEELSLAGLLD--QDIKNFVNELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       595 ~~~l~~l~l~~~~~~~~~-~--~~~--~~l~~L~~L~L~~~~~--~~~~~~~~~l~~~~l~~L~~L~l~~~~  659 (667)
                      ...++.+.+..|.+..-- .  ...  ...++|+.|+|+.|.-  .+...+-..+  ...++|++|.+.+|-
T Consensus       184 h~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al--~~W~~lrEL~lnDCl  253 (388)
T COG5238         184 HENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADAL--CEWNLLRELRLNDCL  253 (388)
T ss_pred             hcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHh--cccchhhhccccchh
Confidence            234555555543322110 0  111  2236999999999821  1222233344  566779999998884

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=91.86  E-value=1.5  Score=49.22  Aligned_cols=83  Identities=11%  Similarity=0.038  Sum_probs=53.6

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCCh-hhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSE-DTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~-~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +++-++|+|++...  ...+.+...+.....+.++|++|.+. .+..........+++.+++.++....+.         
T Consensus       117 gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI~  196 (702)
T PRK14960        117 GRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQIA  196 (702)
T ss_pred             CCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCCC
Confidence            56678999999865  34555554444434456777766553 3322222344689999999998877665         


Q ss_pred             ------HHHHHHhCCcchHHH
Q 038110          311 ------KWVAKECAGLPVSIV  325 (667)
Q Consensus       311 ------~~i~~~c~GlPLai~  325 (667)
                            ..|++.++|.+-.+.
T Consensus       197 id~eAL~~IA~~S~GdLRdAL  217 (702)
T PRK14960        197 ADQDAIWQIAESAQGSLRDAL  217 (702)
T ss_pred             CCHHHHHHHHHHcCCCHHHHH
Confidence                  568888888764443

>PRK04195 replication factor C large subunit; Provisional

Probab=91.77  E-value=1.9  Score=47.63  Aligned_cols=148  Identities=14%  Similarity=0.033  Sum_probs=82.4

Q ss_pred             CcccccchHHHHHHHHHhcC------------------CCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHH
Q 038110          157 DYEAFESRMSTLNDILGALK------------------NPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIA  218 (667)
Q Consensus       157 ~~~~~~gr~~~~~~i~~~l~------------------~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~  218 (667)
                      ....++|.++.++.+.+|+.                  .||||+|+.+.++..    |+ .+-++.+...+. .....++
T Consensus        12 ~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~----~~-~ielnasd~r~~-~~i~~~i   85 (482)
T PRK04195         12 TLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG----WE-VIELNASDQRTA-DVIERVA   85 (482)
T ss_pred             CHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC----CC-EEEEcccccccH-HHHHHHH
Confidence            34567899988888887763                  246999999999764    33 223344433222 2233333


Q ss_pred             HHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCccc------ccccCCCcCCCCCCcEEEEecCChh-hhh-hccC
Q 038110          219 DKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWENLD------LLAIGIPHGNDHKGCKILLTARSED-TLS-RKMD  290 (667)
Q Consensus       219 ~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~~~------~~~l~~~~~~~~~gs~iivTTr~~~-va~-~~~~  290 (667)
                      .......             .+...++-+||+|+++....      +..+...+.  ..+..||+|+.+.. +.. ....
T Consensus        86 ~~~~~~~-------------sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~~~k~Lrs  150 (482)
T PRK04195         86 GEAATSG-------------SLFGARRKLILLDEVDGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDPSLRELRN  150 (482)
T ss_pred             HHhhccC-------------cccCCCCeEEEEecCcccccccchhHHHHHHHHHH--cCCCCEEEeccCccccchhhHhc
Confidence            2221110             01112568999999986422      333333332  22344666664432 211 1122


Q ss_pred             CcceEecCCCCHHHHHHHHH---------------HHHHHHhCCcchHHH
Q 038110          291 SKQNFSVGILKEEEAWSGEF---------------KWVAKECAGLPVSIV  325 (667)
Q Consensus       291 ~~~~~~l~~L~~~~s~~Lf~---------------~~i~~~c~GlPLai~  325 (667)
                      ....+.+.+++.++....+.               ..|++.++|-.-.+.
T Consensus       151 r~~~I~f~~~~~~~i~~~L~~i~~~egi~i~~eaL~~Ia~~s~GDlR~ai  200 (482)
T PRK04195        151 ACLMIEFKRLSTRSIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSAI  200 (482)
T ss_pred             cceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHH
Confidence            34578999999988776665               677777777654443

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=91.72  E-value=10  Score=44.08  Aligned_cols=150  Identities=15%  Similarity=0.046  Sum_probs=84.9

Q ss_pred             cccccchHHHHHHHHHhcCC-------------------CCcHHHHHHHHHhcc---CCCCC--EEEEEEeCCCCCHHHH
Q 038110          158 YEAFESRMSTLNDILGALKN-------------------PDTTLAKEVAWKAEN---DKLFD--QAVFAEVSQSHDIRKI  213 (667)
Q Consensus       158 ~~~~~gr~~~~~~i~~~l~~-------------------~~TtLa~~vy~~~~~---~~~F~--~~~wv~vs~~~~~~~i  213 (667)
                      +..+.||++++++|...|..                   |||+.++.|.+....   +....  ..++|....-.+...+
T Consensus       754 PD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sI  833 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAA  833 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHH
Confidence            45678999999999876632                   459999999876531   12222  2556665665678889


Q ss_pred             HHHHHHHhCCCCCCC--ChhHHHH-HHHHHhc--CCeEEEEEeCCCCcc-----cccccCCCcCCCCCCcEEEE--ecCC
Q 038110          214 QGEIADKLGLTFHEE--SESGRAS-LCNQLKK--NKTILMILDNIWENL-----DLLAIGIPHGNDHKGCKILL--TARS  281 (667)
Q Consensus       214 ~~~i~~~l~~~~~~~--~~~~~~~-l~~~L~~--~kr~LlVLDdvw~~~-----~~~~l~~~~~~~~~gs~iiv--TTr~  281 (667)
                      +..|.+++.......  ....... +...+..  +...+||||+|..-.     .+-.+... + ...+++|+|  +|..
T Consensus       834 YqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~-~-~~s~SKLiLIGISNd  911 (1164)
T PTZ00112        834 YQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDW-P-TKINSKLVLIAISNT  911 (1164)
T ss_pred             HHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHH-h-hccCCeEEEEEecCc
Confidence            999999985443221  1122222 4544421  223589999997542     11111111 1 124556554  3332


Q ss_pred             hhhhh-------hccCCcceEecCCCCHHHHHHHHH
Q 038110          282 EDTLS-------RKMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       282 ~~va~-------~~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      .+...       ..++ ...+...+.+.++-.+++.
T Consensus       912 lDLperLdPRLRSRLg-~eeIvF~PYTaEQL~dILk  946 (1164)
T PTZ00112        912 MDLPERLIPRCRSRLA-FGRLVFSPYKGDEIEKIIK  946 (1164)
T ss_pred             hhcchhhhhhhhhccc-cccccCCCCCHHHHHHHHH
Confidence            22111       0111 1235668899999888887

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=91.61  E-value=0.25  Score=54.45  Aligned_cols=155  Identities=17%  Similarity=0.114  Sum_probs=85.8

Q ss_pred             cccccchHHHHHHHHHhcCC---------------CCcHHHHHHHHHhccCCCCCEEEEEEeCC-------CCCHHHHHH
Q 038110          158 YEAFESRMSTLNDILGALKN---------------PDTTLAKEVAWKAENDKLFDQAVFAEVSQ-------SHDIRKIQG  215 (667)
Q Consensus       158 ~~~~~gr~~~~~~i~~~l~~---------------~~TtLa~~vy~~~~~~~~F~~~~wv~vs~-------~~~~~~i~~  215 (667)
                      ...++|.+..++.+..++..               ||||+|+.+.+.......+...+|+|.+-       ..|+..+  
T Consensus        13 ~~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~dv~el--   90 (504)
T PRK14963         13 FDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPDVLEI--   90 (504)
T ss_pred             HHHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCceEEe--
Confidence            44577877777777665432               46999999998765333333344443321       1111000  


Q ss_pred             HHHHHhCCCCCCCChhHHHH-HHHHHh----cCCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecC-Chhhhhh
Q 038110          216 EIADKLGLTFHEESESGRAS-LCNQLK----KNKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTAR-SEDTLSR  287 (667)
Q Consensus       216 ~i~~~l~~~~~~~~~~~~~~-l~~~L~----~~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr-~~~va~~  287 (667)
                            ...  .....+... +.+.+.    .+++-++|+|+++..  ..++.+...+........+|++|. ...+...
T Consensus        91 ------~~~--~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~  162 (504)
T PRK14963         91 ------DAA--SNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPT  162 (504)
T ss_pred             ------ccc--ccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChH
Confidence                  000  001111111 322221    145678999999865  446666555544444555555554 4444322


Q ss_pred             ccCCcceEecCCCCHHHHHHHHH---------------HHHHHHhCCcch
Q 038110          288 KMDSKQNFSVGILKEEEAWSGEF---------------KWVAKECAGLPV  322 (667)
Q Consensus       288 ~~~~~~~~~l~~L~~~~s~~Lf~---------------~~i~~~c~GlPL  322 (667)
                      .......+++.+++.++....+.               ..|++.++|.+-
T Consensus       163 I~SRc~~~~f~~ls~~el~~~L~~i~~~egi~i~~~Al~~ia~~s~GdlR  212 (504)
T PRK14963        163 ILSRTQHFRFRRLTEEEIAGKLRRLLEAEGREAEPEALQLVARLADGAMR  212 (504)
T ss_pred             HhcceEEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHH
Confidence            23334689999999999988775               567777777663

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=91.28  E-value=4.3  Score=42.69  Aligned_cols=68  Identities=12%  Similarity=0.044  Sum_probs=40.0

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCChh-hhhhccCCcceEecCCCCHHHHHHHHH
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSED-TLSRKMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~~-va~~~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      +++-++|+|++...  ...+.+...+......+.+|++|.+.. +..........+++.++++++....+.
T Consensus       116 ~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~  186 (355)
T TIGR02397       116 GKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLK  186 (355)
T ss_pred             CCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHH
Confidence            34458889998654  345555444443344566666665443 222222233578889999888766654

This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.

>PRK08727 hypothetical protein; Validated

Probab=91.28  E-value=1.1  Score=44.00  Aligned_cols=128  Identities=16%  Similarity=0.133  Sum_probs=70.8

Q ss_pred             CCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc
Q 038110          177 NPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWEN  256 (667)
Q Consensus       177 ~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~  256 (667)
                      .|||+|++.+++...-  +....+++++.+      ....+.                ...+.+.  +--+|||||+...
T Consensus        52 ~GKThL~~a~~~~~~~--~~~~~~y~~~~~------~~~~~~----------------~~~~~l~--~~dlLiIDDi~~l  105 (233)
T PRK08727         52 TGKTHLALALCAAAEQ--AGRSSAYLPLQA------AAGRLR----------------DALEALE--GRSLVALDGLESI  105 (233)
T ss_pred             CCHHHHHHHHHHHHHH--cCCcEEEEeHHH------hhhhHH----------------HHHHHHh--cCCEEEEeCcccc
Confidence            4789999999987652  233556665322      111111                1222333  3469999999754


Q ss_pred             c---cccc-cCCCcCC-CCCCcEEEEecCChhhh--------hhccCCcceEecCCCCHHHHHHHHHHHHHHHhCCcchH
Q 038110          257 L---DLLA-IGIPHGN-DHKGCKILLTARSEDTL--------SRKMDSKQNFSVGILKEEEAWSGEFKWVAKECAGLPVS  323 (667)
Q Consensus       257 ~---~~~~-l~~~~~~-~~~gs~iivTTr~~~va--------~~~~~~~~~~~l~~L~~~~s~~Lf~~~i~~~c~GlPLa  323 (667)
                      .   .|.. +...+.. ..+|..||+|++...-.        .........+++++++.++-..++.+....  .|+++.
T Consensus       106 ~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~~a~~--~~l~l~  183 (233)
T PRK08727        106 AGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRERAQR--RGLALD  183 (233)
T ss_pred             cCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHHHHHH--cCCCCC
Confidence            2   2322 1111111 12466799999863221        011223458899999999988887643333  366665


Q ss_pred             HHHHHHHHc
Q 038110          324 IVTVSRALR  332 (667)
Q Consensus       324 i~~~g~~L~  332 (667)
                      -.++.-+..
T Consensus       184 ~e~~~~La~  192 (233)
T PRK08727        184 EAAIDWLLT  192 (233)
T ss_pred             HHHHHHHHH
Confidence            555555444

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=91.27  E-value=3.3  Score=42.72  Aligned_cols=137  Identities=13%  Similarity=0.096  Sum_probs=70.3

Q ss_pred             cccccchHHHHHHHHHhcCC--------------CCcHHHHHHHHHhccCCCCCEEEEEEe--CCCCCHHHHHHHHHHHh
Q 038110          158 YEAFESRMSTLNDILGALKN--------------PDTTLAKEVAWKAENDKLFDQAVFAEV--SQSHDIRKIQGEIADKL  221 (667)
Q Consensus       158 ~~~~~gr~~~~~~i~~~l~~--------------~~TtLa~~vy~~~~~~~~F~~~~wv~v--s~~~~~~~i~~~i~~~l  221 (667)
                      ...++|+++.++.+..++..              ||||+|+.+.+...... +.. .++.+  +...... ...+.+.++
T Consensus        16 ~~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~-~~~-~~i~~~~~~~~~~~-~~~~~i~~~   92 (319)
T PRK00440         16 LDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGED-WRE-NFLELNASDERGID-VIRNKIKEF   92 (319)
T ss_pred             HHHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCc-ccc-ceEEeccccccchH-HHHHHHHHH
Confidence            44577888888888887643              45999999988754221 211 22222  2222222 122222221


Q ss_pred             CCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCCh-hhhhhccCCcceEecC
Q 038110          222 GLTFHEESESGRASLCNQLKKNKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSE-DTLSRKMDSKQNFSVG  298 (667)
Q Consensus       222 ~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~-~va~~~~~~~~~~~l~  298 (667)
                      ....+             .....+-+|++|++...  ...+.+...+......+++|+++... .+..........+++.
T Consensus        93 ~~~~~-------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~  159 (319)
T PRK00440         93 ARTAP-------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFS  159 (319)
T ss_pred             HhcCC-------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeeeC
Confidence            11000             00123568999998654  22334433333333456677766432 2211111223468999


Q ss_pred             CCCHHHHHHHHH
Q 038110          299 ILKEEEAWSGEF  310 (667)
Q Consensus       299 ~L~~~~s~~Lf~  310 (667)
                      +++.++....+.
T Consensus       160 ~l~~~ei~~~l~  171 (319)
T PRK00440        160 PLKKEAVAERLR  171 (319)
T ss_pred             CCCHHHHHHHHH
Confidence            999988766655

>smart00370 LRR Leucine-rich repeats, outliers

Probab=91.19  E-value=0.17  Score=30.49  Aligned_cols=22  Identities=36%  Similarity=0.474  Sum_probs=17.3

Q ss_pred             CCCCcEEEcCCCCCccCCcccc
Q 038110          497 MLQVRVLDLTDMNLLSLPSSIG  518 (667)
Q Consensus       497 l~~Lr~L~L~~~~i~~lP~si~  518 (667)
                      |++|++|+|++|.++.+|..+.
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~f   22 (26)
T smart00370        1 LPNLRELDLSNNQLSSLPPGAF   22 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHHc
Confidence            4678888888888888887643

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

Probab=91.19  E-value=0.17  Score=30.49  Aligned_cols=22  Identities=36%  Similarity=0.474  Sum_probs=17.3

Q ss_pred             CCCCcEEEcCCCCCccCCcccc
Q 038110          497 MLQVRVLDLTDMNLLSLPSSIG  518 (667)
Q Consensus       497 l~~Lr~L~L~~~~i~~lP~si~  518 (667)
                      |++|++|+|++|.++.+|..+.
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~f   22 (26)
T smart00369        1 LPNLRELDLSNNQLSSLPPGAF   22 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHHc
Confidence            4678888888888888887643

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

Probab=91.00  E-value=0.14  Score=30.92  Aligned_cols=21  Identities=43%  Similarity=0.790  Sum_probs=18.4

Q ss_pred             CCCCCeEEeecCCCCCCCCCC
Q 038110          549 FPNLTSLELEVNDANTLPRGG  569 (667)
Q Consensus       549 L~~L~~L~l~~~~l~~lP~~~  569 (667)
                      |++|++|++++|++..+|.+.
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00369        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            578999999999999999873

>smart00370 LRR Leucine-rich repeats, outliers

Probab=91.00  E-value=0.14  Score=30.92  Aligned_cols=21  Identities=43%  Similarity=0.790  Sum_probs=18.4

Q ss_pred             CCCCCeEEeecCCCCCCCCCC
Q 038110          549 FPNLTSLELEVNDANTLPRGG  569 (667)
Q Consensus       549 L~~L~~L~l~~~~l~~lP~~~  569 (667)
                      |++|++|++++|++..+|.+.
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00370        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            578999999999999999873

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=90.63  E-value=1.9  Score=45.51  Aligned_cols=95  Identities=22%  Similarity=0.249  Sum_probs=69.6

Q ss_pred             ccchHHHHHHHHHhcC------------------CCCcHHHHHHHHHhccCC-CCCEEEEEEeCCCCCHHHHHHHHHHHh
Q 038110          161 FESRMSTLNDILGALK------------------NPDTTLAKEVAWKAENDK-LFDQAVFAEVSQSHDIRKIQGEIADKL  221 (667)
Q Consensus       161 ~~gr~~~~~~i~~~l~------------------~~~TtLa~~vy~~~~~~~-~F~~~~wv~vs~~~~~~~i~~~i~~~l  221 (667)
                      +.+|+++.+++...|.                  .|||+.++.|........ ..+ .+.|..-......+++.+|++++
T Consensus        19 l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~-~~yINc~~~~t~~~i~~~i~~~~   97 (366)
T COG1474          19 LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVE-VVYINCLELRTPYQVLSKILNKL   97 (366)
T ss_pred             ccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCc-eEEEeeeeCCCHHHHHHHHHHHc
Confidence            7799999999987663                  357999999999766331 122 78888888889999999999999


Q ss_pred             CCCCC-CCChhHHHH-HHHHHhc-CCeEEEEEeCCCCc
Q 038110          222 GLTFH-EESESGRAS-LCNQLKK-NKTILMILDNIWEN  256 (667)
Q Consensus       222 ~~~~~-~~~~~~~~~-l~~~L~~-~kr~LlVLDdvw~~  256 (667)
                      +.... +.+..+... +.+.+.. ++.++||||++..-
T Consensus        98 ~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L  135 (366)
T COG1474          98 GKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDAL  135 (366)
T ss_pred             CCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhh
Confidence            74332 233333333 7777742 68899999999765

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=90.59  E-value=2.6  Score=46.75  Aligned_cols=68  Identities=6%  Similarity=-0.014  Sum_probs=42.7

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEE-EecCChhhhhhccCCcceEecCCCCHHHHHHHHH
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKIL-LTARSEDTLSRKMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~ii-vTTr~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      +++-++|+|++...  ..++.+...+.......++| +||....+..........+++.+++.++....+.
T Consensus       118 g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~  188 (546)
T PRK14957        118 GRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVTILSRCIQLHLKHISQADIKDQLK  188 (546)
T ss_pred             CCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhhhhHHHheeeEEeCCCCHHHHHHHHH
Confidence            56679999999764  44566655554444455555 4555444442223335689999999988765544

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=90.52  E-value=6.1  Score=43.23  Aligned_cols=88  Identities=15%  Similarity=0.118  Sum_probs=51.2

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEE-ecCChhhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILL-TARSEDTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iiv-TTr~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +++-++|+|++..-  ...+.+...+........+|+ ||....+..........+++.+++.++....+.         
T Consensus       116 ~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi~  195 (472)
T PRK14962        116 GKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIE  195 (472)
T ss_pred             CCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCCC
Confidence            45679999999754  344555444433333344444 443344433223344689999999998777665         


Q ss_pred             ------HHHHHHhCC-cchHHHHHHHH
Q 038110          311 ------KWVAKECAG-LPVSIVTVSRA  330 (667)
Q Consensus       311 ------~~i~~~c~G-lPLai~~~g~~  330 (667)
                            ..|++.++| ++.|+..+-.+
T Consensus       196 i~~eal~~Ia~~s~GdlR~aln~Le~l  222 (472)
T PRK14962        196 IDREALSFIAKRASGGLRDALTMLEQV  222 (472)
T ss_pred             CCHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence                  556666644 35555555443

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

Probab=90.44  E-value=0.01  Score=56.33  Aligned_cols=78  Identities=9%  Similarity=-0.021  Sum_probs=39.1

Q ss_pred             cceeEEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEec
Q 038110          450 RHCTSIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCL  528 (667)
Q Consensus       450 ~~lr~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L  528 (667)
                      ...+.|+++.|.+..+-... .+..|..|+++.|..  ..+|.++ +.+..++.+++.+|..+.+|.|+++++|++++++
T Consensus        42 kr~tvld~~s~r~vn~~~n~s~~t~~~rl~~sknq~--~~~~~d~-~q~~e~~~~~~~~n~~~~~p~s~~k~~~~k~~e~  118 (326)
T KOG0473|consen   42 KRVTVLDLSSNRLVNLGKNFSILTRLVRLDLSKNQI--KFLPKDA-KQQRETVNAASHKNNHSQQPKSQKKEPHPKKNEQ  118 (326)
T ss_pred             ceeeeehhhhhHHHhhccchHHHHHHHHHhccHhhH--hhChhhH-HHHHHHHHHHhhccchhhCCccccccCCcchhhh
Confidence            44455555554433322211 234444455554443  4455554 5555555555555555555555555555555555


Q ss_pred             CC
Q 038110          529 YG  530 (667)
Q Consensus       529 ~~  530 (667)
                      .+
T Consensus       119 k~  120 (326)
T KOG0473|consen  119 KK  120 (326)
T ss_pred             cc
Confidence            54

>PLN03025 replication factor C subunit; Provisional

Probab=90.21  E-value=3.3  Score=42.96  Aligned_cols=139  Identities=9%  Similarity=0.040  Sum_probs=71.3

Q ss_pred             cccccchHHHHHHHHHhcCC--------------CCcHHHHHHHHHhccCCCCCE-EEEEEeCCCCCHHHHHHHHHHHhC
Q 038110          158 YEAFESRMSTLNDILGALKN--------------PDTTLAKEVAWKAENDKLFDQ-AVFAEVSQSHDIRKIQGEIADKLG  222 (667)
Q Consensus       158 ~~~~~gr~~~~~~i~~~l~~--------------~~TtLa~~vy~~~~~~~~F~~-~~wv~vs~~~~~~~i~~~i~~~l~  222 (667)
                      ...++|.++.++.+..++..              ||||+|+.+.+...- ..|.. .+-+..+...+.. ..+++++...
T Consensus        12 l~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~-~~~~~~~~eln~sd~~~~~-~vr~~i~~~~   89 (319)
T PLN03025         12 LDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLG-PNYKEAVLELNASDDRGID-VVRNKIKMFA   89 (319)
T ss_pred             HHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhc-ccCccceeeecccccccHH-HHHHHHHHHH
Confidence            44566777777766665432              569999999887531 12321 2222333332222 2233322221


Q ss_pred             CCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCCh-hhhhhccCCcceEecCC
Q 038110          223 LTFHEESESGRASLCNQLKKNKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSE-DTLSRKMDSKQNFSVGI  299 (667)
Q Consensus       223 ~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~-~va~~~~~~~~~~~l~~  299 (667)
                      .....            +..++.-+++||++...  ..-+.+...+......+++|++|... .+..........+++.+
T Consensus        90 ~~~~~------------~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~  157 (319)
T PLN03025         90 QKKVT------------LPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSR  157 (319)
T ss_pred             hcccc------------CCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCC
Confidence            10000            00145678999999875  22233333332234456777766543 22111111235789999


Q ss_pred             CCHHHHHHHHH
Q 038110          300 LKEEEAWSGEF  310 (667)
Q Consensus       300 L~~~~s~~Lf~  310 (667)
                      +++++....+.
T Consensus       158 l~~~~l~~~L~  168 (319)
T PLN03025        158 LSDQEILGRLM  168 (319)
T ss_pred             CCHHHHHHHHH
Confidence            99998877664

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=90.19  E-value=1.2  Score=45.86  Aligned_cols=145  Identities=16%  Similarity=0.106  Sum_probs=85.4

Q ss_pred             ccchHHHHHHHHHhcCC-----------------CCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCC
Q 038110          161 FESRMSTLNDILGALKN-----------------PDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGL  223 (667)
Q Consensus       161 ~~gr~~~~~~i~~~l~~-----------------~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~  223 (667)
                      +.+|+.....+...++.                 |||.+.+.+++....     ..+|+++-..|+.+.++..|+.+++.
T Consensus         8 v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~-----~~vw~n~~ecft~~~lle~IL~~~~~   82 (438)
T KOG2543|consen    8 VPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNL-----ENVWLNCVECFTYAILLEKILNKSQL   82 (438)
T ss_pred             ccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCC-----cceeeehHHhccHHHHHHHHHHHhcc
Confidence            44777777777766643                 569999999998852     26899999999999999999999852


Q ss_pred             -CCC-CCChh--HHHH-HHHHH------h-cCCeEEEEEeCCCCcccccccCCCc----CC-CCCCcEEEEecCChhhhh
Q 038110          224 -TFH-EESES--GRAS-LCNQL------K-KNKTILMILDNIWENLDLLAIGIPH----GN-DHKGCKILLTARSEDTLS  286 (667)
Q Consensus       224 -~~~-~~~~~--~~~~-l~~~L------~-~~kr~LlVLDdvw~~~~~~~l~~~~----~~-~~~gs~iivTTr~~~va~  286 (667)
                       +.. ...+.  +... ....+      . .++.++||||++..-.+.+.+.-+.    .. .....-+|+++--..-..
T Consensus        83 ~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i~iils~~~~e~~  162 (438)
T KOG2543|consen   83 ADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEPTIVIILSAPSCEKQ  162 (438)
T ss_pred             CCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCceEEEEeccccHHH
Confidence             222 11222  1111 11111      1 1468999999998765554431110    00 111123344433322221


Q ss_pred             hc--cCCc--ceEecCCCCHHHHHHHHH
Q 038110          287 RK--MDSK--QNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       287 ~~--~~~~--~~~~l~~L~~~~s~~Lf~  310 (667)
                      ..  +|+.  .++....-+.+|-..++.
T Consensus       163 y~~n~g~~~i~~l~fP~Ys~~e~~~Il~  190 (438)
T KOG2543|consen  163 YLINTGTLEIVVLHFPQYSVEETQVILS  190 (438)
T ss_pred             hhcccCCCCceEEecCCCCHHHHHHHHh
Confidence            11  3333  356677778888777765

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=90.09  E-value=3.5  Score=46.52  Aligned_cols=81  Identities=11%  Similarity=0.093  Sum_probs=50.7

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEE-ecCChhhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILL-TARSEDTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iiv-TTr~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      ++.=++|||+|...  ..++.+...+..-....++|+ ||....+..........+++..++.++....+.         
T Consensus       123 g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~  202 (618)
T PRK14951        123 GRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVP  202 (618)
T ss_pred             CCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCC
Confidence            45568899999875  456666555544334455554 444444442233345689999999998776664         


Q ss_pred             ------HHHHHHhCCcchH
Q 038110          311 ------KWVAKECAGLPVS  323 (667)
Q Consensus       311 ------~~i~~~c~GlPLa  323 (667)
                            ..|++.++|.+--
T Consensus       203 ie~~AL~~La~~s~GslR~  221 (618)
T PRK14951        203 AEPQALRLLARAARGSMRD  221 (618)
T ss_pred             CCHHHHHHHHHHcCCCHHH
Confidence                  4566666665533

>PF14516 AAA_35: AAA-like domain

Probab=90.03  E-value=17  Score=37.92  Aligned_cols=172  Identities=14%  Similarity=0.100  Sum_probs=97.4

Q ss_pred             ccchHHHHHHHHHhcCC-------------CCcHHHHHHHHHhccCCCCCEEEEEEeCC----C-CCHHHHHHHHHHH--
Q 038110          161 FESRMSTLNDILGALKN-------------PDTTLAKEVAWKAENDKLFDQAVFAEVSQ----S-HDIRKIQGEIADK--  220 (667)
Q Consensus       161 ~~gr~~~~~~i~~~l~~-------------~~TtLa~~vy~~~~~~~~F~~~~wv~vs~----~-~~~~~i~~~i~~~--  220 (667)
                      .++|...-+++.+.+..             |||+|...+.+..+.. .+ .+++++...    . .+..++++.+...  
T Consensus        13 Yi~R~~~e~~~~~~i~~~G~~~~I~apRq~GKTSll~~l~~~l~~~-~~-~~v~id~~~~~~~~~~~~~~f~~~~~~~i~   90 (331)
T PF14516_consen   13 YIERPPAEQECYQEIVQPGSYIRIKAPRQMGKTSLLLRLLERLQQQ-GY-RCVYIDLQQLGSAIFSDLEQFLRWFCEEIS   90 (331)
T ss_pred             ccCchHHHHHHHHHHhcCCCEEEEECcccCCHHHHHHHHHHHHHHC-CC-EEEEEEeecCCCcccCCHHHHHHHHHHHHH
Confidence            44666444555555443             5699999999887643 33 466776644    2 2566556555544  


Q ss_pred             --hCCCCCC--------CChhHHHH-HHHHH-h-cCCeEEEEEeCCCCccc--------ccccCCCcC------CCCCCc
Q 038110          221 --LGLTFHE--------ESESGRAS-LCNQL-K-KNKTILMILDNIWENLD--------LLAIGIPHG------NDHKGC  273 (667)
Q Consensus       221 --l~~~~~~--------~~~~~~~~-l~~~L-~-~~kr~LlVLDdvw~~~~--------~~~l~~~~~------~~~~gs  273 (667)
                        ++.+..-        ........ +.+.+ . .+++.+|++|+|.....        +..++.-..      ...+=+
T Consensus        91 ~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~~~~L~  170 (331)
T PF14516_consen   91 RQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPIWQKLR  170 (331)
T ss_pred             HHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCcccceEE
Confidence              4433210        01111112 44443 2 26789999999976421        111111000      001111


Q ss_pred             EEEEe-cCChhhh---hhccCCcceEecCCCCHHHHHHHHH-----------HHHHHHhCCcchHHHHHHHHHccC
Q 038110          274 KILLT-ARSEDTL---SRKMDSKQNFSVGILKEEEAWSGEF-----------KWVAKECAGLPVSIVTVSRALRNK  334 (667)
Q Consensus       274 ~iivT-Tr~~~va---~~~~~~~~~~~l~~L~~~~s~~Lf~-----------~~i~~~c~GlPLai~~~g~~L~~k  334 (667)
                      =|++. |......   ....+....++|++++.+|...|..           +.|...++|.|--+..++..+...
T Consensus       171 li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~~~~~~~~~l~~~tgGhP~Lv~~~~~~l~~~  246 (331)
T PF14516_consen  171 LILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLEFSQEQLEQLMDWTGGHPYLVQKACYLLVEE  246 (331)
T ss_pred             EEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhccCCHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            12222 2111111   1123344589999999999999988           888999999999999999999753

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

Probab=89.87  E-value=0.57  Score=41.00  Aligned_cols=99  Identities=13%  Similarity=0.279  Sum_probs=52.5

Q ss_pred             CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCcccEEecCCcccccCCCCccChhhhcC
Q 038110          470 ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLHTLCLYGGVGVVDGVKNASLEELKH  548 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~~L~L~~~l~~LP~~~~~~~~~l~~  548 (667)
                      .+++|+.+.+.. ..  ..++...|.++..|+.+.+..+ +..++. .+..+.+|+++.+...+..++.      ..+..
T Consensus        10 ~~~~l~~i~~~~-~~--~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~~~~~i~~------~~F~~   79 (129)
T PF13306_consen   10 NCSNLESITFPN-TI--KKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPNNLKSIGD------NAFSN   79 (129)
T ss_dssp             T-TT--EEEETS-T----EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETSTT-EE-T------TTTTT
T ss_pred             CCCCCCEEEECC-Ce--eEeChhhccccccccccccccc-ccccceeeeeccccccccccccccccccc------ccccc
Confidence            456777777764 22  5677777788888888888775 666655 3556667888888665555552      44666


Q ss_pred             CCCCCeEEeecCCCCCCCCCC-cCCCCCCeeEE
Q 038110          549 FPNLTSLELEVNDANTLPRGG-LFFEKPERYKI  580 (667)
Q Consensus       549 L~~L~~L~l~~~~l~~lP~~~-~~l~~L~~l~~  580 (667)
                      +++|+.+++..+ +..++... .+. .|+.+.+
T Consensus        80 ~~~l~~i~~~~~-~~~i~~~~f~~~-~l~~i~~  110 (129)
T PF13306_consen   80 CTNLKNIDIPSN-ITEIGSSSFSNC-NLKEINI  110 (129)
T ss_dssp             -TTECEEEETTT--BEEHTTTTTT--T--EEE-
T ss_pred             cccccccccCcc-ccEEchhhhcCC-CceEEEE
Confidence            778888887654 55666652 233 6666543

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=89.31  E-value=2.5  Score=47.81  Aligned_cols=82  Identities=12%  Similarity=0.079  Sum_probs=53.0

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEE-EecCChhhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKIL-LTARSEDTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~ii-vTTr~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +++-++|+|++...  ...+.+...+-.-....++| +||....+..........|++.+++.++....+.         
T Consensus       118 g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i~  197 (647)
T PRK07994        118 GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRQQLEHILQAEQIP  197 (647)
T ss_pred             CCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHhhheEeeCCCCCHHHHHHHHHHHHHHcCCC
Confidence            66779999999865  44555544443333344444 4555555542223335689999999998877664         


Q ss_pred             ------HHHHHHhCCcchHH
Q 038110          311 ------KWVAKECAGLPVSI  324 (667)
Q Consensus       311 ------~~i~~~c~GlPLai  324 (667)
                            ..|++.++|.+--+
T Consensus       198 ~e~~aL~~Ia~~s~Gs~R~A  217 (647)
T PRK07994        198 FEPRALQLLARAADGSMRDA  217 (647)
T ss_pred             CCHHHHHHHHHHcCCCHHHH
Confidence                  56888888877533

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=89.07  E-value=1.2  Score=46.94  Aligned_cols=85  Identities=13%  Similarity=-0.004  Sum_probs=57.4

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCCh-hhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSE-DTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~-~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +.+-++|+||+...  ...+.+...+..-..++.+|++|.+. .+..........+.+.+++.++..+++.         
T Consensus       140 ~~~kVviIDead~m~~~aanaLLK~LEepp~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~~~~~  219 (365)
T PRK07471        140 GGWRVVIVDTADEMNANAANALLKVLEEPPARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPDLPDD  219 (365)
T ss_pred             CCCEEEEEechHhcCHHHHHHHHHHHhcCCCCeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhcccCCHH
Confidence            56678999999765  34455544443333456666666665 3332233445689999999999998887         


Q ss_pred             --HHHHHHhCCcchHHHHH
Q 038110          311 --KWVAKECAGLPVSIVTV  327 (667)
Q Consensus       311 --~~i~~~c~GlPLai~~~  327 (667)
                        ..++..++|.|..+..+
T Consensus       220 ~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        220 PRAALAALAEGSVGRALRL  238 (365)
T ss_pred             HHHHHHHHcCCCHHHHHHH
Confidence              26788899999766544

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=89.02  E-value=6.4  Score=40.65  Aligned_cols=155  Identities=14%  Similarity=0.129  Sum_probs=81.7

Q ss_pred             CcccccchHHHHHHHHHhcCC---------------CCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHh
Q 038110          157 DYEAFESRMSTLNDILGALKN---------------PDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKL  221 (667)
Q Consensus       157 ~~~~~~gr~~~~~~i~~~l~~---------------~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l  221 (667)
                      ....++|.+..++.+.+++..               ||||+|+.+++...  ..   ...++.+. ..+. ..++.+...
T Consensus        19 ~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~~--~~---~~~i~~~~-~~~~-~i~~~l~~~   91 (316)
T PHA02544         19 TIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEVG--AE---VLFVNGSD-CRID-FVRNRLTRF   91 (316)
T ss_pred             cHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHhC--cc---ceEeccCc-ccHH-HHHHHHHHH
Confidence            345677888888888877633               45999999988653  11   22333333 1211 111111111


Q ss_pred             CCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc---ccccccCCCcCCCCCCcEEEEecCChhhh-hhccCCcceEec
Q 038110          222 GLTFHEESESGRASLCNQLKKNKTILMILDNIWEN---LDLLAIGIPHGNDHKGCKILLTARSEDTL-SRKMDSKQNFSV  297 (667)
Q Consensus       222 ~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~---~~~~~l~~~~~~~~~gs~iivTTr~~~va-~~~~~~~~~~~l  297 (667)
                      ...             ..+. +.+-+||+||+...   ...+.+...+.....++++|+||....-. .........+.+
T Consensus        92 ~~~-------------~~~~-~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~~i~~  157 (316)
T PHA02544         92 AST-------------VSLT-GGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDF  157 (316)
T ss_pred             HHh-------------hccc-CCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhceEEEe
Confidence            000             0011 23457889999754   11222322233334567888888654322 111222346778


Q ss_pred             CCCCHHHHHHHHH---HHHHH--HhCCcchHHHHHHHHHc
Q 038110          298 GILKEEEAWSGEF---KWVAK--ECAGLPVSIVTVSRALR  332 (667)
Q Consensus       298 ~~L~~~~s~~Lf~---~~i~~--~c~GlPLai~~~g~~L~  332 (667)
                      +..+.++...++.   ..+..  +..|.|+.-.++..+..
T Consensus       158 ~~p~~~~~~~il~~~~~~~~~~~~~~~~~i~~~al~~l~~  197 (316)
T PHA02544        158 GVPTKEEQIEMMKQMIVRCKGILEAEGVEVDMKVLAALVK  197 (316)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Confidence            7888888776665   22222  23688876555555554

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=88.64  E-value=3.9  Score=45.72  Aligned_cols=67  Identities=13%  Similarity=-0.005  Sum_probs=39.9

Q ss_pred             CeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEE-ecCChhhhhhccCCcceEecCCCCHHHHHHHHH
Q 038110          244 KTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILL-TARSEDTLSRKMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       244 kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iiv-TTr~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      ++=++|+|++...  ..++.+...+........+|+ |+....+..........+++.+++.++....+.
T Consensus       119 ~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~TI~SRcq~ieF~~Ls~~eL~~~L~  188 (605)
T PRK05896        119 KYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTIISRCQRYNFKKLNNSELQELLK  188 (605)
T ss_pred             CcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhHHHHhhhhhcccCCCCHHHHHHHHH
Confidence            3346999999764  456665554443334455554 444444432223334588999999998776554

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=88.42  E-value=3.5  Score=44.75  Aligned_cols=79  Identities=14%  Similarity=0.056  Sum_probs=50.6

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEE-EecCChhhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKIL-LTARSEDTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~ii-vTTr~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      ++.-++|+|++...  ..++.+...+.........| .||....+..........|.+.+++.++..+.+.         
T Consensus       120 g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi~  199 (484)
T PRK14956        120 GKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILSRCQDFIFKKVPLSVLQDYSEKLCKIENVQ  199 (484)
T ss_pred             CCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHHhhhheeeecCCCHHHHHHHHHHHHHHcCCC
Confidence            56679999999875  55777655554333344444 4555555543333344679999999988776665         


Q ss_pred             ------HHHHHHhCCcc
Q 038110          311 ------KWVAKECAGLP  321 (667)
Q Consensus       311 ------~~i~~~c~GlP  321 (667)
                            ..|++.++|.+
T Consensus       200 ~e~eAL~~Ia~~S~Gd~  216 (484)
T PRK14956        200 YDQEGLFWIAKKGDGSV  216 (484)
T ss_pred             CCHHHHHHHHHHcCChH
Confidence                  55666666665

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=88.20  E-value=0.87  Score=42.68  Aligned_cols=33  Identities=15%  Similarity=0.229  Sum_probs=25.8

Q ss_pred             ccchHHHHHHHHHhcC-----------------CCCcHHHHHHHHHhccC
Q 038110          161 FESRMSTLNDILGALK-----------------NPDTTLAKEVAWKAEND  193 (667)
Q Consensus       161 ~~gr~~~~~~i~~~l~-----------------~~~TtLa~~vy~~~~~~  193 (667)
                      |+||+++.+++...+.                 .|||+|++.++......
T Consensus         2 fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    2 FVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             -TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            6899999999999981                 24699999999887754

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=88.15  E-value=8.4  Score=41.23  Aligned_cols=133  Identities=15%  Similarity=0.015  Sum_probs=81.5

Q ss_pred             CeEEEEEeCCCCcccccccCCCcCCCCCCcEEEEecCChhhh-----hhccCCcceEecCCCCHHHHHHHHH--------
Q 038110          244 KTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTL-----SRKMDSKQNFSVGILKEEEAWSGEF--------  310 (667)
Q Consensus       244 kr~LlVLDdvw~~~~~~~l~~~~~~~~~gs~iivTTr~~~va-----~~~~~~~~~~~l~~L~~~~s~~Lf~--------  310 (667)
                      ++..|+||.|.....|+.....+.+.++. +|++|+-+....     ....|....+.+-||+..|...+-.        
T Consensus        94 ~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~~~~~~~~~~~  172 (398)
T COG1373          94 EKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKLKGEEIEPSKL  172 (398)
T ss_pred             CCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhhcccccchhHH
Confidence            66899999999999999887777776666 899988887654     2223455689999999999876410        


Q ss_pred             ---HHHHHHhCCcchHHHHHHHHHccCChHHHHHHHHH-hcC-CCCcCchHHHHHHHHHHhhh--hcccHHHHHHHH
Q 038110          311 ---KWVAKECAGLPVSIVTVSRALRNKSLFEWKDALQQ-LRR-PISTNFKDELKQIFLLIGYT--YVAFIDDLIWYS  380 (667)
Q Consensus       311 ---~~i~~~c~GlPLai~~~g~~L~~k~~~~W~~~l~~-l~~-~~~~~l~~~lk~cfly~s~f--~~i~~~~Li~~W  380 (667)
                         -+---..||.|-++..-...-+  ..+.-..++.. +.. ....+ +..+|..+.+++..  ..+....+-+.+
T Consensus       173 ~~~f~~Yl~~GGfP~~v~~~~~~~~--~~~~~~~~~~~Di~~~~~~~~-~~~~k~i~~~l~~~~g~~~s~~~la~~l  246 (398)
T COG1373         173 ELLFEKYLETGGFPESVKADLSEKK--LKEYLDTILKRDIIERGKIEN-ADLMKRILRFLASNIGSPISYSSLAREL  246 (398)
T ss_pred             HHHHHHHHHhCCCcHHHhCcchhhH--HHHHHHHHHHHHHHHHcCccc-HHHHHHHHHHHHhhcCCccCHHHHHHHH
Confidence               1112357999977654322111  01111122211 111 11112 35677777777666  666666666655

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=88.08  E-value=3.9  Score=45.20  Aligned_cols=137  Identities=11%  Similarity=0.098  Sum_probs=74.3

Q ss_pred             CcccccchHHHHHHHHHhcCC---------------CCcHHHHHHHHHhccCCCC-------------------CEEEEE
Q 038110          157 DYEAFESRMSTLNDILGALKN---------------PDTTLAKEVAWKAENDKLF-------------------DQAVFA  202 (667)
Q Consensus       157 ~~~~~~gr~~~~~~i~~~l~~---------------~~TtLa~~vy~~~~~~~~F-------------------~~~~wv  202 (667)
                      .+..++|-+..++.+.+++..               ||||+|+.+.+...-...+                   .-.+.+
T Consensus        14 ~f~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~ei   93 (509)
T PRK14958         14 CFQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLFEV   93 (509)
T ss_pred             CHHHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEEEE
Confidence            345677888888888877743               4699999998865422211                   112223


Q ss_pred             EeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEe-c
Q 038110          203 EVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLT-A  279 (667)
Q Consensus       203 ~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivT-T  279 (667)
                      ..+....+.++ +++++.+.-..               ..++.-++|+|++...  ...+.+...+..-....++|++ |
T Consensus        94 daas~~~v~~i-R~l~~~~~~~p---------------~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlatt  157 (509)
T PRK14958         94 DAASRTKVEDT-RELLDNIPYAP---------------TKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATT  157 (509)
T ss_pred             cccccCCHHHH-HHHHHHHhhcc---------------ccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEEC
Confidence            22222222222 22333221110               0256678899999875  4455554444433345655554 4


Q ss_pred             CChhhhhhccCCcceEecCCCCHHHHHHHH
Q 038110          280 RSEDTLSRKMDSKQNFSVGILKEEEAWSGE  309 (667)
Q Consensus       280 r~~~va~~~~~~~~~~~l~~L~~~~s~~Lf  309 (667)
                      ....+..........+++.+++.++....+
T Consensus       158 d~~kl~~tI~SRc~~~~f~~l~~~~i~~~l  187 (509)
T PRK14958        158 DHHKLPVTVLSRCLQFHLAQLPPLQIAAHC  187 (509)
T ss_pred             ChHhchHHHHHHhhhhhcCCCCHHHHHHHH
Confidence            444443222233457889999988765543

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=87.54  E-value=6.4  Score=46.15  Aligned_cols=79  Identities=10%  Similarity=0.084  Sum_probs=49.1

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEE-ecCChhhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILL-TARSEDTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iiv-TTr~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +++-++|||++...  ..++.|...+..-...+.+|+ ||....+..........|++..++.++....+.         
T Consensus       119 ~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~  198 (824)
T PRK07764        119 SRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVP  198 (824)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCC
Confidence            45557889999875  445555555544444555554 544445543333445689999999988766554         


Q ss_pred             ------HHHHHHhCCcc
Q 038110          311 ------KWVAKECAGLP  321 (667)
Q Consensus       311 ------~~i~~~c~GlP  321 (667)
                            ..|++.++|.+
T Consensus       199 id~eal~lLa~~sgGdl  215 (824)
T PRK07764        199 VEPGVLPLVIRAGGGSV  215 (824)
T ss_pred             CCHHHHHHHHHHcCCCH
Confidence                  34666777765

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=87.50  E-value=8.5  Score=41.06  Aligned_cols=85  Identities=13%  Similarity=0.011  Sum_probs=53.6

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCC-hhhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARS-EDTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~-~~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +++-++++|++...  ...+.+...+.....+..+|++|.+ ..+..........+.+.+++.++....+.         
T Consensus       116 ~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~~~~~~  195 (394)
T PRK07940        116 GRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDGVDPET  195 (394)
T ss_pred             CCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcCCCHHH
Confidence            44557888999875  3344444444333445656665555 44432223334689999999999988775         


Q ss_pred             -HHHHHHhCCcchHHHHH
Q 038110          311 -KWVAKECAGLPVSIVTV  327 (667)
Q Consensus       311 -~~i~~~c~GlPLai~~~  327 (667)
                       ..++..++|.|..+..+
T Consensus       196 a~~la~~s~G~~~~A~~l  213 (394)
T PRK07940        196 ARRAARASQGHIGRARRL  213 (394)
T ss_pred             HHHHHHHcCCCHHHHHHH
Confidence             35777888888655333

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=87.28  E-value=2.9  Score=42.86  Aligned_cols=117  Identities=15%  Similarity=0.132  Sum_probs=73.3

Q ss_pred             CCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc
Q 038110          177 NPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWEN  256 (667)
Q Consensus       177 ~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~  256 (667)
                      .||||||+.+.+..+...    ..||..|-.-.-..=.++|+++-...             ..+. ++|-.|.+|.|..-
T Consensus       173 ~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~aq~~-------------~~l~-krkTilFiDEiHRF  234 (554)
T KOG2028|consen  173 TGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQAQNE-------------KSLT-KRKTILFIDEIHRF  234 (554)
T ss_pred             CchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHHHHHH-------------Hhhh-cceeEEEeHHhhhh
Confidence            367999999999877443    44666665443334444555443211             1223 68899999999754


Q ss_pred             --ccccccCCCcCCCCCCcEEEE--ecCChhhh--hhccCCcceEecCCCCHHHHHHHHHHHHH
Q 038110          257 --LDLLAIGIPHGNDHKGCKILL--TARSEDTL--SRKMDSKQNFSVGILKEEEAWSGEFKWVA  314 (667)
Q Consensus       257 --~~~~~l~~~~~~~~~gs~iiv--TTr~~~va--~~~~~~~~~~~l~~L~~~~s~~Lf~~~i~  314 (667)
                        .+-+.   .+|.-.+|+-++|  ||.+.+.-  ........++-++.|..++-..++.+.|.
T Consensus       235 NksQQD~---fLP~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~raia  295 (554)
T KOG2028|consen  235 NKSQQDT---FLPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMRAIA  295 (554)
T ss_pred             hhhhhhc---ccceeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHHHHHHH
Confidence              23232   3455667887777  77776532  11233456899999999988888774333

>PTZ00202 tuzin; Provisional

Probab=87.15  E-value=4.4  Score=43.23  Aligned_cols=144  Identities=14%  Similarity=0.153  Sum_probs=84.2

Q ss_pred             CCcccccchHHHHHHHHHhcCC-----------------CCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHH
Q 038110          156 KDYEAFESRMSTLNDILGALKN-----------------PDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIA  218 (667)
Q Consensus       156 ~~~~~~~gr~~~~~~i~~~l~~-----------------~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~  218 (667)
                      .+..+|+||+.+...+...|..                 |||||++.+.....    +  .+++.-+.  +..++++.|+
T Consensus       259 a~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~----~--~qL~vNpr--g~eElLr~LL  330 (550)
T PTZ00202        259 AVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----M--PAVFVDVR--GTEDTLRSVV  330 (550)
T ss_pred             CCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC----c--eEEEECCC--CHHHHHHHHH
Confidence            3456799999999999887742                 46999999996543    1  13332223  6799999999


Q ss_pred             HHhCCCCCCCChhHHHH-HHHHH----hc-CCeEEEEEeCCCCccccccc---CCCcCCCCCCcEEEEecCChhhh--hh
Q 038110          219 DKLGLTFHEESESGRAS-LCNQL----KK-NKTILMILDNIWENLDLLAI---GIPHGNDHKGCKILLTARSEDTL--SR  287 (667)
Q Consensus       219 ~~l~~~~~~~~~~~~~~-l~~~L----~~-~kr~LlVLDdvw~~~~~~~l---~~~~~~~~~gs~iivTTr~~~va--~~  287 (667)
                      .+|+.+.... ..+... |.+.|    .. |++.+||+-== +-..+..+   ...+.....-|.|++.--.+.+.  ..
T Consensus       331 ~ALGV~p~~~-k~dLLrqIqeaLl~~~~e~GrtPVLII~lr-eg~~l~rvyne~v~la~drr~ch~v~evpleslt~~~~  408 (550)
T PTZ00202        331 KALGVPNVEA-CGDLLDFISEACRRAKKMNGETPLLVLKLR-EGSSLQRVYNEVVALACDRRLCHVVIEVPLESLTIANT  408 (550)
T ss_pred             HHcCCCCccc-HHHHHHHHHHHHHHHHHhCCCCEEEEEEec-CCCcHHHHHHHHHHHHccchhheeeeeehHhhcchhcc
Confidence            9999743222 222222 44433    22 67777777522 21222111   01233344456677655544432  11


Q ss_pred             ccCCcceEecCCCCHHHHHHHH
Q 038110          288 KMDSKQNFSVGILKEEEAWSGE  309 (667)
Q Consensus       288 ~~~~~~~~~l~~L~~~~s~~Lf  309 (667)
                      ....-.-|.++.++.++|...-
T Consensus       409 ~lprldf~~vp~fsr~qaf~y~  430 (550)
T PTZ00202        409 LLPRLDFYLVPNFSRSQAFAYT  430 (550)
T ss_pred             cCccceeEecCCCCHHHHHHHH
Confidence            1223357888889988887753

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=86.50  E-value=4.2  Score=43.47  Aligned_cols=134  Identities=18%  Similarity=0.179  Sum_probs=71.7

Q ss_pred             CcccccchHHHHHHHHHhc---------------------------CCCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCC
Q 038110          157 DYEAFESRMSTLNDILGAL---------------------------KNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHD  209 (667)
Q Consensus       157 ~~~~~~gr~~~~~~i~~~l---------------------------~~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~  209 (667)
                      .+..+.|+++.++++.+.+                           +.|||++|+++.+...  ..     |+.++.   
T Consensus       129 ~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~--~~-----~i~v~~---  198 (389)
T PRK03992        129 TYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETN--AT-----FIRVVG---  198 (389)
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhC--CC-----EEEeeh---
Confidence            3456789999888887643                           1256999999998765  22     333321   


Q ss_pred             HHHHHHHHHHHhCCCCCCCChhHHHH-HHHHHhcCCeEEEEEeCCCCcc------------c----ccccCCCcCC--CC
Q 038110          210 IRKIQGEIADKLGLTFHEESESGRAS-LCNQLKKNKTILMILDNIWENL------------D----LLAIGIPHGN--DH  270 (667)
Q Consensus       210 ~~~i~~~i~~~l~~~~~~~~~~~~~~-l~~~L~~~kr~LlVLDdvw~~~------------~----~~~l~~~~~~--~~  270 (667)
                       ..+.    ....+    . ...... +.+........+|+|||+....            .    ...+...+..  ..
T Consensus       199 -~~l~----~~~~g----~-~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~  268 (389)
T PRK03992        199 -SELV----QKFIG----E-GARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPR  268 (389)
T ss_pred             -HHHh----Hhhcc----c-hHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCC
Confidence             1111    11100    0 111111 3333332456899999997531            0    1111111111  12


Q ss_pred             CCcEEEEecCChhhhhhcc----CCcceEecCCCCHHHHHHHHH
Q 038110          271 KGCKILLTARSEDTLSRKM----DSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       271 ~gs~iivTTr~~~va~~~~----~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      .+.+||.||........+.    .-...+.++..+.++-.++|+
T Consensus       269 ~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~  312 (389)
T PRK03992        269 GNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILK  312 (389)
T ss_pred             CCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHH
Confidence            3456777887654332111    123578999999998888875

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=86.42  E-value=4.9  Score=45.62  Aligned_cols=82  Identities=11%  Similarity=0.080  Sum_probs=49.5

Q ss_pred             CCeEEEEEeCCCCcc--cccccCCCcCCCCCCcEEEEecCC-hhhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWENL--DLLAIGIPHGNDHKGCKILLTARS-EDTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~~--~~~~l~~~~~~~~~gs~iivTTr~-~~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +++-++|+|++....  ..+.+...+..-....++|++|.+ ..+.....+....+.+..++.++....+.         
T Consensus       118 gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~  197 (709)
T PRK08691        118 GKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIA  197 (709)
T ss_pred             CCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCCC
Confidence            556789999997642  234443334332334566665544 33332222333578888999998777665         


Q ss_pred             ------HHHHHHhCCcchHH
Q 038110          311 ------KWVAKECAGLPVSI  324 (667)
Q Consensus       311 ------~~i~~~c~GlPLai  324 (667)
                            ..|++.++|.+--+
T Consensus       198 id~eAL~~Ia~~A~GslRdA  217 (709)
T PRK08691        198 YEPPALQLLGRAAAGSMRDA  217 (709)
T ss_pred             cCHHHHHHHHHHhCCCHHHH
Confidence                  67888888877433

>PRK08116 hypothetical protein; Validated

Probab=86.27  E-value=0.96  Score=45.54  Aligned_cols=93  Identities=16%  Similarity=0.136  Sum_probs=51.5

Q ss_pred             CCCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCC
Q 038110          176 KNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWE  255 (667)
Q Consensus       176 ~~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~  255 (667)
                      +.|||.||.++++....+  -..+++++      ..+++..|........    ......+.+.+. +- =||||||+..
T Consensus       124 GtGKThLa~aia~~l~~~--~~~v~~~~------~~~ll~~i~~~~~~~~----~~~~~~~~~~l~-~~-dlLviDDlg~  189 (268)
T PRK08116        124 GTGKTYLAACIANELIEK--GVPVIFVN------FPQLLNRIKSTYKSSG----KEDENEIIRSLV-NA-DLLILDDLGA  189 (268)
T ss_pred             CCCHHHHHHHHHHHHHHc--CCeEEEEE------HHHHHHHHHHHHhccc----cccHHHHHHHhc-CC-CEEEEecccC
Confidence            347899999999987633  33456665      4456666655443211    111222455555 33 3899999953


Q ss_pred             --cccccc--cCCCcCC-CCCCcEEEEecCCh
Q 038110          256 --NLDLLA--IGIPHGN-DHKGCKILLTARSE  282 (667)
Q Consensus       256 --~~~~~~--l~~~~~~-~~~gs~iivTTr~~  282 (667)
                        ..+|..  +..-+.. ...|..+|+||...
T Consensus       190 e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        190 ERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             CCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence              344532  2111111 12456689998654

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=86.20  E-value=6.5  Score=41.88  Aligned_cols=156  Identities=10%  Similarity=0.015  Sum_probs=87.1

Q ss_pred             CCCcccccchHHHHHHHHHhcCC------------------CCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHH
Q 038110          155 NKDYEAFESRMSTLNDILGALKN------------------PDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGE  216 (667)
Q Consensus       155 ~~~~~~~~gr~~~~~~i~~~l~~------------------~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~  216 (667)
                      ...+....||+.++..+-+|+..                  |+|.+...|+.+..-...=-+++.+.--.--....++..
T Consensus       146 t~~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~k  225 (529)
T KOG2227|consen  146 TAPPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKK  225 (529)
T ss_pred             cCCCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHH
Confidence            34456688999999999988743                  358889989987652111113344433322356778888


Q ss_pred             HHHHhCC-CCCCCChhHHHH-HHHHHhcCC-eEEEEEeCCCCcc--cccccCCCcCCC-CCCcEEEEecCC--hhhh---
Q 038110          217 IADKLGL-TFHEESESGRAS-LCNQLKKNK-TILMILDNIWENL--DLLAIGIPHGND-HKGCKILLTARS--EDTL---  285 (667)
Q Consensus       217 i~~~l~~-~~~~~~~~~~~~-l~~~L~~~k-r~LlVLDdvw~~~--~~~~l~~~~~~~-~~gs~iivTTr~--~~va---  285 (667)
                      |...+.. ........+... +.++.++.+ -||+|||.++.-.  .-..+...|-|. -.+||+|+.---  -+..   
T Consensus       226 I~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR~  305 (529)
T KOG2227|consen  226 IFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDRF  305 (529)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHHH
Confidence            8877722 112222233333 666665334 6999999987541  112222222222 245665543211  1111   


Q ss_pred             ----hh-ccCCcceEecCCCCHHHHHHHHH
Q 038110          286 ----SR-KMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       286 ----~~-~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                          .. ..-....+...+-+.++-.++|.
T Consensus       306 LprL~~~~~~~P~~l~F~PYTk~qI~~Il~  335 (529)
T KOG2227|consen  306 LPRLNLDLTIKPKLLVFPPYTKDQIVEILQ  335 (529)
T ss_pred             hhhhhhccCCCCceeeecCCCHHHHHHHHH
Confidence                00 01123467788889999999888

>PRK08084 DNA replication initiation factor; Provisional

Probab=85.80  E-value=4.5  Score=39.86  Aligned_cols=142  Identities=13%  Similarity=0.032  Sum_probs=79.8

Q ss_pred             CCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc
Q 038110          177 NPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWEN  256 (667)
Q Consensus       177 ~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~  256 (667)
                      .|||+|++.+++.....  -..+.++++.....                      ....+.+.+. . --+|++||+...
T Consensus        56 ~GKThLl~a~~~~~~~~--~~~v~y~~~~~~~~----------------------~~~~~~~~~~-~-~dlliiDdi~~~  109 (235)
T PRK08084         56 AGRSHLLHAACAELSQR--GRAVGYVPLDKRAW----------------------FVPEVLEGME-Q-LSLVCIDNIECI  109 (235)
T ss_pred             CCHHHHHHHHHHHHHhC--CCeEEEEEHHHHhh----------------------hhHHHHHHhh-h-CCEEEEeChhhh
Confidence            46799999999876522  23456666532100                      0011223332 1 247899999653


Q ss_pred             ---ccccccC-CCcCC-CCCC-cEEEEecCChhhh--------hhccCCcceEecCCCCHHHHHHHHHHHHHHHhCCcch
Q 038110          257 ---LDLLAIG-IPHGN-DHKG-CKILLTARSEDTL--------SRKMDSKQNFSVGILKEEEAWSGEFKWVAKECAGLPV  322 (667)
Q Consensus       257 ---~~~~~l~-~~~~~-~~~g-s~iivTTr~~~va--------~~~~~~~~~~~l~~L~~~~s~~Lf~~~i~~~c~GlPL  322 (667)
                         ..|+.-. ..+.. ...| .++|+||+...-.        ..-+....+++++++++++-.+++.+....+  |+.+
T Consensus       110 ~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~--~~~l  187 (235)
T PRK08084        110 AGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQLRARLR--GFEL  187 (235)
T ss_pred             cCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHHHHHHHHHHc--CCCC
Confidence               3443211 11111 1123 3689998855221        0113344689999999999888876544443  6776


Q ss_pred             HHHHHHHHHcc--CChHHHHHHHHHh
Q 038110          323 SIVTVSRALRN--KSLFEWKDALQQL  346 (667)
Q Consensus       323 ai~~~g~~L~~--k~~~~W~~~l~~l  346 (667)
                      .=.++.-+++.  .+...-..+++.+
T Consensus       188 ~~~v~~~L~~~~~~d~r~l~~~l~~l  213 (235)
T PRK08084        188 PEDVGRFLLKRLDREMRTLFMTLDQL  213 (235)
T ss_pred             CHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence            66666666653  3666666666654

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=85.69  E-value=8.2  Score=42.30  Aligned_cols=68  Identities=12%  Similarity=0.080  Sum_probs=42.2

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEec-CChhhhhhccCCcceEecCCCCHHHHHHHHH
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTA-RSEDTLSRKMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTT-r~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      +++=++|+|++...  ...+.+...+..-....++|++| ....+..........+++.+++.++....+.
T Consensus       115 ~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~  185 (491)
T PRK14964        115 SKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLV  185 (491)
T ss_pred             CCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHHHHHHHHHhheeeecccccHHHHHHHHH
Confidence            45568999999764  34555544444434456655544 4455543333445688999999988776655

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=85.48  E-value=8.4  Score=43.38  Aligned_cols=89  Identities=15%  Similarity=0.103  Sum_probs=54.6

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCC-hhhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARS-EDTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~-~~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +++-+||+|++...  ..++.+...+..-.....+|++|.+ ..+..........+++.+++.++....+.         
T Consensus       118 g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi~  197 (624)
T PRK14959        118 GRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGVD  197 (624)
T ss_pred             CCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCCC
Confidence            56678999999765  4455555444333334555555544 44432222334578999999998876664         


Q ss_pred             ------HHHHHHhCCcc-hHHHHHHHHH
Q 038110          311 ------KWVAKECAGLP-VSIVTVSRAL  331 (667)
Q Consensus       311 ------~~i~~~c~GlP-Lai~~~g~~L  331 (667)
                            ..|++.++|.+ -|+..+..++
T Consensus       198 id~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        198 YDPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence                  56777777744 5666665544

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=85.28  E-value=3.9  Score=41.58  Aligned_cols=127  Identities=10%  Similarity=0.003  Sum_probs=64.4

Q ss_pred             CCCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCC
Q 038110          176 KNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWE  255 (667)
Q Consensus       176 ~~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~  255 (667)
                      +.||||+|+.+..............|+.++.    .+    ++..+.+.    +...   +.+.++.-..-+|+||++..
T Consensus        68 GTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~----~~----l~~~~~g~----~~~~---~~~~~~~a~~gvL~iDEi~~  132 (284)
T TIGR02880        68 GTGKTTVALRMAQILHRLGYVRKGHLVSVTR----DD----LVGQYIGH----TAPK---TKEILKRAMGGVLFIDEAYY  132 (284)
T ss_pred             CCCHHHHHHHHHHHHHHcCCcccceEEEecH----HH----HhHhhccc----chHH---HHHHHHHccCcEEEEechhh
Confidence            3478999988877554222222224565552    12    22222211    1111   22222212235889999962


Q ss_pred             c-----------ccccccCCCcCCCCCCcEEEEecCChhhhh-hcc------CCcceEecCCCCHHHHHHHHHHHHHHHh
Q 038110          256 N-----------LDLLAIGIPHGNDHKGCKILLTARSEDTLS-RKM------DSKQNFSVGILKEEEAWSGEFKWVAKEC  317 (667)
Q Consensus       256 ~-----------~~~~~l~~~~~~~~~gs~iivTTr~~~va~-~~~------~~~~~~~l~~L~~~~s~~Lf~~~i~~~c  317 (667)
                      .           +.++.+...+.....+-+||.+|.....-. ...      .....+++++++.+|-..++...+.+.+
T Consensus       133 L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~~~~  212 (284)
T TIGR02880       133 LYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLKEQQ  212 (284)
T ss_pred             hccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHHHhc
Confidence            2           122333334433444556777665432211 001      1135789999999999999875444433

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=85.17  E-value=3.6  Score=47.45  Aligned_cols=66  Identities=14%  Similarity=0.100  Sum_probs=40.6

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEE--ecCChh--hhhhccCCcceEecCCCCHHHHHHHHHH
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILL--TARSED--TLSRKMDSKQNFSVGILKEEEAWSGEFK  311 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iiv--TTr~~~--va~~~~~~~~~~~l~~L~~~~s~~Lf~~  311 (667)
                      +++.+|+|||++.-  ..++.+...+   ..|+.+++  ||.+..  +..........+.+++|+.++...++.+
T Consensus       108 ~~~~IL~IDEIh~Ln~~qQdaLL~~l---E~g~IiLI~aTTenp~~~l~~aL~SR~~v~~l~pLs~edi~~IL~~  179 (725)
T PRK13341        108 GKRTILFIDEVHRFNKAQQDALLPWV---ENGTITLIGATTENPYFEVNKALVSRSRLFRLKSLSDEDLHQLLKR  179 (725)
T ss_pred             CCceEEEEeChhhCCHHHHHHHHHHh---cCceEEEEEecCCChHhhhhhHhhccccceecCCCCHHHHHHHHHH
Confidence            46689999999754  4455554333   34665665  344432  2111122245799999999999998873

>PRK04132 replication factor C small subunit; Provisional

Probab=84.93  E-value=16  Score=42.85  Aligned_cols=127  Identities=13%  Similarity=0.010  Sum_probs=70.3

Q ss_pred             cHHHHHHHHHhccCCCCC-EEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc--
Q 038110          180 TTLAKEVAWKAENDKLFD-QAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWEN--  256 (667)
Q Consensus       180 TtLa~~vy~~~~~~~~F~-~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~--  256 (667)
                      ||+|..+.++.-- +.++ ..+-++.|....+.. .++++..+.....             +...+.-++|||++...  
T Consensus       580 TT~A~ala~~l~g-~~~~~~~lElNASd~rgid~-IR~iIk~~a~~~~-------------~~~~~~KVvIIDEaD~Lt~  644 (846)
T PRK04132        580 TTAALALARELFG-ENWRHNFLELNASDERGINV-IREKVKEFARTKP-------------IGGASFKIIFLDEADALTQ  644 (846)
T ss_pred             HHHHHHHHHhhhc-ccccCeEEEEeCCCcccHHH-HHHHHHHHHhcCC-------------cCCCCCEEEEEECcccCCH
Confidence            8888888876521 1222 256666666444443 3333332211100             00124579999999876  


Q ss_pred             ccccccCCCcCCCCCCcEEEEecCC-hhhhhhccCCcceEecCCCCHHHHHHHHH---------------HHHHHHhCCc
Q 038110          257 LDLLAIGIPHGNDHKGCKILLTARS-EDTLSRKMDSKQNFSVGILKEEEAWSGEF---------------KWVAKECAGL  320 (667)
Q Consensus       257 ~~~~~l~~~~~~~~~gs~iivTTr~-~~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------------~~i~~~c~Gl  320 (667)
                      ...+.+...+.......++|.+|.+ ..+..........+.+.+++.++-...+.               ..|++.|+|.
T Consensus       645 ~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~i~~e~L~~Ia~~s~GD  724 (846)
T PRK04132        645 DAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEGD  724 (846)
T ss_pred             HHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCC
Confidence            3555555555433345566665554 34432223345689999999887765543               4566666665


Q ss_pred             c
Q 038110          321 P  321 (667)
Q Consensus       321 P  321 (667)
                      +
T Consensus       725 l  725 (846)
T PRK04132        725 M  725 (846)
T ss_pred             H
Confidence            5

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=84.85  E-value=15  Score=41.65  Aligned_cols=81  Identities=14%  Similarity=0.075  Sum_probs=51.6

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEE-ecCChhhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILL-TARSEDTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iiv-TTr~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +++=++|+|++...  ..++.+...+..-..++.+|+ ||+...+..........+++.+++.++....+.         
T Consensus       120 ~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~  199 (614)
T PRK14971        120 GKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGIT  199 (614)
T ss_pred             CCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCC
Confidence            44557899998765  445666555544444556554 555555543333445689999999998876664         


Q ss_pred             ------HHHHHHhCCcchH
Q 038110          311 ------KWVAKECAGLPVS  323 (667)
Q Consensus       311 ------~~i~~~c~GlPLa  323 (667)
                            ..|+..++|-.--
T Consensus       200 i~~~al~~La~~s~gdlr~  218 (614)
T PRK14971        200 AEPEALNVIAQKADGGMRD  218 (614)
T ss_pred             CCHHHHHHHHHHcCCCHHH
Confidence                  5677888886543

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=84.74  E-value=4.1  Score=39.63  Aligned_cols=154  Identities=17%  Similarity=0.133  Sum_probs=82.7

Q ss_pred             CCCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCC
Q 038110          176 KNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWE  255 (667)
Q Consensus       176 ~~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~  255 (667)
                      +.|||.|.+++++.......=..+++++      ..++...+...+....       ...+.+.+. + -=+|++||+..
T Consensus        44 G~GKTHLL~Ai~~~~~~~~~~~~v~y~~------~~~f~~~~~~~~~~~~-------~~~~~~~~~-~-~DlL~iDDi~~  108 (219)
T PF00308_consen   44 GLGKTHLLQAIANEAQKQHPGKRVVYLS------AEEFIREFADALRDGE-------IEEFKDRLR-S-ADLLIIDDIQF  108 (219)
T ss_dssp             TSSHHHHHHHHHHHHHHHCTTS-EEEEE------HHHHHHHHHHHHHTTS-------HHHHHHHHC-T-SSEEEEETGGG
T ss_pred             CCCHHHHHHHHHHHHHhccccccceeec------HHHHHHHHHHHHHccc-------chhhhhhhh-c-CCEEEEecchh
Confidence            3478999999999865321112355553      5667777776664311       122666665 3 45888999976


Q ss_pred             c---ccccc-cCCCcCC-CCCCcEEEEecCChhhh-h-------hccCCcceEecCCCCHHHHHHHHHHHHHHHhCCcch
Q 038110          256 N---LDLLA-IGIPHGN-DHKGCKILLTARSEDTL-S-------RKMDSKQNFSVGILKEEEAWSGEFKWVAKECAGLPV  322 (667)
Q Consensus       256 ~---~~~~~-l~~~~~~-~~~gs~iivTTr~~~va-~-------~~~~~~~~~~l~~L~~~~s~~Lf~~~i~~~c~GlPL  322 (667)
                      .   ..|.. +..-+.. ...|-+||+|+....-. .       .......++++++++.++-..++.+...+  .|+++
T Consensus       109 l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~--~~~~l  186 (219)
T PF00308_consen  109 LAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRILQKKAKE--RGIEL  186 (219)
T ss_dssp             GTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHHHHHHHHH--TT--S
T ss_pred             hcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHH--hCCCC
Confidence            5   22322 1111111 13466899999664321 0       11234458999999999988887644443  46666


Q ss_pred             HHHHHHHHHcc--CChHHHHHHHHHh
Q 038110          323 SIVTVSRALRN--KSLFEWKDALQQL  346 (667)
Q Consensus       323 ai~~~g~~L~~--k~~~~W~~~l~~l  346 (667)
                      .-.++--+...  .+..+-..+++++
T Consensus       187 ~~~v~~~l~~~~~~~~r~L~~~l~~l  212 (219)
T PF00308_consen  187 PEEVIEYLARRFRRDVRELEGALNRL  212 (219)
T ss_dssp             -HHHHHHHHHHTTSSHHHHHHHHHHH
T ss_pred             cHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence            55555555542  3556655555543

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=84.08  E-value=15  Score=38.56  Aligned_cols=167  Identities=13%  Similarity=0.017  Sum_probs=90.0

Q ss_pred             cccccchHHHHHHHHHhcCC---------------CCcHHHHHHHHHhccCC--CCCEEEEEEeCCCCCHHHHHHHHHHH
Q 038110          158 YEAFESRMSTLNDILGALKN---------------PDTTLAKEVAWKAENDK--LFDQAVFAEVSQSHDIRKIQGEIADK  220 (667)
Q Consensus       158 ~~~~~gr~~~~~~i~~~l~~---------------~~TtLa~~vy~~~~~~~--~F~~~~wv~vs~~~~~~~i~~~i~~~  220 (667)
                      ...++|.+.....+...+..               ||||+|..+....-...  .+...   ....++.--...+.|...
T Consensus        22 ~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~---~~~~~~~~c~~c~~i~~~   98 (351)
T PRK09112         22 NTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPE---TLADPDPASPVWRQIAQG   98 (351)
T ss_pred             hhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcc---ccCCCCCCCHHHHHHHcC
Confidence            44577988888888877643               45999998887654211  01111   011111111222333221


Q ss_pred             -------hCCC--CC-----CCChhHHHH-HHHHHh----cCCeEEEEEeCCCCc--ccccccCCCcCCCCCCcE-EEEe
Q 038110          221 -------LGLT--FH-----EESESGRAS-LCNQLK----KNKTILMILDNIWEN--LDLLAIGIPHGNDHKGCK-ILLT  278 (667)
Q Consensus       221 -------l~~~--~~-----~~~~~~~~~-l~~~L~----~~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~-iivT  278 (667)
                             +...  ..     .....+... +.+++.    .+++-++|+|++...  ...+.+...+.....+.. |++|
T Consensus        99 ~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fiLit  178 (351)
T PRK09112         99 AHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILIS  178 (351)
T ss_pred             CCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEEEEE
Confidence                   1000  00     011122222 455543    256779999999865  334444433333223344 4555


Q ss_pred             cCChhhhhhccCCcceEecCCCCHHHHHHHHH-------------HHHHHHhCCcchHHHHH
Q 038110          279 ARSEDTLSRKMDSKQNFSVGILKEEEAWSGEF-------------KWVAKECAGLPVSIVTV  327 (667)
Q Consensus       279 Tr~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~-------------~~i~~~c~GlPLai~~~  327 (667)
                      ++-..+..........+++.+++.++....+.             ..++..++|.|..+..+
T Consensus       179 ~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~~~~~~~~~~i~~~s~G~pr~Al~l  240 (351)
T PRK09112        179 HSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQGSDGEITEALLQRSKGSVRKALLL  240 (351)
T ss_pred             CChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcccCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            55444432222334689999999999988776             36788899999766543

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=83.84  E-value=11  Score=42.65  Aligned_cols=83  Identities=11%  Similarity=0.067  Sum_probs=50.4

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEE-ecCChhhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILL-TARSEDTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iiv-TTr~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +++=++|+|++...  ...+.+...+..-...+++|+ ||....+..........+++..++.++....+.         
T Consensus       131 a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~  210 (598)
T PRK09111        131 ARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVE  210 (598)
T ss_pred             CCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCC
Confidence            34557899999765  335555444444344566555 544444442223334689999999988776665         


Q ss_pred             ------HHHHHHhCCcchHHH
Q 038110          311 ------KWVAKECAGLPVSIV  325 (667)
Q Consensus       311 ------~~i~~~c~GlPLai~  325 (667)
                            ..|++.++|-+.-+.
T Consensus       211 i~~eAl~lIa~~a~Gdlr~al  231 (598)
T PRK09111        211 VEDEALALIARAAEGSVRDGL  231 (598)
T ss_pred             CCHHHHHHHHHHcCCCHHHHH
Confidence                  456777777664443

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=83.31  E-value=7.3  Score=42.45  Aligned_cols=124  Identities=12%  Similarity=0.035  Sum_probs=68.7

Q ss_pred             CCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc-
Q 038110          178 PDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWEN-  256 (667)
Q Consensus       178 ~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~-  256 (667)
                      |||+|++++.+.......=-.+++++      ..++..++...+....     .......+.+.  +.-+|||||+... 
T Consensus       153 GKTHLl~Ai~~~l~~~~~~~~v~yv~------~~~f~~~~~~~l~~~~-----~~~~~~~~~~~--~~dvLiIDDiq~l~  219 (450)
T PRK14087        153 GKTHLLKAAKNYIESNFSDLKVSYMS------GDEFARKAVDILQKTH-----KEIEQFKNEIC--QNDVLIIDDVQFLS  219 (450)
T ss_pred             cHHHHHHHHHHHHHHhCCCCeEEEEE------HHHHHHHHHHHHHHhh-----hHHHHHHHHhc--cCCEEEEecccccc
Confidence            56999999999654211112344443      4567777777664311     11112555554  3458999999654 


Q ss_pred             --ccc-cccCCCcCC-CCCCcEEEEecCChhhh--------hhccCCcceEecCCCCHHHHHHHHHHHHH
Q 038110          257 --LDL-LAIGIPHGN-DHKGCKILLTARSEDTL--------SRKMDSKQNFSVGILKEEEAWSGEFKWVA  314 (667)
Q Consensus       257 --~~~-~~l~~~~~~-~~~gs~iivTTr~~~va--------~~~~~~~~~~~l~~L~~~~s~~Lf~~~i~  314 (667)
                        ..+ +.+..-+.. ...|..||+|+....-.        ..-....-++.+++++.++-..++.+.+.
T Consensus       220 ~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~~~  289 (450)
T PRK14087        220 YKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKKEIK  289 (450)
T ss_pred             CCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHHHHH
Confidence              122 222222211 12345688887643211        01123345788999999999998874443

>TIGR03689 pup_AAA proteasome ATPase

Probab=82.97  E-value=8.8  Score=42.27  Aligned_cols=147  Identities=15%  Similarity=0.172  Sum_probs=77.3

Q ss_pred             cCCCcccccchHHHHHHHHHhcC---------------------------CCCcHHHHHHHHHhccCC---CCCEEEEEE
Q 038110          154 SNKDYEAFESRMSTLNDILGALK---------------------------NPDTTLAKEVAWKAENDK---LFDQAVFAE  203 (667)
Q Consensus       154 ~~~~~~~~~gr~~~~~~i~~~l~---------------------------~~~TtLa~~vy~~~~~~~---~F~~~~wv~  203 (667)
                      |...+..+.|.+..+++|.+.+.                           .|||++|+++++.....-   .+....|+.
T Consensus       177 p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~  256 (512)
T TIGR03689       177 PDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLN  256 (512)
T ss_pred             CCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEe
Confidence            33445667788888888776541                           256999999999865221   122344555


Q ss_pred             eCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHH----hcCCeEEEEEeCCCCcc---------cc-----cccCCC
Q 038110          204 VSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQL----KKNKTILMILDNIWENL---------DL-----LAIGIP  265 (667)
Q Consensus       204 vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L----~~~kr~LlVLDdvw~~~---------~~-----~~l~~~  265 (667)
                      ++..        +++..    ..+........+.+..    ..++.++|++|+++...         +.     ..+...
T Consensus       257 v~~~--------eLl~k----yvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~  324 (512)
T TIGR03689       257 IKGP--------ELLNK----YVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSE  324 (512)
T ss_pred             ccch--------hhccc----ccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHH
Confidence            4431        11111    0001111111122222    22578999999997531         11     122222


Q ss_pred             cCC--CCCCcEEEEecCChhhhhhcc----CCcceEecCCCCHHHHHHHHHHH
Q 038110          266 HGN--DHKGCKILLTARSEDTLSRKM----DSKQNFSVGILKEEEAWSGEFKW  312 (667)
Q Consensus       266 ~~~--~~~gs~iivTTr~~~va~~~~----~~~~~~~l~~L~~~~s~~Lf~~~  312 (667)
                      +..  ...+..||.||........+.    .-...++++..+.++..++|...
T Consensus       325 LDgl~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~  377 (512)
T TIGR03689       325 LDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKY  377 (512)
T ss_pred             hcccccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHH
Confidence            221  113445666776654432111    22346899999999999998643

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.

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

Probab=82.91  E-value=0.053  Score=51.64  Aligned_cols=83  Identities=11%  Similarity=0.117  Sum_probs=72.4

Q ss_pred             CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-cccccCCCCccChhhhcC
Q 038110          470 ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKH  548 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~  548 (667)
                      .+.....|+++.|..  ..+-..+ +.++.|..||++.|.+..+|+.++.+..++.+++.. ..+.+|       .++++
T Consensus        40 ~~kr~tvld~~s~r~--vn~~~n~-s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~n~~~~~p-------~s~~k  109 (326)
T KOG0473|consen   40 SFKRVTVLDLSSNRL--VNLGKNF-SILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHKNNHSQQP-------KSQKK  109 (326)
T ss_pred             ccceeeeehhhhhHH--Hhhccch-HHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhccchhhCC-------ccccc
Confidence            678899999998876  4555554 888899999999999999999999999999998887 889999       89999


Q ss_pred             CCCCCeEEeecCCC
Q 038110          549 FPNLTSLELEVNDA  562 (667)
Q Consensus       549 L~~L~~L~l~~~~l  562 (667)
                      ++++++++...|.+
T Consensus       110 ~~~~k~~e~k~~~~  123 (326)
T KOG0473|consen  110 EPHPKKNEQKKTEF  123 (326)
T ss_pred             cCCcchhhhccCcc
Confidence            99999999998864

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=82.62  E-value=21  Score=37.79  Aligned_cols=68  Identities=10%  Similarity=0.041  Sum_probs=38.6

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEec-CChhhhhhccCCcceEecCCCCHHHHHHHHH
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTA-RSEDTLSRKMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTT-r~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      +++-++++|++...  ..++.+...+......+.+|++| ....+..........++..++++++....+.
T Consensus       107 ~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~sr~~~v~~~~~~~~~l~~~l~  177 (367)
T PRK14970        107 GKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQIFDFKRITIKDIKEHLA  177 (367)
T ss_pred             CCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHHhcceeEecCCccHHHHHHHHH
Confidence            34557999998654  33555543333323344555544 3333322222334578999999888776654

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=82.56  E-value=16  Score=41.48  Aligned_cols=79  Identities=13%  Similarity=0.071  Sum_probs=48.0

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEE-ecCChhhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILL-TARSEDTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iiv-TTr~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +++-++|+|++...  ...+.+...+..-...+.+|+ |++...+..........+++.+++.++....+.         
T Consensus       126 ~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kLl~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi~  205 (620)
T PRK14954        126 GRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQ  205 (620)
T ss_pred             CCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCCC
Confidence            44567899998765  335555444443334455444 544445433233445689999999988765443         


Q ss_pred             ------HHHHHHhCCcc
Q 038110          311 ------KWVAKECAGLP  321 (667)
Q Consensus       311 ------~~i~~~c~GlP  321 (667)
                            ..++..++|..
T Consensus       206 I~~eal~~La~~s~Gdl  222 (620)
T PRK14954        206 IDADALQLIARKAQGSM  222 (620)
T ss_pred             CCHHHHHHHHHHhCCCH
Confidence                  56777777744

>PRK05642 DNA replication initiation factor; Validated

Probab=82.50  E-value=7  Score=38.43  Aligned_cols=142  Identities=17%  Similarity=0.168  Sum_probs=80.4

Q ss_pred             CCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc
Q 038110          177 NPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWEN  256 (667)
Q Consensus       177 ~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~  256 (667)
                      .|||.|++.+.+....+  -..+++++..+      +...                ...+.+.+. +- =+||+||+...
T Consensus        56 ~GKTHLl~a~~~~~~~~--~~~v~y~~~~~------~~~~----------------~~~~~~~~~-~~-d~LiiDDi~~~  109 (234)
T PRK05642         56 VGRSHLLQAACLRFEQR--GEPAVYLPLAE------LLDR----------------GPELLDNLE-QY-ELVCLDDLDVI  109 (234)
T ss_pred             CCHHHHHHHHHHHHHhC--CCcEEEeeHHH------HHhh----------------hHHHHHhhh-hC-CEEEEechhhh
Confidence            47899999998865422  23466776432      2211                012444444 22 26788999743


Q ss_pred             ---ccccc-cCCCcCC-CCCCcEEEEecCChhhhhh--------ccCCcceEecCCCCHHHHHHHHHHHHHHHhCCcchH
Q 038110          257 ---LDLLA-IGIPHGN-DHKGCKILLTARSEDTLSR--------KMDSKQNFSVGILKEEEAWSGEFKWVAKECAGLPVS  323 (667)
Q Consensus       257 ---~~~~~-l~~~~~~-~~~gs~iivTTr~~~va~~--------~~~~~~~~~l~~L~~~~s~~Lf~~~i~~~c~GlPLa  323 (667)
                         ..|+. +...+.. ...|..||+|++...-.-.        -.....++++++++.++-..+..++...+  |+++.
T Consensus       110 ~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka~~~--~~~l~  187 (234)
T PRK05642        110 AGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRASRR--GLHLT  187 (234)
T ss_pred             cCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHc--CCCCC
Confidence               34533 2222211 1246678888876432110        01223578999999999999887544433  66665


Q ss_pred             HHHHHHHHc--cCChHHHHHHHHHh
Q 038110          324 IVTVSRALR--NKSLFEWKDALQQL  346 (667)
Q Consensus       324 i~~~g~~L~--~k~~~~W~~~l~~l  346 (667)
                      -.++--+++  ..+...-..+++.+
T Consensus       188 ~ev~~~L~~~~~~d~r~l~~~l~~l  212 (234)
T PRK05642        188 DEVGHFILTRGTRSMSALFDLLERL  212 (234)
T ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            555555554  23666666666655

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=82.49  E-value=8.4  Score=41.31  Aligned_cols=80  Identities=10%  Similarity=0.042  Sum_probs=49.8

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEec-CChhhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTA-RSEDTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTT-r~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +++-++|+|++...  ..++.+...+.+....+.+|++| +...+..........+++.++++++....+.         
T Consensus       126 ~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~~  205 (397)
T PRK14955        126 GRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEGIS  205 (397)
T ss_pred             CCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCC
Confidence            45568899999765  45666655555444566665554 4444432112223578899999888765544         


Q ss_pred             ------HHHHHHhCCcch
Q 038110          311 ------KWVAKECAGLPV  322 (667)
Q Consensus       311 ------~~i~~~c~GlPL  322 (667)
                            ..++..++|.+-
T Consensus       206 i~~~al~~l~~~s~g~lr  223 (397)
T PRK14955        206 VDADALQLIGRKAQGSMR  223 (397)
T ss_pred             CCHHHHHHHHHHcCCCHH
Confidence                  566777777653

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=81.92  E-value=25  Score=39.78  Aligned_cols=162  Identities=9%  Similarity=0.062  Sum_probs=83.0

Q ss_pred             cccccchHHHHHHHHHhcCC---------------CCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhC
Q 038110          158 YEAFESRMSTLNDILGALKN---------------PDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLG  222 (667)
Q Consensus       158 ~~~~~gr~~~~~~i~~~l~~---------------~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~  222 (667)
                      ...++|.+..++.+..++..               ||||+|+.+.+.......+.      ....++.-...+.|.....
T Consensus        15 ~~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~------~~~~c~~c~~c~~i~~~~~   88 (585)
T PRK14950         15 FAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDP------KGRPCGTCEMCRAIAEGSA   88 (585)
T ss_pred             HHHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCC------CCCCCccCHHHHHHhcCCC
Confidence            44577888888777766543               46999999987654211100      0112222233333332211


Q ss_pred             CCC---C--CCChhHHHH-HHHHHh----cCCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCC-hhhhhhcc
Q 038110          223 LTF---H--EESESGRAS-LCNQLK----KNKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARS-EDTLSRKM  289 (667)
Q Consensus       223 ~~~---~--~~~~~~~~~-l~~~L~----~~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~-~~va~~~~  289 (667)
                      .+.   .  .....+... +.+.+.    .+++-++|+|++...  ...+.+...+......+.+|++|.+ ..+.....
T Consensus        89 ~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~tI~  168 (585)
T PRK14950         89 VDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATIL  168 (585)
T ss_pred             CeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhHHHH
Confidence            110   0  011111111 222221    145678999998754  3455554444333345566655533 33332222


Q ss_pred             CCcceEecCCCCHHHHHHHHH---------------HHHHHHhCCcchHHH
Q 038110          290 DSKQNFSVGILKEEEAWSGEF---------------KWVAKECAGLPVSIV  325 (667)
Q Consensus       290 ~~~~~~~l~~L~~~~s~~Lf~---------------~~i~~~c~GlPLai~  325 (667)
                      .....+.+..++.++....+.               ..+++.++|.+-.+.
T Consensus       169 SR~~~i~f~~l~~~el~~~L~~~a~~egl~i~~eal~~La~~s~Gdlr~al  219 (585)
T PRK14950        169 SRCQRFDFHRHSVADMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAE  219 (585)
T ss_pred             hccceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHH
Confidence            334578888898887665554               567777877775443

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=81.88  E-value=18  Score=41.50  Aligned_cols=80  Identities=21%  Similarity=0.125  Sum_probs=49.7

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcE-EEEecCChhhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCK-ILLTARSEDTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~-iivTTr~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +++-++|+|++...  ..++.+...+........ |++||+...+..........+++.+++.++....+.         
T Consensus       117 g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~  196 (725)
T PRK07133        117 SKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTILSRVQRFNFRRISEDEIVSRLEFILEKENIS  196 (725)
T ss_pred             CCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHHHHhhceeEEccCCCHHHHHHHHHHHHHHcCCC
Confidence            55668899999764  456555544433333444 445555555543223334689999999998776554         


Q ss_pred             ------HHHHHHhCCcch
Q 038110          311 ------KWVAKECAGLPV  322 (667)
Q Consensus       311 ------~~i~~~c~GlPL  322 (667)
                            ..+++.++|-+-
T Consensus       197 id~eAl~~LA~lS~GslR  214 (725)
T PRK07133        197 YEKNALKLIAKLSSGSLR  214 (725)
T ss_pred             CCHHHHHHHHHHcCCCHH
Confidence                  457777777553

>COG3899 Predicted ATPase [General function prediction only]

Probab=81.32  E-value=14  Score=43.73  Aligned_cols=88  Identities=11%  Similarity=0.099  Sum_probs=63.1

Q ss_pred             CCcceEecCCCCHHHHHHHHH--------------HHHHHHhCCcchHHHHHHHHHcc-------CChHHHHHHHHHhcC
Q 038110          290 DSKQNFSVGILKEEEAWSGEF--------------KWVAKECAGLPVSIVTVSRALRN-------KSLFEWKDALQQLRR  348 (667)
Q Consensus       290 ~~~~~~~l~~L~~~~s~~Lf~--------------~~i~~~c~GlPLai~~~g~~L~~-------k~~~~W~~~l~~l~~  348 (667)
                      .....+.+.||+..+.-.+..              ..|++|-.|.|+-+.-+-..|..       -+...|..=..++..
T Consensus       209 ~~i~~I~L~PL~~~d~~~lV~~~l~~~~~~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~  288 (849)
T COG3899         209 TNITTITLAPLSRADTNQLVAATLGCTKLLPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGI  288 (849)
T ss_pred             CceeEEecCcCchhhHHHHHHHHhCCcccccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCC
Confidence            344689999999999998877              89999999999999888887763       145556544333332


Q ss_pred             CC------------CcCchHHHHHHHHHHhhh-hcccHHHHH
Q 038110          349 PI------------STNFKDELKQIFLLIGYT-YVAFIDDLI  377 (667)
Q Consensus       349 ~~------------~~~l~~~lk~cfly~s~f-~~i~~~~Li  377 (667)
                      .+            .+.+|...+.-.-..|++ -.|+...|-
T Consensus       289 ~~~~~~vv~~l~~rl~kL~~~t~~Vl~~AA~iG~~F~l~~La  330 (849)
T COG3899         289 LATTDAVVEFLAARLQKLPGTTREVLKAAACIGNRFDLDTLA  330 (849)
T ss_pred             chhhHHHHHHHHHHHhcCCHHHHHHHHHHHHhCccCCHHHHH
Confidence            21            234588999999999998 444444333

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=81.22  E-value=17  Score=37.75  Aligned_cols=84  Identities=11%  Similarity=0.015  Sum_probs=53.0

Q ss_pred             CeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCCh-hhhhhccCCcceEecCCCCHHHHHHHHH----------
Q 038110          244 KTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSE-DTLSRKMDSKQNFSVGILKEEEAWSGEF----------  310 (667)
Q Consensus       244 kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~-~va~~~~~~~~~~~l~~L~~~~s~~Lf~----------  310 (667)
                      ++=++|+|++...  ...+.+...+-.-..++.+|+||.+. .+..+.......+.+.+++.+++.+.+.          
T Consensus       106 ~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~~~~~~~~  185 (328)
T PRK05707        106 GRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQALPESDERE  185 (328)
T ss_pred             CCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhcccCChHH
Confidence            3344567999875  44555544443333466677777665 3433333445689999999999877665          


Q ss_pred             -HHHHHHhCCcchHHHHH
Q 038110          311 -KWVAKECAGLPVSIVTV  327 (667)
Q Consensus       311 -~~i~~~c~GlPLai~~~  327 (667)
                       ..++..++|.|+.+..+
T Consensus       186 ~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        186 RIELLTLAGGSPLRALQL  203 (328)
T ss_pred             HHHHHHHcCCCHHHHHHH
Confidence             35677888888755443

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=81.17  E-value=14  Score=37.36  Aligned_cols=80  Identities=15%  Similarity=0.252  Sum_probs=55.7

Q ss_pred             CCCcHHHHHHHHHhccCCCCC----EEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHH--HHHHHhcCCeEEEEE
Q 038110          177 NPDTTLAKEVAWKAENDKLFD----QAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRAS--LCNQLKKNKTILMIL  250 (667)
Q Consensus       177 ~~~TtLa~~vy~~~~~~~~F~----~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~--l~~~L~~~kr~LlVL  250 (667)
                      .|||++++......-....=+    .++-|.....++...+...|+.+++.............  +...|+.-+-=+||+
T Consensus        72 nGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLII  151 (302)
T PF05621_consen   72 NGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLII  151 (302)
T ss_pred             CcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEe
Confidence            488999999997654321111    36667788899999999999999998875544333322  445554434468899


Q ss_pred             eCCCCc
Q 038110          251 DNIWEN  256 (667)
Q Consensus       251 Ddvw~~  256 (667)
                      |.+.+.
T Consensus       152 DE~H~l  157 (302)
T PF05621_consen  152 DEFHNL  157 (302)
T ss_pred             echHHH
Confidence            999774

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=80.59  E-value=15  Score=40.88  Aligned_cols=68  Identities=10%  Similarity=0.035  Sum_probs=39.8

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEec-CChhhhhhccCCcceEecCCCCHHHHHHHHH
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTA-RSEDTLSRKMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTT-r~~~va~~~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      +++-++|+|++...  ...+.+...+........+|++| ..+.+..........+++..++.++....+.
T Consensus       118 ~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~  188 (527)
T PRK14969        118 GRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQ  188 (527)
T ss_pred             CCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhHHHHHHHHhcCCCCHHHHHHHHH
Confidence            56678999999865  33555544444433455555544 4343331112223578899999888765543

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

Probab=80.34  E-value=0.11  Score=53.80  Aligned_cols=110  Identities=15%  Similarity=0.057  Sum_probs=55.1

Q ss_pred             CCCCCCeEEeecCC-CCCCCCC-C-cCCCCCCeeEEEecCc---cCCCcccccccccceEEeecCccccch-----HHHH
Q 038110          548 HFPNLTSLELEVND-ANTLPRG-G-LFFEKPERYKILTGHR---WSRGFYRSSNKSYRSFRIDLDANVRLK-----DRLV  616 (667)
Q Consensus       548 ~L~~L~~L~l~~~~-l~~lP~~-~-~~l~~L~~l~~~~~~~---~~~~~~~~~~~~l~~l~l~~~~~~~~~-----~~~~  616 (667)
                      +..+|+.|-+..|+ ++..--. + .+...|+.+.+.....   ..+..+......++.+.|+....++-.     ....
T Consensus       318 ~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~sls~~C~~lr~lslshce~itD~gi~~l~~~~  397 (483)
T KOG4341|consen  318 HCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDGTLASLSRNCPRLRVLSLSHCELITDEGIRHLSSSS  397 (483)
T ss_pred             CCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhhhHhhhccCCchhccCChhhhhhhhhhhhhhhhhcc
Confidence            44677777777664 3222111 1 1455566664432221   112222333344555555531111111     1111


Q ss_pred             HHhhhcceeeccccccccc-cccchhhhhccCCCccEEEeecCCCC
Q 038110          617 VQLRGIEELSLAGLLDQDI-KNFVNELVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       617 ~~l~~L~~L~L~~~~~~~~-~~~~~~l~~~~l~~L~~L~l~~~~~l  661 (667)
                      ..+..|+.|.|+++  ..+ +...+.+  ...++|+.+.+.+|.+.
T Consensus       398 c~~~~l~~lEL~n~--p~i~d~~Le~l--~~c~~Leri~l~~~q~v  439 (483)
T KOG4341|consen  398 CSLEGLEVLELDNC--PLITDATLEHL--SICRNLERIELIDCQDV  439 (483)
T ss_pred             ccccccceeeecCC--CCchHHHHHHH--hhCcccceeeeechhhh
Confidence            23357888888888  443 3355566  66778888888888654

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=80.08  E-value=31  Score=38.36  Aligned_cols=80  Identities=13%  Similarity=0.084  Sum_probs=48.4

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCCh-hhhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSE-DTLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~-~va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +++-++|+|++...  ...+.+...+......+++|++|.+. .+..........+++.+++.++....+.         
T Consensus       116 ~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi~  195 (535)
T PRK08451        116 ARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGVS  195 (535)
T ss_pred             CCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCCC
Confidence            45568899999765  34455544443334456666666553 3321122234689999999988766654         


Q ss_pred             ------HHHHHHhCCcch
Q 038110          311 ------KWVAKECAGLPV  322 (667)
Q Consensus       311 ------~~i~~~c~GlPL  322 (667)
                            ..|++.++|.+-
T Consensus       196 i~~~Al~~Ia~~s~GdlR  213 (535)
T PRK08451        196 YEPEALEILARSGNGSLR  213 (535)
T ss_pred             CCHHHHHHHHHHcCCcHH
Confidence                  456666666663

---

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	667
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-29
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	1e-19
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-12
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-06
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-04
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	4e-06
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-05
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-04
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	5e-05
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-04
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	1e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	4e-04
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	5e-04

>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 =  121 bits (305), Expect = 9e-29
 Identities = 105/657 (15%), Positives = 209/657 (31%), Gaps = 175/657 (26%)

Query: 10  ERQFSYLRSYNNNIENLKA--EVGKLKDGTESI--QHAVDEAKRKGEEIEKK---VEKLL 62
           E Q+ Y    +   +      +   ++D  +SI  +  +D      + +         LL
Sbjct: 13  EHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLL 72

Query: 63  DSGNNAIVEAEKFVGDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGRFDR 122
                 +   +KFV +    N + F      L   I+     P                 
Sbjct: 73  SKQEEMV---QKFVEEVLRINYK-F------LMSPIKTEQRQP----------------- 105

Query: 123 ISYRPLPEDIFCDNKNR--SSSSSFDPQNLTLMSNKDYEAFESRMSTLND--------IL 172
                +   ++ + ++R  + +  F   N++    + Y      +  L          +L
Sbjct: 106 ----SMMTRMYIEQRDRLYNDNQVFAKYNVS--RLQPYLKLRQALLELRPAKNVLIDGVL 159

Query: 173 GALKNPDTTLAKEVAWKAENDKLFDQAVF----AEVSQSHDIRKIQGEIADKLGLTFHEE 228
           G+ K   T +A +V    +     D  +F       +    + ++  ++  ++   +   
Sbjct: 160 GSGK---TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSR 216

Query: 229 S----------ESGRASLCNQL--KKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKIL 276
           S           S +A L   L  K  +  L++L N+       A  +        CKIL
Sbjct: 217 SDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL-------SCKIL 269

Query: 277 LTARSE---DTLS---RKMDSKQNFSVGILKEEEAWSGEF--KWVAKECAGLPVSIVTVS 328
           LT R +   D LS       S  + S+ +  +E         K++      LP  ++T +
Sbjct: 270 LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDE---VKSLLLKYLDCRPQDLPREVLTTN 326

Query: 329 --------RALRN-KSLFE-WKD-ALQQLRRPISTNFK----DELKQIF--LLIGYTYVA 371
                    ++R+  + ++ WK     +L   I ++       E +++F  L +      
Sbjct: 327 PRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV------ 380

Query: 372 FIDD---------LIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDDENISIS 422
           F            LIW+           ++ +  + V  +VNKL    ++    +  +IS
Sbjct: 381 FPPSAHIPTILLSLIWF-----------DVIK--SDVMVVVNKLHKYSLVEKQPKESTIS 427

Query: 423 IASREQNVFTATDELVNGWEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAE 482
           I S         +  V      +     H     I+D   Y +P+  +         P  
Sbjct: 428 IPSIYL------ELKVK----LENEYALH---RSIVD--HYNIPKTFDSDD---LIPPYL 469

Query: 483 KNSFFA-IPH-----------NLFRSMLQVRVLDLTDM------NLLSLPSSIGLLTNLH 524
              F++ I H            LFR +     LD   +      +  +  +S  +L  L 
Sbjct: 470 DQYFYSHIGHHLKNIEHPERMTLFRMVF----LDFRFLEQKIRHDSTAWNASGSILNTLQ 525

Query: 525 TLCLYGG-VGVVDGVKNASLEELKHF-PNLTSLELEVNDANTLPRGGLFFEKPERYK 579
            L  Y   +   D      +  +  F P +    +     + L R  L  E    ++
Sbjct: 526 QLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLL-RIALMAEDEAIFE 581

>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 = 61.4 bits (148), Expect = 7e-10
 Identities = 86/627 (13%), Positives = 152/627 (24%), Gaps = 218/627 (34%)

Query: 62  LDSGNNAIVEA--EKFVGDEAAANKQCFKGLCANLKIRIQHSTEAPRQLEAIVKLREAGR 119
                  I+    + FV +                    +   + P+    I+   E   
Sbjct: 14  HQYQYKDILSVFEDAFVDN-----------------FDCKDVQDMPKS---ILSKEE--- 50

Query: 120 FDRISYRPLPE-------DIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLNDIL 172
            D I                    K       F  + L      +Y+   S + T     
Sbjct: 51  IDHIIMSKDAVSGTLRLFWTLLS-KQEEMVQKFVEEVL----RINYKFLMSPIKTEQ--- 102

Query: 173 GALKNPDTTLAKEVAWKAENDKLF-DQAVFAE--VSQSHDIRKIQGEIADKLGLTFHEES 229
              + P         +  + D+L+ D  VFA+  VS+     K+                
Sbjct: 103 ---RQPS---MMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKL---------------- 140

Query: 230 ESGRASLCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGC-KILLTARSEDTLSRK 288
              R +L  +L+  K +L+                  G    G  K  +     D     
Sbjct: 141 ---RQALL-ELRPAKNVLI-----------------DG--VLGSGKTWVAL---DVC-LS 173

Query: 289 MDSKQNFSVGILKEEEAWSGEFKWVAKECAGLPVSIVTVSRALRNKSLFEWKDALQQLRR 348
              +      I          F W+             +      +++ E    LQ+L  
Sbjct: 174 YKVQCKMDFKI----------F-WL------------NLKNCNSPETVLE---MLQKLLY 207

Query: 349 PISTNFKDELKQIFLLIGYTYVAFIDDLIWYSIGLGLFQGIKNMEEARAGVRTLV-NKLK 407
            I  N+         +                           +   +A +R L+ +K  
Sbjct: 208 QIDPNWTSRSDHSSNIK------------------------LRIHSIQAELRRLLKSKPY 243

Query: 408 ASCML-LDD--DENI--------SISIASREQNVFTATDELVNGWEWSDESRVRHCTSIV 456
            +C+L L +  +            I + +R + V   TD L             H +  +
Sbjct: 244 ENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQV---TDFLSAA-------TTTHIS--L 291

Query: 457 ILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDL----TDMNLLS 512
                T    EV                        L    L  R  DL       N   
Sbjct: 292 DHHSMTLTPDEVKS----------------------LLLKYLDCRPQDLPREVLTTNPRR 329

Query: 513 LPSSIGLLT--NLHTLCLYGGVGVVDGVKNA---SLEEL------KHFPNLTSLELEVN- 560
           L S I       L T   +  V   D +      SL  L      K F  L+      + 
Sbjct: 330 L-SIIAESIRDGLATWDNWKHVNC-DKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHI 387

Query: 561 DANTLPR--GGLFFEKPE-------RYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRL 611
               L      +             +Y ++   +  +    S    Y   ++ L+    L
Sbjct: 388 PTILLSLIWFDVIKSDVMVVVNKLHKYSLV--EKQPKESTISIPSIYLELKVKLENEYAL 445

Query: 612 KDRLVVQLRGIEELSLAGLLDQDIKNF 638
              +V      +      L+   +  +
Sbjct: 446 HRSIVDHYNIPKTFDSDDLIPPYLDQY 472

>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 = 43.3 bits (101), Expect = 3e-04
 Identities = 55/457 (12%), Positives = 122/457 (26%), Gaps = 144/457 (31%)

Query: 4   CLAPPTERQFSYLRSYNNNI------------------ENLKAEVGK----LKDGTESIQ 41
            +A      +      +  I                  + L  ++        D + +I+
Sbjct: 165 WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224

Query: 42  HAVDEAKRKGEEI---EKKVEKLL---DSGNNAIVEA------------EKFVGDEAAAN 83
             +   + +   +   +     LL   +  N     A             K V D  +A 
Sbjct: 225 LRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAA 284

Query: 84  KQC----------F-----KGLCAN-LKIRIQH-STEA----PRQLEAIVK-LRE-AGRF 120
                              K L    L  R Q    E     PR+L  I + +R+    +
Sbjct: 285 TTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATW 344

Query: 121 DRISYRPLPEDIFCDNKNRSSSSSFDPQNLTLMSNKDYEAFESRMSTLND-------ILG 173
           D   ++     + CD       SS +     L   +  + F+  +S           +L 
Sbjct: 345 DN--WK----HVNCDKLTTIIESSLN----VLEPAEYRKMFDR-LSVFPPSAHIPTILLS 393

Query: 174 AL-KNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDI-RKIQGEIADKLGLTFHE---E 228
            +  +   +    V  K     L ++           I  +++ ++ ++  L  H    +
Sbjct: 394 LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL--HRSIVD 451

Query: 229 SESGRASLCNQLKKNKTILMILDNIW--------------ENLDLL-------------- 260
             +   +  +    +  I   LD  +              E + L               
Sbjct: 452 HYNIPKTFDS----DDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKI 507

Query: 261 -AIGIPHGNDHKGCKILLTAR--------SEDTLSRKMDSKQNFSVGILKEEEAWSGEFK 311
                           L   +        ++    R +++  +F   I  EE     ++ 
Sbjct: 508 RHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKI--EENLICSKYT 565

Query: 312 WVAKECAGLPVSIVTVSRALRNKSLFEWKDALQQLRR 348
            +             +  AL  +    +++A +Q++R
Sbjct: 566 DL-------------LRIALMAEDEAIFEEAHKQVQR 589

>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 = 92.0 bits (228), Expect = 1e-19
 Identities = 32/293 (10%), Positives = 77/293 (26%), Gaps = 63/293 (21%)

Query: 180 TTLAKEVAWKAEN--DKLFDQAVFAEVSQSH---------DIRKIQGEIADKLGLTFHEE 228
           + +A +   K++      +D  V+ + S +          DI  +     D L     E 
Sbjct: 166 SVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEH 225

Query: 229 SESGRAS--LCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLS 286
             S      +CN L      L + D++ +   +              + L+T R  +  +
Sbjct: 226 VTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWA------QELRLRCLVTTRDVEISN 279

Query: 287 RKMDSKQNFSVGILKEEEAWSGEFKW----------------VAKECAGLPVSIVTVSRA 330
               + +   V  L+ +E +     +                  +  +G P +++   ++
Sbjct: 280 AASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKS 339

Query: 331 LRNKSLFEWKDALQQLRRPISTNFK----------------------DELKQIFLLIG-- 366
              K+  +      +L        +                      DE +         
Sbjct: 340 CEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVM 399

Query: 367 -YTYVAFIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDDDEN 418
                  +                + +++    V   + +L     LL     
Sbjct: 400 PPGVDIPVKLWSCVIPVDICSNEEEQLDDE---VADRLKRLSKRGALLSGKRM 449

>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 = 69.1 bits (169), Expect = 2e-12
 Identities = 40/205 (19%), Positives = 71/205 (34%), Gaps = 36/205 (17%)

Query: 180 TTLAKEVAWKAENDKLF--DQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRAS-- 235
           + LA E        +        +  V +      +  ++ +       +ES S R    
Sbjct: 161 SVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLM-KLQNLCTRLDQDESFSQRLPLN 219

Query: 236 ---LCNQLK-----KNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSR 287
                ++L+     K+   L+ILD++W++  L A           C+ILLT R +     
Sbjct: 220 IEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFD-------SQCQILLTTRDKSVTDS 272

Query: 288 KMDSKQNFSV-GILKEEEAWSGEFKWV--------------AKECAGLPVSIVTVSRALR 332
            M  K    V   L +E+       +V               KEC G P+ +  +   LR
Sbjct: 273 VMGPKYVVPVESSLGKEKGLEILSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALLR 332

Query: 333 NKSLFEWKDALQQLRRPISTNFKDE 357
           +     W+  L+QL+       +  
Sbjct: 333 DFP-NRWEYYLKQLQNKQFKRIRKS 356

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

 Score = 49.5 bits (118), Expect = 3e-06
 Identities = 11/129 (8%), Positives = 36/129 (27%), Gaps = 7/129 (5%)

Query: 449 VRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDM 508
           ++  T + I+               +      ++    +      + ++  +  ++L + 
Sbjct: 444 IQRLTKLQIIYFANSPFTYD--NIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNC 501

Query: 509 NLL-SLPSSIGLLTNLHTLCLYG----GVGVVDGVKNASLEELKHFPNLTSLELEVNDAN 563
             +  LP  +  L  L +L +          +        ++    P +    +  N+  
Sbjct: 502 PNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLE 561

Query: 564 TLPRGGLFF 572
             P      
Sbjct: 562 EFPASASLQ 570

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

 Score = 42.6 bits (100), Expect = 5e-04
 Identities = 17/107 (15%), Positives = 37/107 (34%), Gaps = 6/107 (5%)

Query: 465 LPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGL--LTN 522
           L       +L    +  + N    IP +      QV  L  +   L  +P+      +  
Sbjct: 588 LEAFGTNVKLTDLKL--DYNQIEEIPEDFCAFTDQVEGLGFSHNKLKYIPNIFNAKSVYV 645

Query: 523 LHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG 568
           + ++      +G      + S+++ K   N +++ L  N+    P  
Sbjct: 646 MGSVDFSYNKIGSEGRNISCSMDDYK-GINASTVTLSYNEIQKFPTE 691

>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* Length = 1249

 Score = 49.1 bits (117), Expect = 4e-06
 Identities = 41/209 (19%), Positives = 71/209 (33%), Gaps = 34/209 (16%)

Query: 180 TTLAKEVAWKAEN-DKLFDQAVF----AEVSQSHDIRKIQGEIA-----DKLGLTFHEES 229
           + LA E        +  F   V      +  +S  + K+Q         +          
Sbjct: 161 SVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNI 220

Query: 230 ESGRASL-CNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRK 288
           E  +  L    L+K+   L+ILD++W+   L A           C+ILLT R +      
Sbjct: 221 EEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFDNQ-------CQILLTTRDKSVTDSV 273

Query: 289 MDSK---------------QNFSVGILKEEEAWSGEFKWVAKECAGLPVSIVTVSRALRN 333
           M  K               +  S+ +  ++E    E   + KEC G P+ +  +   LR+
Sbjct: 274 MGPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRD 333

Query: 334 KSLFEWKDALQQLRRPISTNFKDELKQIF 362
                W   L+QL+       +      +
Sbjct: 334 FP-NRWAYYLRQLQNKQFKRIRKSSSYDY 361

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

 Score = 45.7 bits (109), Expect = 3e-05
 Identities = 16/72 (22%), Positives = 25/72 (34%), Gaps = 14/72 (19%)

Query: 501 RVLDLTDMNLL-SLPSSIGLLTNLHTLCLYGGVGVVDGVKNASL----EELKHFPNLTSL 555
           + L L D + L +LP  I  LT L  L L G           +L      +   P    +
Sbjct: 256 KRLILKDCSNLLTLPLDIHRLTQLEKLDLRG---------CVNLSRLPSLIAQLPANCII 306

Query: 556 ELEVNDANTLPR 567
            +  +    L +
Sbjct: 307 LVPPHLQAQLDQ 318

>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 = 43.8 bits (104), Expect = 1e-04
 Identities = 16/87 (18%), Positives = 28/87 (32%), Gaps = 13/87 (14%)

Query: 484 NSFFAIPHNLFR-SMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYGGVGVVDGVKN-- 540
            +  A    L   +      L+L  + L   P     L++L  + +              
Sbjct: 66  RALKATADLLEDATQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDA---------AGL 116

Query: 541 ASL-EELKHFPNLTSLELEVNDANTLP 566
             L + ++ F  L +L L  N    LP
Sbjct: 117 MELPDTMQQFAGLETLTLARNPLRALP 143

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

 Score = 45.1 bits (107), Expect = 5e-05
 Identities = 21/89 (23%), Positives = 32/89 (35%), Gaps = 13/89 (14%)

Query: 484 NSFFAIPHNLFRSMLQVRVLDLTDMNLLS-LPSSI-GLLTNLHTLCLYGGVGVVDGVKN- 540
           N   +IP   F  +  +R LDL ++  LS +       L+NL  L L             
Sbjct: 146 NPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAM---------CN 196

Query: 541 -ASLEELKHFPNLTSLELEVNDANTLPRG 568
              +  L     L  L+L  N  + +  G
Sbjct: 197 LREIPNLTPLIKLDELDLSGNHLSAIRPG 225

>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 = 44.4 bits (105), Expect = 1e-04
 Identities = 19/89 (21%), Positives = 28/89 (31%), Gaps = 13/89 (14%)

Query: 484 NSFFAIPHNLFRSMLQVRVLDLTDMNLLS-LPSSI-GLLTNLHTLCLYGGVGVVDGVKN- 540
           N   +IP   F  +  +  LDL ++  L  +       L NL  L L             
Sbjct: 157 NPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGM---------CN 207

Query: 541 -ASLEELKHFPNLTSLELEVNDANTLPRG 568
              +  L     L  LE+  N    +  G
Sbjct: 208 IKDMPNLTPLVGLEELEMSGNHFPEIRPG 236

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A Length = 220

 Score = 42.7 bits (101), Expect = 1e-04
 Identities = 26/121 (21%), Positives = 42/121 (34%), Gaps = 37/121 (30%)

Query: 470 ECPQLKLFSMPA-----------EKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIG 518
           +C    L  +P            E+N+   IP   F    ++R +DL++  +  L     
Sbjct: 17  DCRGKGLTEIPTNLPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAP--D 74

Query: 519 L---LTNLHTLCLYGGVGVVDGVKNASLEELKHFP--------NLTSLELEVNDANTLPR 567
               L +L++L LYG         N    ++   P        +L  L L  N  N L  
Sbjct: 75  AFQGLRSLNSLVLYG---------N----KITELPKSLFEGLFSLQLLLLNANKINCLRV 121

Query: 568 G 568
            
Sbjct: 122 D 122

>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 = 43.1 bits (102), Expect = 3e-04
 Identities = 17/105 (16%), Positives = 34/105 (32%), Gaps = 7/105 (6%)

Query: 469 MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSIGLLTNLHTLC 527
           ++   L +  +    N+   + ++ F  + Q+    L   N+  L   S+  L N+  L 
Sbjct: 245 LKWTNLTMLDL--SYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLN 302

Query: 528 LYGGVGVVDGVKNA----SLEELKHFPNLTSLELEVNDANTLPRG 568
           L            +         +    L  L +E ND   +   
Sbjct: 303 LKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSN 347

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

 Score = 42.3 bits (100), Expect = 4e-04
 Identities = 28/106 (26%), Positives = 43/106 (40%), Gaps = 15/106 (14%)

Query: 471 CPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG 530
             ++ + S+  +K+ FF I  N F     ++ LDLT  +L  LPS +  L+ L  L L  
Sbjct: 251 LCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLS- 309

Query: 531 GVGVVDGVKNASLEEL-----KHFPNLTSLELEVNDANTLPRGGLF 571
                        E L      +FP+LT L ++ N        G  
Sbjct: 310 ---------ANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCL 346

>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 = 42.5 bits (100), Expect = 4e-04
 Identities = 18/89 (20%), Positives = 33/89 (37%), Gaps = 11/89 (12%)

Query: 484 NSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSI-GLLTNLHTLCLYGGVGVVDGVKNAS 542
           N    +  + F  + +V  +DL   ++  +       L  L TL L           + +
Sbjct: 324 NLLGELYSSNFYGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLR----------DNA 373

Query: 543 LEELKHFPNLTSLELEVNDANTLPRGGLF 571
           L  +   P++  + L  N   TLP+  L 
Sbjct: 374 LTTIHFIPSIPDIFLSGNKLVTLPKINLT 402

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	667
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.95
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.92
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.88
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.79
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.74
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.69
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.66
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.66
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.66
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.66
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.65
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.64
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.63
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.63
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.63
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.62
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.62
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.62
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.61
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.61
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.6
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.6
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.58
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.58
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.58
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.58
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.57
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.57
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.56
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.56
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.56
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.56
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.55
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.55
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.55
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.55
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.55
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.55
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.55
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.54
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.54
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.54
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.53
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.53
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.53
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.52
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.52
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.52
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.51
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.51
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.51
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.5
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.5
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.5
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.5
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.49
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.49
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.49
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.48
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.48
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.48
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.47
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.47
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.47
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.46
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.45
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.45
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.45
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.45
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.44
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.43
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.43
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.43
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.43
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.43
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.42
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.42
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.42
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.41
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.41
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.4
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.4
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.4
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.39
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.38
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.37
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.37
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.36
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.36
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.35
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.35
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.34
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.34
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.34
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.33
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.33
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.33
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.32
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.31
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.31
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.31
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.31
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.3
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.3
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.29
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.27
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.26
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.26
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.25
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.25
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.25
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.24
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.24
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.24
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.23
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.23
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.2
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.19
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.17
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.17
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.16
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.15
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.12
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.11
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.08
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.04
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.04
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.04
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.03
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.03
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.01
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.0
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.0
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.98
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	98.94
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.93
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.9
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.8
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	98.8
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	98.8
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.71
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.66
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.62
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.59
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	98.54
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	98.45
2fna_A	357	Conserved hypothetical protein; structural genomic	98.37
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.36
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.14
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.12
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.07
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.04
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.03
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	97.94
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.93
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.8
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	97.8
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	97.74
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.71
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	97.68
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.27
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.22
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.14
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.09
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	97.05
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.02
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	96.54
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	96.42
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	96.36
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	96.18
2chq_A	319	Replication factor C small subunit; DNA-binding pr	95.13
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	94.72
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	94.11
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	93.94
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	93.92
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	93.74
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	93.37
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	93.27
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	92.78
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	92.49
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	92.03
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	91.75
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	91.46
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	91.09
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	90.61
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	90.31
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	89.85
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	89.4
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	89.1
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	88.85
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	88.76
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	88.32
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	87.86
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	86.72
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	85.91
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	84.26
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	82.54
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	82.34
3pvs_A	447	Replication-associated recombination protein A; ma	81.33
3bos_A	242	Putative DNA replication factor; P-loop containing	80.69
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	80.26

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

Probab=100.00  E-value=1.7e-34  Score=321.05  Aligned_cols=250  Identities=12%  Similarity=0.095  Sum_probs=190.9

Q ss_pred             cchHHHHHHHHHhcCC-----------------CCcHHHHHHHH--HhccCCCCCEEEEEEeCCCC--CHHHHHHHHHHH
Q 038110          162 ESRMSTLNDILGALKN-----------------PDTTLAKEVAW--KAENDKLFDQAVFAEVSQSH--DIRKIQGEIADK  220 (667)
Q Consensus       162 ~gr~~~~~~i~~~l~~-----------------~~TtLa~~vy~--~~~~~~~F~~~~wv~vs~~~--~~~~i~~~i~~~  220 (667)
                      +||+.++++|.++|..                 ||||||++||+  +.+++.+|++++||+|++.+  ++..+++.|+++
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~~  210 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLM  210 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHHHH
Confidence            4999999999998742                 46999999999  67888999999999999985  899999999999


Q ss_pred             hCCCCC--C--C---ChhH-HHH-HHHHHhcCC-eEEEEEeCCCCcccccccCCCcCCCCCCcEEEEecCChhhhhhccC
Q 038110          221 LGLTFH--E--E---SESG-RAS-LCNQLKKNK-TILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMD  290 (667)
Q Consensus       221 l~~~~~--~--~---~~~~-~~~-l~~~L~~~k-r~LlVLDdvw~~~~~~~l~~~~~~~~~gs~iivTTr~~~va~~~~~  290 (667)
                      ++....  .  .   .+.+ ... +++.|. +| ||||||||||+..++ .+    + ..+||+||||||++.|+. .++
T Consensus       211 l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~-~~kr~LlVLDdv~~~~~~-~~----~-~~~gs~ilvTTR~~~v~~-~~~  282 (549)
T 2a5y_B          211 LKSEDDLLNFPSVEHVTSVVLKRMICNALI-DRPNTLFVFDDVVQEETI-RW----A-QELRLRCLVTTRDVEISN-AAS  282 (549)
T ss_dssp             HTTTSCCTTCCCCTTCCHHHHHHHHHHHHT-TSTTEEEEEEEECCHHHH-HH----H-HHTTCEEEEEESBGGGGG-GCC
T ss_pred             HhcCcccccccccccccHHHHHHHHHHHHc-CCCcEEEEEECCCCchhh-cc----c-ccCCCEEEEEcCCHHHHH-HcC
Confidence            986532  1  1   1112 234 899998 65 999999999998754 11    1 127999999999999985 344


Q ss_pred             -CcceEecCCCCHHHHHHHHH----------------HHHHHHhCCcchHHHHHHHHHccCChHHHHHHHHH-h------
Q 038110          291 -SKQNFSVGILKEEEAWSGEF----------------KWVAKECAGLPVSIVTVSRALRNKSLFEWKDALQQ-L------  346 (667)
Q Consensus       291 -~~~~~~l~~L~~~~s~~Lf~----------------~~i~~~c~GlPLai~~~g~~L~~k~~~~W~~~l~~-l------  346 (667)
                       ...+|+|++|++++||+||.                ++|+++|+|+||||+++|+.|+.++. +|...+.+ +      
T Consensus       283 ~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~w-~~~~~l~~~l~~~~~~  361 (549)
T 2a5y_B          283 QTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTF-EKMAQLNNKLESRGLV  361 (549)
T ss_dssp             SCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSH-HHHHHHHHHHHHHCSS
T ss_pred             CCCeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHHHHHHhccchH-HHHHHhHHHhhcccHH
Confidence             44689999999999999998                78999999999999999999987643 33333332 2      


Q ss_pred             -----cCCCCcCchHHHHHHHH-----------HHhhh---hcccHHHHHHHHhHc--CCCCC---cccHHHHHHHHHHH
Q 038110          347 -----RRPISTNFKDELKQIFL-----------LIGYT---YVAFIDDLIWYSIGL--GLFQG---IKNMEEARAGVRTL  402 (667)
Q Consensus       347 -----~~~~~~~l~~~lk~cfl-----------y~s~f---~~i~~~~Li~~Wiae--g~i~~---~~~~e~~~~~~~~l  402 (667)
                           ...+|+++|+++|.||+           |||+|   +.|+    +++|+|+  ||+.+   ..+.+++.+++.+|
T Consensus       362 ~i~~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~----i~~w~a~~~G~i~~~~~~~~~~~~~~~l~~L  437 (549)
T 2a5y_B          362 GVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIP----VKLWSCVIPVDICSNEEEQLDDEVADRLKRL  437 (549)
T ss_dssp             TTCCCSSSSSSSHHHHHHHHHHTSCHHHHHHTTGGGSSCTTCCEE----HHHHHHHSCC-------CCCTHHHHHHHHHT
T ss_pred             HHHHHHhcccccccHHHHHHHhccchhhhhHhhheeeeCCCCeee----eeeeeeeccceeccCCCCCCHHHHHHHHHHH
Confidence                 14578899999999999           99999   7777    8999999  99974   33456655455555


Q ss_pred             HHHHHHccccccCC---------c----chhhhhccccc
Q 038110          403 VNKLKASCMLLDDD---------E----NISISIASREQ  428 (667)
Q Consensus       403 i~~L~~~~l~~~~~---------~----dl~~~~~~~~~  428 (667)
                      ++    +||++...         |    ++|++++.+++
T Consensus       438 ~~----rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~~~~  472 (549)
T 2a5y_B          438 SK----RGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQT  472 (549)
T ss_dssp             TT----BSSCSEEECSSSCEEECCHHHHHHHHTTSCTHH
T ss_pred             HH----cCCeeEecCCCceEEEeChHHHHHHHHHHHHHH
Confidence            54    99998642         1    66666665543

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

Probab=99.95  E-value=5.2e-28  Score=272.90  Aligned_cols=235  Identities=16%  Similarity=0.151  Sum_probs=180.4

Q ss_pred             cchHHHHHHHHHhcCC---------------CCcHHHHHHHHHhccCCCCCE-EEEEEeCCCCCHHHHHHHHHHHhCC--
Q 038110          162 ESRMSTLNDILGALKN---------------PDTTLAKEVAWKAENDKLFDQ-AVFAEVSQSHDIRKIQGEIADKLGL--  223 (667)
Q Consensus       162 ~gr~~~~~~i~~~l~~---------------~~TtLa~~vy~~~~~~~~F~~-~~wv~vs~~~~~~~i~~~i~~~l~~--  223 (667)
                      +||+.++++|.++|..               ||||||+.+|++.+++.+|+. ++||++++.++...++..|++.++.  
T Consensus       131 VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~i~  210 (1221)
T 1vt4_I          131 VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQID  210 (1221)
T ss_dssp             CCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHHHC
T ss_pred             CCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhhcC
Confidence            7999999999888742               569999999998877789987 9999999999999998888775321  


Q ss_pred             -CCCCC-----C---hhHH-HH-HHHHHh--cCCeEEEEEeCCCCcccccccCCCcCCCCCCcEEEEecCChhhhhhccC
Q 038110          224 -TFHEE-----S---ESGR-AS-LCNQLK--KNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKMD  290 (667)
Q Consensus       224 -~~~~~-----~---~~~~-~~-l~~~L~--~~kr~LlVLDdvw~~~~~~~l~~~~~~~~~gs~iivTTr~~~va~~~~~  290 (667)
                       .....     .   ..+. .. +++.|+  .+||+||||||||+.+.|+.+.       .||+||||||++.++. .+.
T Consensus       211 ~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd~~Va~-~l~  282 (1221)
T 1vt4_I          211 PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRFKQVTD-FLS  282 (1221)
T ss_dssp             SSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH-------SSCCEEEECSCSHHHH-HHH
T ss_pred             cccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC-------CCeEEEEeccChHHHH-hcC
Confidence             11100     0   1111 22 666551  2799999999999998888651       6999999999999974 222


Q ss_pred             CcceEecC------CCCHHHHHHHHH--------HHHHHHhCCcchHHHHHHHHHccC--ChHHHHHH----HHHhcCCC
Q 038110          291 SKQNFSVG------ILKEEEAWSGEF--------KWVAKECAGLPVSIVTVSRALRNK--SLFEWKDA----LQQLRRPI  350 (667)
Q Consensus       291 ~~~~~~l~------~L~~~~s~~Lf~--------~~i~~~c~GlPLai~~~g~~L~~k--~~~~W~~~----l~~l~~~~  350 (667)
                      ....|.++      +|+.+|||+||+        ....+.|+|+||||+++|+.|+++  +.++|+..    +......+
T Consensus       283 g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~~~eeL~~eICgGLPLALkLaGs~Lr~k~~s~eeW~~~~~~~I~aaLelS  362 (1221)
T 1vt4_I          283 AATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS  362 (1221)
T ss_dssp             HHSSCEEEECSSSSCCCHHHHHHHHHHHHCCCTTTHHHHHCCCCHHHHHHHHHHHHHSCSSHHHHHHCSCHHHHHHHHHH
T ss_pred             CCeEEEecCccccCCcCHHHHHHHHHHHcCCCHHHHHHHHhCCCHHHHHHHHHHHhCCCCCHHHHhcCChhHHHHHHHHH
Confidence            23456777      999999999998        223356999999999999999976  78899753    23334567


Q ss_pred             CcCchHHH-HHHHHHHhhh---hcccHHHHHHHHhHcCCCCCcccHHHHHHHHHHHHHHHHHccccccC
Q 038110          351 STNFKDEL-KQIFLLIGYT---YVAFIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKASCMLLDD  415 (667)
Q Consensus       351 ~~~l~~~l-k~cfly~s~f---~~i~~~~Li~~Wiaeg~i~~~~~~e~~~~~~~~li~~L~~~~l~~~~  415 (667)
                      |+.+|+++ |.||+|||+|   +.|+.+.++.+|+++|       .++++    +++++|+++||++..
T Consensus       363 Yd~Lp~eelK~cFL~LAIFPed~~I~~elLa~LW~aeG-------eedAe----~~L~eLvdRSLLq~d  420 (1221)
T 1vt4_I          363 LNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI-------KSDVM----VVVNKLHKYSLVEKQ  420 (1221)
T ss_dssp             HHHSCTTHHHHHHHHTTSSCTTSCEEHHHHHHHHCSSC-------SHHHH----HHHHHHHTSSSSSBC
T ss_pred             HHhCCHHHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCC-------HHHHH----HHHHHHHhhCCEEEe
Confidence            78888898 9999999999   7899999999999988       12344    445555569999864

>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=99.92  E-value=4.5e-25  Score=270.15  Aligned_cols=237  Identities=19%  Similarity=0.233  Sum_probs=183.7

Q ss_pred             CcccccchHHHHHHHHHhcCC----------------CCcHHHHHHHHHhcc-CCCC-CEEEEEEeCCCCC--HHHHHHH
Q 038110          157 DYEAFESRMSTLNDILGALKN----------------PDTTLAKEVAWKAEN-DKLF-DQAVFAEVSQSHD--IRKIQGE  216 (667)
Q Consensus       157 ~~~~~~gr~~~~~~i~~~l~~----------------~~TtLa~~vy~~~~~-~~~F-~~~~wv~vs~~~~--~~~i~~~  216 (667)
                      ....|+||++++++|.++|..                ||||||+++|++.++ ..+| +.++||++++.++  ....++.
T Consensus       122 ~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~  201 (1249)
T 3sfz_A          122 RPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQN  201 (1249)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHHHH
T ss_pred             CCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHHHH
Confidence            445699999999999998831                469999999998643 4555 6688999998553  4555777


Q ss_pred             HHHHhCCCCCC----CChhH-HHH-HHHHHhcCC--eEEEEEeCCCCcccccccCCCcCCCCCCcEEEEecCChhhhhhc
Q 038110          217 IADKLGLTFHE----ESESG-RAS-LCNQLKKNK--TILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRK  288 (667)
Q Consensus       217 i~~~l~~~~~~----~~~~~-~~~-l~~~L~~~k--r~LlVLDdvw~~~~~~~l~~~~~~~~~gs~iivTTr~~~va~~~  288 (667)
                      ++..+......    ....+ ... ++..|. +|  ||||||||||+..+|+.+       ++||+||||||++.|+...
T Consensus       202 ~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~-~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~~~~  273 (1249)
T 3sfz_A          202 LCMRLDQEESFSQRLPLNIEEAKDRLRVLML-RKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDSV  273 (1249)
T ss_dssp             HHHHHTTTCTTCSSCCSSHHHHHHHHHHHTS-SSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTTTTC
T ss_pred             HHHHhhhhcccccCCCCCHHHHHHHHHHHHh-ccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHHHhh
Confidence            88887754321    11222 223 777776 55  999999999999888764       5789999999999997444


Q ss_pred             cCCcceEecCC-CCHHHHHHHHH--------------HHHHHHhCCcchHHHHHHHHHccCChHHHHHHHHHhcCC----
Q 038110          289 MDSKQNFSVGI-LKEEEAWSGEF--------------KWVAKECAGLPVSIVTVSRALRNKSLFEWKDALQQLRRP----  349 (667)
Q Consensus       289 ~~~~~~~~l~~-L~~~~s~~Lf~--------------~~i~~~c~GlPLai~~~g~~L~~k~~~~W~~~l~~l~~~----  349 (667)
                      ++....+.+.+ |++++||+||.              ++|+++|+|+||||+.+|+.|+.+. ..|...++.+...    
T Consensus       274 ~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~l~~~~~~~  352 (1249)
T 3sfz_A          274 MGPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQFKR  352 (1249)
T ss_dssp             CSCBCCEECCSSCCHHHHHHHHHHHHTSCSTTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHHHHSCCCCC
T ss_pred             cCCceEEEecCCCCHHHHHHHHHHhhCCChhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHHHhhhhhhh
Confidence            66778899996 99999999998              7899999999999999999999765 4688888776432    


Q ss_pred             ------------------CCcCchHHHHHHHHHHhhh---hcccHHHHHHHHhHcCCCCCcccHHHHHHHHHHHHHHHHH
Q 038110          350 ------------------ISTNFKDELKQIFLLIGYT---YVAFIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLKA  408 (667)
Q Consensus       350 ------------------~~~~l~~~lk~cfly~s~f---~~i~~~~Li~~Wiaeg~i~~~~~~e~~~~~~~~li~~L~~  408 (667)
                                        +|+.+|+++|.||+|||+|   +.|++..++.+|.+++        ++++.    ++++|++
T Consensus       353 ~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~~--------~~~~~----~l~~L~~  420 (1249)
T 3sfz_A          353 IRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLET--------EEVED----ILQEFVN  420 (1249)
T ss_dssp             SSCTTCTTHHHHHHHHHHHHHTSCTTTHHHHHHGGGSCTTCCEEHHHHHHHHTCCH--------HHHHH----HHHHHHH
T ss_pred             cccccccchHHHHHHHHHHHHhCCHHHHHHHHHhCccCCCCeeCHHHHHHHhCCCH--------HHHHH----HHHHHHh
Confidence                              2455689999999999999   7899999999997652        33444    4445555


Q ss_pred             cccccc
Q 038110          409 SCMLLD  414 (667)
Q Consensus       409 ~~l~~~  414 (667)
                      ++|++.
T Consensus       421 ~sl~~~  426 (1249)
T 3sfz_A          421 KSLLFC  426 (1249)
T ss_dssp             TTSCEE
T ss_pred             ccceEE
Confidence            888864

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

Probab=99.88  E-value=3e-22  Score=225.56  Aligned_cols=234  Identities=19%  Similarity=0.264  Sum_probs=172.3

Q ss_pred             cccccchHHHHHHHHHhcCC----------------CCcHHHHHHHHHhcc-CCCC-CEEEEEEeCCCCCHHHHHHHH--
Q 038110          158 YEAFESRMSTLNDILGALKN----------------PDTTLAKEVAWKAEN-DKLF-DQAVFAEVSQSHDIRKIQGEI--  217 (667)
Q Consensus       158 ~~~~~gr~~~~~~i~~~l~~----------------~~TtLa~~vy~~~~~-~~~F-~~~~wv~vs~~~~~~~i~~~i--  217 (667)
                      ...|+||+.++++|.++|..                ||||||+.+|++..+ ..+| +.++||+++.. +...++..+  
T Consensus       123 ~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~~~~l~~  201 (591)
T 1z6t_A          123 PVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQN  201 (591)
T ss_dssp             CSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHHHHHHHH
T ss_pred             CCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHHHHHHHH
Confidence            45689999999999998852                469999999988654 5779 58999999875 444444444  


Q ss_pred             -HHHhCCCC----CCCChhH-HHH-HHHHHhc-CCeEEEEEeCCCCcccccccCCCcCCCCCCcEEEEecCChhhhhhcc
Q 038110          218 -ADKLGLTF----HEESESG-RAS-LCNQLKK-NKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRKM  289 (667)
Q Consensus       218 -~~~l~~~~----~~~~~~~-~~~-l~~~L~~-~kr~LlVLDdvw~~~~~~~l~~~~~~~~~gs~iivTTr~~~va~~~~  289 (667)
                       +..++...    ......+ ... +.+.+.. ++++||||||||+...++.+       +.||+||||||+..++.. +
T Consensus       202 l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~~~~~~-~  273 (591)
T 1z6t_A          202 LCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDS-V  273 (591)
T ss_dssp             HHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCGGGGTT-C
T ss_pred             HHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCcHHHHh-c
Confidence             44555211    1112222 223 7777762 27899999999997766543       468999999999998742 2


Q ss_pred             CCcceEec---CCCCHHHHHHHHH--------------HHHHHHhCCcchHHHHHHHHHccCChHHHHHHHHHhcCC---
Q 038110          290 DSKQNFSV---GILKEEEAWSGEF--------------KWVAKECAGLPVSIVTVSRALRNKSLFEWKDALQQLRRP---  349 (667)
Q Consensus       290 ~~~~~~~l---~~L~~~~s~~Lf~--------------~~i~~~c~GlPLai~~~g~~L~~k~~~~W~~~l~~l~~~---  349 (667)
                      + ...+.+   ++|+.+++++||.              .+|+++|+|+|||+..+|+.|+.+. ..|..+++.+...   
T Consensus       274 ~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~~l~~l~~~~~~  351 (591)
T 1z6t_A          274 M-GPKYVVPVESSLGKEKGLEILSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQNKQFK  351 (591)
T ss_dssp             C-SCEEEEECCSSCCHHHHHHHHHHHHTSCGGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHHHHHHHHSCCCC
T ss_pred             C-CCceEeecCCCCCHHHHHHHHHHHhCCCcccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHHHHHHHHHhHHH
Confidence            2 334554   5899999999998              7899999999999999999998763 3688888776432   


Q ss_pred             -------------------CCcCchHHHHHHHHHHhhh---hcccHHHHHHHHhHcCCCCCcccHHHHHHHHHHHHHHHH
Q 038110          350 -------------------ISTNFKDELKQIFLLIGYT---YVAFIDDLIWYSIGLGLFQGIKNMEEARAGVRTLVNKLK  407 (667)
Q Consensus       350 -------------------~~~~l~~~lk~cfly~s~f---~~i~~~~Li~~Wiaeg~i~~~~~~e~~~~~~~~li~~L~  407 (667)
                                         +|+.+|++.|.||+|||+|   +.|+...++.+|.++        .+++    .+.+.+|.
T Consensus       352 ~~~~~~~~~~~~l~~~l~~s~~~L~~~~~~~l~~la~f~~~~~i~~~~l~~l~~~~--------~~~~----~~~l~~L~  419 (591)
T 1z6t_A          352 RIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDME--------TEEV----EDILQEFV  419 (591)
T ss_dssp             CSSCCCSSCCHHHHHHHHHHHHTSCTTTHHHHHHGGGCCTTCCEEHHHHHHHHTCC--------HHHH----HHHHHHHH
T ss_pred             HhhhccccchHHHHHHHHHHHHhCCHHHHHHHHHccccCCCCccCHHHHHHHhccC--------HHHH----HHHHHHHH
Confidence                               2345688999999999999   679999999999754        2333    34555566


Q ss_pred             Hcccccc
Q 038110          408 ASCMLLD  414 (667)
Q Consensus       408 ~~~l~~~  414 (667)
                      .+++++.
T Consensus       420 ~~~Ll~~  426 (591)
T 1z6t_A          420 NKSLLFC  426 (591)
T ss_dssp             HTTSSEE
T ss_pred             hCcCeEE
Confidence            6899863

>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=99.79  E-value=1.6e-19  Score=187.54  Aligned_cols=200  Identities=17%  Similarity=0.196  Sum_probs=139.1

Q ss_pred             cccccceeEEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCC-CccCCccccC----
Q 038110          446 ESRVRHCTSIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMN-LLSLPSSIGL----  519 (667)
Q Consensus       446 ~~~~~~lr~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~-i~~lP~si~~----  519 (667)
                      ...++++++|++.+|.+..+|... .+++|++|++++|..  ..+|..+ +++++|++|+|++|. +..+|..++.    
T Consensus       100 l~~l~~L~~L~L~~n~l~~lp~~~~~l~~L~~L~Ls~n~l--~~lp~~l-~~l~~L~~L~L~~n~~~~~~p~~~~~~~~~  176 (328)
T 4fcg_A          100 AFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPL--RALPASI-ASLNRLRELSIRACPELTELPEPLASTDAS  176 (328)
T ss_dssp             GGGGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEESCCC--CCCCGGG-GGCTTCCEEEEEEETTCCCCCSCSEEEC-C
T ss_pred             hhhCCCCCEEECCCCCccchhHHHhccCCCCEEECCCCcc--ccCcHHH-hcCcCCCEEECCCCCCccccChhHhhccch
Confidence            344677888888888777776544 677888888887766  4677765 788888888888764 4467776654    


Q ss_pred             -----CCcccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecC-ccCCCccc
Q 038110          520 -----LTNLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGH-RWSRGFYR  592 (667)
Q Consensus       520 -----L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~-~~~~~~~~  592 (667)
                           +++|++|+|++ .+..+|       ..++++++|++|++++|.+..+|..+..+++|+.|++..+. ...++...
T Consensus       177 ~~~~~l~~L~~L~L~~n~l~~lp-------~~l~~l~~L~~L~L~~N~l~~l~~~l~~l~~L~~L~Ls~n~~~~~~p~~~  249 (328)
T 4fcg_A          177 GEHQGLVNLQSLRLEWTGIRSLP-------ASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIF  249 (328)
T ss_dssp             CCEEESTTCCEEEEEEECCCCCC-------GGGGGCTTCCEEEEESSCCCCCCGGGGGCTTCCEEECTTCTTCCBCCCCT
T ss_pred             hhhccCCCCCEEECcCCCcCcch-------HhhcCCCCCCEEEccCCCCCcCchhhccCCCCCEEECcCCcchhhhHHHh
Confidence                 77888888877 667777       77888888888888888887787777778888888776543 22233333


Q ss_pred             ccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCC
Q 038110          593 SSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       593 ~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~  659 (667)
                      .....++.+.|+.++.....+.....+++|+.|+|++|  ...+.+|+++  ..+++|+.+.+..+.
T Consensus       250 ~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~~n--~~~~~iP~~l--~~L~~L~~l~l~~~~  312 (328)
T 4fcg_A          250 GGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGC--VNLSRLPSLI--AQLPANCIILVPPHL  312 (328)
T ss_dssp             TCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEECTTC--TTCCCCCGGG--GGSCTTCEEECCGGG
T ss_pred             cCCCCCCEEECCCCCchhhcchhhhcCCCCCEEeCCCC--CchhhccHHH--hhccCceEEeCCHHH
Confidence            34455677777764444433322345578888888887  6667778887  778888888776543

>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=99.74  E-value=7.9e-18  Score=174.68  Aligned_cols=202  Identities=17%  Similarity=0.180  Sum_probs=171.0

Q ss_pred             ccceeEEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEe
Q 038110          449 VRHCTSIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLC  527 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~  527 (667)
                      ...++.|++.+|.+..+|... .+++|++|++++|..  ..+|..+ +++++|++|+|++|.+..+|..++++++|++|+
T Consensus        80 ~~~l~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~n~l--~~lp~~~-~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~  156 (328)
T 4fcg_A           80 QPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGL--MELPDTM-QQFAGLETLTLARNPLRALPASIASLNRLRELS  156 (328)
T ss_dssp             STTCCEEEEESSCCSSCCSCGGGGTTCSEEEEESSCC--CCCCSCG-GGGTTCSEEEEESCCCCCCCGGGGGCTTCCEEE
T ss_pred             ccceeEEEccCCCchhcChhhhhCCCCCEEECCCCCc--cchhHHH-hccCCCCEEECCCCccccCcHHHhcCcCCCEEE
Confidence            367899999999999988755 799999999999987  5889876 999999999999999999999999999999999


Q ss_pred             cCC--cccccCCCCccChhhhc---------CCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCccccccc
Q 038110          528 LYG--GVGVVDGVKNASLEELK---------HFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNK  596 (667)
Q Consensus       528 L~~--~l~~LP~~~~~~~~~l~---------~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~  596 (667)
                      +++  .++.+|       ..++         ++++|++|++++|.+..+|..+..+++|+.|++..+....++.......
T Consensus       157 L~~n~~~~~~p-------~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~N~l~~l~~~l~~l~  229 (328)
T 4fcg_A          157 IRACPELTELP-------EPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLP  229 (328)
T ss_dssp             EEEETTCCCCC-------SCSEEEC-CCCEEESTTCCEEEEEEECCCCCCGGGGGCTTCCEEEEESSCCCCCCGGGGGCT
T ss_pred             CCCCCCccccC-------hhHhhccchhhhccCCCCCEEECcCCCcCcchHhhcCCCCCCEEEccCCCCCcCchhhccCC
Confidence            998  677888       5554         4999999999999999999998999999999998776555544344456


Q ss_pred             ccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCCCeeE
Q 038110          597 SYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGPQFE  664 (667)
Q Consensus       597 ~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~l~~i  664 (667)
                      .++.+.+++++.....+.....+++|+.|+|++|  ...+.+|.++  ..+++|+.|+|++|+.+..+
T Consensus       230 ~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n--~~~~~~p~~~--~~l~~L~~L~L~~n~~~~~i  293 (328)
T 4fcg_A          230 KLEELDLRGCTALRNYPPIFGGRAPLKRLILKDC--SNLLTLPLDI--HRLTQLEKLDLRGCVNLSRL  293 (328)
T ss_dssp             TCCEEECTTCTTCCBCCCCTTCCCCCCEEECTTC--TTCCBCCTTG--GGCTTCCEEECTTCTTCCCC
T ss_pred             CCCEEECcCCcchhhhHHHhcCCCCCCEEECCCC--Cchhhcchhh--hcCCCCCEEeCCCCCchhhc
Confidence            7888888885555544433345689999999999  7778899999  89999999999999876654

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=99.69  E-value=1.5e-16  Score=161.88  Aligned_cols=198  Identities=16%  Similarity=0.153  Sum_probs=154.6

Q ss_pred             ccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEE
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTL  526 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L  526 (667)
                      ....+++.+.+.++.+..+|... .++++.|++++|..  ..++...|.++++|++|+|++|.++.+|.. +.+++|++|
T Consensus         7 ~~l~~l~~l~~~~~~l~~ip~~~-~~~l~~L~L~~N~l--~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-~~l~~L~~L   82 (290)
T 1p9a_G            7 SKVASHLEVNCDKRNLTALPPDL-PKDTTILHLSENLL--YTFSLATLMPYTRLTQLNLDRAELTKLQVD-GTLPVLGTL   82 (290)
T ss_dssp             ECSTTCCEEECTTSCCSSCCSCC-CTTCCEEECTTSCC--SEEEGGGGTTCTTCCEEECTTSCCCEEECC-SCCTTCCEE
T ss_pred             cccCCccEEECCCCCCCcCCCCC-CCCCCEEEcCCCcC--CccCHHHhhcCCCCCEEECCCCccCcccCC-CCCCcCCEE
Confidence            34567888888888888887654 37889999998887  456555568999999999999998888765 788899999


Q ss_pred             ecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCccCCCc-ccccccccceEEe
Q 038110          527 CLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHRWSRGF-YRSSNKSYRSFRI  603 (667)
Q Consensus       527 ~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~~~~~~-~~~~~~~l~~l~l  603 (667)
                      ++++ .+..+|       ..+..+++|++|++++|+++.+|.+ +..+++|+.|++..+.-..++. .......++.+.+
T Consensus        83 ~Ls~N~l~~l~-------~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  155 (290)
T 1p9a_G           83 DLSHNQLQSLP-------LLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSL  155 (290)
T ss_dssp             ECCSSCCSSCC-------CCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             ECCCCcCCcCc-------hhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCCCCccChhhcccccCCCEEEC
Confidence            9988 788888       7788889999999999998888865 6688889988877554333322 1233456777888


Q ss_pred             ecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          604 DLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       604 ~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      +.+.....+......+++|+.|+|++|   .+..+|..+  ..+++|+.|++++|+-
T Consensus       156 ~~N~l~~l~~~~~~~l~~L~~L~L~~N---~l~~ip~~~--~~~~~L~~l~L~~Np~  207 (290)
T 1p9a_G          156 ANNNLTELPAGLLNGLENLDTLLLQEN---SLYTIPKGF--FGSHLLPFAFLHGNPW  207 (290)
T ss_dssp             TTSCCSCCCTTTTTTCTTCCEEECCSS---CCCCCCTTT--TTTCCCSEEECCSCCB
T ss_pred             CCCcCCccCHHHhcCcCCCCEEECCCC---cCCccChhh--cccccCCeEEeCCCCc
Confidence            777666666555556689999999999   677899988  7788999999999874

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

Probab=99.66  E-value=5.7e-16  Score=156.03  Aligned_cols=174  Identities=21%  Similarity=0.287  Sum_probs=101.1

Q ss_pred             cceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCcccEE
Q 038110          450 RHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNLHTL  526 (667)
Q Consensus       450 ~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L~~L  526 (667)
                      .+++.|++.+|.+..++.  ...+++|++|++++|..  ..+|..+|.++++|++|+|++|.+..+|.. +..+.+|++|
T Consensus        37 ~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l--~~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L  114 (270)
T 2o6q_A           37 ADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKL--QTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAEL  114 (270)
T ss_dssp             TTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSCC--SCCCTTTTSSCTTCCEEECCSSCCCCCCTTTTTTCSSCCEE
T ss_pred             CCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCcc--CeeChhhhcCCCCCCEEECCCCcCCcCCHhHcccccCCCEE
Confidence            456666666666655553  22566666666666655  456655556666666666666666665543 4566666666


Q ss_pred             ecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCccCCCcccccccccceEEee
Q 038110          527 CLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRID  604 (667)
Q Consensus       527 ~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~  604 (667)
                      ++++ .+..+|.      ..++++++|++|++++|.+..+|.. +..+++|+.|++..+.                    
T Consensus       115 ~l~~n~l~~~~~------~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~--------------------  168 (270)
T 2o6q_A          115 RLDRNQLKSLPP------RVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQ--------------------  168 (270)
T ss_dssp             ECCSSCCCCCCT------TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC--------------------
T ss_pred             ECCCCccCeeCH------HHhCcCcCCCEEECCCCcCCccCHhHccCCcccceeEecCCc--------------------
Confidence            6666 5555542      3456666666666666666666654 3456666666554332                    


Q ss_pred             cCccccchHHHHHHhhhcceeeccccccccccccchh-hhhccCCCccEEEeecCC
Q 038110          605 LDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNE-LVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       605 ~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~-l~~~~l~~L~~L~l~~~~  659 (667)
                         .....+.....+++|+.|+|++|   .+..+|.. +  ..+++|+.|++++|+
T Consensus       169 ---l~~~~~~~~~~l~~L~~L~L~~N---~l~~~~~~~~--~~l~~L~~L~l~~N~  216 (270)
T 2o6q_A          169 ---LKRVPEGAFDKLTELKTLKLDNN---QLKRVPEGAF--DSLEKLKMLQLQENP  216 (270)
T ss_dssp             ---CSCCCTTTTTTCTTCCEEECCSS---CCSCCCTTTT--TTCTTCCEEECCSSC
T ss_pred             ---CcEeChhHhccCCCcCEEECCCC---cCCcCCHHHh--ccccCCCEEEecCCC
Confidence               22222221223457777777777   44445543 4  566777777777765

>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=99.66  E-value=4.4e-16  Score=158.19  Aligned_cols=201  Identities=17%  Similarity=0.162  Sum_probs=159.0

Q ss_pred             ccccceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCC-CccC-CccccCCCc
Q 038110          447 SRVRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMN-LLSL-PSSIGLLTN  522 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~-i~~l-P~si~~L~~  522 (667)
                      ..++++++|++.+|.+..++..  ..+++|++|++++|..  ..++...|.++++|++|+|++|. +..+ |..++.+++
T Consensus        29 ~~~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l--~~~~~~~~~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~  106 (285)
T 1ozn_A           29 GIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVL--ARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGR  106 (285)
T ss_dssp             TCCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCC--CEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTT
T ss_pred             CCCCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCcc--ceeCHhhcCCccCCCEEeCCCCCCccccCHHHhcCCcC
Confidence            3467999999999999888753  3789999999999977  45644445999999999999997 8887 778999999


Q ss_pred             ccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCccCCCc-ccccccccc
Q 038110          523 LHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHRWSRGF-YRSSNKSYR  599 (667)
Q Consensus       523 L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~~~~~~-~~~~~~~l~  599 (667)
                      |++|++++ .+..+|.      ..+.++++|++|++++|.+..+|.. +..+++|+.|++..+.-..++. .......++
T Consensus       107 L~~L~l~~n~l~~~~~------~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~  180 (285)
T 1ozn_A          107 LHTLHLDRCGLQELGP------GLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLD  180 (285)
T ss_dssp             CCEEECTTSCCCCCCT------TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCC
T ss_pred             CCEEECCCCcCCEECH------hHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCcccccCHHHhcCccccC
Confidence            99999999 7777742      6789999999999999999999876 6789999999887654333322 123345678


Q ss_pred             eEEeecCccccchHHHHHHhhhcceeeccccccccccccch-hhhhccCCCccEEEeecCCC
Q 038110          600 SFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVN-ELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       600 ~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~-~l~~~~l~~L~~L~l~~~~~  660 (667)
                      .+.++++......+.....+++|+.|+|++|   .+..+|. .+  ..+++|+.|++++|+-
T Consensus       181 ~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n---~l~~~~~~~~--~~l~~L~~L~l~~N~~  237 (285)
T 1ozn_A          181 RLLLHQNRVAHVHPHAFRDLGRLMTLYLFAN---NLSALPTEAL--APLRALQYLRLNDNPW  237 (285)
T ss_dssp             EEECCSSCCCEECTTTTTTCTTCCEEECCSS---CCSCCCHHHH--TTCTTCCEEECCSSCE
T ss_pred             EEECCCCcccccCHhHccCcccccEeeCCCC---cCCcCCHHHc--ccCcccCEEeccCCCc
Confidence            8888886665554444445689999999999   5555654 46  8899999999999963

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

Probab=99.66  E-value=1.4e-16  Score=164.05  Aligned_cols=197  Identities=14%  Similarity=0.153  Sum_probs=118.3

Q ss_pred             cceeEEEEeccCcc---ccCCCC-CCCCccEEEccC-CCCccccccHHHHhCCCCCcEEEcCCCCCc-cCCccccCCCcc
Q 038110          450 RHCTSIVILDVKTY---VLPEVM-ECPQLKLFSMPA-EKNSFFAIPHNLFRSMLQVRVLDLTDMNLL-SLPSSIGLLTNL  523 (667)
Q Consensus       450 ~~lr~L~l~~~~~~---~l~~~~-~~~~Lr~L~l~~-~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-~lP~si~~L~~L  523 (667)
                      .+++.|++.+|.+.   .+|... .+++|++|++++ |... ..+|..+ +++++|++|+|++|.+. .+|..++++++|
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 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLV-GPIPPAI-AKLTQLHYLYITHTNVSGAIPDFLSQIKTL  127 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEE-SCCCGGG-GGCTTCSEEEEEEECCEEECCGGGGGCTTC
T ss_pred             ceEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCccc-ccCChhH-hcCCCCCEEECcCCeeCCcCCHHHhCCCCC
Confidence            46777777777664   344433 567777777764 5543 4566654 67777777777777766 667777777777


Q ss_pred             cEEecCC-ccc-ccCCCCccChhhhcCCCCCCeEEeecCCCC-CCCCCCcCCC-CCCeeEEEecCcc-CCC---------
Q 038110          524 HTLCLYG-GVG-VVDGVKNASLEELKHFPNLTSLELEVNDAN-TLPRGGLFFE-KPERYKILTGHRW-SRG---------  589 (667)
Q Consensus       524 ~~L~L~~-~l~-~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~-~lP~~~~~l~-~L~~l~~~~~~~~-~~~---------  589 (667)
                      ++|+|++ .+. .+|       ..++++++|++|++++|.+. .+|..+..+. +|+.|++..+... .++         
T Consensus       128 ~~L~Ls~N~l~~~~p-------~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~~~~l~L~  200 (313)
T 1ogq_A          128 VTLDFSYNALSGTLP-------PSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLA  200 (313)
T ss_dssp             CEEECCSSEEESCCC-------GGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCS
T ss_pred             CEEeCCCCccCCcCC-------hHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeeccCChHHhCCccc
Confidence            7777776 444 566       66666667777777666665 5666655555 6666655533211 111         


Q ss_pred             --------------cccccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEe
Q 038110          590 --------------FYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQI  655 (667)
Q Consensus       590 --------------~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l  655 (667)
                                    ........++.+.++.+......+. ...+++|++|+|++|  .-.+.+|.++  ..+++|+.|++
T Consensus       201 ~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~-~~~l~~L~~L~Ls~N--~l~~~~p~~l--~~l~~L~~L~L  275 (313)
T 1ogq_A          201 FVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGK-VGLSKNLNGLDLRNN--RIYGTLPQGL--TQLKFLHSLNV  275 (313)
T ss_dssp             EEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGG-CCCCTTCCEEECCSS--CCEECCCGGG--GGCTTCCEEEC
T ss_pred             EEECcCCcccCcCCHHHhcCCCCCEEECCCCceeeecCc-ccccCCCCEEECcCC--cccCcCChHH--hcCcCCCEEEC
Confidence                          1112233444555554433322222 223467777777777  3334677777  77888888888


Q ss_pred             ecCCC
Q 038110          656 EGYRG  660 (667)
Q Consensus       656 ~~~~~  660 (667)
                      ++|+-
T Consensus       276 s~N~l  280 (313)
T 1ogq_A          276 SFNNL  280 (313)
T ss_dssp             CSSEE
T ss_pred             cCCcc
Confidence            88754

>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=99.66  E-value=6.9e-16  Score=158.54  Aligned_cols=191  Identities=14%  Similarity=0.141  Sum_probs=148.2

Q ss_pred             ccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEE
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTL  526 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L  526 (667)
                      ..+++++.|++.+|.+..++....+++|++|++++|..  ..++.  |.++++|++|+|++|.+..+| .++.+.+|++|
T Consensus        38 ~~l~~L~~L~l~~~~i~~l~~~~~l~~L~~L~L~~n~i--~~~~~--~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~~L  112 (308)
T 1h6u_A           38 ADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQI--TDLAP--LKNLTKITELELSGNPLKNVS-AIAGLQSIKTL  112 (308)
T ss_dssp             HHHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCC--CCCGG--GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEE
T ss_pred             HHcCCcCEEEeeCCCccCchhhhccCCCCEEEccCCcC--CCChh--HccCCCCCEEEccCCcCCCch-hhcCCCCCCEE
Confidence            34568889999988888887666889999999998876  56766  489999999999999988876 68889999999


Q ss_pred             ecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeec
Q 038110          527 CLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDL  605 (667)
Q Consensus       527 ~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~  605 (667)
                      ++++ .+..+|       . +.++++|++|++++|.+..+|. +..+++|+.|++..+.-..++. ......++.+.++.
T Consensus       113 ~l~~n~l~~~~-------~-l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~  182 (308)
T 1h6u_A          113 DLTSTQITDVT-------P-LAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGNAQVSDLTP-LANLSKLTTLKADD  182 (308)
T ss_dssp             ECTTSCCCCCG-------G-GTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCS
T ss_pred             ECCCCCCCCch-------h-hcCCCCCCEEECCCCccCcCcc-ccCCCCccEEEccCCcCCCChh-hcCCCCCCEEECCC
Confidence            9988 777777       3 8889999999999998888876 5788889999887554333333 23345577777777


Q ss_pred             CccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          606 DANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       606 ~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      +.......  ...+++|+.|+|++|   .+..+++ +  ..+++|+.|++++|+-
T Consensus       183 n~l~~~~~--l~~l~~L~~L~L~~N---~l~~~~~-l--~~l~~L~~L~l~~N~i  229 (308)
T 1h6u_A          183 NKISDISP--LASLPNLIEVHLKNN---QISDVSP-L--ANTSNLFIVTLTNQTI  229 (308)
T ss_dssp             SCCCCCGG--GGGCTTCCEEECTTS---CCCBCGG-G--TTCTTCCEEEEEEEEE
T ss_pred             CccCcChh--hcCCCCCCEEEccCC---ccCcccc-c--cCCCCCCEEEccCCee
Confidence            65554443  345579999999999   5555653 6  7899999999998863

>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=99.65  E-value=8.7e-16  Score=161.09  Aligned_cols=202  Identities=18%  Similarity=0.133  Sum_probs=154.1

Q ss_pred             cccceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCccc
Q 038110          448 RVRHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNLH  524 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L~  524 (667)
                      ..++++.|++.+|.+..++.  ...+++|++|++++|..  ..++...|.++++|++|+|++|.++.+|.. ++++++|+
T Consensus        50 ~~~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~  127 (353)
T 2z80_A           50 LTEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGI--NTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLT  127 (353)
T ss_dssp             CCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCC--CEECTTTTTTCTTCCEEECCSSCCSSCCHHHHTTCTTCS
T ss_pred             ccccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCcc--CccCHhhcCCCCCCCEEECCCCcCCcCCHhHhCCCccCC
Confidence            34689999999999988876  34799999999999977  556555569999999999999999999877 89999999


Q ss_pred             EEecCC-cccccCCCCccChh--hhcCCCCCCeEEeecC-CCCCCCC-CCcCCCCCCeeEEEecCccCC-Cccccccccc
Q 038110          525 TLCLYG-GVGVVDGVKNASLE--ELKHFPNLTSLELEVN-DANTLPR-GGLFFEKPERYKILTGHRWSR-GFYRSSNKSY  598 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~--~l~~L~~L~~L~l~~~-~l~~lP~-~~~~l~~L~~l~~~~~~~~~~-~~~~~~~~~l  598 (667)
                      +|++++ .+..+|       .  .++++++|++|++++| .+..+|. .+..+++|+.|++..+.-..+ +........+
T Consensus       128 ~L~L~~n~l~~l~-------~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L  200 (353)
T 2z80_A          128 FLNLLGNPYKTLG-------ETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNV  200 (353)
T ss_dssp             EEECTTCCCSSSC-------SSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEE
T ss_pred             EEECCCCCCcccC-------chhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCccCHHHHhccccC
Confidence            999999 788888       5  6889999999999998 4777765 467888999998886653222 2222334567


Q ss_pred             ceEEeecCccccchHHHHHHhhhcceeecccccccc-----------------------------ccccchhhhhccCCC
Q 038110          599 RSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQD-----------------------------IKNFVNELVKVGSSQ  649 (667)
Q Consensus       599 ~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~-----------------------------~~~~~~~l~~~~l~~  649 (667)
                      +.+.++.+.....+......+++|+.|+|++|.-.+                             ...+|+++  ..+++
T Consensus       201 ~~L~l~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~~l~~~l--~~l~~  278 (353)
T 2z80_A          201 SHLILHMKQHILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLL--NQISG  278 (353)
T ss_dssp             EEEEEECSCSTTHHHHHHHHTTTEEEEEEESCBCTTCCCC------CCCCCCEEEEESCBCCHHHHHHHHHHH--HTCTT
T ss_pred             CeecCCCCccccchhhhhhhcccccEEECCCCccccccccccccccccchhhccccccccccCcchhhhHHHH--hcccC
Confidence            777787766656666666667899999998882111                             01255666  67888


Q ss_pred             ccEEEeecCCC
Q 038110          650 LKYLQIEGYRG  660 (667)
Q Consensus       650 L~~L~l~~~~~  660 (667)
                      |+.|++++|.-
T Consensus       279 L~~L~Ls~N~l  289 (353)
T 2z80_A          279 LLELEFSRNQL  289 (353)
T ss_dssp             CCEEECCSSCC
T ss_pred             CCEEECCCCCC
Confidence            88888888753

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

Probab=99.64  E-value=2.6e-16  Score=162.15  Aligned_cols=198  Identities=8%  Similarity=0.041  Sum_probs=114.9

Q ss_pred             cccceeEEEEeccCcc-ccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCc-cCCccccCCC-cc
Q 038110          448 RVRHCTSIVILDVKTY-VLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLL-SLPSSIGLLT-NL  523 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~-~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-~lP~si~~L~-~L  523 (667)
                      .++++++|++.+|.+. .+|... .+++|++|++++|... ..+|..+ .++++|++|+|++|.+. .+|..++.+. +|
T Consensus        99 ~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~-~~~p~~~-~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L  176 (313)
T 1ogq_A           99 KLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALS-GTLPPSI-SSLPNLVGITFDGNRISGAIPDSYGSFSKLF  176 (313)
T ss_dssp             GCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEE-SCCCGGG-GGCTTCCEEECCSSCCEEECCGGGGCCCTTC
T ss_pred             cCCCCCEEECcCCeeCCcCCHHHhCCCCCCEEeCCCCccC-CcCChHH-hcCCCCCeEECcCCcccCcCCHHHhhhhhcC
Confidence            3444555555554443 333322 4455555555555443 3444443 55555555555555554 4555555554 55


Q ss_pred             cEEecCC-ccc-ccCCCCccChhhhcCCCCCCeEEeecCCCCC-CCCCCcCCCCCCeeEEEecCccCCCcccccccccce
Q 038110          524 HTLCLYG-GVG-VVDGVKNASLEELKHFPNLTSLELEVNDANT-LPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRS  600 (667)
Q Consensus       524 ~~L~L~~-~l~-~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~-lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~  600 (667)
                      ++|++++ .+. .+|       ..++.++ |++|++++|.+.. +|..+..+++|+.|++..+..............++.
T Consensus       177 ~~L~L~~N~l~~~~~-------~~~~~l~-L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~l~~L~~  248 (313)
T 1ogq_A          177 TSMTISRNRLTGKIP-------PTFANLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNG  248 (313)
T ss_dssp             CEEECCSSEEEEECC-------GGGGGCC-CSEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCE
T ss_pred             cEEECcCCeeeccCC-------hHHhCCc-ccEEECcCCcccCcCCHHHhcCCCCCEEECCCCceeeecCcccccCCCCE
Confidence            5555555 333 344       5566665 6666666666543 344466788888887765543222112234466888


Q ss_pred             EEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          601 FRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       601 l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      +.++.+......+.....+++|+.|+|++|  .-.+.+|. .  ..+++|+.|++++|+.
T Consensus       249 L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N--~l~~~ip~-~--~~l~~L~~l~l~~N~~  303 (313)
T 1ogq_A          249 LDLRNNRIYGTLPQGLTQLKFLHSLNVSFN--NLCGEIPQ-G--GNLQRFDVSAYANNKC  303 (313)
T ss_dssp             EECCSSCCEECCCGGGGGCTTCCEEECCSS--EEEEECCC-S--TTGGGSCGGGTCSSSE
T ss_pred             EECcCCcccCcCChHHhcCcCCCEEECcCC--cccccCCC-C--ccccccChHHhcCCCC
Confidence            888886665343333455689999999999  44445665 3  6789999999999974

>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=99.63  E-value=1e-15  Score=166.28  Aligned_cols=204  Identities=15%  Similarity=0.127  Sum_probs=110.4

Q ss_pred             ccceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCcccE
Q 038110          449 VRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNLHT  525 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L~~  525 (667)
                      +.+++.|++.+|++..++..  ..+++|++|++++|..  ..++...|.++++|++|+|++|.++.+|.. ++.+++|++
T Consensus        74 ~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i--~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  151 (452)
T 3zyi_A           74 PSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSI--RQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRE  151 (452)
T ss_dssp             CTTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCC--CEECTTTTTTCTTCCEEECCSSCCSBCCTTTSSSCTTCCE
T ss_pred             CCCccEEECcCCcCceECHHHcCCCCCCCEEECCCCcc--CCcChhhccCcccCCEEECCCCcCCccChhhhcccCCCCE
Confidence            35666667766666555332  2566666666666655  344444446666666666666666666543 556666666


Q ss_pred             EecCC-cccccCCCC--------------cc-----ChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCc
Q 038110          526 LCLYG-GVGVVDGVK--------------NA-----SLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHR  585 (667)
Q Consensus       526 L~L~~-~l~~LP~~~--------------~~-----~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~  585 (667)
                      |+|++ .+..+|...              +.     ....+.++++|++|++++|++..+|. +..+++|+.|++..+..
T Consensus       152 L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~Ls~N~l  230 (452)
T 3zyi_A          152 LWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPN-LTPLVGLEELEMSGNHF  230 (452)
T ss_dssp             EECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSCCC-CTTCTTCCEEECTTSCC
T ss_pred             EECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCccccccc-ccccccccEEECcCCcC
Confidence            66666 455554200              00     00234555666666666666555553 34555666665543332


Q ss_pred             cCC-CcccccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCC
Q 038110          586 WSR-GFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       586 ~~~-~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~  659 (667)
                      ..+ +........++.+.++++......+.....+++|+.|+|++|   .+..+|.... ..+++|+.|+|++|+
T Consensus       231 ~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N---~l~~~~~~~~-~~l~~L~~L~L~~Np  301 (452)
T 3zyi_A          231 PEIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHN---NLSSLPHDLF-TPLRYLVELHLHHNP  301 (452)
T ss_dssp             SEECGGGGTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS---CCSCCCTTSS-TTCTTCCEEECCSSC
T ss_pred             cccCcccccCccCCCEEEeCCCcCceECHHHhcCCCCCCEEECCCC---cCCccChHHh-ccccCCCEEEccCCC
Confidence            211 111222344555666554444443333344567777777777   4444554321 567777788777775

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

Probab=99.63  E-value=9.3e-16  Score=165.96  Aligned_cols=204  Identities=13%  Similarity=0.151  Sum_probs=117.5

Q ss_pred             ccceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCcccE
Q 038110          449 VRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLHT  525 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~~  525 (667)
                      ..+++.|++.+|.+..++..  ..+++|++|++++|..  ..++...|.++++|++|+|++|.++.+|. .+..+.+|++
T Consensus        63 ~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i--~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  140 (440)
T 3zyj_A           63 STNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHI--RTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKE  140 (440)
T ss_dssp             CTTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSCC--CEECGGGGTTCSSCCEEECCSSCCSSCCTTTSCSCSSCCE
T ss_pred             CCCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCcC--CccChhhccCCccCCEEECCCCcCCeeCHhHhhccccCce
Confidence            45677777777776655432  2667777777777765  45555555777777777777777776655 4667777777


Q ss_pred             EecCC-cccccCCC--------------Ccc-----ChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCc
Q 038110          526 LCLYG-GVGVVDGV--------------KNA-----SLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHR  585 (667)
Q Consensus       526 L~L~~-~l~~LP~~--------------~~~-----~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~  585 (667)
                      |+|++ .+..+|..              .+.     ....|.++++|++|++++|.+..+|. +..+++|+.|++..+.-
T Consensus       141 L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~Ls~N~l  219 (440)
T 3zyj_A          141 LWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPN-LTPLIKLDELDLSGNHL  219 (440)
T ss_dssp             EECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCSSCCC-CTTCSSCCEEECTTSCC
T ss_pred             eeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCccccc-cCCCcccCEEECCCCcc
Confidence            77766 45555420              000     01235556666666666666666653 35556666665553332


Q ss_pred             cCC-CcccccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCC
Q 038110          586 WSR-GFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       586 ~~~-~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~  659 (667)
                      ..+ +........++.+.++.+............+++|+.|+|++|   .+..+|.... ..+++|+.|+|++|+
T Consensus       220 ~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N---~l~~~~~~~~-~~l~~L~~L~L~~Np  290 (440)
T 3zyj_A          220 SAIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHN---NLTLLPHDLF-TPLHHLERIHLHHNP  290 (440)
T ss_dssp             CEECTTTTTTCTTCCEEECTTCCCCEECTTSSTTCTTCCEEECTTS---CCCCCCTTTT-SSCTTCCEEECCSSC
T ss_pred             CccChhhhccCccCCEEECCCCceeEEChhhhcCCCCCCEEECCCC---CCCccChhHh-ccccCCCEEEcCCCC
Confidence            211 111223344556666655444443333344567777777777   4444554322 667888888888776

>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=99.63  E-value=5.8e-16  Score=152.94  Aligned_cols=201  Identities=12%  Similarity=0.139  Sum_probs=156.5

Q ss_pred             cCCCccccccceeEEEEeccCccccCCC--CCCCCccEEEccCCC-CccccccHHHHhCCCCCcEEEcCC-CCCccCCc-
Q 038110          441 WEWSDESRVRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEK-NSFFAIPHNLFRSMLQVRVLDLTD-MNLLSLPS-  515 (667)
Q Consensus       441 ~~~~~~~~~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~-~~~~~lp~~~~~~l~~Lr~L~L~~-~~i~~lP~-  515 (667)
                      ..+|.  .+.+++.|.+.+|.+..++..  ..+++|++|++++|. .  ..+|...|.++++|++|+|++ |.++.+|. 
T Consensus        24 ~~ip~--~~~~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l--~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~   99 (239)
T 2xwt_C           24 QRIPS--LPPSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTL--QQLESHSFYNLSKVTHIEIRNTRNLTYIDPD   99 (239)
T ss_dssp             SSCCC--CCTTCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSC--CEECTTTEESCTTCCEEEEEEETTCCEECTT
T ss_pred             cccCC--CCCcccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCc--ceeCHhHcCCCcCCcEEECCCCCCeeEcCHH
Confidence            35555  566899999999999888763  379999999999997 5  678876679999999999998 99998874 


Q ss_pred             cccCCCcccEEecCC-cccccCCCCccChhhhcCCCCCC---eEEeecC-CCCCCCCC-CcCCCCCC-eeEEEecCccCC
Q 038110          516 SIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHFPNLT---SLELEVN-DANTLPRG-GLFFEKPE-RYKILTGHRWSR  588 (667)
Q Consensus       516 si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~---~L~l~~~-~l~~lP~~-~~~l~~L~-~l~~~~~~~~~~  588 (667)
                      .++++++|++|++++ .+..+|       . ++.+++|+   +|++++| .+..+|.. +..+++|+ .|++..+.-..+
T Consensus       100 ~f~~l~~L~~L~l~~n~l~~lp-------~-~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~~i  171 (239)
T 2xwt_C          100 ALKELPLLKFLGIFNTGLKMFP-------D-LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSV  171 (239)
T ss_dssp             SEECCTTCCEEEEEEECCCSCC-------C-CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCCEE
T ss_pred             HhCCCCCCCEEeCCCCCCcccc-------c-cccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCCCccc
Confidence            689999999999999 888898       5 88888888   9999999 89999986 66888999 998765543333


Q ss_pred             CcccccccccceEEeecC-ccccchHHHHHHh-hhcceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          589 GFYRSSNKSYRSFRIDLD-ANVRLKDRLVVQL-RGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       589 ~~~~~~~~~l~~l~l~~~-~~~~~~~~~~~~l-~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      +........++.+.++.+ .....++.....+ ++|+.|+|++|   .+..+|..    .+++|+.|++.++..
T Consensus       172 ~~~~~~~~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~~N---~l~~l~~~----~~~~L~~L~l~~~~~  238 (239)
T 2xwt_C          172 QGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQT---SVTALPSK----GLEHLKELIARNTWT  238 (239)
T ss_dssp             CTTTTTTCEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECTTC---CCCCCCCT----TCTTCSEEECTTC--
T ss_pred             CHhhcCCCCCCEEEcCCCCCcccCCHHHhhccccCCcEEECCCC---ccccCChh----HhccCceeeccCccC
Confidence            321111245666777766 3555555555566 89999999999   55566654    489999999998865

>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=99.62  E-value=1.3e-15  Score=156.29  Aligned_cols=177  Identities=14%  Similarity=0.066  Sum_probs=110.6

Q ss_pred             cccceeEEEEeccCccccCCC--CCCCCccEEEccCCCCcc-ccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCccc
Q 038110          448 RVRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSF-FAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLH  524 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~-~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~  524 (667)
                      .++++++|++.+|.+..+|..  ..+++|++|++++|.... ...|..+ ..+++|++|+|++|.+..+|..+..+++|+
T Consensus        26 ~~~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~-~~~~~L~~L~Ls~n~i~~l~~~~~~l~~L~  104 (306)
T 2z66_A           26 IPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSD-FGTTSLKYLDLSFNGVITMSSNFLGLEQLE  104 (306)
T ss_dssp             CCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHH-HSCSCCCEEECCSCSEEEEEEEEETCTTCC
T ss_pred             CCCCCCEEECCCCccCccCHhHhhccccCCEEECCCCccCcccCccccc-ccccccCEEECCCCccccChhhcCCCCCCC
Confidence            446899999999999888874  378999999999987631 1225555 679999999999999999998899999999


Q ss_pred             EEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCccC--CCcccccccccce
Q 038110          525 TLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHRWS--RGFYRSSNKSYRS  600 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~~~--~~~~~~~~~~l~~  600 (667)
                      +|++++ .+..+|.     ...+.++++|++|++++|.+..++.. +..+++|+.|++..+....  ++........++.
T Consensus       105 ~L~l~~n~l~~~~~-----~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~  179 (306)
T 2z66_A          105 HLDFQHSNLKQMSE-----FSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTF  179 (306)
T ss_dssp             EEECTTSEEESSTT-----TTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCE
T ss_pred             EEECCCCccccccc-----chhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCCCccccccchhHHhhCcCCCE
Confidence            999988 6666651     02456666666666666665544333 4455666666554332111  1222222333444


Q ss_pred             EEeecCccccchHHHHHHhhhcceeecccc
Q 038110          601 FRIDLDANVRLKDRLVVQLRGIEELSLAGL  630 (667)
Q Consensus       601 l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~  630 (667)
                      +.++.+......+.....+++|+.|+|++|
T Consensus       180 L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N  209 (306)
T 2z66_A          180 LDLSQCQLEQLSPTAFNSLSSLQVLNMSHN  209 (306)
T ss_dssp             EECTTSCCCEECTTTTTTCTTCCEEECTTS
T ss_pred             EECCCCCcCCcCHHHhcCCCCCCEEECCCC
Confidence            445443333332222223345555555555

>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=1.7e-15  Score=158.94  Aligned_cols=203  Identities=12%  Similarity=0.133  Sum_probs=154.1

Q ss_pred             cccccceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc--cccCCC
Q 038110          446 ESRVRHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS--SIGLLT  521 (667)
Q Consensus       446 ~~~~~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~--si~~L~  521 (667)
                      ....++++.|++.+|.+..++.  ...+++|++|++++|..  ..+|...|+++++|++|+|++|.++.+|.  .+++++
T Consensus        72 ~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l--~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~  149 (353)
T 2z80_A           72 LQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYL--SNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLT  149 (353)
T ss_dssp             TTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCC--SSCCHHHHTTCTTCSEEECTTCCCSSSCSSCSCTTCT
T ss_pred             hccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcC--CcCCHhHhCCCccCCEEECCCCCCcccCchhhhccCC
Confidence            4567899999999999987754  33789999999999987  67888877999999999999999999987  789999


Q ss_pred             cccEEecCC--cccccCCCCccChhhhcCCCCCCeEEeecCCCCCC-CCCCcCCCCCCeeEEEecCccCCCc-ccccccc
Q 038110          522 NLHTLCLYG--GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTL-PRGGLFFEKPERYKILTGHRWSRGF-YRSSNKS  597 (667)
Q Consensus       522 ~L~~L~L~~--~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~l-P~~~~~l~~L~~l~~~~~~~~~~~~-~~~~~~~  597 (667)
                      +|++|++++  .+..+|.      ..++++++|++|++++|.+..+ |..+..+++|+.|++..+....++. .......
T Consensus       150 ~L~~L~l~~n~~~~~~~~------~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~  223 (353)
T 2z80_A          150 KLQILRVGNMDTFTKIQR------KDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSS  223 (353)
T ss_dssp             TCCEEEEEESSSCCEECT------TTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSCSTTHHHHHHHHTTT
T ss_pred             CCcEEECCCCccccccCH------HHccCCCCCCEEECCCCCcCccCHHHHhccccCCeecCCCCccccchhhhhhhccc
Confidence            999999998  4777752      6788899999999999988776 5567778888888877554322221 1112344


Q ss_pred             cceEEeecCccccc-------------------------------hHHHHHHhhhcceeeccccccccccccchhhhhcc
Q 038110          598 YRSFRIDLDANVRL-------------------------------KDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVG  646 (667)
Q Consensus       598 l~~l~l~~~~~~~~-------------------------------~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~  646 (667)
                      ++.+.++.+.....                               .+.....+++|+.|+|++|   .+..+|..+. ..
T Consensus       224 L~~L~L~~n~l~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~~l~~~l~~l~~L~~L~Ls~N---~l~~i~~~~~-~~  299 (353)
T 2z80_A          224 VECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRN---QLKSVPDGIF-DR  299 (353)
T ss_dssp             EEEEEEESCBCTTCCCC------CCCCCCEEEEESCBCCHHHHHHHHHHHHTCTTCCEEECCSS---CCCCCCTTTT-TT
T ss_pred             ccEEECCCCccccccccccccccccchhhccccccccccCcchhhhHHHHhcccCCCEEECCCC---CCCccCHHHH-hc
Confidence            55555555332221                               1122344579999999999   6667887742 78


Q ss_pred             CCCccEEEeecCCC
Q 038110          647 SSQLKYLQIEGYRG  660 (667)
Q Consensus       647 l~~L~~L~l~~~~~  660 (667)
                      +++|+.|++++|+-
T Consensus       300 l~~L~~L~L~~N~~  313 (353)
T 2z80_A          300 LTSLQKIWLHTNPW  313 (353)
T ss_dssp             CTTCCEEECCSSCB
T ss_pred             CCCCCEEEeeCCCc
Confidence            99999999999974

>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=99.62  E-value=1.9e-15  Score=164.14  Aligned_cols=195  Identities=14%  Similarity=0.093  Sum_probs=131.6

Q ss_pred             eeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCC-ccccCCCcccEEecCC
Q 038110          452 CTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLP-SSIGLLTNLHTLCLYG  530 (667)
Q Consensus       452 lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP-~si~~L~~L~~L~L~~  530 (667)
                      .+.+...++.+..+|... .++|++|++++|..  ..++...|.++++|++|+|++|.+..+| ..++++.+|++|+|++
T Consensus        56 ~~~v~c~~~~l~~iP~~~-~~~l~~L~L~~n~i--~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~  132 (452)
T 3zyi_A           56 FSKVVCTRRGLSEVPQGI-PSNTRYLNLMENNI--QMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFD  132 (452)
T ss_dssp             SCEEECCSSCCSSCCSCC-CTTCSEEECCSSCC--CEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CcEEEECCCCcCccCCCC-CCCccEEECcCCcC--ceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCC
Confidence            456777777888888644 47999999999987  5565555699999999999999999775 6799999999999999


Q ss_pred             -cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCc-cCCCc-cccccc----------
Q 038110          531 -GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHR-WSRGF-YRSSNK----------  596 (667)
Q Consensus       531 -~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~-~~~~~-~~~~~~----------  596 (667)
                       .+..+|.      ..++++++|++|++++|.+..+|.. +..+++|+.|++..++. ..++. ......          
T Consensus       133 n~l~~~~~------~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n  206 (452)
T 3zyi_A          133 NWLTVIPS------GAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMC  206 (452)
T ss_dssp             SCCSBCCT------TTSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTS
T ss_pred             CcCCccCh------hhhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCC
Confidence             8888883      4488899999999999988888874 45677777776654221 11110 011122          


Q ss_pred             ------------ccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCC
Q 038110          597 ------------SYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       597 ------------~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~  659 (667)
                                  .++.|.|+++......+.....+++|+.|+|++|  .-....+..+  ..+++|+.|+|++|.
T Consensus       207 ~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n--~l~~~~~~~~--~~l~~L~~L~L~~N~  277 (452)
T 3zyi_A          207 NIKDMPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNS--QVSLIERNAF--DGLASLVELNLAHNN  277 (452)
T ss_dssp             CCSSCCCCTTCTTCCEEECTTSCCSEECGGGGTTCTTCCEEECTTS--CCCEECTTTT--TTCTTCCEEECCSSC
T ss_pred             cccccccccccccccEEECcCCcCcccCcccccCccCCCEEEeCCC--cCceECHHHh--cCCCCCCEEECCCCc
Confidence                        3444444444433333333334456666666666  2222224445  667777777777764

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

Probab=99.61  E-value=2.4e-15  Score=162.68  Aligned_cols=122  Identities=16%  Similarity=0.244  Sum_probs=100.7

Q ss_pred             eeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCC-ccccCCCcccEEecCC
Q 038110          452 CTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLP-SSIGLLTNLHTLCLYG  530 (667)
Q Consensus       452 lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP-~si~~L~~L~~L~L~~  530 (667)
                      .+.+...++.+..+|... .++++.|++++|..  ..++...|.++++|++|+|++|.+..++ ..+.++.+|++|+|++
T Consensus        45 ~~~v~c~~~~l~~iP~~~-~~~l~~L~L~~n~i--~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~  121 (440)
T 3zyj_A           45 FSKVICVRKNLREVPDGI-STNTRLLNLHENQI--QIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFD  121 (440)
T ss_dssp             SCEEECCSCCCSSCCSCC-CTTCSEEECCSCCC--CEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCS
T ss_pred             CCEEEeCCCCcCcCCCCC-CCCCcEEEccCCcC--CeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCC
Confidence            456777777888888654 47899999999987  5666666799999999999999999875 6799999999999999


Q ss_pred             -cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEe
Q 038110          531 -GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILT  582 (667)
Q Consensus       531 -~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~  582 (667)
                       .+..+|.      ..|..+++|++|++++|.+..+|.. +..+++|+.|++..
T Consensus       122 n~l~~~~~------~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~  169 (440)
T 3zyj_A          122 NRLTTIPN------GAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGE  169 (440)
T ss_dssp             SCCSSCCT------TTSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCC
T ss_pred             CcCCeeCH------hHhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCC
Confidence             8888883      4688899999999999988888774 55777777777654

>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=99.61  E-value=1.3e-15  Score=153.87  Aligned_cols=200  Identities=14%  Similarity=0.116  Sum_probs=152.6

Q ss_pred             cccceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCC-ccccCCCccc
Q 038110          448 RVRHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLP-SSIGLLTNLH  524 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP-~si~~L~~L~  524 (667)
                      .+.++++|++.+|.+..++.  ...+++|++|++++|..  ..++...|.++++|++|+|++|.+..+| ..++++.+|+
T Consensus        26 l~~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l--~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  103 (276)
T 2z62_A           26 LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEI--QTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ  103 (276)
T ss_dssp             SCTTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCCC--CEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCC
T ss_pred             CCCCccEEECCCCcccccCHhHhccccCCcEEECCCCcC--CccCHHHccCCcCCCEEECCCCccCccChhhhcCCcccc
Confidence            34689999999999988775  33789999999999977  5677666699999999999999999775 6799999999


Q ss_pred             EEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCC--CCCCCcCCCCCCeeEEEecCccCCCc-ccccccccc-
Q 038110          525 TLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANT--LPRGGLFFEKPERYKILTGHRWSRGF-YRSSNKSYR-  599 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~--lP~~~~~l~~L~~l~~~~~~~~~~~~-~~~~~~~l~-  599 (667)
                      +|++++ .+..+|.      ..++++++|++|++++|.+..  +|..+..+++|+.|++..+.-..++. .......++ 
T Consensus       104 ~L~l~~n~l~~~~~------~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~  177 (276)
T 2z62_A          104 KLVAVETNLASLEN------FPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPL  177 (276)
T ss_dssp             EEECTTSCCCCSTT------CCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGHHHHTCTT
T ss_pred             EEECCCCCccccCc------hhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCCCCCcCCHHHhhhhhhccc
Confidence            999999 7777762      368999999999999999887  67778899999999887554332211 111112223 


Q ss_pred             ---eEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          600 ---SFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       600 ---~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                         .+.++.+............ .+|+.|+|++|   .+..+|.... ..+++|+.|++++|+-
T Consensus       178 l~l~L~ls~n~l~~~~~~~~~~-~~L~~L~L~~n---~l~~~~~~~~-~~l~~L~~L~l~~N~~  236 (276)
T 2z62_A          178 LNLSLDLSLNPMNFIQPGAFKE-IRLKELALDTN---QLKSVPDGIF-DRLTSLQKIWLHTNPW  236 (276)
T ss_dssp             CCEEEECCSSCCCEECTTSSCS-CCEEEEECCSS---CCSCCCTTTT-TTCCSCCEEECCSSCB
T ss_pred             cceeeecCCCcccccCccccCC-CcccEEECCCC---ceeecCHhHh-cccccccEEEccCCcc
Confidence               5666665554444333222 38999999999   5666776532 7899999999998763

>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=99.60  E-value=5.6e-15  Score=149.96  Aligned_cols=196  Identities=12%  Similarity=0.040  Sum_probs=155.9

Q ss_pred             eEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccC-CccccCCCcccEEecCC-
Q 038110          453 TSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSIGLLTNLHTLCLYG-  530 (667)
Q Consensus       453 r~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-P~si~~L~~L~~L~L~~-  530 (667)
                      +.++..++.+..+|... .++|+.|++++|..  ..+|...|.++++|++|+|++|.++.+ |..++.+++|++|++++ 
T Consensus        14 ~~~~c~~~~l~~ip~~~-~~~l~~L~l~~n~i--~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n   90 (285)
T 1ozn_A           14 VTTSCPQQGLQAVPVGI-PAASQRIFLHGNRI--SHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDN   90 (285)
T ss_dssp             CEEECCSSCCSSCCTTC-CTTCSEEECTTSCC--CEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSC
T ss_pred             eEEEcCcCCcccCCcCC-CCCceEEEeeCCcC--CccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCC
Confidence            56777778888887643 67999999999987  567766679999999999999999977 77899999999999999 


Q ss_pred             c-ccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCccCCCc-ccccccccceEEeecCc
Q 038110          531 G-VGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHRWSRGF-YRSSNKSYRSFRIDLDA  607 (667)
Q Consensus       531 ~-l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~~~~~~-~~~~~~~l~~l~l~~~~  607 (667)
                      . +..++.      ..+.++++|++|++++|.+..+|.. +..+++|+.|++..+.-..++. .......++.+.++++.
T Consensus        91 ~~l~~~~~------~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~  164 (285)
T 1ozn_A           91 AQLRSVDP------ATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNR  164 (285)
T ss_dssp             TTCCCCCT------TTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCccccCH------HHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCc
Confidence            4 888842      7899999999999999999888654 6789999999888655333332 12335568888888876


Q ss_pred             cccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCCC
Q 038110          608 NVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       608 ~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~l  661 (667)
                      ....+......+++|+.|+|++|  .-....|..+  ..+++|+.|++++|.-.
T Consensus       165 l~~~~~~~~~~l~~L~~L~l~~n--~l~~~~~~~~--~~l~~L~~L~l~~n~l~  214 (285)
T 1ozn_A          165 ISSVPERAFRGLHSLDRLLLHQN--RVAHVHPHAF--RDLGRLMTLYLFANNLS  214 (285)
T ss_dssp             CCEECTTTTTTCTTCCEEECCSS--CCCEECTTTT--TTCTTCCEEECCSSCCS
T ss_pred             ccccCHHHhcCccccCEEECCCC--cccccCHhHc--cCcccccEeeCCCCcCC
Confidence            66655544455689999999999  4333347778  88999999999998643

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

Probab=99.60  E-value=3.6e-15  Score=158.61  Aligned_cols=123  Identities=14%  Similarity=0.146  Sum_probs=57.2

Q ss_pred             cceeEEEEeccCccccCCCC--CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCC-ccccCCCcccEE
Q 038110          450 RHCTSIVILDVKTYVLPEVM--ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLP-SSIGLLTNLHTL  526 (667)
Q Consensus       450 ~~lr~L~l~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP-~si~~L~~L~~L  526 (667)
                      .+++.+++.++.+..+|...  .+++|++|++++|..  ..++...|.++++|++|+|++|.+..+| ..++++++|++|
T Consensus        45 ~~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           45 NNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQI--EEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVL  122 (390)
T ss_dssp             CCCSEEEEESCEESEECTHHHHHCCCCSEEECTTSCC--CEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCceEEEecCCchhhCChhHhcccccCcEEECCCCcc--cccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEE
Confidence            44555555555554444421  345555555555443  3333333355555555555555555442 234455555555


Q ss_pred             ecCC-cccccCCCCccChhh-hcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEE
Q 038110          527 CLYG-GVGVVDGVKNASLEE-LKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKIL  581 (667)
Q Consensus       527 ~L~~-~l~~LP~~~~~~~~~-l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~  581 (667)
                      ++++ .+..+|       .. ++++++|++|++++|.+..+|+. +..+++|+.|++.
T Consensus       123 ~L~~n~l~~l~-------~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~  173 (390)
T 3o6n_A          123 VLERNDLSSLP-------RGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLS  173 (390)
T ss_dssp             ECCSSCCCCCC-------TTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECC
T ss_pred             ECCCCccCcCC-------HHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECC
Confidence            5554 444444       22 24444555555554444444332 3344444444443

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

Probab=99.58  E-value=1.5e-14  Score=153.85  Aligned_cols=203  Identities=16%  Similarity=0.216  Sum_probs=119.9

Q ss_pred             ccccceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccC-CccccCCCcc
Q 038110          447 SRVRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSIGLLTNL  523 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-P~si~~L~~L  523 (667)
                      ..+++++.|++.+|.+..+++.  ..+++|++|++++|..  ..+|..+|.++++|++|+|++|.+..+ |..++.+++|
T Consensus        90 ~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l--~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  167 (390)
T 3o6n_A           90 AYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDL--SSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSL  167 (390)
T ss_dssp             TTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTC
T ss_pred             cCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEEECCCCcc--CcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCC
Confidence            3445666666666666555432  2566666666666655  456665556666666666666666655 3346666666


Q ss_pred             cEEecCC-cccccC-----C------------------------------------------------CCccChhhhcCC
Q 038110          524 HTLCLYG-GVGVVD-----G------------------------------------------------VKNASLEELKHF  549 (667)
Q Consensus       524 ~~L~L~~-~l~~LP-----~------------------------------------------------~~~~~~~~l~~L  549 (667)
                      ++|++++ .+..+|     .                                                .....+..++.+
T Consensus       168 ~~L~l~~n~l~~~~~~~l~~L~~L~l~~n~l~~~~~~~~L~~L~l~~n~l~~~~~~~~~~L~~L~l~~n~l~~~~~l~~l  247 (390)
T 3o6n_A          168 QNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNY  247 (390)
T ss_dssp             CEEECCSSCCSBCCGGGCTTCSEEECCSSCCSEEECCSSCSEEECCSSCCCEEECCCCSSCCEEECCSSCCCCCGGGGGC
T ss_pred             CEEECCCCcCCccccccccccceeecccccccccCCCCcceEEECCCCeeeeccccccccccEEECCCCCCcccHHHcCC
Confidence            6666665 222211     0                                                000012335566


Q ss_pred             CCCCeEEeecCCCCCC-CCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeecCccccchHHHHHHhhhcceeecc
Q 038110          550 PNLTSLELEVNDANTL-PRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLA  628 (667)
Q Consensus       550 ~~L~~L~l~~~~l~~l-P~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~  628 (667)
                      ++|++|++++|.+..+ |..+..+++|+.|++..+.-..++........++.+.++.+.....+..+ ..+++|+.|+|+
T Consensus       248 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-~~l~~L~~L~L~  326 (390)
T 3o6n_A          248 PGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHNHLLHVERNQ-PQFDRLENLYLD  326 (390)
T ss_dssp             TTCSEEECCSSCCCEEESGGGTTCSSCCEEECCSSCCCEEECSSSCCTTCCEEECCSSCCCCCGGGH-HHHTTCSEEECC
T ss_pred             CCccEEECCCCcCCCcChhHccccccCCEEECCCCcCcccCcccCCCCCCCEEECCCCcceecCccc-cccCcCCEEECC
Confidence            7777777777776665 33456677777777665443333222233456777777776555555444 345788888888


Q ss_pred             ccccccccccchhhhhccCCCccEEEeecCC
Q 038110          629 GLLDQDIKNFVNELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       629 ~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~  659 (667)
                      +|   .+..++  +  ..+++|+.|++++|+
T Consensus       327 ~N---~i~~~~--~--~~~~~L~~L~l~~N~  350 (390)
T 3o6n_A          327 HN---SIVTLK--L--STHHTLKNLTLSHND  350 (390)
T ss_dssp             SS---CCCCCC--C--CTTCCCSEEECCSSC
T ss_pred             CC---ccceeC--c--hhhccCCEEEcCCCC
Confidence            88   444443  4  667888888888875

>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=99.58  E-value=1.1e-14  Score=151.01  Aligned_cols=200  Identities=11%  Similarity=0.127  Sum_probs=124.8

Q ss_pred             ccceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccc-cHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccE
Q 038110          449 VRHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAI-PHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHT  525 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~l-p~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~  525 (667)
                      .+.++.|++.+|.+..++.  ...+++|++|++++|..  ..+ |.. |.++++|++|+|++|.++.+|..+.  .+|++
T Consensus        51 ~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l--~~~~~~~-~~~l~~L~~L~Ls~n~l~~l~~~~~--~~L~~  125 (330)
T 1xku_A           51 PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKI--SKISPGA-FAPLVKLERLYLSKNQLKELPEKMP--KTLQE  125 (330)
T ss_dssp             CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCC--CCBCTTT-TTTCTTCCEEECCSSCCSBCCSSCC--TTCCE
T ss_pred             CCCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCcC--CeeCHHH-hcCCCCCCEEECCCCcCCccChhhc--ccccE
Confidence            4678888888888877765  23678888888888876  345 444 4888888888888888888777664  56777


Q ss_pred             EecCC-cccccCC--------------C------CccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecC
Q 038110          526 LCLYG-GVGVVDG--------------V------KNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGH  584 (667)
Q Consensus       526 L~L~~-~l~~LP~--------------~------~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~  584 (667)
                      |++++ .+..+|.              +      ....+..+.++++|++|++++|.+..+|..+.  ++|+.|++..+.
T Consensus       126 L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~--~~L~~L~l~~n~  203 (330)
T 1xku_A          126 LRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLP--PSLTELHLDGNK  203 (330)
T ss_dssp             EECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSCC--TTCSEEECTTSC
T ss_pred             EECCCCcccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCccccCCcccc--ccCCEEECCCCc
Confidence            77766 4444441              0      00111445555566666666555555555432  556666554333


Q ss_pred             ccCC-CcccccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          585 RWSR-GFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       585 ~~~~-~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      -..+ +........++.+.++.+............+++|+.|+|++|   .+..+|.++  ..+++|+.|++++|+-
T Consensus       204 l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N---~l~~lp~~l--~~l~~L~~L~l~~N~i  275 (330)
T 1xku_A          204 ITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNN---KLVKVPGGL--ADHKYIQVVYLHNNNI  275 (330)
T ss_dssp             CCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSS---CCSSCCTTT--TTCSSCCEEECCSSCC
T ss_pred             CCccCHHHhcCCCCCCEEECCCCcCceeChhhccCCCCCCEEECCCC---cCccCChhh--ccCCCcCEEECCCCcC
Confidence            1111 111223345666777665554444333344578888888888   566788888  7888888888888864

>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=99.58  E-value=1.1e-14  Score=163.65  Aligned_cols=203  Identities=16%  Similarity=0.221  Sum_probs=128.2

Q ss_pred             ccccceeEEEEeccCccccCCCC--CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCC-ccccCCCcc
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVM--ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLP-SSIGLLTNL  523 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP-~si~~L~~L  523 (667)
                      ..+++++.|++.+|.+..+++..  .+++|++|++++|..  ..+|..+|+++++|++|+|++|.+..+| ..++++++|
T Consensus        96 ~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l--~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L  173 (597)
T 3oja_B           96 AYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDL--SSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSL  173 (597)
T ss_dssp             TTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTC
T ss_pred             cCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEEEeeCCCC--CCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcC
Confidence            34556667777766666555432  566777777776665  4666665667777777777777666553 356677777


Q ss_pred             cEEecCC-cccccC-----C------------------------------------------------CCccChhhhcCC
Q 038110          524 HTLCLYG-GVGVVD-----G------------------------------------------------VKNASLEELKHF  549 (667)
Q Consensus       524 ~~L~L~~-~l~~LP-----~------------------------------------------------~~~~~~~~l~~L  549 (667)
                      ++|+|++ .+..+|     .                                                .....+..++.+
T Consensus       174 ~~L~L~~N~l~~~~~~~l~~L~~L~l~~n~l~~l~~~~~L~~L~ls~n~l~~~~~~~~~~L~~L~L~~n~l~~~~~l~~l  253 (597)
T 3oja_B          174 QNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNY  253 (597)
T ss_dssp             CEEECTTSCCSBCCGGGCTTCSEEECCSSCCSEEECCTTCSEEECCSSCCCEEECSCCSCCCEEECCSSCCCCCGGGGGC
T ss_pred             cEEECcCCCCCCcChhhhhhhhhhhcccCccccccCCchhheeeccCCcccccccccCCCCCEEECCCCCCCCChhhccC
Confidence            7777765 222222     0                                                000112446677


Q ss_pred             CCCCeEEeecCCCCCC-CCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeecCccccchHHHHHHhhhcceeecc
Q 038110          550 PNLTSLELEVNDANTL-PRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLA  628 (667)
Q Consensus       550 ~~L~~L~l~~~~l~~l-P~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~  628 (667)
                      ++|++|++++|.+..+ |..+..+++|+.|++..+....++........++.|.|+.+.....+..+ ..+++|+.|+|+
T Consensus       254 ~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~Ls~N~l~~i~~~~-~~l~~L~~L~L~  332 (597)
T 3oja_B          254 PGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHNHLLHVERNQ-PQFDRLENLYLD  332 (597)
T ss_dssp             TTCSEEECCSSCCCEEESGGGTTCSSCCEEECTTSCCCEEECSSSCCTTCCEEECCSSCCCCCGGGH-HHHTTCSEEECC
T ss_pred             CCCCEEECCCCccCCCCHHHhcCccCCCEEECCCCCCCCCCcccccCCCCcEEECCCCCCCccCccc-ccCCCCCEEECC
Confidence            7888888888877666 44466778888887765443333333333556777888776666555555 455888888888


Q ss_pred             ccccccccccchhhhhccCCCccEEEeecCC
Q 038110          629 GLLDQDIKNFVNELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       629 ~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~  659 (667)
                      +|   .+..++  +  ..+++|+.|+|++|+
T Consensus       333 ~N---~l~~~~--~--~~~~~L~~L~l~~N~  356 (597)
T 3oja_B          333 HN---SIVTLK--L--STHHTLKNLTLSHND  356 (597)
T ss_dssp             SS---CCCCCC--C--CTTCCCSEEECCSSC
T ss_pred             CC---CCCCcC--h--hhcCCCCEEEeeCCC
Confidence            88   444443  4  668889999998886

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

Probab=99.58  E-value=1e-14  Score=151.45  Aligned_cols=197  Identities=12%  Similarity=0.077  Sum_probs=126.7

Q ss_pred             ccceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEE
Q 038110          449 VRHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTL  526 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L  526 (667)
                      .++++.|++.+|.+..++.  ...+++|++|++++|..  ..+++..|+++++|++|+|++|.++.+|..+.  .+|++|
T Consensus        53 ~~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~--~~L~~L  128 (332)
T 2ft3_A           53 SPDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKI--SKIHEKAFSPLRKLQKLYISKNHLVEIPPNLP--SSLVEL  128 (332)
T ss_dssp             CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCC--CEECGGGSTTCTTCCEEECCSSCCCSCCSSCC--TTCCEE
T ss_pred             CCCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCcc--CccCHhHhhCcCCCCEEECCCCcCCccCcccc--ccCCEE
Confidence            4678889999888877754  33788899999988876  45544445888999999999988888888776  788888


Q ss_pred             ecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCC---CCCCCcCC--------------------CCCCeeEEEe
Q 038110          527 CLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANT---LPRGGLFF--------------------EKPERYKILT  582 (667)
Q Consensus       527 ~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~---lP~~~~~l--------------------~~L~~l~~~~  582 (667)
                      ++++ .+..+|.      ..++++++|++|++++|.+..   .|..+..+                    ++|+.|++..
T Consensus       129 ~l~~n~i~~~~~------~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~L~~L~l~~n~l~~l~~~~~~~L~~L~l~~  202 (332)
T 2ft3_A          129 RIHDNRIRKVPK------GVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKLNYLRISEAKLTGIPKDLPETLNELHLDH  202 (332)
T ss_dssp             ECCSSCCCCCCS------GGGSSCSSCCEEECCSCCCBGGGSCTTSSCSCCCSCCBCCSSBCSSCCSSSCSSCSCCBCCS
T ss_pred             ECCCCccCccCH------hHhCCCccCCEEECCCCccccCCCCcccccCCccCEEECcCCCCCccCccccCCCCEEECCC
Confidence            8888 6777762      346777777777777776642   23333333                    2333333332


Q ss_pred             cCccCCC-cccccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          583 GHRWSRG-FYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       583 ~~~~~~~-~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      +....+. ........++.+.++.+......+.....+++|+.|+|++|   .+..+|.++  ..+++|+.|++++|+-
T Consensus       203 n~i~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N---~l~~lp~~l--~~l~~L~~L~l~~N~l  276 (332)
T 2ft3_A          203 NKIQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNN---KLSRVPAGL--PDLKLLQVVYLHTNNI  276 (332)
T ss_dssp             SCCCCCCTTSSTTCTTCSCCBCCSSCCCCCCTTGGGGCTTCCEEECCSS---CCCBCCTTG--GGCTTCCEEECCSSCC
T ss_pred             CcCCccCHHHhcCCCCCCEEECCCCcCCcCChhHhhCCCCCCEEECCCC---cCeecChhh--hcCccCCEEECCCCCC
Confidence            2211111 11112234555556655444443333344567888888777   555677777  7788888888887754

>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=99.57  E-value=3.2e-14  Score=148.62  Aligned_cols=196  Identities=12%  Similarity=0.122  Sum_probs=117.3

Q ss_pred             CCCccccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCC
Q 038110          442 EWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLT  521 (667)
Q Consensus       442 ~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~  521 (667)
                      .++....+++++.|++.+|.+..++....+++|++|++++|..  ..+|.  |.++++|++|++++|.+..+|. ++.++
T Consensus        58 ~~~~~~~~~~L~~L~l~~n~i~~~~~~~~l~~L~~L~L~~n~i--~~~~~--~~~l~~L~~L~l~~n~i~~~~~-~~~l~  132 (347)
T 4fmz_A           58 SIQGIEYLTNLEYLNLNGNQITDISPLSNLVKLTNLYIGTNKI--TDISA--LQNLTNLRELYLNEDNISDISP-LANLT  132 (347)
T ss_dssp             CCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCC--CCCGG--GTTCTTCSEEECTTSCCCCCGG-GTTCT
T ss_pred             cchhhhhcCCccEEEccCCccccchhhhcCCcCCEEEccCCcc--cCchH--HcCCCcCCEEECcCCcccCchh-hccCC
Confidence            3444566778888888888887777666788888888888866  45553  4888888888888888887776 77888


Q ss_pred             cccEEecCC--cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcc--------
Q 038110          522 NLHTLCLYG--GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFY--------  591 (667)
Q Consensus       522 ~L~~L~L~~--~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~--------  591 (667)
                      +|++|++++  .+..+|        .+..+++|++|++++|.+..+|. +..+++|+.|++..+.-..++.+        
T Consensus       133 ~L~~L~l~~n~~~~~~~--------~~~~l~~L~~L~l~~~~~~~~~~-~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~  203 (347)
T 4fmz_A          133 KMYSLNLGANHNLSDLS--------PLSNMTGLNYLTVTESKVKDVTP-IANLTDLYSLSLNYNQIEDISPLASLTSLHY  203 (347)
T ss_dssp             TCCEEECTTCTTCCCCG--------GGTTCTTCCEEECCSSCCCCCGG-GGGCTTCSEEECTTSCCCCCGGGGGCTTCCE
T ss_pred             ceeEEECCCCCCccccc--------chhhCCCCcEEEecCCCcCCchh-hccCCCCCEEEccCCcccccccccCCCccce
Confidence            888888877  233333        35555555555555555444443 33444455444432221111110        


Q ss_pred             -------------cccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecC
Q 038110          592 -------------RSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGY  658 (667)
Q Consensus       592 -------------~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~  658 (667)
                                   ......++.+.++++.......  ...+++|+.|++++|   .+..+ +.+  ..+++|+.|++++|
T Consensus       204 L~l~~n~l~~~~~~~~~~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~l~~n---~l~~~-~~~--~~l~~L~~L~l~~n  275 (347)
T 4fmz_A          204 FTAYVNQITDITPVANMTRLNSLKIGNNKITDLSP--LANLSQLTWLEIGTN---QISDI-NAV--KDLTKLKMLNVGSN  275 (347)
T ss_dssp             EECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSS---CCCCC-GGG--TTCTTCCEEECCSS
T ss_pred             eecccCCCCCCchhhcCCcCCEEEccCCccCCCcc--hhcCCCCCEEECCCC---ccCCC-hhH--hcCCCcCEEEccCC
Confidence                         1222345555555544433332  233456666666666   33333 344  66777777777776


Q ss_pred             C
Q 038110          659 R  659 (667)
Q Consensus       659 ~  659 (667)
                      .
T Consensus       276 ~  276 (347)
T 4fmz_A          276 Q  276 (347)
T ss_dssp             C
T ss_pred             c
Confidence            4

>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=99.57  E-value=7.5e-15  Score=165.12  Aligned_cols=111  Identities=17%  Similarity=0.240  Sum_probs=68.8

Q ss_pred             cccceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCccc
Q 038110          448 RVRHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNLH  524 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L~  524 (667)
                      .+++++.|++.+|.+..++.  ...+++|++|++++|..  ..+|+..|+++++|++|+|++|.+..+|.. ++++++|+
T Consensus        73 ~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~  150 (597)
T 3oja_B           73 SFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAI--RYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLT  150 (597)
T ss_dssp             HCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCC
T ss_pred             cCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcC--CCCCHHHHcCCCCCCEEEeeCCCCCCCCHHHhccCCCCC
Confidence            34566666666666655543  22566677777766665  445555556677777777777766666655 36666777


Q ss_pred             EEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCC
Q 038110          525 TLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLP  566 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP  566 (667)
                      +|+|++ .+..+|.      ..|+++++|++|++++|.+..+|
T Consensus       151 ~L~Ls~N~l~~~~~------~~~~~l~~L~~L~L~~N~l~~~~  187 (597)
T 3oja_B          151 TLSMSNNNLERIED------DTFQATTSLQNLQLSSNRLTHVD  187 (597)
T ss_dssp             EEECCSSCCCBCCT------TTTTTCTTCCEEECTTSCCSBCC
T ss_pred             EEEeeCCcCCCCCh------hhhhcCCcCcEEECcCCCCCCcC
Confidence            777766 5555441      35666666666666666665554

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.56  E-value=2.3e-14  Score=122.63  Aligned_cols=80  Identities=13%  Similarity=0.046  Sum_probs=71.1

Q ss_pred             cccchhhHhhh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHHHHHHhhHHH
Q 038110            4 CLAPPTERQFS-YLRSYNNNIENLKAEVGKLKDGTESIQHAVDEAKRKG-EEIEKKVEKLLDSGNNAIVEAEKFVGDEAA   81 (667)
Q Consensus         4 ~~~~~v~~~~~-~l~~~~~~~~~~~~~~~~L~~~l~~i~~~l~~ae~~~-~~~~~~~~~Wl~~l~~~ayd~ed~ld~~~~   81 (667)
                      +++++++.+++ ++.+++.++.|+++++++|+++|++|+++|.+|+.+. ...++.++.|+++||++|||+||+||+|.+
T Consensus         1 a~v~~ll~KL~~ll~~E~~l~~gv~~~i~~Lk~eL~~m~a~L~da~~~~~~~~d~~vk~W~~~vrdlaYD~ED~iD~f~~   80 (115)
T 3qfl_A            1 AAISNLIPKLGELLTEEFKLHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVRELSYVIEDVVDKFLV   80 (115)
T ss_dssp             CTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46788888875 6678899999999999999999999999999999873 246899999999999999999999999987


Q ss_pred             hh
Q 038110           82 AN   83 (667)
Q Consensus        82 ~~   83 (667)
                      ..
T Consensus        81 ~~   82 (115)
T 3qfl_A           81 QV   82 (115)
T ss_dssp             HH
T ss_pred             Hh
Confidence            54

>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=99.56  E-value=2.1e-15  Score=154.80  Aligned_cols=201  Identities=14%  Similarity=0.062  Sum_probs=152.3

Q ss_pred             ccccceeEEEEeccCccccC----CCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc--cccCC
Q 038110          447 SRVRHCTSIVILDVKTYVLP----EVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS--SIGLL  520 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~----~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~--si~~L  520 (667)
                      ...++++.|++.+|.+..+.    ....+++|++|++++|..  ..+|..+ .++++|++|++++|.+..+|.  .++.+
T Consensus        49 ~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i--~~l~~~~-~~l~~L~~L~l~~n~l~~~~~~~~~~~l  125 (306)
T 2z66_A           49 DKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGV--ITMSSNF-LGLEQLEHLDFQHSNLKQMSEFSVFLSL  125 (306)
T ss_dssp             TTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEECCSCSE--EEEEEEE-ETCTTCCEEECTTSEEESSTTTTTTTTC
T ss_pred             hccccCCEEECCCCccCcccCcccccccccccCEEECCCCcc--ccChhhc-CCCCCCCEEECCCCcccccccchhhhhc
Confidence            56788999999999886542    223689999999999987  5677775 899999999999999998864  78999


Q ss_pred             CcccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCC--CCCCCcCCCCCCeeEEEecCccCC-Cccccccc
Q 038110          521 TNLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANT--LPRGGLFFEKPERYKILTGHRWSR-GFYRSSNK  596 (667)
Q Consensus       521 ~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~--lP~~~~~l~~L~~l~~~~~~~~~~-~~~~~~~~  596 (667)
                      ++|++|++++ .+...+.      ..+.++++|++|++++|.+..  +|..+..+++|+.|++..+.-..+ +.......
T Consensus       126 ~~L~~L~l~~n~l~~~~~------~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~  199 (306)
T 2z66_A          126 RNLIYLDISHTHTRVAFN------GIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLS  199 (306)
T ss_dssp             TTCCEEECTTSCCEECST------TTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCT
T ss_pred             cCCCEEECCCCcCCccch------hhcccCcCCCEEECCCCccccccchhHHhhCcCCCEEECCCCCcCCcCHHHhcCCC
Confidence            9999999998 5555431      668889999999999998765  787788899999998875542222 22223345


Q ss_pred             ccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccC-CCccEEEeecCCC
Q 038110          597 SYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGS-SQLKYLQIEGYRG  660 (667)
Q Consensus       597 ~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l-~~L~~L~l~~~~~  660 (667)
                      .++.+.++++............+++|+.|+|++|  .-....|..+  ..+ ++|+.|++++|+-
T Consensus       200 ~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N--~l~~~~~~~~--~~~~~~L~~L~L~~N~~  260 (306)
T 2z66_A          200 SLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLN--HIMTSKKQEL--QHFPSSLAFLNLTQNDF  260 (306)
T ss_dssp             TCCEEECTTSCCSBCCSGGGTTCTTCCEEECTTS--CCCBCSSSSC--CCCCTTCCEEECTTCCE
T ss_pred             CCCEEECCCCccCccChhhccCcccCCEeECCCC--CCcccCHHHH--HhhhccCCEEEccCCCe
Confidence            6778888876655544433345689999999999  4444456667  666 4999999999863

>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=99.56  E-value=1.5e-14  Score=158.26  Aligned_cols=199  Identities=15%  Similarity=0.099  Sum_probs=115.9

Q ss_pred             cccceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCccc
Q 038110          448 RVRHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNLH  524 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L~  524 (667)
                      .+.+++.|++.+|.+..++.  ...+++|++|++++|..  ..+++..|.++++|++|+|++|.++.+|.. ++++++|+
T Consensus        30 ~~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~i--~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  107 (477)
T 2id5_A           30 IPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIV--SAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLT  107 (477)
T ss_dssp             CCTTCSEEECCSSCCCEECTTTTTTCTTCCEEECTTSCC--CEECTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCC
T ss_pred             CCCCCcEEECCCCccceECHhHccCCCCCCEEECCCCcc--CEeChhhhhCCccCCEEECCCCcCCccCcccccCCCCCC
Confidence            34577788888877766643  23677788888877766  344333347777888888888777777654 57777788


Q ss_pred             EEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCC-CCcCCCCCCeeEEEecCccCCCc-cccc-------
Q 038110          525 TLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPR-GGLFFEKPERYKILTGHRWSRGF-YRSS-------  594 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~-~~~~l~~L~~l~~~~~~~~~~~~-~~~~-------  594 (667)
                      +|+|++ .+..++.      ..+.++++|++|++++|.+..++. .+..+++|+.|++..+.-..++. ....       
T Consensus       108 ~L~Ls~n~i~~~~~------~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L  181 (477)
T 2id5_A          108 KLDISENKIVILLD------YMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVL  181 (477)
T ss_dssp             EEECTTSCCCEECT------TTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCCCSSCCHHHHTTCTTCCEE
T ss_pred             EEECCCCccccCCh------hHccccccCCEEECCCCccceeChhhccCCCCCCEEECCCCcCcccChhHhcccCCCcEE
Confidence            887777 5554431      455666666666666666555443 34455566666555433222211 1111       


Q ss_pred             -----------------ccccceEEeecCcccc-chHHHHHHhhhcceeeccccccccccccch-hhhhccCCCccEEEe
Q 038110          595 -----------------NKSYRSFRIDLDANVR-LKDRLVVQLRGIEELSLAGLLDQDIKNFVN-ELVKVGSSQLKYLQI  655 (667)
Q Consensus       595 -----------------~~~l~~l~l~~~~~~~-~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~-~l~~~~l~~L~~L~l  655 (667)
                                       ...++.+.++.+.... .+..... ..+|+.|+|++|   .+..+|. .+  ..+++|+.|+|
T Consensus       182 ~l~~n~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-~~~L~~L~l~~n---~l~~~~~~~~--~~l~~L~~L~L  255 (477)
T 2id5_A          182 RLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLY-GLNLTSLSITHC---NLTAVPYLAV--RHLVYLRFLNL  255 (477)
T ss_dssp             EEESCCCCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTT-TCCCSEEEEESS---CCCSCCHHHH--TTCTTCCEEEC
T ss_pred             eCCCCcCcEeChhhcccCcccceeeCCCCccccccCccccc-CccccEEECcCC---cccccCHHHh--cCccccCeeEC
Confidence                             2234444444422111 1111111 126667777666   4555663 45  77889999999


Q ss_pred             ecCCC
Q 038110          656 EGYRG  660 (667)
Q Consensus       656 ~~~~~  660 (667)
                      ++|..
T Consensus       256 s~n~l  260 (477)
T 2id5_A          256 SYNPI  260 (477)
T ss_dssp             CSSCC
T ss_pred             CCCcC
Confidence            88864

>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=99.56  E-value=3.3e-14  Score=154.39  Aligned_cols=134  Identities=18%  Similarity=0.197  Sum_probs=107.8

Q ss_pred             cCCCccccccceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccC-Cccc
Q 038110          441 WEWSDESRVRHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSI  517 (667)
Q Consensus       441 ~~~~~~~~~~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-P~si  517 (667)
                      ..+|.  .++++++|++++|.+..++.  ...+++|++|++++|... ..++...|.++++|++|+|++|.+..+ |..+
T Consensus        23 ~~lp~--l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~~~-~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~   99 (455)
T 3v47_A           23 HQVPE--LPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPG-LVIRNNTFRGLSSLIILKLDYNQFLQLETGAF   99 (455)
T ss_dssp             SSCCC--CCTTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCCSTT-CEECTTTTTTCTTCCEEECTTCTTCEECTTTT
T ss_pred             ccCCC--CCCccCEEEecCCccCcCChhHhccCccccEEECcCCccc-ceECcccccccccCCEEeCCCCccCccChhhc
Confidence            34554  45789999999999977643  238999999999999875 577766679999999999999999866 7889


Q ss_pred             cCCCcccEEecCC-cccc-cCCCCccChhh--hcCCCCCCeEEeecCCCCCCC-CC-CcCCCCCCeeEEEecC
Q 038110          518 GLLTNLHTLCLYG-GVGV-VDGVKNASLEE--LKHFPNLTSLELEVNDANTLP-RG-GLFFEKPERYKILTGH  584 (667)
Q Consensus       518 ~~L~~L~~L~L~~-~l~~-LP~~~~~~~~~--l~~L~~L~~L~l~~~~l~~lP-~~-~~~l~~L~~l~~~~~~  584 (667)
                      +++++|++|+|++ .+.. +|       ..  ++++++|++|++++|.+..++ .. +..+++|+.|++..+.
T Consensus       100 ~~l~~L~~L~L~~n~l~~~~~-------~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~  165 (455)
T 3v47_A          100 NGLANLEVLTLTQCNLDGAVL-------SGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNK  165 (455)
T ss_dssp             TTCTTCCEEECTTSCCBTHHH-------HSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCC
T ss_pred             cCcccCCEEeCCCCCCCcccc-------CcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCc
Confidence            9999999999998 5554 34       44  888999999999999888774 44 5688899998876544

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

Probab=99.55  E-value=7.2e-15  Score=169.97  Aligned_cols=78  Identities=19%  Similarity=0.241  Sum_probs=45.3

Q ss_pred             CCcEEEcCCCCCccCCc--cccCCCcccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCC-
Q 038110          499 QVRVLDLTDMNLLSLPS--SIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEK-  574 (667)
Q Consensus       499 ~Lr~L~L~~~~i~~lP~--si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~-  574 (667)
                      +|++|+|++|.+..+|.  +++++++|++|+|++ .+..+|        .++++++|++|++++|.+..+|..+..+++ 
T Consensus       549 ~L~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N~l~~lp--------~~~~L~~L~~L~Ls~N~l~~lp~~l~~l~~~  620 (876)
T 4ecn_A          549 KIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHNKVRHLE--------AFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQ  620 (876)
T ss_dssp             TCCEEECCSSCCCBCCCHHHHTTCTTCCEEECTTSCCCBCC--------CCCTTSEESEEECCSSCCSCCCTTSCEECTT
T ss_pred             CccEEEeeCCcCCccCChhhhhcCCCCCEEECCCCCcccch--------hhcCCCcceEEECcCCccccchHHHhhcccc
Confidence            45555555555555555  455555555555554 344444        456666666666666666666666666666 


Q ss_pred             CCeeEEEecC
Q 038110          575 PERYKILTGH  584 (667)
Q Consensus       575 L~~l~~~~~~  584 (667)
                      |+.|.+..+.
T Consensus       621 L~~L~Ls~N~  630 (876)
T 4ecn_A          621 VEGLGFSHNK  630 (876)
T ss_dssp             CCEEECCSSC
T ss_pred             CCEEECcCCC
Confidence            7777666544

>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=99.55  E-value=5.7e-14  Score=146.76  Aligned_cols=196  Identities=12%  Similarity=0.089  Sum_probs=148.5

Q ss_pred             CccccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcc
Q 038110          444 SDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNL  523 (667)
Q Consensus       444 ~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L  523 (667)
                      +....+++++.|.+.+|.+..++....+++|+.|++++|..  ..++.  +..+++|++|++++|.+..++. ++.+++|
T Consensus       149 ~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~n~l--~~~~~--~~~l~~L~~L~l~~n~l~~~~~-~~~~~~L  223 (347)
T 4fmz_A          149 SPLSNMTGLNYLTVTESKVKDVTPIANLTDLYSLSLNYNQI--EDISP--LASLTSLHYFTAYVNQITDITP-VANMTRL  223 (347)
T ss_dssp             GGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECTTSCC--CCCGG--GGGCTTCCEEECCSSCCCCCGG-GGGCTTC
T ss_pred             cchhhCCCCcEEEecCCCcCCchhhccCCCCCEEEccCCcc--ccccc--ccCCCccceeecccCCCCCCch-hhcCCcC
Confidence            33456678888888888877776656788888888888876  55665  4888888888888888887766 7888889


Q ss_pred             cEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEE
Q 038110          524 HTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFR  602 (667)
Q Consensus       524 ~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~  602 (667)
                      ++|++++ .+..+|       . +..+++|++|++++|.+..+| .+..+++|+.|++..+.-..++. ......++.+.
T Consensus       224 ~~L~l~~n~l~~~~-------~-~~~l~~L~~L~l~~n~l~~~~-~~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~  293 (347)
T 4fmz_A          224 NSLKIGNNKITDLS-------P-LANLSQLTWLEIGTNQISDIN-AVKDLTKLKMLNVGSNQISDISV-LNNLSQLNSLF  293 (347)
T ss_dssp             CEEECCSSCCCCCG-------G-GTTCTTCCEEECCSSCCCCCG-GGTTCTTCCEEECCSSCCCCCGG-GGGCTTCSEEE
T ss_pred             CEEEccCCccCCCc-------c-hhcCCCCCEEECCCCccCCCh-hHhcCCCcCEEEccCCccCCChh-hcCCCCCCEEE
Confidence            9999988 777777       4 888999999999999888875 35778899999887655333332 23345677888


Q ss_pred             eecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          603 IDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       603 l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      ++++............+++|+.|+|++|   .+..+++ +  ..+++|++|++++|+-
T Consensus       294 L~~n~l~~~~~~~l~~l~~L~~L~L~~n---~l~~~~~-~--~~l~~L~~L~l~~N~i  345 (347)
T 4fmz_A          294 LNNNQLGNEDMEVIGGLTNLTTLFLSQN---HITDIRP-L--ASLSKMDSADFANQVI  345 (347)
T ss_dssp             CCSSCCCGGGHHHHHTCTTCSEEECCSS---SCCCCGG-G--GGCTTCSEESSSCC--
T ss_pred             CcCCcCCCcChhHhhccccCCEEEccCC---ccccccC-h--hhhhccceeehhhhcc
Confidence            8887665555555566789999999999   4555555 6  7899999999999874

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

Probab=99.55  E-value=2.1e-14  Score=144.72  Aligned_cols=128  Identities=20%  Similarity=0.284  Sum_probs=102.9

Q ss_pred             ccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCcccE
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNLHT  525 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L~~  525 (667)
                      ..+++++.|.+.+|.+..++....+++|++|++++|..  ..++ . +.++++|++|+|++|.++.+|.. ++++++|++
T Consensus        38 ~~l~~L~~L~l~~~~i~~~~~l~~l~~L~~L~l~~n~l--~~~~-~-l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  113 (272)
T 3rfs_A           38 NELNSIDQIIANNSDIKSVQGIQYLPNVRYLALGGNKL--HDIS-A-LKELTNLTYLILTGNQLQSLPNGVFDKLTNLKE  113 (272)
T ss_dssp             HHHTTCCEEECTTSCCCCCTTGGGCTTCCEEECTTSCC--CCCG-G-GTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCE
T ss_pred             ccccceeeeeeCCCCcccccccccCCCCcEEECCCCCC--CCch-h-hcCCCCCCEEECCCCccCccChhHhcCCcCCCE
Confidence            45678889999988888877766889999999998876  4454 3 48899999999999998887665 688999999


Q ss_pred             EecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecC
Q 038110          526 LCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGH  584 (667)
Q Consensus       526 L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~  584 (667)
                      |++++ .+..+|.      ..++++++|++|++++|.+..+|.. +..+++|+.|++..+.
T Consensus       114 L~L~~n~l~~~~~------~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~  168 (272)
T 3rfs_A          114 LVLVENQLQSLPD------GVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQ  168 (272)
T ss_dssp             EECTTSCCCCCCT------TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             EECCCCcCCccCH------HHhccCCCCCEEECCCCccCccCHHHhccCccCCEEECCCCC
Confidence            99988 7777772      4478899999999999998888876 4578888888777443

>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=99.55  E-value=2.2e-14  Score=148.91  Aligned_cols=198  Identities=12%  Similarity=0.103  Sum_probs=142.1

Q ss_pred             cccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCc---cCCccccCCCccc
Q 038110          448 RVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLL---SLPSSIGLLTNLH  524 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~---~lP~si~~L~~L~  524 (667)
                      .++++++|++.+|.+..+|... .++|++|++++|..  ..++...|.++++|++|++++|.+.   ..|..++++++|+
T Consensus        98 ~l~~L~~L~Ls~n~l~~l~~~~-~~~L~~L~l~~n~l--~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~  174 (330)
T 1xku_A           98 PLVKLERLYLSKNQLKELPEKM-PKTLQELRVHENEI--TKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLS  174 (330)
T ss_dssp             TCTTCCEEECCSSCCSBCCSSC-CTTCCEEECCSSCC--CBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCC
T ss_pred             CCCCCCEEECCCCcCCccChhh-cccccEEECCCCcc--cccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcC
Confidence            4456666666666665555433 25677777766665  5667776799999999999999886   3577888999999


Q ss_pred             EEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCC-CCcCCCCCCeeEEEecCccCCCc-ccccccccceE
Q 038110          525 TLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPR-GGLFFEKPERYKILTGHRWSRGF-YRSSNKSYRSF  601 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~-~~~~l~~L~~l~~~~~~~~~~~~-~~~~~~~l~~l  601 (667)
                      +|++++ .+..+|       ..+.  ++|++|++++|.+..++. .+..+++|+.|++..+.-..+.. .......++.+
T Consensus       175 ~L~l~~n~l~~l~-------~~~~--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L  245 (330)
T 1xku_A          175 YIRIADTNITTIP-------QGLP--PSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLREL  245 (330)
T ss_dssp             EEECCSSCCCSCC-------SSCC--TTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEE
T ss_pred             EEECCCCccccCC-------cccc--ccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCceeChhhccCCCCCCEE
Confidence            999998 788888       4443  899999999999988854 57789999999887655332221 22334567888


Q ss_pred             EeecCccccchHHHHHHhhhcceeeccccccccccccchhhhh-----ccCCCccEEEeecCCCC
Q 038110          602 RIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVK-----VGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       602 ~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~-----~~l~~L~~L~l~~~~~l  661 (667)
                      .++.+.....+..+ ..+++|+.|+|++|   .+..++.....     ...++|+.|++++|+..
T Consensus       246 ~L~~N~l~~lp~~l-~~l~~L~~L~l~~N---~i~~~~~~~f~~~~~~~~~~~l~~l~l~~N~~~  306 (330)
T 1xku_A          246 HLNNNKLVKVPGGL-ADHKYIQVVYLHNN---NISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQ  306 (330)
T ss_dssp             ECCSSCCSSCCTTT-TTCSSCCEEECCSS---CCCCCCTTSSSCSSCCTTSCCCSEEECCSSSSC
T ss_pred             ECCCCcCccCChhh-ccCCCcCEEECCCC---cCCccChhhcCCcccccccccccceEeecCccc
Confidence            88887666555544 34589999999999   55555543210     13588999999999863

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

Probab=99.55  E-value=2.8e-15  Score=169.70  Aligned_cols=202  Identities=12%  Similarity=0.104  Sum_probs=107.0

Q ss_pred             ccccceeEEEEeccCccc------------------cCCCC---CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEc
Q 038110          447 SRVRHCTSIVILDVKTYV------------------LPEVM---ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDL  505 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~------------------l~~~~---~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L  505 (667)
                      ..+++++.|++.+|.+..                  +|...   .+++|++|++++|... ..+|..+ +++++|++|+|
T Consensus       203 ~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~-~~~p~~l-~~l~~L~~L~L  280 (636)
T 4eco_A          203 MRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNL-TKLPTFL-KALPEMQLINV  280 (636)
T ss_dssp             GGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTC-SSCCTTT-TTCSSCCEEEC
T ss_pred             hcccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCC-ccChHHH-hcCCCCCEEEC
Confidence            344566666666666554                  55443   2566666666666544 5555554 56666666666


Q ss_pred             CCCC-Cc--cCCccccCC------CcccEEecCC-cccccCCCCccChh--hhcCCCCCCeEEeecCCCC-CC-------
Q 038110          506 TDMN-LL--SLPSSIGLL------TNLHTLCLYG-GVGVVDGVKNASLE--ELKHFPNLTSLELEVNDAN-TL-------  565 (667)
Q Consensus       506 ~~~~-i~--~lP~si~~L------~~L~~L~L~~-~l~~LP~~~~~~~~--~l~~L~~L~~L~l~~~~l~-~l-------  565 (667)
                      ++|. ++  .+|..+++|      ++|++|++++ .+..+|       .  .++++++|++|++++|.+. .+       
T Consensus       281 s~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~~ip-------~~~~l~~l~~L~~L~L~~N~l~g~ip~~~~l~  353 (636)
T 4eco_A          281 ACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFP-------VETSLQKMKKLGMLECLYNQLEGKLPAFGSEI  353 (636)
T ss_dssp             TTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCSSCC-------CHHHHTTCTTCCEEECCSCCCEEECCCCEEEE
T ss_pred             cCCCCCccccchHHHHhhhccccCCCCCEEECCCCcCCccC-------chhhhccCCCCCEEeCcCCcCccchhhhCCCC
Confidence            6665 55  356655554      5666666665 455555       4  4555555555555555544 44       


Q ss_pred             ---------------CCCCcCCCC-CCeeEEEecCccCCCccccccc--ccceEEeecCccccchHHHHH-------Hhh
Q 038110          566 ---------------PRGGLFFEK-PERYKILTGHRWSRGFYRSSNK--SYRSFRIDLDANVRLKDRLVV-------QLR  620 (667)
Q Consensus       566 ---------------P~~~~~l~~-L~~l~~~~~~~~~~~~~~~~~~--~l~~l~l~~~~~~~~~~~~~~-------~l~  620 (667)
                                     |..+..+++ |+.|++..+....++.......  .++.+.++.+......+....       .++
T Consensus       354 ~L~~L~L~~N~l~~lp~~l~~l~~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~  433 (636)
T 4eco_A          354 KLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGI  433 (636)
T ss_dssp             EESEEECCSSEEEECCTTSEEECTTCCEEECCSSCCSSCCSCCCTTCSSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCC
T ss_pred             CCCEEECCCCccccccHhhhhhcccCcEEEccCCcCcccchhhhhcccCccCEEECcCCcCCCcchhhhcccccccccCC
Confidence                           444444555 5555554333222322111111  344445554333222111111       224


Q ss_pred             hcceeeccccccccccccchhhhhccCCCccEEEeecCCCC
Q 038110          621 GIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       621 ~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~l  661 (667)
                      +|+.|+|++|   .+..+|..+. ..+++|+.|++++|.-.
T Consensus       434 ~L~~L~Ls~N---~l~~lp~~~~-~~l~~L~~L~Ls~N~l~  470 (636)
T 4eco_A          434 NVSSINLSNN---QISKFPKELF-STGSPLSSINLMGNMLT  470 (636)
T ss_dssp             CEEEEECCSS---CCCSCCTHHH-HTTCCCSEEECCSSCCS
T ss_pred             CCCEEECcCC---ccCcCCHHHH-ccCCCCCEEECCCCCCC
Confidence            6777777777   4445666652 45788888888887643

>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=99.55  E-value=2e-14  Score=166.56  Aligned_cols=105  Identities=21%  Similarity=0.248  Sum_probs=57.8

Q ss_pred             ccceeEEEEeccCcc-ccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCc-cCCccccCCCcccE
Q 038110          449 VRHCTSIVILDVKTY-VLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLL-SLPSSIGLLTNLHT  525 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~-~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-~lP~si~~L~~L~~  525 (667)
                      +++++.|.+.+|.+. .+|... .+++|++|++++|... ..+|..+ .++++|++|+|++|.+. .+|..++.+++|++
T Consensus       441 l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~N~l~-~~~p~~l-~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~  518 (768)
T 3rgz_A          441 LSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLT-GEIPSGL-SNCTNLNWISLSNNRLTGEIPKWIGRLENLAI  518 (768)
T ss_dssp             CTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCC-SCCCGGG-GGCTTCCEEECCSSCCCSCCCGGGGGCTTCCE
T ss_pred             CCCCCEEECCCCcccCcCCHHHcCCCCceEEEecCCccc-CcCCHHH-hcCCCCCEEEccCCccCCcCChHHhcCCCCCE
Confidence            345555555555443 233222 4555666666555553 4455543 56666666666666555 45666666666666


Q ss_pred             EecCC-cc-cccCCCCccChhhhcCCCCCCeEEeecCCC
Q 038110          526 LCLYG-GV-GVVDGVKNASLEELKHFPNLTSLELEVNDA  562 (667)
Q Consensus       526 L~L~~-~l-~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l  562 (667)
                      |+|++ .+ +.+|       ..++++++|+.|++++|.+
T Consensus       519 L~L~~N~l~~~~p-------~~l~~l~~L~~L~Ls~N~l  550 (768)
T 3rgz_A          519 LKLSNNSFSGNIP-------AELGDCRSLIWLDLNTNLF  550 (768)
T ss_dssp             EECCSSCCEEECC-------GGGGGCTTCCEEECCSSEE
T ss_pred             EECCCCcccCcCC-------HHHcCCCCCCEEECCCCcc
Confidence            66665 33 2455       5666666666666666653

>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=99.55  E-value=2.8e-14  Score=141.97  Aligned_cols=123  Identities=19%  Similarity=0.198  Sum_probs=73.9

Q ss_pred             eeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCcccEEecCC
Q 038110          452 CTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLHTLCLYG  530 (667)
Q Consensus       452 lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~~L~L~~  530 (667)
                      .+.+++.++.+..+|.... ++++.|++++|..  ..++...|.++++|++|+|++|.+..+|. .+..+.+|++|+|++
T Consensus        16 ~~~l~~~~~~l~~~p~~~~-~~l~~L~L~~n~l--~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~   92 (251)
T 3m19_A           16 KKEVDCQGKSLDSVPSGIP-ADTEKLDLQSTGL--ATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLAN   92 (251)
T ss_dssp             GTEEECTTCCCSSCCSCCC-TTCCEEECTTSCC--CCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTT
T ss_pred             CeEEecCCCCccccCCCCC-CCCCEEEccCCCc--CccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCC
Confidence            3456666666666665432 5666666666665  34444444666667777776666665533 356666667776666


Q ss_pred             -cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEec
Q 038110          531 -GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTG  583 (667)
Q Consensus       531 -~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~  583 (667)
                       .+..+|.      ..+..+++|++|++++|.+..+|.. +..+++|+.|++..+
T Consensus        93 n~l~~~~~------~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N  141 (251)
T 3m19_A           93 NQLASLPL------GVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTN  141 (251)
T ss_dssp             SCCCCCCT------TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CcccccCh------hHhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcCC
Confidence             5555552      3456666667777766666666665 345666666655533

>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=99.54  E-value=4.9e-14  Score=154.09  Aligned_cols=175  Identities=15%  Similarity=0.078  Sum_probs=89.5

Q ss_pred             cccceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccC-CccccCCCccc
Q 038110          448 RVRHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSIGLLTNLH  524 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-P~si~~L~~L~  524 (667)
                      .+++++.|.+.+|.+..+++  ...+++|++|++++|..  ..+|...|.++++|++|+|++|.+..+ |..++++++|+
T Consensus        54 ~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~  131 (477)
T 2id5_A           54 SFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRL--KLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLK  131 (477)
T ss_dssp             TCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCC--CSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCC
T ss_pred             CCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCCcC--CccCcccccCCCCCCEEECCCCccccCChhHccccccCC
Confidence            34455555555555544422  12455555555555544  344444445555555555555555533 33455555555


Q ss_pred             EEecCC-------------------------cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCee
Q 038110          525 TLCLYG-------------------------GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERY  578 (667)
Q Consensus       525 ~L~L~~-------------------------~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l  578 (667)
                      +|++++                         .+..+|.      ..+.++++|+.|++++|.+..+|.. +..+++|+.|
T Consensus       132 ~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~------~~l~~l~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L  205 (477)
T 2id5_A          132 SLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPT------EALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVL  205 (477)
T ss_dssp             EEEECCTTCCEECTTSSTTCTTCCEEEEESCCCSSCCH------HHHTTCTTCCEEEEESCCCCEECTTCSCSCTTCCEE
T ss_pred             EEECCCCccceeChhhccCCCCCCEEECCCCcCcccCh------hHhcccCCCcEEeCCCCcCcEeChhhcccCccccee
Confidence            555544                         3333331      3456666666666666666655543 4566667777


Q ss_pred             EEEecCcc-CCCcccccccccceEEeecCccccchHHHHHHhhhcceeecccc
Q 038110          579 KILTGHRW-SRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGL  630 (667)
Q Consensus       579 ~~~~~~~~-~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~  630 (667)
                      ++..+... .++........++.+.++.+.....+......+++|+.|+|++|
T Consensus       206 ~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n  258 (477)
T 2id5_A          206 EISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYN  258 (477)
T ss_dssp             EEECCTTCCEECTTTTTTCCCSEEEEESSCCCSCCHHHHTTCTTCCEEECCSS
T ss_pred             eCCCCccccccCcccccCccccEEECcCCcccccCHHHhcCccccCeeECCCC
Confidence            66543211 11111111124666666665555554444445567777777766

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

Probab=99.54  E-value=1.9e-14  Score=166.46  Aligned_cols=149  Identities=14%  Similarity=0.139  Sum_probs=111.0

Q ss_pred             CCCccEEEccCCCCccccccH--HHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-cccccCCCCccChhhhc
Q 038110          471 CPQLKLFSMPAEKNSFFAIPH--NLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELK  547 (667)
Q Consensus       471 ~~~Lr~L~l~~~~~~~~~lp~--~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~  547 (667)
                      +++|+.|++++|..  ..+|.  .+ +++++|++|+|++|.+..+| .++++++|++|+|++ .+..+|       ..+.
T Consensus       547 l~~L~~L~Ls~N~L--~~ip~~~~l-~~L~~L~~L~Ls~N~l~~lp-~~~~L~~L~~L~Ls~N~l~~lp-------~~l~  615 (876)
T 4ecn_A          547 GPKIQIFYMGYNNL--EEFPASASL-QKMVKLGLLDCVHNKVRHLE-AFGTNVKLTDLKLDYNQIEEIP-------EDFC  615 (876)
T ss_dssp             TTTCCEEECCSSCC--CBCCCHHHH-TTCTTCCEEECTTSCCCBCC-CCCTTSEESEEECCSSCCSCCC-------TTSC
T ss_pred             cCCccEEEeeCCcC--CccCChhhh-hcCCCCCEEECCCCCcccch-hhcCCCcceEEECcCCccccch-------HHHh
Confidence            34667777766665  47887  55 99999999999999999999 999999999999999 788999       8899


Q ss_pred             CCCC-CCeEEeecCCCCCCCCCCcCCC--CCCeeEEEecCcc-CCCcccc-----cccccceEEeecCccccchHHHHHH
Q 038110          548 HFPN-LTSLELEVNDANTLPRGGLFFE--KPERYKILTGHRW-SRGFYRS-----SNKSYRSFRIDLDANVRLKDRLVVQ  618 (667)
Q Consensus       548 ~L~~-L~~L~l~~~~l~~lP~~~~~l~--~L~~l~~~~~~~~-~~~~~~~-----~~~~l~~l~l~~~~~~~~~~~~~~~  618 (667)
                      ++++ |++|++++|.+..+|..+..+.  +|+.|++..+... .++.++.     ....++.+.++.+.....+......
T Consensus       616 ~l~~~L~~L~Ls~N~L~~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N~L~~lp~~~~~~  695 (876)
T 4ecn_A          616 AFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFAT  695 (876)
T ss_dssp             EECTTCCEEECCSSCCCSCCSCCCTTCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSSCCCSCCHHHHHT
T ss_pred             hccccCCEEECcCCCCCcCchhhhccccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccCCcCCccCHHHHcc
Confidence            9999 9999999999999998766554  4888887755422 1222221     1124556666665555555555555


Q ss_pred             hhhcceeecccc
Q 038110          619 LRGIEELSLAGL  630 (667)
Q Consensus       619 l~~L~~L~L~~~  630 (667)
                      +++|+.|+|++|
T Consensus       696 l~~L~~L~Ls~N  707 (876)
T 4ecn_A          696 GSPISTIILSNN  707 (876)
T ss_dssp             TCCCSEEECCSC
T ss_pred             CCCCCEEECCCC
Confidence            567777777666

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

Probab=99.54  E-value=4e-14  Score=142.48  Aligned_cols=153  Identities=20%  Similarity=0.190  Sum_probs=123.4

Q ss_pred             cccccceeEEEEeccCccccCCCC--CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCc
Q 038110          446 ESRVRHCTSIVILDVKTYVLPEVM--ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTN  522 (667)
Q Consensus       446 ~~~~~~lr~L~l~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~  522 (667)
                      ...+++++.|++.+|.+..++...  .+++|++|++++|..  ..+|...|.++++|++|+|++|.++.+|. .++.+++
T Consensus        57 ~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~l--~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~  134 (270)
T 2o6q_A           57 FHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKL--QALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTK  134 (270)
T ss_dssp             SSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSCC--CCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             hcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECCCCcC--CcCCHhHcccccCCCEEECCCCccCeeCHHHhCcCcC
Confidence            456789999999999998888754  689999999999987  67888778999999999999999998865 5789999


Q ss_pred             ccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCccCCCc-ccccccccc
Q 038110          523 LHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHRWSRGF-YRSSNKSYR  599 (667)
Q Consensus       523 L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~~~~~~-~~~~~~~l~  599 (667)
                      |++|+|++ .+..+|.      ..++++++|++|++++|.+..+|.. +..+++|+.|++..+.-..++. .......++
T Consensus       135 L~~L~Ls~n~l~~~~~------~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~  208 (270)
T 2o6q_A          135 LTYLSLGYNELQSLPK------GVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLK  208 (270)
T ss_dssp             CCEEECCSSCCCCCCT------TTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCC
T ss_pred             CCEEECCCCcCCccCH------hHccCCcccceeEecCCcCcEeChhHhccCCCcCEEECCCCcCCcCCHHHhccccCCC
Confidence            99999999 8888882      3489999999999999999999886 5689999999887554333322 122234455


Q ss_pred             eEEeecC
Q 038110          600 SFRIDLD  606 (667)
Q Consensus       600 ~l~l~~~  606 (667)
                      .+.+.++
T Consensus       209 ~L~l~~N  215 (270)
T 2o6q_A          209 MLQLQEN  215 (270)
T ss_dssp             EEECCSS
T ss_pred             EEEecCC
Confidence            5666553

>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=99.53  E-value=2.5e-14  Score=145.51  Aligned_cols=168  Identities=18%  Similarity=0.199  Sum_probs=125.4

Q ss_pred             ccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEE
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTL  526 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L  526 (667)
                      ..+++++.|++.+|.+..++....+++|++|++++|..  ..++.  +.++++|++|+|++|.++.+|. ++.+++|++|
T Consensus        43 ~~l~~L~~L~l~~~~i~~~~~~~~l~~L~~L~L~~n~l--~~~~~--l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L  117 (291)
T 1h6t_A           43 NELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKL--TDIKP--LANLKNLGWLFLDENKVKDLSS-LKDLKKLKSL  117 (291)
T ss_dssp             HHHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCC--CCCGG--GTTCTTCCEEECCSSCCCCGGG-GTTCTTCCEE
T ss_pred             hhcCcccEEEccCCCcccChhHhcCCCCCEEEccCCcc--CCCcc--cccCCCCCEEECCCCcCCCChh-hccCCCCCEE
Confidence            45678999999999988887766889999999999987  56666  5999999999999999988765 8999999999


Q ss_pred             ecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeec
Q 038110          527 CLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDL  605 (667)
Q Consensus       527 ~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~  605 (667)
                      ++++ .+..+|        .+..+++|++|++++|.+..++ .+..+++|+.|++..+.-..+..               
T Consensus       118 ~L~~n~i~~~~--------~l~~l~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~L~~N~l~~~~~---------------  173 (291)
T 1h6t_A          118 SLEHNGISDIN--------GLVHLPQLESLYLGNNKITDIT-VLSRLTKLDTLSLEDNQISDIVP---------------  173 (291)
T ss_dssp             ECTTSCCCCCG--------GGGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSSCCCCCGG---------------
T ss_pred             ECCCCcCCCCh--------hhcCCCCCCEEEccCCcCCcch-hhccCCCCCEEEccCCccccchh---------------
Confidence            9998 777765        5888999999999999988884 45788889998776443222211               


Q ss_pred             CccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCC
Q 038110          606 DANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       606 ~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~  659 (667)
                                ...+++|+.|+|++|   .+..++ .+  ..+++|+.|++++|+
T Consensus       174 ----------l~~l~~L~~L~L~~N---~i~~l~-~l--~~l~~L~~L~l~~n~  211 (291)
T 1h6t_A          174 ----------LAGLTKLQNLYLSKN---HISDLR-AL--AGLKNLDVLELFSQE  211 (291)
T ss_dssp             ----------GTTCTTCCEEECCSS---CCCBCG-GG--TTCTTCSEEEEEEEE
T ss_pred             ----------hcCCCccCEEECCCC---cCCCCh-hh--ccCCCCCEEECcCCc
Confidence                      112356666666666   333343 24  556666666666653

>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=99.53  E-value=8.6e-14  Score=140.46  Aligned_cols=190  Identities=14%  Similarity=0.116  Sum_probs=147.0

Q ss_pred             EeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCcccEEecCC-cccc
Q 038110          457 ILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLHTLCLYG-GVGV  534 (667)
Q Consensus       457 l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~~L~L~~-~l~~  534 (667)
                      ..+.++..+|... .++|++|++++|..  ..++...|.++++|++|+|++|.+..+|. .++++++|++|+|++ .+..
T Consensus        14 c~~~~l~~ip~~l-~~~l~~L~ls~n~l--~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~   90 (276)
T 2z62_A           14 CMELNFYKIPDNL-PFSTKNLDLSFNPL--RHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQS   90 (276)
T ss_dssp             CTTSCCSSCCSSS-CTTCCEEECTTCCC--CEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCE
T ss_pred             ecCCCccccCCCC-CCCccEEECCCCcc--cccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCc
Confidence            3344566676643 36899999999987  56776556999999999999999998765 799999999999999 7777


Q ss_pred             cCCCCccChhhhcCCCCCCeEEeecCCCCCCCC-CCcCCCCCCeeEEEecCccC--CCcccccccccceEEeecCccccc
Q 038110          535 VDGVKNASLEELKHFPNLTSLELEVNDANTLPR-GGLFFEKPERYKILTGHRWS--RGFYRSSNKSYRSFRIDLDANVRL  611 (667)
Q Consensus       535 LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~-~~~~l~~L~~l~~~~~~~~~--~~~~~~~~~~l~~l~l~~~~~~~~  611 (667)
                      +|.      ..+.++++|++|++++|.+..++. .+..+++|+.|++..+.-..  ++........++.+.++.+.....
T Consensus        91 ~~~------~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~l~~~  164 (276)
T 2z62_A           91 LAL------GAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSI  164 (276)
T ss_dssp             ECT------TTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEE
T ss_pred             cCh------hhhcCCccccEEECCCCCccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCCCCCcC
Confidence            762      578999999999999999998887 47789999999988665333  344344456788888888766555


Q ss_pred             hHHHHHHhhhcc----eeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          612 KDRLVVQLRGIE----ELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       612 ~~~~~~~l~~L~----~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      .......+++|+    .|++++|   .+..++...  ....+|+.|++++|.-
T Consensus       165 ~~~~~~~l~~L~~l~l~L~ls~n---~l~~~~~~~--~~~~~L~~L~L~~n~l  212 (276)
T 2z62_A          165 YCTDLRVLHQMPLLNLSLDLSLN---PMNFIQPGA--FKEIRLKELALDTNQL  212 (276)
T ss_dssp             CGGGGHHHHTCTTCCEEEECCSS---CCCEECTTS--SCSCCEEEEECCSSCC
T ss_pred             CHHHhhhhhhccccceeeecCCC---cccccCccc--cCCCcccEEECCCCce
Confidence            444334456676    8899998   666677666  4566999999999864

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

Probab=99.53  E-value=9e-15  Score=150.53  Aligned_cols=195  Identities=13%  Similarity=0.101  Sum_probs=149.3

Q ss_pred             cccceeEEEEeccCcc-ccCCC---CCCCCccEEEccCCCCccccccHHHHhCC-----CCCcEEEcCCCCCccCC-ccc
Q 038110          448 RVRHCTSIVILDVKTY-VLPEV---MECPQLKLFSMPAEKNSFFAIPHNLFRSM-----LQVRVLDLTDMNLLSLP-SSI  517 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~-~l~~~---~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l-----~~Lr~L~L~~~~i~~lP-~si  517 (667)
                      ..+++++|++.+|.+. .+|..   ..+++|++|++++|..  ..+|..+ +.+     ++|++|+|++|.+..+| ..+
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 GISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSW--ATRDAWL-AELQQWLKPGLKVLSIAQAHSLNFSCEQV  169 (312)
T ss_dssp             TTSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBC--SSSSSHH-HHHHTTCCTTCCEEEEESCSCCCCCTTTC
T ss_pred             CcCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCCC--cchhHHH-HHHHHhhcCCCcEEEeeCCCCccchHHHh
Confidence            3678999999999986 56654   4789999999999987  4557654 776     99999999999999876 789


Q ss_pred             cCCCcccEEecCC-ccc-c--cCCCCccChhhh--cCCCCCCeEEeecCCCCCCCC---C-CcCCCCCCeeEEEecCccC
Q 038110          518 GLLTNLHTLCLYG-GVG-V--VDGVKNASLEEL--KHFPNLTSLELEVNDANTLPR---G-GLFFEKPERYKILTGHRWS  587 (667)
Q Consensus       518 ~~L~~L~~L~L~~-~l~-~--LP~~~~~~~~~l--~~L~~L~~L~l~~~~l~~lP~---~-~~~l~~L~~l~~~~~~~~~  587 (667)
                      +++++|++|+|++ .+. .  +|       ..+  +++++|++|++++|.+..+|.   . +..+++|+.|+++.+.-..
T Consensus       170 ~~l~~L~~L~Ls~N~l~~~~~~~-------~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~  242 (312)
T 1wwl_A          170 RVFPALSTLDLSDNPELGERGLI-------SALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRD  242 (312)
T ss_dssp             CCCSSCCEEECCSCTTCHHHHHH-------HHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCS
T ss_pred             ccCCCCCEEECCCCCcCcchHHH-------HHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCc
Confidence            9999999999998 432 2  34       455  899999999999999885543   2 2377899999887655333


Q ss_pred             CC--cccccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCCC
Q 038110          588 RG--FYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       588 ~~--~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~l  661 (667)
                      ..  ........++.+.++.+.....+..+.   ++|+.|+|++|   .+..+|. +  ..+++|+.|++++|+-.
T Consensus       243 ~~~~~~~~~l~~L~~L~Ls~N~l~~ip~~~~---~~L~~L~Ls~N---~l~~~p~-~--~~l~~L~~L~L~~N~l~  309 (312)
T 1wwl_A          243 AAGAPSCDWPSQLNSLNLSFTGLKQVPKGLP---AKLSVLDLSYN---RLDRNPS-P--DELPQVGNLSLKGNPFL  309 (312)
T ss_dssp             SCCCSCCCCCTTCCEEECTTSCCSSCCSSCC---SEEEEEECCSS---CCCSCCC-T--TTSCEEEEEECTTCTTT
T ss_pred             ccchhhhhhcCCCCEEECCCCccChhhhhcc---CCceEEECCCC---CCCCChh-H--hhCCCCCEEeccCCCCC
Confidence            22  112224668888888866655544433   79999999999   5666666 6  88999999999999753

>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=99.52  E-value=4.3e-14  Score=163.73  Aligned_cols=130  Identities=18%  Similarity=0.124  Sum_probs=105.0

Q ss_pred             cccccceeEEEEeccCcc-ccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCc-cCCccccCCCc
Q 038110          446 ESRVRHCTSIVILDVKTY-VLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLL-SLPSSIGLLTN  522 (667)
Q Consensus       446 ~~~~~~lr~L~l~~~~~~-~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-~lP~si~~L~~  522 (667)
                      ....++++.|++.+|.+. .+|... .+++|+.|++.+|... ..+|..+ ..+++|++|+|++|.+. .+|..++++++
T Consensus       414 l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~-~~~p~~~-~~l~~L~~L~L~~N~l~~~~p~~l~~l~~  491 (768)
T 3rgz_A          414 LSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLE-GEIPQEL-MYVKTLETLILDFNDLTGEIPSGLSNCTN  491 (768)
T ss_dssp             GGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCC-SCCCGGG-GGCTTCCEEECCSSCCCSCCCGGGGGCTT
T ss_pred             HhcCCCCCEEECcCCcccCcccHHHhcCCCCCEEECCCCccc-CcCCHHH-cCCCCceEEEecCCcccCcCCHHHhcCCC
Confidence            345677888888888775 444433 6888899999888875 6777776 88999999999999888 67888999999


Q ss_pred             ccEEecCC-ccc-ccCCCCccChhhhcCCCCCCeEEeecCCCC-CCCCCCcCCCCCCeeEEEecC
Q 038110          523 LHTLCLYG-GVG-VVDGVKNASLEELKHFPNLTSLELEVNDAN-TLPRGGLFFEKPERYKILTGH  584 (667)
Q Consensus       523 L~~L~L~~-~l~-~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~-~lP~~~~~l~~L~~l~~~~~~  584 (667)
                      |++|+|++ .+. .+|       ..++++++|++|++++|.+. .+|..+..+++|+.|++..+.
T Consensus       492 L~~L~L~~N~l~~~~p-------~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~  549 (768)
T 3rgz_A          492 LNWISLSNNRLTGEIP-------KWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNL  549 (768)
T ss_dssp             CCEEECCSSCCCSCCC-------GGGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSSE
T ss_pred             CCEEEccCCccCCcCC-------hHHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCCc
Confidence            99999988 554 678       88999999999999999876 678888889999999887543

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

Probab=99.52  E-value=8.2e-14  Score=140.34  Aligned_cols=184  Identities=18%  Similarity=0.144  Sum_probs=145.5

Q ss_pred             CCCccccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCC
Q 038110          442 EWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLL  520 (667)
Q Consensus       442 ~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L  520 (667)
                      .++....+++++.|++.+|.+..++....+++|++|++++|..  ..+|...|.++++|++|+|++|.+..+|.. ++.+
T Consensus        55 ~~~~l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l  132 (272)
T 3rfs_A           55 SVQGIQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGNQL--QSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKL  132 (272)
T ss_dssp             CCTTGGGCTTCCEEECTTSCCCCCGGGTTCTTCCEEECTTSCC--CCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTC
T ss_pred             cccccccCCCCcEEECCCCCCCCchhhcCCCCCCEEECCCCcc--CccChhHhcCCcCCCEEECCCCcCCccCHHHhccC
Confidence            4455667889999999999998887666899999999999987  677777779999999999999999988765 7999


Q ss_pred             CcccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCccCCCc-ccccccc
Q 038110          521 TNLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHRWSRGF-YRSSNKS  597 (667)
Q Consensus       521 ~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~~~~~~-~~~~~~~  597 (667)
                      ++|++|++++ .+..+|.      ..++++++|++|++++|.+..+|.. +..+++|+.|++..+.-..++. .......
T Consensus       133 ~~L~~L~L~~n~l~~~~~------~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~  206 (272)
T 3rfs_A          133 TNLTYLNLAHNQLQSLPK------GVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTS  206 (272)
T ss_dssp             TTCCEEECCSSCCCCCCT------TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTT
T ss_pred             CCCCEEECCCCccCccCH------HHhccCccCCEEECCCCCcCccCHHHhcCCccCCEEECCCCcCCccCHHHHhCCcC
Confidence            9999999999 7888872      4468999999999999999999886 4689999999888665333332 2233456


Q ss_pred             cceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhh
Q 038110          598 YRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNEL  642 (667)
Q Consensus       598 l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l  642 (667)
                      ++.+.+.++....       .+++|+.|++..|  ...+.+|.++
T Consensus       207 L~~L~l~~N~~~~-------~~~~l~~l~~~~n--~~~g~ip~~~  242 (272)
T 3rfs_A          207 LQYIWLHDNPWDC-------TCPGIRYLSEWIN--KHSGVVRNSA  242 (272)
T ss_dssp             CCEEECCSSCBCC-------CTTTTHHHHHHHH--HTGGGBBCTT
T ss_pred             CCEEEccCCCccc-------cCcHHHHHHHHHH--hCCCcccCcc
Confidence            7777777754432       1356777777777  5556677776

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

Probab=99.52  E-value=2.8e-14  Score=148.18  Aligned_cols=194  Identities=12%  Similarity=0.159  Sum_probs=143.8

Q ss_pred             cceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccC-CccccCCCcccEEec
Q 038110          450 RHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSIGLLTNLHTLCL  528 (667)
Q Consensus       450 ~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-P~si~~L~~L~~L~L  528 (667)
                      .+++.+.+.++.+..+|... .++|++|++++|..  ..+++..|.++++|++|+|++|.++.+ |..++++++|++|++
T Consensus        33 c~l~~l~~~~~~l~~ip~~~-~~~l~~L~l~~n~i--~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  109 (332)
T 2ft3_A           33 CHLRVVQCSDLGLKAVPKEI-SPDTTLLDLQNNDI--SELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYI  109 (332)
T ss_dssp             EETTEEECCSSCCSSCCSCC-CTTCCEEECCSSCC--CEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEEC
T ss_pred             ccCCEEECCCCCccccCCCC-CCCCeEEECCCCcC--CccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEEC
Confidence            46788999999998888754 57999999999987  567665569999999999999999977 788999999999999


Q ss_pred             CC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCccC--C-Cc-ccc---------
Q 038110          529 YG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHRWS--R-GF-YRS---------  593 (667)
Q Consensus       529 ~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~~~--~-~~-~~~---------  593 (667)
                      ++ .+..+|       ..+.  ++|++|++++|.+..+|.. +..+++|+.|++..+....  . +. +..         
T Consensus       110 ~~n~l~~l~-------~~~~--~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~L~~L~l~  180 (332)
T 2ft3_A          110 SKNHLVEIP-------PNLP--SSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKLNYLRIS  180 (332)
T ss_dssp             CSSCCCSCC-------SSCC--TTCCEEECCSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSCCCSCCBCC
T ss_pred             CCCcCCccC-------cccc--ccCCEEECCCCccCccCHhHhCCCccCCEEECCCCccccCCCCcccccCCccCEEECc
Confidence            99 888999       5555  8999999999999999986 6789999999887554211  1 10 111         


Q ss_pred             ----------cccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccc-hhhhhccCCCccEEEeecCCC
Q 038110          594 ----------SNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFV-NELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       594 ----------~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~-~~l~~~~l~~L~~L~l~~~~~  660 (667)
                                ....++.+.++.+............+++|+.|+|++|   .+..++ ..+  ..+++|+.|++++|.-
T Consensus       181 ~n~l~~l~~~~~~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N---~l~~~~~~~~--~~l~~L~~L~L~~N~l  253 (332)
T 2ft3_A          181 EAKLTGIPKDLPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHN---QIRMIENGSL--SFLPTLRELHLDNNKL  253 (332)
T ss_dssp             SSBCSSCCSSSCSSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSS---CCCCCCTTGG--GGCTTCCEEECCSSCC
T ss_pred             CCCCCccCccccCCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCC---cCCcCChhHh--hCCCCCCEEECCCCcC
Confidence                      1123444445544433333222234468888888887   444444 356  7788999999988854

>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=99.51  E-value=1.1e-13  Score=153.94  Aligned_cols=179  Identities=19%  Similarity=0.194  Sum_probs=138.5

Q ss_pred             CCCccccccceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-cc
Q 038110          442 EWSDESRVRHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IG  518 (667)
Q Consensus       442 ~~~~~~~~~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~  518 (667)
                      .+|. ...+++++|++++|.+..++.  ...+++|++|++++|..  ..+++..|+++++|++|+|++|.+..+|.. ++
T Consensus        19 ~ip~-~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i--~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~   95 (549)
T 2z81_A           19 SIPS-GLTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRI--NTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFG   95 (549)
T ss_dssp             SCCS-CCCTTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSCC--CEECTTTTTTCTTCCEEECTTSCCCSCCHHHHT
T ss_pred             cccc-cCCCCccEEECcCCccCccChhhhhcCCcccEEECCCCCc--CccChhhccccccCCEEECCCCccCccCHHHhc
Confidence            4443 234789999999999987753  34899999999999987  556655569999999999999999988765 99


Q ss_pred             CCCcccEEecCC-cccc--cCCCCccChhhhcCCCCCCeEEeecCC-CCCCCC-CCcCCCCCCeeEEEecCccC-CCccc
Q 038110          519 LLTNLHTLCLYG-GVGV--VDGVKNASLEELKHFPNLTSLELEVND-ANTLPR-GGLFFEKPERYKILTGHRWS-RGFYR  592 (667)
Q Consensus       519 ~L~~L~~L~L~~-~l~~--LP~~~~~~~~~l~~L~~L~~L~l~~~~-l~~lP~-~~~~l~~L~~l~~~~~~~~~-~~~~~  592 (667)
                      ++++|++|++++ .+..  .|       ..++++++|++|++++|. +..+|. .+..+++|+.|++..+.-.. .+...
T Consensus        96 ~l~~L~~L~Ls~n~l~~~~~~-------~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l  168 (549)
T 2z81_A           96 PLSSLKYLNLMGNPYQTLGVT-------SLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSL  168 (549)
T ss_dssp             TCTTCCEEECTTCCCSSSCSS-------CSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTT
T ss_pred             cCCCCcEEECCCCcccccchh-------hhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhhh
Confidence            999999999999 6664  45       678999999999999998 788875 57789999999988665322 22222


Q ss_pred             ccccccceEEeecCccccchHHHHHHhhhcceeecccc
Q 038110          593 SSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGL  630 (667)
Q Consensus       593 ~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~  630 (667)
                      .....++.+.+..+.....+......+++|+.|++++|
T Consensus       169 ~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n  206 (549)
T 2z81_A          169 KSIRDIHHLTLHLSESAFLLEIFADILSSVRYLELRDT  206 (549)
T ss_dssp             TTCSEEEEEEEECSBSTTHHHHHHHSTTTBSEEEEESC
T ss_pred             hccccCceEecccCcccccchhhHhhcccccEEEccCC
Confidence            33445667777776555555555556789999999998

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

Probab=99.51  E-value=3.4e-14  Score=160.85  Aligned_cols=206  Identities=12%  Similarity=0.122  Sum_probs=121.3

Q ss_pred             ccccc-eeEEEEeccCccccCCCC---CCCCccEEEccCCCCccccccHHHHh-------CCCCCcEEEcCCCCCccCCc
Q 038110          447 SRVRH-CTSIVILDVKTYVLPEVM---ECPQLKLFSMPAEKNSFFAIPHNLFR-------SMLQVRVLDLTDMNLLSLPS  515 (667)
Q Consensus       447 ~~~~~-lr~L~l~~~~~~~l~~~~---~~~~Lr~L~l~~~~~~~~~lp~~~~~-------~l~~Lr~L~L~~~~i~~lP~  515 (667)
                      ..+.+ ++.|++.+|.+..+|...   .+++|++|++++|... ..+|..+ .       .+.+|++|+|++|.+..+|.
T Consensus       373 ~~l~~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~-~~~p~~l-~~~~~~~~~~~~L~~L~Ls~N~l~~lp~  450 (636)
T 4eco_A          373 CGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIG-SVDGKNF-DPLDPTPFKGINVSSINLSNNQISKFPK  450 (636)
T ss_dssp             EEECTTCCEEECCSSCCSSCCSCCCTTCSSCEEEEECCSSCTT-TTTTCSS-CTTCSSCCCCCCEEEEECCSSCCCSCCT
T ss_pred             hhhcccCcEEEccCCcCcccchhhhhcccCccCEEECcCCcCC-Ccchhhh-cccccccccCCCCCEEECcCCccCcCCH
Confidence            34445 777777777766666543   2336777777776664 4444443 4       56677777777777777766


Q ss_pred             ccc-CCCcccEEecCC-cccccCCCCccC-hhhhcCCCCCCeEEeecCCCCCCCCCCc--CCCCCCeeEEEecCccCCCc
Q 038110          516 SIG-LLTNLHTLCLYG-GVGVVDGVKNAS-LEELKHFPNLTSLELEVNDANTLPRGGL--FFEKPERYKILTGHRWSRGF  590 (667)
Q Consensus       516 si~-~L~~L~~L~L~~-~l~~LP~~~~~~-~~~l~~L~~L~~L~l~~~~l~~lP~~~~--~l~~L~~l~~~~~~~~~~~~  590 (667)
                      .+. .+++|++|+|++ .+..+|...... ...+.++++|++|++++|.+..+|..+.  .+++|+.|++..+.-..++.
T Consensus       451 ~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~~ip~  530 (636)
T 4eco_A          451 ELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNKLTKLSDDFRATTLPYLVGIDLSYNSFSKFPT  530 (636)
T ss_dssp             HHHHTTCCCSEEECCSSCCSBCCSSSSEETTEECTTGGGCCEEECCSSCCCBCCGGGSTTTCTTCCEEECCSSCCSSCCC
T ss_pred             HHHccCCCCCEEECCCCCCCCcCHHHhccccccccccCCccEEECcCCcCCccChhhhhccCCCcCEEECCCCCCCCcCh
Confidence            544 467777777776 555666210000 0011223367777777777777776655  67777777666554333443


Q ss_pred             ccccccccceEEeec------CccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCCC
Q 038110          591 YRSSNKSYRSFRIDL------DANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       591 ~~~~~~~l~~l~l~~------~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~l  661 (667)
                      .......++.+.|+.      +......+.....+++|+.|+|++|   .++.+|..+  .  ++|+.|+|++|+..
T Consensus       531 ~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~~l~~l~~L~~L~Ls~N---~l~~ip~~~--~--~~L~~L~Ls~N~l~  600 (636)
T 4eco_A          531 QPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSN---DIRKVNEKI--T--PNISVLDIKDNPNI  600 (636)
T ss_dssp             GGGGCSSCCEEECCSCBCTTCCBCCCCCCTTGGGCSSCCEEECCSS---CCCBCCSCC--C--TTCCEEECCSCTTC
T ss_pred             hhhcCCCCCEEECCCCcccccCcccccChHHHhcCCCCCEEECCCC---cCCccCHhH--h--CcCCEEECcCCCCc
Confidence            333345566666632      2222222222234578888888888   456777776  3  78888888888654

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.51  E-value=1.1e-13  Score=152.98  Aligned_cols=162  Identities=16%  Similarity=0.078  Sum_probs=78.2

Q ss_pred             cceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecC
Q 038110          450 RHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLY  529 (667)
Q Consensus       450 ~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~  529 (667)
                      ++++.|++++|.+..+|  ..+++|++|++++|..  ..+|. + ++  +|++|+|++|.++.+|.   .+++|++|+|+
T Consensus        80 ~~L~~L~Ls~N~l~~ip--~~l~~L~~L~Ls~N~l--~~ip~-l-~~--~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls  148 (571)
T 3cvr_A           80 PQITVLEITQNALISLP--ELPASLEYLDACDNRL--STLPE-L-PA--SLKHLDVDNNQLTMLPE---LPALLEYINAD  148 (571)
T ss_dssp             TTCSEEECCSSCCSCCC--CCCTTCCEEECCSSCC--SCCCC-C-CT--TCCEEECCSSCCSCCCC---CCTTCCEEECC
T ss_pred             CCCCEEECcCCCCcccc--cccCCCCEEEccCCCC--CCcch-h-hc--CCCEEECCCCcCCCCCC---cCccccEEeCC
Confidence            44555555555555554  2345555555555544  23444 2 32  55555555555555554   34555555555


Q ss_pred             C-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeecCcc
Q 038110          530 G-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDAN  608 (667)
Q Consensus       530 ~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~  608 (667)
                      + .+..+|       .   .+++|++|++++|.++.+|. +.  ++|+.|+++.+.-..++.   ....+          
T Consensus       149 ~N~l~~lp-------~---~l~~L~~L~Ls~N~L~~lp~-l~--~~L~~L~Ls~N~L~~lp~---~~~~L----------  202 (571)
T 3cvr_A          149 NNQLTMLP-------E---LPTSLEVLSVRNNQLTFLPE-LP--ESLEALDVSTNLLESLPA---VPVRN----------  202 (571)
T ss_dssp             SSCCSCCC-------C---CCTTCCEEECCSSCCSCCCC-CC--TTCCEEECCSSCCSSCCC---CC-------------
T ss_pred             CCccCcCC-------C---cCCCcCEEECCCCCCCCcch-hh--CCCCEEECcCCCCCchhh---HHHhh----------
Confidence            5 444455       2   34455555555555555555 33  455555444332222221   11111          


Q ss_pred             ccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          609 VRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       609 ~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                             ....+.|+.|+|++|   .+..+|.++  ..+++|+.|+|++|+-
T Consensus       203 -------~~~~~~L~~L~Ls~N---~l~~lp~~l--~~l~~L~~L~L~~N~l  242 (571)
T 3cvr_A          203 -------HHSEETEIFFRCREN---RITHIPENI--LSLDPTCTIILEDNPL  242 (571)
T ss_dssp             ------------CCEEEECCSS---CCCCCCGGG--GGSCTTEEEECCSSSC
T ss_pred             -------hcccccceEEecCCC---cceecCHHH--hcCCCCCEEEeeCCcC
Confidence                   001122366666666   444566666  4466666666666653

>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=99.50  E-value=1.7e-13  Score=153.36  Aligned_cols=187  Identities=15%  Similarity=0.065  Sum_probs=110.2

Q ss_pred             cccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEe
Q 038110          448 RVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLC  527 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~  527 (667)
                      .+++++.|++++|.+..+|.  .+++|++|++++|..  ..+|.    .+++|++|++++|.++.+|..   +++|++|+
T Consensus        79 ~l~~L~~L~Ls~N~l~~lp~--~l~~L~~L~Ls~N~l--~~l~~----~l~~L~~L~L~~N~l~~lp~~---l~~L~~L~  147 (622)
T 3g06_A           79 LPPELRTLEVSGNQLTSLPV--LPPGLLELSIFSNPL--THLPA----LPSGLCKLWIFGNQLTSLPVL---PPGLQELS  147 (622)
T ss_dssp             CCTTCCEEEECSCCCSCCCC--CCTTCCEEEECSCCC--CCCCC----CCTTCCEEECCSSCCSCCCCC---CTTCCEEE
T ss_pred             cCCCCCEEEcCCCcCCcCCC--CCCCCCEEECcCCcC--CCCCC----CCCCcCEEECCCCCCCcCCCC---CCCCCEEE
Confidence            34556666666666555554  455666666655554  34443    345555555555555555543   25666666


Q ss_pred             cCC-cccccCCCCccChhhhcC--------------CCCCCeEEeecCCCCCCCCCCcC-----------------CCCC
Q 038110          528 LYG-GVGVVDGVKNASLEELKH--------------FPNLTSLELEVNDANTLPRGGLF-----------------FEKP  575 (667)
Q Consensus       528 L~~-~l~~LP~~~~~~~~~l~~--------------L~~L~~L~l~~~~l~~lP~~~~~-----------------l~~L  575 (667)
                      |++ .+..+|.    .+..+..              +++|++|++++|.+..+|..+.+                 +++|
T Consensus       148 Ls~N~l~~l~~----~~~~L~~L~L~~N~l~~l~~~~~~L~~L~Ls~N~l~~l~~~~~~L~~L~L~~N~l~~l~~~~~~L  223 (622)
T 3g06_A          148 VSDNQLASLPA----LPSELCKLWAYNNQLTSLPMLPSGLQELSVSDNQLASLPTLPSELYKLWAYNNRLTSLPALPSGL  223 (622)
T ss_dssp             CCSSCCSCCCC----CCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSSCCCCCTTC
T ss_pred             CcCCcCCCcCC----ccCCCCEEECCCCCCCCCcccCCCCcEEECCCCCCCCCCCccchhhEEECcCCcccccCCCCCCC
Confidence            666 4444441    0112222              26667777777766666654211                 1445


Q ss_pred             CeeEEEecCccCCCcccccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEe
Q 038110          576 ERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQI  655 (667)
Q Consensus       576 ~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l  655 (667)
                      +.|+++.+.   +..++.....++.+.|+++.....+.    .+++|+.|+|++|   .+..+|..+  ..+++|+.|+|
T Consensus       224 ~~L~Ls~N~---L~~lp~~l~~L~~L~Ls~N~L~~lp~----~~~~L~~L~Ls~N---~L~~lp~~l--~~l~~L~~L~L  291 (622)
T 3g06_A          224 KELIVSGNR---LTSLPVLPSELKELMVSGNRLTSLPM----LPSGLLSLSVYRN---QLTRLPESL--IHLSSETTVNL  291 (622)
T ss_dssp             CEEECCSSC---CSCCCCCCTTCCEEECCSSCCSCCCC----CCTTCCEEECCSS---CCCSCCGGG--GGSCTTCEEEC
T ss_pred             CEEEccCCc---cCcCCCCCCcCcEEECCCCCCCcCCc----ccccCcEEeCCCC---CCCcCCHHH--hhccccCEEEe
Confidence            555554332   22233444566777777765554443    4578999999988   566789888  88999999999


Q ss_pred             ecCCCC
Q 038110          656 EGYRGP  661 (667)
Q Consensus       656 ~~~~~l  661 (667)
                      ++|+-.
T Consensus       292 ~~N~l~  297 (622)
T 3g06_A          292 EGNPLS  297 (622)
T ss_dssp             CSCCCC
T ss_pred             cCCCCC
Confidence            999754

>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=99.50  E-value=1.8e-13  Score=149.03  Aligned_cols=136  Identities=14%  Similarity=0.139  Sum_probs=94.6

Q ss_pred             CCCccccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCC
Q 038110          442 EWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLT  521 (667)
Q Consensus       442 ~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~  521 (667)
                      .++....+++++.|++++|.+..++....+++|++|++++|..  ..++.  |+++++|++|++++|.++.+|. +++++
T Consensus        60 ~l~~~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~l~~n~l--~~~~~--~~~l~~L~~L~L~~n~l~~~~~-~~~l~  134 (466)
T 1o6v_A           60 SIDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQI--ADITP--LANLTNLTGLTLFNNQITDIDP-LKNLT  134 (466)
T ss_dssp             CCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCC--CCCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCT
T ss_pred             cCcchhhhcCCCEEECCCCccCCchhhhccccCCEEECCCCcc--ccChh--hcCCCCCCEEECCCCCCCCChH-HcCCC
Confidence            3455566788899999988888777756788899998888876  45655  4888888888888888888876 88888


Q ss_pred             cccEEecCC-cccccCC-------------CCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEec
Q 038110          522 NLHTLCLYG-GVGVVDG-------------VKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTG  583 (667)
Q Consensus       522 ~L~~L~L~~-~l~~LP~-------------~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~  583 (667)
                      +|++|++++ .+..+|.             .....+..++++++|++|++++|.+..+|. +..+++|+.|++..+
T Consensus       135 ~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n  209 (466)
T 1o6v_A          135 NLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISV-LAKLTNLESLIATNN  209 (466)
T ss_dssp             TCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCSEEECCSS
T ss_pred             CCCEEECCCCccCCChhhccCCcccEeecCCcccCchhhccCCCCCEEECcCCcCCCChh-hccCCCCCEEEecCC
Confidence            888888877 4444431             001111235666777777777776666553 355666666665543

>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=99.50  E-value=1.6e-13  Score=149.47  Aligned_cols=120  Identities=16%  Similarity=0.205  Sum_probs=104.5

Q ss_pred             cccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEe
Q 038110          448 RVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLC  527 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~  527 (667)
                      .+.+++.|++.++.+..+|....+++|++|++++|..  ..+|+  |.++++|++|++++|.+..+|. ++++++|++|+
T Consensus        44 ~l~~l~~L~l~~~~i~~l~~~~~l~~L~~L~Ls~n~l--~~~~~--~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~  118 (466)
T 1o6v_A           44 DLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQL--TDITP--LKNLTKLVDILMNNNQIADITP-LANLTNLTGLT  118 (466)
T ss_dssp             HHHTCCEEECCSSCCCCCTTGGGCTTCCEEECCSSCC--CCCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEEE
T ss_pred             HhccccEEecCCCCCccCcchhhhcCCCEEECCCCcc--CCchh--hhccccCCEEECCCCccccChh-hcCCCCCCEEE
Confidence            4578999999999999888777899999999999987  56776  5999999999999999999887 99999999999


Q ss_pred             cCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEE
Q 038110          528 LYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKIL  581 (667)
Q Consensus       528 L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~  581 (667)
                      +++ .+..+|       . ++++++|++|++++|.+..+|. +..+++|+.|.+.
T Consensus       119 L~~n~l~~~~-------~-~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~l~  164 (466)
T 1o6v_A          119 LFNNQITDID-------P-LKNLTNLNRLELSSNTISDISA-LSGLTSLQQLSFG  164 (466)
T ss_dssp             CCSSCCCCCG-------G-GTTCTTCSEEEEEEEEECCCGG-GTTCTTCSEEEEE
T ss_pred             CCCCCCCCCh-------H-HcCCCCCCEEECCCCccCCChh-hccCCcccEeecC
Confidence            999 788887       4 8999999999999998887774 5667777777664

>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=99.50  E-value=5.7e-14  Score=144.16  Aligned_cols=171  Identities=12%  Similarity=0.093  Sum_probs=138.9

Q ss_pred             CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-cccccCCCCccChhhh
Q 038110          468 VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVDGVKNASLEEL  546 (667)
Q Consensus       468 ~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l  546 (667)
                      ...+++|++|.+.++..  ..+|.  +..+++|++|+|++|.+..+|. ++.+++|++|+|++ .+..+|        .+
T Consensus        37 ~~~l~~L~~L~l~~~~i--~~l~~--~~~l~~L~~L~L~~n~i~~~~~-~~~l~~L~~L~L~~n~l~~~~--------~~  103 (308)
T 1h6u_A           37 QADLDGITTLSAFGTGV--TTIEG--VQYLNNLIGLELKDNQITDLAP-LKNLTKITELELSGNPLKNVS--------AI  103 (308)
T ss_dssp             HHHHHTCCEEECTTSCC--CCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCSCCCSCCG--------GG
T ss_pred             HHHcCCcCEEEeeCCCc--cCchh--hhccCCCCEEEccCCcCCCChh-HccCCCCCEEEccCCcCCCch--------hh
Confidence            33678999999999977  56773  4999999999999999999988 99999999999999 777776        59


Q ss_pred             cCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeecCccccchHHHHHHhhhcceee
Q 038110          547 KHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELS  626 (667)
Q Consensus       547 ~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~  626 (667)
                      .++++|++|++++|.+..+|. +..+++|+.|++..+.-..++. ......++.+.++.+.......  ...+++|+.|+
T Consensus       104 ~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~  179 (308)
T 1h6u_A          104 AGLQSIKTLDLTSTQITDVTP-LAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGNAQVSDLTP--LANLSKLTTLK  179 (308)
T ss_dssp             TTCTTCCEEECTTSCCCCCGG-GTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEE
T ss_pred             cCCCCCCEEECCCCCCCCchh-hcCCCCCCEEECCCCccCcCcc-ccCCCCccEEEccCCcCCCChh--hcCCCCCCEEE
Confidence            999999999999999999886 6889999999988665444433 2334567788888766555444  34568999999


Q ss_pred             ccccccccccccchhhhhccCCCccEEEeecCCCC
Q 038110          627 LAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       627 L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~l  661 (667)
                      |++|   .+..++. +  ..+++|+.|++++|.-.
T Consensus       180 l~~n---~l~~~~~-l--~~l~~L~~L~L~~N~l~  208 (308)
T 1h6u_A          180 ADDN---KISDISP-L--ASLPNLIEVHLKNNQIS  208 (308)
T ss_dssp             CCSS---CCCCCGG-G--GGCTTCCEEECTTSCCC
T ss_pred             CCCC---ccCcChh-h--cCCCCCCEEEccCCccC
Confidence            9999   5555654 6  88999999999998643

>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=99.49  E-value=8.4e-14  Score=137.34  Aligned_cols=187  Identities=12%  Similarity=0.077  Sum_probs=144.0

Q ss_pred             eccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCC-CccCCc-cccCCCcccEEecCC--ccc
Q 038110          458 LDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMN-LLSLPS-SIGLLTNLHTLCLYG--GVG  533 (667)
Q Consensus       458 ~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~-i~~lP~-si~~L~~L~~L~L~~--~l~  533 (667)
                      ..+++..+|.  -.++|+.|++++|..  ..+|...|.++++|++|++++|. ++.+|. .++++++|++|++++  .+.
T Consensus        19 ~c~~l~~ip~--~~~~l~~L~l~~n~l--~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~   94 (239)
T 2xwt_C           19 TCKDIQRIPS--LPPSTQTLKLIETHL--RTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLT   94 (239)
T ss_dssp             EECSCSSCCC--CCTTCCEEEEESCCC--SEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCC
T ss_pred             EccCccccCC--CCCcccEEEEeCCcc--eEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCee
Confidence            3444777777  456899999999987  67887667999999999999997 998876 789999999999985  788


Q ss_pred             ccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCC---eeEEEec-CccCCCc-ccccccccc-eEEeecCc
Q 038110          534 VVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPE---RYKILTG-HRWSRGF-YRSSNKSYR-SFRIDLDA  607 (667)
Q Consensus       534 ~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~---~l~~~~~-~~~~~~~-~~~~~~~l~-~l~l~~~~  607 (667)
                      .+|.      ..|.++++|++|++++|.+..+|. +..+++|+   .|++..+ .-..++. .......++ .+.++.+.
T Consensus        95 ~i~~------~~f~~l~~L~~L~l~~n~l~~lp~-~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~  167 (239)
T 2xwt_C           95 YIDP------DALKELPLLKFLGIFNTGLKMFPD-LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNG  167 (239)
T ss_dssp             EECT------TSEECCTTCCEEEEEEECCCSCCC-CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCC
T ss_pred             EcCH------HHhCCCCCCCEEeCCCCCCccccc-cccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCC
Confidence            8873      568899999999999999999998 67777787   8888765 3222222 122344566 77777766


Q ss_pred             cccchHHHHHHhhhcceeeccccccccccccchh-hhhccC-CCccEEEeecCCC
Q 038110          608 NVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNE-LVKVGS-SQLKYLQIEGYRG  660 (667)
Q Consensus       608 ~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~-l~~~~l-~~L~~L~l~~~~~  660 (667)
                      ....+...... ++|+.|+|++|  ..+..+|.. +  ..+ ++|+.|++++|+-
T Consensus       168 l~~i~~~~~~~-~~L~~L~L~~n--~~l~~i~~~~~--~~l~~~L~~L~l~~N~l  217 (239)
T 2xwt_C          168 FTSVQGYAFNG-TKLDAVYLNKN--KYLTVIDKDAF--GGVYSGPSLLDVSQTSV  217 (239)
T ss_dssp             CCEECTTTTTT-CEEEEEECTTC--TTCCEECTTTT--TTCSBCCSEEECTTCCC
T ss_pred             CcccCHhhcCC-CCCCEEEcCCC--CCcccCCHHHh--hccccCCcEEECCCCcc
Confidence            55555444334 69999999999  436667644 5  778 9999999999864

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

Probab=99.49  E-value=2.5e-14  Score=156.40  Aligned_cols=195  Identities=11%  Similarity=0.070  Sum_probs=127.5

Q ss_pred             cceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-----------
Q 038110          450 RHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-----------  516 (667)
Q Consensus       450 ~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-----------  516 (667)
                      ++++.|++++|.+..+++  ...+++|++|++++|...  .+++  |+.+++|++|+|++|.++.+|..           
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~~N  109 (487)
T 3oja_A           34 WNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLY--ETLD--LESLSTLRTLDLNNNYVQELLVGPSIETLHAANN  109 (487)
T ss_dssp             GGCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSCCE--EEEE--CTTCTTCCEEECCSSEEEEEEECTTCCEEECCSS
T ss_pred             CCccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCC--CCcc--cccCCCCCEEEecCCcCCCCCCCCCcCEEECcCC
Confidence            467777777776665543  226677777777776653  2333  36777777777777666655432           


Q ss_pred             ------ccCCCcccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCC-CCCCc-CCCCCCeeEEEecCccC
Q 038110          517 ------IGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTL-PRGGL-FFEKPERYKILTGHRWS  587 (667)
Q Consensus       517 ------i~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~l-P~~~~-~l~~L~~l~~~~~~~~~  587 (667)
                            ...+++|++|+|++ .+..++      +..++++++|++|++++|.+..+ |..+. .+++|+.|+++.+.-..
T Consensus       110 ~l~~~~~~~l~~L~~L~L~~N~l~~~~------~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~~  183 (487)
T 3oja_A          110 NISRVSCSRGQGKKNIYLANNKITMLR------DLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYD  183 (487)
T ss_dssp             CCCCEEECCCSSCEEEECCSSCCCSGG------GBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCE
T ss_pred             cCCCCCccccCCCCEEECCCCCCCCCC------chhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCCcccc
Confidence                  01234555555555 444442      15677888888888888887764 44444 68888888877554333


Q ss_pred             CCcccccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCCC
Q 038110          588 RGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       588 ~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~l  661 (667)
                      ++... ....++.|.|+++.....++.+ ..+++|+.|+|++|   .+..+|.++  ..+++|+.|++++|+..
T Consensus       184 ~~~~~-~l~~L~~L~Ls~N~l~~~~~~~-~~l~~L~~L~Ls~N---~l~~lp~~l--~~l~~L~~L~l~~N~l~  250 (487)
T 3oja_A          184 VKGQV-VFAKLKTLDLSSNKLAFMGPEF-QSAAGVTWISLRNN---KLVLIEKAL--RFSQNLEHFDLRGNGFH  250 (487)
T ss_dssp             EECCC-CCTTCCEEECCSSCCCEECGGG-GGGTTCSEEECTTS---CCCEECTTC--CCCTTCCEEECTTCCBC
T ss_pred             ccccc-cCCCCCEEECCCCCCCCCCHhH-cCCCCccEEEecCC---cCcccchhh--ccCCCCCEEEcCCCCCc
Confidence            32222 2556778888887666665553 45589999999998   566688888  88899999999998754

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

Probab=99.49  E-value=1.5e-13  Score=160.79  Aligned_cols=134  Identities=19%  Similarity=0.233  Sum_probs=107.4

Q ss_pred             cCCCccccccceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccC-Cccc
Q 038110          441 WEWSDESRVRHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSI  517 (667)
Q Consensus       441 ~~~~~~~~~~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-P~si  517 (667)
                      ...|.  .++++++|++++|.+..++.  ...+++|++|++++|... ..+++..|.++++|++|+|++|.+..+ |..|
T Consensus        17 ~~vP~--lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~-~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~   93 (844)
T 3j0a_A           17 TQVPQ--VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTP-LTIDKEAFRNLPNLRILDLGSSKIYFLHPDAF   93 (844)
T ss_dssp             SCCCS--SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCC-CEECTTTTSSCTTCCEEECTTCCCCEECTTSS
T ss_pred             CCCCC--CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCc-cccCHHHhcCCCCCCEEECCCCcCcccCHhHc
Confidence            34555  67899999999999977643  338999999999999654 677555569999999999999999966 8899


Q ss_pred             cCCCcccEEecCC-cccc-cCCCCccChhh--hcCCCCCCeEEeecCCCCCCCC--CCcCCCCCCeeEEEecC
Q 038110          518 GLLTNLHTLCLYG-GVGV-VDGVKNASLEE--LKHFPNLTSLELEVNDANTLPR--GGLFFEKPERYKILTGH  584 (667)
Q Consensus       518 ~~L~~L~~L~L~~-~l~~-LP~~~~~~~~~--l~~L~~L~~L~l~~~~l~~lP~--~~~~l~~L~~l~~~~~~  584 (667)
                      ++|.+|++|+|++ .+.. +|       ..  +++|++|++|++++|.+..++.  .+.++++|+.|++..+.
T Consensus        94 ~~l~~L~~L~Ls~n~l~~~~~-------~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~  159 (844)
T 3j0a_A           94 QGLFHLFELRLYFCGLSDAVL-------KDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQ  159 (844)
T ss_dssp             CSCSSCCCEECTTCCCSSCCS-------TTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSC
T ss_pred             cCCcccCEeeCcCCCCCcccc-------cCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCc
Confidence            9999999999998 5554 45       44  7888889999998888777643  46788888888877543

>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=99.48  E-value=1.5e-13  Score=155.00  Aligned_cols=202  Identities=14%  Similarity=0.079  Sum_probs=149.3

Q ss_pred             CCCccccccceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccC-Ccccc
Q 038110          442 EWSDESRVRHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSIG  518 (667)
Q Consensus       442 ~~~~~~~~~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-P~si~  518 (667)
                      .+|. ..++++++|++++|.+..++.  ...+++|++|++++|..  ..+++..|.++++|++|+|++|.++.+ |.+|+
T Consensus        25 ~ip~-~~~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l--~~i~~~~~~~l~~L~~L~Ls~n~l~~~~p~~~~  101 (606)
T 3vq2_A           25 KVPD-DIPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEI--ETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFS  101 (606)
T ss_dssp             SCCT-TSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCC--CEECTTTTTTCTTCCEEECTTCCCCCCCTTSST
T ss_pred             cCCC-CCCCCcCEEECCCCCcCEeChhhccCCccCcEEeCCCCcc--cccCHHHhhchhhcCEeECCCCcccccChhhcC
Confidence            4443 345889999999999987765  33899999999999987  566555569999999999999999977 88899


Q ss_pred             CCCcccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCC--CCCCCCcCCCCCCeeEEEecCccCCC--cccc
Q 038110          519 LLTNLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDAN--TLPRGGLFFEKPERYKILTGHRWSRG--FYRS  593 (667)
Q Consensus       519 ~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~--~lP~~~~~l~~L~~l~~~~~~~~~~~--~~~~  593 (667)
                      +|++|++|++++ .+..+|.      ..++++++|++|++++|.+.  .+|..+.++++|+.|++..+.-..+.  .+..
T Consensus       102 ~l~~L~~L~L~~n~l~~~~~------~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~  175 (606)
T 3vq2_A          102 GLTSLENLVAVETKLASLES------FPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQF  175 (606)
T ss_dssp             TCTTCCEEECTTSCCCCSSS------SCCTTCTTCCEEECCSSCCCCCCCCGGGGTCTTCCEEECCSSCCCEECTTTTHH
T ss_pred             CcccCCEEEccCCccccccc------cccCCCCCCCEEeCCCCcccceechHhHhhcCCCCEEEccCCcceecChhhhhh
Confidence            999999999999 7777763      56899999999999999987  47888889999999988755422221  1111


Q ss_pred             cc---cccceEEeecCccccchHHHHHHhhhcceeeccccccccc-cccchhhhhccCCCccEEEeec
Q 038110          594 SN---KSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDI-KNFVNELVKVGSSQLKYLQIEG  657 (667)
Q Consensus       594 ~~---~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~-~~~~~~l~~~~l~~L~~L~l~~  657 (667)
                      +.   ..+..+.++.+.....++..... .+|+.|++++|  ... ..+|.++  ..+++|+.+.+..
T Consensus       176 l~~L~~~l~~L~l~~n~l~~~~~~~~~~-~~L~~L~L~~n--~~~~~~~~~~~--~~l~~L~~l~l~~  238 (606)
T 3vq2_A          176 LRENPQVNLSLDMSLNPIDFIQDQAFQG-IKLHELTLRGN--FNSSNIMKTCL--QNLAGLHVHRLIL  238 (606)
T ss_dssp             HHHCTTCCCEEECTTCCCCEECTTTTTT-CEEEEEEEESC--CSCHHHHHHHH--HTTTTCEEEEEEE
T ss_pred             hhccccccceeeccCCCcceeCcccccC-ceeeeeeccCC--ccchhHHHHHh--ccccccccccccc
Confidence            11   11335666666555554444333 38889999888  322 3466777  7888888877753

>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=99.48  E-value=1.1e-13  Score=156.04  Aligned_cols=182  Identities=12%  Similarity=-0.004  Sum_probs=95.7

Q ss_pred             CCCCccEEEccCCCCccccc---cHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-cccccCC--------
Q 038110          470 ECPQLKLFSMPAEKNSFFAI---PHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVDG--------  537 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~l---p~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP~--------  537 (667)
                      .+++|++|++++|...  .+   |..+ ..+++|++|++++|.+..+|..++.+++|++|++++ .+..++.        
T Consensus       348 ~l~~L~~L~ls~n~l~--~~~~~~~~~-~~~~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~  424 (606)
T 3vq2_A          348 ALPSLSYLDLSRNALS--FSGCCSYSD-LGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLE  424 (606)
T ss_dssp             CCTTCCEEECCSSCEE--EEEECCHHH-HCCSCCCEEECCSCSEEEECCCCTTCTTCCEEECTTSEEESTTTTTTTTTCT
T ss_pred             cCCCCCEEECcCCccC--CCcchhhhh-ccCCcccEeECCCCccccchhhccCCCCCCeeECCCCccCCccChhhhhccc
Confidence            4566666666666542  22   4544 778888888888888777777777788888888877 4444330        


Q ss_pred             -------CC----ccChhhhcCCCCCCeEEeecCCCCC--CCCCCcCCCCCCeeEEEecCccCC-CcccccccccceEEe
Q 038110          538 -------VK----NASLEELKHFPNLTSLELEVNDANT--LPRGGLFFEKPERYKILTGHRWSR-GFYRSSNKSYRSFRI  603 (667)
Q Consensus       538 -------~~----~~~~~~l~~L~~L~~L~l~~~~l~~--lP~~~~~l~~L~~l~~~~~~~~~~-~~~~~~~~~l~~l~l  603 (667)
                             +.    ...+..++++++|++|++++|.+..  +|..+..+++|+.|++..+.-..+ +........++.+.+
T Consensus       425 ~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L  504 (606)
T 3vq2_A          425 KLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNM  504 (606)
T ss_dssp             TCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEC
T ss_pred             cCCEEECcCCCCCccchhhhcCCCCCCEEECCCCcCCCcchHHhhccCCCCCEEECCCCcCCccChhhhcccccCCEEEC
Confidence                   00    0011334444445555554444432  344444455555554443321111 111122344555555


Q ss_pred             ecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCC-CccEEEeecCC
Q 038110          604 DLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSS-QLKYLQIEGYR  659 (667)
Q Consensus       604 ~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~-~L~~L~l~~~~  659 (667)
                      +.+......+.....+++|+.|+|++|   .+..+|..+  ..++ +|+.|++++|+
T Consensus       505 s~N~l~~~~~~~~~~l~~L~~L~l~~N---~l~~~p~~~--~~l~~~L~~l~l~~N~  556 (606)
T 3vq2_A          505 SHNNLLFLDSSHYNQLYSLSTLDCSFN---RIETSKGIL--QHFPKSLAFFNLTNNS  556 (606)
T ss_dssp             CSSCCSCEEGGGTTTCTTCCEEECTTS---CCCCEESCG--GGSCTTCCEEECCSCC
T ss_pred             CCCcCCCcCHHHccCCCcCCEEECCCC---cCcccCHhH--hhhcccCcEEEccCCC
Confidence            554444433333333456666666666   344566655  5554 46666666665

>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=99.48  E-value=1.1e-13  Score=154.10  Aligned_cols=193  Identities=11%  Similarity=0.045  Sum_probs=146.7

Q ss_pred             ccceeEEEEeccCccccCCCC--CCCCccEEEccCCCCccccccHH--HHhCCCCCcEEEcCCCCCccCCc---cccCCC
Q 038110          449 VRHCTSIVILDVKTYVLPEVM--ECPQLKLFSMPAEKNSFFAIPHN--LFRSMLQVRVLDLTDMNLLSLPS---SIGLLT  521 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~lp~~--~~~~l~~Lr~L~L~~~~i~~lP~---si~~L~  521 (667)
                      ..+++.|.+.+|.+..+|...  .+++|++|++++|... ..+|..  .++.+++|++|+|++|.++.+|.   .++.++
T Consensus       309 ~~~L~~L~l~~n~l~~ip~~~~~~l~~L~~L~Ls~N~l~-~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~l~  387 (549)
T 2z81_A          309 LEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMV-EEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLK  387 (549)
T ss_dssp             STTCCEEEEESSCCCCCCHHHHHHCTTCCEEECCSSCCC-HHHHHHHTCTTSSTTCCEEECTTSCCCCHHHHHHHGGGCT
T ss_pred             cccceEEEeccCccccCCHHHHhcCccccEEEccCCccc-cccccchhhhhccccCcEEEccCCcccccccchhhhhcCC
Confidence            357888888888888777654  5889999999988875 444433  14788899999999998888763   588889


Q ss_pred             cccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccce
Q 038110          522 NLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRS  600 (667)
Q Consensus       522 ~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~  600 (667)
                      +|++|++++ .+..+|       ..++.+++|++|++++|.+..+|..+  .++|+.|+++.+.   +.........++.
T Consensus       388 ~L~~L~Ls~N~l~~lp-------~~~~~~~~L~~L~Ls~N~l~~l~~~~--~~~L~~L~Ls~N~---l~~~~~~l~~L~~  455 (549)
T 2z81_A          388 NLTSLDISRNTFHPMP-------DSCQWPEKMRFLNLSSTGIRVVKTCI--PQTLEVLDVSNNN---LDSFSLFLPRLQE  455 (549)
T ss_dssp             TCCEEECTTCCCCCCC-------SCCCCCTTCCEEECTTSCCSCCCTTS--CTTCSEEECCSSC---CSCCCCCCTTCCE
T ss_pred             CCCEEECCCCCCccCC-------hhhcccccccEEECCCCCcccccchh--cCCceEEECCCCC---hhhhcccCChhcE
Confidence            999999988 788888       78888899999999999888888764  3678888877543   3333345567888


Q ss_pred             EEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          601 FRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       601 l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      +.++.+.....+..  ..+++|+.|+|++|  .-....|..+  ..+++|+.|++++|+-
T Consensus       456 L~Ls~N~l~~ip~~--~~l~~L~~L~Ls~N--~l~~~~~~~~--~~l~~L~~L~l~~N~~  509 (549)
T 2z81_A          456 LYISRNKLKTLPDA--SLFPVLLVMKISRN--QLKSVPDGIF--DRLTSLQKIWLHTNPW  509 (549)
T ss_dssp             EECCSSCCSSCCCG--GGCTTCCEEECCSS--CCCCCCTTGG--GGCTTCCEEECCSSCB
T ss_pred             EECCCCccCcCCCc--ccCccCCEEecCCC--ccCCcCHHHH--hcCcccCEEEecCCCc
Confidence            88888766555442  35689999999999  3333334457  8899999999999973

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

Probab=99.47  E-value=2.3e-13  Score=147.55  Aligned_cols=186  Identities=14%  Similarity=0.098  Sum_probs=120.1

Q ss_pred             CccccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcc
Q 038110          444 SDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNL  523 (667)
Q Consensus       444 ~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L  523 (667)
                      +....++++++|++.+|.+..++ ...+++|++|++++|..  ..+|   |+++++|++|++++|.++.+|  ++.+++|
T Consensus        58 ~~l~~l~~L~~L~Ls~n~l~~~~-~~~l~~L~~L~Ls~N~l--~~~~---~~~l~~L~~L~L~~N~l~~l~--~~~l~~L  129 (457)
T 3bz5_A           58 TGIEKLTGLTKLICTSNNITTLD-LSQNTNLTYLACDSNKL--TNLD---VTPLTKLTYLNCDTNKLTKLD--VSQNPLL  129 (457)
T ss_dssp             TTGGGCTTCSEEECCSSCCSCCC-CTTCTTCSEEECCSSCC--SCCC---CTTCTTCCEEECCSSCCSCCC--CTTCTTC
T ss_pred             hhhcccCCCCEEEccCCcCCeEc-cccCCCCCEEECcCCCC--ceee---cCCCCcCCEEECCCCcCCeec--CCCCCcC
Confidence            34455566777777776666654 34566777777776665  3444   366777777777777766665  6667777


Q ss_pred             cEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCC-CCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceE
Q 038110          524 HTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVND-ANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSF  601 (667)
Q Consensus       524 ~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~-l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l  601 (667)
                      ++|++++ .+..+|         ++++++|++|++++|. +..++  +..+++|+.|++..+.-..++  ......++.+
T Consensus       130 ~~L~l~~N~l~~l~---------l~~l~~L~~L~l~~n~~~~~~~--~~~l~~L~~L~ls~n~l~~l~--l~~l~~L~~L  196 (457)
T 3bz5_A          130 TYLNCARNTLTEID---------VSHNTQLTELDCHLNKKITKLD--VTPQTQLTTLDCSFNKITELD--VSQNKLLNRL  196 (457)
T ss_dssp             CEEECTTSCCSCCC---------CTTCTTCCEEECTTCSCCCCCC--CTTCTTCCEEECCSSCCCCCC--CTTCTTCCEE
T ss_pred             CEEECCCCccceec---------cccCCcCCEEECCCCCcccccc--cccCCcCCEEECCCCccceec--cccCCCCCEE
Confidence            7777766 555555         6677777777777773 55553  456777777777655433332  2233456677


Q ss_pred             EeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          602 RIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       602 ~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      .++.+......   ...+++|+.|++++|   .+..+|  +  ..+++|+.|++++|.-
T Consensus       197 ~l~~N~l~~~~---l~~l~~L~~L~Ls~N---~l~~ip--~--~~l~~L~~L~l~~N~l  245 (457)
T 3bz5_A          197 NCDTNNITKLD---LNQNIQLTFLDCSSN---KLTEID--V--TPLTQLTYFDCSVNPL  245 (457)
T ss_dssp             ECCSSCCSCCC---CTTCTTCSEEECCSS---CCSCCC--C--TTCTTCSEEECCSSCC
T ss_pred             ECcCCcCCeec---cccCCCCCEEECcCC---cccccC--c--cccCCCCEEEeeCCcC
Confidence            77765444331   234578999999888   455566  5  7889999999998864

>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=99.47  E-value=3e-13  Score=154.67  Aligned_cols=129  Identities=18%  Similarity=0.231  Sum_probs=103.2

Q ss_pred             cccceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCccc
Q 038110          448 RVRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLH  524 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~  524 (667)
                      .+.++++|++++|.+..++..  ..+++|++|++++|..  ..+++..|+++++|++|+|++|.+..+|. +|+++++|+
T Consensus        23 ~~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l--~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~  100 (680)
T 1ziw_A           23 LPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTI--SKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLT  100 (680)
T ss_dssp             SCTTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSCC--CCCCTTHHHHCTTCCEEECCSSCCCCCCTTTTTTCTTCS
T ss_pred             cCCCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCcc--CccCHHHHhcccCcCEEECCCCccCccChhhhccCCCCC
Confidence            347899999999988877753  3789999999999877  45555556999999999999999998887 589999999


Q ss_pred             EEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecC
Q 038110          525 TLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGH  584 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~  584 (667)
                      +|++++ .+..+|.      ..|+++++|++|++++|.+..+|.. +.++++|+.|++..+.
T Consensus       101 ~L~L~~n~l~~~~~------~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~  156 (680)
T 1ziw_A          101 ELHLMSNSIQKIKN------NPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNK  156 (680)
T ss_dssp             EEECCSSCCCCCCS------CTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECCSSC
T ss_pred             EEECCCCccCccCh------hHccccCCCCEEECCCCcccccCchhhcccccCCEEEccCCc
Confidence            999998 6777762      5688888999999998887766544 6678888888776543

>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=1.6e-13  Score=139.40  Aligned_cols=174  Identities=17%  Similarity=0.134  Sum_probs=142.5

Q ss_pred             CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccC-CccccCCCcccEEecCC-cccccCCCCccChhhhc
Q 038110          470 ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELK  547 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-P~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~  547 (667)
                      .+++++.+++.++..  ..+|..+   .+.|++|+|++|.+..+ |..+..+++|++|+|++ .+..+|       . .+
T Consensus         8 ~l~~l~~l~~~~~~l--~~ip~~~---~~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~-------~-~~   74 (290)
T 1p9a_G            8 KVASHLEVNCDKRNL--TALPPDL---PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQ-------V-DG   74 (290)
T ss_dssp             CSTTCCEEECTTSCC--SSCCSCC---CTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEE-------C-CS
T ss_pred             ccCCccEEECCCCCC--CcCCCCC---CCCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccCccc-------C-CC
Confidence            578899999999887  6888766   37899999999999977 56799999999999999 888888       3 38


Q ss_pred             CCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCC-cccccccccceEEeecCccccchHHHHHHhhhcceee
Q 038110          548 HFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRG-FYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELS  626 (667)
Q Consensus       548 ~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~-~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~  626 (667)
                      .+++|++|++++|.+..+|..+..+++|+.|++..+.-..++ ........++.+.++.+.....+......+++|+.|+
T Consensus        75 ~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~  154 (290)
T 1p9a_G           75 TLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLS  154 (290)
T ss_dssp             CCTTCCEEECCSSCCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CCCcCCEEECCCCcCCcCchhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCCCCccChhhcccccCCCEEE
Confidence            899999999999999999998889999999998866544443 2234456788888888776666655555668999999


Q ss_pred             ccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          627 LAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       627 L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      |++|   .+..+|.... ..+++|+.|++++|.-
T Consensus       155 L~~N---~l~~l~~~~~-~~l~~L~~L~L~~N~l  184 (290)
T 1p9a_G          155 LANN---NLTELPAGLL-NGLENLDTLLLQENSL  184 (290)
T ss_dssp             CTTS---CCSCCCTTTT-TTCTTCCEEECCSSCC
T ss_pred             CCCC---cCCccCHHHh-cCcCCCCEEECCCCcC
Confidence            9999   6667776542 6799999999999864

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

Probab=99.46  E-value=5.4e-13  Score=144.54  Aligned_cols=161  Identities=14%  Similarity=0.035  Sum_probs=109.8

Q ss_pred             cccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccE
Q 038110          446 ESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHT  525 (667)
Q Consensus       446 ~~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~  525 (667)
                      ...+++++.|++.+|.+..++ ...+++|++|++++|..  ..+|   ++++++|++|++++|.++.+|  ++.+++|++
T Consensus        81 ~~~l~~L~~L~Ls~N~l~~~~-~~~l~~L~~L~L~~N~l--~~l~---~~~l~~L~~L~l~~N~l~~l~--l~~l~~L~~  152 (457)
T 3bz5_A           81 LSQNTNLTYLACDSNKLTNLD-VTPLTKLTYLNCDTNKL--TKLD---VSQNPLLTYLNCARNTLTEID--VSHNTQLTE  152 (457)
T ss_dssp             CTTCTTCSEEECCSSCCSCCC-CTTCTTCCEEECCSSCC--SCCC---CTTCTTCCEEECTTSCCSCCC--CTTCTTCCE
T ss_pred             cccCCCCCEEECcCCCCceee-cCCCCcCCEEECCCCcC--Ceec---CCCCCcCCEEECCCCccceec--cccCCcCCE
Confidence            445677888888888777664 44677888888888766  4455   477888888888888877775  777888888


Q ss_pred             EecCC--cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEe
Q 038110          526 LCLYG--GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRI  603 (667)
Q Consensus       526 L~L~~--~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l  603 (667)
                      |++++  .++.++         ++.+++|++|++++|.++.+|  +..+++|+.|++..+.-..++  ......++.+.+
T Consensus       153 L~l~~n~~~~~~~---------~~~l~~L~~L~ls~n~l~~l~--l~~l~~L~~L~l~~N~l~~~~--l~~l~~L~~L~L  219 (457)
T 3bz5_A          153 LDCHLNKKITKLD---------VTPQTQLTTLDCSFNKITELD--VSQNKLLNRLNCDTNNITKLD--LNQNIQLTFLDC  219 (457)
T ss_dssp             EECTTCSCCCCCC---------CTTCTTCCEEECCSSCCCCCC--CTTCTTCCEEECCSSCCSCCC--CTTCTTCSEEEC
T ss_pred             EECCCCCcccccc---------cccCCcCCEEECCCCccceec--cccCCCCCEEECcCCcCCeec--cccCCCCCEEEC
Confidence            88877  444444         667778888888888877777  557777888777654433221  222345666777


Q ss_pred             ecCccccchHHHHHHhhhcceeecccc
Q 038110          604 DLDANVRLKDRLVVQLRGIEELSLAGL  630 (667)
Q Consensus       604 ~~~~~~~~~~~~~~~l~~L~~L~L~~~  630 (667)
                      +.+.....+   ...+++|+.|++++|
T Consensus       220 s~N~l~~ip---~~~l~~L~~L~l~~N  243 (457)
T 3bz5_A          220 SSNKLTEID---VTPLTQLTYFDCSVN  243 (457)
T ss_dssp             CSSCCSCCC---CTTCTTCSEEECCSS
T ss_pred             cCCcccccC---ccccCCCCEEEeeCC
Confidence            765544433   234467888888877

>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=99.45  E-value=2.6e-13  Score=150.03  Aligned_cols=122  Identities=16%  Similarity=0.191  Sum_probs=80.5

Q ss_pred             cceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEe
Q 038110          450 RHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLC  527 (667)
Q Consensus       450 ~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~  527 (667)
                      +++++|++++|.+..++.  ...+++|++|++++|..  ..+++..|+++++|++|+|++|.++.+|..  .+++|++|+
T Consensus        21 ~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l--~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L~~L~   96 (520)
T 2z7x_B           21 QKTTILNISQNYISELWTSDILSLSKLRILIISHNRI--QYLDISVFKFNQELEYLDLSHNKLVKISCH--PTVNLKHLD   96 (520)
T ss_dssp             TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSCC--CEEEGGGGTTCTTCCEEECCSSCCCEEECC--CCCCCSEEE
T ss_pred             ccccEEECCCCcccccChhhccccccccEEecCCCcc--CCcChHHhhcccCCCEEecCCCceeecCcc--ccCCccEEe
Confidence            677777777777766553  23677777777777766  344333347777777777777777777766  677777777


Q ss_pred             cCC-cccc--cCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCC--CeeEEEecC
Q 038110          528 LYG-GVGV--VDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKP--ERYKILTGH  584 (667)
Q Consensus       528 L~~-~l~~--LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L--~~l~~~~~~  584 (667)
                      |++ .+..  +|       ..++++++|++|++++|.+..  ..+..+++|  +.|.+..+.
T Consensus        97 L~~N~l~~~~~p-------~~~~~l~~L~~L~L~~n~l~~--~~~~~l~~L~L~~L~l~~n~  149 (520)
T 2z7x_B           97 LSFNAFDALPIC-------KEFGNMSQLKFLGLSTTHLEK--SSVLPIAHLNISKVLLVLGE  149 (520)
T ss_dssp             CCSSCCSSCCCC-------GGGGGCTTCCEEEEEESSCCG--GGGGGGTTSCEEEEEEEECT
T ss_pred             ccCCccccccch-------hhhccCCcceEEEecCcccch--hhccccccceeeEEEeeccc
Confidence            777 5543  45       677777777777777777654  224456666  777666543

>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=99.45  E-value=1.2e-13  Score=154.32  Aligned_cols=167  Identities=16%  Similarity=0.166  Sum_probs=123.5

Q ss_pred             ccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEE
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTL  526 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L  526 (667)
                      ..+.+++.|++.+|.+..++....+++|+.|++++|..  ..+|+  |..+++|++|+|++|.+..+| .++.|.+|++|
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 NELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKL--TDIKP--LTNLKNLGWLFLDENKIKDLS-SLKDLKKLKSL  114 (605)
T ss_dssp             HHHTTCCCCBCTTCCCCCCTTGGGCTTCCEEECTTSCC--CCCGG--GGGCTTCCEEECCSSCCCCCT-TSTTCTTCCEE
T ss_pred             hcCCCCCEEECcCCCCCCChHHccCCCCCEEEeeCCCC--CCChh--hccCCCCCEEECcCCCCCCCh-hhccCCCCCEE
Confidence            45678888999999888888766899999999999887  56666  589999999999999998877 68999999999


Q ss_pred             ecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeec
Q 038110          527 CLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDL  605 (667)
Q Consensus       527 ~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~  605 (667)
                      +|++ .+..+|        .+..|++|+.|+|++|.+..+ ..+..+++|+.|++..+....+.. ......++.|.|+.
T Consensus       115 ~Ls~N~l~~l~--------~l~~l~~L~~L~Ls~N~l~~l-~~l~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~  184 (605)
T 1m9s_A          115 SLEHNGISDIN--------GLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSK  184 (605)
T ss_dssp             ECTTSCCCCCG--------GGGGCTTCSEEECCSSCCCCC-GGGGSCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCS
T ss_pred             EecCCCCCCCc--------cccCCCccCEEECCCCccCCc-hhhcccCCCCEEECcCCcCCCchh-hccCCCCCEEECcC
Confidence            9998 777766        588899999999999998888 345788899999887554333322 22233455555555


Q ss_pred             CccccchHHHHHHhhhcceeecccc
Q 038110          606 DANVRLKDRLVVQLRGIEELSLAGL  630 (667)
Q Consensus       606 ~~~~~~~~~~~~~l~~L~~L~L~~~  630 (667)
                      +..... +. ...+++|+.|+|++|
T Consensus       185 N~i~~l-~~-l~~l~~L~~L~L~~N  207 (605)
T 1m9s_A          185 NHISDL-RA-LAGLKNLDVLELFSQ  207 (605)
T ss_dssp             SCCCBC-GG-GTTCTTCSEEECCSE
T ss_pred             CCCCCC-hH-HccCCCCCEEEccCC
Confidence            443333 12 223456666666666

>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=99.45  E-value=3e-13  Score=146.79  Aligned_cols=113  Identities=14%  Similarity=0.133  Sum_probs=70.4

Q ss_pred             hhhcCCCCCCeEEeecCCCCCCCC-CCcCCCCCCeeEEEecCccCC-CcccccccccceEEeecCccccchHHHHHHhhh
Q 038110          544 EELKHFPNLTSLELEVNDANTLPR-GGLFFEKPERYKILTGHRWSR-GFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRG  621 (667)
Q Consensus       544 ~~l~~L~~L~~L~l~~~~l~~lP~-~~~~l~~L~~l~~~~~~~~~~-~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~  621 (667)
                      ..++++++|++|++++|.+..+++ .+..+++|+.|++..+.-..+ +........++.+.|+.+......+.....+++
T Consensus       293 ~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~  372 (455)
T 3v47_A          293 SVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPN  372 (455)
T ss_dssp             TTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGGTTCTTCCEEECCSSCCCEECTTTTTTCTT
T ss_pred             hhcccCCCCCEEECCCCcccccChhHhcCcccCCEEECCCCccCCcChhHhcCcccCCEEECCCCcccccChhhcccccc
Confidence            446677777777777777776644 456777777777764442222 122233455677777776555543333344578


Q ss_pred             cceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          622 IEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       622 L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      |+.|+|++|   .+..+|.... ..+++|+.|+|++|+-
T Consensus       373 L~~L~L~~N---~l~~~~~~~~-~~l~~L~~L~l~~N~l  407 (455)
T 3v47_A          373 LKELALDTN---QLKSVPDGIF-DRLTSLQKIWLHTNPW  407 (455)
T ss_dssp             CCEEECCSS---CCSCCCTTTT-TTCTTCCEEECCSSCB
T ss_pred             ccEEECCCC---ccccCCHhHh-ccCCcccEEEccCCCc
Confidence            888888887   4455554321 6778888888888763

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

Probab=99.45  E-value=1.2e-13  Score=154.52  Aligned_cols=128  Identities=16%  Similarity=0.172  Sum_probs=91.9

Q ss_pred             cccceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCC-ccccCCCccc
Q 038110          448 RVRHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLP-SSIGLLTNLH  524 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP-~si~~L~~L~  524 (667)
                      .++++++|++++|.+..++.  ...+++|++|++++|..  ..+++..|.++++|++|+|++|.++.+| ..|+++.+|+
T Consensus        26 l~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i--~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  103 (570)
T 2z63_A           26 LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEI--QTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ  103 (570)
T ss_dssp             SCSSCCEEECCSCCCCEECTTTTTTCSSCCEEECTTCCC--CEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCC
T ss_pred             ccccccEEEccCCccCccChhHhhCCCCceEEECCCCcC--CccCcccccCchhCCEEeCcCCcCCccCHhhhcCccccc
Confidence            34678888888887776653  23678888888888765  5566555688888888888888887664 5678888888


Q ss_pred             EEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCC--CCCCCcCCCCCCeeEEEec
Q 038110          525 TLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANT--LPRGGLFFEKPERYKILTG  583 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~--lP~~~~~l~~L~~l~~~~~  583 (667)
                      +|++++ .+..+|.      ..++++++|++|++++|.+..  +|..+.++++|+.|++..+
T Consensus       104 ~L~L~~n~l~~l~~------~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~~n  159 (570)
T 2z63_A          104 KLVAVETNLASLEN------FPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN  159 (570)
T ss_dssp             EEECTTSCCCCSTT------CSCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECTTS
T ss_pred             cccccccccccCCC------ccccccccccEEecCCCccceecChhhhcccCCCCEEeCcCC
Confidence            888887 6666662      247777777777777777664  5666667777777766543

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

Probab=99.44  E-value=5.5e-14  Score=145.00  Aligned_cols=190  Identities=9%  Similarity=0.044  Sum_probs=110.6

Q ss_pred             cceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecC
Q 038110          450 RHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLY  529 (667)
Q Consensus       450 ~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~  529 (667)
                      ++++.|++.+|.+...++...+++|++|++++|..  ..+|     ..++|++|++++|.+..+|..  .+++|++|+++
T Consensus        58 ~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~Ls~n~l--~~l~-----~~~~L~~L~l~~n~l~~~~~~--~~~~L~~L~l~  128 (317)
T 3o53_A           58 TKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYV--QELL-----VGPSIETLHAANNNISRVSCS--RGQGKKNIYLA  128 (317)
T ss_dssp             TTCCEEECTTSCCEEEEEETTCTTCCEEECCSSEE--EEEE-----ECTTCCEEECCSSCCSEEEEC--CCSSCEEEECC
T ss_pred             CcCCEEECCCCcCCcchhhhhcCCCCEEECcCCcc--cccc-----CCCCcCEEECCCCccCCcCcc--ccCCCCEEECC
Confidence            34444444444443333333444444444444433  2222     224444444444444444322  24556666666


Q ss_pred             C-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-C-cCCCCCCeeEEEecCccCCCcccccccccceEEeecC
Q 038110          530 G-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-G-LFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLD  606 (667)
Q Consensus       530 ~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~-~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~  606 (667)
                      + .+..+|.      ..++.+++|++|++++|.+..++.. + ..+++|+.|++..+.-..++... ....++.+.++.+
T Consensus       129 ~N~l~~~~~------~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~-~l~~L~~L~Ls~N  201 (317)
T 3o53_A          129 NNKITMLRD------LDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQV-VFAKLKTLDLSSN  201 (317)
T ss_dssp             SSCCCSGGG------BCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEECCC-CCTTCCEEECCSS
T ss_pred             CCCCCCccc------hhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCCcCccccccc-ccccCCEEECCCC
Confidence            6 5555541      3567778888888888877766543 3 25778888877644422222211 2456777777776


Q ss_pred             ccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCCC
Q 038110          607 ANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       607 ~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~l  661 (667)
                      .....++. ...+++|+.|+|++|   .+..+|..+  ..+++|+.|++++|+-.
T Consensus       202 ~l~~l~~~-~~~l~~L~~L~L~~N---~l~~l~~~~--~~l~~L~~L~l~~N~~~  250 (317)
T 3o53_A          202 KLAFMGPE-FQSAAGVTWISLRNN---KLVLIEKAL--RFSQNLEHFDLRGNGFH  250 (317)
T ss_dssp             CCCEECGG-GGGGTTCSEEECTTS---CCCEECTTC--CCCTTCCEEECTTCCCB
T ss_pred             cCCcchhh-hcccCcccEEECcCC---cccchhhHh--hcCCCCCEEEccCCCcc
Confidence            66555544 345579999999998   666788888  88899999999998754

>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=99.43  E-value=5.9e-13  Score=150.06  Aligned_cols=208  Identities=12%  Similarity=0.023  Sum_probs=101.4

Q ss_pred             cccceeEEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCc-cCCcc-ccCCCccc
Q 038110          448 RVRHCTSIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLL-SLPSS-IGLLTNLH  524 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-~lP~s-i~~L~~L~  524 (667)
                      ..++++.|++.+|.+..+|... .+++|++|++++|..  ..+++..|.++++|++|++++|.+. .+|.. ++.+++|+
T Consensus       276 ~l~~L~~L~l~~n~l~~lp~~l~~l~~L~~L~l~~n~l--~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~  353 (606)
T 3t6q_A          276 CFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKF--ENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLR  353 (606)
T ss_dssp             TCTTCSEEECTTSCCSCCCSSCCSCTTCCEEECTTCCC--SBGGGGCGGGCTTCSEEECCSCSSCCBCCSSTTTTCTTCC
T ss_pred             cccCCCEEeccCCccCCCChhhcccccCCEEECccCCc--CcCchhhhhccCcCCEEECCCCCcccccchhhhhccCcCC
Confidence            3455666666666555555433 455555665555554  2332222355555555555555443 33332 44455555


Q ss_pred             EEecCC-ccccc---CC-------------CC----ccChhhhcCCCCCCeEEeecCCCCCC-CCC-CcCCCCCCeeEEE
Q 038110          525 TLCLYG-GVGVV---DG-------------VK----NASLEELKHFPNLTSLELEVNDANTL-PRG-GLFFEKPERYKIL  581 (667)
Q Consensus       525 ~L~L~~-~l~~L---P~-------------~~----~~~~~~l~~L~~L~~L~l~~~~l~~l-P~~-~~~l~~L~~l~~~  581 (667)
                      +|++++ .+..+   |.             +.    ...+..++++++|++|++++|.+... |.. +..+++|+.|++.
T Consensus       354 ~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~  433 (606)
T 3t6q_A          354 ELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLS  433 (606)
T ss_dssp             EEECCSSCCCEEEESTTTTTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTTCCTTTTCTTCCEEECT
T ss_pred             EEECCCCccccccCcchhcccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcccchhhhCcccCCEEECC
Confidence            555544 22222   20             00    00014555566666666666654433 222 4456666666554


Q ss_pred             ecCccCC-CcccccccccceEEeecCccccc---hHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeec
Q 038110          582 TGHRWSR-GFYRSSNKSYRSFRIDLDANVRL---KDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEG  657 (667)
Q Consensus       582 ~~~~~~~-~~~~~~~~~l~~l~l~~~~~~~~---~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~  657 (667)
                      .+.-... +........++.+.++++.....   .......+++|+.|+|++|  .-....|..+  ..+++|+.|++++
T Consensus       434 ~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n--~l~~~~~~~~--~~l~~L~~L~Ls~  509 (606)
T 3t6q_A          434 HSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFC--DLSSIDQHAF--TSLKMMNHVDLSH  509 (606)
T ss_dssp             TCCCBTTCTTTTTTCTTCCEEECTTCBCGGGEECSSCGGGGCTTCCEEECTTS--CCCEECTTTT--TTCTTCCEEECCS
T ss_pred             CCccCCcCHHHHhCCCCCCEEECCCCCCCccccccchhhccCCCccEEECCCC--ccCccChhhh--ccccCCCEEECCC
Confidence            3331111 11122334566666666443221   1112234467777777777  3333335666  7788888888888


Q ss_pred             CCCC
Q 038110          658 YRGP  661 (667)
Q Consensus       658 ~~~l  661 (667)
                      |.-.
T Consensus       510 N~l~  513 (606)
T 3t6q_A          510 NRLT  513 (606)
T ss_dssp             SCCC
T ss_pred             CccC
Confidence            7543

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

Probab=99.43  E-value=4.8e-14  Score=145.41  Aligned_cols=189  Identities=10%  Similarity=0.103  Sum_probs=141.8

Q ss_pred             ccceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEE
Q 038110          449 VRHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTL  526 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L  526 (667)
                      .++++.|++++|.+..++.  ...+++|++|++++|...  .+++  |..+++|++|+|++|.++.+|.    +++|++|
T Consensus        33 ~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~--~~~~--~~~l~~L~~L~Ls~n~l~~l~~----~~~L~~L  104 (317)
T 3o53_A           33 AWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLY--ETLD--LESLSTLRTLDLNNNYVQELLV----GPSIETL  104 (317)
T ss_dssp             GGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCE--EEEE--ETTCTTCCEEECCSSEEEEEEE----CTTCCEE
T ss_pred             CCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCC--cchh--hhhcCCCCEEECcCCccccccC----CCCcCEE
Confidence            4578899999888877663  237888999999888773  3444  5889999999999998887763    3788999


Q ss_pred             ecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCC-CCcCCCCCCeeEEEecCccCCC--cccccccccceEE
Q 038110          527 CLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPR-GGLFFEKPERYKILTGHRWSRG--FYRSSNKSYRSFR  602 (667)
Q Consensus       527 ~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~-~~~~l~~L~~l~~~~~~~~~~~--~~~~~~~~l~~l~  602 (667)
                      ++++ .+..+|         ...+++|++|++++|.+..+|+ .+..+++|+.|++..+....+.  .+......++.+.
T Consensus       105 ~l~~n~l~~~~---------~~~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~  175 (317)
T 3o53_A          105 HAANNNISRVS---------CSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLN  175 (317)
T ss_dssp             ECCSSCCSEEE---------ECCCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEE
T ss_pred             ECCCCccCCcC---------ccccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEE
Confidence            9988 777776         3347889999999999998876 4668899999988755422221  1222346688888


Q ss_pred             eecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCCC
Q 038110          603 IDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       603 l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~l  661 (667)
                      ++.+.....+...  .+++|+.|+|++|   .+..+|+.+  ..+++|+.|++++|.-.
T Consensus       176 L~~N~l~~~~~~~--~l~~L~~L~Ls~N---~l~~l~~~~--~~l~~L~~L~L~~N~l~  227 (317)
T 3o53_A          176 LQYNFIYDVKGQV--VFAKLKTLDLSSN---KLAFMGPEF--QSAAGVTWISLRNNKLV  227 (317)
T ss_dssp             CTTSCCCEEECCC--CCTTCCEEECCSS---CCCEECGGG--GGGTTCSEEECTTSCCC
T ss_pred             CCCCcCccccccc--ccccCCEEECCCC---cCCcchhhh--cccCcccEEECcCCccc
Confidence            8886655443222  2589999999999   666788888  88999999999999643

>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=99.43  E-value=6.1e-13  Score=147.03  Aligned_cols=195  Identities=13%  Similarity=0.163  Sum_probs=150.4

Q ss_pred             ccccceeEEEEeccCccccCCCC-----CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCcc-CCccccCC
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVM-----ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLS-LPSSIGLL  520 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~-----~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-lP~si~~L  520 (667)
                      ..+++++.+.+..|.+ .+|...     ...+|+.|.+++|...  .++.  +..+++|++|++++|.+.. +|..++++
T Consensus       273 ~~l~~L~~l~l~~n~~-~~p~~~~~~~~~~~~L~~L~l~~n~l~--~~~~--~~~l~~L~~L~Ls~n~l~~~~~~~~~~l  347 (520)
T 2z7x_B          273 TSLKALSIHQVVSDVF-GFPQSYIYEIFSNMNIKNFTVSGTRMV--HMLC--PSKISPFLHLDFSNNLLTDTVFENCGHL  347 (520)
T ss_dssp             CCCCEEEEEEEEECCC-CSCTHHHHHHHHTCCCSEEEEESSCCC--CCCC--CSSCCCCCEEECCSSCCCTTTTTTCCCC
T ss_pred             ccCceeEeccccccce-ecchhhhhcccccCceeEEEcCCCccc--cccc--hhhCCcccEEEeECCccChhhhhhhccC
Confidence            4567788888888777 555211     1256888888888763  3331  2689999999999999986 79999999


Q ss_pred             CcccEEecCC-ccc---ccCCCCccChhhhcCCCCCCeEEeecCCCCC-CCCC-CcCCCCCCeeEEEecCccCCCccccc
Q 038110          521 TNLHTLCLYG-GVG---VVDGVKNASLEELKHFPNLTSLELEVNDANT-LPRG-GLFFEKPERYKILTGHRWSRGFYRSS  594 (667)
Q Consensus       521 ~~L~~L~L~~-~l~---~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~-lP~~-~~~l~~L~~l~~~~~~~~~~~~~~~~  594 (667)
                      ++|++|++++ .+.   .+|       ..++++++|++|++++|.+.. +|.+ +..+++|+.|++..+.-... .....
T Consensus       348 ~~L~~L~L~~N~l~~l~~~~-------~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~l  419 (520)
T 2z7x_B          348 TELETLILQMNQLKELSKIA-------EMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSNILTDT-IFRCL  419 (520)
T ss_dssp             SSCCEEECCSSCCCBHHHHH-------HHHTTCTTCCEEECCSSCCBCCGGGCSCCCCTTCCEEECCSSCCCGG-GGGSC
T ss_pred             CCCCEEEccCCccCccccch-------HHHhhCCCCCEEECCCCcCCcccccchhccCccCCEEECcCCCCCcc-hhhhh
Confidence            9999999998 555   566       789999999999999999887 9876 56889999998875542110 11222


Q ss_pred             ccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchh-hhhccCCCccEEEeecCCC
Q 038110          595 NKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNE-LVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       595 ~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~-l~~~~l~~L~~L~l~~~~~  660 (667)
                      ...++.+.++.+.....+..+. .+++|+.|+|++|   .+..+|.. +  ..+++|+.|++++|+-
T Consensus       420 ~~~L~~L~Ls~N~l~~ip~~~~-~l~~L~~L~L~~N---~l~~l~~~~~--~~l~~L~~L~l~~N~~  480 (520)
T 2z7x_B          420 PPRIKVLDLHSNKIKSIPKQVV-KLEALQELNVASN---QLKSVPDGIF--DRLTSLQKIWLHTNPW  480 (520)
T ss_dssp             CTTCCEEECCSSCCCCCCGGGG-GCTTCCEEECCSS---CCCCCCTTTT--TTCTTCCEEECCSSCB
T ss_pred             cccCCEEECCCCcccccchhhh-cCCCCCEEECCCC---cCCccCHHHh--ccCCcccEEECcCCCC
Confidence            2578889998877766666555 6789999999999   66678877 6  8899999999999974

>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=99.43  E-value=4.1e-13  Score=151.32  Aligned_cols=204  Identities=12%  Similarity=0.068  Sum_probs=125.7

Q ss_pred             cccceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccC---CccccC---
Q 038110          448 RVRHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL---PSSIGL---  519 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l---P~si~~---  519 (667)
                      .++++++|.+.+|.+..++.  ...+++|++|++++|... ..+|...|.++++|++|++++|.+..+   |..++.   
T Consensus       299 ~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~-~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~  377 (606)
T 3t6q_A          299 GLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKR-LELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSH  377 (606)
T ss_dssp             SCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSC-CBCCSSTTTTCTTCCEEECCSSCCCEEEESTTTTTTCTT
T ss_pred             ccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcc-cccchhhhhccCcCCEEECCCCccccccCcchhcccCCC
Confidence            34556666666665544422  114555555555555443 334443334555555555555544433   334444   


Q ss_pred             ---------------------CCcccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCC-CCcCCCCCC
Q 038110          520 ---------------------LTNLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPR-GGLFFEKPE  576 (667)
Q Consensus       520 ---------------------L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~-~~~~l~~L~  576 (667)
                                           +++|++|++++ .+...+     ....+.++++|++|++++|.+...++ .+..+++|+
T Consensus       378 L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~-----~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~  452 (606)
T 3t6q_A          378 LQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKD-----AQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQ  452 (606)
T ss_dssp             CCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCT-----TCCTTTTCTTCCEEECTTCCCBTTCTTTTTTCTTCC
T ss_pred             CCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcc-----cchhhhCcccCCEEECCCCccCCcCHHHHhCCCCCC
Confidence                                 44455555444 332221     01348899999999999999877654 467899999


Q ss_pred             eeEEEecCccC--CC--cccccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccE
Q 038110          577 RYKILTGHRWS--RG--FYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKY  652 (667)
Q Consensus       577 ~l~~~~~~~~~--~~--~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~  652 (667)
                      .|++..+.-..  ++  ........++.+.++.+......+.....+++|+.|+|++|  .-....|..+  ..+++| .
T Consensus       453 ~L~L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N--~l~~~~~~~l--~~l~~L-~  527 (606)
T 3t6q_A          453 HLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNHVDLSHN--RLTSSSIEAL--SHLKGI-Y  527 (606)
T ss_dssp             EEECTTCBCGGGEECSSCGGGGCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS--CCCGGGGGGG--TTCCSC-E
T ss_pred             EEECCCCCCCccccccchhhccCCCccEEECCCCccCccChhhhccccCCCEEECCCC--ccCcCChhHh--Cccccc-E
Confidence            99887554221  11  22334566888888887666655444456689999999999  5455567788  889999 9


Q ss_pred             EEeecCCCCe
Q 038110          653 LQIEGYRGPQ  662 (667)
Q Consensus       653 L~l~~~~~l~  662 (667)
                      |++++|.-..
T Consensus       528 L~L~~N~l~~  537 (606)
T 3t6q_A          528 LNLASNHISI  537 (606)
T ss_dssp             EECCSSCCCC
T ss_pred             EECcCCcccc
Confidence            9999997543

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

Probab=99.43  E-value=1.1e-13  Score=142.27  Aligned_cols=198  Identities=11%  Similarity=0.054  Sum_probs=132.9

Q ss_pred             ccceeEEEEeccCccc-cCCC---CCCCCccEEEccCCCCcccccc---HHHHhCCCCCcEEEcCCCCCccCC-ccccCC
Q 038110          449 VRHCTSIVILDVKTYV-LPEV---MECPQLKLFSMPAEKNSFFAIP---HNLFRSMLQVRVLDLTDMNLLSLP-SSIGLL  520 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~-l~~~---~~~~~Lr~L~l~~~~~~~~~lp---~~~~~~l~~Lr~L~L~~~~i~~lP-~si~~L  520 (667)
                      ..+++.|++.+|.+.. .|..   ..+++|++|++++|... ...|   ...+..+++|++|+|++|.+..+| ..++.+
T Consensus        90 ~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~-~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l  168 (310)
T 4glp_A           90 YSRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWA-TGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAF  168 (310)
T ss_dssp             HSCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCS-STTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCC
T ss_pred             cCceeEEEeeCCEeccchhhhhhhccCCCCCEEEeeccccc-chhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccC
Confidence            3458888888887753 3332   45788888888888764 3333   222357888888888888888664 568888


Q ss_pred             CcccEEecCC-cccc---cCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC----CcCCCCCCeeEEEecCccCC-Cc-
Q 038110          521 TNLHTLCLYG-GVGV---VDGVKNASLEELKHFPNLTSLELEVNDANTLPRG----GLFFEKPERYKILTGHRWSR-GF-  590 (667)
Q Consensus       521 ~~L~~L~L~~-~l~~---LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~----~~~l~~L~~l~~~~~~~~~~-~~-  590 (667)
                      ++|++|+|++ .+..   +|.     ...++++++|++|++++|+++.+|..    +..+++|+.|+++.+.-... +. 
T Consensus       169 ~~L~~L~Ls~N~l~~~~~~~~-----~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~  243 (310)
T 4glp_A          169 PALTSLDLSDNPGLGERGLMA-----ALCPHKFPAIQNLALRNTGMETPTGVCAALAAAGVQPHSLDLSHNSLRATVNPS  243 (310)
T ss_dssp             TTCCEEECCSCTTCHHHHHHT-----TSCTTSSCCCCSCBCCSSCCCCHHHHHHHHHHHTCCCSSEECTTSCCCCCCCSC
T ss_pred             CCCCEEECCCCCCccchhhhH-----HHhhhcCCCCCEEECCCCCCCchHHHHHHHHhcCCCCCEEECCCCCCCccchhh
Confidence            8888888888 3322   320     02236788888888888888766653    24678888887775553322 21 


Q ss_pred             cccc--ccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCCC
Q 038110          591 YRSS--NKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       591 ~~~~--~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~l  661 (667)
                      +...  ...++.+.++.+.....+..+   .++|+.|+|++|   .+..+|. +  ..+++|+.|++++|+-.
T Consensus       244 ~~~~~~~~~L~~L~Ls~N~l~~lp~~~---~~~L~~L~Ls~N---~l~~~~~-~--~~l~~L~~L~L~~N~l~  307 (310)
T 4glp_A          244 APRCMWSSALNSLNLSFAGLEQVPKGL---PAKLRVLDLSSN---RLNRAPQ-P--DELPEVDNLTLDGNPFL  307 (310)
T ss_dssp             CSSCCCCTTCCCEECCSSCCCSCCSCC---CSCCSCEECCSC---CCCSCCC-T--TSCCCCSCEECSSTTTS
T ss_pred             HHhccCcCcCCEEECCCCCCCchhhhh---cCCCCEEECCCC---cCCCCch-h--hhCCCccEEECcCCCCC
Confidence            2222  146777777776555444333   279999999999   5555554 4  78899999999999754

>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=99.42  E-value=5.6e-13  Score=152.41  Aligned_cols=123  Identities=17%  Similarity=0.151  Sum_probs=61.7

Q ss_pred             ceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccC-CccccCCCcccEEe
Q 038110          451 HCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSIGLLTNLHTLC  527 (667)
Q Consensus       451 ~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-P~si~~L~~L~~L~  527 (667)
                      +++.|.+.+|.+..++..  ..+++|+.|++++|... ..+|...|.++++|++|++++|.+..+ |..+..+++|++|+
T Consensus       382 ~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~-~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~L~~L~  460 (680)
T 1ziw_A          382 PLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIG-QELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLM  460 (680)
T ss_dssp             CCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCE-EECCSGGGTTCTTCCEEECCSCSEEECCTTTTTTCTTCCEEE
T ss_pred             cCceEECCCCCCCeEChhhhhCCCCCCEEeCCCCcCc-cccCcccccCcccccEEecCCCCcceeChhhhhcCcccccch
Confidence            455555555555443221  14556666666666553 344443445666666666666655433 33444455555555


Q ss_pred             cCC----cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEE
Q 038110          528 LYG----GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKIL  581 (667)
Q Consensus       528 L~~----~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~  581 (667)
                      +++    .+..+|       ..++++++|++|++++|.+..+|+. +..+++|+.|++.
T Consensus       461 l~~n~l~~~~~~p-------~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~Ls  512 (680)
T 1ziw_A          461 LRRVALKNVDSSP-------SPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQ  512 (680)
T ss_dssp             CTTSCCBCTTCSS-------CTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             hccccccccccCC-------cccccCCCCCEEECCCCCCCcCChhhhccccccCEEeCC
Confidence            544    123334       4455555555555555555555543 3345555555544

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

Probab=99.42  E-value=6.3e-15  Score=151.71  Aligned_cols=175  Identities=14%  Similarity=0.127  Sum_probs=88.4

Q ss_pred             CCCccEEEccCCCCccccccHHHH-hCCCCCcEEEcCCCCCccCCccccCC-----CcccEEecCC-cccccCCCCccCh
Q 038110          471 CPQLKLFSMPAEKNSFFAIPHNLF-RSMLQVRVLDLTDMNLLSLPSSIGLL-----TNLHTLCLYG-GVGVVDGVKNASL  543 (667)
Q Consensus       471 ~~~Lr~L~l~~~~~~~~~lp~~~~-~~l~~Lr~L~L~~~~i~~lP~si~~L-----~~L~~L~L~~-~l~~LP~~~~~~~  543 (667)
                      +++|++|++++|... ..+|..+| ..+++|++|+|++|.++.+|..++.+     ++|++|+|++ .+..+|.      
T Consensus        94 l~~L~~L~L~~n~l~-~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~------  166 (312)
T 1wwl_A           94 ISGLQELTLENLEVT-GTAPPPLLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSC------  166 (312)
T ss_dssp             TSCCCEEEEEEEBCB-SCCCCCSSSCCSCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESCSCCCCCT------
T ss_pred             cCCccEEEccCCccc-chhHHHHHHhcCCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCCCCccchH------
Confidence            556666666666553 34555433 55666666666666666556555555     5666666665 4444442      


Q ss_pred             hhhcCCCCCCeEEeecCCCCC---CCCCC--cCCCCCCeeEEEecCccCCCccc----ccccccceEEeecCccccch-H
Q 038110          544 EELKHFPNLTSLELEVNDANT---LPRGG--LFFEKPERYKILTGHRWSRGFYR----SSNKSYRSFRIDLDANVRLK-D  613 (667)
Q Consensus       544 ~~l~~L~~L~~L~l~~~~l~~---lP~~~--~~l~~L~~l~~~~~~~~~~~~~~----~~~~~l~~l~l~~~~~~~~~-~  613 (667)
                      ..++++++|++|++++|.+..   +|..+  ..+++|+.|++..+.-..++...    .....++.+.++.+...... .
T Consensus       167 ~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~  246 (312)
T 1wwl_A          167 EQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGA  246 (312)
T ss_dssp             TTCCCCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSCCC
T ss_pred             HHhccCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCcccch
Confidence            455666666666666665432   22222  45556666655433221111111    11234555555554333221 1


Q ss_pred             HHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCC
Q 038110          614 RLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       614 ~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~  659 (667)
                      .....+++|+.|+|++|   .+..+|.++  .  ++|+.|++++|.
T Consensus       247 ~~~~~l~~L~~L~Ls~N---~l~~ip~~~--~--~~L~~L~Ls~N~  285 (312)
T 1wwl_A          247 PSCDWPSQLNSLNLSFT---GLKQVPKGL--P--AKLSVLDLSYNR  285 (312)
T ss_dssp             SCCCCCTTCCEEECTTS---CCSSCCSSC--C--SEEEEEECCSSC
T ss_pred             hhhhhcCCCCEEECCCC---ccChhhhhc--c--CCceEEECCCCC
Confidence            11112346666666666   344555555  2  566666666664

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

Probab=99.42  E-value=4.5e-13  Score=149.75  Aligned_cols=200  Identities=11%  Similarity=0.035  Sum_probs=146.8

Q ss_pred             cccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccc---cHHHHhCCCCCcEEEcCCCCCccCCccccCCCccc
Q 038110          448 RVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAI---PHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLH  524 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~l---p~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~  524 (667)
                      ..++++.|.+.+|.+........+++|+.|++++|...  .+   |..+ .++++|++|++++|.+..+|..++.+++|+
T Consensus       323 ~l~~L~~L~l~~n~~~~~~~~~~~~~L~~L~l~~n~l~--~~~~~~~~~-~~~~~L~~L~l~~n~l~~~~~~~~~l~~L~  399 (570)
T 2z63_A          323 KLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLS--FKGCCSQSD-FGTTSLKYLDLSFNGVITMSSNFLGLEQLE  399 (570)
T ss_dssp             BCSSCCEEEEESCBSCCBCCCCBCTTCCEEECCSSCCB--EEEEEEHHH-HTCSCCCEEECCSCSEEEEEEEEETCTTCC
T ss_pred             cccccCEEeCcCCccccccccccCCCCCEEeCcCCccC--ccccccccc-cccCccCEEECCCCccccccccccccCCCC
Confidence            44566666666665543333356788889998888763  33   5554 899999999999999998888899999999


Q ss_pred             EEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCC-CCCcCCCCCCeeEEEecCcc--CCCcccccccccce
Q 038110          525 TLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLP-RGGLFFEKPERYKILTGHRW--SRGFYRSSNKSYRS  600 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP-~~~~~l~~L~~l~~~~~~~~--~~~~~~~~~~~l~~  600 (667)
                      +|++++ .+..++.     ...+.++++|++|++++|.+...+ ..+..+++|+.|++..+...  .++........++.
T Consensus       400 ~L~l~~n~l~~~~~-----~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~p~~~~~l~~L~~  474 (570)
T 2z63_A          400 HLDFQHSNLKQMSE-----FSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTF  474 (570)
T ss_dssp             EEECTTSEEESCTT-----SCTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCE
T ss_pred             EEEccCCccccccc-----hhhhhcCCCCCEEeCcCCcccccchhhhhcCCcCcEEECcCCcCccccchhhhhcccCCCE
Confidence            999998 6665540     036789999999999999877654 45678999999988755422  24433444567888


Q ss_pred             EEeecCccccchHHHHHHhhhcceeeccccccccccccc-hhhhhccCCCccEEEeecCCC
Q 038110          601 FRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFV-NELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       601 l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~-~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      +.++.+......+.....+++|+.|+|++|   .+..+| ..+  ..+++|+.|++++|+-
T Consensus       475 L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n---~l~~~~~~~~--~~l~~L~~L~l~~N~~  530 (570)
T 2z63_A          475 LDLSQCQLEQLSPTAFNSLSSLQVLNMASN---QLKSVPDGIF--DRLTSLQKIWLHTNPW  530 (570)
T ss_dssp             EECTTSCCCEECTTTTTTCTTCCEEECCSS---CCSCCCTTTT--TTCTTCCEEECCSSCB
T ss_pred             EECCCCccccCChhhhhcccCCCEEeCCCC---cCCCCCHHHh--hcccCCcEEEecCCcc
Confidence            888886665554433445689999999999   444454 456  7899999999999863

>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=99.41  E-value=1.2e-12  Score=148.13  Aligned_cols=201  Identities=15%  Similarity=0.121  Sum_probs=132.8

Q ss_pred             CCCccccccceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-ccc
Q 038110          442 EWSDESRVRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIG  518 (667)
Q Consensus       442 ~~~~~~~~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~  518 (667)
                      ..|. ..+.++++|++++|.+..++..  ..+++|++|++++|..  ..+|++.|.++++|++|+|++|+++.+|. .|+
T Consensus        45 ~vP~-~lp~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i--~~i~~~~f~~L~~L~~L~Ls~N~l~~l~~~~f~  121 (635)
T 4g8a_A           45 KIPD-NLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEI--QTIEDGAYQSLSHLSTLILTGNPIQSLALGAFS  121 (635)
T ss_dssp             SCCS-SSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCC--CEECTTTTTTCTTCCEEECTTCCCCEECGGGGT
T ss_pred             ccCC-CCCcCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcC--CCcChhHhcCCCCCCEEEccCCcCCCCCHHHhc
Confidence            4442 3456889999999988888753  3788999999998876  67877777899999999999999988875 478


Q ss_pred             CCCcccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCC--CCCCcCCCCCCeeEEEecCccCCC--ccc-
Q 038110          519 LLTNLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTL--PRGGLFFEKPERYKILTGHRWSRG--FYR-  592 (667)
Q Consensus       519 ~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~l--P~~~~~l~~L~~l~~~~~~~~~~~--~~~-  592 (667)
                      +|++|++|+|++ .+..+|.      ..|++|++|++|++++|.+..+  |..+..+++|+.|++..+.-..+.  .+. 
T Consensus       122 ~L~~L~~L~Ls~N~l~~l~~------~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~l~~  195 (635)
T 4g8a_A          122 GLSSLQKLVAVETNLASLEN------FPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRV  195 (635)
T ss_dssp             TCTTCCEEECTTSCCCCSTT------CCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGHH
T ss_pred             CCCCCCEEECCCCcCCCCCh------hhhhcCcccCeeccccCccccCCCchhhccchhhhhhcccCccccccccccccc
Confidence            899999999988 7888872      3588899999999999887654  455678888988887754422211  111 


Q ss_pred             --ccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccc-cchhhhhccCCCccEEEee
Q 038110          593 --SSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKN-FVNELVKVGSSQLKYLQIE  656 (667)
Q Consensus       593 --~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~~~l~~L~~L~l~  656 (667)
                        ........+.++.+......+..... ..+..|.+.+|  ..... .+..+  ..++.|+...+.
T Consensus       196 L~~l~~~~~~~~ls~n~l~~i~~~~~~~-~~~~~l~l~~n--~~~~~~~~~~~--~~l~~l~~~~l~  257 (635)
T 4g8a_A          196 LHQMPLLNLSLDLSLNPMNFIQPGAFKE-IRLHKLTLRNN--FDSLNVMKTCI--QGLAGLEVHRLV  257 (635)
T ss_dssp             HHTCTTCCCEEECTTCCCCEECTTTTTT-CEEEEEEEESC--CSSHHHHHHHH--HTTTTCEEEEEE
T ss_pred             hhhhhhhhhhhhcccCcccccCcccccc-hhhhhhhhhcc--cccccccchhh--cCCccccccccc
Confidence              11111223334433333333222222 35666777666  22222 23334  567777766554

>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=99.41  E-value=1.2e-12  Score=146.26  Aligned_cols=123  Identities=14%  Similarity=0.125  Sum_probs=92.9

Q ss_pred             ccceeEEEEeccCccccCC--CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEE
Q 038110          449 VRHCTSIVILDVKTYVLPE--VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTL  526 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L  526 (667)
                      +++++.|++++|.+..++.  ...+++|++|++++|..  ..+++..|.++++|++|+|++|.++.+|..  .+++|++|
T Consensus        51 ~~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l--~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L~~L  126 (562)
T 3a79_B           51 PPRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRI--RSLDFHVFLFNQDLEYLDVSHNRLQNISCC--PMASLRHL  126 (562)
T ss_dssp             CTTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCCC--CEECTTTTTTCTTCCEEECTTSCCCEECSC--CCTTCSEE
T ss_pred             CCCcCEEECCCCCccccChhhhccCCCccEEECCCCCC--CcCCHHHhCCCCCCCEEECCCCcCCccCcc--ccccCCEE
Confidence            4789999999999888764  34789999999999977  556555569999999999999999999887  79999999


Q ss_pred             ecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCC--CeeEEEe
Q 038110          527 CLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKP--ERYKILT  582 (667)
Q Consensus       527 ~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L--~~l~~~~  582 (667)
                      +|++ .+..+|     .+..++++++|++|++++|.+...  .+..+++|  +.|++..
T Consensus       127 ~Ls~N~l~~l~-----~p~~~~~l~~L~~L~L~~n~l~~~--~~~~l~~L~L~~L~L~~  178 (562)
T 3a79_B          127 DLSFNDFDVLP-----VCKEFGNLTKLTFLGLSAAKFRQL--DLLPVAHLHLSCILLDL  178 (562)
T ss_dssp             ECCSSCCSBCC-----CCGGGGGCTTCCEEEEECSBCCTT--TTGGGTTSCEEEEEEEE
T ss_pred             ECCCCCccccC-----chHhhcccCcccEEecCCCccccC--chhhhhhceeeEEEeec
Confidence            9998 666653     016788888888888888876542  22333444  5555443

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

Probab=99.40  E-value=1.8e-12  Score=124.78  Aligned_cols=159  Identities=19%  Similarity=0.156  Sum_probs=103.9

Q ss_pred             ccceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCcccE
Q 038110          449 VRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNLHT  525 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L~~  525 (667)
                      .++++.|++.+|.+..++..  ..+++|++|++++|..  ..+|...|.++++|++|+|++|.++.+|.. ++.+++|++
T Consensus        27 ~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l--~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~  104 (208)
T 2o6s_A           27 PAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKL--QSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKE  104 (208)
T ss_dssp             CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCE
T ss_pred             CCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCcc--CccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccCCCE
Confidence            45677777777777666553  2677777777777765  466666567777777777777777766654 567777777


Q ss_pred             EecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCccCCCcccccccccceEEe
Q 038110          526 LCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRI  603 (667)
Q Consensus       526 L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l  603 (667)
                      |++++ .+..+|.      ..+.++++|++|++++|.+..+|.. +..+++|+.|++..+.                   
T Consensus       105 L~L~~N~l~~~~~------~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~-------------------  159 (208)
T 2o6s_A          105 LALNTNQLQSLPD------GVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNP-------------------  159 (208)
T ss_dssp             EECCSSCCCCCCT------TTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCC-------------------
T ss_pred             EEcCCCcCcccCH------hHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEecCCC-------------------
Confidence            77777 6666662      3357777777777777777777665 4566777777655321                   


Q ss_pred             ecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCC
Q 038110          604 DLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQ  649 (667)
Q Consensus       604 ~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~  649 (667)
                          ...       .+++|+.|+++.|  ...+.+|+++  +.++.
T Consensus       160 ----~~~-------~~~~l~~L~~~~n--~~~g~ip~~~--~~l~~  190 (208)
T 2o6s_A          160 ----WDC-------TCPGIRYLSEWIN--KHSGVVRNSA--GSVAP  190 (208)
T ss_dssp             ----BCC-------CTTTTHHHHHHHH--HCTTTBBCTT--SSBCT
T ss_pred             ----eec-------CCCCHHHHHHHHH--hCCceeeccC--ccccC
Confidence                110       1246777777777  5556677777  44443

>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=99.40  E-value=1.7e-12  Score=145.13  Aligned_cols=98  Identities=24%  Similarity=0.330  Sum_probs=84.9

Q ss_pred             cceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecC
Q 038110          450 RHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLY  529 (667)
Q Consensus       450 ~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~  529 (667)
                      ++++.|.+.+|++..+|.  .+++|++|++++|..  ..+|.    .+++|++|+|++|.++.+|.   .+.+|++|+++
T Consensus        61 ~~L~~L~L~~N~l~~lp~--~l~~L~~L~Ls~N~l--~~lp~----~l~~L~~L~Ls~N~l~~l~~---~l~~L~~L~L~  129 (622)
T 3g06_A           61 AHITTLVIPDNNLTSLPA--LPPELRTLEVSGNQL--TSLPV----LPPGLLELSIFSNPLTHLPA---LPSGLCKLWIF  129 (622)
T ss_dssp             TTCSEEEECSCCCSCCCC--CCTTCCEEEECSCCC--SCCCC----CCTTCCEEEECSCCCCCCCC---CCTTCCEEECC
T ss_pred             CCCcEEEecCCCCCCCCC--cCCCCCEEEcCCCcC--CcCCC----CCCCCCEEECcCCcCCCCCC---CCCCcCEEECC
Confidence            799999999999998887  689999999999987  67886    78999999999999999998   57899999999


Q ss_pred             C-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC
Q 038110          530 G-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG  568 (667)
Q Consensus       530 ~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~  568 (667)
                      + .+..+|       ..   +++|++|++++|.+..+|..
T Consensus       130 ~N~l~~lp-------~~---l~~L~~L~Ls~N~l~~l~~~  159 (622)
T 3g06_A          130 GNQLTSLP-------VL---PPGLQELSVSDNQLASLPAL  159 (622)
T ss_dssp             SSCCSCCC-------CC---CTTCCEEECCSSCCSCCCCC
T ss_pred             CCCCCcCC-------CC---CCCCCEEECcCCcCCCcCCc
Confidence            9 888888       32   47788888888887777654

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

Probab=99.40  E-value=1.3e-12  Score=152.86  Aligned_cols=192  Identities=13%  Similarity=0.059  Sum_probs=145.3

Q ss_pred             eEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCC-CccC-CccccCCCcccEEecCC
Q 038110          453 TSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMN-LLSL-PSSIGLLTNLHTLCLYG  530 (667)
Q Consensus       453 r~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~-i~~l-P~si~~L~~L~~L~L~~  530 (667)
                      +..+.+++++..+|.  ..++|++|++++|..  ..+++..|.++++|++|+|++|. +..+ |..|++|++|++|+|++
T Consensus         7 ~~~dcs~~~L~~vP~--lp~~l~~LdLs~N~i--~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~   82 (844)
T 3j0a_A            7 RIAFYRFCNLTQVPQ--VLNTTERLLLSFNYI--RTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGS   82 (844)
T ss_dssp             EEEEESCCCSSCCCS--SCTTCCEEEEESCCC--CEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTT
T ss_pred             eEEEccCCCCCCCCC--CCCCcCEEECCCCcC--CccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCC
Confidence            456667788889987  568999999999987  45544445999999999999994 5577 78899999999999999


Q ss_pred             -ccccc-CCCCccChhhhcCCCCCCeEEeecCCCCC-CCCC--CcCCCCCCeeEEEecCccCCC--cccccccccceEEe
Q 038110          531 -GVGVV-DGVKNASLEELKHFPNLTSLELEVNDANT-LPRG--GLFFEKPERYKILTGHRWSRG--FYRSSNKSYRSFRI  603 (667)
Q Consensus       531 -~l~~L-P~~~~~~~~~l~~L~~L~~L~l~~~~l~~-lP~~--~~~l~~L~~l~~~~~~~~~~~--~~~~~~~~l~~l~l  603 (667)
                       .+..+ |       ..|++|++|++|++++|.+.. +|..  +.++++|+.|+++.+....+.  ........++.|.+
T Consensus        83 N~l~~~~p-------~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~L  155 (844)
T 3j0a_A           83 SKIYFLHP-------DAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDF  155 (844)
T ss_dssp             CCCCEECT-------TSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEE
T ss_pred             CcCcccCH-------hHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEEC
Confidence             77776 6       889999999999999999875 5654  779999999999876643332  22344567888899


Q ss_pred             ecCccccchHHHHHHh--hhcceeeccccccccccccchhhhhccCC------CccEEEeecCC
Q 038110          604 DLDANVRLKDRLVVQL--RGIEELSLAGLLDQDIKNFVNELVKVGSS------QLKYLQIEGYR  659 (667)
Q Consensus       604 ~~~~~~~~~~~~~~~l--~~L~~L~L~~~~~~~~~~~~~~l~~~~l~------~L~~L~l~~~~  659 (667)
                      +.+......+.....+  ++|+.|+|++|  ......|..+  ..++      +|+.|++++|.
T Consensus       156 s~N~i~~~~~~~l~~l~~~~L~~L~L~~n--~l~~~~~~~~--~~~~~~~~~~~L~~L~Ls~n~  215 (844)
T 3j0a_A          156 SSNQIFLVCEHELEPLQGKTLSFFSLAAN--SLYSRVSVDW--GKCMNPFRNMVLEILDVSGNG  215 (844)
T ss_dssp             ESSCCCCCCSGGGHHHHHCSSCCCEECCS--BSCCCCCCCC--CSSSCTTTTCCBSEEBCSSCC
T ss_pred             CCCcCCeeCHHHcccccCCccceEECCCC--ccccccccch--hhcCCccccCceeEEecCCCc
Confidence            8865544322222223  69999999999  4444455544  3333      39999999883

>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=99.39  E-value=1.5e-12  Score=126.65  Aligned_cols=123  Identities=17%  Similarity=0.209  Sum_probs=97.2

Q ss_pred             eEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccC-CccccCCCcccEEecCC-
Q 038110          453 TSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSIGLLTNLHTLCLYG-  530 (667)
Q Consensus       453 r~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-P~si~~L~~L~~L~L~~-  530 (667)
                      +.+...++.+..+|... .++|+.|++++|..  ..+|...|.++++|++|+|++|.+..+ |..+.++.+|++|+|++ 
T Consensus        14 ~~v~c~~~~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           14 NIVDCRGKGLTEIPTNL-PETITEIRLEQNTI--KVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGN   90 (220)
T ss_dssp             TEEECTTSCCSSCCSSC-CTTCCEEECCSSCC--CEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSS
T ss_pred             CEEEcCCCCcCcCCCcc-CcCCCEEECCCCcC--CCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCC
Confidence            45677777788887644 37899999998877  567766668899999999999998876 77889999999999988 


Q ss_pred             cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecC
Q 038110          531 GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGH  584 (667)
Q Consensus       531 ~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~  584 (667)
                      .+..+|.      ..+.++++|++|++++|.+..+|.. +..+++|+.|++..+.
T Consensus        91 ~l~~l~~------~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~  139 (220)
T 2v9t_B           91 KITELPK------SLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNK  139 (220)
T ss_dssp             CCCCCCT------TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             cCCccCH------hHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCc
Confidence            7888882      3468899999999999988888654 6678888888776443

>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=99.38  E-value=1.9e-12  Score=126.64  Aligned_cols=124  Identities=22%  Similarity=0.266  Sum_probs=79.9

Q ss_pred             ccceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCcccE
Q 038110          449 VRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNLHT  525 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L~~  525 (667)
                      +.+++.|.+.+|.+..++..  ..+++|++|++++|..  ..+|...|.++++|++|+|++|.++.+|.. ++.+.+|++
T Consensus        39 ~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l--~~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~  116 (229)
T 3e6j_A           39 PTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQL--GALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKE  116 (229)
T ss_dssp             CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCE
T ss_pred             CCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCC--CCcChhhcccCCCcCEEECCCCcCCccChhHhCcchhhCe
Confidence            35667777777666655332  2566777777776665  556655556677777777777776666544 466677777


Q ss_pred             EecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEE
Q 038110          526 LCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKIL  581 (667)
Q Consensus       526 L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~  581 (667)
                      |+|++ .+..+|       ..+.++++|++|++++|.+..+|.. +..+++|+.|.+.
T Consensus       117 L~Ls~N~l~~lp-------~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~  167 (229)
T 3e6j_A          117 LFMCCNKLTELP-------RGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYLF  167 (229)
T ss_dssp             EECCSSCCCSCC-------TTGGGCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECT
T ss_pred             EeccCCcccccC-------cccccCCCCCEEECCCCcCCccCHHHHhCCCCCCEEEee
Confidence            77766 666666       6666677777777777766666654 4456666666554

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

Probab=99.37  E-value=2.9e-13  Score=135.50  Aligned_cols=119  Identities=16%  Similarity=0.142  Sum_probs=62.5

Q ss_pred             cccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEe
Q 038110          448 RVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLC  527 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~  527 (667)
                      .+++++.|++.+|.+..++....+++|++|++++|..  ..+|.  |.++++|++|+|++|.++.+|....  .+|++|+
T Consensus        39 ~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~L~~N~i--~~~~~--l~~l~~L~~L~L~~N~l~~l~~~~~--~~L~~L~  112 (263)
T 1xeu_A           39 ELSGVQNFNGDNSNIQSLAGMQFFTNLKELHLSHNQI--SDLSP--LKDLTKLEELSVNRNRLKNLNGIPS--ACLSRLF  112 (263)
T ss_dssp             HHTTCSEEECTTSCCCCCTTGGGCTTCCEEECCSSCC--CCCGG--GTTCSSCCEEECCSSCCSCCTTCCC--SSCCEEE
T ss_pred             hcCcCcEEECcCCCcccchHHhhCCCCCEEECCCCcc--CCChh--hccCCCCCEEECCCCccCCcCcccc--CcccEEE
Confidence            4455555555555555555433555555555555544  34444  3555555555555555555554322  5555555


Q ss_pred             cCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEE
Q 038110          528 LYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKIL  581 (667)
Q Consensus       528 L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~  581 (667)
                      +++ .+..+|        .++++++|++|++++|+++.+| .+..+++|+.|++.
T Consensus       113 L~~N~l~~~~--------~l~~l~~L~~L~Ls~N~i~~~~-~l~~l~~L~~L~L~  158 (263)
T 1xeu_A          113 LDNNELRDTD--------SLIHLKNLEILSIRNNKLKSIV-MLGFLSKLEVLDLH  158 (263)
T ss_dssp             CCSSCCSBSG--------GGTTCTTCCEEECTTSCCCBCG-GGGGCTTCCEEECT
T ss_pred             ccCCccCCCh--------hhcCcccccEEECCCCcCCCCh-HHccCCCCCEEECC
Confidence            555 444443        3555555555555555555554 33445555555443

>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=99.37  E-value=2.3e-12  Score=125.18  Aligned_cols=122  Identities=11%  Similarity=0.174  Sum_probs=99.2

Q ss_pred             eEEEEeccCccccCCCCCCCCccEEEccCCCCccccc-cHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCcccEEecCC
Q 038110          453 TSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAI-PHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLHTLCLYG  530 (667)
Q Consensus       453 r~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~l-p~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~~L~L~~  530 (667)
                      +.+++++|.+..+|... .+.++.|++++|..  ..+ |..+|.++++|++|+|++|.++.+|. .++++.+|++|+|++
T Consensus        14 ~~l~~s~n~l~~iP~~~-~~~~~~L~L~~N~l--~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~   90 (220)
T 2v70_A           14 TTVDCSNQKLNKIPEHI-PQYTAELRLNNNEF--TVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTS   90 (220)
T ss_dssp             TEEECCSSCCSSCCSCC-CTTCSEEECCSSCC--CEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CEeEeCCCCcccCccCC-CCCCCEEEcCCCcC--CccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCC
Confidence            47888888888888643 45678999999987  445 55556999999999999999998765 799999999999999


Q ss_pred             -cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCC-CCcCCCCCCeeEEEec
Q 038110          531 -GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPR-GGLFFEKPERYKILTG  583 (667)
Q Consensus       531 -~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~-~~~~l~~L~~l~~~~~  583 (667)
                       .+..+|.      ..|+++++|++|++++|.+..+++ .+..+++|+.|++..+
T Consensus        91 N~l~~~~~------~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N  139 (220)
T 2v70_A           91 NRLENVQH------KMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDN  139 (220)
T ss_dssp             SCCCCCCG------GGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTS
T ss_pred             CccCccCH------hHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCC
Confidence             7888872      458899999999999999888854 4678888888877633

>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=99.36  E-value=1.5e-13  Score=142.71  Aligned_cols=195  Identities=15%  Similarity=0.095  Sum_probs=133.6

Q ss_pred             cceeEEEEeccCccccC-CCCCCCCccEEEccCCCCcccc-ccHHHHhCCCCCcEEEcCCCCCc-cCCccccCCCcccEE
Q 038110          450 RHCTSIVILDVKTYVLP-EVMECPQLKLFSMPAEKNSFFA-IPHNLFRSMLQVRVLDLTDMNLL-SLPSSIGLLTNLHTL  526 (667)
Q Consensus       450 ~~lr~L~l~~~~~~~l~-~~~~~~~Lr~L~l~~~~~~~~~-lp~~~~~~l~~Lr~L~L~~~~i~-~lP~si~~L~~L~~L  526 (667)
                      .+++.+.+.+|.+...+ ....+++|++|++++|... .. +|.. +.++++|++|+|++|.+. ..|..++.+++|++|
T Consensus        70 ~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~~~l~-~~~~~~~-~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L  147 (336)
T 2ast_B           70 QGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIE-VSTLHGI-LSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRL  147 (336)
T ss_dssp             TTCSEEECTTCEECSCCCSCCCCBCCCEEECTTCEEC-HHHHHHH-HTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEE
T ss_pred             ccceEEEcCCccccccchhhccCCCCCEEEccCCCcC-HHHHHHH-HhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEE
Confidence            57788888888775443 3347888999999888753 23 5554 488899999999998887 578888888899999


Q ss_pred             ecCC--ccc--ccCCCCccChhhhcCCCCCCeEEeecC-CCCC--CCCCCcCCC-CCCeeEEEecCc----cCCCccccc
Q 038110          527 CLYG--GVG--VVDGVKNASLEELKHFPNLTSLELEVN-DANT--LPRGGLFFE-KPERYKILTGHR----WSRGFYRSS  594 (667)
Q Consensus       527 ~L~~--~l~--~LP~~~~~~~~~l~~L~~L~~L~l~~~-~l~~--lP~~~~~l~-~L~~l~~~~~~~----~~~~~~~~~  594 (667)
                      ++++  .+.  .+|       ..+.++++|++|++++| .+..  +|..+..++ +|+.|++..+..    ..++.....
T Consensus       148 ~L~~~~~l~~~~l~-------~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~~~  220 (336)
T 2ast_B          148 NLSGCSGFSEFALQ-------TLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRR  220 (336)
T ss_dssp             ECTTCBSCCHHHHH-------HHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHH
T ss_pred             ECCCCCCCCHHHHH-------HHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCcccCCHHHHHHHHhh
Confidence            9987  344  366       66788888999999888 7764  555556788 888888765421    112222233


Q ss_pred             ccccceEEeecCc-ccc-chHHHHHHhhhcceeecccccccccc-ccchhhhhccCCCccEEEeecC
Q 038110          595 NKSYRSFRIDLDA-NVR-LKDRLVVQLRGIEELSLAGLLDQDIK-NFVNELVKVGSSQLKYLQIEGY  658 (667)
Q Consensus       595 ~~~l~~l~l~~~~-~~~-~~~~~~~~l~~L~~L~L~~~~~~~~~-~~~~~l~~~~l~~L~~L~l~~~  658 (667)
                      ...++.+.++.+. ... ....+ ..+++|+.|+|++|  .... .....+  ..+++|+.|++++|
T Consensus       221 ~~~L~~L~l~~~~~l~~~~~~~l-~~l~~L~~L~l~~~--~~~~~~~~~~l--~~~~~L~~L~l~~~  282 (336)
T 2ast_B          221 CPNLVHLDLSDSVMLKNDCFQEF-FQLNYLQHLSLSRC--YDIIPETLLEL--GEIPTLKTLQVFGI  282 (336)
T ss_dssp             CTTCSEEECTTCTTCCGGGGGGG-GGCTTCCEEECTTC--TTCCGGGGGGG--GGCTTCCEEECTTS
T ss_pred             CCCCCEEeCCCCCcCCHHHHHHH-hCCCCCCEeeCCCC--CCCCHHHHHHH--hcCCCCCEEeccCc
Confidence            4567777777754 222 22333 34578999999888  3221 112245  67889999999888

>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=99.36  E-value=6.1e-12  Score=124.93  Aligned_cols=153  Identities=15%  Similarity=0.165  Sum_probs=122.1

Q ss_pred             cccceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCccc
Q 038110          448 RVRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLH  524 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~  524 (667)
                      .+.+++.|.+.+|.+..++..  ..+++|++|++++|..  ..++...|.++++|++|+|++|.++.+|. .++.+.+|+
T Consensus        33 ~~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  110 (251)
T 3m19_A           33 IPADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQL--QTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLD  110 (251)
T ss_dssp             CCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCC--CCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCC
T ss_pred             CCCCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcC--CccCHhHhccCCcCCEEECCCCcccccChhHhcccCCCC
Confidence            346899999999999877653  3789999999999987  56666667999999999999999998875 578999999


Q ss_pred             EEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCccCCCc-ccccccccceE
Q 038110          525 TLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHRWSRGF-YRSSNKSYRSF  601 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~~~~~~-~~~~~~~l~~l  601 (667)
                      +|+|++ .+..+|.      ..++++++|++|++++|.+..+|.. +..+++|+.|++..+.-..++. .......++.+
T Consensus       111 ~L~L~~N~l~~~~~------~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L  184 (251)
T 3m19_A          111 KLYLGGNQLKSLPS------GVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTI  184 (251)
T ss_dssp             EEECCSSCCCCCCT------TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEE
T ss_pred             EEEcCCCcCCCcCh------hHhccCCcccEEECcCCcCCccCHHHcCcCcCCCEEECCCCcCCccCHHHHhCCCCCCEE
Confidence            999999 8888882      3468999999999999999999985 6789999999888665333332 22334456677


Q ss_pred             EeecCcc
Q 038110          602 RIDLDAN  608 (667)
Q Consensus       602 ~l~~~~~  608 (667)
                      .+.++..
T Consensus       185 ~l~~N~~  191 (251)
T 3m19_A          185 TLFGNQF  191 (251)
T ss_dssp             ECCSCCB
T ss_pred             EeeCCce
Confidence            7776443

>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=99.35  E-value=1.9e-12  Score=146.38  Aligned_cols=188  Identities=14%  Similarity=0.108  Sum_probs=132.9

Q ss_pred             eccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCcccEEecCC-ccccc
Q 038110          458 LDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLHTLCLYG-GVGVV  535 (667)
Q Consensus       458 ~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~~L~L~~-~l~~L  535 (667)
                      ++.++..+|... .+++++|++++|..  ..+|+..|.++++|++|+|++|.|+.+|+ +|++|++|++|+|++ .+..+
T Consensus        39 ~~~~l~~vP~~l-p~~~~~LdLs~N~i--~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l~~l  115 (635)
T 4g8a_A           39 MELNFYKIPDNL-PFSTKNLDLSFNPL--RHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSL  115 (635)
T ss_dssp             TTSCCSSCCSSS-CTTCCEEECTTSCC--CEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEE
T ss_pred             CCCCcCccCCCC-CcCCCEEEeeCCCC--CCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcCCCC
Confidence            334567777643 25789999999887  67877667899999999999999988865 588899999999998 88888


Q ss_pred             CCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCccC--CCcccccccccceEEeecCccccch
Q 038110          536 DGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHRWS--RGFYRSSNKSYRSFRIDLDANVRLK  612 (667)
Q Consensus       536 P~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~~~--~~~~~~~~~~l~~l~l~~~~~~~~~  612 (667)
                      |.      ..|++|++|++|++++|++..+|.. +.++++|+.|++..+.-..  ++........++.+.++.+......
T Consensus       116 ~~------~~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~  189 (635)
T 4g8a_A          116 AL------GAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIY  189 (635)
T ss_dssp             CG------GGGTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEEC
T ss_pred             CH------HHhcCCCCCCEEECCCCcCCCCChhhhhcCcccCeeccccCccccCCCchhhccchhhhhhcccCccccccc
Confidence            82      4578899999999999998888875 6788899999887655322  3333344556778888876555544


Q ss_pred             HHHHHHhhhcc----eeeccccccccccccchhhhhccCCCccEEEeecCC
Q 038110          613 DRLVVQLRGIE----ELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       613 ~~~~~~l~~L~----~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~  659 (667)
                      +.....++++.    .++++.|   ....++...  .....+..|.+.+|.
T Consensus       190 ~~~l~~L~~l~~~~~~~~ls~n---~l~~i~~~~--~~~~~~~~l~l~~n~  235 (635)
T 4g8a_A          190 CTDLRVLHQMPLLNLSLDLSLN---PMNFIQPGA--FKEIRLHKLTLRNNF  235 (635)
T ss_dssp             GGGGHHHHTCTTCCCEEECTTC---CCCEECTTT--TTTCEEEEEEEESCC
T ss_pred             cccccchhhhhhhhhhhhcccC---cccccCccc--ccchhhhhhhhhccc
Confidence            33333334333    4666666   445555555  445566777777664

>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=99.35  E-value=4.6e-12  Score=120.80  Aligned_cols=125  Identities=12%  Similarity=0.131  Sum_probs=106.9

Q ss_pred             ccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCcc-CCccccCCCcccE
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLS-LPSSIGLLTNLHT  525 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-lP~si~~L~~L~~  525 (667)
                      ..+++++.|++.+|.+..+|....+++|++|++++|..  ..++ . +..+++|++|++++|.++. .|..++.+++|++
T Consensus        41 ~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~l~~n~~--~~~~-~-l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~  116 (197)
T 4ezg_A           41 AQMNSLTYITLANINVTDLTGIEYAHNIKDLTINNIHA--TNYN-P-ISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTL  116 (197)
T ss_dssp             HHHHTCCEEEEESSCCSCCTTGGGCTTCSEEEEESCCC--SCCG-G-GTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCE
T ss_pred             hhcCCccEEeccCCCccChHHHhcCCCCCEEEccCCCC--Ccch-h-hhcCCCCCEEEeECCccCcccChhhcCCCCCCE
Confidence            45678999999999999888666899999999999954  4444 4 4899999999999999985 7889999999999


Q ss_pred             EecCC-cccc-cCCCCccChhhhcCCCCCCeEEeecCC-CCCCCCCCcCCCCCCeeEEEec
Q 038110          526 LCLYG-GVGV-VDGVKNASLEELKHFPNLTSLELEVND-ANTLPRGGLFFEKPERYKILTG  583 (667)
Q Consensus       526 L~L~~-~l~~-LP~~~~~~~~~l~~L~~L~~L~l~~~~-l~~lP~~~~~l~~L~~l~~~~~  583 (667)
                      |++++ .+.. .|       ..++++++|++|++++|. +..+| .+..+++|+.|++..+
T Consensus       117 L~Ls~n~i~~~~~-------~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l~~n  169 (197)
T 4ezg_A          117 LDISHSAHDDSIL-------TKINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQFD  169 (197)
T ss_dssp             EECCSSBCBGGGH-------HHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEECTTB
T ss_pred             EEecCCccCcHhH-------HHHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEECCCC
Confidence            99999 6654 56       789999999999999998 98888 5678999999987643

>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=99.34  E-value=5.7e-12  Score=140.61  Aligned_cols=174  Identities=14%  Similarity=0.157  Sum_probs=133.1

Q ss_pred             CCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCcc-CCccccCCCcccEEecCC-cccccCCCCccChhhhcCC
Q 038110          472 PQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLS-LPSSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHF  549 (667)
Q Consensus       472 ~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-lP~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L  549 (667)
                      .+|++|.+++|...  .++  ++..+++|++|++++|.+.. +|..++++++|++|++++ .+..+|.    .+..++++
T Consensus       331 ~~L~~L~l~~n~~~--~~~--~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~----~~~~~~~l  402 (562)
T 3a79_B          331 MNIKMLSISDTPFI--HMV--CPPSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFK----VALMTKNM  402 (562)
T ss_dssp             CCCSEEEEESSCCC--CCC--CCSSCCCCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSSCCCBTTH----HHHTTTTC
T ss_pred             CcceEEEccCCCcc--ccc--CccCCCCceEEECCCCccccchhhhhcccCCCCEEECCCCCcCCccc----chhhhcCC
Confidence            45777777777652  222  12688999999999999985 789999999999999999 6665430    00568999


Q ss_pred             CCCCeEEeecCCCCC-CCCC-CcCCCCCCeeEEEecCccCCCcccccccccceEEeecCccccchHHHHHHhhhcceeec
Q 038110          550 PNLTSLELEVNDANT-LPRG-GLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSL  627 (667)
Q Consensus       550 ~~L~~L~l~~~~l~~-lP~~-~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L  627 (667)
                      ++|++|++++|.+.. +|.+ +..+++|+.|++..+.-.. .........++.+.++.+.....+..+. .+++|+.|+|
T Consensus       403 ~~L~~L~l~~N~l~~~~~~~~~~~l~~L~~L~l~~n~l~~-~~~~~l~~~L~~L~L~~N~l~~ip~~~~-~l~~L~~L~L  480 (562)
T 3a79_B          403 SSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTG-SVFRCLPPKVKVLDLHNNRIMSIPKDVT-HLQALQELNV  480 (562)
T ss_dssp             TTCCEEECTTSCCBSCCSSCCCCCCTTCCEEECCSSCCCG-GGGSSCCTTCSEEECCSSCCCCCCTTTT-SSCCCSEEEC
T ss_pred             CCCCEEECCCCcCCCccChhhhcCcccCCEEECCCCCCCc-chhhhhcCcCCEEECCCCcCcccChhhc-CCCCCCEEEC
Confidence            999999999999887 8886 5688999999887554211 1111222578889998877666666555 6689999999


Q ss_pred             cccccccccccchh-hhhccCCCccEEEeecCCC
Q 038110          628 AGLLDQDIKNFVNE-LVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       628 ~~~~~~~~~~~~~~-l~~~~l~~L~~L~l~~~~~  660 (667)
                      ++|   .+..+|.. +  ..+++|+.|++++|+-
T Consensus       481 ~~N---~l~~l~~~~~--~~l~~L~~L~l~~N~~  509 (562)
T 3a79_B          481 ASN---QLKSVPDGVF--DRLTSLQYIWLHDNPW  509 (562)
T ss_dssp             CSS---CCCCCCTTST--TTCTTCCCEECCSCCB
T ss_pred             CCC---CCCCCCHHHH--hcCCCCCEEEecCCCc
Confidence            999   66678887 6  8899999999999973

>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=99.34  E-value=1.4e-12  Score=136.38  Aligned_cols=200  Identities=14%  Similarity=0.079  Sum_probs=110.8

Q ss_pred             ccceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcE-EEcCCCCCccC-CccccCCCccc
Q 038110          449 VRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRV-LDLTDMNLLSL-PSSIGLLTNLH  524 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~-L~L~~~~i~~l-P~si~~L~~L~  524 (667)
                      +.+++.|.+++|++..+|..  ..+++|++|++++|... ..+|...|.++++|.. +.+++|++..+ |..+..|++|+
T Consensus        29 ~~~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~-~~i~~~~f~~L~~l~~~l~~~~N~l~~l~~~~f~~l~~L~  107 (350)
T 4ay9_X           29 PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVL-EVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQ  107 (350)
T ss_dssp             CTTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTC-CEECTTSBCSCTTCCEEEEEEETTCCEECTTSBCCCTTCC
T ss_pred             CCCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCC-CccChhHhhcchhhhhhhcccCCcccccCchhhhhccccc
Confidence            56788888888888888763  37888888888888764 5677777788877664 66667788877 45678888888


Q ss_pred             EEecCC-cccccCCCCccChhhhcCCCCCCeEEeecC-CCCCCCCC-CcCC-CCCCeeEEEecCccCCCcccccccccce
Q 038110          525 TLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVN-DANTLPRG-GLFF-EKPERYKILTGHRWSRGFYRSSNKSYRS  600 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~-~l~~lP~~-~~~l-~~L~~l~~~~~~~~~~~~~~~~~~~l~~  600 (667)
                      +|++++ .+..+|.      ..+....++..|++.++ .+..+|.. +..+ ..++.|++..+.-..++........+..
T Consensus       108 ~L~l~~n~l~~~~~------~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~i~~i~~~~f~~~~L~~  181 (350)
T 4ay9_X          108 YLLISNTGIKHLPD------VHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDE  181 (350)
T ss_dssp             EEEEEEECCSSCCC------CTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTSSTTEEEEE
T ss_pred             cccccccccccCCc------hhhcccchhhhhhhccccccccccccchhhcchhhhhhccccccccCCChhhccccchhH
Confidence            888887 6666662      22333444555555443 35555543 2222 2344444432222222111111112233


Q ss_pred             EEeec-CccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCCCe
Q 038110          601 FRIDL-DANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGPQ  662 (667)
Q Consensus       601 l~l~~-~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~l~  662 (667)
                      +.+.. +.....++.....+++|+.|+|++|   .+..+|...    +.+|+.|.+.++..++
T Consensus       182 l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N---~l~~lp~~~----~~~L~~L~~l~~~~l~  237 (350)
T 4ay9_X          182 LNLSDNNNLEELPNDVFHGASGPVILDISRT---RIHSLPSYG----LENLKKLRARSTYNLK  237 (350)
T ss_dssp             EECTTCTTCCCCCTTTTTTEECCSEEECTTS---CCCCCCSSS----CTTCCEEECTTCTTCC
T ss_pred             HhhccCCcccCCCHHHhccCcccchhhcCCC---CcCccChhh----hccchHhhhccCCCcC
Confidence            33332 2333333333344456666666665   344444332    4455555555444443

>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=99.34  E-value=7.9e-12  Score=135.24  Aligned_cols=177  Identities=15%  Similarity=0.158  Sum_probs=98.2

Q ss_pred             cceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecC
Q 038110          450 RHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLY  529 (667)
Q Consensus       450 ~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~  529 (667)
                      .+++.|++.+|.+..++..  .++|++|++++|..  ..+|.  |+++++|++|++++|.++.+|..+   .+|++|+++
T Consensus       111 ~~L~~L~l~~n~l~~l~~~--~~~L~~L~L~~n~l--~~lp~--~~~l~~L~~L~l~~N~l~~lp~~~---~~L~~L~L~  181 (454)
T 1jl5_A          111 QSLKSLLVDNNNLKALSDL--PPLLEYLGVSNNQL--EKLPE--LQNSSFLKIIDVDNNSLKKLPDLP---PSLEFIAAG  181 (454)
T ss_dssp             TTCCEEECCSSCCSCCCSC--CTTCCEEECCSSCC--SSCCC--CTTCTTCCEEECCSSCCSCCCCCC---TTCCEEECC
T ss_pred             CCCcEEECCCCccCcccCC--CCCCCEEECcCCCC--CCCcc--cCCCCCCCEEECCCCcCcccCCCc---ccccEEECc
Confidence            4555555555555444332  14566666666554  34552  366666666666666666655543   356666666


Q ss_pred             C-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeecCcc
Q 038110          530 G-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDAN  608 (667)
Q Consensus       530 ~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~  608 (667)
                      + .+..+|        +++++++|++|++++|.+..+|..   ..+|+.|++..+.-..++.+ .....++.+.++.+..
T Consensus       182 ~n~l~~l~--------~~~~l~~L~~L~l~~N~l~~l~~~---~~~L~~L~l~~n~l~~lp~~-~~l~~L~~L~l~~N~l  249 (454)
T 1jl5_A          182 NNQLEELP--------ELQNLPFLTAIYADNNSLKKLPDL---PLSLESIVAGNNILEELPEL-QNLPFLTTIYADNNLL  249 (454)
T ss_dssp             SSCCSSCC--------CCTTCTTCCEEECCSSCCSSCCCC---CTTCCEEECCSSCCSSCCCC-TTCTTCCEEECCSSCC
T ss_pred             CCcCCcCc--------cccCCCCCCEEECCCCcCCcCCCC---cCcccEEECcCCcCCccccc-CCCCCCCEEECCCCcC
Confidence            5 555555        366777777777777776666654   24666776654443334332 2234456666666444


Q ss_pred             ccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCC
Q 038110          609 VRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       609 ~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~  659 (667)
                      ...+.    .+++|+.|++++|   .+..+|..     +++|+.|++++|.
T Consensus       250 ~~l~~----~~~~L~~L~l~~N---~l~~l~~~-----~~~L~~L~ls~N~  288 (454)
T 1jl5_A          250 KTLPD----LPPSLEALNVRDN---YLTDLPEL-----PQSLTFLDVSENI  288 (454)
T ss_dssp             SSCCS----CCTTCCEEECCSS---CCSCCCCC-----CTTCCEEECCSSC
T ss_pred             Ccccc----cccccCEEECCCC---cccccCcc-----cCcCCEEECcCCc
Confidence            33222    2357777777777   33334432     3566666666664

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.33  E-value=8.6e-12  Score=121.98  Aligned_cols=148  Identities=16%  Similarity=0.130  Sum_probs=117.9

Q ss_pred             ceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCcccEEecC
Q 038110          451 HCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNLHTLCLY  529 (667)
Q Consensus       451 ~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L~~L~L~  529 (667)
                      ....++..++.+..+|... .++|++|++++|..  ..+++..|.++++|++|+|++|.+..+|.. +..+.+|++|+|+
T Consensus        20 s~~~v~c~~~~l~~ip~~~-~~~L~~L~Ls~n~i--~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls   96 (229)
T 3e6j_A           20 SGTTVDCRSKRHASVPAGI-PTNAQILYLHDNQI--TKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLG   96 (229)
T ss_dssp             ETTEEECTTSCCSSCCSCC-CTTCSEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             eCCEeEccCCCcCccCCCC-CCCCCEEEcCCCcc--CccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECC
Confidence            4456788888888888754 48999999999988  456555569999999999999999999865 6899999999999


Q ss_pred             C-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCc-ccccccccceEEeecCc
Q 038110          530 G-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGF-YRSSNKSYRSFRIDLDA  607 (667)
Q Consensus       530 ~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~-~~~~~~~l~~l~l~~~~  607 (667)
                      + .+..+|.      ..+..+++|++|++++|.+..+|..+..+++|+.|++..+.-..++. .......++.+.+.++.
T Consensus        97 ~N~l~~l~~------~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~  170 (229)
T 3e6j_A           97 TNQLTVLPS------AVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYLFGNP  170 (229)
T ss_dssp             SSCCCCCCT------TTTTTCTTCCEEECCSSCCCSCCTTGGGCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             CCcCCccCh------hHhCcchhhCeEeccCCcccccCcccccCCCCCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCC
Confidence            9 8888882      45789999999999999999999998999999999988665433332 12233455666666543

>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=99.33  E-value=3.3e-12  Score=133.54  Aligned_cols=193  Identities=13%  Similarity=0.169  Sum_probs=143.1

Q ss_pred             eEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCc-cCCc-cccCCCcccEE-ecC
Q 038110          453 TSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLL-SLPS-SIGLLTNLHTL-CLY  529 (667)
Q Consensus       453 r~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-~lP~-si~~L~~L~~L-~L~  529 (667)
                      +.+..+++++.++|... .++++.|++++|..  ..+|.+.|.++++|++|+|++|.+. .+|. .|.+|.+|+.+ .+.
T Consensus        12 ~~v~C~~~~Lt~iP~~l-~~~l~~L~Ls~N~i--~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~   88 (350)
T 4ay9_X           12 RVFLCQESKVTEIPSDL-PRNAIELRFVLTKL--RVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEK   88 (350)
T ss_dssp             TEEEEESTTCCSCCTTC-CTTCSEEEEESCCC--SEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEE
T ss_pred             CEEEecCCCCCccCcCc-CCCCCEEEccCCcC--CCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhccc
Confidence            45677778888888755 57899999999987  7899887899999999999999975 5665 57889998765 444


Q ss_pred             C-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCccCCCc-----ccccccccceEE
Q 038110          530 G-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHRWSRGF-----YRSSNKSYRSFR  602 (667)
Q Consensus       530 ~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~~~~~~-----~~~~~~~l~~l~  602 (667)
                      . .+..+|.      ..|..|++|++|++++|.+..+|.. +.....+..+.+..  ...+..     +......+..+.
T Consensus        89 ~N~l~~l~~------~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~--~~~i~~l~~~~f~~~~~~l~~L~  160 (350)
T 4ay9_X           89 ANNLLYINP------EAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQD--NINIHTIERNSFVGLSFESVILW  160 (350)
T ss_dssp             ETTCCEECT------TSBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEES--CTTCCEECTTSSTTSBSSCEEEE
T ss_pred             CCcccccCc------hhhhhccccccccccccccccCCchhhcccchhhhhhhcc--ccccccccccchhhcchhhhhhc
Confidence            4 7888862      6789999999999999999999876 23444555665542  222222     223334566677


Q ss_pred             eecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          603 IDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       603 l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      ++.+.....+...... .+|+.|.+.++  +.++.+|.... ..+++|+.|++++|.-
T Consensus       161 L~~N~i~~i~~~~f~~-~~L~~l~l~~~--n~l~~i~~~~f-~~l~~L~~LdLs~N~l  214 (350)
T 4ay9_X          161 LNKNGIQEIHNSAFNG-TQLDELNLSDN--NNLEELPNDVF-HGASGPVILDISRTRI  214 (350)
T ss_dssp             CCSSCCCEECTTSSTT-EEEEEEECTTC--TTCCCCCTTTT-TTEECCSEEECTTSCC
T ss_pred             cccccccCCChhhccc-cchhHHhhccC--CcccCCCHHHh-ccCcccchhhcCCCCc
Confidence            7776665555444333 58999999876  57788886532 7899999999999953

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=99.33  E-value=6.8e-12  Score=121.90  Aligned_cols=129  Identities=17%  Similarity=0.198  Sum_probs=110.6

Q ss_pred             cccceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCccc
Q 038110          448 RVRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNLH  524 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L~  524 (667)
                      .+.+++.|.+.+|.+..++..  ..+++|+.|++++|..  ..+++..|.++++|++|+|++|.++.+|.. +..+.+|+
T Consensus        30 l~~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i--~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~  107 (220)
T 2v9t_B           30 LPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQI--SELAPDAFQGLRSLNSLVLYGNKITELPKSLFEGLFSLQ  107 (220)
T ss_dssp             CCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCC--CEECTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCC
T ss_pred             cCcCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcC--CCcCHHHhhCCcCCCEEECCCCcCCccCHhHccCCCCCC
Confidence            347899999999999888753  3789999999999987  456444469999999999999999999886 58899999


Q ss_pred             EEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecC
Q 038110          525 TLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGH  584 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~  584 (667)
                      +|+|++ .+..+|.      ..|..+++|++|++++|.+..+|.. +..+++|+.|++..+.
T Consensus       108 ~L~L~~N~l~~~~~------~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~  163 (220)
T 2v9t_B          108 LLLLNANKINCLRV------DAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQNP  163 (220)
T ss_dssp             EEECCSSCCCCCCT------TTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             EEECCCCCCCEeCH------HHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEeCCCC
Confidence            999999 7887752      6799999999999999999999886 6688999999877444

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

Probab=99.32  E-value=7.7e-12  Score=131.31  Aligned_cols=128  Identities=19%  Similarity=0.175  Sum_probs=84.0

Q ss_pred             ccceeEEEEeccCccccCCCC---CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCccc
Q 038110          449 VRHCTSIVILDVKTYVLPEVM---ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLH  524 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~~~---~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~  524 (667)
                      +..++.|++++|.+..++...   .+++|++|++++|..  ..++...|.++++|++|+|++|.++.+|. .+..|.+|+
T Consensus        38 ~~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i--~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~  115 (361)
T 2xot_A           38 PSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHL--NFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALE  115 (361)
T ss_dssp             CTTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCC--CEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCC
T ss_pred             CCCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcC--CccChhhccCCCCCCEEECCCCcCCcCCHHHhCCCcCCC
Confidence            455677777777776665432   567777777777766  45555545777777777777777776654 466777777


Q ss_pred             EEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCC----cCCCCCCeeEEEecC
Q 038110          525 TLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGG----LFFEKPERYKILTGH  584 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~----~~l~~L~~l~~~~~~  584 (667)
                      +|+|++ .+..++.      ..|.++++|++|++++|.+..+|..+    ..+++|+.|++..+.
T Consensus       116 ~L~L~~N~i~~~~~------~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~~L~L~~N~  174 (361)
T 2xot_A          116 VLLLYNNHIVVVDR------NAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNK  174 (361)
T ss_dssp             EEECCSSCCCEECT------TTTTTCTTCCEEECCSSCCCSCCGGGTC----CTTCCEEECCSSC
T ss_pred             EEECCCCcccEECH------HHhCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCCEEECCCCC
Confidence            777777 5655531      56777777777777777777777653    346667776665433

>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=99.31  E-value=1.5e-11  Score=133.14  Aligned_cols=156  Identities=12%  Similarity=0.047  Sum_probs=120.1

Q ss_pred             cceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecC
Q 038110          450 RHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLY  529 (667)
Q Consensus       450 ~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~  529 (667)
                      ++++.|.+.+|.+..+|....+++|++|++++|..  ..+|..    +.+|++|++++|.++.+| +++++++|++|+++
T Consensus       131 ~~L~~L~L~~n~l~~lp~~~~l~~L~~L~l~~N~l--~~lp~~----~~~L~~L~L~~n~l~~l~-~~~~l~~L~~L~l~  203 (454)
T 1jl5_A          131 PLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSL--KKLPDL----PPSLEFIAAGNNQLEELP-ELQNLPFLTAIYAD  203 (454)
T ss_dssp             TTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCC--SCCCCC----CTTCCEEECCSSCCSSCC-CCTTCTTCCEEECC
T ss_pred             CCCCEEECcCCCCCCCcccCCCCCCCEEECCCCcC--cccCCC----cccccEEECcCCcCCcCc-cccCCCCCCEEECC
Confidence            68999999999888888666889999999999876  457653    358999999999998888 68999999999998


Q ss_pred             C-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeecCcc
Q 038110          530 G-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDAN  608 (667)
Q Consensus       530 ~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~  608 (667)
                      + .+..+|       ..   .++|++|++++|.+..+|. +..+++|+.|++..+.-..   ++.....++.+.++.+..
T Consensus       204 ~N~l~~l~-------~~---~~~L~~L~l~~n~l~~lp~-~~~l~~L~~L~l~~N~l~~---l~~~~~~L~~L~l~~N~l  269 (454)
T 1jl5_A          204 NNSLKKLP-------DL---PLSLESIVAGNNILEELPE-LQNLPFLTTIYADNNLLKT---LPDLPPSLEALNVRDNYL  269 (454)
T ss_dssp             SSCCSSCC-------CC---CTTCCEEECCSSCCSSCCC-CTTCTTCCEEECCSSCCSS---CCSCCTTCCEEECCSSCC
T ss_pred             CCcCCcCC-------CC---cCcccEEECcCCcCCcccc-cCCCCCCCEEECCCCcCCc---ccccccccCEEECCCCcc
Confidence            8 777777       32   2588999999999888885 6788899999887544333   334446777888877554


Q ss_pred             ccchHHHHHHhhhcceeecccc
Q 038110          609 VRLKDRLVVQLRGIEELSLAGL  630 (667)
Q Consensus       609 ~~~~~~~~~~l~~L~~L~L~~~  630 (667)
                      ...+.    .+++|+.|++++|
T Consensus       270 ~~l~~----~~~~L~~L~ls~N  287 (454)
T 1jl5_A          270 TDLPE----LPQSLTFLDVSEN  287 (454)
T ss_dssp             SCCCC----CCTTCCEEECCSS
T ss_pred             cccCc----ccCcCCEEECcCC
Confidence            44332    2368899999888

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.31  E-value=5.9e-12  Score=139.15  Aligned_cols=140  Identities=16%  Similarity=0.140  Sum_probs=105.7

Q ss_pred             CCCccccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCC
Q 038110          442 EWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLT  521 (667)
Q Consensus       442 ~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~  521 (667)
                      .+|  ..+++++.|++++|.+..+|. . ..+|++|++++|..  ..+|.    .+++|++|+|++|.++.+|.   .++
T Consensus        94 ~ip--~~l~~L~~L~Ls~N~l~~ip~-l-~~~L~~L~Ls~N~l--~~lp~----~l~~L~~L~Ls~N~l~~lp~---~l~  160 (571)
T 3cvr_A           94 SLP--ELPASLEYLDACDNRLSTLPE-L-PASLKHLDVDNNQL--TMLPE----LPALLEYINADNNQLTMLPE---LPT  160 (571)
T ss_dssp             CCC--CCCTTCCEEECCSSCCSCCCC-C-CTTCCEEECCSSCC--SCCCC----CCTTCCEEECCSSCCSCCCC---CCT
T ss_pred             ccc--cccCCCCEEEccCCCCCCcch-h-hcCCCEEECCCCcC--CCCCC----cCccccEEeCCCCccCcCCC---cCC
Confidence            445  557899999999999988887 3 23999999999987  55887    68999999999999999998   578


Q ss_pred             cccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCC-------CeeEEEecCccCCCcccc
Q 038110          522 NLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKP-------ERYKILTGHRWSRGFYRS  593 (667)
Q Consensus       522 ~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L-------~~l~~~~~~~~~~~~~~~  593 (667)
                      +|++|+|++ .+..+|       . |+  ++|++|++++|.++.+|. +..  +|       +.|++..|....++....
T Consensus       161 ~L~~L~Ls~N~L~~lp-------~-l~--~~L~~L~Ls~N~L~~lp~-~~~--~L~~~~~~L~~L~Ls~N~l~~lp~~l~  227 (571)
T 3cvr_A          161 SLEVLSVRNNQLTFLP-------E-LP--ESLEALDVSTNLLESLPA-VPV--RNHHSEETEIFFRCRENRITHIPENIL  227 (571)
T ss_dssp             TCCEEECCSSCCSCCC-------C-CC--TTCCEEECCSSCCSSCCC-CC----------CCEEEECCSSCCCCCCGGGG
T ss_pred             CcCEEECCCCCCCCcc-------h-hh--CCCCEEECcCCCCCchhh-HHH--hhhcccccceEEecCCCcceecCHHHh
Confidence            999999999 888899       5 65  899999999999999998 553  55       777666444333333111


Q ss_pred             cccccceEEeecCc
Q 038110          594 SNKSYRSFRIDLDA  607 (667)
Q Consensus       594 ~~~~l~~l~l~~~~  607 (667)
                      ....++.+.|++|.
T Consensus       228 ~l~~L~~L~L~~N~  241 (571)
T 3cvr_A          228 SLDPTCTIILEDNP  241 (571)
T ss_dssp             GSCTTEEEECCSSS
T ss_pred             cCCCCCEEEeeCCc
Confidence            23334444444433

>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=99.31  E-value=1e-12  Score=139.48  Aligned_cols=204  Identities=14%  Similarity=0.121  Sum_probs=122.7

Q ss_pred             cccceeEEEEeccCcccc----CCC--------CCCCCccEEEccCCCCccc----cccHHHHhCCCCCcEEEcCCCCCc
Q 038110          448 RVRHCTSIVILDVKTYVL----PEV--------MECPQLKLFSMPAEKNSFF----AIPHNLFRSMLQVRVLDLTDMNLL  511 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l----~~~--------~~~~~Lr~L~l~~~~~~~~----~lp~~~~~~l~~Lr~L~L~~~~i~  511 (667)
                      ..+++++|++.+|.+..+    |..        ..+++|++|++++|... .    .+|..+ .++++|++|+|++|.+.
T Consensus        58 ~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~-~~~~~~l~~~l-~~~~~L~~L~L~~n~l~  135 (386)
T 2ca6_A           58 SKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFG-PTAQEPLIDFL-SKHTPLEHLYLHNNGLG  135 (386)
T ss_dssp             TCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCC-TTTHHHHHHHH-HHCTTCCEEECCSSCCH
T ss_pred             hCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCC-HHHHHHHHHHH-HhCCCCCEEECcCCCCC
Confidence            345677777776644332    211        25677777777777653 2    245554 77777777777777765


Q ss_pred             c-----CCccccCC---------CcccEEecCC-ccc--ccCCCCccChhhhcCCCCCCeEEeecCCCC------CCCCC
Q 038110          512 S-----LPSSIGLL---------TNLHTLCLYG-GVG--VVDGVKNASLEELKHFPNLTSLELEVNDAN------TLPRG  568 (667)
Q Consensus       512 ~-----lP~si~~L---------~~L~~L~L~~-~l~--~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~------~lP~~  568 (667)
                      .     ++..+..+         ++|++|+|++ .+.  .+|    .....+..+++|++|++++|.+.      -+|..
T Consensus       136 ~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~----~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~  211 (386)
T 2ca6_A          136 PQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMK----EWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEG  211 (386)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHH----HHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHH----HHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHH
Confidence            2     33334444         6777777776 332  222    00035667888888888888876      34446


Q ss_pred             CcCCCCCCeeEEEecCc-----cCCCcccccccccceEEeecCccccch-HHHHHH-----hhhcceeeccccccccccc
Q 038110          569 GLFFEKPERYKILTGHR-----WSRGFYRSSNKSYRSFRIDLDANVRLK-DRLVVQ-----LRGIEELSLAGLLDQDIKN  637 (667)
Q Consensus       569 ~~~l~~L~~l~~~~~~~-----~~~~~~~~~~~~l~~l~l~~~~~~~~~-~~~~~~-----l~~L~~L~L~~~~~~~~~~  637 (667)
                      +..+++|+.|++..+..     ..++........++.|.|+.+...... ..+...     +++|+.|+|++|   .+..
T Consensus       212 l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n---~i~~  288 (386)
T 2ca6_A          212 LAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYN---EIEL  288 (386)
T ss_dssp             GGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSS---CCBH
T ss_pred             hhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCC---cCCH
Confidence            66788888887765442     112222233445677777765543321 111111     468899999888   3333


Q ss_pred             -----cchhhhhccCCCccEEEeecCCCC
Q 038110          638 -----FVNELVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       638 -----~~~~l~~~~l~~L~~L~l~~~~~l  661 (667)
                           +|..+. .++++|+.|++++|+-.
T Consensus       289 ~g~~~l~~~l~-~~l~~L~~L~l~~N~l~  316 (386)
T 2ca6_A          289 DAVRTLKTVID-EKMPDLLFLELNGNRFS  316 (386)
T ss_dssp             HHHHHHHHHHH-HHCTTCCEEECTTSBSC
T ss_pred             HHHHHHHHHHH-hcCCCceEEEccCCcCC
Confidence                 777663 45789999999888643

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

Probab=99.31  E-value=1e-11  Score=119.46  Aligned_cols=106  Identities=23%  Similarity=0.318  Sum_probs=62.1

Q ss_pred             cccceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCccc
Q 038110          448 RVRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNLH  524 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L~  524 (667)
                      .+++++.|++.+|.+..++..  ..+++|++|++++|..  ..+|...|.++++|++|+|++|.++.+|.. ++.+++|+
T Consensus        50 ~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l--~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~  127 (208)
T 2o6s_A           50 ELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQL--QSLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLK  127 (208)
T ss_dssp             TCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCC
T ss_pred             ccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcC--CccCHhHhcCccCCCEEEcCCCcCcccCHhHhccCCcCC
Confidence            445666666666666555542  2456666666666655  445555456666666666666666655543 45666666


Q ss_pred             EEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCC
Q 038110          525 TLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVND  561 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~  561 (667)
                      +|++++ .+..+|.      ..+.++++|++|++++|.
T Consensus       128 ~L~l~~N~l~~~~~------~~~~~l~~L~~L~l~~N~  159 (208)
T 2o6s_A          128 DLRLYQNQLKSVPD------GVFDRLTSLQYIWLHDNP  159 (208)
T ss_dssp             EEECCSSCCSCCCT------TTTTTCTTCCEEECCSCC
T ss_pred             EEECCCCccceeCH------HHhccCCCccEEEecCCC
Confidence            666666 5555551      235566666666666664

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

Probab=99.30  E-value=3.1e-12  Score=139.79  Aligned_cols=181  Identities=11%  Similarity=0.062  Sum_probs=120.3

Q ss_pred             CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-cccccCCC---------C
Q 038110          470 ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVDGV---------K  539 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP~~---------~  539 (667)
                      .+++|++|++++|..  ..+++..|+++++|++|+|++|.+..+|+ ++.+++|++|+|++ .+..+|..         .
T Consensus        32 ~~~~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           32 SAWNVKELDLSGNPL--SQISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLDLNNNYVQELLVGPSIETLHAAN  108 (487)
T ss_dssp             TGGGCCEEECCSSCC--CCCCGGGGTTCTTCCEEECTTSCCEEEEE-CTTCTTCCEEECCSSEEEEEEECTTCCEEECCS
T ss_pred             cCCCccEEEeeCCcC--CCCCHHHHhCCCCCCEEEeeCCCCCCCcc-cccCCCCCEEEecCCcCCCCCCCCCcCEEECcC
Confidence            456999999999987  45665556999999999999999997765 99999999999999 66666510         0


Q ss_pred             ccC-hhhhcCCCCCCeEEeecCCCCCCCC-CCcCCCCCCeeEEEecCccCC-C-cccccccccceEEeecCccccchHHH
Q 038110          540 NAS-LEELKHFPNLTSLELEVNDANTLPR-GGLFFEKPERYKILTGHRWSR-G-FYRSSNKSYRSFRIDLDANVRLKDRL  615 (667)
Q Consensus       540 ~~~-~~~l~~L~~L~~L~l~~~~l~~lP~-~~~~l~~L~~l~~~~~~~~~~-~-~~~~~~~~l~~l~l~~~~~~~~~~~~  615 (667)
                      +.. -.....+++|++|++++|.+..+++ .++++++|+.|+++.+..... + .+......++.|.|+.+.....+...
T Consensus       109 N~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~~~~~~~  188 (487)
T 3oja_A          109 NNISRVSCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQV  188 (487)
T ss_dssp             SCCCCEEECCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEECCC
T ss_pred             CcCCCCCccccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCCccccccccc
Confidence            000 0001235667777777777666543 455677777776654432211 1 12223355666677665544432211


Q ss_pred             HHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          616 VVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       616 ~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                        .+++|+.|+|++|   .+..+|+.+  ..+++|+.|++++|.-
T Consensus       189 --~l~~L~~L~Ls~N---~l~~~~~~~--~~l~~L~~L~Ls~N~l  226 (487)
T 3oja_A          189 --VFAKLKTLDLSSN---KLAFMGPEF--QSAAGVTWISLRNNKL  226 (487)
T ss_dssp             --CCTTCCEEECCSS---CCCEECGGG--GGGTTCSEEECTTSCC
T ss_pred             --cCCCCCEEECCCC---CCCCCCHhH--cCCCCccEEEecCCcC
Confidence              2567888888887   555677777  7888999999988864

>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=99.30  E-value=8.2e-12  Score=119.06  Aligned_cols=132  Identities=14%  Similarity=0.205  Sum_probs=113.5

Q ss_pred             CCCccccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCcc-CCccccCC
Q 038110          442 EWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLS-LPSSIGLL  520 (667)
Q Consensus       442 ~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-lP~si~~L  520 (667)
                      .++....+++++.|.+.+|.+..++....+++|++|++++|... ...|..+ +++++|++|+|++|.+.. .|..++.+
T Consensus        58 ~l~~l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L~l~~n~l~-~~~~~~l-~~l~~L~~L~Ls~n~i~~~~~~~l~~l  135 (197)
T 4ezg_A           58 DLTGIEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGKDVT-SDKIPNL-SGLTSLTLLDISHSAHDDSILTKINTL  135 (197)
T ss_dssp             CCTTGGGCTTCSEEEEESCCCSCCGGGTTCTTCCEEEEECTTCB-GGGSCCC-TTCTTCCEEECCSSBCBGGGHHHHTTC
T ss_pred             ChHHHhcCCCCCEEEccCCCCCcchhhhcCCCCCEEEeECCccC-cccChhh-cCCCCCCEEEecCCccCcHhHHHHhhC
Confidence            44566778899999999998888777678999999999999875 4456655 999999999999999984 78889999


Q ss_pred             CcccEEecCC-c-ccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecC
Q 038110          521 TNLHTLCLYG-G-VGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGH  584 (667)
Q Consensus       521 ~~L~~L~L~~-~-l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~  584 (667)
                      ++|++|++++ . +..+|        .+..+++|++|++++|.+..+| .+..+++|+.|++..+.
T Consensus       136 ~~L~~L~L~~n~~i~~~~--------~l~~l~~L~~L~l~~n~i~~~~-~l~~l~~L~~L~l~~N~  192 (197)
T 4ezg_A          136 PKVNSIDLSYNGAITDIM--------PLKTLPELKSLNIQFDGVHDYR-GIEDFPKLNQLYAFSQT  192 (197)
T ss_dssp             SSCCEEECCSCTBCCCCG--------GGGGCSSCCEEECTTBCCCCCT-TGGGCSSCCEEEECBC-
T ss_pred             CCCCEEEccCCCCccccH--------hhcCCCCCCEEECCCCCCcChH-HhccCCCCCEEEeeCcc
Confidence            9999999999 5 88887        5899999999999999999988 66789999999887444

>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=99.29  E-value=8.2e-12  Score=121.31  Aligned_cols=129  Identities=19%  Similarity=0.180  Sum_probs=109.6

Q ss_pred             cccceeEEEEeccCccccCC---CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCcc
Q 038110          448 RVRHCTSIVILDVKTYVLPE---VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNL  523 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~---~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L  523 (667)
                      ....++.|.+.+|.+..++.   ...+++|++|++++|..  ..++...|.++++|++|+|++|.++.+|.. ++.+.+|
T Consensus        30 ~~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i--~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L  107 (220)
T 2v70_A           30 IPQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKI--TDIEEGAFEGASGVNEILLTSNRLENVQHKMFKGLESL  107 (220)
T ss_dssp             CCTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCC--CEECTTTTTTCTTCCEEECCSSCCCCCCGGGGTTCSSC
T ss_pred             CCCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcC--CEECHHHhCCCCCCCEEECCCCccCccCHhHhcCCcCC
Confidence            35678899999999988743   23799999999999987  567776679999999999999999988664 8999999


Q ss_pred             cEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCC-CCCCcCCCCCCeeEEEecC
Q 038110          524 HTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTL-PRGGLFFEKPERYKILTGH  584 (667)
Q Consensus       524 ~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~l-P~~~~~l~~L~~l~~~~~~  584 (667)
                      ++|+|++ .+..++.      ..|..+++|++|++++|.+..+ |..+..+++|+.|++..+.
T Consensus       108 ~~L~Ls~N~l~~~~~------~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~  164 (220)
T 2v70_A          108 KTLMLRSNRITCVGN------DSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNLLANP  164 (220)
T ss_dssp             CEEECTTSCCCCBCT------TSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEEECCSCC
T ss_pred             CEEECCCCcCCeECH------hHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEEEecCcC
Confidence            9999999 7877742      7799999999999999999998 4557789999999887444

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

Probab=99.27  E-value=5.2e-12  Score=144.59  Aligned_cols=102  Identities=21%  Similarity=0.115  Sum_probs=63.5

Q ss_pred             CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-cccccCCCCccChhhhcC
Q 038110          470 ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKH  548 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~  548 (667)
                      .+++|+.|++++|..  ..+|..+ .++++|++|+|++|.|+.+|.+|++|.+|++|+|++ .+..+|       ..|++
T Consensus       222 ~l~~L~~L~Ls~n~l--~~l~~~~-~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp-------~~~~~  291 (727)
T 4b8c_D          222 DDQLWHALDLSNLQI--FNISANI-FKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLP-------AELGS  291 (727)
T ss_dssp             CCCCCCEEECTTSCC--SCCCGGG-GGCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSCCSSCC-------SSGGG
T ss_pred             cCCCCcEEECCCCCC--CCCChhh-cCCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCcCCccC-------hhhcC
Confidence            455666666666655  4566655 366666666666666666666666666666666666 555666       55666


Q ss_pred             CCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEE
Q 038110          549 FPNLTSLELEVNDANTLPRGGLFFEKPERYKIL  581 (667)
Q Consensus       549 L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~  581 (667)
                      |++|++|+|++|.++.+|.+++.|++|+.|++.
T Consensus       292 l~~L~~L~L~~N~l~~lp~~~~~l~~L~~L~L~  324 (727)
T 4b8c_D          292 CFQLKYFYFFDNMVTTLPWEFGNLCNLQFLGVE  324 (727)
T ss_dssp             GTTCSEEECCSSCCCCCCSSTTSCTTCCCEECT
T ss_pred             CCCCCEEECCCCCCCccChhhhcCCCccEEeCC
Confidence            666666666666666666665566666666554

>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=1.2e-12  Score=138.95  Aligned_cols=208  Identities=14%  Similarity=0.094  Sum_probs=144.3

Q ss_pred             ccccceeEEEEeccCcccc-----CC-CCCCCCccEEEccCCCCc--cccccHHH------HhCCCCCcEEEcCCCCCcc
Q 038110          447 SRVRHCTSIVILDVKTYVL-----PE-VMECPQLKLFSMPAEKNS--FFAIPHNL------FRSMLQVRVLDLTDMNLLS  512 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l-----~~-~~~~~~Lr~L~l~~~~~~--~~~lp~~~------~~~l~~Lr~L~L~~~~i~~  512 (667)
                      ...++++.|++.+|.+...     +. ...+++|++|++++|...  ...+|..+      |.++++|++|+|++|.+..
T Consensus        29 ~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~  108 (386)
T 2ca6_A           29 LEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGP  108 (386)
T ss_dssp             HHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCT
T ss_pred             hcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCCH
Confidence            3457899999999987542     22 236899999999987431  13456554      4799999999999999886


Q ss_pred             -----CCccccCCCcccEEecCC-ccc-----ccCCCCccChhhhcCC---------CCCCeEEeecCCCC--CCC---C
Q 038110          513 -----LPSSIGLLTNLHTLCLYG-GVG-----VVDGVKNASLEELKHF---------PNLTSLELEVNDAN--TLP---R  567 (667)
Q Consensus       513 -----lP~si~~L~~L~~L~L~~-~l~-----~LP~~~~~~~~~l~~L---------~~L~~L~l~~~~l~--~lP---~  567 (667)
                           +|..++++++|++|+|++ .+.     .++       ..+..+         ++|++|++++|.+.  .+|   .
T Consensus       109 ~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~-------~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~  181 (386)
T 2ca6_A          109 TAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIA-------RALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAK  181 (386)
T ss_dssp             TTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHH-------HHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHH-------HHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHH
Confidence                 788999999999999998 443     344       445555         89999999999985  455   3


Q ss_pred             CCcCCCCCCeeEEEecCccC------CCcccccccccceEEeecCccc----cchHHHHHHhhhcceeeccccccc--cc
Q 038110          568 GGLFFEKPERYKILTGHRWS------RGFYRSSNKSYRSFRIDLDANV----RLKDRLVVQLRGIEELSLAGLLDQ--DI  635 (667)
Q Consensus       568 ~~~~l~~L~~l~~~~~~~~~------~~~~~~~~~~l~~l~l~~~~~~----~~~~~~~~~l~~L~~L~L~~~~~~--~~  635 (667)
                      .+..+++|+.|++..+.-..      .+........++.|.|+.+...    ...+.....+++|+.|+|++|.-.  +.
T Consensus       182 ~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~i~~~~~  261 (386)
T 2ca6_A          182 TFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGA  261 (386)
T ss_dssp             HHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHH
T ss_pred             HHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCCCchhhH
Confidence            45578899999887554220      1102233456778888876553    112222234479999999999211  11


Q ss_pred             cccchhhhhccCCCccEEEeecCCCC
Q 038110          636 KNFVNELVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       636 ~~~~~~l~~~~l~~L~~L~l~~~~~l  661 (667)
                      ..++..+...++++|+.|+|++|.-.
T Consensus       262 ~~l~~~l~~~~~~~L~~L~L~~n~i~  287 (386)
T 2ca6_A          262 AAVVDAFSKLENIGLQTLRLQYNEIE  287 (386)
T ss_dssp             HHHHHHHHTCSSCCCCEEECCSSCCB
T ss_pred             HHHHHHHhhccCCCeEEEECcCCcCC
Confidence            23567762234899999999999753

>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=99.26  E-value=3.5e-11  Score=122.16  Aligned_cols=149  Identities=13%  Similarity=0.113  Sum_probs=115.2

Q ss_pred             CCCccccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCC
Q 038110          442 EWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLT  521 (667)
Q Consensus       442 ~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~  521 (667)
                      .++....+++++.|++.+|.+..++....+++|++|++++|..  ..+|.  +..+++|++|+|++|.+..+| .++.++
T Consensus        60 ~~~~~~~l~~L~~L~L~~n~l~~~~~l~~l~~L~~L~l~~n~l--~~~~~--l~~l~~L~~L~L~~n~i~~~~-~l~~l~  134 (291)
T 1h6t_A           60 SVQGIQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKV--KDLSS--LKDLKKLKSLSLEHNGISDIN-GLVHLP  134 (291)
T ss_dssp             CCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCC--CCGGG--GTTCTTCCEEECTTSCCCCCG-GGGGCT
T ss_pred             cChhHhcCCCCCEEEccCCccCCCcccccCCCCCEEECCCCcC--CCChh--hccCCCCCEEECCCCcCCCCh-hhcCCC
Confidence            3455667789999999999998887766899999999999987  55655  489999999999999999874 688999


Q ss_pred             cccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccce
Q 038110          522 NLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRS  600 (667)
Q Consensus       522 ~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~  600 (667)
                      +|++|++++ .+..++        .++++++|++|++++|.+..+|. +..+++|+.|++..+.-..++.+. ....++.
T Consensus       135 ~L~~L~l~~n~l~~~~--------~l~~l~~L~~L~L~~N~l~~~~~-l~~l~~L~~L~L~~N~i~~l~~l~-~l~~L~~  204 (291)
T 1h6t_A          135 QLESLYLGNNKITDIT--------VLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNHISDLRALA-GLKNLDV  204 (291)
T ss_dssp             TCCEEECCSSCCCCCG--------GGGGCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCBCGGGT-TCTTCSE
T ss_pred             CCCEEEccCCcCCcch--------hhccCCCCCEEEccCCccccchh-hcCCCccCEEECCCCcCCCChhhc-cCCCCCE
Confidence            999999998 676665        68889999999999999888877 678889999988755433332211 2233444


Q ss_pred             EEeec
Q 038110          601 FRIDL  605 (667)
Q Consensus       601 l~l~~  605 (667)
                      +.+++
T Consensus       205 L~l~~  209 (291)
T 1h6t_A          205 LELFS  209 (291)
T ss_dssp             EEEEE
T ss_pred             EECcC
Confidence            45444

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

Probab=99.25  E-value=2.2e-11  Score=121.80  Aligned_cols=128  Identities=15%  Similarity=0.099  Sum_probs=106.5

Q ss_pred             CCCccccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCC
Q 038110          442 EWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLT  521 (667)
Q Consensus       442 ~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~  521 (667)
                      .++....+++++.|++.+|.+..++....+++|+.|++++|..  ..+|..  .. .+|++|+|++|.++.+| .++.++
T Consensus        55 ~l~~l~~l~~L~~L~L~~N~i~~~~~l~~l~~L~~L~L~~N~l--~~l~~~--~~-~~L~~L~L~~N~l~~~~-~l~~l~  128 (263)
T 1xeu_A           55 SLAGMQFFTNLKELHLSHNQISDLSPLKDLTKLEELSVNRNRL--KNLNGI--PS-ACLSRLFLDNNELRDTD-SLIHLK  128 (263)
T ss_dssp             CCTTGGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEECCSSCC--SCCTTC--CC-SSCCEEECCSSCCSBSG-GGTTCT
T ss_pred             cchHHhhCCCCCEEECCCCccCCChhhccCCCCCEEECCCCcc--CCcCcc--cc-CcccEEEccCCccCCCh-hhcCcc
Confidence            4455667789999999999998887766889999999999987  566653  33 89999999999999886 589999


Q ss_pred             cccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecC
Q 038110          522 NLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGH  584 (667)
Q Consensus       522 ~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~  584 (667)
                      +|++|++++ .+..+|        .++.+++|++|++++|.+..+ ..+..+++|+.|++..+.
T Consensus       129 ~L~~L~Ls~N~i~~~~--------~l~~l~~L~~L~L~~N~i~~~-~~l~~l~~L~~L~l~~N~  183 (263)
T 1xeu_A          129 NLEILSIRNNKLKSIV--------MLGFLSKLEVLDLHGNEITNT-GGLTRLKKVNWIDLTGQK  183 (263)
T ss_dssp             TCCEEECTTSCCCBCG--------GGGGCTTCCEEECTTSCCCBC-TTSTTCCCCCEEEEEEEE
T ss_pred             cccEEECCCCcCCCCh--------HHccCCCCCEEECCCCcCcch-HHhccCCCCCEEeCCCCc
Confidence            999999998 777776        588899999999999998888 456788999999888665

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=99.25  E-value=3.8e-12  Score=119.06  Aligned_cols=127  Identities=11%  Similarity=0.088  Sum_probs=105.2

Q ss_pred             ccccceeEEEEeccCccccCCCCCCC-CccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccc-cCCCccc
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVMECP-QLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSI-GLLTNLH  524 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~~~~-~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si-~~L~~L~  524 (667)
                      ..+.+++.|++.+|.+..++....+. +|++|++++|..  ..+ +. |+++++|++|+|++|.++.+|..+ +.+++|+
T Consensus        16 ~~~~~L~~L~l~~n~l~~i~~~~~~~~~L~~L~Ls~N~l--~~~-~~-l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~   91 (176)
T 1a9n_A           16 TNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEI--RKL-DG-FPLLRRLKTLLVNNNRICRIGEGLDQALPDLT   91 (176)
T ss_dssp             ECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCC--CEE-CC-CCCCSSCCEEECCSSCCCEECSCHHHHCTTCC
T ss_pred             CCcCCceEEEeeCCCCchhHHhhhcCCCCCEEECCCCCC--Ccc-cc-cccCCCCCEEECCCCcccccCcchhhcCCCCC
Confidence            44578999999999998887655544 999999999987  455 33 489999999999999999988765 8999999


Q ss_pred             EEecCC-cccccCCCCccChh--hhcCCCCCCeEEeecCCCCCCCCC----CcCCCCCCeeEEEecC
Q 038110          525 TLCLYG-GVGVVDGVKNASLE--ELKHFPNLTSLELEVNDANTLPRG----GLFFEKPERYKILTGH  584 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~--~l~~L~~L~~L~l~~~~l~~lP~~----~~~l~~L~~l~~~~~~  584 (667)
                      +|++++ .+..+|       .  .++.+++|++|++++|.+..+|..    +..+++|+.|++..+.
T Consensus        92 ~L~L~~N~i~~~~-------~~~~l~~l~~L~~L~l~~N~i~~~~~~~~~~~~~l~~L~~Ld~~~n~  151 (176)
T 1a9n_A           92 ELILTNNSLVELG-------DLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDFQKVK  151 (176)
T ss_dssp             EEECCSCCCCCGG-------GGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETTEECC
T ss_pred             EEECCCCcCCcch-------hhHhhhcCCCCCEEEecCCCCCCcHhHHHHHHHHCCccceeCCCcCC
Confidence            999999 788888       5  788999999999999998888885    6688888888766443

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

Probab=99.25  E-value=1.1e-11  Score=129.97  Aligned_cols=169  Identities=11%  Similarity=0.015  Sum_probs=126.5

Q ss_pred             eEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHh-CCCCCcEEEcCCCCCccCC-ccccCCCcccEEecCC
Q 038110          453 TSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFR-SMLQVRVLDLTDMNLLSLP-SSIGLLTNLHTLCLYG  530 (667)
Q Consensus       453 r~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~-~l~~Lr~L~L~~~~i~~lP-~si~~L~~L~~L~L~~  530 (667)
                      +.+++.++++..+|... .+.++.|++++|..  ..++...|. ++++|++|+|++|.|..+| ..++++.+|++|+|++
T Consensus        21 ~~l~c~~~~l~~iP~~~-~~~l~~L~Ls~N~l--~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~   97 (361)
T 2xot_A           21 NILSCSKQQLPNVPQSL-PSYTALLDLSHNNL--SRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSS   97 (361)
T ss_dssp             TEEECCSSCCSSCCSSC-CTTCSEEECCSSCC--CEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CEEEeCCCCcCccCccC-CCCCCEEECCCCCC--CccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCC
Confidence            57888888998888644 46799999999987  677777767 9999999999999999886 4699999999999999


Q ss_pred             -cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCC-CCcCCCCCCeeEEEecCccCCCccc----ccccccceEEee
Q 038110          531 -GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPR-GGLFFEKPERYKILTGHRWSRGFYR----SSNKSYRSFRID  604 (667)
Q Consensus       531 -~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~-~~~~l~~L~~l~~~~~~~~~~~~~~----~~~~~l~~l~l~  604 (667)
                       .+..+|.      ..|.++++|++|++++|.+..+++ .+..+++|+.|++..+.-..++...    .....++.|.|+
T Consensus        98 N~l~~~~~------~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~~L~L~  171 (361)
T 2xot_A           98 NHLHTLDE------FLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLS  171 (361)
T ss_dssp             SCCCEECT------TTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC----CTTCCEEECC
T ss_pred             CcCCcCCH------HHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCCEEECC
Confidence             8888873      468999999999999999998865 4778999999988765544433211    123445556666


Q ss_pred             cCccccchHHHHHHhhh--cceeecccc
Q 038110          605 LDANVRLKDRLVVQLRG--IEELSLAGL  630 (667)
Q Consensus       605 ~~~~~~~~~~~~~~l~~--L~~L~L~~~  630 (667)
                      .+.....+......++.  |+.|+|.+|
T Consensus       172 ~N~l~~l~~~~~~~l~~~~l~~l~l~~N  199 (361)
T 2xot_A          172 SNKLKKLPLTDLQKLPAWVKNGLYLHNN  199 (361)
T ss_dssp             SSCCCCCCHHHHHHSCHHHHTTEECCSS
T ss_pred             CCCCCccCHHHhhhccHhhcceEEecCC
Confidence            55554444333333343  356666666

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=99.24  E-value=6.8e-12  Score=116.27  Aligned_cols=128  Identities=19%  Similarity=0.213  Sum_probs=93.2

Q ss_pred             ccceeEEEEeccCcc--ccCCC-CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCcc-CCccccCCCccc
Q 038110          449 VRHCTSIVILDVKTY--VLPEV-MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLS-LPSSIGLLTNLH  524 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~--~l~~~-~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-lP~si~~L~~L~  524 (667)
                      +++++.|.+.+|.+.  .+|.. ..+++|++|++++|..  ..+ .. |..+++|++|+|++|.+.. +|..++++++|+
T Consensus        23 ~~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l--~~~-~~-~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~   98 (168)
T 2ell_A           23 PAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGL--ISV-SN-LPKLPKLKKLELSENRIFGGLDMLAEKLPNLT   98 (168)
T ss_dssp             TTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCC--CCC-SS-CCCCSSCCEEEEESCCCCSCCCHHHHHCTTCC
T ss_pred             cccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCC--CCh-hh-hccCCCCCEEECcCCcCchHHHHHHhhCCCCC
Confidence            467888888888776  67665 3678888888888876  344 33 4788888888888888876 677777788888


Q ss_pred             EEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCC----CCcCCCCCCeeEEEecCc
Q 038110          525 TLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPR----GGLFFEKPERYKILTGHR  585 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~----~~~~l~~L~~l~~~~~~~  585 (667)
                      +|++++ .+..+|.     +..++.+++|++|++++|.+..+|.    .+..+++|+.|++..+..
T Consensus        99 ~L~Ls~N~l~~~~~-----~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~~  159 (168)
T 2ell_A           99 HLNLSGNKLKDIST-----LEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDRED  159 (168)
T ss_dssp             EEECBSSSCCSSGG-----GGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEETTS
T ss_pred             EEeccCCccCcchh-----HHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCCCh
Confidence            888887 6666540     1467788888888888888877777    456777888877665543

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

Probab=99.24  E-value=4.4e-12  Score=130.19  Aligned_cols=171  Identities=16%  Similarity=0.087  Sum_probs=130.0

Q ss_pred             ccccceeEEEEeccCccccCC------CCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCcc---CCcc-
Q 038110          447 SRVRHCTSIVILDVKTYVLPE------VMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLS---LPSS-  516 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~------~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~---lP~s-  516 (667)
                      ....+++.|++++|.+.....      ...+++|++|++++|..  ..++...|+++++|++|+|++|.+..   +|.. 
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 ATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHS--PAFSCEQVRAFPALTSLDLSDNPGLGERGLMAAL  191 (310)
T ss_dssp             CCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSS--CCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTS
T ss_pred             ccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCc--chhhHHHhccCCCCCEEECCCCCCccchhhhHHH
Confidence            557889999999998865322      12588999999999987  55665556999999999999998753   4433 


Q ss_pred             -ccCCCcccEEecCC-cccccCCCCccChhh----hcCCCCCCeEEeecCCCCCC-CCCCcCC---CCCCeeEEEecCcc
Q 038110          517 -IGLLTNLHTLCLYG-GVGVVDGVKNASLEE----LKHFPNLTSLELEVNDANTL-PRGGLFF---EKPERYKILTGHRW  586 (667)
Q Consensus       517 -i~~L~~L~~L~L~~-~l~~LP~~~~~~~~~----l~~L~~L~~L~l~~~~l~~l-P~~~~~l---~~L~~l~~~~~~~~  586 (667)
                       ++.+++|++|+|++ .+..+|       ..    ++++++|++|++++|.+..+ |..+..+   ++|+.|+++.+.-.
T Consensus       192 ~~~~l~~L~~L~Ls~N~l~~l~-------~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~l~  264 (310)
T 4glp_A          192 CPHKFPAIQNLALRNTGMETPT-------GVCAALAAAGVQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFAGLE  264 (310)
T ss_dssp             CTTSSCCCCSCBCCSSCCCCHH-------HHHHHHHHHTCCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSSCCC
T ss_pred             hhhcCCCCCEEECCCCCCCchH-------HHHHHHHhcCCCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCCCCC
Confidence             47899999999999 776666       32    57889999999999998887 7776655   69999988766544


Q ss_pred             CCCcccccccccceEEeecCccccchHHHHHHhhhcceeecccc
Q 038110          587 SRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGL  630 (667)
Q Consensus       587 ~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~  630 (667)
                      .++.  .....++.+.++.+.....+.  ...+++|+.|+|++|
T Consensus       265 ~lp~--~~~~~L~~L~Ls~N~l~~~~~--~~~l~~L~~L~L~~N  304 (310)
T 4glp_A          265 QVPK--GLPAKLRVLDLSSNRLNRAPQ--PDELPEVDNLTLDGN  304 (310)
T ss_dssp             SCCS--CCCSCCSCEECCSCCCCSCCC--TTSCCCCSCEECSST
T ss_pred             chhh--hhcCCCCEEECCCCcCCCCch--hhhCCCccEEECcCC
Confidence            4433  223678888888866655322  245689999999999

>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=99.24  E-value=3.7e-11  Score=134.16  Aligned_cols=152  Identities=13%  Similarity=0.110  Sum_probs=119.2

Q ss_pred             CCCccccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCC
Q 038110          442 EWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLT  521 (667)
Q Consensus       442 ~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~  521 (667)
                      .++....+++++.|++.+|.+..++....+++|+.|++++|..  ..+| . |..+++|++|+|++|.+..+| .++.|+
T Consensus        57 ~l~~l~~l~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l--~~l~-~-l~~l~~L~~L~Ls~N~l~~l~-~l~~l~  131 (605)
T 1m9s_A           57 SVQGIQYLPNVTKLFLNGNKLTDIKPLTNLKNLGWLFLDENKI--KDLS-S-LKDLKKLKSLSLEHNGISDIN-GLVHLP  131 (605)
T ss_dssp             CCTTGGGCTTCCEEECTTSCCCCCGGGGGCTTCCEEECCSSCC--CCCT-T-STTCTTCCEEECTTSCCCCCG-GGGGCT
T ss_pred             CChHHccCCCCCEEEeeCCCCCCChhhccCCCCCEEECcCCCC--CCCh-h-hccCCCCCEEEecCCCCCCCc-cccCCC
Confidence            3445667789999999999988887766899999999999877  4565 3 489999999999999998875 588899


Q ss_pred             cccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccce
Q 038110          522 NLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRS  600 (667)
Q Consensus       522 ~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~  600 (667)
                      +|+.|+|++ .+..++        .++.|++|+.|+|++|.+..+|+ +..+++|+.|++..+.-..++.+. ....++.
T Consensus       132 ~L~~L~Ls~N~l~~l~--------~l~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N~i~~l~~l~-~l~~L~~  201 (605)
T 1m9s_A          132 QLESLYLGNNKITDIT--------VLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNHISDLRALA-GLKNLDV  201 (605)
T ss_dssp             TCSEEECCSSCCCCCG--------GGGSCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCBCGGGT-TCTTCSE
T ss_pred             ccCEEECCCCccCCch--------hhcccCCCCEEECcCCcCCCchh-hccCCCCCEEECcCCCCCCChHHc-cCCCCCE
Confidence            999999998 666665        68889999999999999888876 678899999988766544443332 2345677


Q ss_pred             EEeecCcc
Q 038110          601 FRIDLDAN  608 (667)
Q Consensus       601 l~l~~~~~  608 (667)
                      |.|+.+..
T Consensus       202 L~L~~N~l  209 (605)
T 1m9s_A          202 LELFSQEC  209 (605)
T ss_dssp             EECCSEEE
T ss_pred             EEccCCcC
Confidence            77776444

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

Probab=99.23  E-value=4.8e-11  Score=113.27  Aligned_cols=122  Identities=19%  Similarity=0.220  Sum_probs=104.7

Q ss_pred             eEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCC-ccccCCCcccEEecCC-
Q 038110          453 TSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLP-SSIGLLTNLHTLCLYG-  530 (667)
Q Consensus       453 r~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP-~si~~L~~L~~L~L~~-  530 (667)
                      +.+.+.++.+..+|... .++|++|++++|..  ..+|..+ .++++|++|+|++|.++.+| ..|.+|.+|++|+|++ 
T Consensus        13 ~~l~~~~~~l~~ip~~~-~~~l~~L~L~~n~i--~~ip~~~-~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N   88 (193)
T 2wfh_A           13 TVVRCSNKGLKVLPKGI-PRDVTELYLDGNQF--TLVPKEL-SNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYN   88 (193)
T ss_dssp             TEEECTTSCCSSCCSCC-CTTCCEEECCSSCC--CSCCGGG-GGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CEEEcCCCCCCcCCCCC-CCCCCEEECCCCcC--chhHHHh-hcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCC
Confidence            46788888888888654 47999999999987  6888654 99999999999999999886 4699999999999999 


Q ss_pred             cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecC
Q 038110          531 GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGH  584 (667)
Q Consensus       531 ~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~  584 (667)
                      .+..+|.      ..|.++++|++|++++|.+..+|.+ +..+++|+.|++..+.
T Consensus        89 ~l~~i~~------~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~  137 (193)
T 2wfh_A           89 RLRCIPP------RTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANP  137 (193)
T ss_dssp             CCCBCCT------TTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSC
T ss_pred             ccCEeCH------HHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCCC
Confidence            8888873      5699999999999999999999986 5688999999876443

>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=99.23  E-value=2.5e-12  Score=133.49  Aligned_cols=196  Identities=12%  Similarity=0.049  Sum_probs=143.5

Q ss_pred             ceeEEEEeccCccccCCCCCC--CCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCcc--CCccccCCCcccEE
Q 038110          451 HCTSIVILDVKTYVLPEVMEC--PQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLS--LPSSIGLLTNLHTL  526 (667)
Q Consensus       451 ~lr~L~l~~~~~~~l~~~~~~--~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~--lP~si~~L~~L~~L  526 (667)
                      .++++++.++.+.. .....+  ++++.|.+.+|...  ..+..+ .++++|++|+|++|.+..  +|..++.+++|++|
T Consensus        48 ~~~~l~l~~~~~~~-~~~~~~~~~~l~~L~l~~n~l~--~~~~~~-~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L  123 (336)
T 2ast_B           48 LWQTLDLTGKNLHP-DVTGRLLSQGVIAFRCPRSFMD--QPLAEH-FSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNL  123 (336)
T ss_dssp             TSSEEECTTCBCCH-HHHHHHHHTTCSEEECTTCEEC--SCCCSC-CCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEE
T ss_pred             hheeeccccccCCH-HHHHhhhhccceEEEcCCcccc--ccchhh-ccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEE
Confidence            46778887776541 001133  78999999998764  444445 689999999999999873  88899999999999


Q ss_pred             ecCC-ccc-ccCCCCccChhhhcCCCCCCeEEeecC-CCCC--CCCCCcCCCCCCeeEEEecCccC---CCccccccc-c
Q 038110          527 CLYG-GVG-VVDGVKNASLEELKHFPNLTSLELEVN-DANT--LPRGGLFFEKPERYKILTGHRWS---RGFYRSSNK-S  597 (667)
Q Consensus       527 ~L~~-~l~-~LP~~~~~~~~~l~~L~~L~~L~l~~~-~l~~--lP~~~~~l~~L~~l~~~~~~~~~---~~~~~~~~~-~  597 (667)
                      ++++ .+. ..|       ..++++++|++|++++| .++.  +|..+..+++|+.|++..+....   ++....... .
T Consensus       124 ~L~~~~l~~~~~-------~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~  196 (336)
T 2ast_B          124 SLEGLRLSDPIV-------NTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSET  196 (336)
T ss_dssp             ECTTCBCCHHHH-------HHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTT
T ss_pred             eCcCcccCHHHH-------HHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccC
Confidence            9999 544 466       78999999999999999 5763  66656789999999887552121   222223344 7


Q ss_pred             cceEEeecCc--cc-cchHHHHHHhhhcceeeccccccccc-cccchhhhhccCCCccEEEeecCCCC
Q 038110          598 YRSFRIDLDA--NV-RLKDRLVVQLRGIEELSLAGLLDQDI-KNFVNELVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       598 l~~l~l~~~~--~~-~~~~~~~~~l~~L~~L~L~~~~~~~~-~~~~~~l~~~~l~~L~~L~l~~~~~l  661 (667)
                      ++.+.++++.  .. ...+.....+++|+.|+|++|  ... ...+..+  ..+++|+.|++++|.++
T Consensus       197 L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~--~~l~~~~~~~l--~~l~~L~~L~l~~~~~~  260 (336)
T 2ast_B          197 ITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDS--VMLKNDCFQEF--FQLNYLQHLSLSRCYDI  260 (336)
T ss_dssp             CCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTC--TTCCGGGGGGG--GGCTTCCEEECTTCTTC
T ss_pred             CCEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCC--CcCCHHHHHHH--hCCCCCCEeeCCCCCCC
Confidence            8888888753  22 223334455689999999999  422 4567788  88999999999999643

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=99.20  E-value=3.6e-11  Score=114.08  Aligned_cols=122  Identities=13%  Similarity=0.144  Sum_probs=102.5

Q ss_pred             eEEEEeccCccccCCCCCCCCccEEEccCCCCccccccH-HHHhCCCCCcEEEcCCCCCccC-CccccCCCcccEEecCC
Q 038110          453 TSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPH-NLFRSMLQVRVLDLTDMNLLSL-PSSIGLLTNLHTLCLYG  530 (667)
Q Consensus       453 r~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~-~~~~~l~~Lr~L~L~~~~i~~l-P~si~~L~~L~~L~L~~  530 (667)
                      +.+.++++.+..+|... .++|++|++++|..  ..++. .+|+++++|++|+|++|.++.+ |..++.+.+|++|+|++
T Consensus        11 ~~l~~s~~~l~~ip~~~-~~~l~~L~l~~n~i--~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~   87 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRDI-PLHTTELLLNDNEL--GRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGE   87 (192)
T ss_dssp             TEEECTTSCCSSCCSCC-CTTCSEEECCSCCC--CSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CEEEcCCCCcCcCccCC-CCCCCEEECCCCcC--CccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCC
Confidence            67888889998888754 34999999999987  56665 3469999999999999999977 77899999999999999


Q ss_pred             -cccccCCCCccChhhhcCCCCCCeEEeecCCCCCC-CCCCcCCCCCCeeEEEec
Q 038110          531 -GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTL-PRGGLFFEKPERYKILTG  583 (667)
Q Consensus       531 -~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~l-P~~~~~l~~L~~l~~~~~  583 (667)
                       .+..+|.      ..|.++++|++|++++|.+..+ |..+..+++|+.|++..+
T Consensus        88 N~l~~~~~------~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N  136 (192)
T 1w8a_A           88 NKIKEISN------KMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASN  136 (192)
T ss_dssp             CCCCEECS------SSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTC
T ss_pred             CcCCccCH------HHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCC
Confidence             8888872      4589999999999999998877 455778899999977643

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

Probab=99.19  E-value=9e-11  Score=109.68  Aligned_cols=123  Identities=20%  Similarity=0.260  Sum_probs=103.6

Q ss_pred             eeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCcccEEecCC
Q 038110          452 CTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNLHTLCLYG  530 (667)
Q Consensus       452 lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L~~L~L~~  530 (667)
                      .+.+.+.++++..+|.. ..++|+.|++++|..  ..+|...|.++++|++|+|++|.++.+|.. ++.+.+|++|++++
T Consensus         9 ~~~l~~~~~~l~~~p~~-~~~~l~~L~l~~n~l--~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~   85 (177)
T 2o6r_A            9 GTEIRCNSKGLTSVPTG-IPSSATRLELESNKL--QSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHE   85 (177)
T ss_dssp             TTEEECCSSCCSSCCTT-CCTTCSEEECCSSCC--CCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CCEEEecCCCCccCCCC-CCCCCcEEEeCCCcc--cEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCC
Confidence            35677888888888754 358999999999987  577877779999999999999999998765 68999999999999


Q ss_pred             -cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCC-cCCCCCCeeEEEec
Q 038110          531 -GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGG-LFFEKPERYKILTG  583 (667)
Q Consensus       531 -~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~-~~l~~L~~l~~~~~  583 (667)
                       .+..+|.      ..++++++|++|++++|.+..+|..+ ..+++|+.|++..+
T Consensus        86 N~l~~~~~------~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N  134 (177)
T 2o6r_A           86 NKLQSLPN------GVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTN  134 (177)
T ss_dssp             SCCCCCCT------TTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSS
T ss_pred             CCccccCH------HHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEEecCC
Confidence             8888882      34789999999999999999999874 57889999877643

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

Probab=99.17  E-value=1.4e-11  Score=111.65  Aligned_cols=123  Identities=20%  Similarity=0.214  Sum_probs=101.9

Q ss_pred             ccceeEEEEeccCcc--ccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCcc-CCccccCCCccc
Q 038110          449 VRHCTSIVILDVKTY--VLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLS-LPSSIGLLTNLH  524 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~--~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-lP~si~~L~~L~  524 (667)
                      +++++.|++.+|.+.  .+|... .+++|++|++++|..  ..+ .. |+++++|++|+|++|.+.. +|..++.+++|+
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l--~~~-~~-~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~   91 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGL--TSI-AN-LPKLNKLKKLELSDNRVSGGLEVLAEKCPNLT   91 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCC--CCC-TT-CCCCTTCCEEECCSSCCCSCTHHHHHHCTTCC
T ss_pred             CccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCC--CCc-hh-hhcCCCCCEEECCCCcccchHHHHhhhCCCCC
Confidence            468999999999887  777653 789999999999977  455 33 5999999999999999997 888888899999


Q ss_pred             EEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCC----CCcCCCCCCeeEE
Q 038110          525 TLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPR----GGLFFEKPERYKI  580 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~----~~~~l~~L~~l~~  580 (667)
                      +|++++ .+..+|     .+..++.+++|++|++++|.+..+|.    .+..+++|+.|++
T Consensus        92 ~L~ls~N~i~~~~-----~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l  147 (149)
T 2je0_A           92 HLNLSGNKIKDLS-----TIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDG  147 (149)
T ss_dssp             EEECTTSCCCSHH-----HHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETT
T ss_pred             EEECCCCcCCChH-----HHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccC
Confidence            999999 666653     01578999999999999999988887    3567888888754

>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=99.17  E-value=4.5e-11  Score=132.66  Aligned_cols=118  Identities=16%  Similarity=0.139  Sum_probs=103.1

Q ss_pred             ceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC
Q 038110          451 HCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG  530 (667)
Q Consensus       451 ~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~  530 (667)
                      .++.|++++|.+..+|....+++|+.|++++|..  ..+|..+ +++++|++|+|++|.++.+| ++++|++|++|+|++
T Consensus       442 ~L~~L~Ls~n~l~~lp~~~~l~~L~~L~Ls~N~l--~~lp~~~-~~l~~L~~L~Ls~N~l~~lp-~l~~l~~L~~L~Ls~  517 (567)
T 1dce_A          442 DVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRL--RALPPAL-AALRCLEVLQASDNALENVD-GVANLPRLQELLLCN  517 (567)
T ss_dssp             TCSEEECTTSCCSSCCCGGGGTTCCEEECCSSCC--CCCCGGG-GGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCS
T ss_pred             CceEEEecCCCCCCCcCccccccCcEeecCcccc--cccchhh-hcCCCCCEEECCCCCCCCCc-ccCCCCCCcEEECCC
Confidence            4788999999998888866889999999999987  5888876 99999999999999999998 899999999999999


Q ss_pred             -ccccc--CCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCc----CCCCCCeeE
Q 038110          531 -GVGVV--DGVKNASLEELKHFPNLTSLELEVNDANTLPRGGL----FFEKPERYK  579 (667)
Q Consensus       531 -~l~~L--P~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~----~l~~L~~l~  579 (667)
                       .+..+  |       ..+++|++|++|++++|.+..+|+.+.    .+++|+.|+
T Consensus       518 N~l~~~~~p-------~~l~~l~~L~~L~L~~N~l~~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          518 NRLQQSAAI-------QPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             SCCCSSSTT-------GGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEEE
T ss_pred             CCCCCCCCc-------HHHhcCCCCCEEEecCCcCCCCccHHHHHHHHCcccCccC
Confidence             78877  8       899999999999999999988887643    477787774

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=99.16  E-value=1.5e-10  Score=107.02  Aligned_cols=113  Identities=16%  Similarity=0.240  Sum_probs=99.8

Q ss_pred             ccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCC--ccccCCCccc
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLP--SSIGLLTNLH  524 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP--~si~~L~~L~  524 (667)
                      ..+++++.|++.+|.+..++....+++|++|++++|... ..+|.. +.++++|++|+|++|.++.+|  ..++.+++|+
T Consensus        46 ~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~N~l~-~~~~~~-~~~l~~L~~L~Ls~N~l~~~~~~~~l~~l~~L~  123 (168)
T 2ell_A           46 AEFVNLEFLSLINVGLISVSNLPKLPKLKKLELSENRIF-GGLDML-AEKLPNLTHLNLSGNKLKDISTLEPLKKLECLK  123 (168)
T ss_dssp             GGGGGCCEEEEESSCCCCCSSCCCCSSCCEEEEESCCCC-SCCCHH-HHHCTTCCEEECBSSSCCSSGGGGGGSSCSCCC
T ss_pred             HhCCCCCEEeCcCCCCCChhhhccCCCCCEEECcCCcCc-hHHHHH-HhhCCCCCEEeccCCccCcchhHHHHhcCCCCC
Confidence            567899999999999988855558999999999999884 335654 488999999999999999987  7899999999


Q ss_pred             EEecCC-cccccCCCCccChh----hhcCCCCCCeEEeecCCCCCCCCC
Q 038110          525 TLCLYG-GVGVVDGVKNASLE----ELKHFPNLTSLELEVNDANTLPRG  568 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~----~l~~L~~L~~L~l~~~~l~~lP~~  568 (667)
                      +|++++ .+..+|       .    .+..+++|++|++++|.+.++|.+
T Consensus       124 ~L~l~~N~l~~~~-------~~~~~~~~~l~~L~~L~l~~n~~~~~~~~  165 (168)
T 2ell_A          124 SLDLFNCEVTNLN-------DYRESVFKLLPQLTYLDGYDREDQEAPDS  165 (168)
T ss_dssp             EEECCSSGGGTST-------THHHHHHTTCSSCCEETTEETTSCBCCSS
T ss_pred             EEEeeCCcCcchH-------HHHHHHHHhCccCcEecCCCCChhhcccc
Confidence            999999 888888       6    789999999999999999999876

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

Probab=99.15  E-value=3.2e-11  Score=138.08  Aligned_cols=112  Identities=18%  Similarity=0.248  Sum_probs=91.2

Q ss_pred             ccccceeEEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccE
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHT  525 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~  525 (667)
                      ..+..++.|++.+|.+..+|... .+++|++|++++|..  ..+|..+ ++|++|++|+|++|.|+.+|.+|++|.+|++
T Consensus       221 ~~l~~L~~L~Ls~n~l~~l~~~~~~l~~L~~L~Ls~N~l--~~lp~~~-~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~  297 (727)
T 4b8c_D          221 YDDQLWHALDLSNLQIFNISANIFKYDFLTRLYLNGNSL--TELPAEI-KNLSNLRVLDLSHNRLTSLPAELGSCFQLKY  297 (727)
T ss_dssp             -CCCCCCEEECTTSCCSCCCGGGGGCCSCSCCBCTTSCC--SCCCGGG-GGGTTCCEEECTTSCCSSCCSSGGGGTTCSE
T ss_pred             ccCCCCcEEECCCCCCCCCChhhcCCCCCCEEEeeCCcC--cccChhh-hCCCCCCEEeCcCCcCCccChhhcCCCCCCE
Confidence            44567888888888888777544 788888888888877  5788776 8888888999988888888888888888888


Q ss_pred             EecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC
Q 038110          526 LCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG  568 (667)
Q Consensus       526 L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~  568 (667)
                      |+|++ .+..+|       .+|++|++|++|+|++|.+...++.
T Consensus       298 L~L~~N~l~~lp-------~~~~~l~~L~~L~L~~N~l~~~~p~  334 (727)
T 4b8c_D          298 FYFFDNMVTTLP-------WEFGNLCNLQFLGVEGNPLEKQFLK  334 (727)
T ss_dssp             EECCSSCCCCCC-------SSTTSCTTCCCEECTTSCCCSHHHH
T ss_pred             EECCCCCCCccC-------hhhhcCCCccEEeCCCCccCCCChH
Confidence            88888 788888       7788888888888888887755443

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.12  E-value=4.1e-11  Score=125.84  Aligned_cols=14  Identities=29%  Similarity=0.242  Sum_probs=7.3

Q ss_pred             CCCcEEEcCCCCCc
Q 038110          498 LQVRVLDLTDMNLL  511 (667)
Q Consensus       498 ~~Lr~L~L~~~~i~  511 (667)
                      ++|++|+|++|.++
T Consensus        80 ~~L~~L~Ls~n~l~   93 (362)
T 3goz_A           80 ANVTSLNLSGNFLS   93 (362)
T ss_dssp             TTCCEEECCSSCGG
T ss_pred             CCccEEECcCCcCC
Confidence            45555555555544

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

Probab=99.11  E-value=6.3e-11  Score=107.30  Aligned_cols=102  Identities=18%  Similarity=0.189  Sum_probs=67.5

Q ss_pred             CCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-cccc-cCCCCccChhhhcC
Q 038110          471 CPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGV-VDGVKNASLEELKH  548 (667)
Q Consensus       471 ~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~-LP~~~~~~~~~l~~  548 (667)
                      .++|+.|++++|......+|..+ ..+++|++|++++|.++.+ ..++.+++|++|++++ .+.. +|       ..+++
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~~~-~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~n~i~~~~~-------~~~~~   86 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEGLT-DEFEELEFLSTINVGLTSI-ANLPKLNKLKKLELSDNRVSGGLE-------VLAEK   86 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCSCC-TTCTTCCEEECTTSCCCCC-TTCCCCTTCCEEECCSSCCCSCTH-------HHHHH
T ss_pred             CccCeEEEccCCcCChhHHHHHH-hhcCCCcEEECcCCCCCCc-hhhhcCCCCCEEECCCCcccchHH-------HHhhh
Confidence            46677777777765212566543 7777777777777777766 6677777777777777 5555 56       66666


Q ss_pred             CCCCCeEEeecCCCCCCC--CCCcCCCCCCeeEEE
Q 038110          549 FPNLTSLELEVNDANTLP--RGGLFFEKPERYKIL  581 (667)
Q Consensus       549 L~~L~~L~l~~~~l~~lP--~~~~~l~~L~~l~~~  581 (667)
                      +++|++|++++|.+..+|  ..+..+++|+.|++.
T Consensus        87 l~~L~~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~  121 (149)
T 2je0_A           87 CPNLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLF  121 (149)
T ss_dssp             CTTCCEEECTTSCCCSHHHHGGGGGCTTCCEEECT
T ss_pred             CCCCCEEECCCCcCCChHHHHHHhhCCCCCEEeCc
Confidence            777777777777776654  444455555555443

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

Probab=99.08  E-value=2.8e-10  Score=106.02  Aligned_cols=106  Identities=15%  Similarity=0.204  Sum_probs=80.3

Q ss_pred             eEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCcccEEecCC-
Q 038110          453 TSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNLHTLCLYG-  530 (667)
Q Consensus       453 r~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L~~L~L~~-  530 (667)
                      +.+.+.+|.+..+|... .++|+.|++++|..  ..+++..|.++++|++|+|++|.++.+|.. ++++.+|++|+|++ 
T Consensus        15 ~~l~~~~n~l~~iP~~~-~~~L~~L~Ls~N~l--~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N   91 (174)
T 2r9u_A           15 TLVNCQNIRLASVPAGI-PTDKQRLWLNNNQI--TKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDN   91 (174)
T ss_dssp             SEEECCSSCCSSCCSCC-CTTCSEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             cEEEeCCCCCCccCCCc-CCCCcEEEeCCCCc--cccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCC
Confidence            56777777887777654 37888888888876  456555558888888888888888888776 47788888888888 


Q ss_pred             cccccCCCCccChhh-hcCCCCCCeEEeecCCCCCCCCC
Q 038110          531 GVGVVDGVKNASLEE-LKHFPNLTSLELEVNDANTLPRG  568 (667)
Q Consensus       531 ~l~~LP~~~~~~~~~-l~~L~~L~~L~l~~~~l~~lP~~  568 (667)
                      .+..+|       .. |.++++|++|++++|.+...|..
T Consensus        92 ~l~~l~-------~~~~~~l~~L~~L~L~~N~~~c~~~~  123 (174)
T 2r9u_A           92 HLKSIP-------RGAFDNLKSLTHIYLYNNPWDCECRD  123 (174)
T ss_dssp             CCCCCC-------TTTTTTCTTCSEEECCSSCBCTTBGG
T ss_pred             ccceeC-------HHHhccccCCCEEEeCCCCccccccc
Confidence            777777       44 77888888888888877766654

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.04  E-value=1.7e-10  Score=121.10  Aligned_cols=196  Identities=11%  Similarity=0.039  Sum_probs=120.7

Q ss_pred             EEeccCccc-cCCCCC-CCCccEEEccCCCCccccccH----HHHhCCC-CCcEEEcCCCCCccC-CccccCC-----Cc
Q 038110          456 VILDVKTYV-LPEVME-CPQLKLFSMPAEKNSFFAIPH----NLFRSML-QVRVLDLTDMNLLSL-PSSIGLL-----TN  522 (667)
Q Consensus       456 ~l~~~~~~~-l~~~~~-~~~Lr~L~l~~~~~~~~~lp~----~~~~~l~-~Lr~L~L~~~~i~~l-P~si~~L-----~~  522 (667)
                      .+..|++.. +|.... .++|++|++++|..  ...+.    ..|.+++ +|++|+|++|.+... |..++.+     .+
T Consensus         4 ~ls~n~~~~~~~~~~~~~~~L~~L~Ls~n~l--~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~   81 (362)
T 3goz_A            4 KLTLHPGSNPVEEFTSIPHGVTSLDLSLNNL--YSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPAN   81 (362)
T ss_dssp             ECCCCTTCCHHHHHHTSCTTCCEEECTTSCG--GGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTT
T ss_pred             ccccccchHHHHHHHhCCCCceEEEccCCCC--ChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCC
Confidence            445555543 333333 44599999999987  55654    4568898 999999999999865 6667775     99


Q ss_pred             ccEEecCC-cccccCCCCccChhhhcCC-CCCCeEEeecCCCCCCCCC-C----cC-CCCCCeeEEEecCccCC--Ccc-
Q 038110          523 LHTLCLYG-GVGVVDGVKNASLEELKHF-PNLTSLELEVNDANTLPRG-G----LF-FEKPERYKILTGHRWSR--GFY-  591 (667)
Q Consensus       523 L~~L~L~~-~l~~LP~~~~~~~~~l~~L-~~L~~L~l~~~~l~~lP~~-~----~~-l~~L~~l~~~~~~~~~~--~~~-  591 (667)
                      |++|+|++ .+...+.  ......+..+ ++|++|++++|.+...+.. +    .. .++|+.|++..+.-...  ..+ 
T Consensus        82 L~~L~Ls~n~l~~~~~--~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~  159 (362)
T 3goz_A           82 VTSLNLSGNFLSYKSS--DELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELI  159 (362)
T ss_dssp             CCEEECCSSCGGGSCH--HHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHH
T ss_pred             ccEEECcCCcCChHHH--HHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHH
Confidence            99999999 6665541  0000125555 7899999999988776653 1    23 25888887764432110  011 


Q ss_pred             ---cccccccceEEeecCccccchH-HHHH---Hh-hhcceeeccccccccccc-----cchhhhhcc-CCCccEEEeec
Q 038110          592 ---RSSNKSYRSFRIDLDANVRLKD-RLVV---QL-RGIEELSLAGLLDQDIKN-----FVNELVKVG-SSQLKYLQIEG  657 (667)
Q Consensus       592 ---~~~~~~l~~l~l~~~~~~~~~~-~~~~---~l-~~L~~L~L~~~~~~~~~~-----~~~~l~~~~-l~~L~~L~l~~  657 (667)
                         ......++.+.|+.+....... .+..   .. ++|+.|+|++|   .+..     ++..+  .. .++|+.|+|++
T Consensus       160 ~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N---~i~~~~~~~l~~~l--~~~~~~L~~L~Ls~  234 (362)
T 3goz_A          160 QILAAIPANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSAN---LLGLKSYAELAYIF--SSIPNHVVSLNLCL  234 (362)
T ss_dssp             HHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTS---CGGGSCHHHHHHHH--HHSCTTCCEEECCS
T ss_pred             HHHhcCCccccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCC---CCChhHHHHHHHHH--hcCCCCceEEECcC
Confidence               1122356777777655443322 2211   12 47888888877   3332     55555  33 35777777777


Q ss_pred             CCC
Q 038110          658 YRG  660 (667)
Q Consensus       658 ~~~  660 (667)
                      |.-
T Consensus       235 N~l  237 (362)
T 3goz_A          235 NCL  237 (362)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            753

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=99.04  E-value=2.9e-10  Score=106.08  Aligned_cols=111  Identities=17%  Similarity=0.185  Sum_probs=97.2

Q ss_pred             Ccccccc-ceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc--cccCC
Q 038110          444 SDESRVR-HCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS--SIGLL  520 (667)
Q Consensus       444 ~~~~~~~-~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~--si~~L  520 (667)
                      +...... +++.|++++|.+..++....+++|++|++++|..  ..+|+.+|..+++|++|+|++|.+..+|.  .++.+
T Consensus        35 ~~~~~~~~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l--~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l  112 (176)
T 1a9n_A           35 ENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRI--CRIGEGLDQALPDLTELILTNNSLVELGDLDPLASL  112 (176)
T ss_dssp             CCGGGGTTCCSEEECCSSCCCEECCCCCCSSCCEEECCSSCC--CEECSCHHHHCTTCCEEECCSCCCCCGGGGGGGGGC
T ss_pred             HHhhhcCCCCCEEECCCCCCCcccccccCCCCCEEECCCCcc--cccCcchhhcCCCCCEEECCCCcCCcchhhHhhhcC
Confidence            3333444 8999999999998886666899999999999987  67887778999999999999999999998  89999


Q ss_pred             CcccEEecCC-cccccCCCCccChhh----hcCCCCCCeEEeecCCCC
Q 038110          521 TNLHTLCLYG-GVGVVDGVKNASLEE----LKHFPNLTSLELEVNDAN  563 (667)
Q Consensus       521 ~~L~~L~L~~-~l~~LP~~~~~~~~~----l~~L~~L~~L~l~~~~l~  563 (667)
                      ++|++|++++ .+..+|       ..    ++.+++|++||++.|...
T Consensus       113 ~~L~~L~l~~N~i~~~~-------~~~~~~~~~l~~L~~Ld~~~n~~~  153 (176)
T 1a9n_A          113 KSLTYLCILRNPVTNKK-------HYRLYVIYKVPQVRVLDFQKVKLK  153 (176)
T ss_dssp             TTCCEEECCSSGGGGST-------THHHHHHHHCTTCSEETTEECCHH
T ss_pred             CCCCEEEecCCCCCCcH-------hHHHHHHHHCCccceeCCCcCCHH
Confidence            9999999999 888888       54    899999999999988654

>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=99.04  E-value=4.3e-10  Score=124.72  Aligned_cols=117  Identities=18%  Similarity=0.215  Sum_probs=98.4

Q ss_pred             eeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-
Q 038110          452 CTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-  530 (667)
Q Consensus       452 lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-  530 (667)
                      +..+.+.+|.+..++.    ..|++|++++|..  ..+|.  |+++++|++|+|++|.++.+|.++++|++|++|+|++ 
T Consensus       425 L~~l~l~~n~i~~l~~----~~L~~L~Ls~n~l--~~lp~--~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N  496 (567)
T 1dce_A          425 LRSKFLLENSVLKMEY----ADVRVLHLAHKDL--TVLCH--LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDN  496 (567)
T ss_dssp             HHHHHHHHHHHHHHHH----TTCSEEECTTSCC--SSCCC--GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSS
T ss_pred             hhhhhhhcccccccCc----cCceEEEecCCCC--CCCcC--ccccccCcEeecCcccccccchhhhcCCCCCEEECCCC
Confidence            3334444555555443    3599999999987  56887  4999999999999999999999999999999999999 


Q ss_pred             cccccCCCCccChhhhcCCCCCCeEEeecCCCCCC--CCCCcCCCCCCeeEEEecC
Q 038110          531 GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTL--PRGGLFFEKPERYKILTGH  584 (667)
Q Consensus       531 ~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~l--P~~~~~l~~L~~l~~~~~~  584 (667)
                      .+..+|        .+++|++|++|++++|.+..+  |..+..+++|+.|++..+.
T Consensus       497 ~l~~lp--------~l~~l~~L~~L~Ls~N~l~~~~~p~~l~~l~~L~~L~L~~N~  544 (567)
T 1dce_A          497 ALENVD--------GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNS  544 (567)
T ss_dssp             CCCCCG--------GGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEECTTSG
T ss_pred             CCCCCc--------ccCCCCCCcEEECCCCCCCCCCCcHHHhcCCCCCEEEecCCc
Confidence            788887        699999999999999999998  7788899999999877443

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=99.03  E-value=1.1e-11  Score=118.16  Aligned_cols=102  Identities=14%  Similarity=0.098  Sum_probs=77.0

Q ss_pred             CCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-cccccCCCCccChhhhcCCC
Q 038110          472 PQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHFP  550 (667)
Q Consensus       472 ~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~  550 (667)
                      -.|+.+.+.+....+..+|..+ .++++|++|+|++|.++.+| .++++++|++|++++ .+..+|       ..+..++
T Consensus        23 l~l~~~~l~~~~~~l~~l~~~~-~~l~~L~~L~ls~n~l~~l~-~~~~l~~L~~L~l~~n~l~~l~-------~~~~~~~   93 (198)
T 1ds9_A           23 TEAEKVELHGMIPPIEKMDATL-STLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIE-------NLDAVAD   93 (198)
T ss_dssp             TTCSEEECCBCCTTCCCCHHHH-HHTTTCSEEECSEEEESCCC-CHHHHTTCCEEEEEEEEECSCS-------SHHHHHH
T ss_pred             cchheeEeccccCcHhhhhHHH-hcCCCCCEEECCCCCCcccc-ccccCCCCCEEECCCCCccccc-------chhhcCC
Confidence            3455556655543336676655 88888888888888888888 888888888888888 777888       6777778


Q ss_pred             CCCeEEeecCCCCCCCCCCcCCCCCCeeEEEec
Q 038110          551 NLTSLELEVNDANTLPRGGLFFEKPERYKILTG  583 (667)
Q Consensus       551 ~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~  583 (667)
                      +|++|++++|.+..+| .+..+++|+.|++..+
T Consensus        94 ~L~~L~L~~N~l~~l~-~~~~l~~L~~L~l~~N  125 (198)
T 1ds9_A           94 TLEELWISYNQIASLS-GIEKLVNLRVLYMSNN  125 (198)
T ss_dssp             HCSEEEEEEEECCCHH-HHHHHHHSSEEEESEE
T ss_pred             cCCEEECcCCcCCcCC-ccccCCCCCEEECCCC
Confidence            8888888888888877 4566777777776633

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

Probab=99.03  E-value=5.5e-10  Score=105.90  Aligned_cols=108  Identities=20%  Similarity=0.306  Sum_probs=94.6

Q ss_pred             cccceeEEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCcccE
Q 038110          448 RVRHCTSIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLHT  525 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~~  525 (667)
                      ...+++.|++.+|.+..+|... .+++|++|++++|..  ..++...|.++++|++|+|++|.++.+|. .++.+++|++
T Consensus        29 ~~~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N~i--~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~  106 (193)
T 2wfh_A           29 IPRDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRI--STLSNQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSLRL  106 (193)
T ss_dssp             CCTTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCE
T ss_pred             CCCCCCEEECCCCcCchhHHHhhcccCCCEEECCCCcC--CEeCHhHccCCCCCCEEECCCCccCEeCHHHhCCCCCCCE
Confidence            4578999999999999888544 789999999999988  57777767999999999999999998865 6999999999


Q ss_pred             EecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCC
Q 038110          526 LCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDAN  563 (667)
Q Consensus       526 L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~  563 (667)
                      |+|++ .+..+|.      ..+..+++|++|++++|.+.
T Consensus       107 L~L~~N~l~~~~~------~~~~~l~~L~~L~L~~N~~~  139 (193)
T 2wfh_A          107 LSLHGNDISVVPE------GAFNDLSALSHLAIGANPLY  139 (193)
T ss_dssp             EECCSSCCCBCCT------TTTTTCTTCCEEECCSSCEE
T ss_pred             EECCCCCCCeeCh------hhhhcCccccEEEeCCCCee
Confidence            99999 8888983      35889999999999998753

>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=99.01  E-value=7.3e-11  Score=128.10  Aligned_cols=82  Identities=17%  Similarity=0.248  Sum_probs=44.9

Q ss_pred             cccceeEEEEeccCccc-----cCCC-CCCCCccEEEccCCCCccccccHHHHhCCC----CCcEEEcCCCCCc-----c
Q 038110          448 RVRHCTSIVILDVKTYV-----LPEV-MECPQLKLFSMPAEKNSFFAIPHNLFRSML----QVRVLDLTDMNLL-----S  512 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~-----l~~~-~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~----~Lr~L~L~~~~i~-----~  512 (667)
                      ..++++.|++.+|.+..     ++.. ..+++|++|++++|... ...+..++..+.    +|++|+|++|.+.     .
T Consensus        26 ~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~-~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~  104 (461)
T 1z7x_W           26 LLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELG-DVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGV  104 (461)
T ss_dssp             HHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCH-HHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHH
T ss_pred             hcCCccEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeCCCCcCC-hHHHHHHHHHHhhCCCceeEEEccCCCCCHHHHHH
Confidence            34566666666665542     2221 14566666666666543 223333444455    4666666666655     3


Q ss_pred             CCccccCCCcccEEecCC
Q 038110          513 LPSSIGLLTNLHTLCLYG  530 (667)
Q Consensus       513 lP~si~~L~~L~~L~L~~  530 (667)
                      +|..+..+++|++|++++
T Consensus       105 l~~~l~~~~~L~~L~Ls~  122 (461)
T 1z7x_W          105 LSSTLRTLPTLQELHLSD  122 (461)
T ss_dssp             HHHHTTSCTTCCEEECCS
T ss_pred             HHHHHccCCceeEEECCC
Confidence            456666666666666665

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

Probab=99.00  E-value=1.5e-09  Score=101.35  Aligned_cols=111  Identities=22%  Similarity=0.259  Sum_probs=95.6

Q ss_pred             cccceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCccc
Q 038110          448 RVRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNLH  524 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L~  524 (667)
                      ..++++.|.+.+|.+..++..  ..+++|++|++++|..  ..+|...|.++++|++|+|++|.++.+|.. ++.+.+|+
T Consensus        26 ~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l--~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~  103 (177)
T 2o6r_A           26 IPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQI--QSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQLK  103 (177)
T ss_dssp             CCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCC
T ss_pred             CCCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcc--eEeChhHccCCCccCEEECCCCCccccCHHHhhCCcccC
Confidence            457899999999999888764  3789999999999987  678887779999999999999999998775 68999999


Q ss_pred             EEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCC
Q 038110          525 TLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLP  566 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP  566 (667)
                      +|++++ .+..+|.      ..+..+++|++|++++|.+...+
T Consensus       104 ~L~l~~N~l~~~~~------~~~~~l~~L~~L~l~~N~~~~~~  140 (177)
T 2o6r_A          104 ELALDTNQLKSVPD------GIFDRLTSLQKIWLHTNPWDCSC  140 (177)
T ss_dssp             EEECCSSCCSCCCT------TTTTTCTTCCEEECCSSCBCCCH
T ss_pred             EEECcCCcceEeCH------HHhcCCcccCEEEecCCCeeccC
Confidence            999999 8888882      34688999999999999865443

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=99.00  E-value=9.1e-10  Score=102.07  Aligned_cols=105  Identities=18%  Similarity=0.204  Sum_probs=67.3

Q ss_pred             eEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCcccEEecCC-
Q 038110          453 TSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNLHTLCLYG-  530 (667)
Q Consensus       453 r~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L~~L~L~~-  530 (667)
                      +.+++++|.+..+|... .++|++|++++|..  ..+++..|.++++|++|+|++|.++.+|.. +..+.+|++|+|++ 
T Consensus        12 ~~l~~s~n~l~~ip~~~-~~~l~~L~L~~N~i--~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N   88 (170)
T 3g39_A           12 TTVDCSGKSLASVPTGI-PTTTQVLYLYDNQI--TKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDN   88 (170)
T ss_dssp             TEEECTTSCCSSCCSCC-CTTCSEEECCSSCC--CCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CEEEeCCCCcCccCccC-CCCCcEEEcCCCcC--CccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCC
Confidence            45666667676666543 36677777777766  445444447777777777777777766654 46677777777776 


Q ss_pred             cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCC
Q 038110          531 GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLP  566 (667)
Q Consensus       531 ~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP  566 (667)
                      .+..+|.      ..+.++++|++|++++|.+...+
T Consensus        89 ~l~~~~~------~~~~~l~~L~~L~L~~N~~~c~c  118 (170)
T 3g39_A           89 QLKSIPR------GAFDNLKSLTHIWLLNNPWDCAC  118 (170)
T ss_dssp             CCCCCCT------TTTTTCTTCCEEECCSSCBCTTB
T ss_pred             ccCEeCH------HHhcCCCCCCEEEeCCCCCCCCc
Confidence            6666661      23666777777777776655444

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=98.98  E-value=1.1e-09  Score=103.60  Aligned_cols=106  Identities=24%  Similarity=0.293  Sum_probs=91.1

Q ss_pred             ccceeEEEEeccCccccCCC---CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCccc
Q 038110          449 VRHCTSIVILDVKTYVLPEV---MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLH  524 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~~---~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~  524 (667)
                      ..+++.|.+.+|.+..++..   ..+++|++|++++|..  ..+++..|.++++|++|+|++|.++.+|. .++.+++|+
T Consensus        28 ~~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l--~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~  105 (192)
T 1w8a_A           28 PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQL--TGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLK  105 (192)
T ss_dssp             CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCC--CCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCC
T ss_pred             CCCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCC--CCcCHhHcCCcccCCEEECCCCcCCccCHHHhcCCCCCC
Confidence            45899999999999888763   3799999999999988  45544445999999999999999998765 589999999


Q ss_pred             EEecCC-ccccc-CCCCccChhhhcCCCCCCeEEeecCCCC
Q 038110          525 TLCLYG-GVGVV-DGVKNASLEELKHFPNLTSLELEVNDAN  563 (667)
Q Consensus       525 ~L~L~~-~l~~L-P~~~~~~~~~l~~L~~L~~L~l~~~~l~  563 (667)
                      +|+|++ .+..+ |       ..+..+++|++|++++|.+.
T Consensus       106 ~L~L~~N~l~~~~~-------~~~~~l~~L~~L~L~~N~l~  139 (192)
T 1w8a_A          106 TLNLYDNQISCVMP-------GSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             EEECCSSCCCEECT-------TSSTTCTTCCEEECTTCCBC
T ss_pred             EEECCCCcCCeeCH-------HHhhcCCCCCEEEeCCCCcc
Confidence            999999 77766 5       78999999999999999865

>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=98.94  E-value=9.1e-11  Score=127.32  Aligned_cols=198  Identities=14%  Similarity=0.053  Sum_probs=116.6

Q ss_pred             ccceeEEEEeccCccccCC-----CC--CCCCccEEEccCCCCccc----cccHHHHhCCCCCcEEEcCCCCCccC----
Q 038110          449 VRHCTSIVILDVKTYVLPE-----VM--ECPQLKLFSMPAEKNSFF----AIPHNLFRSMLQVRVLDLTDMNLLSL----  513 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~-----~~--~~~~Lr~L~l~~~~~~~~----~lp~~~~~~l~~Lr~L~L~~~~i~~l----  513 (667)
                      .+++++|++.+|.+.....     ..  ..++|++|++++|... .    .++..+ ..+++|++|+|++|.+...    
T Consensus       169 ~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~-~~~~~~l~~~l-~~~~~L~~L~Ls~n~l~~~~~~~  246 (461)
T 1z7x_W          169 KPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVT-SDNCRDLCGIV-ASKASLRELALGSNKLGDVGMAE  246 (461)
T ss_dssp             CTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCB-TTHHHHHHHHH-HHCTTCCEEECCSSBCHHHHHHH
T ss_pred             CCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCCCc-HHHHHHHHHHH-HhCCCccEEeccCCcCChHHHHH
Confidence            3567777777776533211     01  2457777777777653 2    134443 6777777777777766532    


Q ss_pred             -Ccc-ccCCCcccEEecCC-cccc-----cCCCCccChhhhcCCCCCCeEEeecCCCCCCC-----CCCc-CCCCCCeeE
Q 038110          514 -PSS-IGLLTNLHTLCLYG-GVGV-----VDGVKNASLEELKHFPNLTSLELEVNDANTLP-----RGGL-FFEKPERYK  579 (667)
Q Consensus       514 -P~s-i~~L~~L~~L~L~~-~l~~-----LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP-----~~~~-~l~~L~~l~  579 (667)
                       ++. +..+++|++|++++ .+..     +|       ..+.++++|++|++++|.+...+     ..+. ..++|+.|+
T Consensus       247 l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~-------~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~  319 (461)
T 1z7x_W          247 LCPGLLHPSSRLRTLWIWECGITAKGCGDLC-------RVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLW  319 (461)
T ss_dssp             HHHHHTSTTCCCCEEECTTSCCCHHHHHHHH-------HHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEE
T ss_pred             HHHHHhcCCCCceEEECcCCCCCHHHHHHHH-------HHHhhCCCcceEECCCCCCchHHHHHHHHHhccCCccceeeE
Confidence             222 23567777777777 4443     56       66777888888888887764321     1111 235777777


Q ss_pred             EEecCccCC-----CcccccccccceEEeecCccccc-hHHHHHH----hhhcceeecccccccccc-----ccchhhhh
Q 038110          580 ILTGHRWSR-----GFYRSSNKSYRSFRIDLDANVRL-KDRLVVQ----LRGIEELSLAGLLDQDIK-----NFVNELVK  644 (667)
Q Consensus       580 ~~~~~~~~~-----~~~~~~~~~l~~l~l~~~~~~~~-~~~~~~~----l~~L~~L~L~~~~~~~~~-----~~~~~l~~  644 (667)
                      +..+.-...     +........++.+.++.+..... ...+...    .++|+.|+|++|   .+.     .+|..+  
T Consensus       320 L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n---~i~~~~~~~l~~~l--  394 (461)
T 1z7x_W          320 VKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADC---DVSDSSCSSLAATL--  394 (461)
T ss_dssp             CTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTS---CCCHHHHHHHHHHH--
T ss_pred             cCCCCCchHHHHHHHHHHhhCCCccEEEccCCccccccHHHHHHHHcCCCCceEEEECCCC---CCChhhHHHHHHHH--
Confidence            664431111     11111235567777777544332 2222222    348899999888   333     678788  


Q ss_pred             ccCCCccEEEeecCCC
Q 038110          645 VGSSQLKYLQIEGYRG  660 (667)
Q Consensus       645 ~~l~~L~~L~l~~~~~  660 (667)
                      ..+++|++|++++|+-
T Consensus       395 ~~~~~L~~L~l~~N~i  410 (461)
T 1z7x_W          395 LANHSLRELDLSNNCL  410 (461)
T ss_dssp             HHCCCCCEEECCSSSC
T ss_pred             HhCCCccEEECCCCCC
Confidence            7789999999998864

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

Probab=98.93  E-value=2.3e-09  Score=99.66  Aligned_cols=100  Identities=18%  Similarity=0.251  Sum_probs=86.5

Q ss_pred             ccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccC-CccccCCCcccEEecCC-cccccCCCCccChhhhcCCCC
Q 038110          474 LKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHFPN  551 (667)
Q Consensus       474 Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-P~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~  551 (667)
                      -+.++++++..  ..+|..+   ..+|++|+|++|.+..+ |..++++.+|++|+|++ .+..+|.      ..|.++++
T Consensus        14 ~~~l~~~~n~l--~~iP~~~---~~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~------~~~~~l~~   82 (174)
T 2r9u_A           14 QTLVNCQNIRL--ASVPAGI---PTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPT------GVFDKLTQ   82 (174)
T ss_dssp             SSEEECCSSCC--SSCCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCT------TTTTTCTT
T ss_pred             CcEEEeCCCCC--CccCCCc---CCCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccCh------hHhCCcch
Confidence            36889998877  7899866   38999999999999988 66799999999999999 8999982      34689999


Q ss_pred             CCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecC
Q 038110          552 LTSLELEVNDANTLPRG-GLFFEKPERYKILTGH  584 (667)
Q Consensus       552 L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~  584 (667)
                      |++|++++|.+..+|.. +..+++|+.|++..+.
T Consensus        83 L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L~~N~  116 (174)
T 2r9u_A           83 LTQLDLNDNHLKSIPRGAFDNLKSLTHIYLYNNP  116 (174)
T ss_dssp             CCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSC
T ss_pred             hhEEECCCCccceeCHHHhccccCCCEEEeCCCC
Confidence            99999999999999987 6789999999887444

>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=98.90  E-value=3e-09  Score=98.55  Aligned_cols=101  Identities=22%  Similarity=0.259  Sum_probs=86.7

Q ss_pred             CccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccC-CccccCCCcccEEecCC-cccccCCCCccChhhhcCCC
Q 038110          473 QLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHFP  550 (667)
Q Consensus       473 ~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-P~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~  550 (667)
                      ..+.++++++..  ..+|..+   .++|++|+|++|.++.+ |..++.+.+|++|+|++ .+..+|.      ..|.+++
T Consensus        10 ~~~~l~~s~n~l--~~ip~~~---~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~------~~f~~l~   78 (170)
T 3g39_A           10 SGTTVDCSGKSL--ASVPTGI---PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPA------GVFDKLT   78 (170)
T ss_dssp             ETTEEECTTSCC--SSCCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCT------TTTTTCT
T ss_pred             CCCEEEeCCCCc--CccCccC---CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccCh------hhccCCC
Confidence            357899999887  6788765   48999999999999988 66799999999999999 8889982      3468999


Q ss_pred             CCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecC
Q 038110          551 NLTSLELEVNDANTLPRG-GLFFEKPERYKILTGH  584 (667)
Q Consensus       551 ~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~  584 (667)
                      +|++|++++|.+..+|.. +..+++|+.|++..+.
T Consensus        79 ~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~  113 (170)
T 3g39_A           79 QLTQLSLNDNQLKSIPRGAFDNLKSLTHIWLLNNP  113 (170)
T ss_dssp             TCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCCEEECCCCccCEeCHHHhcCCCCCCEEEeCCCC
Confidence            999999999999999986 6789999999887443

>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=98.80  E-value=5.4e-11  Score=113.41  Aligned_cols=109  Identities=17%  Similarity=0.170  Sum_probs=69.0

Q ss_pred             ccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEE
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTL  526 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L  526 (667)
                      ..+++++.|++.+|.+..+|....+++|++|++++|..  ..+|..+ ..+++|++|+|++|.++.+| .++.+++|++|
T Consensus        45 ~~l~~L~~L~ls~n~l~~l~~~~~l~~L~~L~l~~n~l--~~l~~~~-~~~~~L~~L~L~~N~l~~l~-~~~~l~~L~~L  120 (198)
T 1ds9_A           45 STLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLI--KKIENLD-AVADTLEELWISYNQIASLS-GIEKLVNLRVL  120 (198)
T ss_dssp             HHTTTCSEEECSEEEESCCCCHHHHTTCCEEEEEEEEE--CSCSSHH-HHHHHCSEEEEEEEECCCHH-HHHHHHHSSEE
T ss_pred             hcCCCCCEEECCCCCCccccccccCCCCCEEECCCCCc--ccccchh-hcCCcCCEEECcCCcCCcCC-ccccCCCCCEE
Confidence            34556777777777666666333566777777776655  4566543 56667777777777776666 56667777777


Q ss_pred             ecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCC
Q 038110          527 CLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANT  564 (667)
Q Consensus       527 ~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~  564 (667)
                      ++++ .+..+|.     +..+.++++|++|++++|.+..
T Consensus       121 ~l~~N~i~~~~~-----~~~l~~l~~L~~L~l~~N~l~~  154 (198)
T 1ds9_A          121 YMSNNKITNWGE-----IDKLAALDKLEDLLLAGNPLYN  154 (198)
T ss_dssp             EESEEECCCHHH-----HHHHTTTTTCSEEEECSCHHHH
T ss_pred             ECCCCcCCchhH-----HHHHhcCCCCCEEEecCCcccc
Confidence            7766 5555540     0256667777777777766543

>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=98.80  E-value=5.4e-09  Score=117.13  Aligned_cols=198  Identities=12%  Similarity=0.091  Sum_probs=98.2

Q ss_pred             ccceeEEEEeccCccccCC-----C-CCCCCccEEEccCCCCc---cccccHHHHhCCCCCcEEEcCCCCCccCCccccC
Q 038110          449 VRHCTSIVILDVKTYVLPE-----V-MECPQLKLFSMPAEKNS---FFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGL  519 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~~-----~-~~~~~Lr~L~l~~~~~~---~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~  519 (667)
                      .++++.|++.+|.+.....     . ..+++|++|++++|...   ...++. ++.++++|++|+|++|.+..+|..+++
T Consensus       163 ~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~~-~~~~~~~L~~L~L~~~~~~~l~~~~~~  241 (592)
T 3ogk_B          163 CRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLET-IARNCRSLVSVKVGDFEILELVGFFKA  241 (592)
T ss_dssp             CTTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTCCCSSCCHHHHHH-HHHHCTTCCEEECSSCBGGGGHHHHHH
T ss_pred             CCCCCEEECccccccCcchhHHHHHHhcCCCccEEEeeccCCCccCHHHHHH-HHhhCCCCcEEeccCccHHHHHHHHhh
Confidence            3455666665554322111     0 13556666666555441   011222 235566666666666666666666666


Q ss_pred             CCcccEEecCC-----cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCcc--CCCccc
Q 038110          520 LTNLHTLCLYG-----GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRW--SRGFYR  592 (667)
Q Consensus       520 L~~L~~L~L~~-----~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~--~~~~~~  592 (667)
                      +++|++|+++.     .....+       ..+..+++|+.|+++++....+|..+..+++|+.|++..+...  .+....
T Consensus       242 ~~~L~~L~l~~~~~~~~~~~~~-------~~l~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~l~~~~~~~~~  314 (592)
T 3ogk_B          242 AANLEEFCGGSLNEDIGMPEKY-------MNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLI  314 (592)
T ss_dssp             CTTCCEEEECBCCCCTTCTTSS-------SCCCCCTTCCEEEETTCCTTTGGGGGGGGGGCCEEEETTCCCCHHHHHHHH
T ss_pred             hhHHHhhcccccccccchHHHH-------HHhhccccccccCccccchhHHHHHHhhcCCCcEEecCCCcCCHHHHHHHH
Confidence            66666666653     112222       4455666666666666555556655556667777766533300  000112


Q ss_pred             ccccccceEEeecCccccchHHHHHHhhhcceeeccc----------ccccccc--ccchhhhhccCCCccEEEeecC
Q 038110          593 SSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAG----------LLDQDIK--NFVNELVKVGSSQLKYLQIEGY  658 (667)
Q Consensus       593 ~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~----------~~~~~~~--~~~~~l~~~~l~~L~~L~l~~~  658 (667)
                      .....++.+.+..+........+...+++|++|+|++          |  +...  .++...  ..+++|++|+++.+
T Consensus       315 ~~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~~--~~~~~~~~~~l~--~~~~~L~~L~l~~~  388 (592)
T 3ogk_B          315 QKCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEE--GLVSQRGLIALA--QGCQELEYMAVYVS  388 (592)
T ss_dssp             TTCTTCCEEEEEGGGHHHHHHHHHHHCTTCCEEEEECCCCSSTTSSTT--CCCCHHHHHHHH--HHCTTCSEEEEEES
T ss_pred             HhCcCCCEEeccCccCHHHHHHHHHhCCCCCEEEeecCcccccccccc--CccCHHHHHHHH--hhCccCeEEEeecC
Confidence            3334566666653222122233334456777777773          3  1221  122222  45777777777443

>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=98.80  E-value=2.4e-09  Score=119.99  Aligned_cols=198  Identities=10%  Similarity=-0.037  Sum_probs=128.5

Q ss_pred             cccceeEEEEeccCccccC-----CC-CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCC----ccCCccc
Q 038110          448 RVRHCTSIVILDVKTYVLP-----EV-MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNL----LSLPSSI  517 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~-----~~-~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i----~~lP~si  517 (667)
                      ..++++.|.+.+|.+..+.     .. ..+++|++|.+.+|..  ..+|.. +.++++|+.|+++++..    ...+..+
T Consensus       190 ~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~--~~l~~~-~~~~~~L~~L~l~~~~~~~~~~~~~~~l  266 (592)
T 3ogk_B          190 HNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEI--LELVGF-FKAAANLEEFCGGSLNEDIGMPEKYMNL  266 (592)
T ss_dssp             HCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCBG--GGGHHH-HHHCTTCCEEEECBCCCCTTCTTSSSCC
T ss_pred             cCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCccH--HHHHHH-HhhhhHHHhhcccccccccchHHHHHHh
Confidence            4578888988888765322     11 1578899999988766  457754 48899999999885421    2456678


Q ss_pred             cCCCcccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCC--CCCCcCCCCCCeeEEEecC-ccCCCcccc
Q 038110          518 GLLTNLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTL--PRGGLFFEKPERYKILTGH-RWSRGFYRS  593 (667)
Q Consensus       518 ~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~l--P~~~~~l~~L~~l~~~~~~-~~~~~~~~~  593 (667)
                      +.+.+|+.|+++. ....+|       ..+..+++|++|++++|.+...  +..+..+++|+.|.+..+- ...+.....
T Consensus       267 ~~~~~L~~L~l~~~~~~~l~-------~~~~~~~~L~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~~~~~~l~~~~~  339 (592)
T 3ogk_B          267 VFPRKLCRLGLSYMGPNEMP-------ILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGLEVLAQ  339 (592)
T ss_dssp             CCCTTCCEEEETTCCTTTGG-------GGGGGGGGCCEEEETTCCCCHHHHHHHHTTCTTCCEEEEEGGGHHHHHHHHHH
T ss_pred             hccccccccCccccchhHHH-------HHHhhcCCCcEEecCCCcCCHHHHHHHHHhCcCCCEEeccCccCHHHHHHHHH
Confidence            8888899998887 566677       7778888999999988875321  1223578888888887221 111222223


Q ss_pred             cccccceEEeec----------Cccccc--hHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecC
Q 038110          594 SNKSYRSFRIDL----------DANVRL--KDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGY  658 (667)
Q Consensus       594 ~~~~l~~l~l~~----------~~~~~~--~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~  658 (667)
                      ....++.+.+..          .+....  ...+...+++|++|++.++  .-....+..+. ..+++|+.|++++|
T Consensus       340 ~~~~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~L~l~~~--~l~~~~~~~l~-~~~~~L~~L~l~~~  413 (592)
T 3ogk_B          340 YCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVS--DITNESLESIG-TYLKNLCDFRLVLL  413 (592)
T ss_dssp             HCTTCCEEEEECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSEEEEEES--CCCHHHHHHHH-HHCCSCCEEEEEEC
T ss_pred             hCCCCCEEEeecCccccccccccCccCHHHHHHHHhhCccCeEEEeecC--CccHHHHHHHH-hhCCCCcEEEEeec
Confidence            345577888883          222221  2333445678999998666  32333455552 34788999999853

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=98.71  E-value=1.4e-06  Score=92.73  Aligned_cols=222  Identities=15%  Similarity=0.085  Sum_probs=140.5

Q ss_pred             ccccchHHHHHHHHHhc------C---C--------------CCcHHHHHHHHHhccC---CCCCE-EEEEEeCCCCCHH
Q 038110          159 EAFESRMSTLNDILGAL------K---N--------------PDTTLAKEVAWKAEND---KLFDQ-AVFAEVSQSHDIR  211 (667)
Q Consensus       159 ~~~~gr~~~~~~i~~~l------~---~--------------~~TtLa~~vy~~~~~~---~~F~~-~~wv~vs~~~~~~  211 (667)
                      ..++||+.+++.+..++      .   .              ||||||+.+++.....   ..|+. .+|+......+..
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLY  101 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHH
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHH
Confidence            45889999998887776      1   1              3599999999876421   12333 6788876777899


Q ss_pred             HHHHHHHHHhCCCCCC--CChhHHHH-HHHHHh-cCCeEEEEEeCCCCcc--------cccccCCCcCCC---C--CCcE
Q 038110          212 KIQGEIADKLGLTFHE--ESESGRAS-LCNQLK-KNKTILMILDNIWENL--------DLLAIGIPHGND---H--KGCK  274 (667)
Q Consensus       212 ~i~~~i~~~l~~~~~~--~~~~~~~~-l~~~L~-~~kr~LlVLDdvw~~~--------~~~~l~~~~~~~---~--~gs~  274 (667)
                      .++..++.+++.....  ....+... +.+.+. .+++++|||||+|...        .+..+...+...   +  ....
T Consensus       102 ~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v~  181 (412)
T 1w5s_A          102 TILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIG  181 (412)
T ss_dssp             HHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBEE
T ss_pred             HHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceEE
Confidence            9999999999765331  11222223 566653 2679999999998742        222222222111   2  3345


Q ss_pred             EEEecCChhhhhhc--------cCCcceEecCCCCHHHHHHHHH-----------------HHHHHHhC------CcchH
Q 038110          275 ILLTARSEDTLSRK--------MDSKQNFSVGILKEEEAWSGEF-----------------KWVAKECA------GLPVS  323 (667)
Q Consensus       275 iivTTr~~~va~~~--------~~~~~~~~l~~L~~~~s~~Lf~-----------------~~i~~~c~------GlPLa  323 (667)
                      ||+||+...+....        ......+.+.+++.++.+++|.                 ..|++.|+      |.|..
T Consensus       182 lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~G~p~~  261 (412)
T 1w5s_A          182 FLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGSARR  261 (412)
T ss_dssp             EEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCGGGTSCCCHHH
T ss_pred             EEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHhccCCCcHHH
Confidence            88788765532100        1112239999999999999995                 57888999      99976


Q ss_pred             HHHHHHH-Hc-----cC---ChHHHHHHHHHhc-----CCCCcCchHHHHHHHHHHhhh-----hcccHHHHHHHH
Q 038110          324 IVTVSRA-LR-----NK---SLFEWKDALQQLR-----RPISTNFKDELKQIFLLIGYT-----YVAFIDDLIWYS  380 (667)
Q Consensus       324 i~~~g~~-L~-----~k---~~~~W~~~l~~l~-----~~~~~~l~~~lk~cfly~s~f-----~~i~~~~Li~~W  380 (667)
                      +..+... ..     +.   +.+.+..++....     ...+..+|.+.+.++..++.+     ..+...++...+
T Consensus       262 ~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~~~~~~~~~l~~l~~~~~~~l~aia~l~~~~~~~~~~~~~~~~~  337 (412)
T 1w5s_A          262 AIVALKMACEMAEAMGRDSLSEDLVRKAVSENEAASIQTHELEALSIHELIILRLIAEATLGGMEWINAGLLRQRY  337 (412)
T ss_dssp             HHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC------CCSSSSSCHHHHHHHHHHHHHHHTTCSSBCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhccchHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHH
Confidence            5555432 21     11   5566666665542     233456799999999888875     245555555544

>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=98.66  E-value=3.2e-08  Score=102.10  Aligned_cols=197  Identities=12%  Similarity=0.074  Sum_probs=124.0

Q ss_pred             ccceeEEEEeccCcc--------------------ccCCCC--C--------CCCccEEEccCCCCccccccHHHHhCCC
Q 038110          449 VRHCTSIVILDVKTY--------------------VLPEVM--E--------CPQLKLFSMPAEKNSFFAIPHNLFRSML  498 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~--------------------~l~~~~--~--------~~~Lr~L~l~~~~~~~~~lp~~~~~~l~  498 (667)
                      +.+++.|++++|.+.                    .+|...  .        +++|+.|.+.+ ..  ..+++..|.+++
T Consensus        48 l~~L~~LdLs~n~i~~~~~~~~~~~~~~~~~~~~~~I~~~aF~~~~~~~~~g~~~L~~l~L~~-~i--~~I~~~aF~~~~  124 (329)
T 3sb4_A           48 FPSLKVLDISNAEIKMYSGKAGTYPNGKFYIYMANFVPAYAFSNVVNGVTKGKQTLEKVILSE-KI--KNIEDAAFKGCD  124 (329)
T ss_dssp             CTTCCEEEEEEEEECCEEESSSSSGGGCCEEECTTEECTTTTEEEETTEEEECTTCCC-CBCT-TC--CEECTTTTTTCT
T ss_pred             hccCeEEecCcceeEEecCccccccccccccccccccCHHHhcccccccccccCCCcEEECCc-cc--cchhHHHhhcCc
Confidence            567888888888776                    223222  4        78888888877 33  678888788888


Q ss_pred             CCcEEEcCCCCCccCCc-cccCCCcccEEecCC-----cccccCC---CCccC-----------------------hh--
Q 038110          499 QVRVLDLTDMNLLSLPS-SIGLLTNLHTLCLYG-----GVGVVDG---VKNAS-----------------------LE--  544 (667)
Q Consensus       499 ~Lr~L~L~~~~i~~lP~-si~~L~~L~~L~L~~-----~l~~LP~---~~~~~-----------------------~~--  544 (667)
                      +|+.|++++|.+..+|+ .|..+.++.++.+..     ....+..   ..|..                       +.  
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            88888888888776644 466666666665544     0111100   00000                       00  


Q ss_pred             ---------------hh-cCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCccCCCc-ccccccccc-eEEeec
Q 038110          545 ---------------EL-KHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHRWSRGF-YRSSNKSYR-SFRIDL  605 (667)
Q Consensus       545 ---------------~l-~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~~~~~~-~~~~~~~l~-~l~l~~  605 (667)
                                     .+ ..+++|+.|++++|++..+|.. +.++.+|+.+.+..+ -..++. .......++ .+.+..
T Consensus       205 ~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~  283 (329)
T 3sb4_A          205 NFLTIEGKLDNADFKLIRDYMPNLVSLDISKTNATTIPDFTFAQKKYLLKIKLPHN-LKTIGQRVFSNCGRLAGTLELPA  283 (329)
T ss_dssp             SEEEEEECCCHHHHHHHHHHCTTCCEEECTTBCCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEEECT
T ss_pred             ceEEEeeeecHHHHHHHHHhcCCCeEEECCCCCcceecHhhhhCCCCCCEEECCcc-cceehHHHhhCChhccEEEEEcc
Confidence                           00 1278999999999999999987 568889999977633 122221 122334455 666665


Q ss_pred             CccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEE
Q 038110          606 DANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQ  654 (667)
Q Consensus       606 ~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~  654 (667)
                       ......+.....+++|+.|++..+   .+..++.... .++++|+.|+
T Consensus       284 -~l~~I~~~aF~~c~~L~~l~l~~n---~i~~I~~~aF-~~~~~L~~ly  327 (329)
T 3sb4_A          284 -SVTAIEFGAFMGCDNLRYVLATGD---KITTLGDELF-GNGVPSKLIY  327 (329)
T ss_dssp             -TCCEECTTTTTTCTTEEEEEECSS---CCCEECTTTT-CTTCCCCEEE
T ss_pred             -cceEEchhhhhCCccCCEEEeCCC---ccCccchhhh-cCCcchhhhc
Confidence             444444445556689999999887   5666666432 6677777765

>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=98.62  E-value=7.4e-08  Score=100.14  Aligned_cols=101  Identities=13%  Similarity=0.045  Sum_probs=62.8

Q ss_pred             EEEecc-CccccCCCCCCCCccEEEccC-CCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCcccEEecCC-
Q 038110          455 IVILDV-KTYVLPEVMECPQLKLFSMPA-EKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLHTLCLYG-  530 (667)
Q Consensus       455 L~l~~~-~~~~l~~~~~~~~Lr~L~l~~-~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~~L~L~~-  530 (667)
                      +...++ .+..+|....+++|+.|++++ |..  ..+|...|++|++|++|+|++|.|..+|+ .|++|.+|++|+|++ 
T Consensus        13 v~~~~~n~l~~ip~l~~~~~L~~L~l~~~n~l--~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N   90 (347)
T 2ifg_A           13 LRCTRDGALDSLHHLPGAENLTELYIENQQHL--QHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFN   90 (347)
T ss_dssp             EECCSSCCCTTTTTSCSCSCCSEEECCSCSSC--CEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSS
T ss_pred             EEcCCCCCCCccCCCCCCCCeeEEEccCCCCC--CCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCC
Confidence            455555 566666633566677777765 555  55665555777777777777777776543 567777777777777 


Q ss_pred             cccccCCCCccChhhhcCCCCCCeEEeecCCCCC
Q 038110          531 GVGVVDGVKNASLEELKHFPNLTSLELEVNDANT  564 (667)
Q Consensus       531 ~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~  564 (667)
                      .+..+|       ..+....+|+.|++.+|.+..
T Consensus        91 ~l~~~~-------~~~~~~~~L~~l~l~~N~~~c  117 (347)
T 2ifg_A           91 ALESLS-------WKTVQGLSLQELVLSGNPLHC  117 (347)
T ss_dssp             CCSCCC-------STTTCSCCCCEEECCSSCCCC
T ss_pred             ccceeC-------HHHcccCCceEEEeeCCCccC
Confidence            666666       333222237777777766543

>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=98.59  E-value=9.1e-08  Score=99.45  Aligned_cols=97  Identities=16%  Similarity=0.195  Sum_probs=59.2

Q ss_pred             EEccCC-CCccccccHHHHhCCCCCcEEEcCC-CCCccCC-ccccCCCcccEEecCC-cccccCCCCccChhhhcCCCCC
Q 038110          477 FSMPAE-KNSFFAIPHNLFRSMLQVRVLDLTD-MNLLSLP-SSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHFPNL  552 (667)
Q Consensus       477 L~l~~~-~~~~~~lp~~~~~~l~~Lr~L~L~~-~~i~~lP-~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L  552 (667)
                      ++++++ ..  ..+|. + +.+.+|++|+|++ |.+..+| ..|+.|.+|++|+|++ .+..+|.      ..|++|++|
T Consensus        13 v~~~~~n~l--~~ip~-l-~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~------~~~~~l~~L   82 (347)
T 2ifg_A           13 LRCTRDGAL--DSLHH-L-PGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAP------DAFHFTPRL   82 (347)
T ss_dssp             EECCSSCCC--TTTTT-S-CSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECT------TGGGSCSCC
T ss_pred             EEcCCCCCC--CccCC-C-CCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCH------HHhcCCcCC
Confidence            455554 33  45666 3 6667777777764 6666665 3566677777777766 5665552      456667777


Q ss_pred             CeEEeecCCCCCCCCCCcCCCCCCeeEEEec
Q 038110          553 TSLELEVNDANTLPRGGLFFEKPERYKILTG  583 (667)
Q Consensus       553 ~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~  583 (667)
                      ++|+|++|++..+|..+.....|+.|.+..+
T Consensus        83 ~~L~l~~N~l~~~~~~~~~~~~L~~l~l~~N  113 (347)
T 2ifg_A           83 SRLNLSFNALESLSWKTVQGLSLQELVLSGN  113 (347)
T ss_dssp             CEEECCSSCCSCCCSTTTCSCCCCEEECCSS
T ss_pred             CEEeCCCCccceeCHHHcccCCceEEEeeCC
Confidence            7777777776666665433223666665543

>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=98.54  E-value=8.6e-09  Score=115.51  Aligned_cols=82  Identities=11%  Similarity=0.012  Sum_probs=41.9

Q ss_pred             ccceeEEEEeccCccccC--CCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCcc-----CCccccCC
Q 038110          449 VRHCTSIVILDVKTYVLP--EVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLS-----LPSSIGLL  520 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~--~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-----lP~si~~L  520 (667)
                      .+++++|.+.+|.+....  ... .+++|++|.+.+|..........++.++++|++|+|++|.++.     ++.-...+
T Consensus       104 ~~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~  183 (594)
T 2p1m_B          104 YTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTY  183 (594)
T ss_dssp             CTTCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCTTC
T ss_pred             CCCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhhcC
Confidence            346667777666543211  111 3567777777666321011122233566777777777666442     22223345


Q ss_pred             CcccEEecCC
Q 038110          521 TNLHTLCLYG  530 (667)
Q Consensus       521 ~~L~~L~L~~  530 (667)
                      ++|++|++++
T Consensus       184 ~~L~~L~l~~  193 (594)
T 2p1m_B          184 TSLVSLNISC  193 (594)
T ss_dssp             CCCCEEECTT
T ss_pred             CcCcEEEecc
Confidence            5666666665

>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=98.45  E-value=4.1e-08  Score=109.92  Aligned_cols=206  Identities=13%  Similarity=0.069  Sum_probs=113.4

Q ss_pred             cccceeEEEEeccCccc-----cCCCC-CCCCccEEEccCCCCcc-ccccHHHHhCCCCCcEEEcCCC-CCccCCccccC
Q 038110          448 RVRHCTSIVILDVKTYV-----LPEVM-ECPQLKLFSMPAEKNSF-FAIPHNLFRSMLQVRVLDLTDM-NLLSLPSSIGL  519 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~-----l~~~~-~~~~Lr~L~l~~~~~~~-~~lp~~~~~~l~~Lr~L~L~~~-~i~~lP~si~~  519 (667)
                      ..++++.|++.+|.+..     ++... .+++|++|+++++...+ ......++.++++|++|+|++| .+..+|..+.+
T Consensus       154 ~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l~~~~~~  233 (594)
T 2p1m_B          154 TCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQR  233 (594)
T ss_dssp             HCTTCCEEECTTCEEECCCGGGGGGSCTTCCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTTSCHHHHHHHHHH
T ss_pred             hCCCCCEEeCcCCccCCcchHHHHHHhhcCCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCCCcHHHHHHHHhc
Confidence            45678888887776432     22222 56788888887775110 1111223356788888888887 45567777777


Q ss_pred             CCcccEEecCC--------cccccC-------------C---C-CccChhhhcCCCCCCeEEeecCCCCC--CCCCCcCC
Q 038110          520 LTNLHTLCLYG--------GVGVVD-------------G---V-KNASLEELKHFPNLTSLELEVNDANT--LPRGGLFF  572 (667)
Q Consensus       520 L~~L~~L~L~~--------~l~~LP-------------~---~-~~~~~~~l~~L~~L~~L~l~~~~l~~--lP~~~~~l  572 (667)
                      +++|++|++..        .+..+|             +   . ....+..+..+++|++|++++|.+..  ++..+.++
T Consensus       234 ~~~L~~L~l~~~~~~~~~~~~~~l~~~l~~~~~L~~Ls~~~~~~~~~l~~~~~~~~~L~~L~L~~~~l~~~~l~~~~~~~  313 (594)
T 2p1m_B          234 APQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQC  313 (594)
T ss_dssp             CTTCSEEECSBCCCCCCHHHHHHHHHHHHTCTTCCEEECCBTCCGGGGGGGHHHHTTCCEEECTTCCCCHHHHHHHHTTC
T ss_pred             CCcceEcccccccCccchhhHHHHHHHHhcCCCcccccCCcccchhhHHHHHHhhCCCCEEEccCCCCCHHHHHHHHhcC
Confidence            77777777542        011111             0   0 00001333467888888888887542  11113467


Q ss_pred             CCCCeeEEEecCcc-CCCcccccccccceEEeec--------Ccccc--chHHHHHHhhhcceeeccccccccccccchh
Q 038110          573 EKPERYKILTGHRW-SRGFYRSSNKSYRSFRIDL--------DANVR--LKDRLVVQLRGIEELSLAGLLDQDIKNFVNE  641 (667)
Q Consensus       573 ~~L~~l~~~~~~~~-~~~~~~~~~~~l~~l~l~~--------~~~~~--~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~  641 (667)
                      ++|+.|.+..+-.. .+..+......++.+.|..        ++...  ....+...+++|+.|.+.++  .-....+..
T Consensus       314 ~~L~~L~l~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~g~~~~~~l~~~~l~~l~~~~~~L~~L~~~~~--~l~~~~~~~  391 (594)
T 2p1m_B          314 PKLQRLWVLDYIEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYFCR--QMTNAALIT  391 (594)
T ss_dssp             TTCCEEEEEGGGHHHHHHHHHHHCTTCCEEEEECSCTTCSSCSSCCCHHHHHHHHHHCTTCCEEEEEES--CCCHHHHHH
T ss_pred             CCcCEEeCcCccCHHHHHHHHHhCCCCCEEEEecCcccccccCCCCCHHHHHHHHHhchhHHHHHHhcC--CcCHHHHHH
Confidence            88888888744110 1111122245577777732        12211  12233344578999977666  222223344


Q ss_pred             hhhccCCCccEEEee
Q 038110          642 LVKVGSSQLKYLQIE  656 (667)
Q Consensus       642 l~~~~l~~L~~L~l~  656 (667)
                      +. ..+++|+.|+++
T Consensus       392 l~-~~~~~L~~L~L~  405 (594)
T 2p1m_B          392 IA-RNRPNMTRFRLC  405 (594)
T ss_dssp             HH-HHCTTCCEEEEE
T ss_pred             HH-hhCCCcceeEee
Confidence            42 458999999999

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=98.37  E-value=2.1e-06  Score=89.17  Aligned_cols=205  Identities=13%  Similarity=0.132  Sum_probs=121.8

Q ss_pred             CcccccchHHHHHHHHHhcC-----------CCCcHHHHHHHHHhccCCCCCEEEEEEeCCC-----CCHHHHHHHHHHH
Q 038110          157 DYEAFESRMSTLNDILGALK-----------NPDTTLAKEVAWKAENDKLFDQAVFAEVSQS-----HDIRKIQGEIADK  220 (667)
Q Consensus       157 ~~~~~~gr~~~~~~i~~~l~-----------~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~-----~~~~~i~~~i~~~  220 (667)
                      ....++||+++++.+.+ +.           .|||||++.+.+...  .   ..+|+.....     .+...+...+.+.
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~~~v~i~G~~G~GKT~L~~~~~~~~~--~---~~~~~~~~~~~~~~~~~~~~~~~~l~~~   84 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRAPITLVLGLRRTGKSSIIKIGINELN--L---PYIYLDLRKFEERNYISYKDFLLELQKE   84 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCSSEEEEEESTTSSHHHHHHHHHHHHT--C---CEEEEEGGGGTTCSCCCHHHHHHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hcCCcEEEECCCCCCHHHHHHHHHHhcC--C---CEEEEEchhhccccCCCHHHHHHHHHHH
Confidence            34568999999999988 63           367999999998764  2   2578887642     3445555555443


Q ss_pred             hCC-------------CC-----CC----C-----ChhHHHHHHHHHhc-C-CeEEEEEeCCCCcc-----cccccCCCc
Q 038110          221 LGL-------------TF-----HE----E-----SESGRASLCNQLKK-N-KTILMILDNIWENL-----DLLAIGIPH  266 (667)
Q Consensus       221 l~~-------------~~-----~~----~-----~~~~~~~l~~~L~~-~-kr~LlVLDdvw~~~-----~~~~l~~~~  266 (667)
                      +..             ..     ..    .     .......+.+.+.. . ++++|||||++...     +|..+...+
T Consensus        85 l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~~~~~~l~~~  164 (357)
T 2fna_A           85 INKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPALAYA  164 (357)
T ss_dssp             HHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHHHHH
T ss_pred             HHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCchhHHHHHHHH
Confidence            310             00     00    0     00111124444432 1 48999999997632     222221222


Q ss_pred             CCCCCCcEEEEecCChhhhhh----------ccCC-cceEecCCCCHHHHHHHHH-------------HHHHHHhCCcch
Q 038110          267 GNDHKGCKILLTARSEDTLSR----------KMDS-KQNFSVGILKEEEAWSGEF-------------KWVAKECAGLPV  322 (667)
Q Consensus       267 ~~~~~gs~iivTTr~~~va~~----------~~~~-~~~~~l~~L~~~~s~~Lf~-------------~~i~~~c~GlPL  322 (667)
                      .+...+.++|+|++.......          ..+. ...+.+.+|+.+++.+++.             ..|+..|+|.|+
T Consensus       165 ~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~~i~~~t~G~P~  244 (357)
T 2fna_A          165 YDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKDYEVVYEKIGGIPG  244 (357)
T ss_dssp             HHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCCHHHHHHHHCSCHH
T ss_pred             HHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCcHHHHHHHhCCCHH
Confidence            112246789999997653211          0111 2579999999999999986             578999999999


Q ss_pred             HHHHHHHHHcc-CChHHHHH-HHH--------HhcCCCC--cCchHHHHHHHHHHhh
Q 038110          323 SIVTVSRALRN-KSLFEWKD-ALQ--------QLRRPIS--TNFKDELKQIFLLIGY  367 (667)
Q Consensus       323 ai~~~g~~L~~-k~~~~W~~-~l~--------~l~~~~~--~~l~~~lk~cfly~s~  367 (667)
                      ++..++..+.. .+...|.. +.+        .+....+  ..+|+..+..+..+|+
T Consensus       245 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~l~~la~  301 (357)
T 2fna_A          245 WLTYFGFIYLDNKNLDFAINQTLEYAKKLILKEFENFLHGREIARKRYLNIMRTLSK  301 (357)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHccccchHHHHHHHHHHHHHHHHHHHHHHhhccccccHHHHHHHHHHHc
Confidence            99999987753 24333321 111        1111100  1456677777776665

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.36  E-value=1.6e-06  Score=89.77  Aligned_cols=168  Identities=11%  Similarity=0.035  Sum_probs=108.3

Q ss_pred             CcccccchHHHHHHHHHhcC------------CCCcHHHHHHHHHhccCCCCCEEEEEEeCCCC------CHHHHHHHHH
Q 038110          157 DYEAFESRMSTLNDILGALK------------NPDTTLAKEVAWKAENDKLFDQAVFAEVSQSH------DIRKIQGEIA  218 (667)
Q Consensus       157 ~~~~~~gr~~~~~~i~~~l~------------~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~------~~~~i~~~i~  218 (667)
                      ....++||+.+++.+.+++.            .|||||++.+.+...       .+|+++....      +...+++.+.
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~~~~v~i~G~~G~GKT~Ll~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~l~   82 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLENYPLTLLLGIRRVGKSSLLRAFLNERP-------GILIDCRELYAERGHITREELIKELQ   82 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHCSEEEEECCTTSSHHHHHHHHHHHSS-------EEEEEHHHHHHTTTCBCHHHHHHHHH
T ss_pred             ChHhcCChHHHHHHHHHHHhcCCeEEEECCCcCCHHHHHHHHHHHcC-------cEEEEeecccccccCCCHHHHHHHHH
Confidence            34568999999999988763            357999999998641       6777765432      5667777777


Q ss_pred             HHhCCC---------------CC-C--CChhH-HHH-HHHHHhcCCeEEEEEeCCCCccc---------ccccCCCcCCC
Q 038110          219 DKLGLT---------------FH-E--ESESG-RAS-LCNQLKKNKTILMILDNIWENLD---------LLAIGIPHGND  269 (667)
Q Consensus       219 ~~l~~~---------------~~-~--~~~~~-~~~-l~~~L~~~kr~LlVLDdvw~~~~---------~~~l~~~~~~~  269 (667)
                      +.+...               .. .  ..... ... +.+.....++++|||||++....         +..+.... +.
T Consensus        83 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~-~~  161 (350)
T 2qen_A           83 STISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAY-DS  161 (350)
T ss_dssp             HHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHH-HH
T ss_pred             HHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHH-Hh
Confidence            665430               00 0  01111 112 44444322389999999987432         22222111 11


Q ss_pred             CCCcEEEEecCChhhhhhc----------cCC-cceEecCCCCHHHHHHHHH---------------HHHHHHhCCcchH
Q 038110          270 HKGCKILLTARSEDTLSRK----------MDS-KQNFSVGILKEEEAWSGEF---------------KWVAKECAGLPVS  323 (667)
Q Consensus       270 ~~gs~iivTTr~~~va~~~----------~~~-~~~~~l~~L~~~~s~~Lf~---------------~~i~~~c~GlPLa  323 (667)
                      ..+.++|+|++...+....          .+. ...+.+.+|+.+|+.+++.               ..|...|+|.|++
T Consensus       162 ~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~tgG~P~~  241 (350)
T 2qen_A          162 LPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLDVPENEIEEAVELLDGIPGW  241 (350)
T ss_dssp             CTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHHTTCHHH
T ss_pred             cCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCHHH
Confidence            2467899998875431110          111 2479999999999999876               6788999999999


Q ss_pred             HHHHHHHHc
Q 038110          324 IVTVSRALR  332 (667)
Q Consensus       324 i~~~g~~L~  332 (667)
                      +..++..+.
T Consensus       242 l~~~~~~~~  250 (350)
T 2qen_A          242 LVVFGVEYL  250 (350)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999987654

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.14  E-value=1.3e-05  Score=84.71  Aligned_cols=98  Identities=11%  Similarity=0.205  Sum_probs=51.8

Q ss_pred             ceeEEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecC
Q 038110          451 HCTSIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLY  529 (667)
Q Consensus       451 ~lr~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~  529 (667)
                      +++.+.+..+ +..++... .-.+|+.+.+.. ..  ..++...|.++.+|+.++|++|.++.+|.......+|+.+.|.
T Consensus       136 ~L~~i~l~~~-i~~I~~~aF~~~~L~~i~lp~-~l--~~I~~~aF~~c~~L~~l~l~~n~l~~I~~~aF~~~~L~~l~lp  211 (401)
T 4fdw_A          136 QIAKVVLNEG-LKSIGDMAFFNSTVQEIVFPS-TL--EQLKEDIFYYCYNLKKADLSKTKITKLPASTFVYAGIEEVLLP  211 (401)
T ss_dssp             CCSEEECCTT-CCEECTTTTTTCCCCEEECCT-TC--CEECSSTTTTCTTCCEEECTTSCCSEECTTTTTTCCCSEEECC
T ss_pred             CccEEEeCCC-ccEECHHhcCCCCceEEEeCC-Cc--cEehHHHhhCcccCCeeecCCCcceEechhhEeecccCEEEeC
Confidence            3555554432 33333221 113466666654 11  4555555667777777777766666666554445666666665


Q ss_pred             CcccccCCCCccChhhhcCCCCCCeEEee
Q 038110          530 GGVGVVDGVKNASLEELKHFPNLTSLELE  558 (667)
Q Consensus       530 ~~l~~LP~~~~~~~~~l~~L~~L~~L~l~  558 (667)
                      ..+..++.      ..|.++++|+.+++.
T Consensus       212 ~~l~~I~~------~aF~~~~~L~~l~l~  234 (401)
T 4fdw_A          212 VTLKEIGS------QAFLKTSQLKTIEIP  234 (401)
T ss_dssp             TTCCEECT------TTTTTCTTCCCEECC
T ss_pred             Cchheehh------hHhhCCCCCCEEecC
Confidence            54555543      344455555555554

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.12  E-value=2.8e-07  Score=96.52  Aligned_cols=125  Identities=15%  Similarity=0.052  Sum_probs=81.0

Q ss_pred             ccceeEEEEeccCccccC-----CCC--CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccC-Cccc---
Q 038110          449 VRHCTSIVILDVKTYVLP-----EVM--ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSI---  517 (667)
Q Consensus       449 ~~~lr~L~l~~~~~~~l~-----~~~--~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-P~si---  517 (667)
                      .+.++.|++.+|.+....     ...  ..++|+.|++++|... ..-...++..+++|++|+|++|.+... ...+   
T Consensus        71 ~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~-~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~  149 (372)
T 3un9_A           71 LSSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLD-PAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDL  149 (372)
T ss_dssp             HTTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCC-HHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHH
T ss_pred             HhhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCC-HHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHH
Confidence            356788888888775321     111  3468999999888764 222333445667889999999988632 2222   


Q ss_pred             --cCCCcccEEecCC-cc-----cccCCCCccChhhhcCCCCCCeEEeecCCCCCC-----CCCCcCCCCCCeeEEE
Q 038110          518 --GLLTNLHTLCLYG-GV-----GVVDGVKNASLEELKHFPNLTSLELEVNDANTL-----PRGGLFFEKPERYKIL  581 (667)
Q Consensus       518 --~~L~~L~~L~L~~-~l-----~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~l-----P~~~~~l~~L~~l~~~  581 (667)
                        ....+|++|+|++ .+     ..++       ..+..+++|++|++++|.+...     +..+...++|+.|++.
T Consensus       150 L~~~~~~L~~L~Ls~n~l~~~~~~~l~-------~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls  219 (372)
T 3un9_A          150 LLHDQCQITTLRLSNNPLTAAGVAVLM-------EGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVA  219 (372)
T ss_dssp             HHSTTCCCCEEECCSSCCHHHHHHHHH-------HHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECC
T ss_pred             HHhcCCccceeeCCCCCCChHHHHHHH-------HHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECC
Confidence              2457789999988 33     3455       6667888899999998876532     2333345566666655

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.07  E-value=3.3e-07  Score=96.03  Aligned_cols=156  Identities=14%  Similarity=0.073  Sum_probs=92.0

Q ss_pred             CCCccEEEccCCCCcccc----ccHHHHhCCCCCcEEEcCCCCCcc--CCccccCCCcccEEecCC-cccccCCCCccCh
Q 038110          471 CPQLKLFSMPAEKNSFFA----IPHNLFRSMLQVRVLDLTDMNLLS--LPSSIGLLTNLHTLCLYG-GVGVVDGVKNASL  543 (667)
Q Consensus       471 ~~~Lr~L~l~~~~~~~~~----lp~~~~~~l~~Lr~L~L~~~~i~~--lP~si~~L~~L~~L~L~~-~l~~LP~~~~~~~  543 (667)
                      .++|++|++++|... ..    +...+.....+|++|+|++|.+..  ++.-...+.+|++|+|++ .+...+.   ..+
T Consensus        71 ~~~L~~L~Ls~n~l~-~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~---~~L  146 (372)
T 3un9_A           71 LSSLRQLNLAGVRMT-PVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEAC---KDL  146 (372)
T ss_dssp             HTTCCEEECTTSCCC-HHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHH---HHH
T ss_pred             HhhCCEEEecCCCCC-HHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHH---HHH
Confidence            568999999999864 21    112221133799999999999863  222233567899999998 4433220   000


Q ss_pred             -hhh-cCCCCCCeEEeecCCCCC-----CCCCCcCCCCCCeeEEEecCccC-----CCcccccccccceEEeecCccccc
Q 038110          544 -EEL-KHFPNLTSLELEVNDANT-----LPRGGLFFEKPERYKILTGHRWS-----RGFYRSSNKSYRSFRIDLDANVRL  611 (667)
Q Consensus       544 -~~l-~~L~~L~~L~l~~~~l~~-----lP~~~~~l~~L~~l~~~~~~~~~-----~~~~~~~~~~l~~l~l~~~~~~~~  611 (667)
                       ..+ ...++|++|++++|.++.     ++..+...++|+.|+++.+.-..     +.........++.|.|+.+.....
T Consensus       147 ~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~i~~~  226 (372)
T 3un9_A          147 RDLLLHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNGAGDT  226 (372)
T ss_dssp             HHHHHSTTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSCCCHH
T ss_pred             HHHHHhcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCCCCHH
Confidence             233 356899999999998754     33334467889999877444111     011112223566677766544332


Q ss_pred             h-HHHHH---Hhhhcceeecccc
Q 038110          612 K-DRLVV---QLRGIEELSLAGL  630 (667)
Q Consensus       612 ~-~~~~~---~l~~L~~L~L~~~  630 (667)
                      . ..+..   ..++|++|+|++|
T Consensus       227 g~~~l~~~L~~~~~L~~L~Ls~N  249 (372)
T 3un9_A          227 AALALARAAREHPSLELLHLYFN  249 (372)
T ss_dssp             HHHHHHHHHHHCSSCCEEECTTS
T ss_pred             HHHHHHHHHHhCCCCCEEeccCC
Confidence            1 12222   2257788888777

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.04  E-value=1.3e-05  Score=84.75  Aligned_cols=193  Identities=13%  Similarity=0.132  Sum_probs=107.6

Q ss_pred             ccccceeEEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCcc-ccCCCccc
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSS-IGLLTNLH  524 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~s-i~~L~~L~  524 (667)
                      ....+++.+.+..|.+..++... .+.+|+.+.+..+ .  ..++...|.++.+|+.+++..+ ++.++.. |.+ .+|+
T Consensus       177 ~~c~~L~~l~l~~n~l~~I~~~aF~~~~L~~l~lp~~-l--~~I~~~aF~~~~~L~~l~l~~~-l~~I~~~aF~~-~~L~  251 (401)
T 4fdw_A          177 YYCYNLKKADLSKTKITKLPASTFVYAGIEEVLLPVT-L--KEIGSQAFLKTSQLKTIEIPEN-VSTIGQEAFRE-SGIT  251 (401)
T ss_dssp             TTCTTCCEEECTTSCCSEECTTTTTTCCCSEEECCTT-C--CEECTTTTTTCTTCCCEECCTT-CCEECTTTTTT-CCCS
T ss_pred             hCcccCCeeecCCCcceEechhhEeecccCEEEeCCc-h--heehhhHhhCCCCCCEEecCCC-ccCcccccccc-CCcc
Confidence            34456777777766666665433 4567777777643 2  5666666777777777777764 5555543 333 6677


Q ss_pred             EEecCCcccccCCCCccChhhhcCCCCCCeEEeecCCCC-----CCCCC-CcCCCCCCeeEEEecCccCCCc-ccccccc
Q 038110          525 TLCLYGGVGVVDGVKNASLEELKHFPNLTSLELEVNDAN-----TLPRG-GLFFEKPERYKILTGHRWSRGF-YRSSNKS  597 (667)
Q Consensus       525 ~L~L~~~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~-----~lP~~-~~~l~~L~~l~~~~~~~~~~~~-~~~~~~~  597 (667)
                      .+.+...+..++.      ..|.++++|+.+++.++.+.     .++.. +..+.+|+.+.+. +.-..+.. .......
T Consensus       252 ~i~lp~~i~~I~~------~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~-~~i~~I~~~aF~~c~~  324 (401)
T 4fdw_A          252 TVKLPNGVTNIAS------RAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIP-ESIRILGQGLLGGNRK  324 (401)
T ss_dssp             EEEEETTCCEECT------TTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCC-TTCCEECTTTTTTCCS
T ss_pred             EEEeCCCccEECh------hHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeC-CceEEEhhhhhcCCCC
Confidence            7777656666653      56777888888888776544     45554 4467777777554 11111111 1222234


Q ss_pred             cceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccC-CCccEEEeec
Q 038110          598 YRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGS-SQLKYLQIEG  657 (667)
Q Consensus       598 l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l-~~L~~L~l~~  657 (667)
                      ++.+.|.. +............ +|+.|.+.+|   ....++.... .++ .++..|.+-.
T Consensus       325 L~~l~lp~-~l~~I~~~aF~~~-~L~~l~l~~n---~~~~l~~~~F-~~~~~~l~~l~vp~  379 (401)
T 4fdw_A          325 VTQLTIPA-NVTQINFSAFNNT-GIKEVKVEGT---TPPQVFEKVW-YGFPDDITVIRVPA  379 (401)
T ss_dssp             CCEEEECT-TCCEECTTSSSSS-CCCEEEECCS---SCCBCCCSSC-CCSCTTCCEEEECG
T ss_pred             ccEEEECc-cccEEcHHhCCCC-CCCEEEEcCC---CCcccccccc-cCCCCCccEEEeCH
Confidence            55555533 2323333333334 7777777777   2222332221 333 3566666644

>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=98.03  E-value=6.9e-06  Score=84.46  Aligned_cols=100  Identities=16%  Similarity=0.051  Sum_probs=83.9

Q ss_pred             CCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCccc-EEecCCcccccCCCCccChhhhcC
Q 038110          471 CPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLH-TLCLYGGVGVVDGVKNASLEELKH  548 (667)
Q Consensus       471 ~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~-~L~L~~~l~~LP~~~~~~~~~l~~  548 (667)
                      +++|++|++.+|..  ..+|+..|.++.+|+.|+|++| ++.+|+ .|.++.+|+ .|.+...+..++.      ..|.+
T Consensus       225 ~~~L~~l~L~~n~i--~~I~~~aF~~~~~L~~l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~~l~~I~~------~aF~~  295 (329)
T 3sb4_A          225 MPNLVSLDISKTNA--TTIPDFTFAQKKYLLKIKLPHN-LKTIGQRVFSNCGRLAGTLELPASVTAIEF------GAFMG  295 (329)
T ss_dssp             CTTCCEEECTTBCC--CEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEEECTTCCEECT------TTTTT
T ss_pred             cCCCeEEECCCCCc--ceecHhhhhCCCCCCEEECCcc-cceehHHHhhCChhccEEEEEcccceEEch------hhhhC
Confidence            78899999998776  7888888899999999999987 888865 588899999 9999887777764      67889


Q ss_pred             CCCCCeEEeecCCCCCCCCC-CcCCCCCCeeE
Q 038110          549 FPNLTSLELEVNDANTLPRG-GLFFEKPERYK  579 (667)
Q Consensus       549 L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~  579 (667)
                      +++|+.|+++.|.+..++.. +.++++|+.++
T Consensus       296 c~~L~~l~l~~n~i~~I~~~aF~~~~~L~~ly  327 (329)
T 3sb4_A          296 CDNLRYVLATGDKITTLGDELFGNGVPSKLIY  327 (329)
T ss_dssp             CTTEEEEEECSSCCCEECTTTTCTTCCCCEEE
T ss_pred             CccCCEEEeCCCccCccchhhhcCCcchhhhc
Confidence            99999999988899999886 55778888774

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=97.94  E-value=6.2e-05  Score=78.95  Aligned_cols=187  Identities=12%  Similarity=0.010  Sum_probs=115.7

Q ss_pred             ccccchHHHHHHHHHhcC------------------CCCcHHHHHHHHHhccC----CC--CCEEEEEEeCCCC-CHHHH
Q 038110          159 EAFESRMSTLNDILGALK------------------NPDTTLAKEVAWKAEND----KL--FDQAVFAEVSQSH-DIRKI  213 (667)
Q Consensus       159 ~~~~gr~~~~~~i~~~l~------------------~~~TtLa~~vy~~~~~~----~~--F~~~~wv~vs~~~-~~~~i  213 (667)
                      ..++||+++++.+..++.                  .||||||+.+++...-.    ..  ....+|++.+... +...+
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   99 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAV   99 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHH
Confidence            458899999998886552                  24699999999875311    11  2347788877766 88899


Q ss_pred             HHHHHHHhCCCCC---CCChhHHHH-HHHHHhcCCeEEEEEeCCCCccc---ccccCCCcCCCCCCcEEEEecCChhhh-
Q 038110          214 QGEIADKLGLTFH---EESESGRAS-LCNQLKKNKTILMILDNIWENLD---LLAIGIPHGNDHKGCKILLTARSEDTL-  285 (667)
Q Consensus       214 ~~~i~~~l~~~~~---~~~~~~~~~-l~~~L~~~kr~LlVLDdvw~~~~---~~~l~~~~~~~~~gs~iivTTr~~~va-  285 (667)
                      +..++.++.+...   ......... +.+.+. .++.+|||||++....   .+.+...+.....+.+||+||+..... 
T Consensus       100 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~-~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~iI~~t~~~~~~~  178 (384)
T 2qby_B          100 LSSLAGKLTGFSVPKHGINLGEYIDKIKNGTR-NIRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANISVIMISNDINVRD  178 (384)
T ss_dssp             HHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHS-SSCEEEEEETTHHHHHSTTSHHHHHHHHTSSSCEEEEEECSSTTTTT
T ss_pred             HHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhc-cCCCEEEEECHHHhccCCCCceeHHHHhcCCcceEEEEEECCCchHh
Confidence            9999988833211   111223233 777776 4555999999986421   222011111111577899999876321 


Q ss_pred             ---hhc-cCCcceEecCCCCHHHHHHHHH-----------------HHHHHHhC---Ccch-HHHHHHHHH--c---cC-
Q 038110          286 ---SRK-MDSKQNFSVGILKEEEAWSGEF-----------------KWVAKECA---GLPV-SIVTVSRAL--R---NK-  334 (667)
Q Consensus       286 ---~~~-~~~~~~~~l~~L~~~~s~~Lf~-----------------~~i~~~c~---GlPL-ai~~~g~~L--~---~k-  334 (667)
                         ... ......+.+++++.++..++|.                 ..+++.|+   |.|- |+..+-.+.  .   .. 
T Consensus       179 ~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~~~~~i  258 (384)
T 2qby_B          179 YMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLASGGGII  258 (384)
T ss_dssp             TSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTSSSCC
T ss_pred             hhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcCCCcc
Confidence               100 1112389999999999999987                 45667777   7765 333333332  1   12 


Q ss_pred             ChHHHHHHHHHh
Q 038110          335 SLFEWKDALQQL  346 (667)
Q Consensus       335 ~~~~W~~~l~~l  346 (667)
                      +.+++..++...
T Consensus       259 ~~~~v~~~~~~~  270 (384)
T 2qby_B          259 RKEHVDKAIVDY  270 (384)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
Confidence            667777666654

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=97.93  E-value=5.8e-05  Score=73.26  Aligned_cols=89  Identities=12%  Similarity=0.126  Sum_probs=63.4

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCChhhh-hhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSEDTL-SRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~~va-~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +++.+||+||++..  ..++.+...+.....+.++|+||+..... .........+++.+++.++..+++.         
T Consensus       125 ~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~  204 (250)
T 1njg_A          125 GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA  204 (250)
T ss_dssp             SSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTCC
T ss_pred             CCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCCC
Confidence            56799999999763  45555554444445677888888765432 1112234689999999999999887         


Q ss_pred             ------HHHHHHhCCcchHHHHHHHHH
Q 038110          311 ------KWVAKECAGLPVSIVTVSRAL  331 (667)
Q Consensus       311 ------~~i~~~c~GlPLai~~~g~~L  331 (667)
                            ..|++.|+|.|..+..+...+
T Consensus       205 ~~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          205 HEPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             BCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence                  678889999998887765543

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.80  E-value=1.8e-05  Score=82.20  Aligned_cols=82  Identities=20%  Similarity=0.243  Sum_probs=53.0

Q ss_pred             CCCCccEEEccCCCCc--------cccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCCcccccCCCCcc
Q 038110          470 ECPQLKLFSMPAEKNS--------FFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYGGVGVVDGVKNA  541 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~--------~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~~l~~LP~~~~~  541 (667)
                      .+++|+.|.+.+....        ...++ .++..+++|+.|+|+++.-..+|. +. +.+|++|+|..  ..++.   .
T Consensus       137 ~l~~L~~L~l~~~~~e~~~is~~~~~~L~-~ll~~~P~L~~L~L~g~~~l~l~~-~~-~~~L~~L~L~~--~~l~~---~  208 (362)
T 2ra8_A          137 KFAHFEGLFWGDIDFEEQEISWIEQVDLS-PVLDAMPLLNNLKIKGTNNLSIGK-KP-RPNLKSLEIIS--GGLPD---S  208 (362)
T ss_dssp             HHTTCSEEEECCCCTTTCCGGGCBCCBCH-HHHHTCTTCCEEEEECCBTCBCCS-CB-CTTCSEEEEEC--SBCCH---H
T ss_pred             hcchhhheeecCcchhhcccccccccCHH-HHHhcCCCCcEEEEeCCCCceecc-cc-CCCCcEEEEec--CCCCh---H
Confidence            5789999988654220        01233 455889999999999884235555 43 78999999876  22220   0


Q ss_pred             Chhhh--cCCCCCCeEEeec
Q 038110          542 SLEEL--KHFPNLTSLELEV  559 (667)
Q Consensus       542 ~~~~l--~~L~~L~~L~l~~  559 (667)
                      .+..+  .++++|++|+|+.
T Consensus       209 ~l~~l~~~~lp~L~~L~L~~  228 (362)
T 2ra8_A          209 VVEDILGSDLPNLEKLVLYV  228 (362)
T ss_dssp             HHHHHHHSBCTTCCEEEEEC
T ss_pred             HHHHHHHccCCCCcEEEEec
Confidence            01233  3788999999864

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=97.80  E-value=0.00028  Score=73.90  Aligned_cols=208  Identities=13%  Similarity=0.053  Sum_probs=126.6

Q ss_pred             ccccchHHHHHHHHHhcC------------------CCCcHHHHHHHHHhccCC---CCC-EEEEEEeCCCCCHHHHHHH
Q 038110          159 EAFESRMSTLNDILGALK------------------NPDTTLAKEVAWKAENDK---LFD-QAVFAEVSQSHDIRKIQGE  216 (667)
Q Consensus       159 ~~~~gr~~~~~~i~~~l~------------------~~~TtLa~~vy~~~~~~~---~F~-~~~wv~vs~~~~~~~i~~~  216 (667)
                      ..++||+.+++.+..++.                  .||||+|+.+++......   ... ..+|++.....+...++..
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   98 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASA   98 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHH
Confidence            568899999999998872                  145999999998763210   112 3678888888889999999


Q ss_pred             HHHHhCCCCCCC--ChhHHHH-HHHHHh-cCCeEEEEEeCCCCccc----cccc---CCCcCCC--CCCcEEEEecCChh
Q 038110          217 IADKLGLTFHEE--SESGRAS-LCNQLK-KNKTILMILDNIWENLD----LLAI---GIPHGND--HKGCKILLTARSED  283 (667)
Q Consensus       217 i~~~l~~~~~~~--~~~~~~~-l~~~L~-~~kr~LlVLDdvw~~~~----~~~l---~~~~~~~--~~gs~iivTTr~~~  283 (667)
                      ++.+++......  ...+... +.+.+. .+++.+|||||++....    .+.+   .......  ..+..+|.||+...
T Consensus        99 l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~~~  178 (387)
T 2v1u_A           99 IAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSLG  178 (387)
T ss_dssp             HHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSCST
T ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECCCc
Confidence            999997643322  1222233 666663 25689999999987522    1222   1111111  34567788887653


Q ss_pred             hh----hhc-cCCc-ceEecCCCCHHHHHHHHH-----------------HHHHHHhC---Ccc-hHHHHHHHHHc----
Q 038110          284 TL----SRK-MDSK-QNFSVGILKEEEAWSGEF-----------------KWVAKECA---GLP-VSIVTVSRALR----  332 (667)
Q Consensus       284 va----~~~-~~~~-~~~~l~~L~~~~s~~Lf~-----------------~~i~~~c~---GlP-Lai~~~g~~L~----  332 (667)
                      ..    ... .... ..+.+.+++.++..+++.                 ..+++.++   |.| .++..+..+..    
T Consensus       179 ~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l~~a~~~a~~  258 (387)
T 2v1u_A          179 FVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDARRALDLLRVAGEIAER  258 (387)
T ss_dssp             TSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCHHHHHHHHHHHHHHHHH
T ss_pred             hHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHH
Confidence            21    000 1111 478999999999999887                 56778887   998 33333333321    


Q ss_pred             -c--C-ChHHHHHHHHHhcCC----CCcCchHHHHHHHHHHh
Q 038110          333 -N--K-SLFEWKDALQQLRRP----ISTNFKDELKQIFLLIG  366 (667)
Q Consensus       333 -~--k-~~~~W~~~l~~l~~~----~~~~l~~~lk~cfly~s  366 (667)
                       +  . +.+.+..++......    ....+|.+.+..++..+
T Consensus       259 ~~~~~i~~~~v~~a~~~~~~~~~~~~~~~l~~~~~~~l~a~~  300 (387)
T 2v1u_A          259 RREERVRREHVYSARAEIERDRVSEVVRTLPLHAKLVLLSIM  300 (387)
T ss_dssp             TTCSCBCHHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHH
T ss_pred             cCCCCcCHHHHHHHHHHHhhchHHHHHHcCCHHHHHHHHHHH
Confidence             1  2 677777777664221    12334555555444444

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=97.74  E-value=0.00013  Score=76.46  Aligned_cols=188  Identities=13%  Similarity=0.068  Sum_probs=114.1

Q ss_pred             ccccchHHHHHHHHHhcCC------------------CCcHHHHHHHHHhccCCC-CCEEEEEEeCCCCCHHHHHHHHHH
Q 038110          159 EAFESRMSTLNDILGALKN------------------PDTTLAKEVAWKAENDKL-FDQAVFAEVSQSHDIRKIQGEIAD  219 (667)
Q Consensus       159 ~~~~gr~~~~~~i~~~l~~------------------~~TtLa~~vy~~~~~~~~-F~~~~wv~vs~~~~~~~i~~~i~~  219 (667)
                      ..++||+.+++.+.+++..                  ||||||+.+++....... -...+|+..+...+...++..++.
T Consensus        20 ~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~~   99 (386)
T 2qby_A           20 DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLE   99 (386)
T ss_dssp             SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHTT
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHHH
Confidence            5688999999999988752                  359999999987642210 124678877676678888888888


Q ss_pred             HhCCCCCCC--ChhHHHH-HHHHHhc-CCeEEEEEeCCCCcc------cccccCCCcCC-CCCCcEEEEecCChhhhhhc
Q 038110          220 KLGLTFHEE--SESGRAS-LCNQLKK-NKTILMILDNIWENL------DLLAIGIPHGN-DHKGCKILLTARSEDTLSRK  288 (667)
Q Consensus       220 ~l~~~~~~~--~~~~~~~-l~~~L~~-~kr~LlVLDdvw~~~------~~~~l~~~~~~-~~~gs~iivTTr~~~va~~~  288 (667)
                      +++......  ...+... +.+.+.. +++.+||||+++...      .+..+...+.. ...+..+|+||+........
T Consensus       100 ~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~~~~  179 (386)
T 2qby_A          100 SLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDLL  179 (386)
T ss_dssp             TTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGGGGC
T ss_pred             HhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChHhhh
Confidence            876543211  1222233 6666642 448999999997642      12222211211 22345678888766432110


Q ss_pred             -----cCC-cceEecCCCCHHHHHHHHH-----------------HHHHHHhC---CcchHHH-HHHHHHc-----c--C
Q 038110          289 -----MDS-KQNFSVGILKEEEAWSGEF-----------------KWVAKECA---GLPVSIV-TVSRALR-----N--K  334 (667)
Q Consensus       289 -----~~~-~~~~~l~~L~~~~s~~Lf~-----------------~~i~~~c~---GlPLai~-~~g~~L~-----~--k  334 (667)
                           ... ...+.+++++.++..+++.                 ..+++.++   |.|..+. .+..+..     +  .
T Consensus       180 ~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~a~~~~~~~  259 (386)
T 2qby_A          180 DPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAERMKDTK  259 (386)
T ss_dssp             TTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCSS
T ss_pred             CHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhcCCCc
Confidence                 011 1479999999999999987                 45666676   8887433 3322221     1  2


Q ss_pred             -ChHHHHHHHHHh
Q 038110          335 -SLFEWKDALQQL  346 (667)
Q Consensus       335 -~~~~W~~~l~~l  346 (667)
                       +.+.+..++...
T Consensus       260 i~~~~v~~a~~~~  272 (386)
T 2qby_A          260 VKEEYVYMAKEEI  272 (386)
T ss_dssp             CCHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHH
Confidence             566666665543

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=97.71  E-value=0.00038  Score=66.34  Aligned_cols=156  Identities=10%  Similarity=0.055  Sum_probs=92.3

Q ss_pred             CcccccchHHHHHHHHHhcCC--------------CCcHHHHHHHHHhccCCCCC-EEEEEEeCCCCCHHHHHHHHHHHh
Q 038110          157 DYEAFESRMSTLNDILGALKN--------------PDTTLAKEVAWKAENDKLFD-QAVFAEVSQSHDIRKIQGEIADKL  221 (667)
Q Consensus       157 ~~~~~~gr~~~~~~i~~~l~~--------------~~TtLa~~vy~~~~~~~~F~-~~~wv~vs~~~~~~~i~~~i~~~l  221 (667)
                      ....++|++..++.+..++..              |||++|+.+++..... .+. ..+.+..+...+...+...+....
T Consensus        15 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (226)
T 2chg_A           15 TLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGE-NWRDNFIEMNASDERGIDVVRHKIKEFA   93 (226)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHHGG-GGGGGEEEEETTCTTCHHHHHHHHHHHH
T ss_pred             CHHHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHhcc-ccccceEEeccccccChHHHHHHHHHHh
Confidence            345678999999998887643              4699999999865321 121 234444444434333322222211


Q ss_pred             CCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCChhhh-hhccCCcceEecC
Q 038110          222 GLTFHEESESGRASLCNQLKKNKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSEDTL-SRKMDSKQNFSVG  298 (667)
Q Consensus       222 ~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~~va-~~~~~~~~~~~l~  298 (667)
                      ....              ...+++.+||+||++..  ..++.+...+.....+.++|+||+..... .........+.+.
T Consensus        94 ~~~~--------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~~~  159 (226)
T 2chg_A           94 RTAP--------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFK  159 (226)
T ss_dssp             TSCC--------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECC
T ss_pred             cccC--------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceeecC
Confidence            1100              00256799999999765  33444443343344567888888775422 1112223489999


Q ss_pred             CCCHHHHHHHHH---------------HHHHHHhCCcchHHHHH
Q 038110          299 ILKEEEAWSGEF---------------KWVAKECAGLPVSIVTV  327 (667)
Q Consensus       299 ~L~~~~s~~Lf~---------------~~i~~~c~GlPLai~~~  327 (667)
                      +++.++..+++.               ..+++.++|.|..+..+
T Consensus       160 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~l~~~  203 (226)
T 2chg_A          160 PVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINA  203 (226)
T ss_dssp             CCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            999999998886               45666777777654433

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=97.68  E-value=0.0078  Score=62.77  Aligned_cols=248  Identities=13%  Similarity=0.117  Sum_probs=145.7

Q ss_pred             ccccchHHHHHHHHHhcC--------------------CCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHH
Q 038110          159 EAFESRMSTLNDILGALK--------------------NPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIA  218 (667)
Q Consensus       159 ~~~~gr~~~~~~i~~~l~--------------------~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~  218 (667)
                      ..++||+.+++.+..++.                    .||||||+.+.+....... -..+|+..+...+...+...++
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~-~~~~~i~~~~~~~~~~~~~~l~   95 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTT-ARFVYINGFIYRNFTAIIGEIA   95 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCC-CEEEEEETTTCCSHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcC-eeEEEEeCccCCCHHHHHHHHH
Confidence            458899999988876652                    2469999999987753211 2467788778888899999999


Q ss_pred             HHhCCCCCCC--ChhHHHH-HHHHHh-cCCeEEEEEeCCCCc--ccccccCCCcCCC-C---CCcEEEEecCChhhhhhc
Q 038110          219 DKLGLTFHEE--SESGRAS-LCNQLK-KNKTILMILDNIWEN--LDLLAIGIPHGND-H---KGCKILLTARSEDTLSRK  288 (667)
Q Consensus       219 ~~l~~~~~~~--~~~~~~~-l~~~L~-~~kr~LlVLDdvw~~--~~~~~l~~~~~~~-~---~gs~iivTTr~~~va~~~  288 (667)
                      ..++......  ....... +.+.+. .+++.+|||||++..  .....+...+... .   .+..||+||+....... 
T Consensus        96 ~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~-  174 (389)
T 1fnn_A           96 RSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNN-  174 (389)
T ss_dssp             HHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHT-
T ss_pred             HHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHH-
Confidence            9987543221  1222222 555553 256799999999764  2233332222211 1   35678888877643211 


Q ss_pred             cC-------CcceEecCCCCHHHHHHHHH-----------------HHHHHHh---------CCcchHHHHHH-HHHc--
Q 038110          289 MD-------SKQNFSVGILKEEEAWSGEF-----------------KWVAKEC---------AGLPVSIVTVS-RALR--  332 (667)
Q Consensus       289 ~~-------~~~~~~l~~L~~~~s~~Lf~-----------------~~i~~~c---------~GlPLai~~~g-~~L~--  332 (667)
                      ..       ....+.+.+++.++..+++.                 ..+++.+         .|.|-.+..+. .+..  
T Consensus       175 l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a~~~a  254 (389)
T 1fnn_A          175 LDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAA  254 (389)
T ss_dssp             SCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHHHHH
T ss_pred             hCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHHHHHH
Confidence            11       11369999999999998886                 5678888         78774443332 2221  


Q ss_pred             ---cC---ChHHHHHHHHHhcCCCC----cCchHHHHHHHHHHhhh-h-----cccHHHHHHHHhH----cCCCCCcccH
Q 038110          333 ---NK---SLFEWKDALQQLRRPIS----TNFKDELKQIFLLIGYT-Y-----VAFIDDLIWYSIG----LGLFQGIKNM  392 (667)
Q Consensus       333 ---~k---~~~~W~~~l~~l~~~~~----~~l~~~lk~cfly~s~f-~-----~i~~~~Li~~Wia----eg~i~~~~~~  392 (667)
                         +.   +.+....+.........    ..+|.+.+.++..++.+ .     .+....+...+..    .|...  -+.
T Consensus       255 ~~~~~~~i~~~~v~~~~~~~~~~~~~~~l~~l~~~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~--~~~  332 (389)
T 1fnn_A          255 QQNGRKHIAPEDVRKSSKEVLFGISEEVLIGLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKIVCEEYGERP--RVH  332 (389)
T ss_dssp             HHTTCSSCCHHHHHHHHHHHSCCCCHHHHHHSCHHHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHHHHHHTTCCC--CCH
T ss_pred             HHhCCCCcCHHHHHHHHHHHhhhhHHHHHHcCCHHHHHHHHHHHHHHhhccCCCccHHHHHHHHHHHHHHcCCCC--CCH
Confidence               21   45555555555443322    23467777666656554 2     4555555544432    23111  111


Q ss_pred             HHHHHHHHHHHHHHHHcccccc
Q 038110          393 EEARAGVRTLVNKLKASCMLLD  414 (667)
Q Consensus       393 e~~~~~~~~li~~L~~~~l~~~  414 (667)
                          ..+.+++.+|...+++..
T Consensus       333 ----~~~~~~l~~L~~~gli~~  350 (389)
T 1fnn_A          333 ----SQLWSYLNDLREKGIVET  350 (389)
T ss_dssp             ----HHHHHHHHHHHHTTSSEE
T ss_pred             ----HHHHHHHHHHHhCCCeEE
Confidence                234455566666777654

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.27  E-value=0.00014  Score=75.37  Aligned_cols=101  Identities=22%  Similarity=0.254  Sum_probs=51.3

Q ss_pred             CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCc-cCCcccc--CCCcccEEecCC---------cccccCC
Q 038110          470 ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLL-SLPSSIG--LLTNLHTLCLYG---------GVGVVDG  537 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-~lP~si~--~L~~L~~L~L~~---------~l~~LP~  537 (667)
                      .+|+|+.|.+.++..  ..++. +  .+++|+.|+|..+.+. .-...++  .+++|++|+|+.         .+..+. 
T Consensus       170 ~~P~L~~L~L~g~~~--l~l~~-~--~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~-  243 (362)
T 2ra8_A          170 AMPLLNNLKIKGTNN--LSIGK-K--PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFR-  243 (362)
T ss_dssp             TCTTCCEEEEECCBT--CBCCS-C--BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTG-
T ss_pred             cCCCCcEEEEeCCCC--ceecc-c--cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHH-
Confidence            456777777766532  23333 2  2667777777666554 1122233  566777776632         011111 


Q ss_pred             CCccChhhh--cCCCCCCeEEeecCCCCC-CCCCC---cCCCCCCeeEEEe
Q 038110          538 VKNASLEEL--KHFPNLTSLELEVNDANT-LPRGG---LFFEKPERYKILT  582 (667)
Q Consensus       538 ~~~~~~~~l--~~L~~L~~L~l~~~~l~~-lP~~~---~~l~~L~~l~~~~  582 (667)
                            ..+  +.+++|++|++++|.+.. .+..+   ..+++|+.|+++.
T Consensus       244 ------~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~  288 (362)
T 2ra8_A          244 ------PLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISA  288 (362)
T ss_dssp             ------GGSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCS
T ss_pred             ------HHHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCC
Confidence                  111  246677777777665432 11111   2456677776653

>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=97.22  E-value=0.00022  Score=70.25  Aligned_cols=35  Identities=23%  Similarity=0.366  Sum_probs=16.2

Q ss_pred             hCCCCCcEEEcCCCCCccCCccccCCC--cccEEecCC
Q 038110          495 RSMLQVRVLDLTDMNLLSLPSSIGLLT--NLHTLCLYG  530 (667)
Q Consensus       495 ~~l~~Lr~L~L~~~~i~~lP~si~~L~--~L~~L~L~~  530 (667)
                      ..+++|++|+|++|.|..+ ..+..|.  +|++|+|++
T Consensus       193 ~~l~~L~~L~Ls~N~i~~~-~~l~~l~~l~L~~L~L~~  229 (267)
T 3rw6_A          193 QKAPNLKILNLSGNELKSE-RELDKIKGLKLEELWLDG  229 (267)
T ss_dssp             HHSTTCCEEECTTSCCCSG-GGGGGGTTSCCSEEECTT
T ss_pred             hhCCCCCEEECCCCccCCc-hhhhhcccCCcceEEccC
Confidence            4555555555555555444 2222222  444444444

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.14  E-value=0.00012  Score=68.29  Aligned_cols=36  Identities=11%  Similarity=0.153  Sum_probs=16.9

Q ss_pred             hCCCCCcEEEcCCCCCcc-----CCccccCCCcccEEecCC
Q 038110          495 RSMLQVRVLDLTDMNLLS-----LPSSIGLLTNLHTLCLYG  530 (667)
Q Consensus       495 ~~l~~Lr~L~L~~~~i~~-----lP~si~~L~~L~~L~L~~  530 (667)
                      ...++|++|+|++|.+..     +...+...++|++|+|++
T Consensus        62 ~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~  102 (185)
T 1io0_A           62 KTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVES  102 (185)
T ss_dssp             TTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCS
T ss_pred             HhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcC
Confidence            444555555555554431     233333344555555554

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.09  E-value=0.00013  Score=67.95  Aligned_cols=106  Identities=14%  Similarity=0.150  Sum_probs=58.5

Q ss_pred             ccceeEEEEecc-Cccc-----cCC-CCCCCCccEEEccCCCCcc---ccccHHHHhCCCCCcEEEcCCCCCcc-----C
Q 038110          449 VRHCTSIVILDV-KTYV-----LPE-VMECPQLKLFSMPAEKNSF---FAIPHNLFRSMLQVRVLDLTDMNLLS-----L  513 (667)
Q Consensus       449 ~~~lr~L~l~~~-~~~~-----l~~-~~~~~~Lr~L~l~~~~~~~---~~lp~~~~~~l~~Lr~L~L~~~~i~~-----l  513 (667)
                      .+.++.|++.+| .+..     +.. ....++|++|++++|....   ..+...+ ...+.|++|+|++|.|..     +
T Consensus        35 ~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L-~~n~~L~~L~L~~N~i~~~g~~~l  113 (185)
T 1io0_A           35 DPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEML-KVNNTLKSLNVESNFISGSGILAL  113 (185)
T ss_dssp             CTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHH-HHCSSCCEEECCSSCCCHHHHHHH
T ss_pred             CCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHH-HhCCCcCEEECcCCcCCHHHHHHH
Confidence            456777777776 5532     111 1145677777777776520   1122322 556677777777776653     4


Q ss_pred             CccccCCCcccEEec--CC-cc-----cccCCCCccChhhhcCCCCCCeEEeecCCC
Q 038110          514 PSSIGLLTNLHTLCL--YG-GV-----GVVDGVKNASLEELKHFPNLTSLELEVNDA  562 (667)
Q Consensus       514 P~si~~L~~L~~L~L--~~-~l-----~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l  562 (667)
                      ...+....+|++|+|  ++ .+     ..+.       ..+...++|++|++++|.+
T Consensus       114 ~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~-------~~L~~n~~L~~L~L~~n~i  163 (185)
T 1io0_A          114 VEALQSNTSLIELRIDNQSQPLGNNVEMEIA-------NMLEKNTTLLKFGYHFTQQ  163 (185)
T ss_dssp             HHGGGGCSSCCEEECCCCSSCCCHHHHHHHH-------HHHHHCSSCCEEECCCSSH
T ss_pred             HHHHHhCCCceEEEecCCCCCCCHHHHHHHH-------HHHHhCCCcCEEeccCCCC
Confidence            555566666677766  43 22     2233       4445556666666666543

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.05  E-value=0.0019  Score=65.64  Aligned_cols=160  Identities=11%  Similarity=0.042  Sum_probs=94.2

Q ss_pred             CcccccchHHHHHHHHHhcCC--------------CCcHHHHHHHHHhccCCCCC-EEEEEEeCCCCCHHHHHHHHHHHh
Q 038110          157 DYEAFESRMSTLNDILGALKN--------------PDTTLAKEVAWKAENDKLFD-QAVFAEVSQSHDIRKIQGEIADKL  221 (667)
Q Consensus       157 ~~~~~~gr~~~~~~i~~~l~~--------------~~TtLa~~vy~~~~~~~~F~-~~~wv~vs~~~~~~~i~~~i~~~l  221 (667)
                      ....++|++..++.+..++..              ||||+|+.+.+...-. .+. ..+++..+....... .+++++.+
T Consensus        19 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~-~~~~~~~~~~~~~~~~~~~-i~~~~~~~   96 (323)
T 1sxj_B           19 VLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGR-SYADGVLELNASDDRGIDV-VRNQIKHF   96 (323)
T ss_dssp             SGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGG-GHHHHEEEECTTSCCSHHH-HHTHHHHH
T ss_pred             CHHHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCC-cccCCEEEecCccccChHH-HHHHHHHH
Confidence            345688999999998887643              4599999999875311 111 133444333323222 22222222


Q ss_pred             CCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCChhhh-hhccCCcceEecC
Q 038110          222 GLTFHEESESGRASLCNQLKKNKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSEDTL-SRKMDSKQNFSVG  298 (667)
Q Consensus       222 ~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~~va-~~~~~~~~~~~l~  298 (667)
                      .....            .+..+++.+||+||++..  ..++.+...+.....++++|+||+...-. .........+++.
T Consensus        97 ~~~~~------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~~~  164 (323)
T 1sxj_B           97 AQKKL------------HLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYS  164 (323)
T ss_dssp             HHBCC------------CCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECC
T ss_pred             Hhccc------------cCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEeec
Confidence            10000            000256899999999874  34444544443344567888888664321 1112234589999


Q ss_pred             CCCHHHHHHHHH---------------HHHHHHhCCcchH-HHHHHHH
Q 038110          299 ILKEEEAWSGEF---------------KWVAKECAGLPVS-IVTVSRA  330 (667)
Q Consensus       299 ~L~~~~s~~Lf~---------------~~i~~~c~GlPLa-i~~~g~~  330 (667)
                      +++.++..+++.               ..+++.|+|.|.. +..+...
T Consensus       165 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~r~a~~~l~~~  212 (323)
T 1sxj_B          165 KLSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEGDMRQAINNLQST  212 (323)
T ss_dssp             CCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            999999999886               5788899999954 4444433

>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=97.02  E-value=0.00035  Score=68.80  Aligned_cols=79  Identities=25%  Similarity=0.261  Sum_probs=59.1

Q ss_pred             HhCCCCCcEEEcCCCCCccC---CccccCCCcccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCC-CCCCC
Q 038110          494 FRSMLQVRVLDLTDMNLLSL---PSSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDAN-TLPRG  568 (667)
Q Consensus       494 ~~~l~~Lr~L~L~~~~i~~l---P~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~-~lP~~  568 (667)
                      ..++++|+.|+|++|.+..+   |..++.+++|++|+|++ .+..+.     .+..+..+ +|+.|++++|.+. .+|..
T Consensus       166 ~~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~~-----~l~~l~~l-~L~~L~L~~Npl~~~~~~~  239 (267)
T 3rw6_A          166 EENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSER-----ELDKIKGL-KLEELWLDGNSLCDTFRDQ  239 (267)
T ss_dssp             HHHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSGG-----GGGGGTTS-CCSEEECTTSTTGGGCSSH
T ss_pred             HhhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCch-----hhhhcccC-CcceEEccCCcCccccCcc
Confidence            36789999999999998865   46778999999999999 666553     01233444 9999999999875 35531


Q ss_pred             -------CcCCCCCCee
Q 038110          569 -------GLFFEKPERY  578 (667)
Q Consensus       569 -------~~~l~~L~~l  578 (667)
                             +..+++|+.|
T Consensus       240 ~~y~~~il~~~P~L~~L  256 (267)
T 3rw6_A          240 STYISAIRERFPKLLRL  256 (267)
T ss_dssp             HHHHHHHHHHCTTCCEE
T ss_pred             hhHHHHHHHHCcccCeE
Confidence                   3467788777

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=96.54  E-value=0.014  Score=59.22  Aligned_cols=91  Identities=11%  Similarity=0.030  Sum_probs=52.7

Q ss_pred             CcEEEEecCChhhhhh-cc-CCcceEecCCCCHHHHHHHHH---------------HHHHHHhCCcchHHHHHHHHHc--
Q 038110          272 GCKILLTARSEDTLSR-KM-DSKQNFSVGILKEEEAWSGEF---------------KWVAKECAGLPVSIVTVSRALR--  332 (667)
Q Consensus       272 gs~iivTTr~~~va~~-~~-~~~~~~~l~~L~~~~s~~Lf~---------------~~i~~~c~GlPLai~~~g~~L~--  332 (667)
                      +.++|.||........ .. .....+.+.+++.++...++.               ..++..|.|.|-.+..+...+.  
T Consensus       138 ~~~~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~  217 (324)
T 1hqc_A          138 RFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLFRRVRDF  217 (324)
T ss_dssp             CCEEEEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHSCSCHHHHHHHHHHHTTT
T ss_pred             CEEEEEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHH
Confidence            3456666654432111 11 123579999999999888876               6788889999987766655442  


Q ss_pred             ----c--C-ChHHHHHHHHHhcCCCCcCchHHHHHHHH
Q 038110          333 ----N--K-SLFEWKDALQQLRRPISTNFKDELKQIFL  363 (667)
Q Consensus       333 ----~--k-~~~~W~~~l~~l~~~~~~~l~~~lk~cfl  363 (667)
                          +  . +.+....++..+.. ....++...+..+.
T Consensus       218 a~~~~~~~i~~~~~~~~~~~~~~-~~~~l~~~e~~~i~  254 (324)
T 1hqc_A          218 AQVAGEEVITRERALEALAALGL-DELGLEKRDREILE  254 (324)
T ss_dssp             STTTSCSCCCHHHHHHHHHHHTC-CTTCCCHHHHHHHH
T ss_pred             HHHhcCCCCCHHHHHHHHHHhcc-cccCCCHHHHHHHH
Confidence                1  1 45556666555421 12234444444443

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=96.42  E-value=0.003  Score=57.64  Aligned_cols=82  Identities=13%  Similarity=0.128  Sum_probs=49.5

Q ss_pred             CCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCC-CCcc-CCccccCC----CcccEEecCC--cccccCCCCccCh
Q 038110          472 PQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDM-NLLS-LPSSIGLL----TNLHTLCLYG--GVGVVDGVKNASL  543 (667)
Q Consensus       472 ~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~-~i~~-lP~si~~L----~~L~~L~L~~--~l~~LP~~~~~~~  543 (667)
                      .+|+.|+++++......+ ..+ .++++|+.|+|++| .++. --..|+.+    ++|++|+|++  .++.--      +
T Consensus        61 ~~L~~LDLs~~~Itd~GL-~~L-~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~G------l  132 (176)
T 3e4g_A           61 YKIQAIDATDSCIMSIGF-DHM-EGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKG------I  132 (176)
T ss_dssp             CCEEEEEEESCCCCGGGG-GGG-TTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHH------H
T ss_pred             ceEeEEeCcCCCccHHHH-HHh-cCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHH------H
Confidence            467777777776431222 233 77888888888887 3552 12334544    3678888876  333211      1


Q ss_pred             hhhcCCCCCCeEEeecCC
Q 038110          544 EELKHFPNLTSLELEVND  561 (667)
Q Consensus       544 ~~l~~L~~L~~L~l~~~~  561 (667)
                      ..+.++++|++|++++|.
T Consensus       133 ~~L~~~~~L~~L~L~~c~  150 (176)
T 3e4g_A          133 IALHHFRNLKYLFLSDLP  150 (176)
T ss_dssp             HHGGGCTTCCEEEEESCT
T ss_pred             HHHhcCCCCCEEECCCCC
Confidence            345667888888888774

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=96.36  E-value=0.0081  Score=54.74  Aligned_cols=39  Identities=18%  Similarity=0.290  Sum_probs=24.0

Q ss_pred             hhcceeecccccccccc-ccchhhhhccCCCccEEEeecCCCCe
Q 038110          620 RGIEELSLAGLLDQDIK-NFVNELVKVGSSQLKYLQIEGYRGPQ  662 (667)
Q Consensus       620 ~~L~~L~L~~~~~~~~~-~~~~~l~~~~l~~L~~L~l~~~~~l~  662 (667)
                      ++|++|+|++|  ..+. .-...|  ..+++|++|+|++|+++.
T Consensus       114 ~~L~~L~Ls~C--~~ITD~Gl~~L--~~~~~L~~L~L~~c~~It  153 (176)
T 3e4g_A          114 KSMLEMEIISC--GNVTDKGIIAL--HHFRNLKYLFLSDLPGVK  153 (176)
T ss_dssp             HHCCEEEEESC--TTCCHHHHHHG--GGCTTCCEEEEESCTTCC
T ss_pred             CCCCEEEcCCC--CcCCHHHHHHH--hcCCCCCEEECCCCCCCC
Confidence            36777777777  3222 123345  567777777777777653

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=96.18  E-value=0.0059  Score=61.97  Aligned_cols=159  Identities=11%  Similarity=0.033  Sum_probs=89.7

Q ss_pred             cccccchHHHHHHHHHhcCC--------------CCcHHHHHHHHHhccCCCCC-EEEEEEeCCCCCHHHHHHHHHHHhC
Q 038110          158 YEAFESRMSTLNDILGALKN--------------PDTTLAKEVAWKAENDKLFD-QAVFAEVSQSHDIRKIQGEIADKLG  222 (667)
Q Consensus       158 ~~~~~gr~~~~~~i~~~l~~--------------~~TtLa~~vy~~~~~~~~F~-~~~wv~vs~~~~~~~i~~~i~~~l~  222 (667)
                      ...++|++..++.+..++..              ||||+|+.+++..... .+. ..+.+..+....... .++.+....
T Consensus        24 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~~~-~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  101 (327)
T 1iqp_A           24 LDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGE-NWRHNFLELNASDERGINV-IREKVKEFA  101 (327)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGG-GHHHHEEEEETTCHHHHHT-THHHHHHHH
T ss_pred             HHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCC-cccCceEEeeccccCchHH-HHHHHHHHH
Confidence            44578999999888877632              4699999999874311 111 123333332111111 111111100


Q ss_pred             CCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCChhhh-hhccCCcceEecCC
Q 038110          223 LTFHEESESGRASLCNQLKKNKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSEDTL-SRKMDSKQNFSVGI  299 (667)
Q Consensus       223 ~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~~va-~~~~~~~~~~~l~~  299 (667)
                      ...             .+..+++.+||+||++..  ..++.+...+.....+.++|+||....-. .........+.+.+
T Consensus       102 ~~~-------------~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~~~~~  168 (327)
T 1iqp_A          102 RTK-------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRP  168 (327)
T ss_dssp             HSC-------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCC
T ss_pred             hhC-------------CcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEEEecC
Confidence            000             011156789999999864  34444544443344567888888765321 11111234789999


Q ss_pred             CCHHHHHHHHH---------------HHHHHHhCCcchHHHHHHHHH
Q 038110          300 LKEEEAWSGEF---------------KWVAKECAGLPVSIVTVSRAL  331 (667)
Q Consensus       300 L~~~~s~~Lf~---------------~~i~~~c~GlPLai~~~g~~L  331 (667)
                      ++.++...++.               ..+++.++|.|-.+..+...+
T Consensus       169 l~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~  215 (327)
T 1iqp_A          169 LRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEGDMRRAINILQAA  215 (327)
T ss_dssp             CCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            99999988776               567788888887655444333

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=95.13  E-value=0.12  Score=51.76  Aligned_cols=135  Identities=12%  Similarity=0.087  Sum_probs=76.4

Q ss_pred             cccccchHHHHHHHHHhcCC--------------CCcHHHHHHHHHhccCCCCC-EEEEEEeCCCCC---HHHHHHHHHH
Q 038110          158 YEAFESRMSTLNDILGALKN--------------PDTTLAKEVAWKAENDKLFD-QAVFAEVSQSHD---IRKIQGEIAD  219 (667)
Q Consensus       158 ~~~~~gr~~~~~~i~~~l~~--------------~~TtLa~~vy~~~~~~~~F~-~~~wv~vs~~~~---~~~i~~~i~~  219 (667)
                      ...++|++..++.+..++..              ||||+|+.+.+...- ..+. ..+.++.+....   +.........
T Consensus        16 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (319)
T 2chq_A           16 LDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFG-ENWRDNFIEMNASDERGIDVVRHKIKEFAR   94 (319)
T ss_dssp             GGGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHHT-TCHHHHCEEEETTSTTCTTTSSHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhcC-CcccCCeEEEeCccccChHHHHHHHHHHHh
Confidence            45578999999999888754              359999999887421 1111 122233332111   1111111110


Q ss_pred             HhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCChh-hhhhccCCcceEe
Q 038110          220 KLGLTFHEESESGRASLCNQLKKNKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSED-TLSRKMDSKQNFS  296 (667)
Q Consensus       220 ~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~~-va~~~~~~~~~~~  296 (667)
                      ..                 .+..+++-+||+|++...  ...+.+...+.....+.++|+||.... +..........+.
T Consensus        95 ~~-----------------~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~i~  157 (319)
T 2chq_A           95 TA-----------------PIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFR  157 (319)
T ss_dssp             SC-----------------CSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEEEE
T ss_pred             cC-----------------CCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeEEE
Confidence            00                 011256789999999764  334555555544445677888776644 2111122334899


Q ss_pred             cCCCCHHHHHHHHH
Q 038110          297 VGILKEEEAWSGEF  310 (667)
Q Consensus       297 l~~L~~~~s~~Lf~  310 (667)
                      +.+++.++...++.
T Consensus       158 ~~~~~~~~~~~~l~  171 (319)
T 2chq_A          158 FKPVPKEAMKKRLL  171 (319)
T ss_dssp             CCCCCHHHHHHHHH
T ss_pred             ecCCCHHHHHHHHH
Confidence            99999999887765

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=94.72  E-value=0.17  Score=52.03  Aligned_cols=86  Identities=12%  Similarity=0.107  Sum_probs=55.3

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCChh-hhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSED-TLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~~-va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +++.+||+||+...  ..++.+...+.....+..+|++|.... +..........+++.+++.++...++.         
T Consensus       118 ~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~  197 (373)
T 1jr3_A          118 GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA  197 (373)
T ss_dssp             SSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC
T ss_pred             CCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCCC
Confidence            56789999999754  334444433433344566777765443 211122234689999999999888776         


Q ss_pred             ------HHHHHHhCCcchHHHHHH
Q 038110          311 ------KWVAKECAGLPVSIVTVS  328 (667)
Q Consensus       311 ------~~i~~~c~GlPLai~~~g  328 (667)
                            ..+++.++|.|..+..+.
T Consensus       198 ~~~~a~~~l~~~~~G~~r~~~~~l  221 (373)
T 1jr3_A          198 HEPRALQLLARAAEGSLRDALSLT  221 (373)
T ss_dssp             BCHHHHHHHHHHSSSCHHHHHHHH
T ss_pred             CCHHHHHHHHHHCCCCHHHHHHHH
Confidence                  567778888887665543

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=94.11  E-value=0.51  Score=47.32  Aligned_cols=157  Identities=9%  Similarity=0.052  Sum_probs=88.5

Q ss_pred             ccchHHHHHHHHHhcCC------------------CCcHHHHHHHHHhccCC---CC-C-EEEEEEeCCCCCHHHHHHHH
Q 038110          161 FESRMSTLNDILGALKN------------------PDTTLAKEVAWKAENDK---LF-D-QAVFAEVSQSHDIRKIQGEI  217 (667)
Q Consensus       161 ~~gr~~~~~~i~~~l~~------------------~~TtLa~~vy~~~~~~~---~F-~-~~~wv~vs~~~~~~~i~~~i  217 (667)
                      +.||+++.++|...|..                  |||++|+.|.+......   .. . ..+.|......+...++..|
T Consensus        22 L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I  101 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKI  101 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHH
Confidence            67999999999876632                  35999999999875321   11 1 35566666777888999999


Q ss_pred             HHHhCCCCCCCC-hhHHHH-HHHHH--hcCCeEEEEEeCCCCcccccccCCCcCC-CCCCcE--EEEecCChhhhhhcc-
Q 038110          218 ADKLGLTFHEES-ESGRAS-LCNQL--KKNKTILMILDNIWENLDLLAIGIPHGN-DHKGCK--ILLTARSEDTLSRKM-  289 (667)
Q Consensus       218 ~~~l~~~~~~~~-~~~~~~-l~~~L--~~~kr~LlVLDdvw~~~~~~~l~~~~~~-~~~gs~--iivTTr~~~va~~~~-  289 (667)
                      ++++.+...... ...... +.+.+  ..++.++++||++..-.+-+.+...+.+ ...+++  ||.++...+...... 
T Consensus       102 ~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~~~~L~  181 (318)
T 3te6_A          102 WFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHNVTIREQIN  181 (318)
T ss_dssp             HHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSSCCCHHHHH
T ss_pred             HHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCcccchhhcc
Confidence            999976432111 111122 33332  1267899999999775321111111100 012222  333343322211000 


Q ss_pred             -----CC-cceEecCCCCHHHHHHHHHHHHHHHh
Q 038110          290 -----DS-KQNFSVGILKEEEAWSGEFKWVAKEC  317 (667)
Q Consensus       290 -----~~-~~~~~l~~L~~~~s~~Lf~~~i~~~c  317 (667)
                           .. ...+.+.+++.++-.+++...+-...
T Consensus       182 ~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl~~~~  215 (318)
T 3te6_A          182 IMPSLKAHFTEIKLNKVDKNELQQMIITRLKSLL  215 (318)
T ss_dssp             TCHHHHTTEEEEECCCCCHHHHHHHHHHHHHHHC
T ss_pred             hhhhccCCceEEEeCCCCHHHHHHHHHHHHHhhh
Confidence                 11 24689999999999999885555443

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=93.94  E-value=0.076  Score=45.76  Aligned_cols=15  Identities=47%  Similarity=0.503  Sum_probs=6.4

Q ss_pred             CcEEEcCCCCCccCC
Q 038110          500 VRVLDLTDMNLLSLP  514 (667)
Q Consensus       500 Lr~L~L~~~~i~~lP  514 (667)
                      |++|+|++|.|+.||
T Consensus        33 l~~L~Ls~N~l~~l~   47 (130)
T 3rfe_A           33 TTELVLTGNNLTALP   47 (130)
T ss_dssp             CSEEECTTSCCSSCC
T ss_pred             CCEEECCCCcCCccC
Confidence            444444444444443

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=93.92  E-value=0.074  Score=45.85  Aligned_cols=55  Identities=13%  Similarity=0.045  Sum_probs=44.7

Q ss_pred             EEEEeccCcc--ccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCc
Q 038110          454 SIVILDVKTY--VLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLL  511 (667)
Q Consensus       454 ~L~l~~~~~~--~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~  511 (667)
                      .++.+++++.  .+|.. -.++|+.|+|++|.+  ..+|..+|..+++|++|+|++|.+.
T Consensus        12 ~v~Cs~~~L~~~~vP~~-lp~~l~~L~Ls~N~l--~~l~~~~f~~l~~L~~L~L~~NP~~   68 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTA-FPVDTTELVLTGNNL--TALPPGLLDALPALRTAHLGANPWR   68 (130)
T ss_dssp             EEECCSSCCCTTTSCSC-CCTTCSEEECTTSCC--SSCCTTTGGGCTTCCEEECCSSCCB
T ss_pred             EEEeCCCCCccccCCCC-CCcCCCEEECCCCcC--CccChhhhhhccccCEEEecCCCee
Confidence            5666667776  77753 235799999999988  7899999999999999999999764

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=93.74  E-value=0.095  Score=54.66  Aligned_cols=82  Identities=13%  Similarity=0.113  Sum_probs=43.0

Q ss_pred             HHHHhCCCCCcEEEcCCCCCccC-CccccCCCcccEEecCCcccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-
Q 038110          491 HNLFRSMLQVRVLDLTDMNLLSL-PSSIGLLTNLHTLCLYGGVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-  568 (667)
Q Consensus       491 ~~~~~~l~~Lr~L~L~~~~i~~l-P~si~~L~~L~~L~L~~~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-  568 (667)
                      ...|.++..|+.+.+..+. ..+ ...+.++.+|+.+.+...+..+|.      ..|.++.+|+.+++.. .++.++.. 
T Consensus       258 ~~aF~~c~~L~~i~lp~~~-~~I~~~aF~~c~~L~~i~l~~~i~~I~~------~aF~~c~~L~~i~lp~-~v~~I~~~a  329 (394)
T 4gt6_A          258 THAFDSCAYLASVKMPDSV-VSIGTGAFMNCPALQDIEFSSRITELPE------SVFAGCISLKSIDIPE-GITQILDDA  329 (394)
T ss_dssp             TTTTTTCSSCCEEECCTTC-CEECTTTTTTCTTCCEEECCTTCCEECT------TTTTTCTTCCEEECCT-TCCEECTTT
T ss_pred             cceeeecccccEEeccccc-ceecCcccccccccccccCCCcccccCc------eeecCCCCcCEEEeCC-cccEehHhH
Confidence            3345566666666655432 223 223555566666666555555553      4455666666666643 24455443 


Q ss_pred             CcCCCCCCeeEE
Q 038110          569 GLFFEKPERYKI  580 (667)
Q Consensus       569 ~~~l~~L~~l~~  580 (667)
                      +.++.+|+.+.+
T Consensus       330 F~~C~~L~~i~i  341 (394)
T 4gt6_A          330 FAGCEQLERIAI  341 (394)
T ss_dssp             TTTCTTCCEEEE
T ss_pred             hhCCCCCCEEEE
Confidence            334555555544

>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=93.37  E-value=0.17  Score=52.35  Aligned_cols=98  Identities=12%  Similarity=0.124  Sum_probs=44.0

Q ss_pred             CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCcccEEecCC-cccccCCCCccChhhhc
Q 038110          470 ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLHTLCLYG-GVGVVDGVKNASLEELK  547 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~  547 (667)
                      .+..|+.+.+..+-   ..++...|.++..|+.+.+..+ +..++. .+..+.+|+.+.+.. .+..++.      ..|.
T Consensus       238 ~~~~L~~i~lp~~v---~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~------~aF~  307 (379)
T 4h09_A          238 GMKALDEIAIPKNV---TSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSNLTKVVMDNSAIETLEP------RVFM  307 (379)
T ss_dssp             TCSSCCEEEECTTC---CEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTTCCEEEECCTTCCEECT------TTTT
T ss_pred             CCccceEEEcCCCc---cEeCccccceeehhcccccccc-ceeccccccccccccccccccccccceehh------hhhc
Confidence            34455555554321   3344444455555555555432 333433 244455555555544 3444442      3445


Q ss_pred             CCCCCCeEEeecCCCCCCCCC-CcCCCCCCee
Q 038110          548 HFPNLTSLELEVNDANTLPRG-GLFFEKPERY  578 (667)
Q Consensus       548 ~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l  578 (667)
                      ++.+|+.+.+.. .++.|+.. +.++.+|+.+
T Consensus       308 ~c~~L~~i~lp~-~l~~I~~~aF~~C~~L~~i  338 (379)
T 4h09_A          308 DCVKLSSVTLPT-ALKTIQVYAFKNCKALSTI  338 (379)
T ss_dssp             TCTTCCEEECCT-TCCEECTTTTTTCTTCCCC
T ss_pred             CCCCCCEEEcCc-cccEEHHHHhhCCCCCCEE
Confidence            555555555532 24444433 2344444444

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=93.27  E-value=0.23  Score=51.68  Aligned_cols=101  Identities=12%  Similarity=0.208  Sum_probs=76.2

Q ss_pred             CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCcccEEecCCcccccCCCCccChhhhcC
Q 038110          470 ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLHTLCLYGGVGVVDGVKNASLEELKH  548 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~~L~L~~~l~~LP~~~~~~~~~l~~  548 (667)
                      .+.+|+.+.+..+.   ..+....|.++..|+.+.+. +.++.+|. .|.++.+|+.+.|...+..++.      ..|.+
T Consensus       263 ~c~~L~~i~lp~~~---~~I~~~aF~~c~~L~~i~l~-~~i~~I~~~aF~~c~~L~~i~lp~~v~~I~~------~aF~~  332 (394)
T 4gt6_A          263 SCAYLASVKMPDSV---VSIGTGAFMNCPALQDIEFS-SRITELPESVFAGCISLKSIDIPEGITQILD------DAFAG  332 (394)
T ss_dssp             TCSSCCEEECCTTC---CEECTTTTTTCTTCCEEECC-TTCCEECTTTTTTCTTCCEEECCTTCCEECT------TTTTT
T ss_pred             ecccccEEeccccc---ceecCcccccccccccccCC-CcccccCceeecCCCCcCEEEeCCcccEehH------hHhhC
Confidence            67788888886543   45667778889999999886 45777765 4778889999999877777764      56888


Q ss_pred             CCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEE
Q 038110          549 FPNLTSLELEVNDANTLPRG-GLFFEKPERYKIL  581 (667)
Q Consensus       549 L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~  581 (667)
                      +.+|+.+.+.. .++.++.. +.++.+|+.+.+.
T Consensus       333 C~~L~~i~ip~-sv~~I~~~aF~~C~~L~~i~~~  365 (394)
T 4gt6_A          333 CEQLERIAIPS-SVTKIPESAFSNCTALNNIEYS  365 (394)
T ss_dssp             CTTCCEEEECT-TCCBCCGGGGTTCTTCCEEEES
T ss_pred             CCCCCEEEECc-ccCEEhHhHhhCCCCCCEEEEC
Confidence            89999999864 47777765 5577888888664

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=92.78  E-value=0.37  Score=50.05  Aligned_cols=85  Identities=11%  Similarity=0.101  Sum_probs=49.7

Q ss_pred             ccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCcccEEecCCcccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCC
Q 038110          489 IPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLHTLCLYGGVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPR  567 (667)
Q Consensus       489 lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~~L~L~~~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~  567 (667)
                      ++...|..+..|+.+.+..+ ++.+++ .+.++.+|+.++|...+..++.      ..|.++++|+.+.+..+ +..++.
T Consensus       288 i~~~~F~~~~~L~~i~l~~~-i~~I~~~aF~~c~~L~~i~lp~~v~~I~~------~aF~~c~~L~~i~lp~~-l~~I~~  359 (394)
T 4fs7_A          288 VPEKTFYGCSSLTEVKLLDS-VKFIGEEAFESCTSLVSIDLPYLVEEIGK------RSFRGCTSLSNINFPLS-LRKIGA  359 (394)
T ss_dssp             ECTTTTTTCTTCCEEEECTT-CCEECTTTTTTCTTCCEECCCTTCCEECT------TTTTTCTTCCEECCCTT-CCEECT
T ss_pred             eccccccccccccccccccc-cceechhhhcCCCCCCEEEeCCcccEEhH------HhccCCCCCCEEEECcc-ccEehH
Confidence            44444566666666666543 555533 3556666777766655555543      45666667777766544 555655


Q ss_pred             C-CcCCCCCCeeEEE
Q 038110          568 G-GLFFEKPERYKIL  581 (667)
Q Consensus       568 ~-~~~l~~L~~l~~~  581 (667)
                      . +.++.+|+.+.+.
T Consensus       360 ~aF~~C~~L~~i~lp  374 (394)
T 4fs7_A          360 NAFQGCINLKKVELP  374 (394)
T ss_dssp             TTBTTCTTCCEEEEE
T ss_pred             HHhhCCCCCCEEEEC
Confidence            4 3456666666553

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=92.49  E-value=0.47  Score=46.42  Aligned_cols=107  Identities=16%  Similarity=0.171  Sum_probs=56.7

Q ss_pred             CCeEEEEEeCCCCc------------ccccccCCCcC---CCCCCcEEEEecCChhhhhh--ccCC-cceEecCCCCH-H
Q 038110          243 NKTILMILDNIWEN------------LDLLAIGIPHG---NDHKGCKILLTARSEDTLSR--KMDS-KQNFSVGILKE-E  303 (667)
Q Consensus       243 ~kr~LlVLDdvw~~------------~~~~~l~~~~~---~~~~gs~iivTTr~~~va~~--~~~~-~~~~~l~~L~~-~  303 (667)
                      .+..+|+|||+...            ...+.+...+.   .......||.||........  ..+. ...+.+++++. +
T Consensus       123 ~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~  202 (272)
T 1d2n_A          123 SQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGE  202 (272)
T ss_dssp             SSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSEEEECCCEEEHH
T ss_pred             cCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChhhcchhhhhcccceEEcCCCccHHH
Confidence            56899999998542            11122211121   12233456777877644321  1111 35788999988 6


Q ss_pred             HHHHHHH----------HHHHHHhCCc------chHHHHHHHHHccCChHHHHHHHHHhcCC
Q 038110          304 EAWSGEF----------KWVAKECAGL------PVSIVTVSRALRNKSLFEWKDALQQLRRP  349 (667)
Q Consensus       304 ~s~~Lf~----------~~i~~~c~Gl------PLai~~~g~~L~~k~~~~W~~~l~~l~~~  349 (667)
                      +...++.          ..+++.+.|.      +-++..+-.+-.......|..++..+...
T Consensus       203 ~i~~i~~~~~~~~~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a~~~~~~~~~~~~~~~l~~~  264 (272)
T 1d2n_A          203 QLLEALELLGNFKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYRVRKFLALLREE  264 (272)
T ss_dssp             HHHHHHHHHTCSCHHHHHHHHHHHTTSEEEECHHHHHHHHHHHTTSCGGGHHHHHHHHHHHT
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHhcCCCccccHHHHHHHHHHHhhhchHHHHHHHHHHHHHc
Confidence            6666655          6677777773      33333332222222556666666665433

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=92.03  E-value=1  Score=44.19  Aligned_cols=134  Identities=16%  Similarity=0.116  Sum_probs=71.9

Q ss_pred             CcccccchHHHHHHHHHhcC---------------------------CCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCC
Q 038110          157 DYEAFESRMSTLNDILGALK---------------------------NPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHD  209 (667)
Q Consensus       157 ~~~~~~gr~~~~~~i~~~l~---------------------------~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~  209 (667)
                      .+..++|.+..++.+...+.                           .|||+||+.+.+....  .   .+.+..+.-  
T Consensus        15 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~--~---~~~v~~~~~--   87 (285)
T 3h4m_A           15 RYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNA--T---FIRVVGSEL--   87 (285)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTC--E---EEEEEGGGG--
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCC--C---EEEEehHHH--
Confidence            35567899988888876651                           2469999999987542  1   222322111  


Q ss_pred             HHHHHHHHHHHhCCCCCCCChhHHHH-HHHHHhcCCeEEEEEeCCCCc----------------ccccccCCCcC--CCC
Q 038110          210 IRKIQGEIADKLGLTFHEESESGRAS-LCNQLKKNKTILMILDNIWEN----------------LDLLAIGIPHG--NDH  270 (667)
Q Consensus       210 ~~~i~~~i~~~l~~~~~~~~~~~~~~-l~~~L~~~kr~LlVLDdvw~~----------------~~~~~l~~~~~--~~~  270 (667)
                                  .....+. ...... +.......+..+|+|||+...                ..+..+...+.  ...
T Consensus        88 ------------~~~~~~~-~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~  154 (285)
T 3h4m_A           88 ------------VKKFIGE-GASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDAR  154 (285)
T ss_dssp             ------------CCCSTTH-HHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSS
T ss_pred             ------------HHhccch-HHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCC
Confidence                        1111000 011111 333333356689999999653                01111111111  122


Q ss_pred             CCcEEEEecCChhhhhh-cc---CCcceEecCCCCHHHHHHHHH
Q 038110          271 KGCKILLTARSEDTLSR-KM---DSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       271 ~gs~iivTTr~~~va~~-~~---~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      .+..||.||........ ..   .....+.+...+.++-.+++.
T Consensus       155 ~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~  198 (285)
T 3h4m_A          155 GDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILK  198 (285)
T ss_dssp             SSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHH
T ss_pred             CCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHH
Confidence            35677778876533210 11   223478999999999988876

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=91.75  E-value=0.29  Score=50.51  Aligned_cols=102  Identities=19%  Similarity=0.125  Sum_probs=77.4

Q ss_pred             CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCcccEEecCCcccccCCCCccChhhhcC
Q 038110          470 ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLHTLCLYGGVGVVDGVKNASLEELKH  548 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~~L~L~~~l~~LP~~~~~~~~~l~~  548 (667)
                      .+.+|..+.+..+-   ..++...|.++..|+.+.+..+ ++.++. .+.++.+|+.+.+...+..++.      ..|.+
T Consensus       215 ~~~~l~~i~~~~~~---~~i~~~~f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~~i~~i~~------~aF~~  284 (379)
T 4h09_A          215 YGKNLKKITITSGV---TTLGDGAFYGMKALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYAKVKTVPY------LLCSG  284 (379)
T ss_dssp             TCSSCSEEECCTTC---CEECTTTTTTCSSCCEEEECTT-CCEECTTTTTTCTTCCEEEECCCCSEECT------TTTTT
T ss_pred             cccccceeeeccce---eEEccccccCCccceEEEcCCC-ccEeCccccceeehhccccccccceeccc------ccccc
Confidence            56677777775442   4566666788999999998765 666644 5677888999998877777774      56788


Q ss_pred             CCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEE
Q 038110          549 FPNLTSLELEVNDANTLPRG-GLFFEKPERYKIL  581 (667)
Q Consensus       549 L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~  581 (667)
                      +++|+.+.+..+.++.++.. +.++.+|+.+.+.
T Consensus       285 c~~L~~i~l~~~~i~~I~~~aF~~c~~L~~i~lp  318 (379)
T 4h09_A          285 CSNLTKVVMDNSAIETLEPRVFMDCVKLSSVTLP  318 (379)
T ss_dssp             CTTCCEEEECCTTCCEECTTTTTTCTTCCEEECC
T ss_pred             ccccccccccccccceehhhhhcCCCCCCEEEcC
Confidence            99999999988888888876 4577888888653

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=91.46  E-value=2.8  Score=41.98  Aligned_cols=136  Identities=15%  Similarity=0.073  Sum_probs=68.1

Q ss_pred             CcccccchHHHHHHHHHhc--------------------------CCCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCH
Q 038110          157 DYEAFESRMSTLNDILGAL--------------------------KNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDI  210 (667)
Q Consensus       157 ~~~~~~gr~~~~~~i~~~l--------------------------~~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~  210 (667)
                      ....++|.+..++.+.+.+                          +.|||+||+.+.+...- .   ..+.+..+.-.  
T Consensus        10 ~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~-~---~~~~i~~~~l~--   83 (322)
T 1xwi_A           10 KWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN-S---TFFSISSSDLV--   83 (322)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTS-C---EEEEEECCSSC--
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCC-C---cEEEEEhHHHH--
Confidence            3456778777777776543                          12469999999987621 1   12233333211  


Q ss_pred             HHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCccc-------------ccccCCCcC---CCCCCcE
Q 038110          211 RKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWENLD-------------LLAIGIPHG---NDHKGCK  274 (667)
Q Consensus       211 ~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~~~-------------~~~l~~~~~---~~~~gs~  274 (667)
                                  ....+........+.+.....+..+|+||++.....             ...+...+.   ....+-.
T Consensus        84 ------------~~~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~  151 (322)
T 1xwi_A           84 ------------SKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGIL  151 (322)
T ss_dssp             ------------CSSCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTEE
T ss_pred             ------------hhhhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCEE
Confidence                        111111221111244444336678999999975410             011111111   1123445


Q ss_pred             EEEecCChhhhhh--ccCCcceEecCCCCHHHHHHHHH
Q 038110          275 ILLTARSEDTLSR--KMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       275 iivTTr~~~va~~--~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      ||.||........  .......+.+...+.++-.+++.
T Consensus       152 vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~  189 (322)
T 1xwi_A          152 VLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFK  189 (322)
T ss_dssp             EEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHH
T ss_pred             EEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHH
Confidence            5556655432210  11233577888888887777764

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=91.09  E-value=0.38  Score=43.70  Aligned_cols=34  Identities=12%  Similarity=0.183  Sum_probs=27.3

Q ss_pred             cccccchHHHHHHHHHhcCC--------------CCcHHHHHHHHHhc
Q 038110          158 YEAFESRMSTLNDILGALKN--------------PDTTLAKEVAWKAE  191 (667)
Q Consensus       158 ~~~~~gr~~~~~~i~~~l~~--------------~~TtLa~~vy~~~~  191 (667)
                      ...++||+++++.+.+++..              ||||+|+.+.+...
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~   68 (195)
T 1jbk_A           21 LDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRII   68 (195)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             ccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHH
Confidence            44578999999999988743              46999999998753

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=90.61  E-value=0.25  Score=51.43  Aligned_cols=97  Identities=15%  Similarity=0.097  Sum_probs=73.2

Q ss_pred             CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCC-ccccCCCcccEEecCCcccccCCCCccChhhhcC
Q 038110          470 ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLP-SSIGLLTNLHTLCLYGGVGVVDGVKNASLEELKH  548 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP-~si~~L~~L~~L~L~~~l~~LP~~~~~~~~~l~~  548 (667)
                      .+.+|..+.+..+   +..+++..|.++.+|+.++|..+ ++.++ .+|.++.+|+.+.+...+..++.      ..|.+
T Consensus       295 ~~~~L~~i~l~~~---i~~I~~~aF~~c~~L~~i~lp~~-v~~I~~~aF~~c~~L~~i~lp~~l~~I~~------~aF~~  364 (394)
T 4fs7_A          295 GCSSLTEVKLLDS---VKFIGEEAFESCTSLVSIDLPYL-VEEIGKRSFRGCTSLSNINFPLSLRKIGA------NAFQG  364 (394)
T ss_dssp             TCTTCCEEEECTT---CCEECTTTTTTCTTCCEECCCTT-CCEECTTTTTTCTTCCEECCCTTCCEECT------TTBTT
T ss_pred             ccccccccccccc---cceechhhhcCCCCCCEEEeCCc-ccEEhHHhccCCCCCCEEEECccccEehH------HHhhC
Confidence            6788888888654   26788888899999999999754 77785 46889999999999877777764      67899


Q ss_pred             CCCCCeEEeecCCCCCCCCCCcCCCCCCe
Q 038110          549 FPNLTSLELEVNDANTLPRGGLFFEKPER  577 (667)
Q Consensus       549 L~~L~~L~l~~~~l~~lP~~~~~l~~L~~  577 (667)
                      +++|+.+++..+ ++.+...+.+..+|+.
T Consensus       365 C~~L~~i~lp~~-~~~~~~~F~~c~~L~~  392 (394)
T 4fs7_A          365 CINLKKVELPKR-LEQYRYDFEDTTKFKW  392 (394)
T ss_dssp             CTTCCEEEEEGG-GGGGGGGBCTTCEEEE
T ss_pred             CCCCCEEEECCC-CEEhhheecCCCCCcE
Confidence            999999999754 3334333444444443

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=90.31  E-value=3  Score=42.46  Aligned_cols=134  Identities=7%  Similarity=0.008  Sum_probs=68.4

Q ss_pred             CcccccchHHHHHHHHHhcC--------------------------CCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCH
Q 038110          157 DYEAFESRMSTLNDILGALK--------------------------NPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDI  210 (667)
Q Consensus       157 ~~~~~~gr~~~~~~i~~~l~--------------------------~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~  210 (667)
                      ....++|.+..++.+.+++.                          .|||+||+.+.+....     ..+.++.+.-+. 
T Consensus        82 ~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~-----~~~~i~~~~l~~-  155 (357)
T 3d8b_A           82 NWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGA-----TFFSISASSLTS-  155 (357)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTTC-----EEEEEEGGGGCC-
T ss_pred             CHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcCC-----eEEEEehHHhhc-
Confidence            34567899988888877652                          2569999999986541     133444332111 


Q ss_pred             HHHHHHHHHHhCCCCCCCChhHHHH-HHHHHhcCCeEEEEEeCCCCc-------------ccccccCCCcC----CCCCC
Q 038110          211 RKIQGEIADKLGLTFHEESESGRAS-LCNQLKKNKTILMILDNIWEN-------------LDLLAIGIPHG----NDHKG  272 (667)
Q Consensus       211 ~~i~~~i~~~l~~~~~~~~~~~~~~-l~~~L~~~kr~LlVLDdvw~~-------------~~~~~l~~~~~----~~~~g  272 (667)
                                   ...+. ...... +.......+..+|+||++...             .....+...+.    ....+
T Consensus       156 -------------~~~g~-~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~  221 (357)
T 3d8b_A          156 -------------KWVGE-GEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDR  221 (357)
T ss_dssp             -------------SSTTH-HHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCCC
T ss_pred             -------------cccch-HHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCCC
Confidence                         00000 011111 333333356789999999432             01112211111    11233


Q ss_pred             cEEEEecCChhhhh-h-ccCCcceEecCCCCHHHHHHHHH
Q 038110          273 CKILLTARSEDTLS-R-KMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       273 s~iivTTr~~~va~-~-~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      ..||.||....... . .......+.+...+.++-.+++.
T Consensus       222 v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~  261 (357)
T 3d8b_A          222 ILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVI  261 (357)
T ss_dssp             EEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHH
T ss_pred             EEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHH
Confidence            45565665533211 0 11223467888888888777764

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=89.85  E-value=5.8  Score=41.75  Aligned_cols=137  Identities=17%  Similarity=0.103  Sum_probs=69.5

Q ss_pred             CCcccccchHHHHHHHHHhc--------------------------CCCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCC
Q 038110          156 KDYEAFESRMSTLNDILGAL--------------------------KNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHD  209 (667)
Q Consensus       156 ~~~~~~~gr~~~~~~i~~~l--------------------------~~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~  209 (667)
                      ..+..++|.+..++.+.+++                          +.|||+||+.+.+...      ..-++.++-.  
T Consensus       131 ~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~------~~~~~~v~~~--  202 (444)
T 2zan_A          131 VKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN------NSTFFSISSS--  202 (444)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCC------SSEEEEECCC--
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcC------CCCEEEEeHH--
Confidence            34566788888888877654                          1245999999998762      1123334332  


Q ss_pred             HHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCcc-------------cccccCCCcCC---CCCCc
Q 038110          210 IRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWENL-------------DLLAIGIPHGN---DHKGC  273 (667)
Q Consensus       210 ~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~~-------------~~~~l~~~~~~---~~~gs  273 (667)
                        .+.    ....+    ........+.+.....+..+|+||++....             ....+...+..   ...+.
T Consensus       203 --~l~----~~~~g----~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~v  272 (444)
T 2zan_A          203 --DLV----SKWLG----ESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGI  272 (444)
T ss_dssp             -------------------CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSSC
T ss_pred             --HHH----hhhcc----hHHHHHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCCE
Confidence              111    11001    011111113333333567899999997540             01112222211   23455


Q ss_pred             EEEEecCChhhhhh--ccCCcceEecCCCCHHHHHHHHH
Q 038110          274 KILLTARSEDTLSR--KMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       274 ~iivTTr~~~va~~--~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      .||.||........  .......+.+...+.++-..+|.
T Consensus       273 ~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~  311 (444)
T 2zan_A          273 LVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFR  311 (444)
T ss_dssp             EEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHH
T ss_pred             EEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHH
Confidence            67767765433210  11233467788888877777664

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=89.40  E-value=3  Score=41.71  Aligned_cols=135  Identities=15%  Similarity=0.117  Sum_probs=71.5

Q ss_pred             CCcccccchHHHHHHHHHhc--------------------------CCCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCC
Q 038110          156 KDYEAFESRMSTLNDILGAL--------------------------KNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHD  209 (667)
Q Consensus       156 ~~~~~~~gr~~~~~~i~~~l--------------------------~~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~  209 (667)
                      ..+..++|.+..++.+..++                          +.|||+||+.+.+...  ..|   +.|+.     
T Consensus        15 ~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~--~~~---~~v~~-----   84 (322)
T 3eie_A           15 VKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEAN--STF---FSVSS-----   84 (322)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHT--CEE---EEEEH-----
T ss_pred             CCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHC--CCE---EEEch-----
Confidence            44567889999888888766                          1256999999998764  222   22221     


Q ss_pred             HHHHHHHHHHHhCCCCCCCChhHHHH-HHHHHhcCCeEEEEEeCCCCccc-------------ccccCCC---cCCCCCC
Q 038110          210 IRKIQGEIADKLGLTFHEESESGRAS-LCNQLKKNKTILMILDNIWENLD-------------LLAIGIP---HGNDHKG  272 (667)
Q Consensus       210 ~~~i~~~i~~~l~~~~~~~~~~~~~~-l~~~L~~~kr~LlVLDdvw~~~~-------------~~~l~~~---~~~~~~g  272 (667)
                       ..+.        ....+. ...... +.+.....+..+|+||++.....             ...+...   +.....+
T Consensus        85 -~~l~--------~~~~g~-~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  154 (322)
T 3eie_A           85 -SDLV--------SKWMGE-SEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQG  154 (322)
T ss_dssp             -HHHH--------TTTGGG-HHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCC
T ss_pred             -HHHh--------hcccch-HHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCc
Confidence             1111        111111 111111 33333335668999999974311             1111111   1122345


Q ss_pred             cEEEEecCChhhhhh--ccCCcceEecCCCCHHHHHHHHH
Q 038110          273 CKILLTARSEDTLSR--KMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       273 s~iivTTr~~~va~~--~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      ..||.||........  .......+.+...+.++-.+++.
T Consensus       155 v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~  194 (322)
T 3eie_A          155 VLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFE  194 (322)
T ss_dssp             EEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHH
T ss_pred             eEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHH
Confidence            566667766433210  01223467888888888877765

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=89.10  E-value=2.3  Score=42.95  Aligned_cols=84  Identities=11%  Similarity=-0.058  Sum_probs=54.1

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCChh-hhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSED-TLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~~-va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +++-++|+|++...  ...+.+...+.....+..+|++|.+.+ +..........+++.+++.++..+.+.         
T Consensus       107 ~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~~~~~~~  186 (334)
T 1a5t_A          107 GGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWLSREVTMSQDA  186 (334)
T ss_dssp             SSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHCCCCHHH
T ss_pred             CCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhhcceeeeCCCCCHHHHHHHHHHhcCCCHHH
Confidence            56788999999764  233444333433344667776666543 332223344689999999999888776         


Q ss_pred             -HHHHHHhCCcchHHHH
Q 038110          311 -KWVAKECAGLPVSIVT  326 (667)
Q Consensus       311 -~~i~~~c~GlPLai~~  326 (667)
                       ..++..++|.|..+..
T Consensus       187 ~~~l~~~s~G~~r~a~~  203 (334)
T 1a5t_A          187 LLAALRLSAGSPGAALA  203 (334)
T ss_dssp             HHHHHHHTTTCHHHHHH
T ss_pred             HHHHHHHcCCCHHHHHH
Confidence             5677788888865533

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=88.85  E-value=4.9  Score=38.49  Aligned_cols=68  Identities=12%  Similarity=0.059  Sum_probs=36.3

Q ss_pred             CCeEEEEEeCCCCcc-------------c----ccccCCCcCC--CCCCcEEEEecCChhhhhh-cc---CCcceEecCC
Q 038110          243 NKTILMILDNIWENL-------------D----LLAIGIPHGN--DHKGCKILLTARSEDTLSR-KM---DSKQNFSVGI  299 (667)
Q Consensus       243 ~kr~LlVLDdvw~~~-------------~----~~~l~~~~~~--~~~gs~iivTTr~~~va~~-~~---~~~~~~~l~~  299 (667)
                      ....+|+|||+....             .    ...+...+..  ...+..||.||........ ..   .....+.+..
T Consensus        97 ~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~  176 (262)
T 2qz4_A           97 RAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDL  176 (262)
T ss_dssp             TCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEEEEEEESCGGGGGSGGGSTTSCCEEEECCS
T ss_pred             cCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEEEEecCCChhhcCHHHhcCCcCCeEEEeCC
Confidence            557999999997530             0    1112111111  1234566667765442211 11   2235788999


Q ss_pred             CCHHHHHHHHH
Q 038110          300 LKEEEAWSGEF  310 (667)
Q Consensus       300 L~~~~s~~Lf~  310 (667)
                      .+.++-.+++.
T Consensus       177 p~~~~r~~il~  187 (262)
T 2qz4_A          177 PTLQERREIFE  187 (262)
T ss_dssp             CCHHHHHHHHH
T ss_pred             cCHHHHHHHHH
Confidence            99998888876

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=88.76  E-value=3.3  Score=42.12  Aligned_cols=134  Identities=16%  Similarity=0.129  Sum_probs=67.7

Q ss_pred             cccccchHHHHHHHHHhc--------------------------CCCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHH
Q 038110          158 YEAFESRMSTLNDILGAL--------------------------KNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIR  211 (667)
Q Consensus       158 ~~~~~gr~~~~~~i~~~l--------------------------~~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~  211 (667)
                      +..++|.+..++.|...+                          +.|||+||+.+.+...  ..|   +.|..      .
T Consensus        50 ~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~--~~~---~~v~~------~  118 (355)
T 2qp9_X           50 WEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEAN--STF---FSVSS------S  118 (355)
T ss_dssp             GGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHT--CEE---EEEEH------H
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhC--CCE---EEeeH------H
Confidence            455778777777777654                          1256999999999764  112   22221      1


Q ss_pred             HHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCccc-------------ccccCCCc---CCCCCCcEE
Q 038110          212 KIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWENLD-------------LLAIGIPH---GNDHKGCKI  275 (667)
Q Consensus       212 ~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~~~-------------~~~l~~~~---~~~~~gs~i  275 (667)
                      ++.    .    ...+........+.......+..+|+||++.....             ...+...+   .....+..|
T Consensus       119 ~l~----~----~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~v  190 (355)
T 2qp9_X          119 DLV----S----KWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLV  190 (355)
T ss_dssp             HHH----S----CC---CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---CCEEE
T ss_pred             HHh----h----hhcchHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCCCeEE
Confidence            221    1    11111111111233333335779999999975310             11111111   111234556


Q ss_pred             EEecCChhhhh--hccCCcceEecCCCCHHHHHHHHH
Q 038110          276 LLTARSEDTLS--RKMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       276 ivTTr~~~va~--~~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      |.||.......  ........+.+...+.++-.+++.
T Consensus       191 I~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~  227 (355)
T 2qp9_X          191 LGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFE  227 (355)
T ss_dssp             EEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHH
T ss_pred             EeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHH
Confidence            66776543211  011334577888888888777764

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=88.32  E-value=2.3  Score=42.59  Aligned_cols=134  Identities=11%  Similarity=0.090  Sum_probs=73.7

Q ss_pred             CCcccccchHHHHHHHHHhcCC---------------CCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 038110          156 KDYEAFESRMSTLNDILGALKN---------------PDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADK  220 (667)
Q Consensus       156 ~~~~~~~gr~~~~~~i~~~l~~---------------~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~  220 (667)
                      .....++|.+..++.+..++..               ||||+|+.+.+....     ..+.++.+. .... ..++++..
T Consensus        23 ~~~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l~~-----~~~~i~~~~-~~~~-~i~~~~~~   95 (324)
T 3u61_B           23 STIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVNA-----DMMFVNGSD-CKID-FVRGPLTN   95 (324)
T ss_dssp             CSTTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHTTE-----EEEEEETTT-CCHH-HHHTHHHH
T ss_pred             CCHHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCC-----CEEEEcccc-cCHH-HHHHHHHH
Confidence            3455678999888888887643               359999999886631     234444333 2222 22222221


Q ss_pred             hCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCcc---cccccCCCcCCCCCCcEEEEecCChhhh-hhccCCcceEe
Q 038110          221 LGLTFHEESESGRASLCNQLKKNKTILMILDNIWENL---DLLAIGIPHGNDHKGCKILLTARSEDTL-SRKMDSKQNFS  296 (667)
Q Consensus       221 l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~~---~~~~l~~~~~~~~~gs~iivTTr~~~va-~~~~~~~~~~~  296 (667)
                      ......             . .+++-+|++||+....   ..+.+...+.....+.++|+||....-. .........+.
T Consensus        96 ~~~~~~-------------~-~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~~i~  161 (324)
T 3u61_B           96 FASAAS-------------F-DGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRVIT  161 (324)
T ss_dssp             HHHBCC-------------C-SSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSEEEE
T ss_pred             HHhhcc-------------c-CCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCcEEE
Confidence            110000             0 1467899999998653   2333332222222456788887764421 10011124799


Q ss_pred             cCCCCHHHHHHHHH
Q 038110          297 VGILKEEEAWSGEF  310 (667)
Q Consensus       297 l~~L~~~~s~~Lf~  310 (667)
                      +.+++.++-.+++.
T Consensus       162 ~~~~~~~e~~~il~  175 (324)
T 3u61_B          162 FGQPTDEDKIEMMK  175 (324)
T ss_dssp             CCCCCHHHHHHHHH
T ss_pred             eCCCCHHHHHHHHH
Confidence            99999888655443

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=87.86  E-value=1  Score=48.61  Aligned_cols=164  Identities=10%  Similarity=-0.003  Sum_probs=87.4

Q ss_pred             CCcccccchHHHHHHHHHhcCC-------------------------------CCcHHHHHHHHHhccCCCCCEEEEEEe
Q 038110          156 KDYEAFESRMSTLNDILGALKN-------------------------------PDTTLAKEVAWKAENDKLFDQAVFAEV  204 (667)
Q Consensus       156 ~~~~~~~gr~~~~~~i~~~l~~-------------------------------~~TtLa~~vy~~~~~~~~F~~~~wv~v  204 (667)
                      .....++|++..++.+..|+..                               ||||+|+.+.+...    + ..+.++.
T Consensus        36 ~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~----~-~~i~in~  110 (516)
T 1sxj_A           36 TNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG----Y-DILEQNA  110 (516)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT----C-EEEEECT
T ss_pred             CCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcC----C-CEEEEeC
Confidence            4456788999999998887642                               35999999998763    2 2344444


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHH-HhcCCeEEEEEeCCCCccc-----ccccCCCcCCCCCCcEEEEe
Q 038110          205 SQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQ-LKKNKTILMILDNIWENLD-----LLAIGIPHGNDHKGCKILLT  278 (667)
Q Consensus       205 s~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~-L~~~kr~LlVLDdvw~~~~-----~~~l~~~~~~~~~gs~iivT  278 (667)
                      +...... +....+........-..-...  ..+. ...+++.+|++|++.....     +..+...+..  .+..||++
T Consensus       111 s~~~~~~-~~~~~i~~~~~~~~~~~~~~~--~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~--~~~~iIli  185 (516)
T 1sxj_A          111 SDVRSKT-LLNAGVKNALDNMSVVGYFKH--NEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TSTPLILI  185 (516)
T ss_dssp             TSCCCHH-HHHHTGGGGTTBCCSTTTTTC------CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH--CSSCEEEE
T ss_pred             CCcchHH-HHHHHHHHHhccccHHHHHhh--hhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHh--cCCCEEEE
Confidence            4433332 333332222111000000000  0000 0125679999999976421     1222221211  23345555


Q ss_pred             cCChhhh--hhccCCcceEecCCCCHHHHHHHHH---------------HHHHHHhCC-cchHHHHHHH
Q 038110          279 ARSEDTL--SRKMDSKQNFSVGILKEEEAWSGEF---------------KWVAKECAG-LPVSIVTVSR  329 (667)
Q Consensus       279 Tr~~~va--~~~~~~~~~~~l~~L~~~~s~~Lf~---------------~~i~~~c~G-lPLai~~~g~  329 (667)
                      |......  .........+.+.+++.++..+.+.               ..|++.++| ++-++..+..
T Consensus       186 ~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~~~l~~la~~s~GdiR~~i~~L~~  254 (516)
T 1sxj_A          186 CNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLLST  254 (516)
T ss_dssp             ESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHTTTCHHHHHHHHTH
T ss_pred             EcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            5443211  1122234578999999999887775               678888888 4555555443

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=86.72  E-value=0.55  Score=49.64  Aligned_cols=116  Identities=11%  Similarity=0.092  Sum_probs=64.8

Q ss_pred             CCcHHHHHHHHHhccCCCCC--EEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCC
Q 038110          178 PDTTLAKEVAWKAENDKLFD--QAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWE  255 (667)
Q Consensus       178 ~~TtLa~~vy~~~~~~~~F~--~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~  255 (667)
                      ||||||+.+++....  .|.  ..++++      ...+..++...+....       ...+.+.+. .+.-+|+|||++.
T Consensus       142 GKTtLa~aia~~l~~--~~~~~~v~~v~------~~~~~~~~~~~~~~~~-------~~~~~~~~~-~~~~vL~IDEi~~  205 (440)
T 2z4s_A          142 GKTHLLQSIGNYVVQ--NEPDLRVMYIT------SEKFLNDLVDSMKEGK-------LNEFREKYR-KKVDILLIDDVQF  205 (440)
T ss_dssp             SHHHHHHHHHHHHHH--HCCSSCEEEEE------HHHHHHHHHHHHHTTC-------HHHHHHHHT-TTCSEEEEECGGG
T ss_pred             CHHHHHHHHHHHHHH--hCCCCeEEEee------HHHHHHHHHHHHHccc-------HHHHHHHhc-CCCCEEEEeCccc
Confidence            569999999997642  221  234444      3334555555443211       111344443 2567999999975


Q ss_pred             ccc----ccccCCCcCC-CCCCcEEEEecCChh---------hhhhccCCcceEecCCCCHHHHHHHHH
Q 038110          256 NLD----LLAIGIPHGN-DHKGCKILLTARSED---------TLSRKMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       256 ~~~----~~~l~~~~~~-~~~gs~iivTTr~~~---------va~~~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      ...    -+.+...+.. ...|..||+||....         +.. .+.....+.+++++.++-..++.
T Consensus       206 l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~s-R~~~g~~i~l~~p~~e~r~~iL~  273 (440)
T 2z4s_A          206 LIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVS-RFQMGLVAKLEPPDEETRKSIAR  273 (440)
T ss_dssp             GSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHH-HHHSSBCCBCCCCCHHHHHHHHH
T ss_pred             ccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHh-hccCCeEEEeCCCCHHHHHHHHH
Confidence            421    1222222211 134678888887632         111 12223578899999999888876

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=85.91  E-value=10  Score=38.86  Aligned_cols=36  Identities=19%  Similarity=0.214  Sum_probs=27.5

Q ss_pred             CCcccccchHHHHHHHHHhc--------------------------CCCCcHHHHHHHHHhc
Q 038110          156 KDYEAFESRMSTLNDILGAL--------------------------KNPDTTLAKEVAWKAE  191 (667)
Q Consensus       156 ~~~~~~~gr~~~~~~i~~~l--------------------------~~~~TtLa~~vy~~~~  191 (667)
                      ..+..++|.+..++.+..++                          +.|||+||+.+.+...
T Consensus       112 ~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~  173 (389)
T 3vfd_A          112 VKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESN  173 (389)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTT
T ss_pred             CChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhc
Confidence            34567889999999988776                          1256999999988654

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=84.26  E-value=14  Score=38.00  Aligned_cols=138  Identities=14%  Similarity=0.121  Sum_probs=74.9

Q ss_pred             cCCCcccccchHHHHHHHHHhcC---------------------------CCCcHHHHHHHHHhccCCCCCEEEEEEeCC
Q 038110          154 SNKDYEAFESRMSTLNDILGALK---------------------------NPDTTLAKEVAWKAENDKLFDQAVFAEVSQ  206 (667)
Q Consensus       154 ~~~~~~~~~gr~~~~~~i~~~l~---------------------------~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~  206 (667)
                      |...+..+.|.++.+++|.+.+.                           .|||.||++|.+.....  |   +.|..+.
T Consensus       143 p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~--f---~~v~~s~  217 (405)
T 4b4t_J          143 PDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCK--F---IRVSGAE  217 (405)
T ss_dssp             CSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCE--E---EEEEGGG
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCC--c---eEEEhHH
Confidence            44556778888888888776541                           24699999999987632  3   3343332


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCcc----------c------ccccCCCcC--C
Q 038110          207 SHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWENL----------D------LLAIGIPHG--N  268 (667)
Q Consensus       207 ~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~~----------~------~~~l~~~~~--~  268 (667)
                      -              .....+.+......+.+.-+....+.|.+|++....          +      ...+...+.  .
T Consensus       218 l--------------~sk~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~  283 (405)
T 4b4t_J          218 L--------------VQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFE  283 (405)
T ss_dssp             G--------------SCSSTTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTT
T ss_pred             h--------------hccccchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccC
Confidence            1              111111111111113333333667999999997530          0      111111111  1


Q ss_pred             CCCCcEEEEecCChhhhhhc----cCCcceEecCCCCHHHHHHHHH
Q 038110          269 DHKGCKILLTARSEDTLSRK----MDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       269 ~~~gs~iivTTr~~~va~~~----~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      ...+-.||.||...+....+    ..-...+.++..+.++-.++|+
T Consensus       284 ~~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~  329 (405)
T 4b4t_J          284 TSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILR  329 (405)
T ss_dssp             CCCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHH
T ss_pred             CCCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHH
Confidence            22344567788766543211    1334688899888888888876

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=82.54  E-value=1.6  Score=44.15  Aligned_cols=164  Identities=12%  Similarity=0.034  Sum_probs=82.9

Q ss_pred             CcccccchHHHHHHHHHhcCC--------------CCcHHHHHHHHHhccCCCCC-EEEEEEeCCCCCHHHHHHHHHHHh
Q 038110          157 DYEAFESRMSTLNDILGALKN--------------PDTTLAKEVAWKAENDKLFD-QAVFAEVSQSHDIRKIQGEIADKL  221 (667)
Q Consensus       157 ~~~~~~gr~~~~~~i~~~l~~--------------~~TtLa~~vy~~~~~~~~F~-~~~wv~vs~~~~~~~i~~~i~~~l  221 (667)
                      ....++|+++.++.+..++..              ||||+|+.+.+.......+. ..+.+..+.......+ .+.+...
T Consensus        35 ~~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~  113 (353)
T 1sxj_D           35 NLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIV-REKVKNF  113 (353)
T ss_dssp             STTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHH-TTHHHHH
T ss_pred             CHHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHH-HHHHHHH
Confidence            345678888888888887754              35999999988743110011 1223333332222222 2222111


Q ss_pred             CC-CCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCChh-hhhhccCCcceEec
Q 038110          222 GL-TFHEESESGRASLCNQLKKNKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSED-TLSRKMDSKQNFSV  297 (667)
Q Consensus       222 ~~-~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~~-va~~~~~~~~~~~l  297 (667)
                      .. ........    .......+++-+|++|++...  ...+.+...+.......++|++|.... +..........+.+
T Consensus       114 ~~~~~~~~~~~----~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~~~i~~  189 (353)
T 1sxj_D          114 ARLTVSKPSKH----DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRF  189 (353)
T ss_dssp             HHSCCCCCCTT----HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEEC
T ss_pred             hhhcccccchh----hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccCceEEe
Confidence            10 00000000    000001134569999998654  223333333333334567777765443 21111111247889


Q ss_pred             CCCCHHHHHHHHH---------------HHHHHHhCCcchHHH
Q 038110          298 GILKEEEAWSGEF---------------KWVAKECAGLPVSIV  325 (667)
Q Consensus       298 ~~L~~~~s~~Lf~---------------~~i~~~c~GlPLai~  325 (667)
                      .+++.++....+.               ..|++.++|.|-.+.
T Consensus       190 ~~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G~~r~~~  232 (353)
T 1sxj_D          190 KALDASNAIDRLRFISEQENVKCDDGVLERILDISAGDLRRGI  232 (353)
T ss_dssp             CCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSSCHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHH
Confidence            9999998877765               556666777665443

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=82.34  E-value=8  Score=38.68  Aligned_cols=35  Identities=14%  Similarity=0.252  Sum_probs=25.9

Q ss_pred             CcccccchHHHHHHHHHhcC-------------------CCCcHHHHHHHHHhc
Q 038110          157 DYEAFESRMSTLNDILGALK-------------------NPDTTLAKEVAWKAE  191 (667)
Q Consensus       157 ~~~~~~gr~~~~~~i~~~l~-------------------~~~TtLa~~vy~~~~  191 (667)
                      ....++|++..++.+..++.                   .|||++|+.+.+...
T Consensus        27 ~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~   80 (338)
T 3pfi_A           27 NFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMS   80 (338)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhC
Confidence            35568899988887776653                   246999999987654

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=81.33  E-value=15  Score=38.61  Aligned_cols=71  Identities=10%  Similarity=-0.032  Sum_probs=39.5

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCChh--hhhhccCCcceEecCCCCHHHHHHHHHHHHH
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSED--TLSRKMDSKQNFSVGILKEEEAWSGEFKWVA  314 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~~--va~~~~~~~~~~~l~~L~~~~s~~Lf~~~i~  314 (667)
                      +++.+|+||++...  ...+.+...+.. +.-.-|..||.+..  +..........+.+.+++.++...++.+.+.
T Consensus       105 ~~~~iLfIDEI~~l~~~~q~~LL~~le~-~~v~lI~att~n~~~~l~~aL~sR~~v~~l~~l~~edi~~il~~~l~  179 (447)
T 3pvs_A          105 GRRTILFVDEVHRFNKSQQDAFLPHIED-GTITFIGATTENPSFELNSALLSRARVYLLKSLSTEDIEQVLTQAME  179 (447)
T ss_dssp             TCCEEEEEETTTCC------CCHHHHHT-TSCEEEEEESSCGGGSSCHHHHTTEEEEECCCCCHHHHHHHHHHHHH
T ss_pred             CCCcEEEEeChhhhCHHHHHHHHHHHhc-CceEEEecCCCCcccccCHHHhCceeEEeeCCcCHHHHHHHHHHHHH
Confidence            67899999999765  334444333322 11222233555543  1111223345889999999999888864333

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=80.69  E-value=0.26  Score=46.91  Aligned_cols=107  Identities=12%  Similarity=0.089  Sum_probs=56.6

Q ss_pred             CCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCcc
Q 038110          178 PDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWENL  257 (667)
Q Consensus       178 ~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~~  257 (667)
                      ||||||+.+.+.....  .....|+..+.-.+.      +.                ...+.+  .+.-+||+||++...
T Consensus        64 GKT~la~~l~~~~~~~--~~~~~~~~~~~~~~~------~~----------------~~~~~~--~~~~vliiDe~~~~~  117 (242)
T 3bos_A           64 GRTHLIHAACARANEL--ERRSFYIPLGIHASI------ST----------------ALLEGL--EQFDLICIDDVDAVA  117 (242)
T ss_dssp             SHHHHHHHHHHHHHHT--TCCEEEEEGGGGGGS------CG----------------GGGTTG--GGSSEEEEETGGGGT
T ss_pred             CHHHHHHHHHHHHHHc--CCeEEEEEHHHHHHH------HH----------------HHHHhc--cCCCEEEEecccccc
Confidence            5799999999876633  334567765432110      00                000111  235789999997642


Q ss_pred             --c--ccccCCCcCC-CCCC-cEEEEecCChhhh-----h---hccCCcceEecCCCCHHHHHHHHH
Q 038110          258 --D--LLAIGIPHGN-DHKG-CKILLTARSEDTL-----S---RKMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       258 --~--~~~l~~~~~~-~~~g-s~iivTTr~~~va-----~---~~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                        .  .+.+...+.. ...+ .++|+||+...-.     .   ........+.+.+++.++..+++.
T Consensus       118 ~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~  184 (242)
T 3bos_A          118 GHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLPDLVSRMHWGLTYQLQPMMDDEKLAALQ  184 (242)
T ss_dssp             TCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCHHHHHHHHHSEEEECCCCCGGGHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhhhhhhHhhcCceEEeCCCCHHHHHHHHH
Confidence              1  1222221110 0112 2477777643210     0   001112579999999999988876

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=80.26  E-value=1.4  Score=43.72  Aligned_cols=70  Identities=7%  Similarity=0.035  Sum_probs=41.1

Q ss_pred             eEEEEEeCCCCc-----------ccccccCCCcCCCCCCcEEEEecCChhhhh-------hccCCcceEecCCCCHHHHH
Q 038110          245 TILMILDNIWEN-----------LDLLAIGIPHGNDHKGCKILLTARSEDTLS-------RKMDSKQNFSVGILKEEEAW  306 (667)
Q Consensus       245 r~LlVLDdvw~~-----------~~~~~l~~~~~~~~~gs~iivTTr~~~va~-------~~~~~~~~~~l~~L~~~~s~  306 (667)
                      .-+|+||++...           .....+...+.....+..||.||.......       ........+.+.+++.++-.
T Consensus       131 ~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~~~~~~~~  210 (309)
T 3syl_A          131 GGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELF  210 (309)
T ss_dssp             TSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEEECHHHHHHHHHHSTTHHHHEEEEEEECCCCHHHHH
T ss_pred             CCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEeCChHHHHHHHhhCHHHHHhCCeEEEcCCcCHHHHH
Confidence            359999999732           223334333333445567888876432210       00012368999999999988


Q ss_pred             HHHHHHHH
Q 038110          307 SGEFKWVA  314 (667)
Q Consensus       307 ~Lf~~~i~  314 (667)
                      .++...+.
T Consensus       211 ~il~~~l~  218 (309)
T 3syl_A          211 EIAGHMLD  218 (309)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88864333

---

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	667
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	1e-13
d1xwdc1	242	c.10.2.7 (C:18-259) Follicle-stimulating hormone r	0.004

>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 = 69.5 bits (169), Expect = 1e-13
 Identities = 22/210 (10%), Positives = 62/210 (29%), Gaps = 37/210 (17%)

Query: 180 TTLAKEVAWKAEN--DKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESES------ 231
           + +A +   K++      +D  V+ + S +             L L   ++  +      
Sbjct: 58  SVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEH 117

Query: 232 -----GRASLCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLS 286
                 +  +CN L      L + D++ +   +              + L+T R  +  +
Sbjct: 118 VTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWA------QELRLRCLVTTRDVEISN 171

Query: 287 RKMDSKQNFSVGILKEEEAWSGEFKWVA-----------------KECAGLPVSIVTVSR 329
               + +   V  L+ +E +    +                    +  +G P +++   +
Sbjct: 172 AASQTCEFIEVTSLEIDECYD-FLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFK 230

Query: 330 ALRNKSLFEWKDALQQLRRPISTNFKDELK 359
           +   K+  +      +L        +    
Sbjct: 231 SCEPKTFEKMAQLNNKLESRGLVGVECITP 260

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]} Length = 242

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]

 Score = 37.2 bits (84), Expect = 0.004
 Identities = 19/112 (16%), Positives = 34/112 (30%), Gaps = 14/112 (12%)

Query: 441 WEWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQV 500
              S          + +       +               ++ N+   +P+++F      
Sbjct: 144 ERNSFVGLSFESVILWLNKNGIQEIHNCAFNGTQLDELNLSDNNNLEELPNDVFHGASGP 203

Query: 501 RVLDLTDMNLLSLPSSIGLLTNLHTLCLYGGVGVVDGVKNASLEELKHFPNL 552
            +LD++   + SLPS    L NL  L            +  S   LK  P L
Sbjct: 204 VILDISRTRIHSLPSYG--LENLKKL------------RARSTYNLKKLPTL 241

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	667
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.97
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.66
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.51
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.49
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.46
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.45
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.41
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.4
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.36
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.35
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.34
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.33
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.3
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.27
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.25
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.24
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.22
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.21
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.2
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.18
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.15
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.15
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.14
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.03
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.98
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.97
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.85
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	98.77
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.75
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.73
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.73
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.63
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	98.52
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	97.93
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	97.75
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	97.69
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.27
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	97.0
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	96.9
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	96.86
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	95.16
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	95.09
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	95.0
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	94.32
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	94.27
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	93.77
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	92.91
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	92.57
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	91.37
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	90.98
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	90.68
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	90.66
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	90.57
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	90.15
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	89.22
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	86.96
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	86.71
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	85.89
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	83.54
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	82.16
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	82.08

>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=99.97  E-value=9.3e-32  Score=269.29  Aligned_cols=199  Identities=10%  Similarity=0.047  Sum_probs=160.4

Q ss_pred             cccchHHHHHHHHHhcC-----------------CCCcHHHHHHHHHhc--cCCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 038110          160 AFESRMSTLNDILGALK-----------------NPDTTLAKEVAWKAE--NDKLFDQAVFAEVSQSHDIRKIQGEIADK  220 (667)
Q Consensus       160 ~~~gr~~~~~~i~~~l~-----------------~~~TtLa~~vy~~~~--~~~~F~~~~wv~vs~~~~~~~i~~~i~~~  220 (667)
                      .++||+.++++|+++|.                 .||||||++||++..  ++.+|++++||++++.++...+...+...
T Consensus        21 ~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~~~  100 (277)
T d2a5yb3          21 TCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDIL  100 (277)
T ss_dssp             CSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHH
T ss_pred             ceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHHHH
Confidence            46799999999999873                 246999999999854  66789999999999999988877666443


Q ss_pred             ---hCCCCCC-------CChhHHH-H-HHHHHhcCCeEEEEEeCCCCcccccccCCCcCCCCCCcEEEEecCChhhhhhc
Q 038110          221 ---LGLTFHE-------ESESGRA-S-LCNQLKKNKTILMILDNIWENLDLLAIGIPHGNDHKGCKILLTARSEDTLSRK  288 (667)
Q Consensus       221 ---l~~~~~~-------~~~~~~~-~-l~~~L~~~kr~LlVLDdvw~~~~~~~l~~~~~~~~~gs~iivTTr~~~va~~~  288 (667)
                         ++.....       ....... . +.+.|. +||+||||||||+..+|+.+.      ..|||||||||++.|+...
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~-~kr~LlVLDDv~~~~~~~~~~------~~~srilvTTR~~~v~~~~  173 (277)
T d2a5yb3         101 LMLKSEDDLLNFPSVEHVTSVVLKRMICNALID-RPNTLFVFDDVVQEETIRWAQ------ELRLRCLVTTRDVEISNAA  173 (277)
T ss_dssp             HHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTT-STTEEEEEEEECCHHHHHHHH------HTTCEEEEEESBGGGGGGC
T ss_pred             HHHhcchhhcCCccchhhhhHHHHHHHHHHHhc-cCCeeEecchhhHHhhhhhhc------ccCceEEEEeehHHHHHhc
Confidence               3322111       1111112 2 667777 899999999999998887652      3589999999999998543


Q ss_pred             cCCcceEecCCCCHHHHHHHHH----------------HHHHHHhCCcchHHHHHHHHHccCChHHHHHHHHHhc-----
Q 038110          289 MDSKQNFSVGILKEEEAWSGEF----------------KWVAKECAGLPVSIVTVSRALRNKSLFEWKDALQQLR-----  347 (667)
Q Consensus       289 ~~~~~~~~l~~L~~~~s~~Lf~----------------~~i~~~c~GlPLai~~~g~~L~~k~~~~W~~~l~~l~-----  347 (667)
                      ......|++++|+.+|||+||+                ++|+++|+|+|||++++|+.|+.++.++|.+..+.+.     
T Consensus       174 ~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~~~~~  253 (277)
T d2a5yb3         174 SQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLV  253 (277)
T ss_dssp             CSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHCSS
T ss_pred             CCCCceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHHHhcCcHH
Confidence            4444789999999999999998                7899999999999999999999999999999887653     


Q ss_pred             ------CCCCcCchHHHHHHHHHH
Q 038110          348 ------RPISTNFKDELKQIFLLI  365 (667)
Q Consensus       348 ------~~~~~~l~~~lk~cfly~  365 (667)
                            +.+|+++|+++|+||-++
T Consensus       254 ~v~~il~~sY~~L~~~lk~c~~~l  277 (277)
T d2a5yb3         254 GVECITPYSYKSLAMALQRCVEVL  277 (277)
T ss_dssp             TTCCCSSSSSSSHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhcccHHHHHHHHhC
Confidence                  457999999999999763

>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=99.66  E-value=2.6e-16  Score=155.74  Aligned_cols=193  Identities=15%  Similarity=0.143  Sum_probs=129.1

Q ss_pred             ceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC
Q 038110          451 HCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG  530 (667)
Q Consensus       451 ~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~  530 (667)
                      ....++.+++++..+|... .+++++|++++|..  ..+|...|.++++|++|+|++|.++.+|. ++.+++|++|+|++
T Consensus        11 ~~~~v~C~~~~L~~iP~~l-p~~l~~L~Ls~N~i--~~l~~~~f~~l~~L~~L~L~~N~l~~l~~-~~~l~~L~~L~Ls~   86 (266)
T d1p9ag_          11 SHLEVNCDKRNLTALPPDL-PKDTTILHLSENLL--YTFSLATLMPYTRLTQLNLDRAELTKLQV-DGTLPVLGTLDLSH   86 (266)
T ss_dssp             TCCEEECTTSCCSSCCSCC-CTTCCEEECTTSCC--SEEEGGGGTTCTTCCEEECTTSCCCEEEC-CSCCTTCCEEECCS
T ss_pred             CCeEEEccCCCCCeeCcCc-CcCCCEEECcCCcC--CCcCHHHhhcccccccccccccccccccc-cccccccccccccc
Confidence            3344555556666666543 25677777777766  56666556777777777777777777663 46677777777777


Q ss_pred             -cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCccCCCc-ccccccccceEEeecCc
Q 038110          531 -GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHRWSRGF-YRSSNKSYRSFRIDLDA  607 (667)
Q Consensus       531 -~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~~~~~~-~~~~~~~l~~l~l~~~~  607 (667)
                       .+...|       ..+.++++|+.|++++|.+..++.. +..+.++..|.+..+....++. .......++.+.++++.
T Consensus        87 N~l~~~~-------~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~  159 (266)
T d1p9ag_          87 NQLQSLP-------LLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNN  159 (266)
T ss_dssp             SCCSSCC-------CCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             ccccccc-------cccccccccccccccccccceeeccccccccccccccccccccceeccccccccccchhccccccc
Confidence             666666       6677777777777777776666654 3456667777655433222221 22233455666666655


Q ss_pred             cccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCC
Q 038110          608 NVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       608 ~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~  659 (667)
                      ....+......+++|++|+|++|   .+..+|+.+  ..+++|+.|+|+|||
T Consensus       160 l~~~~~~~~~~l~~L~~L~Ls~N---~L~~lp~~~--~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         160 LTELPAGLLNGLENLDTLLLQEN---SLYTIPKGF--FGSHLLPFAFLHGNP  206 (266)
T ss_dssp             CSCCCTTTTTTCTTCCEEECCSS---CCCCCCTTT--TTTCCCSEEECCSCC
T ss_pred             ccccCccccccccccceeecccC---CCcccChhH--CCCCCCCEEEecCCC
Confidence            55554444455689999999999   677899888  789999999999987

>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=99.51  E-value=1e-13  Score=139.57  Aligned_cols=208  Identities=10%  Similarity=0.096  Sum_probs=152.7

Q ss_pred             CcCCCccccccceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccc
Q 038110          440 GWEWSDESRVRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSI  517 (667)
Q Consensus       440 ~~~~~~~~~~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si  517 (667)
                      +.+.|. ..++++++|++++|++..+|..  ..+++|++|+++++..  ..+++..|.++++|++|++++|+++.+|..+
T Consensus        22 L~~lP~-~l~~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~--~~i~~~~f~~l~~L~~L~l~~n~l~~l~~~~   98 (305)
T d1xkua_          22 LEKVPK-DLPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKI--SKISPGAFAPLVKLERLYLSKNQLKELPEKM   98 (305)
T ss_dssp             CCSCCC-SCCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCC--CCBCTTTTTTCTTCCEEECCSSCCSBCCSSC
T ss_pred             CCccCC-CCCCCCCEEECcCCcCCCcChhHhhccccccccccccccc--cccchhhhhCCCccCEecccCCccCcCccch
Confidence            334554 3457899999999999999863  3789999999999987  5676665699999999999999999999865


Q ss_pred             cCCCcccEEecCC-cccccCC--------------------CCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCC
Q 038110          518 GLLTNLHTLCLYG-GVGVVDG--------------------VKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPE  576 (667)
Q Consensus       518 ~~L~~L~~L~L~~-~l~~LP~--------------------~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~  576 (667)
                      .  .+|+.|.+.. .+..+|.                    ........+..+++|+.+++++|.+..+|..+  +++|+
T Consensus        99 ~--~~l~~L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~l~~l~~~~--~~~L~  174 (305)
T d1xkua_          99 P--KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGL--PPSLT  174 (305)
T ss_dssp             C--TTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSC--CTTCS
T ss_pred             h--hhhhhhhccccchhhhhhhhhhccccccccccccccccccCCCccccccccccCccccccCCccccCccc--CCccC
Confidence            4  4788888776 4444441                    11122346778899999999999999998763  57888


Q ss_pred             eeEEEecCccCC-CcccccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEe
Q 038110          577 RYKILTGHRWSR-GFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQI  655 (667)
Q Consensus       577 ~l~~~~~~~~~~-~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l  655 (667)
                      .|++..+..... .........++.+.++.+......+.....+++|++|+|++|   .+..+|+++  ..+++|+.|+|
T Consensus       175 ~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~~~~~l~~L~~L~L~~N---~L~~lp~~l--~~l~~L~~L~L  249 (305)
T d1xkua_         175 ELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNN---KLVKVPGGL--ADHKYIQVVYL  249 (305)
T ss_dssp             EEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSS---CCSSCCTTT--TTCSSCCEEEC
T ss_pred             EEECCCCcCCCCChhHhhccccccccccccccccccccccccccccceeeecccc---ccccccccc--ccccCCCEEEC
Confidence            887764432221 112222344666777766555555555556689999999998   677788888  78899999999


Q ss_pred             ecCC
Q 038110          656 EGYR  659 (667)
Q Consensus       656 ~~~~  659 (667)
                      ++|.
T Consensus       250 s~N~  253 (305)
T d1xkua_         250 HNNN  253 (305)
T ss_dssp             CSSC
T ss_pred             CCCc
Confidence            9885

>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=99.49  E-value=1.4e-13  Score=137.04  Aligned_cols=206  Identities=17%  Similarity=0.151  Sum_probs=155.8

Q ss_pred             CcCCCccccccceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCC-CCCccC-Cc
Q 038110          440 GWEWSDESRVRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTD-MNLLSL-PS  515 (667)
Q Consensus       440 ~~~~~~~~~~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~-~~i~~l-P~  515 (667)
                      +.++|. ..+..++.|++++|++..+|..  ..+++|++|+++++..  ..++...+..+..++.++... +.+..+ |.
T Consensus        23 L~~iP~-~ip~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l--~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~   99 (284)
T d1ozna_          23 LQAVPV-GIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVL--ARIDAAAFTGLALLEQLDLSDNAQLRSVDPA   99 (284)
T ss_dssp             CSSCCT-TCCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCC--CEECTTTTTTCTTCCEEECCSCTTCCCCCTT
T ss_pred             CCccCC-CCCCCCCEEECcCCcCCCCCHHHhhccccccccccccccc--cccccccccccccccccccccccccccccch
Confidence            335553 3557889999999999988864  3789999999999887  567777778899999988764 467777 56


Q ss_pred             cccCCCcccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCccCCC-ccc
Q 038110          516 SIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHRWSRG-FYR  592 (667)
Q Consensus       516 si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~~~~~-~~~  592 (667)
                      +++++++|++|++++ .+..++.      ..++.+++|+.+++++|.++.+|.. +..+++|+.|.+..+.-..++ ...
T Consensus       100 ~~~~l~~L~~L~l~~n~~~~~~~------~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~~f  173 (284)
T d1ozna_         100 TFHGLGRLHTLHLDRCGLQELGP------GLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAF  173 (284)
T ss_dssp             TTTTCTTCCEEECTTSCCCCCCT------TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTT
T ss_pred             hhcccccCCEEecCCcccccccc------cccchhcccchhhhccccccccChhHhccccchhhcccccCcccccchhhh
Confidence            789999999999998 6666652      5677888999999999999999876 457888999987755433332 223


Q ss_pred             ccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccc-hhhhhccCCCccEEEeecCC
Q 038110          593 SSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFV-NELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       593 ~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~-~~l~~~~l~~L~~L~l~~~~  659 (667)
                      .....+..+.+..+......+.....+++|++|++++|   .+..++ ..+  .++++|+.|++++|+
T Consensus       174 ~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N---~i~~~~~~~~--~~~~~L~~L~l~~N~  236 (284)
T d1ozna_         174 RGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFAN---NLSALPTEAL--APLRALQYLRLNDNP  236 (284)
T ss_dssp             TTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS---CCSCCCHHHH--TTCTTCCEEECCSSC
T ss_pred             ccccccchhhhhhccccccChhHhhhhhhccccccccc---cccccccccc--ccccccCEEEecCCC
Confidence            34456777777776665555444556689999999999   444444 556  889999999999986

>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=99.46  E-value=6.7e-14  Score=141.59  Aligned_cols=196  Identities=15%  Similarity=0.166  Sum_probs=138.9

Q ss_pred             cceeEEEEeccCcc---ccCCCC-CCCCccEEEccC-CCCccccccHHHHhCCCCCcEEEcCCCCCccC-CccccCCCcc
Q 038110          450 RHCTSIVILDVKTY---VLPEVM-ECPQLKLFSMPA-EKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSIGLLTNL  523 (667)
Q Consensus       450 ~~lr~L~l~~~~~~---~l~~~~-~~~~Lr~L~l~~-~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-P~si~~L~~L  523 (667)
                      .+++.|++.++++.   .+|... .+++|++|++++ |... +.+|+.+ +++++|++|+|++|.+..+ |..+..+.+|
T Consensus        50 ~~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~-g~iP~~i-~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L  127 (313)
T d1ogqa_          50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLV-GPIPPAI-AKLTQLHYLYITHTNVSGAIPDFLSQIKTL  127 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEE-SCCCGGG-GGCTTCSEEEEEEECCEEECCGGGGGCTTC
T ss_pred             EEEEEEECCCCCCCCCCCCChHHhcCccccccccccccccc-ccccccc-ccccccchhhhccccccccccccccchhhh
Confidence            46899999998775   456554 799999999987 5554 6899987 9999999999999999865 5668899999


Q ss_pred             cEEecCC--cccccCCCCccChhhhcCCCCCCeEEeecCCCC-CCCCCCcCCCCC-CeeEEEecCcc-------------
Q 038110          524 HTLCLYG--GVGVVDGVKNASLEELKHFPNLTSLELEVNDAN-TLPRGGLFFEKP-ERYKILTGHRW-------------  586 (667)
Q Consensus       524 ~~L~L~~--~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~-~lP~~~~~l~~L-~~l~~~~~~~~-------------  586 (667)
                      ++++++.  ....+|       ..++++++|+++++++|.+. .+|..+..+..+ +.+.+..+.-.             
T Consensus       128 ~~l~l~~N~~~~~~p-------~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~~  200 (313)
T d1ogqa_         128 VTLDFSYNALSGTLP-------PSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLA  200 (313)
T ss_dssp             CEEECCSSEEESCCC-------GGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCS
T ss_pred             cccccccccccccCc-------hhhccCcccceeeccccccccccccccccccccccccccccccccccccccccccccc
Confidence            9999988  566678       88999999999999999865 677776666665 44433322100             


Q ss_pred             -----------CCCcccccccccceEEeecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEe
Q 038110          587 -----------SRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQI  655 (667)
Q Consensus       587 -----------~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l  655 (667)
                                 .++........++.+.+..+......+.+ ..+++|+.|+|++|  .-.+.+|+++  ..+++|++|+|
T Consensus       201 ~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~~-~~~~~L~~L~Ls~N--~l~g~iP~~l--~~L~~L~~L~L  275 (313)
T d1ogqa_         201 FVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKV-GLSKNLNGLDLRNN--RIYGTLPQGL--TQLKFLHSLNV  275 (313)
T ss_dssp             EEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGGC-CCCTTCCEEECCSS--CCEECCCGGG--GGCTTCCEEEC
T ss_pred             cccccccccccccccccccccccccccccccccccccccc-ccccccccccCccC--eecccCChHH--hCCCCCCEEEC
Confidence                       01111112233444444443332223222 23468999999988  4445789988  88999999999


Q ss_pred             ecCC
Q 038110          656 EGYR  659 (667)
Q Consensus       656 ~~~~  659 (667)
                      ++|.
T Consensus       276 s~N~  279 (313)
T d1ogqa_         276 SFNN  279 (313)
T ss_dssp             CSSE
T ss_pred             cCCc
Confidence            9884

>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=99.45  E-value=3.4e-13  Score=127.75  Aligned_cols=165  Identities=18%  Similarity=0.218  Sum_probs=129.4

Q ss_pred             cccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEe
Q 038110          448 RVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLC  527 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~  527 (667)
                      .+.++++|.+.+|.+..++....+++|++|++++|..  ..+++  ++++++|++|++++|+++.+| .++.+++|++|+
T Consensus        44 ~L~~L~~L~l~~~~i~~l~~l~~l~~L~~L~L~~n~i--~~l~~--~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~  118 (210)
T d1h6ta2          44 ELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKL--TDIKP--LANLKNLGWLFLDENKVKDLS-SLKDLKKLKSLS  118 (210)
T ss_dssp             HHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCC--CCCGG--GTTCTTCCEEECCSSCCCCGG-GGTTCTTCCEEE
T ss_pred             HhcCccEEECcCCCCCCchhHhhCCCCCEEeCCCccc--cCccc--cccCccccccccccccccccc-cccccccccccc
Confidence            4568899999999988887766899999999999976  56664  389999999999999999988 588999999999


Q ss_pred             cCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeecC
Q 038110          528 LYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLD  606 (667)
Q Consensus       528 L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~  606 (667)
                      +.+ .+..+|        .+..+++|+.+++++|.+..++. +..+++|+.+.+..+.   +..+..             
T Consensus       119 l~~~~~~~~~--------~l~~l~~l~~l~~~~n~l~~~~~-~~~l~~L~~l~l~~n~---l~~i~~-------------  173 (210)
T d1h6ta2         119 LEHNGISDIN--------GLVHLPQLESLYLGNNKITDITV-LSRLTKLDTLSLEDNQ---ISDIVP-------------  173 (210)
T ss_dssp             CTTSCCCCCG--------GGGGCTTCCEEECCSSCCCCCGG-GGGCTTCSEEECCSSC---CCCCGG-------------
T ss_pred             cccccccccc--------ccccccccccccccccccccccc-cccccccccccccccc---cccccc-------------
Confidence            988 555555        58889999999999998876654 4678888888665332   211111             


Q ss_pred             ccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeec
Q 038110          607 ANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEG  657 (667)
Q Consensus       607 ~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~  657 (667)
                               ...+++|+.|+|++|   .+..++ .+  ..+++|+.|+|++
T Consensus       174 ---------l~~l~~L~~L~Ls~N---~i~~l~-~l--~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         174 ---------LAGLTKLQNLYLSKN---HISDLR-AL--AGLKNLDVLELFS  209 (210)
T ss_dssp             ---------GTTCTTCCEEECCSS---CCCBCG-GG--TTCTTCSEEEEEE
T ss_pred             ---------ccCCCCCCEEECCCC---CCCCCh-hh--cCCCCCCEEEccC
Confidence                     123579999999999   566665 57  8899999999975

>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=99.41  E-value=3.3e-13  Score=132.94  Aligned_cols=171  Identities=18%  Similarity=0.151  Sum_probs=135.4

Q ss_pred             CCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCcccEEecCC-cccccCCCCccChhhhcC
Q 038110          471 CPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKH  548 (667)
Q Consensus       471 ~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~  548 (667)
                      ...+...+.+++..  ..+|+++ .  ++|++|+|++|.|+.+|. +|.++++|++|+|++ .+..+|        .++.
T Consensus         9 ~~~~~~v~C~~~~L--~~iP~~l-p--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~--------~~~~   75 (266)
T d1p9ag_           9 VASHLEVNCDKRNL--TALPPDL-P--KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQ--------VDGT   75 (266)
T ss_dssp             STTCCEEECTTSCC--SSCCSCC-C--TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEE--------CCSC
T ss_pred             cCCCeEEEccCCCC--CeeCcCc-C--cCCCEEECcCCcCCCcCHHHhhccccccccccccccccccc--------cccc
Confidence            44555667777776  6788766 2  689999999999999975 689999999999999 888888        3678


Q ss_pred             CCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCc-ccccccccceEEeecCccccchHHHHHHhhhcceeec
Q 038110          549 FPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGF-YRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSL  627 (667)
Q Consensus       549 L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~-~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L  627 (667)
                      +++|++|++++|++..+|..+..+++|+.|++..+....+.. .......+..+.+..+.....++.....+++|+.|++
T Consensus        76 l~~L~~L~Ls~N~l~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l  155 (266)
T d1p9ag_          76 LPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSL  155 (266)
T ss_dssp             CTTCCEEECCSSCCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             cccccccccccccccccccccccccccccccccccccceeeccccccccccccccccccccceeccccccccccchhccc
Confidence            999999999999999999888899999999887665444332 2334455677777776666666666566789999999


Q ss_pred             cccccccccccch-hhhhccCCCccEEEeecCC
Q 038110          628 AGLLDQDIKNFVN-ELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       628 ~~~~~~~~~~~~~-~l~~~~l~~L~~L~l~~~~  659 (667)
                      ++|   .+..++. .+  ..+++|++|+|++|.
T Consensus       156 ~~N---~l~~~~~~~~--~~l~~L~~L~Ls~N~  183 (266)
T d1p9ag_         156 ANN---NLTELPAGLL--NGLENLDTLLLQENS  183 (266)
T ss_dssp             TTS---CCSCCCTTTT--TTCTTCCEEECCSSC
T ss_pred             ccc---cccccCcccc--ccccccceeecccCC
Confidence            999   5555654 46  789999999999996

>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=99.40  E-value=1.6e-12  Score=121.91  Aligned_cols=161  Identities=16%  Similarity=0.225  Sum_probs=124.7

Q ss_pred             cccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEe
Q 038110          448 RVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLC  527 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~  527 (667)
                      .+.+++.|.+.++.+..++....+++|++|++++|..  ..+++  |+++++|++|++++|.+..+|. ++++.+|++|+
T Consensus        38 ~l~~l~~L~l~~~~i~~l~~l~~l~nL~~L~Ls~N~l--~~~~~--l~~l~~L~~L~l~~n~~~~~~~-l~~l~~L~~L~  112 (199)
T d2omxa2          38 DLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQL--TDITP--LKNLTKLVDILMNNNQIADITP-LANLTNLTGLT  112 (199)
T ss_dssp             HHTTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCC--CCCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCSEEE
T ss_pred             HhcCCCEEECCCCCCCCccccccCCCcCcCccccccc--cCccc--ccCCcccccccccccccccccc-ccccccccccc
Confidence            4568899999999998887766899999999999876  56665  4999999999999999988874 88999999999


Q ss_pred             cCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeecC
Q 038110          528 LYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLD  606 (667)
Q Consensus       528 L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~  606 (667)
                      +++ ....++        .+.++++|+.|++++|.+..+|. +..+++|+.|.+..+.   +..+.              
T Consensus       113 l~~~~~~~~~--------~~~~l~~L~~L~l~~n~l~~~~~-l~~~~~L~~L~l~~n~---l~~l~--------------  166 (199)
T d2omxa2         113 LFNNQITDID--------PLKNLTNLNRLELSSNTISDISA-LSGLTSLQQLNFSSNQ---VTDLK--------------  166 (199)
T ss_dssp             CCSSCCCCCG--------GGTTCTTCSEEECCSSCCCCCGG-GTTCTTCSEEECCSSC---CCCCG--------------
T ss_pred             cccccccccc--------ccchhhhhHHhhhhhhhhccccc-cccccccccccccccc---ccCCc--------------
Confidence            988 444443        57889999999999998887763 5678888888765332   21111              


Q ss_pred             ccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEE
Q 038110          607 ANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYL  653 (667)
Q Consensus       607 ~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L  653 (667)
                             ++ ..+++|+.|++++|   .+..++ .+  ..+++|++|
T Consensus       167 -------~l-~~l~~L~~L~ls~N---~i~~i~-~l--~~L~~L~~L  199 (199)
T d2omxa2         167 -------PL-ANLTTLERLDISSN---KVSDIS-VL--AKLTNLESL  199 (199)
T ss_dssp             -------GG-TTCTTCCEEECCSS---CCCCCG-GG--GGCTTCSEE
T ss_pred             -------cc-cCCCCCCEEECCCC---CCCCCc-cc--cCCCCCCcC
Confidence                   11 23479999999999   455554 56  788999876

>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=99.36  E-value=4.2e-12  Score=121.72  Aligned_cols=188  Identities=14%  Similarity=0.155  Sum_probs=139.3

Q ss_pred             ccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEE
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTL  526 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L  526 (667)
                      ..+.+++.|++.+|++..++....+++|+.|++++|..  ..+++  |.++++|++|++++|.++.++ .++.+++|++|
T Consensus        38 ~~l~~L~~L~l~~~~i~~l~~l~~l~~L~~L~ls~n~i--~~~~~--l~~l~~l~~l~~~~n~~~~i~-~l~~l~~L~~l  112 (227)
T d1h6ua2          38 ADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQI--TDLAP--LKNLTKITELELSGNPLKNVS-AIAGLQSIKTL  112 (227)
T ss_dssp             HHHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCC--CCCGG--GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEE
T ss_pred             HHcCCcCEEECCCCCCCcchhHhcCCCCcEeecCCcee--ecccc--ccccccccccccccccccccc-ccccccccccc
Confidence            44678999999999999887766899999999999987  45554  599999999999999998886 58899999999


Q ss_pred             ecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeec
Q 038110          527 CLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDL  605 (667)
Q Consensus       527 ~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~  605 (667)
                      +++. ....++        .+...+.+..+.++.+.+...+. +...++|+.|.+..+.......+. ....++.+.+++
T Consensus       113 ~l~~~~~~~~~--------~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~L~~L~l~~n~~~~~~~l~-~l~~L~~L~Ls~  182 (227)
T d1h6ua2         113 DLTSTQITDVT--------PLAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGNAQVSDLTPLA-NLSKLTTLKADD  182 (227)
T ss_dssp             ECTTSCCCCCG--------GGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSSCCCCCGGGT-TCTTCCEEECCS
T ss_pred             ccccccccccc--------hhccccchhhhhchhhhhchhhh-hccccccccccccccccccchhhc-ccccceecccCC
Confidence            9988 444443        46677788888888777655443 356777888876544322222222 234567777777


Q ss_pred             CccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeec
Q 038110          606 DANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEG  657 (667)
Q Consensus       606 ~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~  657 (667)
                      +...... . ...+++|++|+|++|   .+..+++ +  +.+++|+.|+|++
T Consensus       183 n~l~~l~-~-l~~l~~L~~L~Ls~N---~lt~i~~-l--~~l~~L~~L~lsn  226 (227)
T d1h6ua2         183 NKISDIS-P-LASLPNLIEVHLKNN---QISDVSP-L--ANTSNLFIVTLTN  226 (227)
T ss_dssp             SCCCCCG-G-GGGCTTCCEEECTTS---CCCBCGG-G--TTCTTCCEEEEEE
T ss_pred             CccCCCh-h-hcCCCCCCEEECcCC---cCCCCcc-c--ccCCCCCEEEeeC
Confidence            5444433 2 245689999999999   5666663 6  8899999999974

>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=99.35  E-value=5e-12  Score=131.09  Aligned_cols=76  Identities=13%  Similarity=0.187  Sum_probs=41.5

Q ss_pred             cceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecC
Q 038110          450 RHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLY  529 (667)
Q Consensus       450 ~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~  529 (667)
                      .+++.|.+.++++..+.....+++|++|++++|..  ..+|+  |+++++|++|++++|.+..+|+ ++++++|++|++.
T Consensus        44 ~~l~~L~l~~~~I~~l~gl~~L~nL~~L~Ls~N~l--~~l~~--l~~L~~L~~L~L~~n~i~~i~~-l~~l~~L~~L~~~  118 (384)
T d2omza2          44 DQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQL--TDITP--LKNLTKLVDILMNNNQIADITP-LANLTNLTGLTLF  118 (384)
T ss_dssp             TTCCEEECCSSCCCCCTTGGGCTTCCEEECCSSCC--CCCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECC
T ss_pred             CCCCEEECCCCCCCCccccccCCCCCEEeCcCCcC--CCCcc--ccCCcccccccccccccccccc-ccccccccccccc
Confidence            45555666555555554433555666666665544  34443  3556666666666665555543 5555555555554


Q ss_pred             C
Q 038110          530 G  530 (667)
Q Consensus       530 ~  530 (667)
                      +
T Consensus       119 ~  119 (384)
T d2omza2         119 N  119 (384)
T ss_dssp             S
T ss_pred             c
Confidence            3

>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=99.34  E-value=3.5e-12  Score=126.77  Aligned_cols=195  Identities=12%  Similarity=0.033  Sum_probs=150.6

Q ss_pred             EEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-cccCCCcccEEecCC--c
Q 038110          455 IVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLHTLCLYG--G  531 (667)
Q Consensus       455 L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~~L~L~~--~  531 (667)
                      +...++++..+|... .+.+++|++++|..  ..+|...|.+++.|++|++++|.+..++. .+..+..++.+....  .
T Consensus        16 v~c~~~~L~~iP~~i-p~~~~~L~Ls~N~i--~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~   92 (284)
T d1ozna_          16 TSCPQQGLQAVPVGI-PAASQRIFLHGNRI--SHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQ   92 (284)
T ss_dssp             EECCSSCCSSCCTTC-CTTCSEEECTTSCC--CEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTT
T ss_pred             EEcCCCCCCccCCCC-CCCCCEEECcCCcC--CCCCHHHhhccccccccccccccccccccccccccccccccccccccc
Confidence            445556677887644 36799999999987  78888777999999999999999997754 567788999998766  6


Q ss_pred             ccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEecCccCCCc-ccccccccceEEeecCccc
Q 038110          532 VGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILTGHRWSRGF-YRSSNKSYRSFRIDLDANV  609 (667)
Q Consensus       532 l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~~~~~~~~~-~~~~~~~l~~l~l~~~~~~  609 (667)
                      +..+|.      ..++++++|++|++++|.+..++.. +..+.+|+.+.+..+.-..++. .......++.+.+..+...
T Consensus        93 ~~~l~~------~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~  166 (284)
T d1ozna_          93 LRSVDP------ATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRIS  166 (284)
T ss_dssp             CCCCCT------TTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             cccccc------hhhcccccCCEEecCCcccccccccccchhcccchhhhccccccccChhHhccccchhhcccccCccc
Confidence            777752      6799999999999999998887765 4578889999887555444432 2333456778888887666


Q ss_pred             cchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCCCe
Q 038110          610 RLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGPQ  662 (667)
Q Consensus       610 ~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~l~  662 (667)
                      ..++.....+++|+.|.+.+|  ......|.++  ..+++|+.|++++|.-..
T Consensus       167 ~l~~~~f~~l~~L~~l~l~~N--~l~~i~~~~f--~~l~~L~~L~l~~N~i~~  215 (284)
T d1ozna_         167 SVPERAFRGLHSLDRLLLHQN--RVAHVHPHAF--RDLGRLMTLYLFANNLSA  215 (284)
T ss_dssp             EECTTTTTTCTTCCEEECCSS--CCCEECTTTT--TTCTTCCEEECCSSCCSC
T ss_pred             ccchhhhccccccchhhhhhc--cccccChhHh--hhhhhccccccccccccc
Confidence            665555566789999999999  4444457777  889999999999987543

>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=99.33  E-value=3.9e-13  Score=135.84  Aligned_cols=200  Identities=14%  Similarity=0.097  Sum_probs=142.1

Q ss_pred             ccccccceeEEEEec-cCcc-ccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCc-cCCccccCC
Q 038110          445 DESRVRHCTSIVILD-VKTY-VLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLL-SLPSSIGLL  520 (667)
Q Consensus       445 ~~~~~~~lr~L~l~~-~~~~-~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-~lP~si~~L  520 (667)
                      ....++++++|++.+ |++. .+|... .+++|++|++++|...  .++...+..+.+|+++++++|.+. .+|.+++++
T Consensus        71 ~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~--~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l  148 (313)
T d1ogqa_          71 SLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVS--GAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSL  148 (313)
T ss_dssp             GGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCE--EECCGGGGGCTTCCEEECCSSEEESCCCGGGGGC
T ss_pred             HHhcCccccccccccccccccccccccccccccchhhhcccccc--ccccccccchhhhcccccccccccccCchhhccC
Confidence            456788999999986 6664 787655 8999999999999874  444445599999999999999766 679999999


Q ss_pred             CcccEEecCC-c-ccccCCCCccChhhhcCCCCC-CeEEeecCCCC------------------------CCCCCCcCCC
Q 038110          521 TNLHTLCLYG-G-VGVVDGVKNASLEELKHFPNL-TSLELEVNDAN------------------------TLPRGGLFFE  573 (667)
Q Consensus       521 ~~L~~L~L~~-~-l~~LP~~~~~~~~~l~~L~~L-~~L~l~~~~l~------------------------~lP~~~~~l~  573 (667)
                      ++|+++++++ . ...+|       ..++.+.+| +.+++++|++.                        .+|..+..+.
T Consensus       149 ~~L~~l~l~~n~l~~~ip-------~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~~~l~l~~~~~~~~~~~~~~~~~  221 (313)
T d1ogqa_         149 PNLVGITFDGNRISGAIP-------DSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDK  221 (313)
T ss_dssp             TTCCEEECCSSCCEEECC-------GGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCSEEECCSSEEEECCGGGCCTTS
T ss_pred             cccceeeccccccccccc-------ccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            9999999998 3 34677       666666665 56666655432                        2333344666


Q ss_pred             CCCeeEEEecCccCCCcccccccccceEEeecCccc-cchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccE
Q 038110          574 KPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANV-RLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKY  652 (667)
Q Consensus       574 ~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~~-~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~  652 (667)
                      +|+.+.+..+..............++.+.++.+... ..++.+ ..+++|+.|+|++|  .-.+.+|+ +  ..+++|+.
T Consensus       222 ~l~~l~~~~~~l~~~~~~~~~~~~L~~L~Ls~N~l~g~iP~~l-~~L~~L~~L~Ls~N--~l~g~iP~-~--~~L~~L~~  295 (313)
T d1ogqa_         222 NTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGL-TQLKFLHSLNVSFN--NLCGEIPQ-G--GNLQRFDV  295 (313)
T ss_dssp             CCSEEECCSSEECCBGGGCCCCTTCCEEECCSSCCEECCCGGG-GGCTTCCEEECCSS--EEEEECCC-S--TTGGGSCG
T ss_pred             cccccccccccccccccccccccccccccCccCeecccCChHH-hCCCCCCEEECcCC--cccccCCC-c--ccCCCCCH
Confidence            777776554332211112233456778888886665 344444 45689999999999  44446774 4  67888999


Q ss_pred             EEeecCC
Q 038110          653 LQIEGYR  659 (667)
Q Consensus       653 L~l~~~~  659 (667)
                      |++++|+
T Consensus       296 l~l~~N~  302 (313)
T d1ogqa_         296 SAYANNK  302 (313)
T ss_dssp             GGTCSSS
T ss_pred             HHhCCCc
Confidence            9998886

>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=99.30  E-value=3.7e-12  Score=109.28  Aligned_cols=105  Identities=18%  Similarity=0.209  Sum_probs=69.7

Q ss_pred             eEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-c
Q 038110          453 TSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-G  531 (667)
Q Consensus       453 r~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~  531 (667)
                      |.|++++|++..++....+++|+.|++++|..  ..+|+.+ +.+++|++|++++|.++.+| .++++++|++|++++ .
T Consensus         1 R~L~Ls~n~l~~l~~l~~l~~L~~L~ls~N~l--~~lp~~~-~~l~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~l~~N~   76 (124)
T d1dcea3           1 RVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRL--RALPPAL-AALRCLEVLQASDNALENVD-GVANLPRLQELLLCNNR   76 (124)
T ss_dssp             SEEECTTSCCSSCCCGGGGTTCCEEECCSSCC--CCCCGGG-GGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSSC
T ss_pred             CEEEcCCCCCCCCcccccCCCCCEEECCCCcc--Ccchhhh-hhhhcccccccccccccccC-ccccccccCeEECCCCc
Confidence            45667777777666555667777777777765  5666654 67777777777777777765 367777777777776 5


Q ss_pred             ccccCCCCccChhhhcCCCCCCeEEeecCCCCCCC
Q 038110          532 VGVVDGVKNASLEELKHFPNLTSLELEVNDANTLP  566 (667)
Q Consensus       532 l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP  566 (667)
                      +..+|.     +..++++++|++|++++|.+..+|
T Consensus        77 i~~~~~-----~~~l~~~~~L~~L~l~~N~i~~~~  106 (124)
T d1dcea3          77 LQQSAA-----IQPLVSCPRLVLLNLQGNSLCQEE  106 (124)
T ss_dssp             CCSSST-----TGGGGGCTTCCEEECTTSGGGGSS
T ss_pred             cCCCCC-----chhhcCCCCCCEEECCCCcCCcCc
Confidence            655551     134666777777777777665544

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.27  E-value=5e-12  Score=117.73  Aligned_cols=122  Identities=12%  Similarity=0.125  Sum_probs=102.9

Q ss_pred             eEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccC-CccccCCCcccEEecCC-
Q 038110          453 TSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSIGLLTNLHTLCLYG-  530 (667)
Q Consensus       453 r~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-P~si~~L~~L~~L~L~~-  530 (667)
                      +.+..+++++..+|... .+++++|++++|... ..++...|.++++|+.|+|++|.+..+ |..+..+.+|++|+|++ 
T Consensus        11 ~~v~Cs~~~L~~iP~~l-p~~l~~L~Ls~N~i~-~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N   88 (192)
T d1w8aa_          11 TTVDCTGRGLKEIPRDI-PLHTTELLLNDNELG-RISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGEN   88 (192)
T ss_dssp             TEEECTTSCCSSCCSCC-CTTCSEEECCSCCCC-SBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSC
T ss_pred             CEEEEeCCCcCccCCCC-CCCCCEEEeCCCCCc-ccccccccCCCceEeeeeccccccccccccccccccccceeeeccc
Confidence            35677778888888754 478999999999885 456677789999999999999999876 55788899999999999 


Q ss_pred             cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCCCCCeeEEEe
Q 038110          531 GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFEKPERYKILT  582 (667)
Q Consensus       531 ~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~~L~~l~~~~  582 (667)
                      .+..+|.      ..|.+|++|++|+|++|.++.+|++ +..+++|+.+++..
T Consensus        89 ~l~~l~~------~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~  135 (192)
T d1w8aa_          89 KIKEISN------KMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLAS  135 (192)
T ss_dssp             CCCEECS------SSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTT
T ss_pred             cccccCH------HHHhCCCcccccccCCccccccCHHHhcCCcccccccccc
Confidence            8999973      5689999999999999999999887 45788898887753

>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=99.25  E-value=3.2e-11  Score=124.79  Aligned_cols=191  Identities=16%  Similarity=0.149  Sum_probs=139.7

Q ss_pred             ccccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCccc
Q 038110          445 DESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLH  524 (667)
Q Consensus       445 ~~~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~  524 (667)
                      ......++..+.+.+|.+..+++...+++|+.|.+.+|..  ..+| . +..+++|++|++++|.++.+|. ++.+++|+
T Consensus       192 ~~~~l~~~~~l~l~~n~i~~~~~~~~~~~L~~L~l~~n~l--~~~~-~-l~~l~~L~~L~l~~n~l~~~~~-~~~~~~L~  266 (384)
T d2omza2         192 VLAKLTNLESLIATNNQISDITPLGILTNLDELSLNGNQL--KDIG-T-LASLTNLTDLDLANNQISNLAP-LSGLTKLT  266 (384)
T ss_dssp             GGGGCTTCSEEECCSSCCCCCGGGGGCTTCCEEECCSSCC--CCCG-G-GGGCTTCSEEECCSSCCCCCGG-GTTCTTCS
T ss_pred             ccccccccceeeccCCccCCCCcccccCCCCEEECCCCCC--CCcc-h-hhcccccchhccccCccCCCCc-ccccccCC
Confidence            3445667888888888887776666778899999988876  4555 3 4888999999999998888764 77888999


Q ss_pred             EEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEe
Q 038110          525 TLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRI  603 (667)
Q Consensus       525 ~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l  603 (667)
                      +|++++ .+..+|        .+..++.++.++++.|.+..++. +..+++++.|+++.+....+..+ .....++.+.+
T Consensus       267 ~L~l~~~~l~~~~--------~~~~~~~l~~l~~~~n~l~~~~~-~~~~~~l~~L~ls~n~l~~l~~l-~~l~~L~~L~L  336 (384)
T d2omza2         267 ELKLGANQISNIS--------PLAGLTALTNLELNENQLEDISP-ISNLKNLTYLTLYFNNISDISPV-SSLTKLQRLFF  336 (384)
T ss_dssp             EEECCSSCCCCCG--------GGTTCTTCSEEECCSSCCSCCGG-GGGCTTCSEEECCSSCCSCCGGG-GGCTTCCEEEC
T ss_pred             EeeccCcccCCCC--------ccccccccccccccccccccccc-cchhcccCeEECCCCCCCCCccc-ccCCCCCEEEC
Confidence            999988 666665        46778888888888887776654 35677888887765543333322 33455777777


Q ss_pred             ecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecC
Q 038110          604 DLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGY  658 (667)
Q Consensus       604 ~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~  658 (667)
                      +++...... .+ ..+++|++|+|++|   .+..+++ +  ..+++|+.|+|++|
T Consensus       337 ~~n~l~~l~-~l-~~l~~L~~L~l~~N---~l~~l~~-l--~~l~~L~~L~L~~N  383 (384)
T d2omza2         337 ANNKVSDVS-SL-ANLTNINWLSAGHN---QISDLTP-L--ANLTRITQLGLNDQ  383 (384)
T ss_dssp             CSSCCCCCG-GG-GGCTTCCEEECCSS---CCCBCGG-G--TTCTTCSEEECCCE
T ss_pred             CCCCCCCCh-hH-cCCCCCCEEECCCC---cCCCChh-h--ccCCCCCEeeCCCC
Confidence            776544433 33 45689999999998   5555654 6  88999999999986

>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=99.24  E-value=1.5e-11  Score=115.14  Aligned_cols=156  Identities=13%  Similarity=0.167  Sum_probs=114.1

Q ss_pred             cCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-cccccCCC
Q 038110          460 VKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVDGV  538 (667)
Q Consensus       460 ~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP~~  538 (667)
                      +.+...+....++++++|.+.++..  ..++ ++ ..+++|++|++++|.++.+|. ++++++|++|++++ .+..+|  
T Consensus        28 ~~~~~~~~~~~l~~l~~L~l~~~~i--~~l~-~l-~~l~nL~~L~Ls~N~l~~~~~-l~~l~~L~~L~l~~n~~~~~~--  100 (199)
T d2omxa2          28 TNVTDTVSQTDLDQVTTLQADRLGI--KSID-GV-EYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIADIT--  100 (199)
T ss_dssp             SSTTSEECHHHHTTCCEEECTTSCC--CCCT-TG-GGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCG--
T ss_pred             CCCCCccCHHHhcCCCEEECCCCCC--CCcc-cc-ccCCCcCcCccccccccCccc-ccCCccccccccccccccccc--
Confidence            3443333333577899999998876  4564 34 889999999999999988875 88999999999988 666666  


Q ss_pred             CccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeecCccccchHHHHHH
Q 038110          539 KNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQ  618 (667)
Q Consensus       539 ~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~  618 (667)
                            .++++++|+.|++++|....++. +..+++|+.|.+..+.   +..++.                     + ..
T Consensus       101 ------~l~~l~~L~~L~l~~~~~~~~~~-~~~l~~L~~L~l~~n~---l~~~~~---------------------l-~~  148 (199)
T d2omxa2         101 ------PLANLTNLTGLTLFNNQITDIDP-LKNLTNLNRLELSSNT---ISDISA---------------------L-SG  148 (199)
T ss_dssp             ------GGTTCTTCSEEECCSSCCCCCGG-GTTCTTCSEEECCSSC---CCCCGG---------------------G-TT
T ss_pred             ------ccccccccccccccccccccccc-cchhhhhHHhhhhhhh---hccccc---------------------c-cc
Confidence                  48889999999999888766653 4677888888765332   211111                     1 13


Q ss_pred             hhhcceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          619 LRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       619 l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      +++|+.|++.+|   ....++ .+  .++++|+.|++++|+-
T Consensus       149 ~~~L~~L~l~~n---~l~~l~-~l--~~l~~L~~L~ls~N~i  184 (199)
T d2omxa2         149 LTSLQQLNFSSN---QVTDLK-PL--ANLTTLERLDISSNKV  184 (199)
T ss_dssp             CTTCSEEECCSS---CCCCCG-GG--TTCTTCCEEECCSSCC
T ss_pred             cccccccccccc---cccCCc-cc--cCCCCCCEEECCCCCC
Confidence            369999999998   455454 46  8899999999999963

>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=99.22  E-value=3.3e-11  Score=116.44  Aligned_cols=104  Identities=15%  Similarity=0.253  Sum_probs=49.6

Q ss_pred             EEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCcc-C-CccccCCCcccEEecCC-
Q 038110          454 SIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLS-L-PSSIGLLTNLHTLCLYG-  530 (667)
Q Consensus       454 ~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-l-P~si~~L~~L~~L~L~~-  530 (667)
                      .+...+.++..+|... .+++++|++++|..  ..+|...|.++++|++|+|++|.+.. + +..+..++++++|.+.. 
T Consensus        12 ~i~c~~~~l~~iP~~l-~~~l~~L~Ls~n~i--~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~   88 (242)
T d1xwdc1          12 VFLCQESKVTEIPSDL-PRNAIELRFVLTKL--RVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKA   88 (242)
T ss_dssp             EEEEESCSCSSCCSCS-CSCCSEEEEESCCC--CEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECC
T ss_pred             EEEEeCCCCCCcCCCC-CCCCCEEECcCCcC--CccChhHhhccchhhhhhhccccccceeecccccccccccccccccc
Confidence            3444444444444322 23455555555544  44554444555555555555555443 2 22345555555555433 


Q ss_pred             -cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCC
Q 038110          531 -GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLP  566 (667)
Q Consensus       531 -~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP  566 (667)
                       .+..+|.      ..+.++++|++|++++|.+..+|
T Consensus        89 n~l~~~~~------~~~~~l~~L~~l~l~~~~l~~~~  119 (242)
T d1xwdc1          89 NNLLYINP------EAFQNLPNLQYLLISNTGIKHLP  119 (242)
T ss_dssp             TTCCEECT------TSEECCTTCCEEEEESCCCCSCC
T ss_pred             cccccccc------ccccccccccccccchhhhcccc
Confidence             3333331      33455555555555555554444

>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=99.21  E-value=6.8e-12  Score=120.18  Aligned_cols=187  Identities=12%  Similarity=0.085  Sum_probs=134.1

Q ss_pred             ceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC
Q 038110          451 HCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG  530 (667)
Q Consensus       451 ~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~  530 (667)
                      ++..+.+..+.+........+.+|+.|.+.++..  ..++ .+ .++++|++|++++|.+..+++ +.++.+|++|++++
T Consensus        20 ~~~~~~l~~~~~~d~~~~~~l~~L~~L~l~~~~i--~~l~-~l-~~l~~L~~L~ls~n~i~~~~~-l~~l~~l~~l~~~~   94 (227)
T d1h6ua2          20 NAIKIAAGKSNVTDTVTQADLDGITTLSAFGTGV--TTIE-GV-QYLNNLIGLELKDNQITDLAP-LKNLTKITELELSG   94 (227)
T ss_dssp             HHHHHHTTCSSTTSEECHHHHHTCCEEECTTSCC--CCCT-TG-GGCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCS
T ss_pred             HHHHHHhCCCCcCCcCCHHHcCCcCEEECCCCCC--Ccch-hH-hcCCCCcEeecCCceeecccc-cccccccccccccc
Confidence            3334444444444443334678999999999987  5675 44 999999999999999998864 89999999999998


Q ss_pred             -cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeecCccc
Q 038110          531 -GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANV  609 (667)
Q Consensus       531 -~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~~  609 (667)
                       .++.++        .+.++++|++|+++++....++.. .....+..+.+..+.......+ .....++.+.+..+...
T Consensus        95 n~~~~i~--------~l~~l~~L~~l~l~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~-~~~~~L~~L~l~~n~~~  164 (227)
T d1h6ua2          95 NPLKNVS--------AIAGLQSIKTLDLTSTQITDVTPL-AGLSNLQVLYLDLNQITNISPL-AGLTNLQYLSIGNAQVS  164 (227)
T ss_dssp             CCCSCCG--------GGTTCTTCCEEECTTSCCCCCGGG-TTCTTCCEEECCSSCCCCCGGG-GGCTTCCEEECCSSCCC
T ss_pred             ccccccc--------cccccccccccccccccccccchh-ccccchhhhhchhhhhchhhhh-ccccccccccccccccc
Confidence             666765        588999999999999887666542 4566777776654333332222 23344667777665443


Q ss_pred             cchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCC
Q 038110          610 RLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       610 ~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      ... ++ ..+++|+.|+|++|   .+..++ .+  ..+++|++|+|++|+-
T Consensus       165 ~~~-~l-~~l~~L~~L~Ls~n---~l~~l~-~l--~~l~~L~~L~Ls~N~l  207 (227)
T d1h6ua2         165 DLT-PL-ANLSKLTTLKADDN---KISDIS-PL--ASLPNLIEVHLKNNQI  207 (227)
T ss_dssp             CCG-GG-TTCTTCCEEECCSS---CCCCCG-GG--GGCTTCCEEECTTSCC
T ss_pred             cch-hh-cccccceecccCCC---ccCCCh-hh--cCCCCCCEEECcCCcC
Confidence            332 22 45689999999999   555555 46  7899999999999963

>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=99.20  E-value=6.5e-11  Score=118.63  Aligned_cols=189  Identities=15%  Similarity=0.185  Sum_probs=130.4

Q ss_pred             eeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccC-CccccCCCcccEEecCC
Q 038110          452 CTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSIGLLTNLHTLCLYG  530 (667)
Q Consensus       452 lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-P~si~~L~~L~~L~L~~  530 (667)
                      .+.++-.++++..+|... .+++++|++++|..  ..+|+..|.++++|++|++++|.+..+ |..|.++++|++|++++
T Consensus        12 ~~~~~C~~~~L~~lP~~l-~~~l~~L~Ls~N~i--~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~   88 (305)
T d1xkua_          12 LRVVQCSDLGLEKVPKDL-PPDTALLDLQNNKI--TEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSK   88 (305)
T ss_dssp             TTEEECTTSCCCSCCCSC-CTTCCEEECCSSCC--CCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CCEEEecCCCCCccCCCC-CCCCCEEECcCCcC--CCcChhHhhccccccccccccccccccchhhhhCCCccCEecccC
Confidence            345555566788888754 47899999999987  789887679999999999999999987 66799999999999999


Q ss_pred             -cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCC---------------------------CCCcCCCCCCeeEEEe
Q 038110          531 -GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLP---------------------------RGGLFFEKPERYKILT  582 (667)
Q Consensus       531 -~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP---------------------------~~~~~l~~L~~l~~~~  582 (667)
                       .++.+|.       .+  ...|..|++..|.+..++                           ..+..+++|+.+.+..
T Consensus        89 n~l~~l~~-------~~--~~~l~~L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~  159 (305)
T d1xkua_          89 NQLKELPE-------KM--PKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIAD  159 (305)
T ss_dssp             SCCSBCCS-------SC--CTTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCS
T ss_pred             CccCcCcc-------ch--hhhhhhhhccccchhhhhhhhhhccccccccccccccccccCCCccccccccccCcccccc
Confidence             8888882       21  234455555444443322                           1223556666666554


Q ss_pred             cCccCCCcccccccccceEEeecCccccchHHHHHHhhhcceeecccccccccccc-chhhhhccCCCccEEEeecCC
Q 038110          583 GHRWSRGFYRSSNKSYRSFRIDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNF-VNELVKVGSSQLKYLQIEGYR  659 (667)
Q Consensus       583 ~~~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l~~~~l~~L~~L~l~~~~  659 (667)
                      +....++  ......++.+.+.++............++.++.|.+++|   .+..+ +.++  .++++|++|+|++|.
T Consensus       160 n~l~~l~--~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n---~l~~~~~~~~--~~l~~L~~L~L~~N~  230 (305)
T d1xkua_         160 TNITTIP--QGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFN---SISAVDNGSL--ANTPHLRELHLNNNK  230 (305)
T ss_dssp             SCCCSCC--SSCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSS---CCCEECTTTG--GGSTTCCEEECCSSC
T ss_pred             CCccccC--cccCCccCEEECCCCcCCCCChhHhhccccccccccccc---cccccccccc--cccccceeeeccccc
Confidence            3322222  223456677777775444443333344578899999888   44444 4556  789999999999984

>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=99.18  E-value=3.2e-11  Score=103.27  Aligned_cols=98  Identities=20%  Similarity=0.242  Sum_probs=85.4

Q ss_pred             cEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-cccccCCCCccChhhhcCCCCCC
Q 038110          475 KLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHFPNLT  553 (667)
Q Consensus       475 r~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~  553 (667)
                      |+|++++|..  ..++. + +++++|++|++++|.++.+|++++.+++|++|++++ .+..+|        .++++++|+
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~   68 (124)
T d1dcea3           1 RVLHLAHKDL--TVLCH-L-EQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD--------GVANLPRLQ   68 (124)
T ss_dssp             SEEECTTSCC--SSCCC-G-GGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG--------GGTTCSSCC
T ss_pred             CEEEcCCCCC--CCCcc-c-ccCCCCCEEECCCCccCcchhhhhhhhcccccccccccccccC--------ccccccccC
Confidence            6899999987  56764 4 999999999999999999999999999999999999 888887        499999999


Q ss_pred             eEEeecCCCCCCCC--CCcCCCCCCeeEEEecC
Q 038110          554 SLELEVNDANTLPR--GGLFFEKPERYKILTGH  584 (667)
Q Consensus       554 ~L~l~~~~l~~lP~--~~~~l~~L~~l~~~~~~  584 (667)
                      +|++++|.+..+|.  .+..+++|+.+++..+.
T Consensus        69 ~L~l~~N~i~~~~~~~~l~~~~~L~~L~l~~N~  101 (124)
T d1dcea3          69 ELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNS  101 (124)
T ss_dssp             EEECCSSCCCSSSTTGGGGGCTTCCEEECTTSG
T ss_pred             eEECCCCccCCCCCchhhcCCCCCCEEECCCCc
Confidence            99999999998885  35678889888776443

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.15  E-value=1.6e-11  Score=110.64  Aligned_cols=122  Identities=12%  Similarity=0.099  Sum_probs=90.1

Q ss_pred             cccceeEEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccc-cCCCcccE
Q 038110          448 RVRHCTSIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSI-GLLTNLHT  525 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si-~~L~~L~~  525 (667)
                      .+.++|.|++++|++..++... .+++|++|++++|..  ..++.  |..+++|++|++++|.++.+|..+ ..+++|++
T Consensus        16 n~~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i--~~l~~--~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~   91 (162)
T d1a9na_          16 NAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEI--RKLDG--FPLLRRLKTLLVNNNRICRIGEGLDQALPDLTE   91 (162)
T ss_dssp             CTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCC--CEECC--CCCCSSCCEEECCSSCCCEECSCHHHHCTTCCE
T ss_pred             CcCcCcEEECCCCCCCccCccccccccCCEEECCCCCC--CccCC--cccCcchhhhhcccccccCCCcccccccccccc
Confidence            4457888888888888876543 578888888888876  55643  478888888888888888887654 56888888


Q ss_pred             EecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC----CcCCCCCCee
Q 038110          526 LCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG----GLFFEKPERY  578 (667)
Q Consensus       526 L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~----~~~l~~L~~l  578 (667)
                      |++++ .+..+|.     +..+..+++|++|++++|.+..+|..    +..+++|+.|
T Consensus        92 L~L~~N~i~~~~~-----l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~L  144 (162)
T d1a9na_          92 LILTNNSLVELGD-----LDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVL  144 (162)
T ss_dssp             EECCSCCCCCGGG-----GGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEE
T ss_pred             ceecccccccccc-----ccccccccccchhhcCCCccccccchHHHHHHHCCCcCee
Confidence            88888 6666651     12567788888888888888777752    4467777766

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.15  E-value=2.5e-11  Score=109.32  Aligned_cols=106  Identities=20%  Similarity=0.162  Sum_probs=65.6

Q ss_pred             CCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-cccccCCCCccChh
Q 038110          466 PEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVDGVKNASLE  544 (667)
Q Consensus       466 ~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~  544 (667)
                      |....+.++|.|++++|..  ..+|. ++..+++|++|+|++|.|+++| .+..+++|++|++++ .+..+|.      .
T Consensus        12 ~~~~n~~~lr~L~L~~n~I--~~i~~-~~~~l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~N~i~~l~~------~   81 (162)
T d1a9na_          12 AQYTNAVRDRELDLRGYKI--PVIEN-LGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNNNRICRIGE------G   81 (162)
T ss_dssp             CEEECTTSCEEEECTTSCC--CSCCC-GGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCSSCCCEECS------C
T ss_pred             HhccCcCcCcEEECCCCCC--CccCc-cccccccCCEEECCCCCCCccC-CcccCcchhhhhcccccccCCCc------c
Confidence            3334556677777777765  45553 3466777777777777777664 466677777777777 6666661      2


Q ss_pred             hhcCCCCCCeEEeecCCCCCCCC--CCcCCCCCCeeEEE
Q 038110          545 ELKHFPNLTSLELEVNDANTLPR--GGLFFEKPERYKIL  581 (667)
Q Consensus       545 ~l~~L~~L~~L~l~~~~l~~lP~--~~~~l~~L~~l~~~  581 (667)
                      .+..+++|++|++++|.+..+|.  .+..+++|+.+.+.
T Consensus        82 ~~~~l~~L~~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~  120 (162)
T d1a9na_          82 LDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCIL  120 (162)
T ss_dssp             HHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCCEEECC
T ss_pred             ccccccccccceeccccccccccccccccccccchhhcC
Confidence            23556777777777776666654  23455556555544

>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=99.14  E-value=2.1e-10  Score=108.12  Aligned_cols=128  Identities=13%  Similarity=0.148  Sum_probs=107.6

Q ss_pred             CCCccccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCC
Q 038110          442 EWSDESRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLT  521 (667)
Q Consensus       442 ~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~  521 (667)
                      .++....+++++.|++++|.+..++....+++|++|++++|..  ..+|.  +.++++|+.|++++|.+..+| .+..+.
T Consensus        60 ~l~~l~~l~~L~~L~L~~n~i~~l~~~~~l~~L~~L~l~~n~i--~~l~~--l~~l~~L~~L~l~~~~~~~~~-~l~~l~  134 (210)
T d1h6ta2          60 SVQGIQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKV--KDLSS--LKDLKKLKSLSLEHNGISDIN-GLVHLP  134 (210)
T ss_dssp             CCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCC--CCGGG--GTTCTTCCEEECTTSCCCCCG-GGGGCT
T ss_pred             CchhHhhCCCCCEEeCCCccccCccccccCccccccccccccc--ccccc--ccccccccccccccccccccc-cccccc
Confidence            3445667889999999999998888777899999999999976  56774  489999999999999988776 588899


Q ss_pred             cccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCCCcCCCCCCeeEEEec
Q 038110          522 NLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRGGLFFEKPERYKILTG  583 (667)
Q Consensus       522 ~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~  583 (667)
                      +|++++++. .+..++        .+.++++|+++++++|++..+|. +.++++|+.|++..+
T Consensus       135 ~l~~l~~~~n~l~~~~--------~~~~l~~L~~l~l~~n~l~~i~~-l~~l~~L~~L~Ls~N  188 (210)
T d1h6ta2         135 QLESLYLGNNKITDIT--------VLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKN  188 (210)
T ss_dssp             TCCEEECCSSCCCCCG--------GGGGCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSS
T ss_pred             cccccccccccccccc--------ccccccccccccccccccccccc-ccCCCCCCEEECCCC
Confidence            999999988 666554        57789999999999999988875 578899999987644

>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=99.03  E-value=1.2e-10  Score=112.34  Aligned_cols=202  Identities=11%  Similarity=0.075  Sum_probs=132.1

Q ss_pred             cccceeEEEEeccCccccCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCC-CCCccC-CccccCCCcc
Q 038110          448 RVRHCTSIVILDVKTYVLPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTD-MNLLSL-PSSIGLLTNL  523 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~-~~i~~l-P~si~~L~~L  523 (667)
                      .+.+++.|++.+|.+..+|..  ..+++|++|++++|... ..+|...|.+++.+++|.+.. +.+..+ |..+.++++|
T Consensus        27 l~~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~-~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L  105 (242)
T d1xwdc1          27 LPRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVL-EVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNL  105 (242)
T ss_dssp             SCSCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTC-CEECSSSEESCTTCCEEEEECCTTCCEECTTSEECCTTC
T ss_pred             CCCCCCEEECcCCcCCccChhHhhccchhhhhhhcccccc-ceeeccccccccccccccccccccccccccccccccccc
Confidence            346899999999999988864  47999999999999875 556766679999999999865 567755 5568999999


Q ss_pred             cEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC-CcCCC-CCCeeEEEecCccCCCcccccccccce
Q 038110          524 HTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG-GLFFE-KPERYKILTGHRWSRGFYRSSNKSYRS  600 (667)
Q Consensus       524 ~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~-~~~l~-~L~~l~~~~~~~~~~~~~~~~~~~l~~  600 (667)
                      ++|++++ .+...|.     ...+..+..|..+...++.+..++.. +..+. .+..+.+..+.-..+..  ......+.
T Consensus       106 ~~l~l~~~~l~~~~~-----~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~l~~i~~--~~~~~~~l  178 (242)
T d1xwdc1         106 QYLLISNTGIKHLPD-----VHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHN--CAFNGTQL  178 (242)
T ss_dssp             CEEEEESCCCCSCCC-----CTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECT--TTTTTCCE
T ss_pred             cccccchhhhccccc-----ccccccccccccccccccccccccccccccccccceeeeccccccccccc--ccccchhh
Confidence            9999999 6666651     02233445555555566677777765 22333 55556554322222221  11222232


Q ss_pred             EE---eecCccccchHHHHHHhhhcceeeccccccccccccchhhhhccCCCccEEEeecCCCC
Q 038110          601 FR---IDLDANVRLKDRLVVQLRGIEELSLAGLLDQDIKNFVNELVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       601 l~---l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~l  661 (667)
                      ..   +.++.....+......+++|+.|+|++|   .+..+|.+.. .++++|+.|++.+...+
T Consensus       179 ~~~~~l~~n~l~~l~~~~f~~l~~L~~L~Ls~N---~l~~l~~~~~-~~l~~L~~l~~~~l~~l  238 (242)
T d1xwdc1         179 DELNLSDNNNLEELPNDVFHGASGPVILDISRT---RIHSLPSYGL-ENLKKLRARSTYNLKKL  238 (242)
T ss_dssp             EEEECTTCTTCCCCCTTTTTTSCCCSEEECTTS---CCCCCCSSSC-TTCCEEESSSEESSSCS
T ss_pred             hccccccccccccccHHHhcCCCCCCEEECCCC---cCCccCHHHH-cCCcccccCcCCCCCcC
Confidence            33   2324444455554556689999999999   5667776531 66666666666655433

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=98.98  E-value=3.1e-09  Score=107.91  Aligned_cols=74  Identities=19%  Similarity=0.126  Sum_probs=54.7

Q ss_pred             cccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEe
Q 038110          448 RVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLC  527 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~  527 (667)
                      .++++++|.+++|++..+|..  +.+|+.|.+.+|..  ..+++    -.+.|++|++++|.+..+|. ++.+++|++|+
T Consensus        56 ~~~~L~~L~Ls~N~l~~lp~~--~~~L~~L~l~~n~l--~~l~~----lp~~L~~L~L~~n~l~~lp~-~~~l~~L~~L~  126 (353)
T d1jl5a_          56 LPPHLESLVASCNSLTELPEL--PQSLKSLLVDNNNL--KALSD----LPPLLEYLGVSNNQLEKLPE-LQNSSFLKIID  126 (353)
T ss_dssp             CCTTCSEEECCSSCCSSCCCC--CTTCCEEECCSSCC--SCCCS----CCTTCCEEECCSSCCSSCCC-CTTCTTCCEEE
T ss_pred             CCCCCCEEECCCCCCcccccc--hhhhhhhhhhhccc--chhhh----hccccccccccccccccccc-hhhhccceeec
Confidence            346788888888888888754  46888888888765  44442    12458888888888888875 57788888888


Q ss_pred             cCC
Q 038110          528 LYG  530 (667)
Q Consensus       528 L~~  530 (667)
                      +++
T Consensus       127 l~~  129 (353)
T d1jl5a_         127 VDN  129 (353)
T ss_dssp             CCS
T ss_pred             ccc
Confidence            876

>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=98.97  E-value=8.6e-10  Score=102.19  Aligned_cols=117  Identities=22%  Similarity=0.218  Sum_probs=96.6

Q ss_pred             cCCCccccccceeEEEEeccCccc-cCCC--CCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCc-c
Q 038110          441 WEWSDESRVRHCTSIVILDVKTYV-LPEV--MECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPS-S  516 (667)
Q Consensus       441 ~~~~~~~~~~~lr~L~l~~~~~~~-l~~~--~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~-s  516 (667)
                      ..+|. ..+.++++|.+++|.+.. ++..  ..+++|+.|++++|..  ..++...|..++.|++|+|++|+++.+|. .
T Consensus        21 ~~iP~-~lp~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i--~~~~~~~~~~~~~L~~L~Ls~N~l~~l~~~~   97 (192)
T d1w8aa_          21 KEIPR-DIPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQL--TGIEPNAFEGASHIQELQLGENKIKEISNKM   97 (192)
T ss_dssp             SSCCS-CCCTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCC--CCBCTTTTTTCTTCCEEECCSCCCCEECSSS
T ss_pred             CccCC-CCCCCCCEEEeCCCCCcccccccccCCCceEeeeecccccc--ccccccccccccccceeeeccccccccCHHH
Confidence            34443 345789999999999965 4333  3789999999999987  56676677999999999999999999865 5


Q ss_pred             ccCCCcccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCC
Q 038110          517 IGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLP  566 (667)
Q Consensus       517 i~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP  566 (667)
                      |.+|++|++|+|++ .+..+|.      ..|..+++|++|++++|.+...+
T Consensus        98 F~~l~~L~~L~L~~N~l~~i~~------~~f~~l~~L~~l~L~~N~~~~~~  142 (192)
T d1w8aa_          98 FLGLHQLKTLNLYDNQISCVMP------GSFEHLNSLTSLNLASNPFNCNC  142 (192)
T ss_dssp             STTCTTCCEEECCSSCCCEECT------TSSTTCTTCCEEECTTCCBCCSG
T ss_pred             HhCCCcccccccCCccccccCH------HHhcCCccccccccccccccccc
Confidence            88999999999999 8999983      56889999999999999765443

>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=98.85  E-value=1.5e-10  Score=107.74  Aligned_cols=145  Identities=15%  Similarity=0.115  Sum_probs=98.1

Q ss_pred             CccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC-cccccCCCCccChhhhcCCCC
Q 038110          473 QLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHFPN  551 (667)
Q Consensus       473 ~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~  551 (667)
                      .+..+.+.+....+..+|.++ ..+++|++|+|++|.|+.+| .++.|++|++|+|++ .+..+|       .....+++
T Consensus        24 ~~~~~~l~~~~~~i~~l~~sl-~~L~~L~~L~Ls~n~I~~i~-~l~~l~~L~~L~Ls~N~i~~i~-------~~~~~~~~   94 (198)
T d1m9la_          24 EAEKVELHGMIPPIEKMDATL-STLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIE-------NLDAVADT   94 (198)
T ss_dssp             TCSCEECCBCCTTCCCCHHHH-HHTTTCCEEECSEEEESCCC-CHHHHTTCCEEECCEEEECSCS-------SHHHHHHH
T ss_pred             ccceeeeecccCchhhhhhHH-hcccccceeECcccCCCCcc-cccCCccccChhhccccccccc-------cccccccc
Confidence            344455555433336677776 88999999999999998886 588899999999988 788887       45555668


Q ss_pred             CCeEEeecCCCCCCCCCCcCCCCCCeeEEEecCccCCCcccccccccceEEeecCccccchH-HHHHHhhhcceeecccc
Q 038110          552 LTSLELEVNDANTLPRGGLFFEKPERYKILTGHRWSRGFYRSSNKSYRSFRIDLDANVRLKD-RLVVQLRGIEELSLAGL  630 (667)
Q Consensus       552 L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~~~~~~-~~~~~l~~L~~L~L~~~  630 (667)
                      |++|++++|.++.+|. +..+++|+.|++..+...                       .... .....+++|+.|+|++|
T Consensus        95 L~~L~l~~N~i~~l~~-~~~l~~L~~L~L~~N~i~-----------------------~~~~~~~l~~l~~L~~L~L~~N  150 (198)
T d1m9la_          95 LEELWISYNQIASLSG-IEKLVNLRVLYMSNNKIT-----------------------NWGEIDKLAALDKLEDLLLAGN  150 (198)
T ss_dssp             CCEEECSEEECCCHHH-HHHHHHSSEEEESEEECC-----------------------CHHHHHHHTTTTTCSEEEECSS
T ss_pred             cccccccccccccccc-ccccccccccccccchhc-----------------------cccccccccCCCccceeecCCC
Confidence            9999999988887753 456777777776533211                       1111 11234579999999998


Q ss_pred             ccccccccch----------hhhhccCCCccEEE
Q 038110          631 LDQDIKNFVN----------ELVKVGSSQLKYLQ  654 (667)
Q Consensus       631 ~~~~~~~~~~----------~l~~~~l~~L~~L~  654 (667)
                        .-....+.          .+  ..+|+|+.|+
T Consensus       151 --~l~~~~~~~~~~~~~r~~vi--~~lp~L~~LD  180 (198)
T d1m9la_         151 --PLYNDYKENNATSEYRIEVV--KRLPNLKKLD  180 (198)
T ss_dssp             --HHHHHHCTTTTHHHHHHHHH--HHCSSCCEES
T ss_pred             --ccccCcccccchhhHHHHHH--HHCCCcCEeC
Confidence              21111111          13  5688999886

>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=98.77  E-value=6.6e-10  Score=109.86  Aligned_cols=177  Identities=16%  Similarity=0.113  Sum_probs=95.7

Q ss_pred             CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCc-cCCccccCCCcccEEecCC--cccc--cCCCCccChh
Q 038110          470 ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLL-SLPSSIGLLTNLHTLCLYG--GVGV--VDGVKNASLE  544 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-~lP~si~~L~~L~~L~L~~--~l~~--LP~~~~~~~~  544 (667)
                      ...+|++|+++++... ......++.++++|++|+|+++.+. ..+..++++++|++|++++  .+..  ++       .
T Consensus        44 ~~~~L~~LdLs~~~i~-~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~-------~  115 (284)
T d2astb2          44 SPFRVQHMDLSNSVIE-VSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQ-------T  115 (284)
T ss_dssp             CCBCCCEEECTTCEEC-HHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHH-------H
T ss_pred             cCCCCCEEECCCCccC-HHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccc-------h
Confidence            4456777777766543 2333445577777777777777665 4566677777777777766  3321  22       2


Q ss_pred             hhcCCCCCCeEEeecCC-CCC--CCCCCc-CCCCCCeeEEEecCc-c---CCCcccccccccceEEeecCc-cccchHHH
Q 038110          545 ELKHFPNLTSLELEVND-ANT--LPRGGL-FFEKPERYKILTGHR-W---SRGFYRSSNKSYRSFRIDLDA-NVRLKDRL  615 (667)
Q Consensus       545 ~l~~L~~L~~L~l~~~~-l~~--lP~~~~-~l~~L~~l~~~~~~~-~---~~~~~~~~~~~l~~l~l~~~~-~~~~~~~~  615 (667)
                      -...+++|++|++++|. +..  ++..+. ..++|+.|++..... .   .+..+....+.++.+.++.+. ........
T Consensus       116 l~~~~~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~  195 (284)
T d2astb2         116 LLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQE  195 (284)
T ss_dssp             HHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGG
T ss_pred             hhHHHHhccccccccccccccccchhhhcccccccchhhhcccccccccccccccccccccccccccccccCCCchhhhh
Confidence            23456777777777653 321  111111 235677776542210 0   111122223456666666532 22111111


Q ss_pred             HHHhhhcceeecccccccccc-ccchhhhhccCCCccEEEeecC
Q 038110          616 VVQLRGIEELSLAGLLDQDIK-NFVNELVKVGSSQLKYLQIEGY  658 (667)
Q Consensus       616 ~~~l~~L~~L~L~~~~~~~~~-~~~~~l~~~~l~~L~~L~l~~~  658 (667)
                      ...+++|++|+|++|  ..+. .-+..+  ..+++|+.|++++|
T Consensus       196 l~~~~~L~~L~L~~C--~~i~~~~l~~L--~~~~~L~~L~l~~~  235 (284)
T d2astb2         196 FFQLNYLQHLSLSRC--YDIIPETLLEL--GEIPTLKTLQVFGI  235 (284)
T ss_dssp             GGGCTTCCEEECTTC--TTCCGGGGGGG--GGCTTCCEEECTTS
T ss_pred             hcccCcCCEEECCCC--CCCChHHHHHH--hcCCCCCEEeeeCC
Confidence            223468888888887  3322 234455  66788888888776

>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=98.75  E-value=8.3e-11  Score=109.61  Aligned_cols=110  Identities=16%  Similarity=0.156  Sum_probs=73.2

Q ss_pred             ccccceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEE
Q 038110          447 SRVRHCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTL  526 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L  526 (667)
                      ..+.++++|++++|++..++....+++|++|++++|..  ..+|... ..++.|++|++++|.++.+| .+..+++|++|
T Consensus        45 ~~L~~L~~L~Ls~n~I~~i~~l~~l~~L~~L~Ls~N~i--~~i~~~~-~~~~~L~~L~l~~N~i~~l~-~~~~l~~L~~L  120 (198)
T d1m9la_          45 STLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLI--KKIENLD-AVADTLEELWISYNQIASLS-GIEKLVNLRVL  120 (198)
T ss_dssp             HHTTTCCEEECSEEEESCCCCHHHHTTCCEEECCEEEE--CSCSSHH-HHHHHCCEEECSEEECCCHH-HHHHHHHSSEE
T ss_pred             hcccccceeECcccCCCCcccccCCccccChhhccccc--ccccccc-cccccccccccccccccccc-ccccccccccc
Confidence            44567777777777777766544677777777777765  4565433 55567777777777777664 36677777777


Q ss_pred             ecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCC
Q 038110          527 CLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTL  565 (667)
Q Consensus       527 ~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~l  565 (667)
                      ++++ .+..+|.     +..+..+++|++|++++|.+...
T Consensus       121 ~L~~N~i~~~~~-----~~~l~~l~~L~~L~L~~N~l~~~  155 (198)
T d1m9la_         121 YMSNNKITNWGE-----IDKLAALDKLEDLLLAGNPLYND  155 (198)
T ss_dssp             EESEEECCCHHH-----HHHHTTTTTCSEEEECSSHHHHH
T ss_pred             ccccchhccccc-----cccccCCCccceeecCCCccccC
Confidence            7777 5555540     12467777777777777765443

>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=98.73  E-value=1.9e-08  Score=89.25  Aligned_cols=100  Identities=16%  Similarity=0.169  Sum_probs=68.0

Q ss_pred             CccEEEccCCCCccccccHHHHhCCCCCcEEEcCCC-CCccCCc-cccCCCcccEEecCC-cccccCCCCccChhhhcCC
Q 038110          473 QLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDM-NLLSLPS-SIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHF  549 (667)
Q Consensus       473 ~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~-~i~~lP~-si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L  549 (667)
                      ....+...++..  ..+|..+ ..+++|+.|+++++ .++.+|. .|.+|.+|+.|+|++ .|..+|.      ..|..+
T Consensus         9 ~~~~l~c~~~~~--~~~p~~l-~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~------~~f~~l   79 (156)
T d2ifga3           9 GSSGLRCTRDGA--LDSLHHL-PGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAP------DAFHFT   79 (156)
T ss_dssp             SSSCEECCSSCC--CTTTTTS-CSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECT------TGGGSC
T ss_pred             CCCeEEecCCCC--ccCcccc-cCccccCeeecCCCccccccCchhhccccccCcceeeccccCCccc------cccccc
Confidence            344455555554  4566665 67777777777655 4777754 477777788888877 7777752      557778


Q ss_pred             CCCCeEEeecCCCCCCCCCCcCCCCCCeeEEE
Q 038110          550 PNLTSLELEVNDANTLPRGGLFFEKPERYKIL  581 (667)
Q Consensus       550 ~~L~~L~l~~~~l~~lP~~~~~l~~L~~l~~~  581 (667)
                      ++|++|+|++|+++.+|.++....+|+.|++.
T Consensus        80 ~~L~~L~Ls~N~l~~l~~~~~~~~~l~~L~L~  111 (156)
T d2ifga3          80 PRLSRLNLSFNALESLSWKTVQGLSLQELVLS  111 (156)
T ss_dssp             SCCCEEECCSSCCSCCCSTTTCSCCCCEEECC
T ss_pred             ccccceeccCCCCcccChhhhccccccccccC
Confidence            88888888888888888775544467777665

>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=98.73  E-value=1.6e-08  Score=89.87  Aligned_cols=101  Identities=13%  Similarity=0.066  Sum_probs=82.4

Q ss_pred             EEEEeccCccccCCCC-CCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccC-CccccCCCcccEEecCC-
Q 038110          454 SIVILDVKTYVLPEVM-ECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSL-PSSIGLLTNLHTLCLYG-  530 (667)
Q Consensus       454 ~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-P~si~~L~~L~~L~L~~-  530 (667)
                      .+...+++....|... .+++|+.|.+.++... ..++...|.++++|+.|+|++|+|+.+ |..|..+++|++|+|++ 
T Consensus        12 ~l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l-~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N   90 (156)
T d2ifga3          12 GLRCTRDGALDSLHHLPGAENLTELYIENQQHL-QHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFN   90 (156)
T ss_dssp             CEECCSSCCCTTTTTSCSCSCCSEEECCSCSSC-CEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSS
T ss_pred             eEEecCCCCccCcccccCccccCeeecCCCccc-cccCchhhccccccCcceeeccccCCcccccccccccccceeccCC
Confidence            3556666666665544 7889999999877543 788887789999999999999999998 55689999999999999 


Q ss_pred             cccccCCCCccChhhhcCCCCCCeEEeecCCC
Q 038110          531 GVGVVDGVKNASLEELKHFPNLTSLELEVNDA  562 (667)
Q Consensus       531 ~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l  562 (667)
                      .+..+|       .++-...+|++|++++|.+
T Consensus        91 ~l~~l~-------~~~~~~~~l~~L~L~~Np~  115 (156)
T d2ifga3          91 ALESLS-------WKTVQGLSLQELVLSGNPL  115 (156)
T ss_dssp             CCSCCC-------STTTCSCCCCEEECCSSCC
T ss_pred             CCcccC-------hhhhccccccccccCCCcc
Confidence            899999       5555555799999999976

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=98.63  E-value=1.8e-07  Score=94.44  Aligned_cols=99  Identities=18%  Similarity=0.229  Sum_probs=82.3

Q ss_pred             ceeEEEEeccCccccCCCCCCCCccEEEccCCCCccccccHHHHhCCCCCcEEEcCCCCCccCCccccCCCcccEEecCC
Q 038110          451 HCTSIVILDVKTYVLPEVMECPQLKLFSMPAEKNSFFAIPHNLFRSMLQVRVLDLTDMNLLSLPSSIGLLTNLHTLCLYG  530 (667)
Q Consensus       451 ~lr~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lP~si~~L~~L~~L~L~~  530 (667)
                      ++++|++++++++.+|..  .++|++|++++|..  ..+|..    +.+|+.|++++|+++.+|.-   ..+|++|++++
T Consensus        39 ~l~~LdLs~~~L~~lp~~--~~~L~~L~Ls~N~l--~~lp~~----~~~L~~L~l~~n~l~~l~~l---p~~L~~L~L~~  107 (353)
T d1jl5a_          39 QAHELELNNLGLSSLPEL--PPHLESLVASCNSL--TELPEL----PQSLKSLLVDNNNLKALSDL---PPLLEYLGVSN  107 (353)
T ss_dssp             TCSEEECTTSCCSCCCSC--CTTCSEEECCSSCC--SSCCCC----CTTCCEEECCSSCCSCCCSC---CTTCCEEECCS
T ss_pred             CCCEEEeCCCCCCCCCCC--CCCCCEEECCCCCC--cccccc----hhhhhhhhhhhcccchhhhh---ccccccccccc
Confidence            577899999999999863  57999999999877  688853    56899999999998887642   24699999999


Q ss_pred             -cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCCCC
Q 038110          531 -GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLPRG  568 (667)
Q Consensus       531 -~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP~~  568 (667)
                       .+..+|        .++++++|++|+++++.+...|..
T Consensus       108 n~l~~lp--------~~~~l~~L~~L~l~~~~~~~~~~~  138 (353)
T d1jl5a_         108 NQLEKLP--------ELQNSSFLKIIDVDNNSLKKLPDL  138 (353)
T ss_dssp             SCCSSCC--------CCTTCTTCCEEECCSSCCSCCCCC
T ss_pred             ccccccc--------chhhhccceeeccccccccccccc
Confidence             888898        368899999999999988777665

>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=98.52  E-value=2.4e-08  Score=98.33  Aligned_cols=156  Identities=15%  Similarity=0.138  Sum_probs=108.2

Q ss_pred             hCCCCCcEEEcCCCCCc--cCCccccCCCcccEEecCC-ccc-ccCCCCccChhhhcCCCCCCeEEeecC-CCCC--CCC
Q 038110          495 RSMLQVRVLDLTDMNLL--SLPSSIGLLTNLHTLCLYG-GVG-VVDGVKNASLEELKHFPNLTSLELEVN-DANT--LPR  567 (667)
Q Consensus       495 ~~l~~Lr~L~L~~~~i~--~lP~si~~L~~L~~L~L~~-~l~-~LP~~~~~~~~~l~~L~~L~~L~l~~~-~l~~--lP~  567 (667)
                      .....|++|||+++.+.  .++.-+..+++|++|+|++ .+. ..+       ..++++++|++|++++| .++.  ++.
T Consensus        43 ~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~-------~~l~~~~~L~~L~Ls~c~~itd~~l~~  115 (284)
T d2astb2          43 FSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIV-------NTLAKNSNLVRLNLSGCSGFSEFALQT  115 (284)
T ss_dssp             CCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHH-------HHHTTCTTCSEEECTTCBSCCHHHHHH
T ss_pred             ccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHH-------HHHhcCCCCcCccccccccccccccch
Confidence            46678999999999876  3566688899999999998 433 334       67889999999999986 3542  111


Q ss_pred             CCcCCCCCCeeEEEecCccC---CCc-ccccccccceEEeecC-cccc--chHHHHHHhhhcceeecccccccccc-ccc
Q 038110          568 GGLFFEKPERYKILTGHRWS---RGF-YRSSNKSYRSFRIDLD-ANVR--LKDRLVVQLRGIEELSLAGLLDQDIK-NFV  639 (667)
Q Consensus       568 ~~~~l~~L~~l~~~~~~~~~---~~~-~~~~~~~l~~l~l~~~-~~~~--~~~~~~~~l~~L~~L~L~~~~~~~~~-~~~  639 (667)
                      -..++++|++|++..+....   +.. .......++.+.+++. ....  ....+...+++|++|+|++|  ..+. ..+
T Consensus       116 l~~~~~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~--~~itd~~~  193 (284)
T d2astb2         116 LLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDS--VMLKNDCF  193 (284)
T ss_dssp             HHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTC--TTCCGGGG
T ss_pred             hhHHHHhccccccccccccccccchhhhcccccccchhhhcccccccccccccccccccccccccccccc--cCCCchhh
Confidence            12368899999886433211   111 2223456788888762 2222  23334455689999999998  4432 466


Q ss_pred             hhhhhccCCCccEEEeecCCCC
Q 038110          640 NELVKVGSSQLKYLQIEGYRGP  661 (667)
Q Consensus       640 ~~l~~~~l~~L~~L~l~~~~~l  661 (667)
                      ..+  ..+++|++|++++|+.+
T Consensus       194 ~~l--~~~~~L~~L~L~~C~~i  213 (284)
T d2astb2         194 QEF--FQLNYLQHLSLSRCYDI  213 (284)
T ss_dssp             GGG--GGCTTCCEEECTTCTTC
T ss_pred             hhh--cccCcCCEEECCCCCCC
Confidence            777  78999999999999765

>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=97.93  E-value=4e-06  Score=84.31  Aligned_cols=182  Identities=12%  Similarity=0.090  Sum_probs=99.5

Q ss_pred             CCCCccEEEccCCCCccc---cccHHHHhCCCCCcEEEcCCCCCcc-----CCc---------cccCCCcccEEecCC--
Q 038110          470 ECPQLKLFSMPAEKNSFF---AIPHNLFRSMLQVRVLDLTDMNLLS-----LPS---------SIGLLTNLHTLCLYG--  530 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~---~lp~~~~~~l~~Lr~L~L~~~~i~~-----lP~---------si~~L~~L~~L~L~~--  530 (667)
                      .+++|+.|++++|.....   .+... +...++|++|++++|.+..     +..         .......|++|.+++  
T Consensus        91 ~~~~L~~L~L~~n~i~~~~~~~l~~~-l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~  169 (344)
T d2ca6a1          91 KCPKLHTVRLSDNAFGPTAQEPLIDF-LSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNR  169 (344)
T ss_dssp             TCTTCCEEECCSCCCCTTTHHHHHHH-HHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSC
T ss_pred             hCCCcccccccccccccccccchhhh-hcccccchheecccccccccccccccccccccccccccccCcccceeeccccc
Confidence            456677777776654211   12222 2566777777777766531     000         112345666676665  


Q ss_pred             ----cccccCCCCccChhhhcCCCCCCeEEeecCCCCC------CCCCCcCCCCCCeeEEEecCccC-----CCcccccc
Q 038110          531 ----GVGVVDGVKNASLEELKHFPNLTSLELEVNDANT------LPRGGLFFEKPERYKILTGHRWS-----RGFYRSSN  595 (667)
Q Consensus       531 ----~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~------lP~~~~~l~~L~~l~~~~~~~~~-----~~~~~~~~  595 (667)
                          .+..+.       ..+...++|+.|++++|.+..      +...+...++|+.|++..+.-..     +.......
T Consensus       170 i~~~~~~~l~-------~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~  242 (344)
T d2ca6a1         170 LENGSMKEWA-------KTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSW  242 (344)
T ss_dssp             CTGGGHHHHH-------HHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGC
T ss_pred             cccccccccc-------chhhhhhhhcccccccccccccccccchhhhhcchhhhccccccccccccccccccccccccc
Confidence                122333       455667788888888887653      23334567788888776443110     11111233


Q ss_pred             cccceEEeecCccccc-hHHHHHHh-----hhcceeeccccc--cccccccchhhhhccCCCccEEEeecCCC
Q 038110          596 KSYRSFRIDLDANVRL-KDRLVVQL-----RGIEELSLAGLL--DQDIKNFVNELVKVGSSQLKYLQIEGYRG  660 (667)
Q Consensus       596 ~~l~~l~l~~~~~~~~-~~~~~~~l-----~~L~~L~L~~~~--~~~~~~~~~~l~~~~l~~L~~L~l~~~~~  660 (667)
                      ..++.+.|+++..... ...+...+     +.|++|+|++|.  ..+...+...+. ..+++|+.|+|++|.-
T Consensus       243 ~~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~~~~~~~l~~~l~-~~~~~L~~L~l~~N~~  314 (344)
T d2ca6a1         243 PNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVID-EKMPDLLFLELNGNRF  314 (344)
T ss_dssp             TTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHH-HHCTTCCEEECTTSBS
T ss_pred             ccchhhhhhcCccCchhhHHHHHHhhhccCCCCCEEECCCCcCChHHHHHHHHHHH-ccCCCCCEEECCCCcC
Confidence            4566777776543321 22222222     368899999882  112233455552 2578899999988764

>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=97.75  E-value=7.5e-06  Score=82.24  Aligned_cols=212  Identities=16%  Similarity=0.117  Sum_probs=127.1

Q ss_pred             cccceeEEEEeccCccc-----cCC-CCCCCCccEEEccCCCCcc--ccccH------HHHhCCCCCcEEEcCCCCCcc-
Q 038110          448 RVRHCTSIVILDVKTYV-----LPE-VMECPQLKLFSMPAEKNSF--FAIPH------NLFRSMLQVRVLDLTDMNLLS-  512 (667)
Q Consensus       448 ~~~~lr~L~l~~~~~~~-----l~~-~~~~~~Lr~L~l~~~~~~~--~~lp~------~~~~~l~~Lr~L~L~~~~i~~-  512 (667)
                      ...+++.|++++|.+..     +.. ....++|+.|.+.++....  ...|.      ..+...++|+.|+|++|.+.. 
T Consensus        29 ~~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~  108 (344)
T d2ca6a1          29 EDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPT  108 (344)
T ss_dssp             HCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTT
T ss_pred             hCCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCcccccccccccccc
Confidence            35678899999887632     221 2367899999998765320  11121      113678999999999998764 


Q ss_pred             ----CCccccCCCcccEEecCC-ccc-----ccCC--CCccChhhhcCCCCCCeEEeecCCCCC-----CCCCCcCCCCC
Q 038110          513 ----LPSSIGLLTNLHTLCLYG-GVG-----VVDG--VKNASLEELKHFPNLTSLELEVNDANT-----LPRGGLFFEKP  575 (667)
Q Consensus       513 ----lP~si~~L~~L~~L~L~~-~l~-----~LP~--~~~~~~~~l~~L~~L~~L~l~~~~l~~-----lP~~~~~l~~L  575 (667)
                          +...+...++|+.|++++ .+.     .+..  ............+.|+.|++++|.+..     +...+...+.|
T Consensus       109 ~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l~~~l~~~~~L  188 (344)
T d2ca6a1         109 AQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLL  188 (344)
T ss_dssp             THHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTC
T ss_pred             cccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeecccccccccccccccchhhhhhhh
Confidence                455667789999999987 221     1110  000000122467889999999987642     22223367789


Q ss_pred             CeeEEEecCccC------CCcccccccccceEEeecCccccc-hHHHHH---Hhhhcceeecccccc--ccccccchhhh
Q 038110          576 ERYKILTGHRWS------RGFYRSSNKSYRSFRIDLDANVRL-KDRLVV---QLRGIEELSLAGLLD--QDIKNFVNELV  643 (667)
Q Consensus       576 ~~l~~~~~~~~~------~~~~~~~~~~l~~l~l~~~~~~~~-~~~~~~---~l~~L~~L~L~~~~~--~~~~~~~~~l~  643 (667)
                      +.|.+..+.-..      +.........++.+.++.+..... ...+..   ..++|++|+|++|.-  .+...+-..+.
T Consensus       189 ~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i~~~g~~~l~~~l~  268 (344)
T d2ca6a1         189 HTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFS  268 (344)
T ss_dssp             CEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHH
T ss_pred             cccccccccccccccccchhhhhcchhhhcccccccccccccccccccccccccccchhhhhhcCccCchhhHHHHHHhh
Confidence            999876543111      111223344567777776543221 122222   235899999999921  12233444553


Q ss_pred             hccCCCccEEEeecCC
Q 038110          644 KVGSSQLKYLQIEGYR  659 (667)
Q Consensus       644 ~~~l~~L~~L~l~~~~  659 (667)
                      ..+.++|++|+|++|.
T Consensus       269 ~~~~~~L~~L~ls~N~  284 (344)
T d2ca6a1         269 KLENIGLQTLRLQYNE  284 (344)
T ss_dssp             TCSSCCCCEEECCSSC
T ss_pred             hccCCCCCEEECCCCc
Confidence            2356789999999986

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

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: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=97.69  E-value=0.00028  Score=67.63  Aligned_cols=171  Identities=12%  Similarity=0.132  Sum_probs=97.9

Q ss_pred             CCcccccchHHHHHHHHHhcC----------CCCcHHHHHHHHHhccCCCCCEEEEEEeC-----CCCCHHHHHHHHHHH
Q 038110          156 KDYEAFESRMSTLNDILGALK----------NPDTTLAKEVAWKAENDKLFDQAVFAEVS-----QSHDIRKIQGEIADK  220 (667)
Q Consensus       156 ~~~~~~~gr~~~~~~i~~~l~----------~~~TtLa~~vy~~~~~~~~F~~~~wv~vs-----~~~~~~~i~~~i~~~  220 (667)
                      .....|+||+++++++.+...          .|||+|++++.++...     ...|+.+.     .......+...+...
T Consensus         9 ~~~~~f~GR~~el~~l~~~~~~~i~i~G~~G~GKTsLl~~~~~~~~~-----~~~~i~~~~~~~~~~~~~~~~~~~~~~~   83 (283)
T d2fnaa2           9 DNRKDFFDREKEIEKLKGLRAPITLVLGLRRTGKSSIIKIGINELNL-----PYIYLDLRKFEERNYISYKDFLLELQKE   83 (283)
T ss_dssp             CSGGGSCCCHHHHHHHHHTCSSEEEEEESTTSSHHHHHHHHHHHHTC-----CEEEEEGGGGTTCSCCCHHHHHHHHHHH
T ss_pred             CChhhCCChHHHHHHHHhccCCEEEEEcCCCCcHHHHHHHHHHHCCC-----CeEEEEeccccccccccHHHHHHHHHHH
Confidence            345789999999999998653          3679999999887652     23455442     222344444444433


Q ss_pred             hCC--------------CCC--------CCC-h----hHHHHHHHHH--hcCCeEEEEEeCCCCcccc------cccCCC
Q 038110          221 LGL--------------TFH--------EES-E----SGRASLCNQL--KKNKTILMILDNIWENLDL------LAIGIP  265 (667)
Q Consensus       221 l~~--------------~~~--------~~~-~----~~~~~l~~~L--~~~kr~LlVLDdvw~~~~~------~~l~~~  265 (667)
                      ...              ...        ... .    .....+.+.+  ..++++++|+|++......      ..+...
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~~~~~~l~~~  163 (283)
T d2fnaa2          84 INKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPALAYA  163 (283)
T ss_dssp             HHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHHHHH
T ss_pred             hhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhcccchHHHHHHHHHH
Confidence            210              000        000 0    0011111122  1268899999998543111      111111


Q ss_pred             cCCCCCCcEEEEecCChhhhhhcc-----------CCcceEecCCCCHHHHHHHHH-------------HHHHHHhCCcc
Q 038110          266 HGNDHKGCKILLTARSEDTLSRKM-----------DSKQNFSVGILKEEEAWSGEF-------------KWVAKECAGLP  321 (667)
Q Consensus       266 ~~~~~~gs~iivTTr~~~va~~~~-----------~~~~~~~l~~L~~~~s~~Lf~-------------~~i~~~c~GlP  321 (667)
                      . ........+++++.........           .....+.|++++.+++.+++.             .+|.+.++|.|
T Consensus       164 ~-~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~~~~~i~~~~~G~P  242 (283)
T d2fnaa2         164 Y-DNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKDYEVVYEKIGGIP  242 (283)
T ss_dssp             H-HHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCCHHHHHHHHCSCH
T ss_pred             H-HhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCHHHHHHHHHHhCCCH
Confidence            1 1123344555554433221010           123468899999999999886             67999999999


Q ss_pred             hHHHHHHHHHc
Q 038110          322 VSIVTVSRALR  332 (667)
Q Consensus       322 Lai~~~g~~L~  332 (667)
                      ..+..+|..+.
T Consensus       243 ~~L~~~~~~~~  253 (283)
T d2fnaa2         243 GWLTYFGFIYL  253 (283)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999887665

>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=97.27  E-value=2.7e-05  Score=68.77  Aligned_cols=82  Identities=22%  Similarity=0.142  Sum_probs=58.8

Q ss_pred             HHHHhCCCCCcEEEcCCCCCccCC---ccccCCCcccEEecCC-cccccCCCCccChhhhcCCCCCCeEEeecCCCCCCC
Q 038110          491 HNLFRSMLQVRVLDLTDMNLLSLP---SSIGLLTNLHTLCLYG-GVGVVDGVKNASLEELKHFPNLTSLELEVNDANTLP  566 (667)
Q Consensus       491 ~~~~~~l~~Lr~L~L~~~~i~~lP---~si~~L~~L~~L~L~~-~l~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~lP  566 (667)
                      ..++.+++.|++|+|++|+|+.++   ..+..+++|++|+|++ .+..++.      -...+..+|+.|++++|.+....
T Consensus        58 ~~~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~------l~~l~~~~L~~L~L~~Npl~~~~  131 (162)
T d1koha1          58 RIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERE------LDKIKGLKLEELWLDGNSLSDTF  131 (162)
T ss_dssp             HHHHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGG------HHHHTTCCCSSCCCTTSTTSSSS
T ss_pred             HHHHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchh------hhhhhccccceeecCCCCcCcCc
Confidence            445578899999999999888763   4567889999999998 7777761      12334457899999999876554


Q ss_pred             CC--------CcCCCCCCee
Q 038110          567 RG--------GLFFEKPERY  578 (667)
Q Consensus       567 ~~--------~~~l~~L~~l  578 (667)
                      ..        +..+++|+.|
T Consensus       132 ~~~~~y~~~i~~~~P~L~~L  151 (162)
T d1koha1         132 RDQSTYISAIRERFPKLLRL  151 (162)
T ss_dssp             SSHHHHHHHHHTTSTTCCEE
T ss_pred             ccchhHHHHHHHHCCCCCEE
Confidence            32        2356777766

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.00  E-value=7.2e-05  Score=77.36  Aligned_cols=107  Identities=18%  Similarity=0.133  Sum_probs=77.8

Q ss_pred             cceeEEEEeccCccccC--C-CCCCCCccEEEccCCCCcc---ccccHHHHhCCCCCcEEEcCCCCCcc-----CCcccc
Q 038110          450 RHCTSIVILDVKTYVLP--E-VMECPQLKLFSMPAEKNSF---FAIPHNLFRSMLQVRVLDLTDMNLLS-----LPSSIG  518 (667)
Q Consensus       450 ~~lr~L~l~~~~~~~l~--~-~~~~~~Lr~L~l~~~~~~~---~~lp~~~~~~l~~Lr~L~L~~~~i~~-----lP~si~  518 (667)
                      .+++.|++++++++...  . ...++++++|.+.+|....   ..+... +..+++|++|||++|.|+.     +...+.
T Consensus         2 ~~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~-L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~   80 (460)
T d1z7xw1           2 LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSA-LRVNPALAELNLRSNELGDVGVHCVLQGLQ   80 (460)
T ss_dssp             EEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHH-HHTCTTCCEEECTTCCCHHHHHHHHHHTTC
T ss_pred             CCCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHH-HhcCCCCCEEECcCCcCChHHHHHHHHHHh
Confidence            36889999999885421  1 2257899999999997531   123333 4899999999999998852     333332


Q ss_pred             C-CCcccEEecCC-cc-----cccCCCCccChhhhcCCCCCCeEEeecCCCCC
Q 038110          519 L-LTNLHTLCLYG-GV-----GVVDGVKNASLEELKHFPNLTSLELEVNDANT  564 (667)
Q Consensus       519 ~-L~~L~~L~L~~-~l-----~~LP~~~~~~~~~l~~L~~L~~L~l~~~~l~~  564 (667)
                      . ..+|++|+|++ .+     ..++       ..+..+++|++|++++|.+..
T Consensus        81 ~~~~~L~~L~L~~n~it~~~~~~l~-------~~l~~~~~L~~L~L~~N~i~~  126 (460)
T d1z7xw1          81 TPSCKIQKLSLQNCCLTGAGCGVLS-------STLRTLPTLQELHLSDNLLGD  126 (460)
T ss_dssp             STTCCCCEEECTTSCCBGGGHHHHH-------HHTTSCTTCCEEECCSSBCHH
T ss_pred             cCCCCCCEEECCCCCcccccccccc-------chhhccccccccccccccchh
Confidence            2 34799999998 33     3456       678899999999999998754

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.90  E-value=0.00015  Score=63.81  Aligned_cols=85  Identities=16%  Similarity=0.214  Sum_probs=59.1

Q ss_pred             CCCCccEEEccCCCCcccccc--HHHHhCCCCCcEEEcCCCCCccCCc-cccCCCcccEEecCC-cccccCCCC-ccChh
Q 038110          470 ECPQLKLFSMPAEKNSFFAIP--HNLFRSMLQVRVLDLTDMNLLSLPS-SIGLLTNLHTLCLYG-GVGVVDGVK-NASLE  544 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~~~lp--~~~~~~l~~Lr~L~L~~~~i~~lP~-si~~L~~L~~L~L~~-~l~~LP~~~-~~~~~  544 (667)
                      .+++|++|++++|..  ..++  ...+..+++|++|+|++|.|+.+++ ......+|+.|++.+ .+....... .....
T Consensus        63 ~~~~L~~L~Ls~N~i--~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~  140 (162)
T d1koha1          63 NIPELLSLNLSNNRL--YRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISA  140 (162)
T ss_dssp             HCTTCCCCCCCSSCC--CCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHH
T ss_pred             hCCCCCEeeCCCccc--cCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCcccchhHHHH
Confidence            578999999999987  3443  2335899999999999999998876 333445789999988 454332000 00002


Q ss_pred             hhcCCCCCCeEE
Q 038110          545 ELKHFPNLTSLE  556 (667)
Q Consensus       545 ~l~~L~~L~~L~  556 (667)
                      -+..+|+|+.||
T Consensus       141 i~~~~P~L~~LD  152 (162)
T d1koha1         141 IRERFPKLLRLD  152 (162)
T ss_dssp             HHTTSTTCCEET
T ss_pred             HHHHCCCCCEEC
Confidence            357789999997

>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=96.86  E-value=0.00017  Score=74.49  Aligned_cols=84  Identities=17%  Similarity=0.236  Sum_probs=60.2

Q ss_pred             ccccceeEEEEeccCccc-----cCCC-CCCCCccEEEccCCCCcc---ccccHHHHhCCCCCcEEEcCCCCCcc-----
Q 038110          447 SRVRHCTSIVILDVKTYV-----LPEV-MECPQLKLFSMPAEKNSF---FAIPHNLFRSMLQVRVLDLTDMNLLS-----  512 (667)
Q Consensus       447 ~~~~~lr~L~l~~~~~~~-----l~~~-~~~~~Lr~L~l~~~~~~~---~~lp~~~~~~l~~Lr~L~L~~~~i~~-----  512 (667)
                      ...++++.|.+.+|.+..     ++.. ..+++|+.|++++|....   ..+...+......|++|+|++|.++.     
T Consensus        24 ~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~it~~~~~~  103 (460)
T d1z7xw1          24 PLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGV  103 (460)
T ss_dssp             HHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHH
T ss_pred             HhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhcCCCCCCEEECCCCCcccccccc
Confidence            456789999999998752     2221 268899999999987631   01122211223579999999999864     


Q ss_pred             CCccccCCCcccEEecCC
Q 038110          513 LPSSIGLLTNLHTLCLYG  530 (667)
Q Consensus       513 lP~si~~L~~L~~L~L~~  530 (667)
                      ++..+..+++|++|++++
T Consensus       104 l~~~l~~~~~L~~L~L~~  121 (460)
T d1z7xw1         104 LSSTLRTLPTLQELHLSD  121 (460)
T ss_dssp             HHHHTTSCTTCCEEECCS
T ss_pred             ccchhhcccccccccccc
Confidence            567788899999999988

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

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: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=95.16  E-value=0.26  Score=44.99  Aligned_cols=147  Identities=12%  Similarity=0.142  Sum_probs=82.8

Q ss_pred             cccccchHHHHHHHHHhcCC---------------CCcHHHHHHHHHhccCC--------------------CCCEEEEE
Q 038110          158 YEAFESRMSTLNDILGALKN---------------PDTTLAKEVAWKAENDK--------------------LFDQAVFA  202 (667)
Q Consensus       158 ~~~~~gr~~~~~~i~~~l~~---------------~~TtLa~~vy~~~~~~~--------------------~F~~~~wv  202 (667)
                      ...++|.++.++.+..++..               ||||+|+.+.+......                    +|+ ...+
T Consensus        11 ~~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~-~~~~   89 (239)
T d1njfa_          11 FADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVD-LIEI   89 (239)
T ss_dssp             GGGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTT-EEEE
T ss_pred             HHHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCe-EEEe
Confidence            45678888888888887643               35999999877643211                    111 1223


Q ss_pred             EeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCcc--cccccCCCcCCCCCCcEEEEecC
Q 038110          203 EVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWENL--DLLAIGIPHGNDHKGCKILLTAR  280 (667)
Q Consensus       203 ~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~~--~~~~l~~~~~~~~~gs~iivTTr  280 (667)
                      ..+....+.. .+++++.+.....               .+++-++|||++....  .-+.+...+......+++|++|.
T Consensus        90 ~~~~~~~i~~-ir~~~~~~~~~~~---------------~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn  153 (239)
T d1njfa_          90 DAASRTKVED-TRDLLDNVQYAPA---------------RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATT  153 (239)
T ss_dssp             ETTCSSSHHH-HHHHHHSCCCSCS---------------SSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEES
T ss_pred             cchhcCCHHH-HHHHHHHHHhccc---------------cCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcC
Confidence            3222222221 2223332221110               1456688999998752  22334333333445667777776


Q ss_pred             Chh-hhhhccCCcceEecCCCCHHHHHHHHH---------------HHHHHHhCCcc
Q 038110          281 SED-TLSRKMDSKQNFSVGILKEEEAWSGEF---------------KWVAKECAGLP  321 (667)
Q Consensus       281 ~~~-va~~~~~~~~~~~l~~L~~~~s~~Lf~---------------~~i~~~c~GlP  321 (667)
                      +.. +..........+.+.+++.++-.+...               ..|++.++|.+
T Consensus       154 ~~~~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~~~~~~l~~i~~~s~Gd~  210 (239)
T d1njfa_         154 DPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSL  210 (239)
T ss_dssp             CGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHTTTCH
T ss_pred             CccccChhHhhhhcccccccCcHHHhhhHHHHHHhhhccCCCHHHHHHHHHHcCCCH
Confidence            543 322223344689999999998877665               45666677766

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

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: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.09  E-value=0.026  Score=51.50  Aligned_cols=152  Identities=11%  Similarity=0.058  Sum_probs=86.9

Q ss_pred             CcccccchHHHHHHHHHhcCC--------------CCcHHHHHHHHHhccCCCCC-EEEEEEeCCCCCHHHHHHHHHHHh
Q 038110          157 DYEAFESRMSTLNDILGALKN--------------PDTTLAKEVAWKAENDKLFD-QAVFAEVSQSHDIRKIQGEIADKL  221 (667)
Q Consensus       157 ~~~~~~gr~~~~~~i~~~l~~--------------~~TtLa~~vy~~~~~~~~F~-~~~wv~vs~~~~~~~i~~~i~~~l  221 (667)
                      ....++|.++.++.+..|+..              ||||+|+.+.+...... +. ...-+..+...+...+...+....
T Consensus        13 ~~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~-~~~~~~~~n~~~~~~~~~i~~~~~~~~   91 (224)
T d1sxjb2          13 VLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRS-YADGVLELNASDDRGIDVVRNQIKHFA   91 (224)
T ss_dssp             SGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGG-HHHHEEEECTTSCCSHHHHHTHHHHHH
T ss_pred             CHHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhccc-cccccccccccccCCceehhhHHHHHH
Confidence            345677888888999988754              45999999887654221 11 133344444444443333332222


Q ss_pred             CCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCC-hhhhhhccCCcceEecC
Q 038110          222 GLTFHEESESGRASLCNQLKKNKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARS-EDTLSRKMDSKQNFSVG  298 (667)
Q Consensus       222 ~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~-~~va~~~~~~~~~~~l~  298 (667)
                      .......             .++.-++|+|++...  .....+...+.......++++||.+ ..+..........+++.
T Consensus        92 ~~~~~~~-------------~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~~~  158 (224)
T d1sxjb2          92 QKKLHLP-------------PGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYS  158 (224)
T ss_dssp             HBCCCCC-------------TTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECC
T ss_pred             HhhccCC-------------CcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHhhhc
Confidence            1111100             145568889999865  2233333333333445566665554 33332233445689999


Q ss_pred             CCCHHHHHHHHH---------------HHHHHHhCCcch
Q 038110          299 ILKEEEAWSGEF---------------KWVAKECAGLPV  322 (667)
Q Consensus       299 ~L~~~~s~~Lf~---------------~~i~~~c~GlPL  322 (667)
                      +++.++-...+.               ..|++.|+|.+-
T Consensus       159 ~~~~~~i~~~l~~i~~~e~~~i~~~~l~~I~~~s~Gd~R  197 (224)
T d1sxjb2         159 KLSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEGDMR  197 (224)
T ss_dssp             CCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTCHH
T ss_pred             ccchhhhHHHHHHHHHhcccCCCHHHHHHHHHHcCCcHH
Confidence            999999887765               567777777653

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

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: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.00  E-value=0.03  Score=51.15  Aligned_cols=139  Identities=12%  Similarity=0.034  Sum_probs=76.1

Q ss_pred             cccccchHHHHHHHHHhcCC--------------CCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCC
Q 038110          158 YEAFESRMSTLNDILGALKN--------------PDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGL  223 (667)
Q Consensus       158 ~~~~~gr~~~~~~i~~~l~~--------------~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~  223 (667)
                      ...++|.++.++.+.+|+..              ||||+|+.+.+............-...+...+.......+......
T Consensus        13 ~~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~   92 (227)
T d1sxjc2          13 LDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDFAST   92 (227)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHHHHHHB
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecchhhcccc
Confidence            45688999999999888743              4599999998875422111112222333333332222111111100


Q ss_pred             CCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCcc--cccccCCCcCCCCCCcEEEEecCChh-hhhhccCCcceEecCCC
Q 038110          224 TFHEESESGRASLCNQLKKNKTILMILDNIWENL--DLLAIGIPHGNDHKGCKILLTARSED-TLSRKMDSKQNFSVGIL  300 (667)
Q Consensus       224 ~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~~--~~~~l~~~~~~~~~gs~iivTTr~~~-va~~~~~~~~~~~l~~L  300 (667)
                      ..              +..+++-.||+|++....  .-..+...+......++++++|.... +..........+++.++
T Consensus        93 ~~--------------~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~~  158 (227)
T d1sxjc2          93 RQ--------------IFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPL  158 (227)
T ss_dssp             CC--------------SSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             cc--------------ccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhccccc
Confidence            00              011344588899997652  22333333434455677777776543 32222344568899999


Q ss_pred             CHHHHHHHHH
Q 038110          301 KEEEAWSGEF  310 (667)
Q Consensus       301 ~~~~s~~Lf~  310 (667)
                      +.++-...+.
T Consensus       159 ~~~~i~~~l~  168 (227)
T d1sxjc2         159 PQEAIERRIA  168 (227)
T ss_dssp             CHHHHHHHHH
T ss_pred             cccccccccc
Confidence            9998777664

>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=94.32  E-value=0.017  Score=50.23  Aligned_cols=85  Identities=11%  Similarity=0.025  Sum_probs=44.5

Q ss_pred             CCCccEEEccCCC-Ccc---ccccHHHHhCCCCCcEEEcCCCCCc-----cCCccccCCCcccEEecCC-c-----cccc
Q 038110          471 CPQLKLFSMPAEK-NSF---FAIPHNLFRSMLQVRVLDLTDMNLL-----SLPSSIGLLTNLHTLCLYG-G-----VGVV  535 (667)
Q Consensus       471 ~~~Lr~L~l~~~~-~~~---~~lp~~~~~~l~~Lr~L~L~~~~i~-----~lP~si~~L~~L~~L~L~~-~-----l~~L  535 (667)
                      .++|+.|.++++. ...   ..+-.. +...++|++|+|++|.+.     .+...+...+.|+.|+|++ .     ...|
T Consensus        14 ~~~L~~L~L~~~~~i~~~~~~~l~~~-L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l   92 (167)
T d1pgva_          14 DTDLKEVNINNMKRVSKERIRSLIEA-ACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARL   92 (167)
T ss_dssp             CSSCCEEECTTCCSSCHHHHHHHHHH-HTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHH
T ss_pred             CCCCcEEEeCCCCCCCHHHHHHHHHH-HhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHH
Confidence            4566666666532 210   011122 356666777777777654     1223344455666666666 1     2222


Q ss_pred             CCCCccChhhhcCCCCCCeEEeecCCCC
Q 038110          536 DGVKNASLEELKHFPNLTSLELEVNDAN  563 (667)
Q Consensus       536 P~~~~~~~~~l~~L~~L~~L~l~~~~l~  563 (667)
                      -       ..+..-++|++|++++|.+.
T Consensus        93 ~-------~aL~~n~sL~~L~l~~n~~~  113 (167)
T d1pgva_          93 L-------RSTLVTQSIVEFKADNQRQS  113 (167)
T ss_dssp             H-------HHTTTTCCCSEEECCCCSSC
T ss_pred             H-------HHHHhCCcCCEEECCCCcCC
Confidence            2       44555666777777666543

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

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: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=94.27  E-value=0.23  Score=45.83  Aligned_cols=151  Identities=13%  Similarity=0.183  Sum_probs=91.2

Q ss_pred             ccccchHHHHHHHHHhcC--------------------CCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHH
Q 038110          159 EAFESRMSTLNDILGALK--------------------NPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIA  218 (667)
Q Consensus       159 ~~~~gr~~~~~~i~~~l~--------------------~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~  218 (667)
                      ..++||+.+++.|.++|.                    .||||+|+.+.+...-...| ..+|+..........+...+.
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~   94 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTA-RFVYINGFIYRNFTAIIGEIA   94 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCC-EEEEEETTTCCSHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCC-cEEEecchhhhhhhhhhhhhH
Confidence            347899999999998873                    14699999999987632222 356777777888889999999


Q ss_pred             HHhCCCCCCCC--hhHHHH-HHHHHh-cCCeEEEEEeCCCCcc-----cccccCCCcCCC-CCCcEEEEecCChhhhhhc
Q 038110          219 DKLGLTFHEES--ESGRAS-LCNQLK-KNKTILMILDNIWENL-----DLLAIGIPHGND-HKGCKILLTARSEDTLSRK  288 (667)
Q Consensus       219 ~~l~~~~~~~~--~~~~~~-l~~~L~-~~kr~LlVLDdvw~~~-----~~~~l~~~~~~~-~~gs~iivTTr~~~va~~~  288 (667)
                      ...+.......  ...... +.+.+. ......+++|+++...     ....+....... .....+|.+|.........
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  174 (276)
T d1fnna2          95 RSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNL  174 (276)
T ss_dssp             HHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTS
T ss_pred             HhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhhhhc
Confidence            88776543322  222222 444332 2456888888887652     112222222111 2223445555543322110


Q ss_pred             ------cCCcceEecCCCCHHHHHHHHH
Q 038110          289 ------MDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       289 ------~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                            ......+.+.+.+.++.++++.
T Consensus       175 ~~~~~~r~~~~~i~~~~~~~~e~~~il~  202 (276)
T d1fnna2         175 DPSTRGIMGKYVIRFSPYTKDQIFDILL  202 (276)
T ss_dssp             CHHHHHHHTTCEEECCCCBHHHHHHHHH
T ss_pred             chhhhhhhcchhccccchhHHHHHHHHH
Confidence                  0112457899999999999876

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

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: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=93.77  E-value=0.03  Score=51.27  Aligned_cols=138  Identities=11%  Similarity=0.045  Sum_probs=72.2

Q ss_pred             cccccchHHHHHHHHHhcCC--------------CCcHHHHHHHHHhccCCCCCE-EEEEEeCCCCCHHHHHHHHHHHhC
Q 038110          158 YEAFESRMSTLNDILGALKN--------------PDTTLAKEVAWKAENDKLFDQ-AVFAEVSQSHDIRKIQGEIADKLG  222 (667)
Q Consensus       158 ~~~~~gr~~~~~~i~~~l~~--------------~~TtLa~~vy~~~~~~~~F~~-~~wv~vs~~~~~~~i~~~i~~~l~  222 (667)
                      ...++|.++.++++..|+..              ||||+|+.+.+.... +.++. .+-+..+...+...+...+.....
T Consensus        23 ~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~~-~~~~~~~~e~n~s~~~~~~~~~~~~~~~~~  101 (231)
T d1iqpa2          23 LDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFG-ENWRHNFLELNASDERGINVIREKVKEFAR  101 (231)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHG-GGHHHHEEEEETTCHHHHHTTHHHHHHHHH
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHHh-cccCCCeeEEecCcccchhHHHHHHHHHHh
Confidence            44577989999999988743              569999999876432 11211 222233321111111111111100


Q ss_pred             CCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCC-hhhhhhccCCcceEecCC
Q 038110          223 LTFHEESESGRASLCNQLKKNKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARS-EDTLSRKMDSKQNFSVGI  299 (667)
Q Consensus       223 ~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~-~~va~~~~~~~~~~~l~~  299 (667)
                      ..              .....+..++++||+...  ..+..+...+........+|.||.. ..+..........+.+.+
T Consensus       102 ~~--------------~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i~~~~  167 (231)
T d1iqpa2         102 TK--------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRP  167 (231)
T ss_dssp             SC--------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCC
T ss_pred             hh--------------hccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccccccccc
Confidence            00              011256788999998764  3344443333223333455555544 333322223346899999


Q ss_pred             CCHHHHHHHHH
Q 038110          300 LKEEEAWSGEF  310 (667)
Q Consensus       300 L~~~~s~~Lf~  310 (667)
                      .+.++....+.
T Consensus       168 ~~~~~~~~~l~  178 (231)
T d1iqpa2         168 LRDEDIAKRLR  178 (231)
T ss_dssp             CCHHHHHHHHH
T ss_pred             cchhhHHHHHH
Confidence            99988877765

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

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: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=92.91  E-value=0.22  Score=44.40  Aligned_cols=81  Identities=11%  Similarity=-0.066  Sum_probs=56.5

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCChh-hhhhccCCcceEecCCCCHHHHHHHHH---------
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSED-TLSRKMDSKQNFSVGILKEEEAWSGEF---------  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~~-va~~~~~~~~~~~l~~L~~~~s~~Lf~---------  310 (667)
                      +++-++|+||+...  .....+...+-....+.++|.||++.+ +..........+.+.+++.++....+.         
T Consensus       107 ~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc~~i~~~~~~~~~~~~~L~~~~~~~~~~  186 (207)
T d1a5ta2         107 GGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWLSREVTMSQDA  186 (207)
T ss_dssp             SSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHCCCCHHH
T ss_pred             CccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcceeEEEecCCCCHHHHHHHHHHcCCCCHHH
Confidence            56679999999875  345555555545556778787777754 433333445689999999999988777         


Q ss_pred             -HHHHHHhCCcchH
Q 038110          311 -KWVAKECAGLPVS  323 (667)
Q Consensus       311 -~~i~~~c~GlPLa  323 (667)
                       ..|++.++|.|-.
T Consensus       187 ~~~i~~~s~Gs~r~  200 (207)
T d1a5ta2         187 LLAALRLSAGSPGA  200 (207)
T ss_dssp             HHHHHHHTTTCHHH
T ss_pred             HHHHHHHcCCCHHH
Confidence             6677777777643

>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=92.57  E-value=0.029  Score=48.63  Aligned_cols=111  Identities=12%  Similarity=0.082  Sum_probs=70.8

Q ss_pred             ccceeEEEEecc-Cccc-----cC-CCCCCCCccEEEccCCCCcc---ccccHHHHhCCCCCcEEEcCCCCCcc-----C
Q 038110          449 VRHCTSIVILDV-KTYV-----LP-EVMECPQLKLFSMPAEKNSF---FAIPHNLFRSMLQVRVLDLTDMNLLS-----L  513 (667)
Q Consensus       449 ~~~lr~L~l~~~-~~~~-----l~-~~~~~~~Lr~L~l~~~~~~~---~~lp~~~~~~l~~Lr~L~L~~~~i~~-----l  513 (667)
                      .++++.|+++++ .++.     +. .....++|++|.+++|....   ..+... +...+.|+.|+|++|.+..     +
T Consensus        14 ~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~-L~~n~~L~~L~L~~n~i~~~g~~~l   92 (167)
T d1pgva_          14 DTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIEL-IETSPSLRVLNVESNFLTPELLARL   92 (167)
T ss_dssp             CSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHH-HHHCSSCCEEECCSSBCCHHHHHHH
T ss_pred             CCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhh-hhhcccccceeeehhhcchHHHHHH
Confidence            367899999864 3421     11 11256889999999987631   223333 4788999999999998873     3


Q ss_pred             CccccCCCcccEEecCC-cccccCCC-CccChhhhcCCCCCCeEEeecC
Q 038110          514 PSSIGLLTNLHTLCLYG-GVGVVDGV-KNASLEELKHFPNLTSLELEVN  560 (667)
Q Consensus       514 P~si~~L~~L~~L~L~~-~l~~LP~~-~~~~~~~l~~L~~L~~L~l~~~  560 (667)
                      -..+..-+.|++|++++ .+..+... .......+..-++|+.|+++.+
T Consensus        93 ~~aL~~n~sL~~L~l~~n~~~~~g~~~~~~l~~~L~~n~sL~~l~l~~~  141 (167)
T d1pgva_          93 LRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFA  141 (167)
T ss_dssp             HHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             HHHHHhCCcCCEEECCCCcCCCccHHHHHHHHHHHHhCCCccEeeCcCC
Confidence            44567778899999986 22222100 0001155566788888888654

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

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: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.37  E-value=0.22  Score=45.73  Aligned_cols=144  Identities=9%  Similarity=-0.003  Sum_probs=73.3

Q ss_pred             cccccchHHHHHHHHHhcC-------------------------------CCCcHHHHHHHHHhccCCCCCEEEEEEeCC
Q 038110          158 YEAFESRMSTLNDILGALK-------------------------------NPDTTLAKEVAWKAENDKLFDQAVFAEVSQ  206 (667)
Q Consensus       158 ~~~~~gr~~~~~~i~~~l~-------------------------------~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~  206 (667)
                      ...++|.+..+++|.+|+.                               .||||+|+.+.+...    + ...++..+.
T Consensus        13 ~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~----~-~~~~~~~~~   87 (253)
T d1sxja2          13 LQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG----Y-DILEQNASD   87 (253)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT----C-EEEEECTTS
T ss_pred             HHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHH----h-hhhcccccc
Confidence            4567788888888887652                               245999999998655    2 245666665


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCccc-----ccccCCCcCCCCCCcEEEEecCC
Q 038110          207 SHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWENLD-----LLAIGIPHGNDHKGCKILLTARS  281 (667)
Q Consensus       207 ~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~~~-----~~~l~~~~~~~~~gs~iivTTr~  281 (667)
                      ..+...+-. .++..................... .++..++++|++.....     +..+.....  .....|++|+..
T Consensus        88 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~--~~~~~ii~i~~~  163 (253)
T d1sxja2          88 VRSKTLLNA-GVKNALDNMSVVGYFKHNEEAQNL-NGKHFVIIMDEVDGMSGGDRGGVGQLAQFCR--KTSTPLILICNE  163 (253)
T ss_dssp             CCCHHHHHH-TGGGGTTBCCSTTTTTC----CCS-STTSEEEEECSGGGCCTTSTTHHHHHHHHHH--HCSSCEEEEESC
T ss_pred             chhhHHHHH-HHHHHhhcchhhhhhhhhhhcccc-cccceEEEeeeccccccchhhhhHHHhhhhc--cccccccccccc
Confidence            544443322 222222111100000000001111 26778999999875421     222211111  112234444333


Q ss_pred             hh--hhhhccCCcceEecCCCCHHHHHHHHH
Q 038110          282 ED--TLSRKMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       282 ~~--va~~~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      ..  ...........+++.+++.++-...+.
T Consensus       164 ~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~  194 (253)
T d1sxja2         164 RNLPKMRPFDRVCLDIQFRRPDANSIKSRLM  194 (253)
T ss_dssp             TTSSTTGGGTTTSEEEECCCCCHHHHHHHHH
T ss_pred             ccccccccccceeeeeeccccchhHHHHHHH
Confidence            22  212223344689999999988777655

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

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: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.98  E-value=0.74  Score=41.82  Aligned_cols=68  Identities=7%  Similarity=-0.047  Sum_probs=41.1

Q ss_pred             CCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCChh-hhhhccCCcceEecCCCCHHHHHHHHH
Q 038110          243 NKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSED-TLSRKMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       243 ~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~~-va~~~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      ++.-++|+|++...  ..+..+...+......+++|+||.+.+ +..........+++.+++.++..+.+.
T Consensus       130 ~~~~iiiide~d~l~~~~~~~l~~~~e~~~~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~  200 (252)
T d1sxje2         130 HRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILS  200 (252)
T ss_dssp             -CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHH
T ss_pred             CCceEEEeccccccccccchhhhcccccccccccceeeeccccchhhhhhcchheeeecccchhhHHHHHH
Confidence            34458899999774  334444333433345567777776543 211111223578999999999888775

>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=90.68  E-value=0.049  Score=46.97  Aligned_cols=57  Identities=16%  Similarity=0.241  Sum_probs=30.1

Q ss_pred             hCCCCCcEEEcCCCCCcc-----CCccccCCCcccEEecCC------cccccCCCCccChhhhcCCCCCCeEEee
Q 038110          495 RSMLQVRVLDLTDMNLLS-----LPSSIGLLTNLHTLCLYG------GVGVVDGVKNASLEELKHFPNLTSLELE  558 (667)
Q Consensus       495 ~~l~~Lr~L~L~~~~i~~-----lP~si~~L~~L~~L~L~~------~l~~LP~~~~~~~~~l~~L~~L~~L~l~  558 (667)
                      ...++|+.|+|++|.+..     +-+.+....+|+.|++++      .+..+-       ..+...++|+.++|+
T Consensus        43 ~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~l~-------~~l~~~~~L~~l~L~  110 (166)
T d1io0a_          43 KTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILALV-------EALQSNTSLIELRID  110 (166)
T ss_dssp             TTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHHH-------HGGGGCSSCCEEECC
T ss_pred             hcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHHHH-------HHHHhCccccEEeec
Confidence            455666666666665541     223344455666666655      222233       445556666665554

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

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: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.66  E-value=0.12  Score=47.05  Aligned_cols=149  Identities=12%  Similarity=0.040  Sum_probs=77.2

Q ss_pred             cccccchHHHHHHHHHhcCC--------------CCcHHHHHHHHHhccCC-CCCEEEEEEeCCCCCHHHHHHHHHHHhC
Q 038110          158 YEAFESRMSTLNDILGALKN--------------PDTTLAKEVAWKAENDK-LFDQAVFAEVSQSHDIRKIQGEIADKLG  222 (667)
Q Consensus       158 ~~~~~gr~~~~~~i~~~l~~--------------~~TtLa~~vy~~~~~~~-~F~~~~wv~vs~~~~~~~i~~~i~~~l~  222 (667)
                      ...++|.++.++.+..|+..              ||||+|+.+.+...... .......+..+.......+...+-....
T Consensus        11 ~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (237)
T d1sxjd2          11 LDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFAR   90 (237)
T ss_dssp             TTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHHHH
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHHHhh
Confidence            34567888888888888754              45999999987642110 1222344555555555443333322111


Q ss_pred             CCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCc--ccccccCCCcCCCCCCcEEEEecCCh-hhhhhccCCcceEecCC
Q 038110          223 LTFHEESESGRASLCNQLKKNKTILMILDNIWEN--LDLLAIGIPHGNDHKGCKILLTARSE-DTLSRKMDSKQNFSVGI  299 (667)
Q Consensus       223 ~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~--~~~~~l~~~~~~~~~gs~iivTTr~~-~va~~~~~~~~~~~l~~  299 (667)
                      ........   ..+..... +++=.||+|++...  ..+..+...+.......++|+||... .+..........+++.+
T Consensus        91 ~~~~~~~~---~~~~~~~~-~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i~f~~  166 (237)
T d1sxjd2          91 LTVSKPSK---HDLENYPC-PPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKA  166 (237)
T ss_dssp             SCCCCCCT---THHHHSCC-CSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEECCC
T ss_pred             hhhhhhhH---HHHhhccc-cCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhhhhcccc
Confidence            11111000   00122222 34447899998764  33333332222233455666665543 33221222235789999


Q ss_pred             CCHHHHHHHHH
Q 038110          300 LKEEEAWSGEF  310 (667)
Q Consensus       300 L~~~~s~~Lf~  310 (667)
                      ++.++..+++.
T Consensus       167 ~~~~~~~~~L~  177 (237)
T d1sxjd2         167 LDASNAIDRLR  177 (237)
T ss_dssp             CCHHHHHHHHH
T ss_pred             ccccccchhhh
Confidence            99999888775

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

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: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=90.57  E-value=0.51  Score=43.16  Aligned_cols=35  Identities=6%  Similarity=-0.015  Sum_probs=22.9

Q ss_pred             EEecCChhhhhhcc----CCcceEecCCCCHHHHHHHHH
Q 038110          276 LLTARSEDTLSRKM----DSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       276 ivTTr~~~va~~~~----~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      |.||....-.....    .-...+++...+.++-.++|+
T Consensus       151 i~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~  189 (247)
T d1ixza_         151 MAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILR  189 (247)
T ss_dssp             EEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHH
T ss_pred             EEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHH
Confidence            33776644332122    234589999999999988887

>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=90.15  E-value=0.073  Score=45.78  Aligned_cols=59  Identities=17%  Similarity=0.196  Sum_probs=28.5

Q ss_pred             CCCCccEEEccCCCCcc---ccccHHHHhCCCCCcEEEcCCCCCc-----cCCccccCCCcccEEecC
Q 038110          470 ECPQLKLFSMPAEKNSF---FAIPHNLFRSMLQVRVLDLTDMNLL-----SLPSSIGLLTNLHTLCLY  529 (667)
Q Consensus       470 ~~~~Lr~L~l~~~~~~~---~~lp~~~~~~l~~Lr~L~L~~~~i~-----~lP~si~~L~~L~~L~L~  529 (667)
                      ..++|+.|++++|...-   ..+-.. +...+.|+.|+++++.+.     .+-..+...++|+.++|.
T Consensus        44 ~n~~L~~L~Ls~n~l~~~~~~~L~~~-l~~~~~l~~l~l~~~~~~~~g~~~l~~~l~~~~~L~~l~L~  110 (166)
T d1io0a_          44 TNTYVKKFSIVGTRSNDPVAFALAEM-LKVNNTLKSLNVESNFISGSGILALVEALQSNTSLIELRID  110 (166)
T ss_dssp             TCCSCCEEECTTSCCCHHHHHHHHHH-HHHCSSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECC
T ss_pred             cCCccCeeeccCCcccHHHHHHHHHH-HhhcccchhhhhccccccchhHHHHHHHHHhCccccEEeec
Confidence            44556666666654320   111112 355566666666665543     233445555556554443

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

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: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=89.22  E-value=7.4  Score=35.02  Aligned_cols=152  Identities=15%  Similarity=0.137  Sum_probs=88.6

Q ss_pred             ccccchHHHHHHHHHhc-----------------------CCCCcHHHHHHHHHhcc----CCCCCEEEEEEeCCCCCHH
Q 038110          159 EAFESRMSTLNDILGAL-----------------------KNPDTTLAKEVAWKAEN----DKLFDQAVFAEVSQSHDIR  211 (667)
Q Consensus       159 ~~~~gr~~~~~~i~~~l-----------------------~~~~TtLa~~vy~~~~~----~~~F~~~~wv~vs~~~~~~  211 (667)
                      ..+.||+.++++|.+++                       +.||||+|+.+.+....    ........++.........
T Consensus        16 ~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   95 (287)
T d1w5sa2          16 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLY   95 (287)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchh
Confidence            45779999999988754                       12569999999987431    1222457778877777888


Q ss_pred             HHHHHHHHHhCCCCCCC--ChhHHHH-HHHHHh-cCCeEEEEEeCCCCccc-----------ccccC---CCcCCCCCCc
Q 038110          212 KIQGEIADKLGLTFHEE--SESGRAS-LCNQLK-KNKTILMILDNIWENLD-----------LLAIG---IPHGNDHKGC  273 (667)
Q Consensus       212 ~i~~~i~~~l~~~~~~~--~~~~~~~-l~~~L~-~~kr~LlVLDdvw~~~~-----------~~~l~---~~~~~~~~gs  273 (667)
                      .....+...+.......  ....... +.+... .+...++++|.+.....           +..+.   .+......-.
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~  175 (287)
T d1w5sa2          96 TILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIG  175 (287)
T ss_dssp             HHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBEE
T ss_pred             hHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhccccee
Confidence            88888888877654322  2222222 433332 25678888887764311           11111   1111122233


Q ss_pred             EEEEecCChhhh-------hhccCCcceEecCCCCHHHHHHHHH
Q 038110          274 KILLTARSEDTL-------SRKMDSKQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       274 ~iivTTr~~~va-------~~~~~~~~~~~l~~L~~~~s~~Lf~  310 (667)
                      .|++++......       .........+.+++.+.++..+++.
T Consensus       176 ~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~  219 (287)
T d1w5sa2         176 FLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILE  219 (287)
T ss_dssp             EEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHH
T ss_pred             EEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHh
Confidence            444454443221       1111224578899999999999887

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

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: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=86.96  E-value=5.2  Score=36.45  Aligned_cols=130  Identities=15%  Similarity=0.215  Sum_probs=78.3

Q ss_pred             ccccchHHHHHHHHHhcCC--------------CCcHHHHHHHHHhcc---C-CCCCEEEEE-EeCC-------CCCHHH
Q 038110          159 EAFESRMSTLNDILGALKN--------------PDTTLAKEVAWKAEN---D-KLFDQAVFA-EVSQ-------SHDIRK  212 (667)
Q Consensus       159 ~~~~gr~~~~~~i~~~l~~--------------~~TtLa~~vy~~~~~---~-~~F~~~~wv-~vs~-------~~~~~~  212 (667)
                      ..++||++++++++..|..              |||+++..+.....-   . .....++|. +++.       .-....
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~e~   97 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEK   97 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHHH
T ss_pred             CcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhHHH
Confidence            3577999999999999963              459888887765321   1 123446664 2211       112333


Q ss_pred             HHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCCcc----------cccc-cCCCcCCCCCCcEEEEecCC
Q 038110          213 IQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWENL----------DLLA-IGIPHGNDHKGCKILLTARS  281 (667)
Q Consensus       213 i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~~~----------~~~~-l~~~~~~~~~gs~iivTTr~  281 (667)
                      .++.                   +.+.+...+..++++|++..-.          +... ++..+.  ...=++|.||..
T Consensus        98 r~~~-------------------i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~--rg~i~vIgatT~  156 (268)
T d1r6bx2          98 RFKA-------------------LLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTY  156 (268)
T ss_dssp             HHHH-------------------HHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEECH
T ss_pred             HHHH-------------------HHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh--CCCCeEEEeCCH
Confidence            3333                   3444433567999999987641          1222 233332  223478888887


Q ss_pred             hhhhhhccCC-------cceEecCCCCHHHHHHHHH
Q 038110          282 EDTLSRKMDS-------KQNFSVGILKEEEAWSGEF  310 (667)
Q Consensus       282 ~~va~~~~~~-------~~~~~l~~L~~~~s~~Lf~  310 (667)
                      +.... ....       -..+.+.+++.+++..++.
T Consensus       157 eey~~-~~e~d~al~rrF~~I~V~Eps~e~t~~IL~  191 (268)
T d1r6bx2         157 QEFSN-IFEKDRALARRFQKIDITEPSIEETVQIIN  191 (268)
T ss_dssp             HHHHC-CCCCTTSSGGGEEEEECCCCCHHHHHHHHH
T ss_pred             HHHHH-HHhhcHHHHhhhcccccCCCCHHHHHHHHH
Confidence            77642 1111       2488999999999999875

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

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: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=86.71  E-value=0.48  Score=42.28  Aligned_cols=150  Identities=12%  Similarity=0.053  Sum_probs=86.4

Q ss_pred             CCCCcHHHHHHHHHhccCCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChhHHHHHHHHHhcCCeEEEEEeCCCC
Q 038110          176 KNPDTTLAKEVAWKAENDKLFDQAVFAEVSQSHDIRKIQGEIADKLGLTFHEESESGRASLCNQLKKNKTILMILDNIWE  255 (667)
Q Consensus       176 ~~~~TtLa~~vy~~~~~~~~F~~~~wv~vs~~~~~~~i~~~i~~~l~~~~~~~~~~~~~~l~~~L~~~kr~LlVLDdvw~  255 (667)
                      +.|||.|++++++....+  ....++++      ..++...+.+.+....       .....+.++ + -=+|+|||+..
T Consensus        46 G~GKTHLl~A~~~~~~~~--~~~~~~~~------~~~~~~~~~~~~~~~~-------~~~~~~~~~-~-~dll~iDDi~~  108 (213)
T d1l8qa2          46 GTGKTHLLQAAGNEAKKR--GYRVIYSS------ADDFAQAMVEHLKKGT-------INEFRNMYK-S-VDLLLLDDVQF  108 (213)
T ss_dssp             SSSHHHHHHHHHHHHHHT--TCCEEEEE------HHHHHHHHHHHHHHTC-------HHHHHHHHH-T-CSEEEEECGGG
T ss_pred             CCcHHHHHHHHHHHhccC--ccceEEec------hHHHHHHHHHHHHccc-------hhhHHHHHh-h-ccchhhhhhhh
Confidence            347899999999987733  44556664      4455566655543211       112555565 3 47899999975


Q ss_pred             c---cccccc-CCCcCC-CCCCcEEEEecCChhhhhh--------ccCCcceEecCCCCHHHHHHHHHHHHHHHhCCcch
Q 038110          256 N---LDLLAI-GIPHGN-DHKGCKILLTARSEDTLSR--------KMDSKQNFSVGILKEEEAWSGEFKWVAKECAGLPV  322 (667)
Q Consensus       256 ~---~~~~~l-~~~~~~-~~~gs~iivTTr~~~va~~--------~~~~~~~~~l~~L~~~~s~~Lf~~~i~~~c~GlPL  322 (667)
                      .   ..|+.. ..-+.. ...|..||+|++.....-.        ......++.++ +++++-.+++++. ++ -.|+.+
T Consensus       109 i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~-a~-~rgl~l  185 (213)
T d1l8qa2         109 LSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE-LDNKTRFKIIKEK-LK-EFNLEL  185 (213)
T ss_dssp             GTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC-CCHHHHHHHHHHH-HH-HTTCCC
T ss_pred             hcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCceEEEEC-CCcHHHHHHHHHH-HH-HcCCCC
Confidence            4   345432 111111 2357789999987543210        12334578886 5666555655433 32 357888


Q ss_pred             HHHHHHHHHcc-CChHHHHHHHHH
Q 038110          323 SIVTVSRALRN-KSLFEWKDALQQ  345 (667)
Q Consensus       323 ai~~~g~~L~~-k~~~~W~~~l~~  345 (667)
                      .-.++--+++. .+..+-+.+++.
T Consensus       186 ~~~v~~yl~~~~~~~R~L~~~l~~  209 (213)
T d1l8qa2         186 RKEVIDYLLENTKNVREIEGKIKL  209 (213)
T ss_dssp             CHHHHHHHHHHCSSHHHHHHHHHH
T ss_pred             CHHHHHHHHHhcCcHHHHHHHHHH
Confidence            77777777653 244555555544

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

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: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=85.89  E-value=3.1  Score=40.32  Aligned_cols=147  Identities=10%  Similarity=0.053  Sum_probs=74.3

Q ss_pred             ccccchHHHHHHHHHhcCC--------------CCcHHHHHHH----HHhccCCCCCEEEEE-EeCCCCCHHHHHHHHHH
Q 038110          159 EAFESRMSTLNDILGALKN--------------PDTTLAKEVA----WKAENDKLFDQAVFA-EVSQSHDIRKIQGEIAD  219 (667)
Q Consensus       159 ~~~~gr~~~~~~i~~~l~~--------------~~TtLa~~vy----~~~~~~~~F~~~~wv-~vs~~~~~~~i~~~i~~  219 (667)
                      ..++||++++++++..|..              |||+++..+.    +........+.++|. +++.      ++     
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~------l~-----   90 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGS------LL-----   90 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------------
T ss_pred             CCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhh------hh-----
Confidence            3467999999999999853              4588765444    433223345666665 3222      11     


Q ss_pred             HhCCCCCCCChhHHHH-HHHHHhc-CCeEEEEEeCCCCccc---------c-cccCCCcCCCCCCcEEEEecCChhhhhh
Q 038110          220 KLGLTFHEESESGRAS-LCNQLKK-NKTILMILDNIWENLD---------L-LAIGIPHGNDHKGCKILLTARSEDTLSR  287 (667)
Q Consensus       220 ~l~~~~~~~~~~~~~~-l~~~L~~-~kr~LlVLDdvw~~~~---------~-~~l~~~~~~~~~gs~iivTTr~~~va~~  287 (667)
                        .+......-..... +...+.. ...++|++|++.....         . +-++..+..  ..=++|.||-.+.....
T Consensus        91 --ag~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~r--g~~~~I~~tT~~ey~~~  166 (387)
T d1qvra2          91 --AGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR--GELRLIGATTLDEYREI  166 (387)
T ss_dssp             ---------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHT--TCCCEEEEECHHHHHHH
T ss_pred             --cccCcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhC--CCcceeeecCHHHHHHh
Confidence              00000111112222 3333322 3469999999976511         1 111122211  12367776666655321


Q ss_pred             c-----cCCcceEecCCCCHHHHHHHHH--HHHHHHhCCc
Q 038110          288 K-----MDSKQNFSVGILKEEEAWSGEF--KWVAKECAGL  320 (667)
Q Consensus       288 ~-----~~~~~~~~l~~L~~~~s~~Lf~--~~i~~~c~Gl  320 (667)
                      .     ...-..+.+.+.+.+++..++.  +.-.+...|+
T Consensus       167 e~d~al~rrF~~v~v~ep~~~~~~~il~~~~~~~e~~h~v  206 (387)
T d1qvra2         167 EKDPALERRFQPVYVDEPTVEETISILRGLKEKYEVHHGV  206 (387)
T ss_dssp             TTCTTTCSCCCCEEECCCCHHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccHHHHHhcccccCCCCcHHHHHHHHHHHHHHHHhccCC
Confidence            1     1122589999999999999988  4444444444

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

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: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=83.54  E-value=3.4  Score=37.54  Aligned_cols=86  Identities=15%  Similarity=0.190  Sum_probs=48.6

Q ss_pred             HHHHHhcCCeEEEEEeCCCCc------------cc----ccccCCCcC--CCCCCcEEEEecCChhhhhhcc----CCcc
Q 038110          236 LCNQLKKNKTILMILDNIWEN------------LD----LLAIGIPHG--NDHKGCKILLTARSEDTLSRKM----DSKQ  293 (667)
Q Consensus       236 l~~~L~~~kr~LlVLDdvw~~------------~~----~~~l~~~~~--~~~~gs~iivTTr~~~va~~~~----~~~~  293 (667)
                      +.+..+....++|++||+..-            ..    ...+...+.  ....+--||.||....-.....    .-..
T Consensus        96 ~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~ld~al~R~gRfd~  175 (256)
T d1lv7a_          96 MFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDR  175 (256)
T ss_dssp             HHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGGGGSTTSSCE
T ss_pred             HHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCcccCCHhHcCCCCCCE
Confidence            444444466789999999531            00    111111111  1223334555787654432111    2346


Q ss_pred             eEecCCCCHHHHHHHHH--------------HHHHHHhCCcc
Q 038110          294 NFSVGILKEEEAWSGEF--------------KWVAKECAGLP  321 (667)
Q Consensus       294 ~~~l~~L~~~~s~~Lf~--------------~~i~~~c~GlP  321 (667)
                      .+.+...+.++-.++|.              ..+++++.|..
T Consensus       176 ~i~i~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~~t~G~s  217 (256)
T d1lv7a_         176 QVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFS  217 (256)
T ss_dssp             EEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCC
T ss_pred             EEECCCcCHHHHHHHHHHhccCCCcCcccCHHHHHHhCCCCC
Confidence            89999999988888887              66666666654

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

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: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.16  E-value=1.7  Score=39.84  Aligned_cols=68  Identities=12%  Similarity=0.060  Sum_probs=39.2

Q ss_pred             CCeEEEEEeCCCCcc--------c--------ccccCCCcCC--CCCCcEEEEecCChhhhhhcc----CCcceEecCCC
Q 038110          243 NKTILMILDNIWENL--------D--------LLAIGIPHGN--DHKGCKILLTARSEDTLSRKM----DSKQNFSVGIL  300 (667)
Q Consensus       243 ~kr~LlVLDdvw~~~--------~--------~~~l~~~~~~--~~~gs~iivTTr~~~va~~~~----~~~~~~~l~~L  300 (667)
                      ....+|++||+....        .        ...+...+..  ...+--||.||...+-.....    .-...++++..
T Consensus        99 ~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p  178 (265)
T d1r7ra3          99 AAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLP  178 (265)
T ss_dssp             TCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCC
T ss_pred             cCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCCHHHhCCCCccEEEEecch
Confidence            667999999996431        1        1112222211  123345666877665331111    23468999999


Q ss_pred             CHHHHHHHHH
Q 038110          301 KEEEAWSGEF  310 (667)
Q Consensus       301 ~~~~s~~Lf~  310 (667)
                      +.++-.++|.
T Consensus       179 ~~~~R~~il~  188 (265)
T d1r7ra3         179 DEKSRVAILK  188 (265)
T ss_dssp             CCHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999888887

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

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: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.08  E-value=3.3  Score=37.63  Aligned_cols=68  Identities=6%  Similarity=0.051  Sum_probs=40.4

Q ss_pred             CCeEEEEEeCCCCcc---------ccc----ccCCCcC--CCCCCcEEEEecCChhhhhhcc----CCcceEecCCCCHH
Q 038110          243 NKTILMILDNIWENL---------DLL----AIGIPHG--NDHKGCKILLTARSEDTLSRKM----DSKQNFSVGILKEE  303 (667)
Q Consensus       243 ~kr~LlVLDdvw~~~---------~~~----~l~~~~~--~~~~gs~iivTTr~~~va~~~~----~~~~~~~l~~L~~~  303 (667)
                      .+..+|++||+....         ...    .+.....  ....+--||.||....-...+.    .-...++++..+.+
T Consensus        96 ~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~  175 (258)
T d1e32a2          96 NAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT  175 (258)
T ss_dssp             TCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHH
T ss_pred             cCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccEEEeCCCccccchhhhhcccccceeECCCCCHH
Confidence            678999999997641         111    1111111  1223334566887765432112    24468999999999


Q ss_pred             HHHHHHH
Q 038110          304 EAWSGEF  310 (667)
Q Consensus       304 ~s~~Lf~  310 (667)
                      +-..+|.
T Consensus       176 ~R~~il~  182 (258)
T d1e32a2         176 GRLEILQ  182 (258)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhh
Confidence            9888887